Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 84 of 135
Found at i:28439924 original size:29 final size:25
Alignment explanation
Indices: 28439864--28439917 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
28439854 ATGCTCTTGT
*
28439864 TTAAGTCCATTTGCGAAAAAAGCAA
1 TTAAGCCCATTTGCGAAAAAAGCAA
*
28439889 TTAAGCCCATTTGCGAAAAAAGCAC
1 TTAAGCCCATTTGCGAAAAAAGCAA
28439914 TTAA
1 TTAA
28439918 TTAAGCCATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.24
Consensus pattern (25 bp):
TTAAGCCCATTTGCGAAAAAAGCAA
Found at i:28447270 original size:9 final size:9
Alignment explanation
Indices: 28447256--28447288 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
28447246 CATTGGTCCA
28447256 AATTTTTAT
1 AATTTTTAT
28447265 AATTTTTA-
1 AATTTTTAT
28447273 ATATTTTTAT
1 A-ATTTTTAT
28447283 AATTTT
1 AATTTT
28447289 AAATTCAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 1 0.05
9 20 0.91
10 1 0.05
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
AATTTTTAT
Found at i:28447420 original size:15 final size:16
Alignment explanation
Indices: 28447390--28447420 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
28447380 GTATTAAAAT
28447390 TTTTAAAAAATATTTC
1 TTTTAAAAAATATTTC
28447406 TTTTAAAAAAT-TTTC
1 TTTTAAAAAATATTTC
28447421 ACATCAATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTTAAAAAATATTTC
Found at i:28447574 original size:32 final size:33
Alignment explanation
Indices: 28447506--28447580 Score: 107
Period size: 34 Copynumber: 2.3 Consensus size: 33
28447496 CCTAATTGAT
*
28447506 TTTTTTTAGTGATTGAGAGTTTAATAAGATAGAA
1 TTTTTTTAATGATTGAGAGTTTAATAAGATA-AA
* *
28447540 TTTTTTTAATGATTGAGGGTTTGATAAGAT-AA
1 TTTTTTTAATGATTGAGAGTTTAATAAGATAAA
28447572 TTTTTTTAA
1 TTTTTTTAA
28447581 GAACTTAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
32 11 0.29
34 27 0.71
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.49
Consensus pattern (33 bp):
TTTTTTTAATGATTGAGAGTTTAATAAGATAAA
Found at i:28448117 original size:18 final size:18
Alignment explanation
Indices: 28448079--28448126 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
28448069 TAATATTAAG
*
28448079 ATTAATATAT-AAAAATT
1 ATTAATAAATAAAAAATT
28448096 -TTAATAAATAAAAAATT
1 ATTAATAAATAAAAAATT
28448113 ATTAA-ATAATAAAA
1 ATTAATA-AATAAAA
28448127 TAAAATATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 8 0.30
17 8 0.30
18 11 0.41
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
ATTAATAAATAAAAAATT
Found at i:28448123 original size:22 final size:22
Alignment explanation
Indices: 28448097--28448142 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
28448087 ATAAAAATTT
28448097 TAAT-AAATAAAAAATTATTAAA
1 TAATAAAATAAAAAATT-TTAAA
*
28448119 TAATAAAATAAAATATTTTAAA
1 TAATAAAATAAAAAATTTTAAA
28448141 TA
1 TA
28448143 TTTTTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
TAATAAAATAAAAAATTTTAAA
Found at i:28451151 original size:16 final size:16
Alignment explanation
Indices: 28451130--28451162 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
28451120 TTATGATTTT
*
28451130 AATGTTAAAGGACTAA
1 AATGTTAAAGGAATAA
28451146 AATGTTAAAGGAATAA
1 AATGTTAAAGGAATAA
28451162 A
1 A
28451163 TTTGTATGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.03, G:0.18, T:0.24
Consensus pattern (16 bp):
AATGTTAAAGGAATAA
Found at i:28452161 original size:52 final size:52
Alignment explanation
Indices: 28452096--28452342 Score: 388
Period size: 52 Copynumber: 4.8 Consensus size: 52
28452086 AATGATGAAT
*
28452096 GGATTTTGAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTAC
1 GGATTATGAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTAC
* *
28452148 GGATTATAAGGTCCAATGACTATGT-TGCATCGTGAGTATATGAATCCTTTAC
1 GGATTATGAGGTCCGATGACTATGTGT-CATCGTGAGTATATGAATCCTTTAC
* *
28452200 GGATTATGAGGTCTGATGACTATGTGTCATCATGAGTATATGAATCCTTTAC
1 GGATTATGAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTAC
* * * *
28452252 GGATTATGAGGTCCGATAAGTATGTGTCATCGAGAGTATATGGATCCTTTAC
1 GGATTATGAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTAC
*
28452304 GGATTATGAGGTCCGATGACTATGTGTCATCATGAGTAT
1 GGATTATGAGGTCCGATGACTATGTGTCATCGTGAGTAT
28452343 TAAACAAGAA
Statistics
Matches: 176, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
51 1 0.01
52 174 0.99
53 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.35
Consensus pattern (52 bp):
GGATTATGAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTAC
Found at i:28452209 original size:26 final size:26
Alignment explanation
Indices: 28452180--28452261 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
28452170 TGTTGCATCG
28452180 TGAGTATATGAATCCTTTACGGATTA
1 TGAGTATATGAATCCTTTACGGATTA
* * * *
28452206 TGAGGTCTGATGACTAT-GTGT-C--ATCA
1 TGA-GTAT-ATGA--ATCCTTTACGGATTA
28452232 TGAGTATATGAATCCTTTACGGATTA
1 TGAGTATATGAATCCTTTACGGATTA
28452258 TGAG
1 TGAG
28452262 GTCCGATAAG
Statistics
Matches: 40, Mismatches: 8, Indels: 16
0.62 0.12 0.25
Matches are distributed among these distances:
22 2 0.05
23 2 0.05
24 5 0.12
25 3 0.08
26 16 0.40
27 3 0.08
28 5 0.12
29 2 0.05
30 2 0.05
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.37
Consensus pattern (26 bp):
TGAGTATATGAATCCTTTACGGATTA
Found at i:28454956 original size:20 final size:20
Alignment explanation
Indices: 28454928--28454965 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
28454918 AGAAAATTTA
*
28454928 AAAATAATTAAAAATTAATG
1 AAAACAATTAAAAATTAATG
*
28454948 AAAACAATTAAAAGTTAA
1 AAAACAATTAAAAATTAA
28454966 GTCTATAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (20 bp):
AAAACAATTAAAAATTAATG
Found at i:28455051 original size:15 final size:16
Alignment explanation
Indices: 28455033--28455074 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
28455023 ATTAATAAAG
**
28455033 TTTAAAAATATT-TTT
1 TTTAAAAATATTATAC
28455048 TTTAAAAATATTATAC
1 TTTAAAAATATTATAC
28455064 TTTAAAAATAT
1 TTTAAAAATAT
28455075 AATATGTGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (16 bp):
TTTAAAAATATTATAC
Found at i:28461154 original size:18 final size:17
Alignment explanation
Indices: 28461131--28461164 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
28461121 TTGGTCCAGA
28461131 ATTTTTATAACTTTTAAT
1 ATTTTTATAA-TTTTAAT
28461149 ATTTTTATAATTTTAA
1 ATTTTTATAATTTTAA
28461165 ATTCAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTTTATAATTTTAAT
Found at i:28461420 original size:34 final size:32
Alignment explanation
Indices: 28461376--28461449 Score: 94
Period size: 34 Copynumber: 2.2 Consensus size: 32
28461366 TTAATTGATT
*
28461376 TTTTTTAATGATTGAGAGTTCAATAAGATAAAA
1 TTTTTTAATGATTAAGAGTTCAATAAGAT-AAA
* **
28461409 TCTTTTTAATGATTAAGGGTTTGATAAGATAAA
1 T-TTTTTAATGATTAAGAGTTCAATAAGATAAA
28461442 TTTTTTAA
1 TTTTTTAA
28461450 GAACTTAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
32 7 0.19
33 5 0.14
34 24 0.67
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.45
Consensus pattern (32 bp):
TTTTTTAATGATTAAGAGTTCAATAAGATAAA
Found at i:28462023 original size:18 final size:17
Alignment explanation
Indices: 28461995--28462032 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
28461985 ATTAGTATAT
28461995 AAAAATTTT-AATAAATA
1 AAAAATTTTAAAT-AATA
28462012 AAAAATTATTAAATAATA
1 AAAAATT-TTAAATAATA
28462030 AAA
1 AAA
28462033 CAAAATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.37
18 9 0.47
19 3 0.16
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAAATTTTAAATAATA
Found at i:28462029 original size:22 final size:22
Alignment explanation
Indices: 28462003--28462048 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
28461993 ATAAAAATTT
28462003 TAATAAATA-AAAA-ATTATTAAA
1 TAATAAA-ACAAAATATTA-TAAA
28462025 TAATAAAACAAAATATTATAAA
1 TAATAAAACAAAATATTATAAA
28462047 TA
1 TA
28462049 TTTTTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 1 0.05
22 17 0.77
23 4 0.18
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (22 bp):
TAATAAAACAAAATATTATAAA
Found at i:28466261 original size:19 final size:21
Alignment explanation
Indices: 28466227--28466268 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
28466217 TGATTTTTGA
*
28466227 AAAATTAATTTTAATC-AATT
1 AAAATTAATATTAATCAAATT
28466247 AAAATTAA-ATTAATCAAATT
1 AAAATTAATATTAATCAAATT
28466267 AA
1 AA
28466269 TTAAAATTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAATTAATATTAATCAAATT
Found at i:28466386 original size:19 final size:17
Alignment explanation
Indices: 28466362--28466441 Score: 74
Period size: 19 Copynumber: 4.5 Consensus size: 17
28466352 ATTTCAAAAA
28466362 TAATATTATTTTAATACTT
1 TAATATTATTTT-ATA-TT
*
28466381 TAATATTATATTATATT
1 TAATATTATTTTATATT
*
28466398 TAAT-TTAATACTTATA-T
1 TAATATT-AT-TTTATATT
28466415 TAATATTATTTTATTAATT
1 TAATATTATTTTA-T-ATT
28466434 TAATATTA
1 TAATATTA
28466442 AAATGATTAC
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
16 5 0.10
17 16 0.31
18 11 0.21
19 20 0.38
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (17 bp):
TAATATTATTTTATATT
Found at i:28468926 original size:17 final size:18
Alignment explanation
Indices: 28468894--28468927 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
28468884 CCCTCGTCCT
*
28468894 CTAAGGGGAAGCAAAAAG
1 CTAAGGGAAAGCAAAAAG
28468912 CTAAGGGAAAG-AAAAA
1 CTAAGGGAAAGCAAAAA
28468928 TTAGACTAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.56, C:0.09, G:0.29, T:0.06
Consensus pattern (18 bp):
CTAAGGGAAAGCAAAAAG
Found at i:28475409 original size:18 final size:17
Alignment explanation
Indices: 28475375--28475407 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
28475365 AATTTTTAAT
28475375 AATTATTAAGTAGTTTA
1 AATTATTAAGTAGTTTA
28475392 AATTATTTAAG-AGTTT
1 AATTA-TTAAGTAGTTT
28475408 TATGTCAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (17 bp):
AATTATTAAGTAGTTTA
Found at i:28483922 original size:13 final size:12
Alignment explanation
Indices: 28483897--28483921 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
28483887 ATAAATACTG
28483897 ATAAAAGAAAAA
1 ATAAAAGAAAAA
28483909 ATAAAAGAAAAA
1 ATAAAAGAAAAA
28483921 A
1 A
28483922 AAAGGGAGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (12 bp):
ATAAAAGAAAAA
Found at i:28485697 original size:80 final size:82
Alignment explanation
Indices: 28485608--28485772 Score: 235
Period size: 84 Copynumber: 2.0 Consensus size: 82
28485598 TCGTTTTATT
*
28485608 ATTCTTCTTGTCAACTAATCTATC-ATTT-TTTTCATTTTAGTTTACATTTGTCTAGAGCTTTAG
1 ATTCTTCTTGTCAACTAATCTATCTATTTGTTTTCATTTTAGATTACATTTGTCTAGAGCTTTAG
*
28485671 GGTAGATCCGCGACTTG
66 GGTAGATCCACGACTTG
* * * *
28485688 ATTCTTCTTGTCAACTAATCTGTCTTTCTTTGTTTTCGTTTTAGATTACCTTTGTCTAGAGCTTT
1 ATTCTTCTTGTCAACTAATCTATC--TATTTGTTTTCATTTTAGATTACATTTGTCTAGAGCTTT
*
28485753 AGGGTAGATCCACGATTTG
64 AGGGTAGATCCACGACTTG
28485772 A
1 A
28485773 CGACTTTACG
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
80 23 0.31
83 3 0.04
84 48 0.65
ACGTcount: A:0.20, C:0.18, G:0.16, T:0.47
Consensus pattern (82 bp):
ATTCTTCTTGTCAACTAATCTATCTATTTGTTTTCATTTTAGATTACATTTGTCTAGAGCTTTAG
GGTAGATCCACGACTTG
Found at i:28489586 original size:15 final size:15
Alignment explanation
Indices: 28489566--28489595 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
28489556 TCTAAGTGAT
28489566 AACATGGTGATTGAA
1 AACATGGTGATTGAA
*
28489581 AACATGTTGATTGAA
1 AACATGGTGATTGAA
28489596 GCATGAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (15 bp):
AACATGGTGATTGAA
Found at i:28496141 original size:21 final size:22
Alignment explanation
Indices: 28496117--28496157 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
28496107 CTGCTTGCCA
*
28496117 TGTCGCGACA-CGGCTCCTATG
1 TGTCGCGACATCGACTCCTATG
28496138 TGTCGCGACATCGACTCCTA
1 TGTCGCGACATCGACTCCTA
28496158 AACATGGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.17, C:0.34, G:0.24, T:0.24
Consensus pattern (22 bp):
TGTCGCGACATCGACTCCTATG
Found at i:28498901 original size:17 final size:17
Alignment explanation
Indices: 28498862--28498909 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
28498852 TGACACATGG
28498862 AAATGCAATGACAATAC
1 AAATGCAATGACAATAC
* *
28498879 AGATGCAGTGACAATTA-
1 AAATGCAATGACAA-TAC
28498896 AAATGCAATGACAA
1 AAATGCAATGACAA
28498910 AAGGAATGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 24 0.92
18 2 0.08
ACGTcount: A:0.50, C:0.15, G:0.17, T:0.19
Consensus pattern (17 bp):
AAATGCAATGACAATAC
Found at i:28501755 original size:45 final size:45
Alignment explanation
Indices: 28501691--28501782 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
28501681 CGTATCGCCA
28501691 AGCCTAAAAGATCAATCATTCCTCGATGGATTCACCATATTCTCG
1 AGCCTAAAAGATCAATCATTCCTCGATGGATTCACCATATTCTCG
28501736 AGCCTAAAAGATCAATCATTCCTCGATGGATTCACCATATTCTCG
1 AGCCTAAAAGATCAATCATTCCTCGATGGATTCACCATATTCTCG
28501781 AG
1 AG
28501783 AATATTCTTG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (45 bp):
AGCCTAAAAGATCAATCATTCCTCGATGGATTCACCATATTCTCG
Found at i:28518202 original size:25 final size:26
Alignment explanation
Indices: 28518153--28518207 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
28518143 CCTTCTTGTA
* *
28518153 ATTTAGGTTTTGGTTATTTTCTTTT-
1 ATTTAGGTTTTAGTAATTTTCTTTTC
28518178 ATTTAGGTTTTAG-AATTTTCATTTTC
1 ATTTAGGTTTTAGTAATTTTC-TTTTC
28518204 ATTT
1 ATTT
28518208 TAAGGAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 6 0.23
25 16 0.62
26 4 0.15
ACGTcount: A:0.18, C:0.05, G:0.13, T:0.64
Consensus pattern (26 bp):
ATTTAGGTTTTAGTAATTTTCTTTTC
Found at i:28520659 original size:20 final size:20
Alignment explanation
Indices: 28520621--28520659 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
28520611 AATTAGTGTT
* * *
28520621 TTCAATTGTATTTCTAGTGA
1 TTCAATTATATCTCAAGTGA
28520641 TTCAATTATATCTCAAGTG
1 TTCAATTATATCTCAAGTG
28520660 GTTTAGATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (20 bp):
TTCAATTATATCTCAAGTGA
Found at i:28527775 original size:16 final size:17
Alignment explanation
Indices: 28527748--28527781 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
28527738 TTAGGTCATA
28527748 TATATAATTTATTTATT
1 TATATAATTTATTTATT
28527765 TATAT-ATTTATTTATT
1 TATATAATTTATTTATT
28527781 T
1 T
28527782 TCATTAAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TATATAATTTATTTATT
Found at i:28534096 original size:25 final size:26
Alignment explanation
Indices: 28534067--28534121 Score: 87
Period size: 25 Copynumber: 2.2 Consensus size: 26
28534057 CCTTCTTGTA
28534067 ATTTAGGTTTTAGTTATTTTC-TTTT-
1 ATTTAGGTTTTAG-TATTTTCATTTTC
28534092 ATTTAGGTTTTAGTATTTTCATTTTC
1 ATTTAGGTTTTAGTATTTTCATTTTC
28534118 ATTT
1 ATTT
28534122 TCATTTTAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 7 0.25
25 17 0.61
26 4 0.14
ACGTcount: A:0.18, C:0.05, G:0.11, T:0.65
Consensus pattern (26 bp):
ATTTAGGTTTTAGTATTTTCATTTTC
Found at i:28543479 original size:21 final size:21
Alignment explanation
Indices: 28543455--28543497 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
28543445 GGTGCAATGC
* *
28543455 CTACGAAAATAGTGCCATCTA
1 CTACGAAAATACTACCATCTA
28543476 CTACGAAAATACTACCATCTA
1 CTACGAAAATACTACCATCTA
28543497 C
1 C
28543498 AAAGAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.28, G:0.09, T:0.23
Consensus pattern (21 bp):
CTACGAAAATACTACCATCTA
Found at i:28543504 original size:21 final size:21
Alignment explanation
Indices: 28543459--28543505 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
28543449 CAATGCCTAC
* * * *
28543459 GAAAATAGTGCCATCTACTAC
1 GAAAATACTACCATCTACAAA
28543480 GAAAATACTACCATCTACAAA
1 GAAAATACTACCATCTACAAA
28543501 GAAAA
1 GAAAA
28543506 AAACTAAGAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.49, C:0.21, G:0.11, T:0.19
Consensus pattern (21 bp):
GAAAATACTACCATCTACAAA
Found at i:28563722 original size:29 final size:30
Alignment explanation
Indices: 28563677--28563738 Score: 108
Period size: 29 Copynumber: 2.1 Consensus size: 30
28563667 ACTTAATTTA
*
28563677 TTTCATTTTAATAAAGAACTTAGGTTATAT
1 TTTCATTTTAATAAAGAACTTAAGTTATAT
28563707 TTTCATTTTAAT-AAGAACTTAAGTTATAT
1 TTTCATTTTAATAAAGAACTTAAGTTATAT
28563736 TTT
1 TTT
28563739 TTGGACTAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 19 0.61
30 12 0.39
ACGTcount: A:0.35, C:0.06, G:0.08, T:0.50
Consensus pattern (30 bp):
TTTCATTTTAATAAAGAACTTAAGTTATAT
Found at i:28571578 original size:22 final size:22
Alignment explanation
Indices: 28571532--28571585 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
28571522 ATTAATTCAA
28571532 TAATATAACATTTCAATTCACT
1 TAATATAACATTTCAATTCACT
* *
28571554 TAATCTAACATTTCATTATCA-T
1 TAATATAACATTTCAAT-TCACT
*
28571576 TAATAAAACA
1 TAATATAACA
28571586 AACAATCATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 24 0.89
23 3 0.11
ACGTcount: A:0.44, C:0.17, G:0.00, T:0.39
Consensus pattern (22 bp):
TAATATAACATTTCAATTCACT
Found at i:28588796 original size:108 final size:108
Alignment explanation
Indices: 28588602--28588803 Score: 269
Period size: 108 Copynumber: 1.9 Consensus size: 108
28588592 AACTTTCGTT
* *** * *
28588602 AGTTTATCTAACTAGTGTTGGGCACTTTTTCGTCGGTTTATCAAACTAGCATTGGGCGCAATATT
1 AGTTTATCTAACTAGTGCTGGGCACACATTCGTCGATTTATCAAACTAGCATTGGGCGCAACATT
28588667 GTTGGTTAATCCAACTAGAGTTGGGCTCATTATTAATACCGTC
66 GTTGGTTAATCCAACTAGAGTTGGGCTCATTATTAATACCGTC
* * ** * * *
28588710 AGTTTCTCTGACTAGTGCTGGGCACACATTCGTCGATTTATCCGACTAGCGTTGGGTGTAACATT
1 AGTTTATCTAACTAGTGCTGGGCACACATTCGTCGATTTATCAAACTAGCATTGGGCGCAACATT
* *
28588775 GTTGGTTAATCTAACTTGAGTTGGGCTCA
66 GTTGGTTAATCCAACTAGAGTTGGGCTCA
28588804 CAACTATCGT
Statistics
Matches: 79, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
108 79 1.00
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.36
Consensus pattern (108 bp):
AGTTTATCTAACTAGTGCTGGGCACACATTCGTCGATTTATCAAACTAGCATTGGGCGCAACATT
GTTGGTTAATCCAACTAGAGTTGGGCTCATTATTAATACCGTC
Found at i:28591399 original size:15 final size:15
Alignment explanation
Indices: 28591381--28591410 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
28591371 CTAAAGTATT
28591381 CTAAGCTAAATTAAA
1 CTAAGCTAAATTAAA
*
28591396 CTAAGTTAAATTAAA
1 CTAAGCTAAATTAAA
28591411 AACAATTAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.10, G:0.07, T:0.30
Consensus pattern (15 bp):
CTAAGCTAAATTAAA
Found at i:28591762 original size:96 final size:96
Alignment explanation
Indices: 28591593--28591823 Score: 338
Period size: 96 Copynumber: 2.4 Consensus size: 96
28591583 AAATTCATTC
* * * * * *
28591593 ATCTCTTGAACATATCCCTATGTCAATTCAACCGACTAAATCAATTCTACTAAGTAAATGTGTTA
1 ATCTCTTAAACATATCTCTATGCCAATTCAACCGACTAAATCAATTCTAATAAGCAAATATGTTA
* * *
28591658 TTGCACATACATACTATATGAAATCTAAAGA
66 ATGAACATACATACTATATGAAAGCTAAAGA
*
28591689 ATCTCTTAAACATATCTCTATACCAATTCAACCGACTAAATCAATTCTAATAAGCAAATATGTTA
1 ATCTCTTAAACATATCTCTATGCCAATTCAACCGACTAAATCAATTCTAATAAGCAAATATGTTA
*
28591754 ATGAACATATATACTATATGAAAGCTAAAGA
66 ATGAACATACATACTATATGAAAGCTAAAGA
*
28591785 ATCTCTTAAACATATCT-TGATGCCAATTCAACTGACTAA
1 ATCTCTTAAACATATCTCT-ATGCCAATTCAACCGACTAA
28591824 TTAACTATAA
Statistics
Matches: 121, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
95 1 0.01
96 120 0.99
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (96 bp):
ATCTCTTAAACATATCTCTATGCCAATTCAACCGACTAAATCAATTCTAATAAGCAAATATGTTA
ATGAACATACATACTATATGAAAGCTAAAGA
Found at i:28595977 original size:22 final size:21
Alignment explanation
Indices: 28595947--28595989 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
28595937 ATTAACAATT
* *
28595947 TAAAATAAATTAAAAATTAAA
1 TAAAATAAAATAAAAAATAAA
28595968 TAAATATAAAATAAAAAATAAA
1 TAAA-ATAAAATAAAAAATAAA
28595990 AACTTCTTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (21 bp):
TAAAATAAAATAAAAAATAAA
Found at i:28600806 original size:31 final size:31
Alignment explanation
Indices: 28600771--28600832 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
28600761 ATAGAAAAGA
28600771 GAAGATAACGTCCGAAGAAGCCTTGGAAATG
1 GAAGATAACGTCCGAAGAAGCCTTGGAAATG
28600802 GAAGATAACGTCCGAAGAAGCCTTGGAAATG
1 GAAGATAACGTCCGAAGAAGCCTTGGAAATG
28600833 ATAAGAATCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.16, G:0.29, T:0.16
Consensus pattern (31 bp):
GAAGATAACGTCCGAAGAAGCCTTGGAAATG
Found at i:28603206 original size:19 final size:19
Alignment explanation
Indices: 28603182--28603227 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
28603172 AATATTTTTT
28603182 TATTTTT-TTCTTTTTATCA
1 TATTTTTCTT-TTTTTATCA
28603201 TATTTTTCTTTTTTTATCA
1 TATTTTTCTTTTTTTATCA
28603220 TAATTTTT
1 T-ATTTTT
28603228 GTGGGGACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.74
Consensus pattern (19 bp):
TATTTTTCTTTTTTTATCA
Found at i:28607124 original size:15 final size:16
Alignment explanation
Indices: 28607106--28607140 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
28607096 CTAAAGTATT
28607106 CTAAGCTAAATT-AAA
1 CTAAGCTAAATTAAAA
*
28607121 CTAAGTTAAATTAAAA
1 CTAAGCTAAATTAAAA
28607137 CTAA
1 CTAA
28607141 ATTAAGTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.29
Consensus pattern (16 bp):
CTAAGCTAAATTAAAA
Found at i:28610564 original size:24 final size:24
Alignment explanation
Indices: 28610529--28610574 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
28610519 AAGTCTAAAA
*
28610529 ACAAAACAAAATTATCCAAAAATT
1 ACAAAACAAAATTATCAAAAAATT
*
28610553 ACAAAA-ATAAATTGTCAAAAAA
1 ACAAAACA-AAATTATCAAAAAA
28610575 GATAAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 1 0.05
24 18 0.95
ACGTcount: A:0.65, C:0.13, G:0.02, T:0.20
Consensus pattern (24 bp):
ACAAAACAAAATTATCAAAAAATT
Found at i:28617599 original size:30 final size:29
Alignment explanation
Indices: 28617544--28617600 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 29
28617534 CAGCAAATTA
* *
28617544 TTTCTTTTTTCATTCTTTTCTCTTTTTCT
1 TTTCTTTTTTCATTCTTCTCACTTTTTCT
28617573 TTTCTTTCCTTTC-TTCTTCTCACTTTTT
1 TTTCTTT--TTTCATTCTTCTCACTTTTT
28617601 TTATAGGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 7 0.29
30 13 0.54
31 4 0.17
ACGTcount: A:0.04, C:0.25, G:0.00, T:0.72
Consensus pattern (29 bp):
TTTCTTTTTTCATTCTTCTCACTTTTTCT
Found at i:28626186 original size:18 final size:19
Alignment explanation
Indices: 28626160--28626197 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
28626150 TATATTTGAA
*
28626160 TAATTGTTA-AAAGTGTAT
1 TAATGGTTAGAAAGTGTAT
*
28626178 TAATGGTTAGAAATTGTAT
1 TAATGGTTAGAAAGTGTAT
28626197 T
1 T
28626198 GTAATACTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.37, C:0.00, G:0.18, T:0.45
Consensus pattern (19 bp):
TAATGGTTAGAAAGTGTAT
Found at i:28630583 original size:20 final size:20
Alignment explanation
Indices: 28630533--28630639 Score: 81
Period size: 20 Copynumber: 5.2 Consensus size: 20
28630523 GAAAAATTTG
*
28630533 AAATAATTTTAAAATCAAGTTA
1 AAATAATTTT-AAA-CAAGTCA
* *
28630555 AAATGATTTTAAACATGTCA
1 AAATAATTTTAAACAAGTCA
* **
28630575 AAATAATTTGAGCCAAGTCA
1 AAATAATTTTAAACAAGTCA
* **
28630595 AAATCATTTT-AACACTTCA
1 AAATAATTTTAAACAAGTCA
**
28630614 AAATGTTTTTCAAACAAGTCA
1 AAATAATTTT-AAACAAGTCA
28630635 AAATA
1 AAATA
28630640 GCTCTAGGCC
Statistics
Matches: 64, Mismatches: 19, Indels: 5
0.73 0.22 0.06
Matches are distributed among these distances:
19 13 0.20
20 28 0.44
21 14 0.22
22 9 0.14
ACGTcount: A:0.48, C:0.12, G:0.07, T:0.33
Consensus pattern (20 bp):
AAATAATTTTAAACAAGTCA
Found at i:28630802 original size:20 final size:22
Alignment explanation
Indices: 28630779--28630821 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
28630769 CTTTATTGGT
*
28630779 ATCGATA-ATTT-CTATAAAAC
1 ATCGATACATTTGCTAAAAAAC
28630799 ATCGATACATTTGCTAAAAAAC
1 ATCGATACATTTGCTAAAAAAC
28630821 A
1 A
28630822 ATACCAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 4 0.20
22 9 0.45
ACGTcount: A:0.47, C:0.16, G:0.07, T:0.30
Consensus pattern (22 bp):
ATCGATACATTTGCTAAAAAAC
Found at i:28634796 original size:191 final size:191
Alignment explanation
Indices: 28634546--28634968 Score: 783
Period size: 191 Copynumber: 2.2 Consensus size: 191
28634536 CTATAAACTA
28634546 TTCCCTAACGATACTGCTTACACTAGCTGTCGAGAGTATGCGTAAAGGATAGTCCCAGCCATCGT
1 TTCCCTAACGATACTGCTTACACTAGCTGTCGAGAGTATGCGTAAAGGATAGTCCCAGCCATCGT
28634611 AAGGCCTATAATCTATTTAGAATCCATATCTCTTTCCCAAGTCACAATGCTGCTCACACAAGTTG
66 AAGGCCTATAATCTATTTAGAATCCATATCTCTTTCCCAAGTCACAATGCTGCTCACACAAGTTG
28634676 TCAAGGACTCGTAACATATGCAGTACCTCAACCATCGATACGATATCTGTGTATATAATTG
131 TCAAGGACTCGTAACATATGCAGTACCTCAACCATCGATACGATATCTGTGTATATAATTG
*
28634737 TTCCCTAATGATACTGCTTACACTAGCTGTCGAGAGTATGCGTAAAGGATAGTCCCAGCCATCGT
1 TTCCCTAACGATACTGCTTACACTAGCTGTCGAGAGTATGCGTAAAGGATAGTCCCAGCCATCGT
28634802 AAGGCCTATAATCTATTTAGAATCCATATCTCTTTCCCAAGTCACAATGCTGCTCACACAAGTTG
66 AAGGCCTATAATCTATTTAGAATCCATATCTCTTTCCCAAGTCACAATGCTGCTCACACAAGTTG
*
28634867 TCAAGGACTCGTAACATATGCGGTACCTCAACCATCGATACGATATCTGTGTATATAATTG
131 TCAAGGACTCGTAACATATGCAGTACCTCAACCATCGATACGATATCTGTGTATATAATTG
* * * * *
28634928 TTCCCTAACGATGCTGCTCACACGAGCTATCGAGAATATGC
1 TTCCCTAACGATACTGCTTACACTAGCTGTCGAGAGTATGC
28634969 ACTTATGCAT
Statistics
Matches: 224, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
191 224 1.00
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (191 bp):
TTCCCTAACGATACTGCTTACACTAGCTGTCGAGAGTATGCGTAAAGGATAGTCCCAGCCATCGT
AAGGCCTATAATCTATTTAGAATCCATATCTCTTTCCCAAGTCACAATGCTGCTCACACAAGTTG
TCAAGGACTCGTAACATATGCAGTACCTCAACCATCGATACGATATCTGTGTATATAATTG
Found at i:28653194 original size:17 final size:17
Alignment explanation
Indices: 28653149--28653196 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
28653139 TGACACATGG
28653149 AAATGCAATGACAATAC
1 AAATGCAATGACAATAC
*
28653166 AGAA-GCAGTGACAATTA-
1 A-AATGCAATGACAA-TAC
28653183 AAATGCAATGACAA
1 AAATGCAATGACAA
28653197 AATGAATGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 2 0.08
17 20 0.77
18 4 0.15
ACGTcount: A:0.52, C:0.15, G:0.17, T:0.17
Consensus pattern (17 bp):
AAATGCAATGACAATAC
Found at i:28671083 original size:25 final size:26
Alignment explanation
Indices: 28671054--28671108 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 26
28671044 CCTTCTTGTA
*
28671054 ATTTAGGTTTTAGTTATTTTC-TTTT-
1 ATTTAGGTTTTAG-AATTTTCATTTTC
28671079 ATTTAGGTTTTAGAATTTTCATTTTC
1 ATTTAGGTTTTAGAATTTTCATTTTC
28671105 ATTT
1 ATTT
28671109 TAAGGAAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 6 0.22
25 17 0.63
26 4 0.15
ACGTcount: A:0.20, C:0.05, G:0.11, T:0.64
Consensus pattern (26 bp):
ATTTAGGTTTTAGAATTTTCATTTTC
Found at i:28686339 original size:16 final size:15
Alignment explanation
Indices: 28686318--28686348 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
28686308 GCTTTTATGA
28686318 TTTTTTATTATTTTTG
1 TTTTTTATT-TTTTTG
28686334 TTTTTTATTTTTTTG
1 TTTTTTATTTTTTTG
28686349 CTTGAGGACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.10, C:0.00, G:0.06, T:0.84
Consensus pattern (15 bp):
TTTTTTATTTTTTTG
Found at i:28686982 original size:30 final size:25
Alignment explanation
Indices: 28686961--28687013 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 25
28686951 GTTGAATTCC
28686961 TTCTTGTGATTTAGGTTTTAGTTATT
1 TTCTT-TGATTTAGGTTTTAGTTATT
*
28686987 TTCTTTTATTTAGGTTTTAG-TATT
1 TTCTTTGATTTAGGTTTTAGTTATT
28687011 TTC
1 TTC
28687014 ATTTTCATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 7 0.27
25 14 0.54
26 5 0.19
ACGTcount: A:0.15, C:0.06, G:0.15, T:0.64
Consensus pattern (25 bp):
TTCTTTGATTTAGGTTTTAGTTATT
Found at i:28686998 original size:25 final size:26
Alignment explanation
Indices: 28686969--28687023 Score: 87
Period size: 25 Copynumber: 2.2 Consensus size: 26
28686959 CCTTCTTGTG
28686969 ATTTAGGTTTTAGTTATTTTC-TTTT-
1 ATTTAGGTTTTAG-TATTTTCATTTTC
28686994 ATTTAGGTTTTAGTATTTTCATTTTC
1 ATTTAGGTTTTAGTATTTTCATTTTC
28687020 ATTT
1 ATTT
28687024 TCATTTTAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 7 0.25
25 17 0.61
26 4 0.14
ACGTcount: A:0.18, C:0.05, G:0.11, T:0.65
Consensus pattern (26 bp):
ATTTAGGTTTTAGTATTTTCATTTTC
Found at i:28688208 original size:14 final size:14
Alignment explanation
Indices: 28688189--28688223 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
28688179 TGACTTAGGT
*
28688189 AAATTTCAGGGATA
1 AAATTTCAGGGACA
*
28688203 AAATTTGAGGGACA
1 AAATTTCAGGGACA
28688217 AAATTTC
1 AAATTTC
28688224 TTTTAAGAGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.43, C:0.09, G:0.20, T:0.29
Consensus pattern (14 bp):
AAATTTCAGGGACA
Found at i:28691618 original size:37 final size:36
Alignment explanation
Indices: 28691569--28691644 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 36
28691559 ATTCCAAAAA
28691569 TAATATTATTTTAATAGT-TTAATATTAAATTTAAT-T
1 TAATATTATTTTAATAGTATT-ATATT-AATTTAATAT
*
28691605 TAATACTTATTTTAATAGTATTTTATTAATTTAATAT
1 TAATA-TTATTTTAATAGTATTATATTAATTTAATAT
28691642 TAA
1 TAA
28691645 AGTGATTATC
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
36 13 0.36
37 21 0.58
38 2 0.06
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (36 bp):
TAATATTATTTTAATAGTATTATATTAATTTAATAT
Found at i:28691642 original size:11 final size:11
Alignment explanation
Indices: 28691569--28691644 Score: 52
Period size: 12 Copynumber: 6.8 Consensus size: 11
28691559 ATTCCAAAAA
*
28691569 TAATATTATTT
1 TAATATTAATT
28691580 TAATAGTTTAATAT
1 TAATA--TTAAT-T
28691594 TAA-ATTTAATT
1 TAATA-TTAATT
*
28691605 TAATACTTATTT
1 TAATA-TTAATT
*
28691617 TAATAGT-ATT
1 TAATATTAATT
28691627 T--TATTAATT
1 TAATATTAATT
28691636 TAATATTAA
1 TAATATTAA
28691645 AGTGATTATC
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 3 0.06
11 16 0.31
12 17 0.33
13 5 0.10
14 4 0.08
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (11 bp):
TAATATTAATT
Found at i:28691652 original size:20 final size:18
Alignment explanation
Indices: 28691570--28691729 Score: 75
Period size: 20 Copynumber: 8.8 Consensus size: 18
28691560 TTCCAAAAAT
* *
28691570 AATATTATTTTAATAGTTT
1 AATATTAATTTAATA-TTA
28691589 AATATTAAATTTAAT-TT-
1 AATATT-AATTTAATATTA
* *
28691606 AATACTTATTTTAATAGTA
1 AATA-TTAATTTAATATTA
**
28691625 TTTTATTAATTTAATATTA
1 -AATATTAATTTAATATTA
28691644 AAGTGATT-ATCTTAATATTA
1 AA-T-ATTAAT-TTAATATTA
*
28691664 AAT-TTAATTTAATGTT-
1 AATATTAATTTAATATTA
* * * *
28691680 TATCTTGA-TAAATATT-
1 AATATTAATTTAATATTA
28691696 -ATATTAATTTAATATTA
1 AATATTAATTTAATATTA
28691713 AAGTGATTAAGTTTAAT
1 AA-T-ATTAA-TTTAAT
28691730 CATAGTTGAA
Statistics
Matches: 108, Mismatches: 17, Indels: 30
0.70 0.11 0.19
Matches are distributed among these distances:
15 5 0.05
16 15 0.14
17 23 0.21
18 8 0.07
19 23 0.21
20 28 0.26
21 6 0.06
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.52
Consensus pattern (18 bp):
AATATTAATTTAATATTA
Found at i:28691664 original size:68 final size:69
Alignment explanation
Indices: 28691587--28691721 Score: 209
Period size: 68 Copynumber: 2.0 Consensus size: 69
28691577 TTTTAATAGT
* * *
28691587 TTAATATTAAATTTAATTTAATACTTATTTTAAT-AGTATTTTATTAATTTAATATTAAAGTGAT
1 TTAATATTAAATTTAATTTAATACTTATCTTAATAAATATTATATTAATTTAATATTAAAGTGAT
28691651 TATC
66 TATC
** *
28691655 TTAATATTAAATTTAATTTAATGTTTATCTTGATAAATATTATATTAATTTAATATTAAAGTGAT
1 TTAATATTAAATTTAATTTAATACTTATCTTAATAAATATTATATTAATTTAATATTAAAGTGAT
28691720 TA
66 TA
28691722 AGTTTAATCA
Statistics
Matches: 60, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
68 30 0.50
69 30 0.50
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (69 bp):
TTAATATTAAATTTAATTTAATACTTATCTTAATAAATATTATATTAATTTAATATTAAAGTGAT
TATC
Found at i:28706650 original size:16 final size:18
Alignment explanation
Indices: 28706624--28706656 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
28706614 TACTTGTAAT
28706624 TGCATTTTTA-TTGTTTA
1 TGCATTTTTATTTGTTTA
28706641 TGCA-TTTTATTTGTTT
1 TGCATTTTTATTTGTTT
28706657 TAGCATATGC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.15, C:0.06, G:0.12, T:0.67
Consensus pattern (18 bp):
TGCATTTTTATTTGTTTA
Found at i:28707274 original size:18 final size:18
Alignment explanation
Indices: 28707232--28707287 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
28707222 TCTCAGTCGC
28707232 ATAAAGAAAAGAAAAAGAG
1 ATAAAG-AAAGAAAAAGAG
* **
28707251 AAAAAGAAAGAAAAATTG
1 ATAAAGAAAGAAAAAGAG
28707269 ATAAAGAGAAGGAAAAAGA
1 ATAAAGA-AA-GAAAAAGA
28707288 AAGAATATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
18 16 0.55
19 7 0.24
20 6 0.21
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.07
Consensus pattern (18 bp):
ATAAAGAAAGAAAAAGAG
Found at i:28713351 original size:43 final size:43
Alignment explanation
Indices: 28713298--28713541 Score: 294
Period size: 43 Copynumber: 5.7 Consensus size: 43
28713288 CTGTTAATGT
* *
28713298 TAGCGGCGTTTGTGGGAAAAATGCCGCTAAAGAACATATTCTA
1 TAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGAACATGTTCTA
* *** * *
28713341 CAATTGCGTTTGTGGAAAAAACGCCGCTAAAGACCATGTTCTA
1 TAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGAACATGTTCTA
* * * *
28713384 TAGCGGCGTTTGTGGGAAAAGCACCACTAAAAAACATGTTCTA
1 TAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGAACATGTTCTA
* * *
28713427 TAGCGGCATTTGTGGGAAAAACACCGCTAAAGACCATGTTCTA
1 TAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGAACATGTTCTA
*
28713470 TAGCGGCGTTTGT-GGAAAAAGCGCCGCTAAAG-ACATGTACTA
1 TAGCGGCGTTTGTGGGAAAAA-CGCCGCTAAAGAACATGTTCTA
* * *
28713512 TAGCGGCATTTGTGGGAAAAGCACCGCTAA
1 TAGCGGCGTTTGTGGGAAAAACGCCGCTAA
28713542 CCAAGCTATT
Statistics
Matches: 169, Mismatches: 30, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
42 35 0.21
43 134 0.79
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.23
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGAACATGTTCTA
Found at i:28713447 original size:86 final size:86
Alignment explanation
Indices: 28713298--28713541 Score: 328
Period size: 86 Copynumber: 2.8 Consensus size: 86
28713288 CTGTTAATGT
** * * * *** * *
28713298 TAGCGGCGTTTGTGGGAAAAATGCCGCTAAAGAACATATTCTACAATTGCGTTTGTGGAAAAAAC
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAAACATGTTCTATAGCGGCATTTGTGGGAAAAAC
*
28713363 GCCGCTAAAGACCATGTTCTA
66 ACCGCTAAAGACCATGTTCTA
* *
28713384 TAGCGGCGTTTGTGGGAAAAGCACCACTAAAAAACATGTTCTATAGCGGCATTTGTGGGAAAAAC
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAAACATGTTCTATAGCGGCATTTGTGGGAAAAAC
28713449 ACCGCTAAAGACCATGTTCTA
66 ACCGCTAAAGACCATGTTCTA
* * * *
28713470 TAGCGGCGTTTGTGGAAAAAGCGCCGCT-AAAGACATGTACTATAGCGGCATTTGTGGGAAAAGC
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAAACATGTTCTATAGCGGCATTTGTGGGAAAAAC
28713534 ACCGCTAA
66 ACCGCTAA
28713542 CCAAGCTATT
Statistics
Matches: 139, Mismatches: 19, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
85 41 0.29
86 98 0.71
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.23
Consensus pattern (86 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAAACATGTTCTATAGCGGCATTTGTGGGAAAAAC
ACCGCTAAAGACCATGTTCTA
Found at i:28720826 original size:12 final size:12
Alignment explanation
Indices: 28720805--28720845 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
28720795 TCATTACAAA
*
28720805 TTCTTCTTCTTT
1 TTCTTCTTCTCT
*
28720817 TTCTTTTTCTCT
1 TTCTTCTTCTCT
28720829 TTCTTCTTCTCT
1 TTCTTCTTCTCT
28720841 CTTCT
1 -TTCT
28720846 GTTCTTCCTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 21 0.84
13 4 0.16
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (12 bp):
TTCTTCTTCTCT
Found at i:28720850 original size:24 final size:24
Alignment explanation
Indices: 28720805--28720850 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
28720795 TCATTACAAA
* *
28720805 TTCTTCTTCTTTTTCTTTTTCTCT
1 TTCTTCTTCTTCTTCTTGTTCTCT
28720829 TTCTTCTTCTCTCTTC-TGTTCT
1 TTCTTCTTCT-TCTTCTTGTTCT
28720851 TCCTCAACAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.00, C:0.28, G:0.02, T:0.70
Consensus pattern (24 bp):
TTCTTCTTCTTCTTCTTGTTCTCT
Found at i:28723177 original size:18 final size:18
Alignment explanation
Indices: 28723156--28723190 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
28723146 GTATTTGAGC
*
28723156 ATGTGATTGCATATGATT
1 ATGTGACTGCATATGATT
*
28723174 ATGTGACTGCATCTGAT
1 ATGTGACTGCATATGAT
28723191 CAGGATGTGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (18 bp):
ATGTGACTGCATATGATT
Found at i:28732799 original size:7 final size:6
Alignment explanation
Indices: 28732761--28732796 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
28732751 GATGCTCAGA
*
28732761 AAAACAG AAAATG AAAAAG AAAAAG AAAAAG AAAAA
1 AAAA-AG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
28732797 AGAGCATATG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 23 0.85
7 4 0.15
ACGTcount: A:0.81, C:0.03, G:0.14, T:0.03
Consensus pattern (6 bp):
AAAAAG
Found at i:28737616 original size:22 final size:22
Alignment explanation
Indices: 28737569--28737616 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
28737559 TCAATCATAT
**
28737569 AACATTTCAATTCACTTAATCT
1 AACATTTCAATTCACTTAATAA
*
28737591 AACATTTCATTATCA-TTAATAA
1 AACATTTCAAT-TCACTTAATAA
28737613 AACA
1 AACA
28737617 AACAATCATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.38
Consensus pattern (22 bp):
AACATTTCAATTCACTTAATAA
Found at i:28757582 original size:15 final size:16
Alignment explanation
Indices: 28757564--28757598 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
28757554 CTAAAGTATT
28757564 CTAAGCTAAATT-AAA
1 CTAAGCTAAATTAAAA
*
28757579 CTAAGTTAAATTAAAA
1 CTAAGCTAAATTAAAA
28757595 CTAA
1 CTAA
28757599 ATTAAGTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.29
Consensus pattern (16 bp):
CTAAGCTAAATTAAAA
Found at i:28757938 original size:96 final size:96
Alignment explanation
Indices: 28757774--28758003 Score: 406
Period size: 96 Copynumber: 2.4 Consensus size: 96
28757764 AATTCATTCC
* * * *
28757774 TCTCTTGAACATATCCCTATGTCAATTCAACCGACTAAATCAATTCTAATAAGCAAATGTGTTAT
1 TCTCTTAAACATATCTCTATGCCAATTCAACAGACTAAATCAATTCTAATAAGCAAATGTGTTAT
*
28757839 TGCATATACATACTATATGAAAGCTAAAGAA
66 TGCACATACATACTATATGAAAGCTAAAGAA
*
28757870 TCTCTTAAACATATCTCTATGCCAATTCAACTGACTAAATCAATTCTAATAAGCAAATGTGTTAT
1 TCTCTTAAACATATCTCTATGCCAATTCAACAGACTAAATCAATTCTAATAAGCAAATGTGTTAT
28757935 TGCACATACATACTATATGAAAGCTAAAGAA
66 TGCACATACATACTATATGAAAGCTAAAGAA
28757966 TCTCTTAAACATATCTCTATGCCAATTCAACAGACTAA
1 TCTCTTAAACATATCTCTATGCCAATTCAACAGACTAA
28758004 TTAACTATAA
Statistics
Matches: 128, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
96 128 1.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (96 bp):
TCTCTTAAACATATCTCTATGCCAATTCAACAGACTAAATCAATTCTAATAAGCAAATGTGTTAT
TGCACATACATACTATATGAAAGCTAAAGAA
Found at i:28758388 original size:12 final size:12
Alignment explanation
Indices: 28758371--28758396 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
28758361 AATTAAATAA
28758371 ATAATAGCATTC
1 ATAATAGCATTC
28758383 ATAATAGCATTC
1 ATAATAGCATTC
28758395 AT
1 AT
28758397 CATAATAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (12 bp):
ATAATAGCATTC
Found at i:28762118 original size:16 final size:17
Alignment explanation
Indices: 28762084--28762127 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
28762074 TAACAATTTA
*
28762084 AAATAAAT-TAAAACTT
1 AAATAAATATAAAACAT
28762100 AAATAAATATAAAA-AT
1 AAATAAATATAAAACAT
28762116 AAA-AAATA-AAAA
1 AAATAAATATAAAA
28762128 TTTCTTACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 4 0.15
15 5 0.19
16 12 0.46
17 5 0.19
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (17 bp):
AAATAAATATAAAACAT
Found at i:28771857 original size:16 final size:15
Alignment explanation
Indices: 28771830--28771863 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
28771820 TATTCTTAGC
*
28771830 TAAATTAAACTAAGT
1 TAAATTAAACTAAAT
28771845 TAAATTAAAACTAAAT
1 TAAATT-AAACTAAAT
28771861 TAA
1 TAA
28771864 GTTCCTATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.32
Consensus pattern (15 bp):
TAAATTAAACTAAAT
Found at i:28782464 original size:22 final size:21
Alignment explanation
Indices: 28782415--28782464 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
28782405 AAATTATTTC
**
28782415 TTTTTTCATTCTTTTCTCTTT
1 TTTTTTCATTCTTTTCTCACT
*
28782436 TTCTTTTCTTTCTTGTTCTCACT
1 TT-TTTTCATTCTT-TTCTCACT
28782459 TTTTTT
1 TTTTTT
28782465 TATAGGTGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 2 0.08
22 14 0.58
23 8 0.33
ACGTcount: A:0.04, C:0.20, G:0.02, T:0.74
Consensus pattern (21 bp):
TTTTTTCATTCTTTTCTCACT
Found at i:28791097 original size:18 final size:19
Alignment explanation
Indices: 28791071--28791108 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
28791061 TATATTTGAA
*
28791071 TAATTGTTA-AAAGTGTAT
1 TAATGGTTAGAAAGTGTAT
*
28791089 TAATGGTTAGAAATTGTAT
1 TAATGGTTAGAAAGTGTAT
28791108 T
1 T
28791109 GTAATACTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.37, C:0.00, G:0.18, T:0.45
Consensus pattern (19 bp):
TAATGGTTAGAAAGTGTAT
Found at i:28795532 original size:20 final size:20
Alignment explanation
Indices: 28795482--28795588 Score: 65
Period size: 20 Copynumber: 5.2 Consensus size: 20
28795472 GAAAAGTTTG
28795482 AAATAATTTTAAAATCAAGTTC-
1 AAATAATTTT-AAA-CAAG-TCA
* *
28795504 AAATGATTTTAAACATGTCA
1 AAATAATTTTAAACAAGTCA
* **
28795524 AAATAATTTGAGCCAAGTCA
1 AAATAATTTTAAACAAGTCA
* **
28795544 AAATCATTTT-AACACTTCA
1 AAATAATTTTAAACAAGTCA
** *
28795563 AAATGTTTTTCAAACAAATCA
1 AAATAATTTT-AAACAAGTCA
28795584 AAATA
1 AAATA
28795589 GCTCCAGGTC
Statistics
Matches: 64, Mismatches: 18, Indels: 7
0.72 0.20 0.08
Matches are distributed among these distances:
19 15 0.23
20 26 0.41
21 14 0.22
22 9 0.14
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.33
Consensus pattern (20 bp):
AAATAATTTTAAACAAGTCA
Found at i:28798369 original size:22 final size:25
Alignment explanation
Indices: 28798342--28798387 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 25
28798332 CAAAGAGCAT
28798342 ATAATAAA-AGA-TAAAAA-TTAAA
1 ATAATAAATAGAGTAAAAAGTTAAA
28798364 ATAATAAATAGAGTAAAAAGTTAA
1 ATAATAAATAGAGTAAAAAGTTAA
28798388 GATGTAGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 8 0.38
23 3 0.14
24 6 0.29
25 4 0.19
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (25 bp):
ATAATAAATAGAGTAAAAAGTTAAA
Found at i:28800538 original size:21 final size:21
Alignment explanation
Indices: 28800514--28800563 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
28800504 CATATGACAG
* *
28800514 TTCTACCGATACAAGTAAAGC
1 TTCTACCGAAACAAATAAAGC
* *
28800535 TTCTACCGAAACAAATCATGC
1 TTCTACCGAAACAAATAAAGC
28800556 TTCTACCG
1 TTCTACCG
28800564 GTACTAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (21 bp):
TTCTACCGAAACAAATAAAGC
Found at i:28802138 original size:14 final size:14
Alignment explanation
Indices: 28802121--28802147 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
28802111 ATTTTTCGAG
28802121 TCTTTCTTTTTTTC
1 TCTTTCTTTTTTTC
28802135 TCTTTCTTTTTTT
1 TCTTTCTTTTTTT
28802148 ACATACAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
TCTTTCTTTTTTTC
Found at i:28802895 original size:50 final size:50
Alignment explanation
Indices: 28802813--28802922 Score: 166
Period size: 50 Copynumber: 2.2 Consensus size: 50
28802803 AATAAATCAT
* * * *
28802813 GCTTTTACCGGTACTAAAAACTCCAGAGAGCTAAAATGTCCTACCTTGCA
1 GCTTCTACCGGTACTAAAAACTCCAAAGAGCTAAAATGTCCTACCCTACA
* *
28802863 GCTTCTACCGGTACTAAAAACTCTAAATAGCTAAAATGTCCTACCCTACA
1 GCTTCTACCGGTACTAAAAACTCCAAAGAGCTAAAATGTCCTACCCTACA
28802913 GCTTCTACCG
1 GCTTCTACCG
28802923 ATACAAGTAC
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (50 bp):
GCTTCTACCGGTACTAAAAACTCCAAAGAGCTAAAATGTCCTACCCTACA
Found at i:28804891 original size:20 final size:20
Alignment explanation
Indices: 28804866--28804905 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
28804856 TGTTTAATCA
28804866 ATGATTTCTATATTTTACAG
1 ATGATTTCTATATTTTACAG
28804886 ATGATTTCTATATTTTACAG
1 ATGATTTCTATATTTTACAG
28804906 CCTTTACAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
ATGATTTCTATATTTTACAG
Found at i:28822207 original size:43 final size:43
Alignment explanation
Indices: 28822158--28822246 Score: 151
Period size: 43 Copynumber: 2.1 Consensus size: 43
28822148 TAGTATTAAG
* *
28822158 ATTACTTGTTTAAAATTTAATTTACTCTTTAAATGCAACCCAA
1 ATTACTTGTTTAAAATTTAAATTACTCTTTAAATACAACCCAA
*
28822201 ATTACTTGTTTAAAATTTAAATTACTCTTTAAATACAATCCAA
1 ATTACTTGTTTAAAATTTAAATTACTCTTTAAATACAACCCAA
28822244 ATT
1 ATT
28822247 TCATCGAGAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.39, C:0.15, G:0.03, T:0.43
Consensus pattern (43 bp):
ATTACTTGTTTAAAATTTAAATTACTCTTTAAATACAACCCAA
Found at i:28822261 original size:23 final size:23
Alignment explanation
Indices: 28822235--28822292 Score: 116
Period size: 23 Copynumber: 2.5 Consensus size: 23
28822225 CTCTTTAAAT
28822235 ACAATCCAAATTTCATCGAGATG
1 ACAATCCAAATTTCATCGAGATG
28822258 ACAATCCAAATTTCATCGAGATG
1 ACAATCCAAATTTCATCGAGATG
28822281 ACAATCCAAATT
1 ACAATCCAAATT
28822293 ATGCAATATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.26
Consensus pattern (23 bp):
ACAATCCAAATTTCATCGAGATG
Found at i:28824037 original size:19 final size:19
Alignment explanation
Indices: 28824010--28824066 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 19
28824000 ATGCACACAT
* *
28824010 GATTTCACTAATCATACAC
1 GATTCCACTAATCAAACAC
* *
28824029 GATTCCACTAATCAGACAT
1 GATTCCACTAATCAAACAC
* *
28824048 AATTCAACTAATCAAACAC
1 GATTCCACTAATCAAACAC
28824067 CATTAACGAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.42, C:0.26, G:0.05, T:0.26
Consensus pattern (19 bp):
GATTCCACTAATCAAACAC
Found at i:28830959 original size:43 final size:43
Alignment explanation
Indices: 28830910--28830998 Score: 151
Period size: 43 Copynumber: 2.1 Consensus size: 43
28830900 TAGTATTAAG
* *
28830910 ATTACTTGTTTAAAATTTAATTTACTCTTTAAATGCAACCCAA
1 ATTACTTGTTTAAAATTTAAATTACTCTTTAAATACAACCCAA
*
28830953 ATTACTTGTTTAAAATTTAAATTACTCTTTAAATACAATCCAA
1 ATTACTTGTTTAAAATTTAAATTACTCTTTAAATACAACCCAA
28830996 ATT
1 ATT
28830999 TCATCGAGAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.39, C:0.15, G:0.03, T:0.43
Consensus pattern (43 bp):
ATTACTTGTTTAAAATTTAAATTACTCTTTAAATACAACCCAA
Found at i:28831013 original size:23 final size:23
Alignment explanation
Indices: 28830987--28831044 Score: 116
Period size: 23 Copynumber: 2.5 Consensus size: 23
28830977 CTCTTTAAAT
28830987 ACAATCCAAATTTCATCGAGATG
1 ACAATCCAAATTTCATCGAGATG
28831010 ACAATCCAAATTTCATCGAGATG
1 ACAATCCAAATTTCATCGAGATG
28831033 ACAATCCAAATT
1 ACAATCCAAATT
28831045 ATGCAATATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.26
Consensus pattern (23 bp):
ACAATCCAAATTTCATCGAGATG
Found at i:28832786 original size:19 final size:19
Alignment explanation
Indices: 28832759--28832815 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 19
28832749 ATGCACACAT
* *
28832759 GATTTCACTAATCATACAC
1 GATTCCACTAATCAAACAC
* *
28832778 GATTCCACTAATCAGACAT
1 GATTCCACTAATCAAACAC
* *
28832797 AATTCAACTAATCAAACAC
1 GATTCCACTAATCAAACAC
28832816 CATTAACGAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.42, C:0.26, G:0.05, T:0.26
Consensus pattern (19 bp):
GATTCCACTAATCAAACAC
Found at i:28840883 original size:15 final size:16
Alignment explanation
Indices: 28840863--28840900 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
28840853 AAATTCCACT
28840863 AGAAAATAAGCAA-AA
1 AGAAAATAAGCAATAA
*
28840878 AGAAAA-CAGCAATAA
1 AGAAAATAAGCAATAA
28840893 AGAAAATA
1 AGAAAATA
28840901 TTAACTCAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.71, C:0.08, G:0.13, T:0.08
Consensus pattern (16 bp):
AGAAAATAAGCAATAA
Found at i:28843169 original size:216 final size:216
Alignment explanation
Indices: 28842880--28847378 Score: 5082
Period size: 216 Copynumber: 20.9 Consensus size: 216
28842870 TAAAACACTT
* * * * *
28842880 CATGCTCGAGAAATCGCATCATTTAGCCCAAATAGTTTTTCATTTTGTAAACAACTTTTAGT-TT
1 CATGCTCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTT
28842944 CTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTCCGAACT
66 -TGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTCCGAACT
** * * * * *
28843009 TACCAATCTTTTACGAGTTCTTTTATAACATCGGTTTCTTAAAGTATTAAAGACGATCAATTCCT
130 TTTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCT
*
28843074 TCGAGCAATTTTCCAAACATTC
195 TCGAGCAATTTTCCGAACATTC
* * * *
28843096 CATGCTCGAGAAATCGCATC-TTCTAGTCCAAATAGTTTGCCATTTTGTAAAAAACTTTTGGTCT
1 CATGCTCGGGAAATCGCATCATT-TGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCT
* * * *
28843160 TTAAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGATTCTTGGCCGAACTTTCGTAC-
65 TTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTCCGAACT
* * * *
28843224 TTGCTAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTAAAGATGATTCATTCC
130 TTTC-AAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCC
* *
28843289 TTCGAGCAATTTTCTGAACATTT
194 TTCGAGCAATTTTCCGAACATTC
** * * * * **
28843312 CATGCTTAGGAAATTGCATCATTTGATCCAAATAGTTTGACATTTTGTACACAACTTTCAGTCTT
1 CATGCTCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTT
* * * * * *
28843377 TAAATTAAAAATTTATTTACGTGACAATTGTTTCTCTCTTGGTTCATGGTCGAACTTCCAAACTT
66 TGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTCCGAACTT
* ** * **
28843442 GTCAATGTTTTACGAGTTCTTTTACAACTTCAATTCCTTAAAGTATTCAAGACGATCCATTCCTT
131 TTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTT
* *
28843507 CGAGCAAATTTCTGAACATTC
196 CGAGCAATTTTCCGAACATTC
** * * *
28843528 CATGCTTAGGAAATCTCATCATCTGGTCCAAATAATTTGTCATTTTGTAAACAACTTTTGGTCTT
1 CATGCTCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTT
* * *
28843593 TAAATTAAAAACTTATTTACGTGAGAATTATTTCTCTCTTGGTTTTTGGCCGAACTTCCGAACTT
66 TGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTCCGAACTT
* * * * * *
28843658 TTTAAACTTTTACGAGTTATTTTATAACTTCAGTTCTTTAAAGTATTCAAAATGATCCATTCCTT
131 TTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTT
* **
28843723 CGAGTAATTTTTTGAACATTC
196 CGAGCAATTTTCCGAACATTC
* * * *
28843744 TATGCTCGGGAAATCGTATCATTTGGTCCAAATAGATTGTCATTTTGTAAAAAACTTTTGGTCTT
1 CATGCTCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTT
* * * * * *
28843809 TGAATTAAAAACTTATTTACATGAAAATTGTTTCTCT-TTAGGTTCTAGGTCGAACTTCCAAACG
66 TGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTT-GGTTCTTGGCCGAACTTCCGAACT
* **
28843873 TTTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACAATCCATTTTT
130 TTTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCT
* *
28843938 TCGAGAAATTTTCCGAAGATTC
195 TCGAGCAATTTTCCGAACATTC
** *
28843960 CATGCTCAAGAAATCACATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTT
1 CATGCTCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTT
* * * *
28844025 TCAATTAAAAACTTATTTACGTGCA-AATTGTTTCTCTGTTGGTTCTTGGTCAAACTTCCGAACT
66 TGAATTAAAAACTTATTTACGTG-AGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTCCGAACT
* * * *
28844089 TGT-AAAATTTTACGAGTTTTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCT
130 TTTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCT
*
28844153 TC--G---TATT-CGAGACGA-TC
195 TCGAGCAATTTTCCGA-AC-ATTC
* * * * * ** *
28844170 CATTCCTTCGAGCAATTTTTCGAACATTCCATGCTTGG--GAAATCG--CATCATTTGGTCCAAA
1 CA-TGC-TCG-GGAA---ATCG--CA-T-CAT--TTGGTCCAAATAGTTTGTCATTTTGT--AAA
* * * * * * * *
28844231 -TA-GTTT-GTCAATTTG---TAAACAACTT-TTGTTCTTTGGATTAAAAACTTATTTATATGAG
52 CAACTTTTGGTC--TTTGAATTAAA-AACTTATT-TAC----G--TGAGAA-TTGTTTCTCT---
* * **** * * * *
28844289 AATTGTTTCTCTATTTGTTA-TTGGCCAAACTTCCGAACTTTTAAAACTTTTTCGAGTTCTTTTA
103 -CTTGGTTCT-TGGCCG-AACTT--CC-GA-------ACTTTTCAAACTTTTACGAGTTCTTTTA
* * *
28844353 TAAATTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCTAACATTC
155 TAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTCCGAACATTC
* * *
28844415 CATGCTCGCGAAATCGCATCATTTAGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTT
1 CATGCTCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTT
* *
28844480 TAAATTAAAAACGTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTT--G-----
66 TGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTCCGAACTT
* * * ** *
28844538 -TCAAACTTTTACAAGTTATTTTATAACTTCAGTTCCTTAAAGTATTCAAGATAATCCGTTCCTT
131 TTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTT
* ** *
28844602 CGAGAAATTTTTTGAACACTC
196 CGAGCAATTTTCCGAACATTC
* *
28844623 CATGCTCGGGAAATCGCGTCATTTGGTCCAAATAATTTGTCATTTTGTAAACAACTTTTGGTCTT
1 CATGCTCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTT
* * *** * * * *
28844688 TGAATTAAAACCTTATTTACGTGAGAATTATTTCTCTCTTGGTTCTTGGATAAACATCTGACCTA
66 TGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTCCGAACTT
* * * * * *
28844753 GTCAAACTTTTGCGAGTTCTTTTATAACTTCAGTTCCTTATAGTATTCTAGACGATTCATTCCTT
131 TTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTT
** *
28844818 CGAGCAATTTTTTGAATATTC
196 CGAGCAATTTTCCGAACATTC
* * * *
28844839 CATGCTCGGGAAATCACATCATTTAGTCCAAAAAGTTTGTCATTTTGTAAACAAATTTTGGTCTT
1 CATGCTCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTT
* * * * * * *
28844904 TGGATTAAAAACTTATTTCCATGAGAAATGTTTCTCTTTTGGTTCTTAGCCGAACTTCCAAACTT
66 TGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTCCGAACTT
* ** *
28844969 TTTAAA-TTTTTTGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTA
131 TTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTT
* *
28845033 CGAGAAATTTTTCG------C
196 CGAGCAATTTTCCGAACATTC
*
28845048 CATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTT
1 CATGCTCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTT
* * *
28845113 TGAATTAAAAACTTATTTACGTGAGAATTATTTTTCTCCTT-GTTCTTGGCCGAACTTTCGAACT
66 TGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCT-CTTGGTTCTTGGCCGAACTTCCGAACT
* * * * *
28845177 TGTAAAAATTTTATGAGTTCTTTTATAACTTCGGTTCTTTAAAGTATTCAAGACGATCCATTCCT
130 TTTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCT
* * *
28845242 TTGACCAATTTTTCGAACATTC
195 TCGAGCAATTTTCCGAACATTC
* * *
28845264 CATGCTCGGGAAATCGGATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGTTCTT
1 CATGCTCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTT
* ** * * * *
28845329 TGGATTAAAAACTTATTTATATGAGAATTGTTTCTCTATTTGTTATTGGCCAAACTTCCGAACTT
66 TGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTCCGAACTT
* * *
28845394 TTAAAACTTTTTCGAGTTCTTTTATAAATTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTT
131 TTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTT
* *
28845459 CGAGCAATTTTTCTAACATTC
196 CGAGCAATTTTCCGAACATTC
* * *
28845480 CATGCTCGCGAAATCGCATCATTTAGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTT
1 CATGCTCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTT
* *
28845545 TAAATTAAAAACGTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTT--G-----
66 TGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTCCGAACTT
* * * **
28845603 -TCAAACTTTTACAAGTTATTTTATAACTTCAGTTCCTTAAAGTATTCAAGATAATCCATTCCTT
131 TTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTT
* ** *
28845667 CGAGAAATTTTTTGAACACTC
196 CGAGCAATTTTCCGAACATTC
* *
28845688 CATGCTCGGGAAATCGCGTCATTTGGTCCAAATAATTTGTCATTTTGTAAACAACTTTTGGTCTT
1 CATGCTCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTT
* * *** * * * *
28845753 TGAATTAAAACCTTATTTACGTGAGAATTATTTCTCTCTTGGTTCTTGGATAAACATCTGACCTA
66 TGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTCCGAACTT
* * * * * *
28845818 GTCAAACTTTTGCGAGTTCTTTTATAACTTCAGTTCCTTATAGTATTCTAGACGATTCATTCCTT
131 TTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTT
** *
28845883 CGAGCAATTTTTTGAATATTC
196 CGAGCAATTTTCCGAACATTC
* * * *
28845904 CATGCTCGGGAAATCACATCATTTAGTCCAAAAAGTTTGTCATTTTGTAAACAAATTTTGGTCTT
1 CATGCTCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTT
* * * * * * *
28845969 TGGATTAAAAACTTATTTCCATGAGAAATGTTTCTCTTTTGGTTCTTAGCCGAACTTCCAAACTT
66 TGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTCCGAACTT
* ** *
28846034 TTTAAA-TTTTTTGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTA
131 TTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTT
* *
28846098 CGAGAAATTTTTCG------C
196 CGAGCAATTTTCCGAACATTC
*
28846113 CATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTT
1 CATGCTCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTT
* * *
28846178 TGAATTAAAAACTTATTTACGTGAGAATTATTTTTCTCCTT-GTTCTTGGCCGAACTTTCGAACT
66 TGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCT-CTTGGTTCTTGGCCGAACTTCCGAACT
* * * * *
28846242 TGTAAAACTTTTATGAGTTCTTTTATAACTTTGGTTCTTTAAAGTATTCAAGACGATCCATTCCT
130 TTTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCT
* * *
28846307 TTGACCAATTTTTCGAACATTC
195 TCGAGCAATTTTCCGAACATTC
* *
28846329 CATGCTCGGGAAATCGGATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTGTT
1 CATGCTCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTT
* * * * * *
28846394 TGGATTAAAAACTTATTTACATGAGAATTGTTTCTTTCTTGGTTCTTGGTCGAACATCCGAGCTT
66 TGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTCCGAACTT
* * * * * * **
28846459 TTAAAACTTTTTCGAGTTCTTTTATAACTTTGTTTCCTTACAGTATTCAAGATGATTGATTCCTT
131 TTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTT
*
28846524 CGAGCAATTTTCCAAACATTC
196 CGAGCAATTTTCCGAACATTC
* * * * *
28846545 CATGCTCGAGAAATCGCATCATTTAGCCCAAATAGTTTTTCATTTTGTAAACAACTTTTAGT-TT
1 CATGCTCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTT
28846609 CTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTCCGAACT
66 -TGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTCCGAACT
** * * * * *
28846674 TACCAATCTTTTACGAGTTCTTTTATAACATCGGTTTCTTAAAGTATTAAAGACGATCAATTCCT
130 TTTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCT
*
28846739 TCGAGCAATTTTCCAAACATTC
195 TCGAGCAATTTTCCGAACATTC
* * * * *
28846761 CATGCTCGAGAAATCGCATCATTTGGTCAAAATAGTTTGTCATTTTCTAAAAAACTTTTGGTATT
1 CATGCTCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTT
* * *
28846826 TGAATTAAAAACTTATTTACGTGAGACTTGTTTCTCTCTTAGTTCTTGGCCAAACTTCCGAACTT
66 TGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTCCGAACTT
** * * * ** * *
28846891 ACCAAACTGTTATGAGTTATTTTATAACTTCTTTTCCTTAAAGTATTCAAGACAATCCATTCCAT
131 TTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTT
28846956 CGAGCAATTTTCCGAACATTC
196 CGAGCAATTTTCCGAACATTC
** * * *
28846977 CATGCTCAAGAAATCACATAATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTT
1 CATGCTCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTT
* * * * * * *
28847042 TGAATTAAAAACTTTTTTACGTAAGAATTATTTCTCTCTTGGTTCTTAGCCAAACTTTCGAAGTT
66 TGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTCCGAACTT
* * *
28847107 GTAAAACTTTTACGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGACGATCCATTCCTT
131 TTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTT
* * * *
28847172 CAAGTATTTTTCCGAACACTC
196 CGAGCAATTTTCCGAACATTC
*
28847193 CATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTT
1 CATGCTCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTT
* * * *
28847258 TGGATTAAAAACTTATTTACATGAGAATTGTCTCTCTCTTGGTTCTTGGCCGAACTTCTGAACTT
66 TGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTCCGAACTT
* * * *
28847323 TTCAAACTTTTCCAAGTTATTTTATAACTTCGGTTCTTTAAAGTATTCAAGACGAT
131 TTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGAT
28847379 TGTAACGCGT
Statistics
Matches: 3634, Mismatches: 541, Indels: 216
0.83 0.12 0.05
Matches are distributed among these distances:
208 363 0.10
209 237 0.07
210 145 0.04
211 3 0.00
212 2 0.00
213 3 0.00
214 1 0.00
215 196 0.05
216 2446 0.67
217 21 0.01
218 13 0.00
219 5 0.00
220 11 0.00
221 1 0.00
222 5 0.00
223 3 0.00
224 7 0.00
225 1 0.00
226 4 0.00
227 7 0.00
228 7 0.00
229 4 0.00
230 1 0.00
231 9 0.00
232 5 0.00
233 3 0.00
234 1 0.00
235 11 0.00
236 5 0.00
237 13 0.00
238 9 0.00
239 14 0.00
240 58 0.02
242 3 0.00
243 3 0.00
244 3 0.00
245 9 0.00
246 2 0.00
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (216 bp):
CATGCTCGGGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTT
TGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTCCGAACTT
TTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTT
CGAGCAATTTTCCGAACATTC
Found at i:28844165 original size:24 final size:24
Alignment explanation
Indices: 28844131--28844179 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
28844121 ATTCCTTAAA
28844131 GTATTCAAGACGATCCATTCCTTC
1 GTATTCAAGACGATCCATTCCTTC
*
28844155 GTATTCGAGACGATCCATTCCTTC
1 GTATTCAAGACGATCCATTCCTTC
28844179 G
1 G
28844180 AGCAATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (24 bp):
GTATTCAAGACGATCCATTCCTTC
Found at i:28857012 original size:17 final size:17
Alignment explanation
Indices: 28856973--28857030 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
28856963 ATATATATGG
**
28856973 AAATGCAATGACAATGT
1 AAATGCAATGACAATAA
* *
28856990 ATATGCAGTGACAATAA
1 AAATGCAATGACAATAA
*
28857007 AAATGCAATGACATTAA
1 AAATGCAATGACAATAA
*
28857024 TAATGCA
1 AAATGCA
28857031 GGGACAATTA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (17 bp):
AAATGCAATGACAATAA
Found at i:28857030 original size:34 final size:34
Alignment explanation
Indices: 28856973--28857038 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 34
28856963 ATATATATGG
*
28856973 AAATGCAATGACAATGTATATGCAGTGACAATAA
1 AAATGCAATGACAATGTATATGCAGGGACAATAA
28857007 AAATGCAATGAC-AT-TAATAATGCAGGGACAAT
1 AAATGCAATGACAATGT-AT-ATGCAGGGACAAT
28857039 TATACTACAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 1 0.03
33 4 0.14
34 24 0.83
ACGTcount: A:0.47, C:0.12, G:0.18, T:0.23
Consensus pattern (34 bp):
AAATGCAATGACAATGTATATGCAGGGACAATAA
Found at i:28857036 original size:17 final size:17
Alignment explanation
Indices: 28856973--28857038 Score: 60
Period size: 17 Copynumber: 3.9 Consensus size: 17
28856963 ATATATATGG
* **
28856973 AAATGCAATGACAATGT
1 AAATGCAGTGACAATAA
*
28856990 ATATGCAGTGACAATAA
1 AAATGCAGTGACAATAA
* *
28857007 AAATGCAATGACATTAA
1 AAATGCAGTGACAATAA
* *
28857024 TAATGCAGGGACAAT
1 AAATGCAGTGACAAT
28857039 TATACTACAG
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 38 1.00
ACGTcount: A:0.47, C:0.12, G:0.18, T:0.23
Consensus pattern (17 bp):
AAATGCAGTGACAATAA
Found at i:28863147 original size:20 final size:21
Alignment explanation
Indices: 28863108--28863147 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
28863098 ATCATTAAGC
*
28863108 CTTAATTAATCATCTTTTTAAT
1 CTTAATTAA-CATCTATTTAAT
28863130 CTTAATTAA-ATCTATTTA
1 CTTAATTAACATCTATTTA
28863148 CTTAATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
22 9 0.53
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (21 bp):
CTTAATTAACATCTATTTAAT
Found at i:28869747 original size:216 final size:214
Alignment explanation
Indices: 28869364--28871493 Score: 2039
Period size: 216 Copynumber: 10.0 Consensus size: 214
28869354 ATGCTATCAT
* * * *
28869364 CGAACTTCCGAACTTGTCAAACTTTTTTGAGTTCTTTTAAAACTTCGGTTCCTTAAAGTATTCAA
1 CGAACTTCCGAACTTTTCAAACTTTTTCGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAA
* * * * *
28869429 GATGATTATTTCCTCCGAGCAATTTTCCGAACATTCCATTCTCGGGAAATCGCATCATCTGGTCT
66 GATGATCA-TTCCTTCGAGCAATTTTCCGAACATTCCATTCTCGGGAAATCACATC-TTTGGTCC
* * * * * *
28869494 AAATAGTTTCTCCTTTTGAAAAAAACTTTCAGTCTTTGAATTAAAAACTTATTTACGTGAGAATG
129 AAATAATTTGTCATTTTGTAAAAAACTTTCAGTCTTTGAATTAAAAACTTATTTATGTGAGAATT
28869559 GTTTCTCTCTTGGTTCTTGGC
194 GTTTCTCTCTTGGTTCTTGGC
* * *
28869580 CGAACTTCCGAACTTTTCAAACTTTTTCGAGTTCCTTTATAACTTCTATTCCTTCAAGTATTCAA
1 CGAACTTCCGAACTTTTCAAACTTTTTCGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAA
**
28869645 GATGATGCATTCCTTCGAGCAATTTTTTGAACATTCCATTCTCGGGAAATCACATCTTATGGTCC
66 GATGAT-CATTCCTTCGAGCAATTTTCCGAACATTCCATTCTCGGGAAATCACATCTT-TGGTCC
* * **
28869710 AAATAATCTGTCATTTTGTAAAGAACTTTTGGTCTTTGAATTAAAAACTTATTTATGTGAGAATT
129 AAATAATTTGTCATTTTGTAAAAAACTTTCAGTCTTTGAATTAAAAACTTATTTATGTGAGAATT
*
28869775 -TTT-TCTCTTCGTTCTTGGC
194 GTTTCTCTCTTGGTTCTTGGC
* * *
28869794 CGAACTTTCGAA-TTTGTCAAACTTTTTCGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCA
1 CGAACTTCCGAACTTT-TCAAACTTTTTCGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCA
* * ** ** * *
28869858 AGATGATCGATTCCTTCGAGTAATTTTCCAAACATTTTAGCCTCGGGAAATTGTAC-TATTTGGT
65 AGATGATC-ATTCCTTCGAGCAATTTTCCGAACATTCCATTCTCGGGAAA-T-CACATCTTTGGT
* * * * * **
28869922 CCAAACAGTTTGTCCTTTTGTAAAAAACTTTCAATCTTTGAATTAAAAGCTTATTTATACGAGAA
127 CCAAATAATTTGTCATTTTGTAAAAAACTTTCAGTCTTTGAATTAAAAACTTATTTATGTGAGAA
*
28869987 TTGTTTCTCTCTTTGTTCTTGGC
192 TTGTTTCTCTCTTGGTTCTTGGC
28870010 CGAACTTCCGAACTTTTCAAACTTTTTCGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAA
1 CGAACTTCCGAACTTTTCAAACTTTTTCGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAA
* * ** ** * * * *
28870075 GACGATCCATTTCTTCGAATAATTTTTAGAAAATTCCATTATTGGGAAATCGCATCATTTGGTCC
66 GATGAT-CATTCCTTCGAGCAATTTTCCGAACATTCCATTCTCGGGAAATCACATC-TTTGGTCC
* * ** *
28870140 AAACTAATATGTCATTTTGTAAACAACTTTTGGT-TATTGGATTAAAAACTTATTTATGTGAGAA
129 AAA-TAATTTGTCATTTTGTAAAAAACTTTCAGTCT-TTGAATTAAAAACTTATTTATGTGAGAA
28870204 TTGTTTCTCTCTTGGTTCTTGGC
192 TTGTTTCTCTCTTGGTTCTTGGC
* * * * * * * *
28870227 CAAACTTCCGAAATTTTCAAAATTTTT-GAGTTCTTTCACAACTTTGGTTCCTT----TCCTTC-
1 CGAACTTCCGAACTTTTCAAACTTTTTCGAGTTCTTTTATAACTTCGATTCCTTAAAGT-ATTCA
* * * * *
28870286 -GA-G-TAATT-TTTTGAAC-ATTCATTCTCGAGA-A----A---TC---ACAT--CA--TTTGG
65 AGATGATCATTCCTTCGAGCAATT--TTC-CGA-ACATTCCATTCTCGGGAAATCACATCTTTGG
* * * * * * *
28870331 TCCAAATAATCTATCATTTTGTAAACAACTTTTAGTCTTTGGATTAAAAACTAATTTATATGAGA
126 TCCAAATAATTTGTCATTTTGTAAAAAACTTTCAGTCTTTGAATTAAAAACTTATTTATGTGAGA
*
28870396 ATTGTTTCTCTCTTGGTTCTTGGA
191 ATTGTTTCTCTCTTGGTTCTTGGC
* * * * *
28870420 CGAACATCCGAACTTGTCAAACTTTTTTGAGTTCTTTTAAAACTTCGGTTCCTTAAAGTATTCAA
1 CGAACTTCCGAACTTTTCAAACTTTTTCGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAA
* * ** * * **
28870485 GAGGATCGATTCCTTCAAGCAATTTTTTGAACATTCCATGCTCGAGAAATCGTATCATTTGGTCC
66 GATGATC-ATTCCTTCGAGCAATTTTCCGAACATTCCATTCTCGGGAAATCACATC-TTTGGTCC
* * *
28870550 AAATAGTTTGTCCTTTTGTAAAAAACTTTCAGTCTTTGAATTAAAAAAC-TATTTACGTGAGAAT
129 AAATAATTTGTCATTTTGTAAAAAACTTTCAGTCTTTGAATT-AAAAACTTATTTATGTGAGAAT
*
28870614 GGTTTCTCTCTTGGTTCTTGGC
193 TGTTTCTCTCTTGGTTCTTGGC
* *
28870636 CGAACTTCCGAACTTTTCAAACATTTTCGAGTTCTTTTATAACTTCGTTTCCTTAAAGTATTCAA
1 CGAACTTCCGAACTTTTCAAACTTTTTCGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAA
* * * * **
28870701 GATGAACCATTCCTTCGAGCAATCTTT-TGAACATTTCATTCTCGAGAAATTGCATCGTTTGGTC
66 GATG-ATCATTCCTTCGAGCAAT-TTTCCGAACATTCCATTCTCGGGAAATCACATC-TTTGGTC
* ** * *
28870765 CAAATAATCTGTCATTTTGTAAAGAAA-TTTTGGTCTTTGGATTTAAAACTTATTTATGTGAGAA
128 CAAATAATTTGTCATTTTGTAAA-AAACTTTCAGTCTTTGAATTAAAAACTTATTTATGTGAGAA
*
28870829 TTG-TTCGCTCTTGGTTCTTGGC
192 TTGTTTCTCTCTTGGTTCTTGGC
* **** * *
28870851 CGAACTTTCGAACTAGAAAAACTTTTTCGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAA
1 CGAACTTCCGAACTTTTCAAACTTTTTCGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAA
* * * * ** * * * *
28870916 GACGATCAATTCCTTCGAGCAATTTTTTCAAACACTCCAGCCTCGGTAAAGCGCACCATTTGGTC
66 GATGATC-ATTCCTTCGAGCAA-TTTTCCGAACATTCCATTCTCGGGAAATCACATC-TTTGGTC
* * ** *
28870981 CAAATAGTTTGTCCTTTTGTAAAAAACTTTTGGTCTTTAAATTAAAAACTTATTTATGTGAGAAT
128 CAAATAATTTGTCATTTTGTAAAAAACTTTCAGTCTTTGAATTAAAAACTTATTTATGTGAGAAT
28871046 TGTTTCTCTCTTGGTTCTTGGC
193 TGTTTCTCTCTTGGTTCTTGGC
** *
28871068 CGAACTTTAGAACTTTTCAAACTTTTTCGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAA
1 CGAACTTCCGAACTTTTCAAACTTTTTCGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAA
* * * ** ** *
28871133 GATGATTCATTCCTTGGAGCAATTTTTCAAACATTTGATTCTCGGGAAATTGCATCATTTCGTCC
66 GATGA-TCATTCCTTCGAGCAATTTTCCGAACATTCCATTCTCGGGAAATCACATC-TTTGGTCC
* * * * ** * * * *
28871198 AAATAATCTGTTATTTTGTAAACAATTTTTGGTCATTGGATTAAAAATTTATTTACGTGAGAATT
129 AAATAATTTGTCATTTTGTAAAAAACTTTCAGTCTTTGAATTAAAAACTTATTTATGTGAGAATT
* ** **
28871263 ATTTCTCTAATGGTTCTTAAC
194 GTTTCTCTCTTGGTTCTTGGC
* * * *
28871284 CGAACTTCCGAACTTGTCAAAATTTTACAAGTTCTTTT-TAACTTC-AGTTCCTTAAAGTATTCA
1 CGAACTTCCGAACTTTTCAAACTTTTTCGAGTTCTTTTATAACTTCGA-TTCCTTAAAGTATTCA
** * * * * * * * * * *
28871347 AGACCATCCATTCCATCTAGCAATTTTTCGAACCTTTCATGCTTGAGAAATCGCATCAATTGGTC
65 AGATGAT-CATTCCTTCGAGCAATTTTCCGAACATTCCATTCTCGGGAAATCACATC-TTTGGTC
* * * ** * * ** *
28871412 CAAATAGTTTGTTATTTTGTAAACAACTTTTTGTCTTTGAATGAAAGACTTATTTACATGTGAAT
128 CAAATAATTTGTCATTTTGTAAAAAACTTTCAGTCTTTGAATTAAAAACTTATTTATGTGAGAAT
*
28871477 TGTTTCTCTCCTGGTTC
193 TGTTTCTCTCTTGGTTC
28871494 CTTAAAGTGT
Statistics
Matches: 1594, Mismatches: 259, Indels: 123
0.81 0.13 0.06
Matches are distributed among these distances:
193 97 0.06
194 35 0.02
197 5 0.00
198 1 0.00
199 5 0.00
200 2 0.00
201 4 0.00
202 6 0.00
203 4 0.00
204 3 0.00
205 2 0.00
206 3 0.00
207 5 0.00
208 7 0.00
209 4 0.00
210 2 0.00
211 5 0.00
212 1 0.00
213 8 0.01
214 173 0.11
215 256 0.16
216 759 0.48
217 205 0.13
218 2 0.00
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (214 bp):
CGAACTTCCGAACTTTTCAAACTTTTTCGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAA
GATGATCATTCCTTCGAGCAATTTTCCGAACATTCCATTCTCGGGAAATCACATCTTTGGTCCAA
ATAATTTGTCATTTTGTAAAAAACTTTCAGTCTTTGAATTAAAAACTTATTTATGTGAGAATTGT
TTCTCTCTTGGTTCTTGGC
Found at i:28871594 original size:160 final size:161
Alignment explanation
Indices: 28871330--28871654 Score: 442
Period size: 160 Copynumber: 2.0 Consensus size: 161
28871320 TTTAACTTCA
* * * *
28871330 GTTCCTTAAAGTATTCAAGACCATCCATTCCATCTAGCAATTTTTCGAACCTTTCATGCTTGAGA
1 GTTCCTTAAAGTATTCAAGACCATCCATTCCATCGAGCAATTTTTCGAACATTCCATGCTCGAGA
* * *
28871395 AATCGCATCAATTGGTCCAAATAGTTTGTTATTTTGTAAACAACTTTTT-GTCTTTGAATGAAAG
66 AATCGCATCAATTAGACCAAATAGTTTGTTATTTTGTAAACAACTTTTTAGTCTTTGAATGAAAA
*
28871459 ACTTATTTACATGT-GAATTGTTTCTCTCCTG
131 ACTTATTAACAT-TAGAATTGTTTCTCTCCTG
* ** *
28871490 GTTCCTTAAAGTGTTCAAGATGATCCATT-CATTCGAGCAA-TTTTCTGAGCATTCCATGCTCGA
1 GTTCCTTAAAGTATTCAAGACCATCCATTCCA-TCGAGCAATTTTTC-GAACATTCCATGCTCGA
* * * *
28871553 GAAATCGCATCATTTAGACGAAGTAGTTTGTTATTTTGTAAACAACTTTTTAGTCTTTGAATTAA
64 GAAATCGCATCAATTAGACCAAATAGTTTGTTATTTTGTAAACAACTTTTTAGTCTTTGAATGAA
*
28871618 AAACTTATTAACATTAGAATTGTTTCTCTCTTG
129 AAACTTATTAACATTAGAATTGTTTCTCTCCTG
28871651 GTTC
1 GTTC
28871655 TTGGTCAAAC
Statistics
Matches: 144, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
159 7 0.05
160 93 0.65
161 44 0.31
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (161 bp):
GTTCCTTAAAGTATTCAAGACCATCCATTCCATCGAGCAATTTTTCGAACATTCCATGCTCGAGA
AATCGCATCAATTAGACCAAATAGTTTGTTATTTTGTAAACAACTTTTTAGTCTTTGAATGAAAA
ACTTATTAACATTAGAATTGTTTCTCTCCTG
Found at i:28871955 original size:216 final size:216
Alignment explanation
Indices: 28871489--28884791 Score: 14661
Period size: 216 Copynumber: 61.9 Consensus size: 216
28871479 TTTCTCTCCT
* * * * *
28871489 GGTTCCTTAAAGTGTTCAAGATGATCCATTCATTCGAGCAA-TTTTCTGAGCATTCCATGCTCGA
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTC-GAACATTCCATGCTCGG
* * * * * *
28871553 GAAATCGCATCATTTAGACGAAGTAGTTTGTTATTTTGTAAACAACTTTTTAGTCTTTGAATTAA
65 GAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAAC-TTTTGGTCTTTGAATTAA
* ** * * * *
28871618 AAACTTATTAACATTAGAATTGTTTCTCTCTTGGTTCTTGG-TCAAACTTCCAAACTTTTCAAAC
129 AAACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCT-GAACTTCCGAACTTGTCAAAC
* *
28871682 TTTTTCGAGTTCTATTATAGCTTC
193 TTTTTCGAGTTCTTTTATAACTTC
* * * * * * * *
28871706 GATTCCTCACAGTATTCAAGATGATTCATTCCTTCGAGCAATTTTTTGAACATTCCAAGCTCAGG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
* *
28871771 AAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACATTTGGTCTTAGAATTAAAA
66 AAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAA
* * * * * * *
28871836 ACTTGTTTACGTGAGAATGGTTTCTCCCTTGGTTCTTGACTGAACCTT-AGAACTTGTCAAACTA
131 ACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAA-CTTCCGAACTTGTCAAACTT
*
28871900 TTTCGAGTTCTTTTATAACTTT
195 TTTCGAGTTCTTTTATAACTTC
* * * * * * **
28871922 GGTTGCTTATAGTATTCAAGACGATCGATTCCTTCAAGCAA-TTTTCCAGTCATTTTA-GCCTCG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGA-ACATTCCATG-CTCG
* * * * * * *
28871985 AGAAATCACAACATTTGGTCCAAATAGTTTGTCCTTTTGTAAAAAACTTTCGATCTTTGAATTAA
64 GGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAA
* * ** *
28872050 AAACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTAGCCGAACTTTTGAACTTTTCAAACT
129 AAACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACTTGTCAAACT
* *
28872115 TTTTCGAGTTCTTTTACAACTTT
194 TTTTCGAGTTCTTTTATAACTTC
* * * * * * *
28872138 GTTTCCTTAAAGTATTCAAGACGATCCATTTCTTCAAACAATTTTTCGAACATTCAATTCTTGGG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
* * * * *
28872203 AAATCACATCATTTGGTCCAAATAATCTGTCATTTTGTAAACAACTTTTGGTCTTTCAATTAATA
66 AAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAA
* * *
28872268 ACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTCTGAACTAGTCAAACTTT
131 ACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACTTGTCAAACTTT
* * *
28872333 TTCGAGTACCTTCATAACTTC
196 TTCGAGTTCTTTTATAACTTC
* * * *
28872354 GGTTCCTTAAAGTATTCAAGACGA-CTGATTCCTTCGAGCAATTTTCCAAATATT-C---CTCGG
1 GGTTCCTTAAAGTATTCAAGACGATC-CATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGG
* * * * * *
28872414 GAAATCACACCATTTGGTCAAAATAGTTTGTCCTTTTGTAAAAAACTTTTGGTCTTTAAATTAAA
65 GAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAA
* * * *
28872479 AACTTATTTATGTGAGAATTGTTTCTCACTTGATTCTTGGCTGAACTTCCGAACTTTTCAGACTT
130 AACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACTTGTCAAACTT
*
28872544 TTTCGAGTTCTTTTATAGCTTC
195 TTTCGAGTTCTTTTATAACTTC
* *
28872566 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTTGAGCAATTTTTCGAACGATT-C-T--T-AG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAAC-ATTCCATGCTCGG
* * * * * *
28872626 GAAATTGCATCATTTGGTCCAAATAATCTGTTATTTTGTAAACAACTTTTGTTCTTTGGATTAAA
65 GAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAA
* * * * * * *
28872691 AACTGATTTACGTGAGAATTATTTCTCTCTTAGTTCTTAGCCGAACTTTCGAACTTGTCAAACTT
130 AACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACTTGTCAAACTT
28872756 TTAT-GAGTTCTTTT-TAACTTC
195 TT-TCGAGTTCTTTTATAACTTC
* * * * **
28872777 GGTTCATTAAAGTATTCAAGATGATCCATTCCTTCTAACAATTTTTCGAACATTCCATGCTCTAG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
* * ** * **
28872842 AAATCGCATCATTTGGTCCAAATAGTTTGTTAGTTCATAAACAACTTTTGGTCTTTGAATTGAGT
66 AAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAA
* * * *
28872907 ACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACATCTGAA-TATGTCAAACTT
131 ACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACT-TGTCAAACTT
* * *
28872971 TTACAAGTTC-TTTATAACTTT
195 TTTCGAGTTCTTTTATAACTTC
* * * * * * * * *
28872992 GG-T-CTT--TGAATTAAAGACGATCAATTCCTTTGAGTAA-TTTTCTAAGCATTCCATGATCGA
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAA-CATTCCATGCTCGG
* * * * *
28873052 GAAATTGCATCATTTCGACCAAGTAGTTTGTCATTTTGTAAACAACTTTTGCTCTTTGAATTAAA
65 GAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAA
* * ** * * *
28873117 AACATATTAACATTAGAATT-TTCTCTCTCTTGGTTCTTGGAC-GAACTTCC-AACTTTTAAAAC
130 AACTTATTTATGTGAGAATTGTT-TCTCTCTTGGTTCTTGG-CTGAACTTCCGAACTTGTCAAAC
* * *
28873179 TTTTTCAAGTTCTATTATAGCTTC
193 TTTTTCGAGTTCTTTTATAACTTC
* *
28873203 GATTCCTTACAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
* * * *
28873268 AAATCGCATCAATTGGTCCAAATAGTTTTTCATTTTGTAAAAAACTTTTGGTCTTAGAATTAAAA
66 AAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAA
* * * * * *
28873333 A-TTATTTATGTGAGAATGGCTTCTCCCTTGGTTCTTGACTGAACTTTCGAACATGTCAAACTTT
131 ACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACTTGTCAAACTTT
*
28873397 TTTGAGTTCTTTTATAACTTC
196 TTCGAGTTCTTTTATAACTTC
* * * * * *
28873418 TGTTCCTTAAAGTATTCAAGATGATCCATTCCTTCGAGCAATTTTCCAAACATTACATGCTTGGG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
* * * * * * ** * * *
28873483 AAATTGGATCATTTGGTTCAAATATTTTATCCTTTTGTTTATAACTTTCGATCTTTGAATTAAAA
66 AAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAA
* * * *
28873548 TCTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTCTGAACTTGTCAAATTTT
131 ACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACTTGTCAAACTTT
28873613 TTCGAGTTCTTTTATAACTTC
196 TTCGAGTTCTTTTATAACTTC
** * * *
28873634 AATTCCTTAAAGTATTCAAGACGATCGATTCCTTCGAGCAATTTTTCGAACATTCCATTCTTGGG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
* * * * * *
28873699 AAATCGCATCATTTGGTCCAAATAGTTAGTCCTTTTGTAAAAAAATTTCGATCTTTGAATTAAAA
66 AAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAA
* * * *
28873764 ACTTATTTACGTGAGAATTATTTCTCTCTTAGTTCTAGGCTGAACTTCCGAACTAT-TCAAACTT
131 ACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACT-TGTCAAACTT
* *
28873828 TTTCGAGTTTTTTTATAACTTT
195 TTTCGAGTTCTTTTATAACTTC
* ** * * * ** *
28873850 GGATCCTTAAAGTATTCAAGATAATCCATTTCTTCGAACAATTTTTCGAACATTCCGTTATTGGG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
* * * * *
28873915 AAATTGCATCATTTGGTCCAAATAATCTATCATTTTGTAAACAACTTTTGGTCTTTGGATTAAAA
66 AAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAA
* * * * * **
28873980 ATTTATTTATGTGAGAATTGTTTCTCTCTTGCTTCTTGGTTGAACTTCTGAACTTATCAAAAATT
131 ACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACTTGTCAAACTTT
*
28874045 TTCGAGTTCTCTTATAACTTC
196 TTCGAGTTCTTTTATAACTTC
* * * * * *
28874066 GGTTCCTTAAAGTATTCATGACAATCGATTCGTTCGAGCAATTATCCGAACATTCCATGCTCGGG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
* * * *
28874131 AAATTGCATCATTTGGTCCAAGTAGTTTGTCCTTTTGTAAAAAACTTTTGGTCTTTGAATTAAAA
66 AAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAA
* * * *
28874196 ACTTATTTACGTGAGAATTATTTCTCTCTTGGTTCTTGGCTGAACTTTCGAACTTTTCAAACTTT
131 ACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACTTGTCAAACTTT
28874261 TTCGAGTTCTTTTATAACTTC
196 TTCGAGTTCTTTTATAACTTC
* * * * * * *
28874282 GGTTCCTTAAAGCATTCAAGACGATCCATTTCATCGAGCAATTTCTCGAACTTTCCATTCTCGAG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
* * * * *
28874347 AAATCGCATCATTTGATCCAAATAATCTGTCATTTTATAAACAACTTTTGGTCTTTGGATTAAAA
66 AAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAA
* * * * * * *
28874412 ACTTATTTATATGAGAATTGTTTCTCTGTTGGTTATTGGCCGAACTTCCGAAATTTTCAAAATTT
131 ACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACTTGTCAAACTTT
* *
28874477 TTTGAGTACTTTTATAACTTTC
196 TTCGAGTTCTTTTATAAC-TTC
* * * *
28874499 -GTTCCTTAAAGTATTCAAGACGATCCACTCCTTCGAGCAATTTTTCGAACATTCAATTCTAGGG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
* * * * * * * * *
28874563 AAATCGCATCATTTGGCCCAAATAATCTGTCATTTTGTGAACGACTTTTAGTATTTGGACTAAAA
66 AAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAA
* * * *
28874628 ACTTATTTATATGAGAATTGTTTCTCTCTTAGTTCTTGGAC-GAACTTTCGAACTTGTGAAACTT
131 ACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGG-CTGAACTTCCGAACTTGTCAAACTT
*
28874692 TTTCAAGTTCTTTTGA-AACTTC
195 TTTCGAGTTCTTTT-ATAACTTC
* * * * *
28874714 GGTTCCTTAAAGTATTCAAGAGGATCGATTCCTTCGAGCAATTTTCCAAACATTCCATGCTCGAG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
* * * *
28874779 AAATTGCATCATTTGGTCCAAATAGTTTGTCCTTTTGTAAAAAACTTTCGGTCTTTGAATTAAAA
66 AAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAA
* * * ** *
28874844 ACTTATTTACGTAAGAATGGTTTCTCTCTTGGTTCTTATCTGAACTTCCGAACTTTTCAAACTTT
131 ACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACTTGTCAAACTTT
* * *
28874909 TTCGAGTTCCTTTATATCTAC
196 TTCGAGTTCTTTTATAACTTC
* * * *
28874930 GGTTCCTTAAAATATTCAAGACGATCCATTCTTTCGAGCAATTTTTCGAACATTCTATTCTCGGG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
* * * * * * * * *
28874995 AAATCGTAACTTTTGGTCCAAAAAATCTGTCATTTTGTAAAAAACTTTTGGTGTTTGTATTAAAA
66 AAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAA
* * *
28875060 ACTTATTTATGTGAGAATTTTTTCTCTCTTGGTTCTTGG-TCGAACTTTCGAACTTATCAAACTT
131 ACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCT-GAACTTCCGAACTTGTCAAACTT
*
28875124 TTTTGAGTTCTTTTATAACTTC
195 TTTCGAGTTCTTTTATAACTTC
* * ** * *
28875146 AGTTCCTTAAAGTATTCAAGATGATTGATTCCTTCGAGCAA-TTTTCCAAGCAATCCA-GCCTCG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAA-CATTCCATG-CTCG
* * * * * ***
28875209 AGAAATTGCACCATTTGGTCCAAATAGTTTGTCCTTTTGTAAA-AAGCCTTCAATCTTTGAATTA
64 GGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAA-CTTTTGGTCTTTGAATTA
* * *
28875273 AAAACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTCCAAACTTTTCAAA-
128 AAAACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACTTGTCAAAC
*
28875337 GTTTTCGAGTTCTTTTATAACTTC
193 TTTTTCGAGTTCTTTTATAACTTC
* * * * * *
28875361 GGTTCCTTAAAGTACTCAAGACGATCCATTACTTCAAACAATTTTTCAAAAATTCCAAT-CTCGG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCC-ATGCTCGG
* * * ** * *
28875425 GAAATCACATCATTCGGTCCAAATAATCGGTCATTTTGTAAACAACTTTTGATCTTTGGATTAAA
65 GAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAA
* * * *
28875490 AACTTATTTATGTGAGATTTGTTTCTCTCTTGGTTCTTGG-TCGAACTTCCGAAATTTTCAAAAT
130 AACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCT-GAACTTCCGAACTTGTCAAACT
* * **
28875554 TTTTTGAGTTCCTTTACGACTTC
194 TTTTCGAGTTCTTTTATAACTTC
* * * *
28875577 AGTACCTTAAAATAATCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
* * * *
28875642 AAATCGCATCAATTGGTCCAAATAGTTTTTCATTTTGTAAAAAACTTTTGGTCTTAGAATTAAAA
66 AAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAA
* * * * * *
28875707 A-TTATTTATGTGAGAA-TGACTTCTCCCTTGGTTCTTGACTGAACTTTCAAACATGTCAAACTT
131 ACTTATTTATGTGAGAATTG-TTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACTTGTCAAACTT
*
28875770 TTTGGAGTTCTTTTATAACTTC
195 TTTCGAGTTCTTTTATAACTTC
* * * *
28875792 TGTTCCTTAAAGTATTCAAGATGATCCATTCCTTCGAGCAATTTTCCAAACATTCCATGCTCGGG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
* * * * * * * *
28875857 AAATCAG-ATCATTTGGTTCAAATATTTTATCCTTTTGTATATAACTTTCGATCTTTGAATTAAA
66 AAATC-GCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAA
* * * *
28875921 ATCTTATTTATGTGAGAATTTTTTCTCTCTTGGTTCTTGGCCGAACTTCCGAACTTGTCAAATTT
130 AACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACTTGTCAAACTT
28875986 TTTCGAGTTCTTTTATAACTTC
195 TTTCGAGTTCTTTTATAACTTC
** * * *
28876008 AATTCCTTAAAGTATTCAAGACGATCGATTCCTTCGAGCAATTTTTCGAACATTCCATTCTTGGG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
* * * * * *
28876073 AAATCGCATCATTTTGTCCAAATAGTTAGTCCTTTTGTAAAAAAATTTTGATCTTTGAATTAAAA
66 AAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAA
* * * * *
28876138 ACTTATTTACGTGAGAATTATTTCTCTCTTAGCTCTAGGCTGAACTTCCGAACTAT-TCAAACTT
131 ACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACT-TGTCAAACTT
* * *
28876202 TTTCGAGTTTTTTTATAGCTTT
195 TTTCGAGTTCTTTTATAACTTC
* * * * * ** *
28876224 GGATCCTTAAAGTATTCAAGACAATCCATTTCTTCGAACAATTTTTCGAACATTCCGTTAT-TGG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
* * * * * *
28876288 AAATTGCATCATTTGGTCCAAATAATCTATAATTTTGTAAACAACTTTTGGTCTTTGGATTAAAA
66 AAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAA
* * * * * **
28876353 ATTTATTTATGTGAGAATTGTTTCTCCCTTGCTTCTTGGCTTAACTTCTGAACTTGTCAAAAATT
131 ACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACTTGTCAAACTTT
* *
28876418 TTCGAGTTCTCTTATAATTTC
196 TTCGAGTTCTTTTATAACTTC
* ** ** * * *
28876439 GGTTCCTTAAAGTATTCATGATAATTGATTCGTTCGAGCAATTATCCGAACATTCCATG-TGCGG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCT-CGG
* * * * *
28876503 GAGATTGCATCATTTGGTCCAAGTAGTTTGTCCTTTTGTAAAAAACTTTTGGTCTTTGAATTAAA
65 GAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAA
* * *
28876568 AACTTATTTACGTGAGAATTATTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACTTTTCAAACTT
130 AACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACTTGTCAAACTT
28876633 TTTCGAGTTCTTTTATAACTTC
195 TTTCGAGTTCTTTTATAACTTC
* * * * * * *
28876655 GGTTCCTTAAAGCATTCAAGACGATCCATTTCATCGAGCAATTTCTCGAACTTTCCATTCTCGAG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
* * * * *
28876720 AAATCGCATCATTTGATCCAAATAATCTGTCATTTTATAAACAACTTTTGGTCTTTGGATTAAAA
66 AAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAA
* * * * * * * *
28876785 ACTTATTTATATGAGAATTGTTTCTCTGTTGGTTATTGGCCGAACTTTCGAAATTTTCAAAATTT
131 ACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACTTGTCAAACTTT
* * *
28876850 TTTGAGTACTTTTGTAACTTC
196 TTCGAGTTCTTTTATAACTTC
* * * * *
28876871 AGTTCCTTAAAGTATTCAAGACGATCCACTCCTTCGAGCAATTTTTCGAACATTCAATTCTAGGG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
* * * * * * * * *
28876936 AAATCGCATCATTTGGCCCAAATAATCTGTCATTTTGTGAACGACTTTTAGTATTTGGACTAAAA
66 AAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAA
* * *
28877001 ACTTATTTATGTGAGAATTGTTTCTCTCTTAGTTCTTGGAC-GAACTTTCGAACTTGTGAAACTT
131 ACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGG-CTGAACTTCCGAACTTGTCAAACTT
*
28877065 TTTCAAGTTCTTTTGA-AACTTC
195 TTTCGAGTTCTTTT-ATAACTTC
* * * * * * *
28877087 GGTTCCTTAAAGTATTCAAGAGGATCGATTCCTTCGAGCAATTTTCCAAACATTCAATGATCGAG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
* * * *
28877152 AAATTGCATCATTTGGTCCAAATAGTTTGTCCTTTTGTAAAAAACTTTCGGTCTTTGAATTAAAA
66 AAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAA
* * * ** * *
28877217 ACTTATTTACGTAAGAATGGTTTCTCTCTTGGTTCTTATCCGAACTTCCGAACTTTTCAAACTTT
131 ACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACTTGTCAAACTTT
* *
28877282 TTCGAGTTCCTTTATAGCTTC
196 TTCGAGTTCTTTTATAACTTC
* * *
28877303 GGTTCCTTAAAATATTCAAGACGATCCATTCTTTCGAGCAATTTTTCGAACATTCCATTCTCGGG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
* * * * * * * *
28877368 AAATCGTAAC-TTTCGGTCCAAAAAATCTGTCATTTTGTAAAAAACTTTTGGTGTTTGTATTAAA
66 AAATCGCATCATTT-GGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAA
* * *
28877432 AACTTATTTATGTGAGAATTTTTTCTCTCTTGGTTCTTGG-TCGAACTTTCGAACTTATCAAACT
130 AACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCT-GAACTTCCGAACTTGTCAAACT
*
28877496 TTTTTGAGTTCTTTTATAACTTC
194 TTTTCGAGTTCTTTTATAACTTC
* ** * *
28877519 GGTTCCTTAAAGTATTCAAGATGATTGATTCCTTCGAGCAA-TTTTCCAAGCAATCCA-GCCTCG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAA-CATTCCATG-CTCG
* * * * *** *
28877582 GGAAATTGCACCATTTGGTCCAAATAGTTTGTCCTTTTGTAAA-AAGCCTTCAATATTTGAATTA
64 GGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAA-CTTTTGGTCTTTGAATTA
* * *
28877646 AAAACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTCCAAACTTTTCAAAC
128 AAAACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACTTGTCAAAC
28877711 -TTTTCGAGTTCTTTTATAACTTC
193 TTTTTCGAGTTCTTTTATAACTTC
* * * * * *
28877734 GGTTCCTTAAAGTACTCAAGACGATCCATTACTTCAAACAATTTTTTGAAAATTCCAAT-CTCGG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCC-ATGCTCGG
* * * ** * *
28877798 GAAATCACATCATTCGGTCCAAATAATCGGTCATTTTGTAAACAACTTTTGATCTTTGGATTAAA
65 GAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAA
* * * *
28877863 AACTTATTTATGTGAGATTTGTTTCTCTCTTGGTTCTTGGAC-GAACTTCCGAAATTTTCAAAAT
130 AACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGG-CTGAACTTCCGAACTTGTCAAACT
* * **
28877927 TTTTTGAGTTCCTTTACGACTTC
194 TTTTCGAGTTCTTTTATAACTTC
* * * *
28877950 AGTACCTTAAAATAATCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
* * * *
28878015 AAATCGCATCAATTGGTCCAAATAGTTTTTCATTTTGTAAAAAACTTTTGGTCTTAGAATTAAAA
66 AAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAA
* * * * *
28878080 A-TTATTTATGTGAGAATGGCTTCTC-CTTTGGTTCTTGACTGAACTTTCGAACATGTCAAACTT
131 ACTTATTTATGTGAGAATTGTTTCTCTC-TTGGTTCTTGGCTGAACTTCCGAACTTGTCAAACTT
*
28878143 TTTTGAGTTCTTTTATAACTTC
195 TTTCGAGTTCTTTTATAACTTC
* * * * *
28878165 TGTTCCTTAAAGTATTCAAGATGATCCATTCCTTCGAGCAATTTTCCAAACATTACATGCTCGGG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
* * * * * * * * * *
28878230 AAATTGGATCATTTGGTTCAAATATTTTATCCTTTTGTATATAACTTTCGATCTTTGAATTAAAA
66 AAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAA
* ** *
28878295 TCTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCAAACTTCCGAACTTGTCAAATTTT
131 ACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACTTGTCAAACTTT
28878360 TTCGAGTTCTTTTATAACTTC
196 TTCGAGTTCTTTTATAACTTC
** * * *
28878381 AATTCCTTAAAGTATTCAAGACGATCGATTCCTTCGAGCAATTTTTCGAACATTCCATTCTTGGG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
* * * * * *
28878446 AAATCGCATCATTTGGTCCAAATAGTTAGTCCTTTTGTAAAAAAATTTCGATCTTTGAATTAAAA
66 AAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAA
* * * * *
28878511 ACTTATTGACGTGAGAATTATTTCTCTCTTAGTTCTAGGCTGAACTTCCGAACTAT-TCAAACTT
131 ACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACT-TGTCAAACTT
* *
28878575 TTTCGAGTTTTTTTATAACTTT
195 TTTCGAGTTCTTTTATAACTTC
* * * * * ** *
28878597 GGATCCTTAAAGTATTCAAGACAATCCATTTCTTCGAACAATTTTTCGAACATTCCGTTATTGGG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
* * * * *
28878662 AAATTGCATCATTTGGTCCAAATAATCTATCATTTTGTAAACAACTTTTGGTCTTTGGATTAAAA
66 AAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAA
* * * * **
28878727 ATTTATTTATGTGAGAATTGTTTCTCTCTTGCTTCTTGGCTGAACTTCTGAACTTATCAAAAATT
131 ACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACTTGTCAAACTTT
*
28878792 TTCGAGTTCTCTTATAACTTC
196 TTCGAGTTCTTTTATAACTTC
* * * * * * * *
28878813 GGTTCCTTAAAGTATTCATGACAATCGATTCGTTCGAGCAATTATCCGAACATTCCATGCGCGAG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
* * * * *
28878878 AAATTGCATCATTTGGTCCAAGTAGTTTGTCCTTTTCTAAAAAACTTTTGGTCTTTGAATTAAAA
66 AAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAA
* * *
28878943 ACTTATTTACGTGAGAATTATTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACTTTTCAAACTTT
131 ACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACTTGTCAAACTTT
28879008 TTCGAGTTCTTTTATAACTTC
196 TTCGAGTTCTTTTATAACTTC
* * * * * *
28879029 GGTTCCTTAAAGCATTCAAGACGATCCATTTCATCGAGCAATTTCTCGAACATTCCATTCTCGAG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
* * * * *
28879094 AAATCGCATCATTTGATCCAAATAATCTGTCATTTTATAAACAACTTTTGGTCTTTGGATTAAAA
66 AAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAA
* * * * * * *
28879159 ACTTATTTATATGAGAATTGTTTCTCTGTTGGTTATTGGCCGAACTTCCGAAATT-TTAAAATTT
131 ACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACTTGTCAAACTTT
* *
28879223 TTTGAGTACTTTTATAACTTC
196 TTCGAGTTCTTTTATAACTTC
* * * * * * *
28879244 AGTTCCTTAAAGTATTCAAGACGATTCACTCCTTCGAGCAATTTTTAGAACATTCAATTCTAGGG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
* * * * * * * * * *
28879309 AAATTGCATCATTTGGCCCAAATAATCTGTCATTTTGTGAACGACTTTTAGTATTTGGACTAAAA
66 AAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAA
* ** *
28879374 ACTTATTTATGTGAGAATTGTTTCTCTCTTAGTTCTTGGAC-GAACTTTTGAACTTGTGAAACTT
131 ACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGG-CTGAACTTCCGAACTTGTCAAACTT
*
28879438 TTTCAAGTTCTTTTGA-AACTTC
195 TTTCGAGTTCTTTT-ATAACTTC
* * * * *
28879460 GGTTCCTTAAAGTATTCAAGAGGATCGATTCCTTCGAGCAATTTTCCAAACATTCCATGCTCGAG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
* * *
28879525 AAATCGCATCATTTGGTCCAAATAGTTTGTCCTTTTGTAAAAAACTTTCGGTCTTTGAATTAAAA
66 AAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAA
* * * * * * * *
28879590 ACTTATTTACGTAAGAATGGTTTCTCTCTTGGTTCTTAGCCGAACTTTCGAACTTTTTAAACTTT
131 ACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACTTGTCAAACTTT
* *
28879655 TTCGAGTTCCTTTATAGCTTC
196 TTCGAGTTCTTTTATAACTTC
* * *
28879676 GGTTCCTTAAAATATTCAAGACGATCCATTCTTTCGAGCAATTTTTCGAACATTCCATTCTCGGG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
* * * * * * *
28879741 AAATCGCAAC-TTTCGGTCCAAAAAATCTGTCATTTTGTAAAAAACTTTTGGTGTTTGTATTAAA
66 AAATCGCATCATTT-GGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAA
* * *
28879805 AACTTATTTATGTGAGAATTTTTTCTCTCTTGGTTCTTGG-TCGAACTTTCGAACTTATCAAACT
130 AACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCT-GAACTTCCGAACTTGTCAAACT
*
28879869 TTTTTGAGTTCTTTTATAACTTC
194 TTTTCGAGTTCTTTTATAACTTC
** * *
28879892 GGTTCCTTAAAGTATTCAAGACGATTGATTCCTTCGAGCAA-TTTTCCAAGCAATCCA-GCCTCG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAA-CATTCCATG-CTCG
* * * * ***
28879955 GGAAATTGCACCATTTGGTCCAAATAGTTTGTCCTTTTGTAAA-AAGCCTTCAATCTTTGAATTA
64 GGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAA-CTTTTGGTCTTTGAATTA
* * *
28880019 AAAACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTCCAAACTTTTCAAA-
128 AAAACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACTTGTCAAAC
*
28880083 GTTTTCGAGTTCTTTTATAACTTC
193 TTTTTCGAGTTCTTTTATAACTTC
* * * * * * *
28880107 GGTTCCTTAAAGTACTCAAGACGATCCATTACTTCAAACAATTTTTCAAAAATTCCAAT-CTCGA
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCC-ATGCTCGG
* * * ** * *
28880171 GAAATCACATCATTCGGTCCAAATAATCGGTCATTTTGTAAACAACTTTTGATCTTTGGATTAAA
65 GAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAA
* * * * *
28880236 AACTTATTTATGTGAGATTTGTTTCTCTCTTGGTTCTTGGCCGAACTTCCGAAATTTTCAAAATT
130 AACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACTTGTCAAACTT
* *
28880301 TTTTGAGTTCCTTTA-AGACTTC
195 TTTCGAGTTCTTTTATA-ACTTC
* * * *
28880323 AGTACCTTAAAATAATCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
* * * *
28880388 AAATCGCATCAATTGGTCCAAATAGTTTTTCATTTTGTAAAAAACTTTTGGTCTTAGAATTAAAA
66 AAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAA
* * * * * *
28880453 A-TTATTTATGTGAGAA-TGACTTCTCCCTTGGTTCTTGACTGAACTTTCAAACATGTCAAACTT
131 ACTTATTTATGTGAGAATTG-TTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACTTGTCAAACTT
*
28880516 TTTGGAGTTCTTTTATAACTTC
195 TTTCGAGTTCTTTTATAACTTC
* * * *
28880538 TGTTCCTTAAAGTATTCAAGATGATCCATTCCTTCGAGCAATTTTCCAAACATTCCATGCTCGGG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
* * * * * * * * *
28880603 AAATCGGATCATTTGGTTCAAATATTTTATCCTTTTGTATATAACTTTCGATCTTTGAATTAAAA
66 AAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAA
* * *
28880668 TCTTATTTATGTGAGAATTTTTTCTCTCTTGGTTCTTGGCCGAACTTCCGAACTTGTCAAA-TTT
131 ACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACTTGTCAAACTTT
*
28880732 TTTGAGTTCTTTTATAACTTC
196 TTCGAGTTCTTTTATAACTTC
** * * *
28880753 AATTCCTTAAAGTATTCAAGACGATCGATTCCTTCGAGCAATTTTTCGAACATTCCATTCTTGGG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
* * * ** * *
28880818 AAATCGCATCATTTGGTCCAAATAGTTAGTCCTTTTGTAAAAAAAATTCGATCTTTGAATTAAAA
66 AAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAA
* * * *
28880883 ACTTATTTACGTGAGAATTATTTCTCTCTTAGTTCTAGGCTGAACTTCCGAACTAT-TCAAACTT
131 ACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACT-TGTCAAACTT
* *
28880947 TTTCGAGTTTTTTTATAACTTT
195 TTTCGAGTTCTTTTATAACTTC
* * * * * * ** *
28880969 GGATCCTTAAAGTATTCAAGACAATCCATTTCTTCAAACAATTTTTCGAACATTCCGTTATTGGG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
* * * * *
28881034 AAATTGCATCATTTGGTCCAAATAATCTATCATTTTGTAAACAACTTTTGGTCTTTGGATTAAAA
66 AAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAA
* * * **
28881099 ATTTATTTATGTGAGAATTGTTTCTCTCTTGCTTCTTGGCTGAACTTCTGAACTTGTCAAAAATT
131 ACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACTTGTCAAACTTT
*
28881164 TTCGAGTTCTCTTATAACTTC
196 TTCGAGTTCTTTTATAACTTC
* ** * * * *
28881185 GGTTCCTTAAAGTATTCATGATAATCGATTCGTTCGAGCAATTATCCGAACATTCCATG-TGCGG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCT-CGG
* * * * *
28881249 GAGATTGCATCATTTGGTCCAAGTAGTTTGTCCTTTTGTAAAAAACTTTTGGTCTTTGAATTAAA
65 GAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAA
* * *
28881314 AACTTATTTACGTGAGAATTATTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACTTTTCAAACTT
130 AACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACTTGTCAAACTT
*
28881379 TTTTGAGTTCTTTTATAACTTC
195 TTTCGAGTTCTTTTATAACTTC
* * * * *
28881401 GGTTCCTTAAAGCATTCAAGACGATCCATTTCATCGAGCAATTTCTCGAACATTCCATTCTCGGG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
* * * * *
28881466 AAATCGCATCATTTGATCCAAATAATCTGTCATTTTATAAACAACTTTTGGTC-TTGGATTAAAA
66 AAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAA
* * * * * * *
28881530 ACTTATTTATATGAGAATTGTTTCTCTGTTGGTTATTGGCCGAACTTCCGAAATT-TTAAAATTT
131 ACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACTTGTCAAACTTT
* **
28881594 TTTGAGTAATTTTATAACTTC
196 TTCGAGTTCTTTTATAACTTC
* * * ** * *
28881615 AGTTCCTTAAAGTATTCAAGACGATCCACTCCTTTGAGCAATTTTTCGAACATTTAATTCTAGGG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
* * * * * * * * *
28881680 AAATCGCATCATTTGGCCCAAATAATCTGTCATTTTGTGAACGACTTTTAGTATTTGGACTAAAA
66 AAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAA
* ** *
28881745 ACTTATTTATGTGAGAATTGTTTCTCTCTTAGTTCTTGGAC-GAACTTTTGAACTTGTGAAACTT
131 ACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGG-CTGAACTTCCGAACTTGTCAAACTT
*
28881809 TTTCAAGTTCTTTTGA-AACTTC
195 TTTCGAGTTCTTTT-ATAACTTC
* * * * *
28881831 GGTTCCTTAAAGTATTCAAGAGGATCGATTCCTTCGAGCAATTTTCCAAACATTCCATGCTCGAG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
* * *
28881896 AAATCGCATCATTTGGTCCAAATAGTTTGTCCTTTTGTAAAAAACTTTCGGTCTTTGAATTAAAA
66 AAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAA
* * * * *
28881961 ACTTATTTACGTAAGAATGGTTTCTCTCTTGGTTCTTAGCCGAACTTCCGAAC-TGTTCAAACTT
131 ACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACTTG-TCAAACTT
* *
28882025 TTTCGAGTTCCTTTATAGCTTC
195 TTTCGAGTTCTTTTATAACTTC
* * *
28882047 GGTTCCTTAAAATATTCAAGACGATCCATTCTTTCGAGCAATTTTTCGAACATTCCATTCTCGGG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
* * * * * * * * *
28882112 AAATCGTAACTTTTGGTCCAAAAAATCTGTCATTTTGTAAAAAACTTTTGGTGTTTGTATTAAAA
66 AAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAA
* * *
28882177 ACTTATTTATGTGAGAATTTTTTCTCTCTTGGTTCTTGG-TCGAACTTTCGAACTTATCAAACTT
131 ACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCT-GAACTTCCGAACTTGTCAAACTT
*
28882241 TTTTGAGTTCTTTTATAACTTC
195 TTTCGAGTTCTTTTATAACTTC
* ** * *
28882263 GGTTCCTTAAAGTATTCAAGATGATTGATTCCTTCGAGCAA-TTTTCCAAGCAATCCA-GCCTCG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAA-CATTCCATG-CTCG
* * * * ***
28882326 GGAAATTGCACCATTTGGTCCAAATAGTTTGTCCTTTTGTAAA-AAGCCTTCAATCTTTGAATTA
64 GGAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAA-CTTTTGGTCTTTGAATTA
* * ** *
28882390 AAAACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTAG-TCAAACTTTGGATCTTGTCAAA
128 AAAACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCT-GAACTTCCGAACTTGTCAAA
* *
28882454 CTTTTACGAGTTCTGTT-TAACTTC
192 CTTTTTCGAGTTCTTTTATAACTTC
* * * * * * * *
28882478 GGTGCCTTAAAAGTATACAAGATGATTCATTCCTTCTAGCAATTTTTTGAACATTCCATGCTTGA
1 GGTTCCTT-AAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGG
* * **
28882543 GAAATCGCATGATTTGGTTCAAATAGTTTGTC-TGTTCATAAACAAACTTTTGGTCTTTGAATTA
65 GAAATCGCATCATTTGGTCCAAATAGTTTGTCAT-TTTGTAAAC-AACTTTTGGTCTTTGAATTA
* * * *** *
28882607 AAGACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTTTAAACATGTCAAAC
128 AAAACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACTTGTCAAAC
* * * *
28882672 TTTTACAAGTTCCTTTATAACTTT
193 TTTTTCGAGTTCTTTTATAACTTC
* * * * * **
28882696 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTTGAG-AAATTTTCTGACCATTTCATACTCAA
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTC-GAACATTCCATGCTCGG
* * * * * * ** *
28882760 AAAATCTCATCATTTCGACCAAGTAGTTTGTTA-TTT-TAAACAACTTTTACTCTTTGGATTAAA
65 GAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAA
* ** * * *
28882823 AACTTATTAACATTAGAATTGTTTCTCTCTTGGTTCTTGGTTGAACTTCCAAACCTT-TCAAACT
130 AACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAA-CTTGTCAAACT
* *
28882887 TTTTTGAGTTCTATTT-TAGCTTC
194 TTTTCGAGTTCT-TTTATAACTTC
* * * * * * *
28882910 GATTCCTTATAGTATTCAAGACGATCCTTTCCTTTGACCAA-TTTTCTGAATATTTCATGCTCGG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTC-GAACATTCCATGCTCGG
* * * *
28882974 GAAATCGCATCATTTGGTCAAAATAGTTTGTAATTTTGTAAACAACTTTTGGTCTTAGAATCAAA
65 GAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAA
** * * * **
28883039 AACTTATTTACATGAGAA-TGATTTCTCCCTTGGTTCTT-GATCGAACTTTCGAACAAGTCAAAC
130 AACTTATTTATGTGAGAATTG-TTTCTCTCTTGGTTCTTGGCT-GAACTTCCGAACTTGTCAAAC
* *
28883102 TTTTACGAGTTATTTTATAACTTC
193 TTTTTCGAGTTCTTTTATAACTTC
* * * * *
28883126 GGTTCGTTAAAGTATACAAGACGATCCATTCCTTCGAGCAATTTTTCAAACATTTCATGTTCGGG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
* * * * *
28883191 AAATCGCATCATTTGGTCAAAATAATCTATCATTTTGTAAACAACTTTTGGTCTTTGGATT-AAA
66 AAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAA
* *
28883255 A---ATTTATTTGAGAATTG-TT-TCTCTTGTTTCTTGGCTGAACTTCCGAACTTGTCAAACTTT
131 ACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACTTGTCAAACTTT
*
28883315 TTCAAGTTCTTTTATAACTTC
196 TTCGAGTTCTTTTATAACTTC
* * * *
28883336 GGTTCCATAAAGTATTCAAGACGA-CCGATTCCTTCGAGCAATTTCTCGAACATTCCATTCTCGA
1 GGTTCCTTAAAGTATTCAAGACGATCC-ATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGG
* * * *
28883400 CAAATCGCATCATTTGGTCCAAATAGTTAGTCATTTTGTAAAAAACTTTCGGTCTTTGAATTAAA
65 GAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAA
* * * * * * *
28883465 AACATATTTACGTGAGAATTATTTCTCTCTTGGTTCTAGGCCGAACTTCC-AAATTTTGCAAACT
130 AACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACTTGT-CAAACT
*
28883529 TTTTCGAGTTCTTTTATAACTTT
194 TTTTCGAGTTCTTTTATAACTTC
* * * * * * *
28883552 GGTTCCTTAAAGTATTCAAGACGATCAATTTCTTCAAACAATTTTTCGAACATTTCGTTCTCGGG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
* * * * * *
28883617 AAATTGTATCATTAGGTCCAAATAATCTGTCAATTTGTAAACAACTTTTGGTCTTT-AGATTAAA
66 AAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGA-ATTAAA
* *** * * ** * *
28883681 AATTTATTTATGTGAGAAACATTCCTCTCTTGATTCTTGGCCAAACTTCTGAACTAGTCAAACTT
130 AACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACTTGTCAAACTT
* *
28883746 TTTCAAGTTCTTTTATATCTTC
195 TTTCGAGTTCTTTTATAACTTC
* * * * *
28883768 GGTTCCTTAGAGTATTCAAGACAATCGATTCCTTCGAGCAA-TTTTCTGAGCATTCCATTCTCGG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTC-GAACATTCCATGCTCGG
* * * * ** *
28883832 GAAATCGCATTATTTGGTCCAAATAGTTAGTCCTTTTGTAAA-AAGC---T--TATTT-ACGTGA
65 GAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAA-CTTTTGGTCTTTGAATTAA
* * * * ** **** * * *
28883890 GAA-TTATTT-T-T-TG-CTTGGTTCTAGGC--CAAACTT--CCGAACGTTACAAACTT-T----
129 AAACTTATTTATGTGAGAATTGTTTCT-CTCTTGGTTCTTGGCTGAAC-TTCCGAACTTGTCAAA
*
28883941 ----TTCGAGTTCTTTTATAACTTT
192 CTTTTTCGAGTTCTTTTATAACTTC
* * * ** * * *
28883962 GGTTCATTAAAGTATTCAAGACGATCCATTTCTTTGAATAATTTTTCGAGCATTCCGTTCTCGGG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
* * * * * *
28884027 AAATCACATCATTTGGTACAAATAATCTGTCATTTTGTAAACAATTTTTGGTC-TTGGATTAAAA
66 AAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAA
* *
28884091 ATTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTCCCGAACTTGTCAAACTTT
131 ACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACTTGTCAAACTTT
* * * *
28884156 GTCGAGTACTTTTATATCGTC
196 TTCGAGTTCTTTTATAACTTC
* * *
28884177 GGTTCCTTAAAGTATTCAATACGATCGATTCCTTCGAGCAA-TTTTCTGAACATTCCATTCTCGG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTC-GAACATTCCATGCTCGG
* * * * * *
28884241 GAAATCGCATCAGTTGGTCCAAATAATTAGTCCTTTTGTAAAAAACTTTCGGTCTTTGAATTAAA
65 GAAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAA
* * * * * * * *
28884306 AAATTATTTACGTGAGAATTATTTCACTCTTGGTTCTAGGCCGAGCTTCCAAACTT-TGCAAACT
130 AACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACTTGT-CAAACT
*
28884370 TTTTCGAGTTCTTTTATAACTTT
194 TTTTCGAGTTCTTTTATAACTTC
* * * * * * * *
28884393 GGCTCCATAAAGTATTCAAGATGATCCATTTCTTCGAACAAATTTTCGAACATTCCGTTCTCGGG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
* * *
28884458 AAATTGCATCATTTGGTCCAAATAATTTGTCATTTTGTAAACAACTTTTGGTCTTTGGATTAAAA
66 AAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAA
* * *
28884523 ATTTATTTATGTGAGAATTGTTTCTCT-TTGGTTCTTGGCCGAACTTCTGAACTTGTCAAACTTT
131 ACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACTTGTCAAACTTT
* *
28884587 TTCAAGTACTTTTATAACTTC
196 TTCGAGTTCTTTTATAACTTC
** * * **
28884608 GGTTCCTTAAAGTATTCAAGACGATAGATTCCTTCAAGCAATTTTTCGAACATTCTATTTTCGGG
1 GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
* * * *
28884673 AAATCGCATCATTTGGTCCAAATAATTAGTC-TTTTGTAAAAAACTTTCGGTCTTTGAATTAAAA
66 AAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAA
** * * * * * *
28884737 ACTTATTTACATGATAATTATTTCACTCTTGGTTCTAGGCCGAACTTCCAAACTT
131 ACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACTT
28884792 TGAAAGTTCA
Statistics
Matches: 10940, Mismatches: 1947, Indels: 400
0.82 0.15 0.03
Matches are distributed among these distances:
194 102 0.01
195 7 0.00
197 1 0.00
198 2 0.00
199 5 0.00
200 6 0.00
201 1 0.00
202 7 0.00
203 8 0.00
204 11 0.00
205 6 0.00
206 9 0.00
207 7 0.00
208 1 0.00
209 8 0.00
210 190 0.02
211 202 0.02
212 315 0.03
213 16 0.00
214 405 0.04
215 2461 0.22
216 6864 0.63
217 287 0.03
218 19 0.00
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (216 bp):
GGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGG
AAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAA
ACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTTCCGAACTTGTCAAACTTT
TTCGAGTTCTTTTATAACTTC
Found at i:28882453 original size:17 final size:18
Alignment explanation
Indices: 28882421--28882457 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
28882411 TGTTTCTCTC
*
28882421 TTGGTTCTTAGTCAAACT
1 TTGGATCTTAGTCAAACT
28882439 TTGGATCTT-GTCAAACT
1 TTGGATCTTAGTCAAACT
28882456 TT
1 TT
28882458 TACGAGTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.22, C:0.16, G:0.16, T:0.46
Consensus pattern (18 bp):
TTGGATCTTAGTCAAACT
Found at i:28884784 original size:215 final size:214
Alignment explanation
Indices: 28883870--28884792 Score: 1138
Period size: 215 Copynumber: 4.3 Consensus size: 214
28883860 AGTCCTTTTG
* * *
28883870 TAAAAAGCTTATTTACGTGAGAATTATTT-TTTGCTTGGTTCTAGGCCAAACTTCCGAACGTTAC
1 TAAAAA-CTTATTTACGTGAGAATTATTTCTCT-CTTGGTTCTAGGCCGAACTTCCGAAC-TTTC
* * * * *
28883934 AAACTTTTTCGAGTTCTTTTATAACTTTGGTTCATTAAAGTATTCAAGACGATCCATTTCTTTGA
63 AAACTTTTTCGAGTACTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCA-TTCCTTCA
* * * * *
28883999 ATAATTTTTCGAGCATTCCGTTCTCGGGAAATCACATCATTTGGTACAAATAATCT-GTCATTTT
127 ACAATTTTTCGAACATTCCATTCTCGGGAAATCGCATCATTTGGTCCAAATAAT-TAGTCATTTT
* * * *
28884063 GTAAACAATTTTTGGTC-TTGGAT
191 GTAAAAAACTTTCGGTCTTTGAAT
* * * * * *
28884086 TAAAAATTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGCTGAACTCCCGAACTTGTCAA
1 TAAAAACTTATTTACGTGAGAATTATTTCTCTCTTGGTTCTAGGCCGAACTTCCGAACTT-TCAA
* * * * * *
28884151 ACTTTGTCGAGTACTTTTATATCGTCGGTTCCTTAAAGTATTCAATACGATCGATTCCTTCGAGC
65 ACTTTTTCGAGTACTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTC-AAC
* *
28884216 AA-TTTTCTGAACATTCCATTCTCGGGAAATCGCATCAGTTGGTCCAAATAATTAGTCCTTTTGT
129 AATTTTTC-GAACATTCCATTCTCGGGAAATCGCATCATTTGGTCCAAATAATTAGTCATTTTGT
28884280 AAAAAACTTTCGGTCTTTGAAT
193 AAAAAACTTTCGGTCTTTGAAT
* * * *
28884302 TAAAAAATTATTTACGTGAGAATTATTTCACTCTTGGTTCTAGGCCGAGCTTCCAAACTTTGCAA
1 TAAAAACTTATTTACGTGAGAATTATTTCTCTCTTGGTTCTAGGCCGAACTTCCGAACTTT-CAA
* * * * * *
28884367 ACTTTTTCGAGTTCTTTTATAACTTTGGCTCCATAAAGTATTCAAGATGATCCATTTCTTCGAAC
65 ACTTTTTCGAGTACTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTC-AAC
* * * *
28884432 AAATTTTCGAACATTCCGTTCTCGGGAAATTGCATCATTTGGTCCAAATAATTTGTCATTTTGTA
129 AATTTTTCGAACATTCCATTCTCGGGAAATCGCATCATTTGGTCCAAATAATTAGTCATTTTGTA
* * *
28884497 AACAACTTTTGGTCTTTGGAT
194 AAAAACTTTCGGTCTTTGAAT
* * * * *
28884518 TAAAAATTTATTTATGTGAGAATTGTTTCTCT-TTGGTTCTTGGCCGAACTTCTGAACTTGTCAA
1 TAAAAACTTATTTACGTGAGAATTATTTCTCTCTTGGTTCTAGGCCGAACTTCCGAACTT-TCAA
* **
28884582 ACTTTTTCAAGTACTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATAGATTCCTTCAAGC
65 ACTTTTTCGAGTACTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCAA-C
* *
28884647 AATTTTTCGAACATTCTATTTTCGGGAAATCGCATCATTTGGTCCAAATAATTAGTC-TTTTGTA
129 AATTTTTCGAACATTCCATTCTCGGGAAATCGCATCATTTGGTCCAAATAATTAGTCATTTTGTA
28884711 AAAAACTTTCGGTCTTTGAAT
194 AAAAACTTTCGGTCTTTGAAT
* * * *
28884732 TAAAAACTTATTTACATGATAATTATTTCACTCTTGGTTCTAGGCCGAACTTCCAAACTTT
1 TAAAAACTTATTTACGTGAGAATTATTTCTCTCTTGGTTCTAGGCCGAACTTCCGAACTTT
28884793 GAAAGTTCAG
Statistics
Matches: 601, Mismatches: 95, Indels: 24
0.83 0.13 0.03
Matches are distributed among these distances:
214 67 0.11
215 308 0.51
216 221 0.37
217 5 0.01
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.40
Consensus pattern (214 bp):
TAAAAACTTATTTACGTGAGAATTATTTCTCTCTTGGTTCTAGGCCGAACTTCCGAACTTTCAAA
CTTTTTCGAGTACTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCAACAA
TTTTTCGAACATTCCATTCTCGGGAAATCGCATCATTTGGTCCAAATAATTAGTCATTTTGTAAA
AAACTTTCGGTCTTTGAAT
Found at i:28885209 original size:144 final size:141
Alignment explanation
Indices: 28885027--28885285 Score: 351
Period size: 144 Copynumber: 1.8 Consensus size: 141
28885017 AAGTTCAGCC
*
28885027 AAGAACCAAGAGAAACAATTCTCACATAAATAAATTTTTAATTAAAAG-GCAGAAAGTTGTTTAC
1 AAGAACCAAGAGAAACAATTCTCACATAAATAAATTTTTAATTAAAAGACCA-AAAGTTGTTTAC
*
28885091 AAAAGGATAAAATATTCGGACCAAATG-ATGCAAATTTCCCGAGCATGAAATAAGTTTGACAATT
65 AAAAGGACAAAATATTCGGACCAAATGTA-GC-AATTTCCCGAGCATGAAATAAGTTTGACAATT
28885155 TCAAAAGCTTAGTG
128 TCAAAAGCTTAGTG
* * * **
28885169 AAGAACCAAGGGAGAAACCATTCTCACGTAAATAAGTTTTTAATTCTAAGACCAAAAGTTGTTTA
1 AAGAACCAA--GAGAAACAATTCTCACATAAATAAATTTTTAATTAAAAGACCAAAAGTTGTTTA
* * * * *
28885234 CAAAATGACAAACTATTTGGACCAAATGTAGCGATTTCTCGAGCATGAAATA
64 CAAAAGGACAAAATATTCGGACCAAATGTAGCAATTTCCCGAGCATGAAATA
28885286 TTCGAGAAAT
Statistics
Matches: 101, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
142 9 0.09
143 18 0.18
144 71 0.70
145 3 0.03
ACGTcount: A:0.43, C:0.15, G:0.16, T:0.26
Consensus pattern (141 bp):
AAGAACCAAGAGAAACAATTCTCACATAAATAAATTTTTAATTAAAAGACCAAAAGTTGTTTACA
AAAGGACAAAATATTCGGACCAAATGTAGCAATTTCCCGAGCATGAAATAAGTTTGACAATTTCA
AAAGCTTAGTG
Found at i:28885571 original size:216 final size:214
Alignment explanation
Indices: 28885169--28889873 Score: 4426
Period size: 216 Copynumber: 21.9 Consensus size: 214
28885159 AAGCTTAGTG
* * *
28885169 AAGAACCAAGGGAGAAACCATTCTCACGTAAATAAGTTTTTAATTCTAAGACCAAAAGTTGTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTA
* * *
28885234 CAAAATGACAAACTATTTGGACCAAATG-TAGCGATTTCTCGAGCATGAAATATTCGAGAAATTG
66 CAAAATGACAAACTATTTGGACCAAATGAT-GCGATTTCCCGAGCATGGAATGTTCGA-AAATTG
* * * * *
28885298 CTCGAACGAATGGATCGTCTTCAATACTGTAAGGAATCGAAGCTATAATAA-AACTCGAAAAAGT
129 CTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAA-AAGAACTCGAAAAAGT
*
28885362 TTTAAAGGTTTGGAAGTTCGACC
193 TTGAAA-GTTTGGAAGTTCGACC
* * * * **
28885385 AAGAACGAAGAGAGAAACCATTCTTACGTAAATAAGTTTTTAATTCAATGAGTAAAAGTTGTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTA
* * * * ** *
28885450 CAAAATAACAAACT-TCATGGTCGAAATGATGCGATTTCTTGAGCATGGAATGCTCAGAAAATTG
66 CAAAATGACAAACTAT-TTGGACCAAATGATGCGATTTCCCGAGCATGGAATGTTC-GAAAATTG
* * * *
28885514 CTCAAAGGAATGGATCGTCTTGAACACTATAAGGAACCAAAGTTATAAAAGAACTCGAAAAAGTT
129 CTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGAAAAAGTT
* *
28885579 TGACAAGTTCGGAAGTTCGTCC
194 TGA-AAGTTTGGAAGTTCGACC
* * *
28885601 AAGAACCAAGGGAGAAACTAA-TCTCACGTAAATAAGTGTTTAATTCAAAGACCAAAAGTTGTTC
1 AAGAACCAAGAGAGAAAC-AATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTT
** * * * ** *
28885665 ATGAAATAAGAAACTATTTGGACCAAAGGATGCGATTTCTTGAGCATGGAATGTTTGGAAAATTG
65 ACAAAATGACAAACTATTTGGACCAAATGATGCGATTTCCCGAGCATGGAATG-TTCGAAAATTG
* * * *
28885730 CTAGAAGGAATTGATTC-TCCTGAATACTTTAAGGAACCGAAGTTA-AAAAGAACTCGTAAAAGT
129 CTCGAAGGAATGGA-TCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGAAAAAGT
* * * *
28885793 TTGACTAGTTCGGAAGTTCGGCT
193 TTGA-AAGTTTGGAAGTTCGACC
* * *
28885816 AATAACCAAGAGAGAAATAATTCTCACGTAAATAAGTTTTTAATCCAAAGACCAAAAGTTGTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTA
* * * * * ** ** *
28885881 CAAAATAACAGATTATATGGACAAAATGATGTAATTTCCCGAAAATCGAATGTTCGAAAAATTGC
66 CAAAATGACAAACTATTTGGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCG-AAAATTGC
* *
28885946 TCGAAGGAATGGATTGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTAGAAAAAGTTT
130 TCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGAAAAAGTTT
* * *
28886011 GAAAACTTTGGATGTTCGGCC
195 G-AAAGTTTGGAAGTTCGACC
* * * * * * *
28886032 AAGAACTAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAACTCAAAGCCCGAAGGTTTTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTA
* * * * *
28886097 CAAAAGGAAAAACTATTTGGACCAAATTG-TGCGATTTCTCGACGC-TGAAATGTTAGGAAAATT
66 CAAAATGACAAACTATTTGGACCAAA-TGATGCGATTTCCCGA-GCATGGAATGTT-CGAAAATT
** * *
28886160 GCTCGAAGGAATCTATCGTCTTGAATTCTTTAAAGAACCGAAGTTATAAAAGAACTCGAAAAAGT
128 GCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGAAAAAGT
*** * * *
28886225 TTGACAAGTTCAAAAATTCGGCT
193 TTGA-AAGTTTGGAAGTTCGACC
* *
28886248 AAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATTCAAAGACCGAAAGTTGTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTA
* * * * ** * *
28886313 CAAAAGGATAAAATATTCGGACCAAATGATGTAAATTTCCCGAGCATGGAATGTTTGGTAAATTG
66 CAAAATGACAAACTATTTGGACCAAATGATG-CGATTTCCCGAGCATGGAATG-TTCGAAAATTG
* * * * * * *
28886378 CTCAAAGAAATGGATCGTCTTGAATACTTTAAGGAATCGAAGTTGTAAAATAAATCGTAAAAGTT
129 CTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGAAAAAGTT
* * *
28886443 CGACAAGTTTGAAAGTTC-AGTC
194 TGA-AAGTTTGGAAGTTCGA-CC
* * * * ** *
28886465 ATGAACCAGGGGAGAAGTC-ATTCTCGTGTAAATAAGTTTTTAATTCTAAGACCAAAAGTTGTTT
1 AAGAACCAAGAGAGAA-ACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTT
* * * * * *
28886529 ACAAAATGACAAACTATTTGGACCAAAGGATGCGATTTACCGTGCACGGAGTGTTCAGATAATTG
65 ACAAAATGACAAACTATTTGGACCAAATGATGCGATTTCCCGAGCATGGAATGTTC-GAAAATTG
* * * * * *
28886594 CTCGAAGGAATCGATAGTCAT-ACATACTTTAAGGAACCGAAGTTATATAAGAACTCAAAAAAGC
129 CTCGAAGGAATGGATCGTCTTGA-ATACTTTAAGGAACCGAAGTTATAAAAGAACTCGAAAAAGT
* * * *
28886658 TTGACAAGTTCGAAAGTTCAATC
193 TTGA-AAGTTTGGAAGTTCGACC
* * * * *
28886681 AAGAACCCAGAGAGAAATAATTCTCACATAAATAAATTTTTAATCCAAAGACCAAAAGTTGTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTA
* * * * *** *
28886746 CAAAATGACAGATTATTTGGACCAAATGATGTGATTTCCCGAGAACAAAATGTTCGATAAATTGT
66 CAAAATGACAAACTATTTGGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGA-AAATTGC
* * * * * * *
28886811 TCAAAGAAATGGATCGTCTTAAATACTTTAAGGAACCAAATTTATAAAAGAACTCAAAAAAGATT
130 TCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGAAAAAGTTT
* **
28886876 GCAAAGTTCGGAAGTTCTTCC
195 G-AAAGTTTGGAAGTTCGACC
* * * * *
28886897 TAGAACCAAGAGAGAAATAATTTTCACGTAAATAAGTTTTTAATTCAAAGACCGAAAGTTTTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTA
* * * * * * *
28886962 CAAAAGGACCAACTATTTGGACCAAAGGATGCAAGTTCCCGAGAATAGAATGTTCGAAAAATTGC
66 CAAAATGACAAACTATTTGGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCG-AAAATTGC
* * * * * **
28887027 TCGAAGGAATCGATCGTCTTTAAAACTTTAAGGAATCGAAGTTATAAACGAACTTAAAAAAGTTT
130 TCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGAAAAAGTTT
* * *
28887092 GACATGTTCT-AAAGTTCGGCC
195 GA-AAGTT-TGGAAGTTCGACC
* * *
28887113 AAGAACCAAGAGAGAAATAATTCTCACATAAATAATTTTTTAA-TCAAAAGACCAAAAGTTGTTT
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTC-AAAGACCAAAAGTTGTTT
* * * * * *
28887177 ACAAAATGACAGATTATTTGTACCAAATGATGCAATTTCCCGAG-ACCGGAATGTTGGAAAAATT
65 ACAAAATGACAAACTATTTGGACCAAATGATGCGATTTCCCGAGCA-TGGAATGTTCG-AAAATT
* * ** * *
28887241 GTTCGAAGAAATTCATCGTCTTGAATACTTTAAGGAACCAAAGTTATAAAGGAACTCGAAAAAGT
128 GCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGAAAAAGT
28887306 TTGCAAAGTTTGGAAGTTC-AGCC
193 TTG-AAAGTTTGGAAGTTCGA-CC
* * * * * *
28887329 TAGAACCAAGAGTGAAATAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCGAAAGTTTTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTA
* * * * *** * * * *
28887394 CAAAAGGACTAATTATTTGGACCAAATGATGCGATGTCGTAAGAATGGAATATTTGGAAAATTAC
66 CAAAATGACAAACTATTTGGACCAAATGATGCGATTTCCCGAGCATGGAAT-GTTCGAAAATTGC
* *
28887459 TCGAAGGAATCGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCAAAAAAGTTT
130 TCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGAAAAAGTTT
* * *
28887524 TATAAGTTCGGATGTTCGACC
195 GA-AAGTTTGGAAGTTCGACC
** *
28887545 AAGAACCAAGAGAGAAACAATTCTCAAATAAATAAGTTTTTAATTCAAAGACCGAAAGTTGTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTA
* * ** *
28887610 CAAAATGATAAAATATTTGGACCAAATGATGCGATTTCCTAAGCATGGAATGTTTGGAAAATTGC
66 CAAAATGACAAACTATTTGGACCAAATGATGCGATTTCCCGAGCATGGAATG-TTCGAAAATTGC
* * * *
28887675 GCGAAGGAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAAATAACTCG-TAAAGTTT
130 TCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGAAAAAGTTT
* * *
28887739 GACAAG-TTCGAGAGTT-TAGTC
195 GA-AAGTTTGGA-AGTTCGA-CC
* * * ** *
28887760 AAGAACCAAGGGAGAAACCATTCACACGTAAATAAGTTTTTAATTTTAAGACCAAAAGTTCTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTA
* *
28887825 CAAAATGACAAACTATTTGGACCAAATGATGCGATTTCCCAAGCTTGGAATGTTCGAAAAATTGC
66 CAAAATGACAAACTATTTGGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCG-AAAATTGC
** * * * ** * *
28887890 TTAAATGAATGGATCGTCTCGAATACTGTAAGGAGTCGAAGCTATAATAGAACTCGAAAAAGTTT
130 TCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGAAAAAGTTT
*
28887955 GAAAAGTTTGGAAGTTCAACC
195 G-AAAGTTTGGAAGTTCGACC
* * * * *
28887976 AAGAGCCAAGAGAGAAACAATTCTAATGTTAATAAGTTTTTAATTCAAAGAGCAAAAGTTGTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTA
* * * * ***
28888041 CAAAATAACAAACTACTTGGTA-GAAATGATGCGATTTCTCGAGCATGGAATGCTAAAAAAATTG
66 CAAAATGACAAACTATTTGG-ACCAAATGATGCGATTTCCCGAGCATGGAATG-TTCGAAAATTG
* * * * * * *
28888105 CTCAAAAGAATGGATTGTCTTGAATACTTTAAGAAACCAAAGTTATAAAAGAACTTGTAAAAGTT
129 CTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGAAAAAGTT
* * * *
28888170 TGACATGTTTAGATGTTCGGCC
194 TGA-AAGTTTGGAAGTTCGACC
* * * *
28888192 AAGAACCAAGAAAGAAACAATTCTCACGTAAATAAGTCTTTAATTTAAAGACCAAAAGTTTTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTA
* * * * *
28888257 CGAAATGACAAACTGTTTGGACTAAAGGATGCGATTTCTCGAGCATGGAATGTTCGAAAATTGCT
66 CAAAATGACAAACTATTTGGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAATTGCT
* * * * *
28888322 AGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCTAATTTA-AAAAGAACTCGTAAAAGTTCG
131 CGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGAAAAAGTTTG
* * * *
28888386 ACAAGTTCGAAAGCTC-AGCT
196 A-AAGTTTGGAAGTTCGA-CC
* *
28888406 AAGAACCAAGAGAGAAATAATTCTCCCGTAAATAAGTTTTTAATGT-AAAGACCAAAAGTTGTTT
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAAT-TCAAAGACCAAAAGTTGTTT
* * * * * * *
28888470 ACAAAATAACATATTATTTGGACAAAATGATGCAATTTCCCGAGAATAGAATGTTCGAAAAATTG
65 ACAAAATGACAAACTATTTGGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCG-AAAATTG
* * * * *
28888535 CTCGAAAGAATGGATCGTCTGGAATACTCTAAGGAACCGAAGTTATAAAAGAACTAGAAAAAATT
129 CTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGAAAAAGTT
* *
28888600 TGAAAAGTTAGGAAGTTCGGCC
194 TG-AAAGTTTGGAAGTTCGACC
* ** *
28888622 AAGAACCAAGAAAGAAACAATTCTCAAATAAATAAGTTTTTAATTCAAAGACCGAAAGTT-TTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTA
* * ** *
28888686 CAAAAGGACAAACTATTTGGACCAAATGGTGCGATTTCCCGAGGC-TAAAATGTTAAGAAAATTG
66 CAAAATGACAAACTATTTGGACCAAATGATGCGATTTCCCGA-GCATGGAATGTT-CGAAAATTG
* ** * * * * * *
28888750 CTCGATGGAATCTATCGTCTTGAATACTTTAAGGGACCAAAGTTATAAAGGTACTTGAAACAGTT
129 CTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGAAAAAGTT
* ** * *
28888815 TGACGAGTTCAGAATTTCGGCC
194 TGA-AAGTTTGGAAGTTCGACC
* * * ** *
28888837 AAGAACCAAGAGAGGAACAATTCTGACATAAATAAAATTTTAATCCAAAGACCAAAAGTTGTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTA
* * * * * * * *
28888902 CAAAATGACAGATTATTCGTACCAAATGATGCGATTTCCCGAGAACGGAATGTTTGAAAAATTGT
66 CAAAATGACAAACTATTTGGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCG-AAAATTGC
* * * * * *
28888967 TCGAAGAAATGGATCATCTTAAATAATTTATGGAACCAAAGTTATAAAAGAACTCGAAAAAGTTT
130 TCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGAAAAAGTTT
* * *
28889032 GTAAACTTTGGAAGTTTGGCC
195 G-AAAGTTTGGAAGTTCGACC
* * * * * *
28889053 TAGAACAAAGAGAGAAATAATTCTCACGTAAATAAGTTTTT--TACAAAAGGACTAACTA-TT-T
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTC-AAA-GACCAA-AAGTTGT
** * ** * ** * *
28889114 GGACTAAATG--ATGCGATTT---CCCGA-GAATG-GA-ATGCC---C-----A-----GAAAAT
63 TTACAAAATGACAAACTATTTGGACCAAATG-ATGCGATTTCCCGAGCATGGAATGTTCGAAAAT
* ** * * * * *
28889158 TGCTTGAAGGAATCTATCGTTTTAAATACTTTAAGGAACCGAAGCTATAAAAGAACTTGTAAAAG
127 TGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGAAAAAG
*
28889223 TTTGACTAGTTTGGAAGTTCGACC
192 TTTGA-AAGTTTGGAAGTTCGACC
*** * * ** * *
28889247 AAGAACCAAGAGAGAAATGTTTCTCACATAAATAAATTTCGAA-TCTAAAGACCAAAAGTTCTAT
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTC-AAAGACCAAAAGTTGTTT
*** * * * * * * *
28889311 ACAAAATGATGGATTATTTAGACCAAATGATGCAATTTCCTGAGAACGGAATGTTCGAAAAATTA
65 ACAAAATGACAAACTATTTGGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCG-AAAATTG
* * * * * * *
28889376 TTCGAAGAAATTGATCGTCTTGAATACTTTACGAAACCAAAGTTATAAAAGAACTCAAAAAAGTT
129 CTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGAAAAAGTT
* *
28889441 TGCAAAGATTGGTAGTTC-AGCC
194 TG-AAAGTTTGGAAGTTCGA-CC
* * * * *
28889463 TAGAACCAAGAGTGAAATAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCGAAAGTTTTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTA
* * * * * * **
28889528 CAAAAGGACTAATTATTTGCACCAAATGATGCGATTTTTCCAATAATGGAATGTTCGAAAAATTG
66 CAAAATGACAAACTATTTGGACCAAATGATGCGA-TTTCCCGAGCATGGAATGTTCG-AAAATTG
** * * * *
28889593 CTCGAAGGAATCAATCGTCTTGAATACTTTAAAGAACCGAAGTTATAAAAGTACACAAAAAAGTT
129 CTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGAAAAAGTT
* *
28889658 TGACAAGTTCGGAAGTTATG-CC
194 TGA-AAGTTTGGAAGTT-CGACC
* * * *
28889680 AAGAACCAAGAG-G-AACAATTCTCACATAAATAAATTTTTAATCCAAAGACCAAATGTTGTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTA
* * * * * * * *
28889743 CAAAATGACAGATTATTTGGACGAAATGATACGGTTTCCCGAGAACGGAATGTTCGAAAAATTGT
66 CAAAATGACAAACTATTTGGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCG-AAAATTGC
* * *
28889808 TC-AATGAAATGGATCGTCTTGAATACTTTTAGGAACCAAAGTTATAAAAGAACTCGAAAAAGTT
130 TCGAA-GGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGAAAAAGTT
28889872 TG
194 TG
28889874 TGCAATCTTT
Statistics
Matches: 3666, Mismatches: 714, Indels: 220
0.80 0.16 0.05
Matches are distributed among these distances:
193 2 0.00
194 115 0.03
195 13 0.00
197 4 0.00
200 7 0.00
201 2 0.00
202 2 0.00
208 3 0.00
209 3 0.00
210 7 0.00
213 6 0.00
214 229 0.06
215 719 0.20
216 2236 0.61
217 315 0.09
218 3 0.00
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.27
Consensus pattern (214 bp):
AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTA
CAAAATGACAAACTATTTGGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAATTGCT
CGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGAAAAAGTTTG
AAAGTTTGGAAGTTCGACC
Found at i:28887038 original size:432 final size:432
Alignment explanation
Indices: 28885169--28889873 Score: 4984
Period size: 432 Copynumber: 11.0 Consensus size: 432
28885159 AAGCTTAGTG
* ** * *
28885169 AAGAACCAAGGGAGAAACCATTCTCACGTAAATAAGTTTTTAATTCTAAGACCAAAAGTTGTTTA
1 AAGAACCAAGAGAGAAATAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTTTTTA
* * * * *
28885234 CAAAATGACAAACTATTTGGACCAAATG-TAGCGATTTCTCGAGCATGAAATATTCGAGAAATTG
66 CAAAAGGACAAACTATTTGGACCAAATGAT-GCGATTTCCCGAGCATGGAATGTTCGAAAAATTG
* * * * * *
28885298 CTCGAACGAATGGATCGTCTTCAATACTGTAAGGAATCGAAGCTATAATAA-AACTCGAAAAAGT
130 CTCGAAGGAATCGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAA-AAGAACTCGAAAAAGT
* * * * * *
28885362 TTTA-AAGGTTTGGAAGTTCGACCAAGAACGAAGAGAGAAACCATTCTTACGTAAATAAGTTTTT
194 TTGACAA-GTTCGGAAGTTCGACCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTT
* * ** * * * * *
28885426 AATTCAATGAGTAAAAGTTGTTTACAAAATAACAAACTTCA--TGGTCGAAATGATGCGATTTCT
258 AATCCAAAGACCAAAAGTTGTTTACAAAATGACAGA-TT-ATTTGGACCAAATGATGCGATTTCC
* * * * * * *
28885489 TGAGCATGGAATGCTC-AGAAAATTGCTCAAAGGAATGGATCGTCTTGAACACTATAAGGAACCA
321 CGAGAACGGAATGTTCGA-AAAATTGCTCAAAGAAATGGATCGTCTTGAATACTTTAAGGAACCA
* *
28885553 AAGTTATAAAAGAACTCGAAAAAGTTTG-ACAAGTTCGGAAGTTCGTCC
385 AAGTTATAAAAGAACTCGAAAAAGTTTGCA-AAGTTTGGAAGTTCGGCC
* * * *
28885601 AAGAACCAAGGGAGAAACTAA-TCTCACGTAAATAAGTGTTTAATTCAAAGACCAAAAGTTGTTC
1 AAGAACCAAGAGAGAAA-TAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTTTTT
** ** * * ** * *
28885665 ATGAAATAAGAAACTATTTGGACCAAAGGATGCGATTTCTTGAGCATGGAATGTTTGGAAAATTG
65 ACAAAAGGACAAACTATTTGGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTG
* * * *
28885730 CTAGAAGGAATTGATTC-TCCTGAATACTTTAAGGAACCGAAGTTA-AAAAGAACTCGTAAAAGT
130 CTCGAAGGAATCGA-TCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGAAAAAGT
* * * * * *
28885793 TTGACTAGTTCGGAAGTTCGGCTAATAACCAAGAGAGAAATAATTCTCACGTAAATAAGTTTTTA
194 TTGACAAGTTCGGAAGTTCGACCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTA
* * * **
28885858 ATCCAAAGACCAAAAGTTGTTTACAAAATAACAGATTATATGGACAAAATGATGTAATTTCCCGA
259 ATCCAAAGACCAAAAGTTGTTTACAAAATGACAGATTATTTGGACCAAATGATGCGATTTCCCGA
* * * * *
28885923 AAATC-GAATGTTCGAAAAATTGCTCGAAGGAATGGATTGTCTTGAATACTTTAAGGAACCGAAG
324 GAA-CGGAATGTTCGAAAAATTGCTCAAAGAAATGGATCGTCTTGAATACTTTAAGGAACCAAAG
* * * *
28885987 TTATAAAAGAACTAGAAAAAGTTTGAAAACTTTGGATGTTCGGCC
388 TTATAAAAGAACTCGAAAAAGTTTGCAAAGTTTGGAAGTTCGGCC
* * * * * * *
28886032 AAGAACTAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAACTCAAAGCCCGAAGGTTTTTTA
1 AAGAACCAAGAGAGAAATAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTTTTTA
* * * * *
28886097 CAAAAGGAAAAACTATTTGGACCAAATTG-TGCGATTTCTCGACGC-TGAAATGTTAGGAAAATT
66 CAAAAGGACAAACTATTTGGACCAAA-TGATGCGATTTCCCGA-GCATGGAATGTTCGAAAAATT
* * *
28886160 GCTCGAAGGAATCTATCGTCTTGAATTCTTTAAAGAACCGAAGTTATAAAAGAACTCGAAAAAGT
129 GCTCGAAGGAATCGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGAAAAAGT
** * * *
28886225 TTGACAAGTTCAAAAATTCGGCTAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTA
194 TTGACAAGTTCGGAAGTTCGACCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTA
* * * * * * * **
28886290 ATTCAAAGACCGAAAGTTGTTTACAAAAGGATAAAATATTCGGACCAAATGATGTAAATTTCCCG
259 ATCCAAAGACCAAAAGTTGTTTACAAAATGACAGATTATTTGGACCAAATGATG-CGATTTCCCG
* * * ** * *
28886355 AGCATGGAATGTTTGGTAAATTGCTCAAAGAAATGGATCGTCTTGAATACTTTAAGGAATCGAAG
323 AGAACGGAATGTTCGAAAAATTGCTCAAAGAAATGGATCGTCTTGAATACTTTAAGGAACCAAAG
* * * * * * * *
28886420 TTGTAAAATAAATCGTAAAAGTTCG-ACAAGTTTGAAAGTTCAGTC
388 TTATAAAAGAACTCGAAAAAGTTTGCA-AAGTTTGGAAGTTCGGCC
* * * * * ** * *
28886465 ATGAACCAGGGGAGAAGTCATTCTCGTGTAAATAAGTTTTTAATTCTAAGACCAAAAGTTGTTTA
1 AAGAACCAAGAGAGAAATAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTTTTTA
* * * * * * *
28886530 CAAAATGACAAACTATTTGGACCAAAGGATGCGATTTACCGTGCACGGAGTGTTC-AGATAATTG
66 CAAAAGGACAAACTATTTGGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGA-AAAATTG
* * * * *
28886594 CTCGAAGGAATCGATAGTCAT-ACATACTTTAAGGAACCGAAGTTATATAAGAACTCAAAAAAGC
130 CTCGAAGGAATCGATCGTCTTGA-ATACTTTAAGGAACCGAAGTTATAAAAGAACTCGAAAAAGT
* * * * * *
28886658 TTGACAAGTTCGAAAGTTCAATCAAGAACCCAGAGAGAAATAATTCTCACATAAATAAATTTTTA
194 TTGACAAGTTCGGAAGTTCGACCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTA
*
28886723 ATCCAAAGACCAAAAGTTGTTTACAAAATGACAGATTATTTGGACCAAATGATGTGATTTCCCGA
259 ATCCAAAGACCAAAAGTTGTTTACAAAATGACAGATTATTTGGACCAAATGATGCGATTTCCCGA
** * * * *
28886788 GAACAAAATGTTCGATAAATTGTTCAAAGAAATGGATCGTCTTAAATACTTTAAGGAACCAAATT
324 GAACGGAATGTTCGAAAAATTGCTCAAAGAAATGGATCGTCTTGAATACTTTAAGGAACCAAAGT
* * * **
28886853 TATAAAAGAACTCAAAAAAGATTGCAAAGTTCGGAAGTTCTTCC
389 TATAAAAGAACTCGAAAAAGTTTGCAAAGTTTGGAAGTTCGGCC
* * *
28886897 TAGAACCAAGAGAGAAATAATTTTCACGTAAATAAGTTTTTAATTCAAAGACCGAAAGTTTTTTA
1 AAGAACCAAGAGAGAAATAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTTTTTA
* * * * * *
28886962 CAAAAGGACCAACTATTTGGACCAAAGGATGCAAGTTCCCGAGAATAGAATGTTCGAAAAATTGC
66 CAAAAGGACAAACTATTTGGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGC
* * * * **
28887027 TCGAAGGAATCGATCGTCTTTAAAACTTTAAGGAATCGAAGTTATAAACGAACTTAAAAAAGTTT
131 TCGAAGGAATCGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGAAAAAGTTT
* ** * * *
28887092 GACATGTTCTAAAGTTCGGCCAAGAACCAAGAGAGAAATAATTCTCACATAAATAATTTTTTAAT
196 GACAAGTTCGGAAGTTCGACCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAAT
* * *
28887157 CAAAAGACCAAAAGTTGTTTACAAAATGACAGATTATTTGTACCAAATGATGCAATTTCCCGAGA
261 CCAAAGACCAAAAGTTGTTTACAAAATGACAGATTATTTGGACCAAATGATGCGATTTCCCGAGA
* * * * **
28887222 CCGGAATGTTGGAAAAATTGTTCGAAGAAATTCATCGTCTTGAATACTTTAAGGAACCAAAGTTA
326 ACGGAATGTTCGAAAAATTGCTCAAAGAAATGGATCGTCTTGAATACTTTAAGGAACCAAAGTTA
* *
28887287 TAAAGGAACTCGAAAAAGTTTGCAAAGTTTGGAAGTTCAGCC
391 TAAAAGAACTCGAAAAAGTTTGCAAAGTTTGGAAGTTCGGCC
* * * *
28887329 TAGAACCAAGAGTGAAATAATTCTCACGTAAATAAGTTTTTAATTCAAAGATCGAAAGTTTTTTA
1 AAGAACCAAGAGAGAAATAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTTTTTA
* * * *** * * * * *
28887394 CAAAAGGACTAATTATTTGGACCAAATGATGCGATGTCGTAAGAATGGAATATTTGGAAAATTAC
66 CAAAAGGACAAACTATTTGGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGC
*
28887459 TCGAAGGAATCGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCAAAAAAGTTT
131 TCGAAGGAATCGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGAAAAAGTTT
* * * *
28887524 TATAAGTTCGGATGTTCGACCAAGAACCAAGAGAGAAACAATTCTCAAATAAATAAGTTTTTAAT
196 GACAAGTTCGGAAGTTCGACCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAAT
* * * * * ** *
28887589 TCAAAGACCGAAAGTTGTTTACAAAATGATAAAATATTTGGACCAAATGATGCGATTTCCTAAGC
261 CCAAAGACCAAAAGTTGTTTACAAAATGACAGATTATTTGGACCAAATGATGCGATTTCCCGAGA
* * * * * * * *
28887654 ATGGAATGTTTGGAAAATTGCGCGAAGGAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTA
326 ACGGAATGTTCGAAAAATTGCTCAAAGAAATGGATCGTCTTGAATACTTTAAGGAACCAAAGTTA
* * * ** *
28887719 TAAAATAACTCG-TAAAGTTTG-ACAAG-TTCGAGAGTTTAGTC
391 TAAAAGAACTCGAAAAAGTTTGCA-AAGTTTGGA-AGTTCGGCC
* ** * ** *
28887760 AAGAACCAAGGGAGAAACCATTCACACGTAAATAAGTTTTTAATTTTAAGACCAAAAGTTCTTTA
1 AAGAACCAAGAGAGAAATAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTTTTTA
* * *
28887825 CAAAATGACAAACTATTTGGACCAAATGATGCGATTTCCCAAGCTTGGAATGTTCGAAAAATTGC
66 CAAAAGGACAAACTATTTGGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGC
** * * * * ** * *
28887890 TTAAATGAATGGATCGTCTCGAATACTGTAAGGAGTCGAAGCTATAATAGAACTCGAAAAAGTTT
131 TCGAAGGAATCGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGAAAAAGTTT
* * * * * ** *
28887955 GAAAAGTTTGGAAGTTCAACCAAGAGCCAAGAGAGAAACAATTCTAATGTTAATAAGTTTTTAAT
196 GACAAGTTCGGAAGTTCGACCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAAT
* * * * * * * *
28888020 TCAAAGAGCAAAAGTTGTTTACAAAATAACAAACTACTTGGTA-GAAATGATGCGATTTCTCGAG
261 CCAAAGACCAAAAGTTGTTTACAAAATGACAGATTATTTGG-ACCAAATGATGCGATTTCCCGAG
* * * ** * *
28888084 CATGGAATGCTAAAAAAATTGCTCAAA-AGAATGGATTGTCTTGAATACTTTAAGAAACCAAAGT
325 AACGGAATGTTCGAAAAATTGCTCAAAGA-AATGGATCGTCTTGAATACTTTAAGGAACCAAAGT
* * * * *
28888148 TATAAAAGAACTTGTAAAAGTTTG-ACATGTTTAGATGTTCGGCC
389 TATAAAAGAACTCGAAAAAGTTTGCA-AAGTTTGGAAGTTCGGCC
* * * *
28888192 AAGAACCAAGAAAGAAACAATTCTCACGTAAATAAGTCTTTAATTTAAAGACCAAAAGTTTTTTA
1 AAGAACCAAGAGAGAAATAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTTTTTA
* * * * * *
28888257 CGAAATGACAAACTGTTTGGACTAAAGGATGCGATTTCTCGAGCATGGAATGTTCG-AAAATTGC
66 CAAAAGGACAAACTATTTGGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGC
* * * * * *
28888321 TAGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCTAATTTA-AAAAGAACTCGTAAAAGTTC
131 TCGAAGGAATCGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGAAAAAGTTT
* * * * * *
28888385 GACAAGTTCGAAAGCTC-AGCTAAGAACCAAGAGAGAAATAATTCTCCCGTAAATAAGTTTTTAA
196 GACAAGTTCGGAAGTTCGA-CCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAA
** * * * *
28888449 TGTAAAGACCAAAAGTTGTTTACAAAATAACATATTATTTGGACAAAATGATGCAATTTCCCGAG
260 TCCAAAGACCAAAAGTTGTTTACAAAATGACAGATTATTTGGACCAAATGATGCGATTTCCCGAG
** * * *
28888514 AATAGAATGTTCGAAAAATTGCTCGAAAG-AATGGATCGTCTGGAATACTCTAAGGAACCGAAGT
325 AACGGAATGTTCGAAAAATTGCTC-AAAGAAATGGATCGTCTTGAATACTTTAAGGAACCAAAGT
* * * *
28888578 TATAAAAGAACTAGAAAAAATTTGAAAAGTTAGGAAGTTCGGCC
389 TATAAAAGAACTCGAAAAAGTTTGCAAAGTTTGGAAGTTCGGCC
* * ** *
28888622 AAGAACCAAGAAAGAAACAATTCTCAAATAAATAAGTTTTTAATTCAAAGACCGAAAG-TTTTTA
1 AAGAACCAAGAGAGAAATAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTTTTTA
* ** *
28888686 CAAAAGGACAAACTATTTGGACCAAATGGTGCGATTTCCCGAGGC-TAAAATGTT-AAGAAAATT
66 CAAAAGGACAAACTATTTGGACCAAATGATGCGATTTCCCGA-GCATGGAATGTTCGA-AAAATT
* * * * * * * *
28888749 GCTCGATGGAATCTATCGTCTTGAATACTTTAAGGGACCAAAGTTATAAAGGTACTTGAAACAGT
129 GCTCGAAGGAATCGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGAAAAAGT
* * * * * * **
28888814 TTGACGAGTTCAGAATTTCGGCCAAGAACCAAGAGAGGAACAATTCTGACATAAATAAAATTTTA
194 TTGACAAGTTCGGAAGTTCGACCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTA
* *
28888879 ATCCAAAGACCAAAAGTTGTTTACAAAATGACAGATTATTCGTACCAAATGATGCGATTTCCCGA
259 ATCCAAAGACCAAAAGTTGTTTACAAAATGACAGATTATTTGGACCAAATGATGCGATTTCCCGA
* * * * * * *
28888944 GAACGGAATGTTTGAAAAATTGTTCGAAGAAATGGATCATCTTAAATAATTTATGGAACCAAAGT
324 GAACGGAATGTTCGAAAAATTGCTCAAAGAAATGGATCGTCTTGAATACTTTAAGGAACCAAAGT
* * *
28889009 TATAAAAGAACTCGAAAAAGTTTGTAAACTTTGGAAGTTTGGCC
389 TATAAAAGAACTCGAAAAAGTTTGCAAAGTTTGGAAGTTCGGCC
* *
28889053 TAGAACAAAGAGAGAAATAATTCTCACG----T-A------AA-T----------AAGTTTTTTA
1 AAGAACCAAGAGAGAAATAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTTTTTA
* * * * *
28889096 CAAAAGGACTAACTATTTGGACTAAATGATGCGATTTCCCGAGAATGGAATG-CCCAGAAAATTG
66 CAAAAGGACAAACTATTTGGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGA-AAAATTG
* * * * * * *
28889160 CTTGAAGGAATCTATCGTTTTAAATACTTTAAGGAACCGAAGCTATAAAAGAACTTGTAAAAGTT
130 CTCGAAGGAATCGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGAAAAAGTT
* * *** * **
28889225 TGACTAGTTTGGAAGTTCGACCAAGAACCAAGAGAGAAATGTTTCTCACATAAATAAATTTCGAA
195 TGACAAGTTCGGAAGTTCGACCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAA
* * * ** * * *
28889290 TCTAAAGACCAAAAGTTCTATACAAAATGATGGATTATTTAGACCAAATGATGCAATTTCCTGAG
260 TCCAAAGACCAAAAGTTGTTTACAAAATGACAGATTATTTGGACCAAATGATGCGATTTCCCGAG
** * * * *
28889355 AACGGAATGTTCGAAAAATTATTCGAAGAAATTGATCGTCTTGAATACTTTACGAAACCAAAGTT
325 AACGGAATGTTCGAAAAATTGCTCAAAGAAATGGATCGTCTTGAATACTTTAAGGAACCAAAGTT
* * * *
28889420 ATAAAAGAACTCAAAAAAGTTTGCAAAGATTGGTAGTTCAGCC
390 ATAAAAGAACTCGAAAAAGTTTGCAAAGTTTGGAAGTTCGGCC
* * *
28889463 TAGAACCAAGAGTGAAATAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCGAAAGTTTTTTA
1 AAGAACCAAGAGAGAAATAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTTTTTA
* * * * * **
28889528 CAAAAGGACTAATTATTTGCACCAAATGATGCGATTTTTCCAATAATGGAATGTTCGAAAAATTG
66 CAAAAGGACAAACTATTTGGACCAAATGATGCGA-TTTCCCGAGCATGGAATGTTCGAAAAATTG
* * * * *
28889593 CTCGAAGGAATCAATCGTCTTGAATACTTTAAAGAACCGAAGTTATAAAAGTACACAAAAAAGTT
130 CTCGAAGGAATCGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGAAAAAGTT
* *
28889658 TGACAAGTTCGGAAGTTATG-CCAAGAACCAAGAG-G-AACAATTCTCACATAAATAAATTTTTA
195 TGACAAGTTCGGAAGTT-CGACCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTA
* * * *
28889720 ATCCAAAGACCAAATGTTGTTTACAAAATGACAGATTATTTGGACGAAATGATACGGTTTCCCGA
259 ATCCAAAGACCAAAAGTTGTTTACAAAATGACAGATTATTTGGACCAAATGATGCGATTTCCCGA
* * *
28889785 GAACGGAATGTTCGAAAAATTGTTCAATGAAATGGATCGTCTTGAATACTTTTAGGAACCAAAGT
324 GAACGGAATGTTCGAAAAATTGCTCAAAGAAATGGATCGTCTTGAATACTTTAAGGAACCAAAGT
28889850 TATAAAAGAACTCGAAAAAGTTTG
389 TATAAAAGAACTCGAAAAAGTTTG
28889874 TGCAATCTTT
Statistics
Matches: 3564, Mismatches: 639, Indels: 141
0.82 0.15 0.03
Matches are distributed among these distances:
409 4 0.00
410 339 0.10
414 1 0.00
415 1 0.00
419 1 0.00
420 2 0.00
421 2 0.00
422 1 0.00
426 1 0.00
427 1 0.00
429 51 0.01
430 322 0.09
431 1123 0.32
432 1249 0.35
433 463 0.13
434 3 0.00
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.27
Consensus pattern (432 bp):
AAGAACCAAGAGAGAAATAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTTTTTA
CAAAAGGACAAACTATTTGGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGC
TCGAAGGAATCGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGAAAAAGTTT
GACAAGTTCGGAAGTTCGACCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAAT
CCAAAGACCAAAAGTTGTTTACAAAATGACAGATTATTTGGACCAAATGATGCGATTTCCCGAGA
ACGGAATGTTCGAAAAATTGCTCAAAGAAATGGATCGTCTTGAATACTTTAAGGAACCAAAGTTA
TAAAAGAACTCGAAAAAGTTTGCAAAGTTTGGAAGTTCGGCC
Found at i:28889238 original size:194 final size:194
Alignment explanation
Indices: 28888925--28889281 Score: 450
Period size: 194 Copynumber: 1.8 Consensus size: 194
28888915 TATTCGTACC
*** *
28888925 AAATGATGCGATTTCCCGAGAACGGAATGTTTGAAAAATTGTTCGAAGAAATGGATCATCTTAAA
1 AAATGATGCGATTTCCCGAGAACGGAATGCCAGAAAAATTGTTCGAAGAAATCGATCATCTTAAA
* * * * *
28888990 TAATTTATGGAACCAAAGTTATAAAAGAACTCGAAAAAGTTTGTAAACTTTGGAAGTTTGGCCTA
66 TAATTTAAGGAACCAAAGCTATAAAAGAACTCGAAAAAGTTTGTAAACTTTGGAAGTTCGACCAA
*
28889055 GAACAAAGAGAGAAATAATTCTCACGTAAATAAGTTTTTTACAAAAGGACTAACTATTTGGACT
131 GAACAAAGAGAGAAATAATTCTCACATAAATAAGTTTTTTACAAAAGGACTAACTATTTGGACT
* * * * *
28889119 AAATGATGCGATTTCCCGAGAATGGAATGCCCAG-AAAATTGCTT-GAAGGAATCTATCGTTTTA
1 AAATGATGCGATTTCCCGAGAACGGAATG-CCAGAAAAATTG-TTCGAAGAAATCGATCATCTTA
* * * * * *
28889182 AATACTTTAAGGAACCGAAGCTATAAAAGAACTTGTAAAAGTTTG-ACTAGTTTGGAAGTTCGAC
64 AATAATTTAAGGAACCAAAGCTATAAAAGAACTCGAAAAAGTTTGTA-AACTTTGGAAGTTCGAC
* **
28889246 CAAGAACCAAGAGAGAAATGTTTCTCACATAAATAA
128 CAAGAACAAAGAGAGAAATAATTCTCACATAAATAA
28889282 ATTTCGAATC
Statistics
Matches: 136, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
193 1 0.01
194 132 0.97
195 3 0.02
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (194 bp):
AAATGATGCGATTTCCCGAGAACGGAATGCCAGAAAAATTGTTCGAAGAAATCGATCATCTTAAA
TAATTTAAGGAACCAAAGCTATAAAAGAACTCGAAAAAGTTTGTAAACTTTGGAAGTTCGACCAA
GAACAAAGAGAGAAATAATTCTCACATAAATAAGTTTTTTACAAAAGGACTAACTATTTGGACT
Found at i:28890259 original size:216 final size:214
Alignment explanation
Indices: 28889871--28897175 Score: 6988
Period size: 216 Copynumber: 33.9 Consensus size: 214
28889861 TCGAAAAAGT
* * * *
28889871 TTGTGCAATCTTTTTCGAGTTCTTTTATAACTTTGGTTCCTTAAAGTACTCAAGACGATCCATTT
1 TTGT-CAAACTTTTTCGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTC
* * * ** ** * * * * *
28889936 CTTTGAACAATTTTTCGAACATTCTGTTATCAGGAAACCACATCATTTGGTCCAAATAATCTATC
65 CTTCGAGCAATTTCT-GAACATTCCATGCTCA-GAAATCGCATCATTTGGTCCAAATAGTTTGTC
* * * * * * **
28890001 ATTTTGTAAACAACTTTTAGTATTTGGATTAAAAATTTATTTATGTGAGAATTATTTCTCTCAAG
128 ATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTG
**
28890066 GTTCTTGATTGAACTTCCGAAC
193 GTTCTTGACCGAACTTCCGAAC
* * * * * *
28890088 ATGTCAAGCTTTTTCAAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCATGACTATCGATTCC
1 TTGTCAAACTTTTTCGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCC
* * *
28890153 TTTGAGCAATTATCTGAACACTCCGTGCTCAGTAAATCGCATCATTTGGTCCAAATAGTTTGTCA
66 TTCGAGCAATT-TCTGAACATTCCATGCTCAG-AAATCGCATCATTTGGTCCAAATAGTTTGTCA
* * ** * *
28890218 TTTTGTAAACAAATTTTGGTCTTAGAATTAAAAACTTATTTACACGAGAA-TGACTTCTCCCTTG
129 TTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTG-TTTCTCTCTTG
* * * *
28890282 GTTCATGACTGAACTTTCAAAC
193 GTTCTTGACCGAACTTCCGAAC
* * * * * * **
28890304 TTTTCAAACTTTTACGATTTATTTTACAACTTCGGTTCCTTAAAGTATTCAAGATGATCCATTTT
1 TTGTCAAACTTTTTCGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCC
** * * * * * *
28890369 TTCGAGCAATTTCCCAAACATTCCATGCTCGGGAAATTTGGATCATTTGGTCCGAATATTTTATC
66 TTCGAGCAATTT-CTGAACATTCCATGCTC-AGAAA-TCGCATCATTTGGTCCAAATAGTTTGTC
* * * *
28890434 CTTTTGTAAACAACTTTTTGCCTTTGAATTAAAAACTTATTTATGTGAGAATTGTTTCTCTCTTG
128 ATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTG
* * ***
28890499 GTTCTTGGCCGAATTTTTTAAC
193 GTTCTTGACCGAACTTCCGAAC
* * * * * * **
28890521 TTGTCAAACTTTTTCAAGTTATTCTATAACTTCAGTTCTTTAAAGTATTTAAGACGATAGATTCC
1 TTGTCAAACTTTTTCGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCC
* * * * *
28890586 TTCGAGCAATTTTCCT-AACATTTCA-GCCTTGAGAAATCGCACCATTTGGTCCAGATAGTTTTT
66 TTCGAGCAA-TTT-CTGAACATTCCATG-C-TCAGAAATCGCATCATTTGGTCCAAATAGTTTGT
* * * * *
28890649 CCTTTTGTAAA-AACCTTCGGTCTTTGAATTAAAAACATATTTACGTGAGAATGGTTTCTCTCTT
127 CATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTT
** *
28890713 GGTTCTTGGTCGAACTTCCAAACC
192 GGTTCTTGACCGAACTTCCGAA-C
* * *
28890737 TT-TCAAACTTTTTCGAGTT-TTATTATAGCTTCGATTCCTTACAGTATTCAAGACGATCCATTC
1 TTGTCAAACTTTTTCGAGTTCTT-TTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTC
* * * * * * *
28890800 CTTCAAGCAATTTCCCGAATATTTCATGGTCGAAAAATTC-CAACATTTGGTCCAAATAGTTTGT
65 CTTCGAGCAATTT-CTGAACATTCCATGCTC-AGAAA-TCGCATCATTTGGTCCAAATAGTTTGT
* * * *
28890864 CATTTTGTAAACAACTTTTGGTCTTAGAATTAAAAACTAATTTACGTGAGAATGGTTTCTCCCTT
127 CATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTT
* ** * *
28890929 GATTCTTGA-TTAATCTTTCGAAA
192 GGTTCTTGACCGAA-CTTCCGAAC
** * *
28890952 TTGTCAGTCTTTTAT-GAGTTATTTTATAACTTCGGTTCCTTAAAGTATTAAAGACGATCCATTC
1 TTGTCAAACTTTT-TCGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTC
** ** * * * * * *
28891016 CACCGAGCAATTTACCAAACATTCCATGCTCGGGAAATAGCATCATTAGGTCGAAATATTTTATC
65 CTTCGAGCAATTT-CTGAACATTCCATGCTC-AGAAATCGCATCATTTGGTCCAAATAGTTTGTC
* * * * *
28891081 CTTCTGTAAACAACTTTCGGCCTTTGAATTAAAAACTTATTTATGTGAGAATTGTTTCTCTCTTG
128 ATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTG
*
28891146 GTTTTTGGA-CGAACTTCCGAAC
193 GTTCTT-GACCGAACTTCCGAAC
** * *
28891168 TTGTCAAACTTTTTCCTGTTCTTTTATAACTTTGGTTCCTTATAGTATTCAAGACGATCCATTCC
1 TTGTCAAACTTTTTCGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCC
* * * * * *
28891233 TTCGAGCAATTTTCTGAGCATTCCATGCTCAAGAAATCGCAGCATTTCGACCAAGTAGTTTGTTA
66 TTCGAGCAA-TTTCTGAACATTCCATGCTC-AGAAATCGCATCATTTGGTCCAAATAGTTTGTCA
* * ** * *
28891298 TTTTGAAAACAACCTTTACTCATTGAATTAAAAACTTATTTACGTGAGAATGGTTTCTCTCTTGG
129 TTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGG
** *
28891363 TTCTTGGTCGAACTTCCAAACC
194 TTCTTGACCGAACTTCCGAA-C
* * * * * *
28891385 TT-TCAAACTTGTTCAAGTT-TTATTATAGCTTCGATTCCTTACAGTATTCAAGATGATCCATTC
1 TTGTCAAACTTTTTCGAGTTCTT-TTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTC
* * * * * * * *
28891448 CTTCGAGCAATCTCCCGAATATTTCATGGTCGAGAAATTGCAACATTTGGTCCAAATAGTTTGTT
65 CTTCGAGCAAT-TTCTGAACATTCCATGCTC-AGAAATCGCATCATTTGGTCCAAATAGTTTGTC
* * * *
28891513 ATTTTGTAAAAAACTTTTGGTCTTAGAATTAAAAACTTATTTCCGTGAGAATGGTTTCTCTCTTG
128 ATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTG
* * *
28891578 GTTCTTGA-CTAATCTTTCGAAA
193 GTTCTTGACCGAA-CTTCCGAAC
*
28891600 TTGT-AAATCTTTTAT-GAGTTATTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATT
1 TTGTCAAA-CTTTT-TCGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATT
** * * * * *
28891663 CCTTCGAGCAATTTACCAAACATTCCATGCTCGGGAAATCACATCATTAT-GTCGAAATATTTTA
64 CCTTCGAGCAATTT-CTGAACATTCCATGCTC-AGAAATCGCATCATT-TGGTCCAAATAGTTTG
* * * * *
28891727 TCCTTCTGTAAACAACTTTCGGTCTTTGAGTTAAAAACTTATTTATGTGAGAATTGTTTCTCTCT
126 TCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCT
*
28891792 TGGTTCTTGGCCGAACTTCCGAAC
191 TGGTTCTTGACCGAACTTCCGAAC
* * * *
28891816 TTGTCAAACTTTTTCGAGTTCATTTATAACTTTGGTTCCTTAAAGTATTCAAGACAATCTATTCC
1 TTGTCAAACTTTTTCGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCC
* * * * * * *
28891881 TTCGAGCAATTTTCCGAACATTCCATTCTTGAGAAATCGTATCATTTGGTCCAAATAATTAGTCC
66 TTCGAGCAA-TTTCTGAACATTCCATGC-TCAGAAATCGCATCATTTGGTCCAAATAGTTTGTCA
* * * * * * *
28891946 TTTTGTAAAAAACTTTCGATCTTTGAATTAAAAACTTATTTACGTGAGAATTATTTCACTATTGA
129 TTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGG
* * ** *
28892011 TTCTAGGCTAAACTTCCAAAC
194 TTCTTGACCGAACTTCCGAAC
* * * * *
28892032 TT-TGCAAACTTTTTCGAGTTCTTTTAAAACTTTGGTTCCTTAAAGTATTCAAGACAATGCATTT
1 TTGT-CAAACTTTTTCGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTC
* * * * ** * * * * *
28892096 ATTCGAACAATTTTTCCAACATTCCATTATTGAGAAATTGCATCATTTGGTACAAATAATCTGTC
65 CTTCGAGCAATTTCT-GAACATTCCA-TGCTCAGAAATCGCATCATTTGGTCCAAATAGTTTGTC
* * * *
28892161 ATTTTGTAAACAACTTTTGGTCATTGGATTAAAAATTTATTTATGTGAGAATTGTTTCTCTCTTG
128 ATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTG
* *
28892226 GTTCTTGGCCGAACTTTCGAAC
193 GTTCTTGACCGAACTTCCGAAC
* * ** * ** * * * *
28892248 ATGTCATACTTTTTTAAGTTCTTCTATAACTTCAATTCCTTAAAGTTTTTAAGATGATCGATTCC
1 TTGTCAAACTTTTTCGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCC
* * * * * * ** * *
28892313 TTCGAGAAAGTTTCTAAACATTCTATTCTCGGGAAATCGAATCCCTTGGTCCAAATAGTTAGTCC
66 TTCGAGCAA-TTTCTGAACATTCCATGCTC-AGAAATCGCATCATTTGGTCCAAATAGTTTGTCA
* * * * *
28892378 TTTGGTAAAAAACTTTCGATCTTTGAATTAAAAACTTATTTACGTGAGAATTATTTCTCTCTTGG
129 TTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGG
* *
28892443 TTCTAGGA-AGAACTTCCGAAC
194 TTCT-TGACCGAACTTCCGAAC
* * * * *
28892464 TT-TGCAAACTCTTTCGATTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACGTTCCATTT
1 TTGT-CAAACTTTTTCGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTC
* * * ** * * * * * *
28892528 CTTTGAACAATTTTTCGAACATTCTGTTCTCGGGAAATCACACCATTTGGTCCAAATAATCTGTC
65 CTTCGAGCAATTTCT-GAACATTCCATGCTC-AGAAATCGCATCATTTGGTCCAAATAGTTTGTC
* * *
28892593 ATTTTGTAAACAACTTTTGGTCTTTGGATTAAAAATTTATTTATGTGAGAATTGTTTCTCTCTTG
128 ATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTG
* *
28892658 GTTCTTGGCCGAACTTTCGAAC
193 GTTCTTGACCGAACTTCCGAAC
* ** * * * *
28892680 ATGTCAAACTTTTTTAAGTTCTTCTATAACTTCGATTCCTTAAAGTTTTCAAGACGATCGATTCC
1 TTGTCAAACTTTTTCGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCC
* * * * * * * *
28892745 TTCGAGCAATTTTCCGAACATTCTATTCTCGGGAAATCGAATCCTTTGGTCCAAATAGTTAGTCC
66 TTCGAGCAA-TTTCTGAACATTCCATGCTC-AGAAATCGCATCATTTGGTCCAAATAGTTTGTCA
* *** *
28892810 TTTTGTAAAAAACTTTCAATCTTTGAATTAAAAACTTATTTACGTGAGAATTATTTCTCTCTTGG
129 TTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGG
* * *
28892875 TTGTAGGA-AGAACTTCCGAAC
194 TTCT-TGACCGAACTTCCGAAC
* * * * *
28892896 TT-TGCAAACTGTTTCGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACGTTGCATTT
1 TTGT-CAAACTTTTTCGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTC
** * * ** * * * * * *
28892960 CTTTAAACAATTTTTCGAACATTCTGTTCTCGGGAAATCACATCATTTGGTCCAAATAATCTATC
65 CTTCGAGCAATTTCT-GAACATTCCATGCTC-AGAAATCGCATCATTTGGTCCAAATAGTTTGTC
* *
28893025 ATTTTGTAAACAACTTTTGGTCTTTTG-ATTAAAAATTTATTTATGTGAGAATTGTTTCTCT-TT
128 ATTTTGTAAACAACTTTTGGTC-TTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTT
**
28893088 GGGTTCTTGATTGAACTTCCGAAC
192 -GGTTCTTGACCGAACTTCCGAAC
* * * * **
28893112 TTGTCAAACTTTTTCGAATTCTTTTATAACTTCGGTTCCTTAAAGCACTCATA-ACTATTGATTC
1 TTGTCAAACTTTTTCGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCA-AGACGATCCATTC
* * * * *
28893176 CTCCGAGCAATCATCTGAACGTTCCATGCTCGGTAAATCGCATCATTTGGTCCAAATTGTTTGTC
65 CTTCGAGCAAT-TTCTGAACATTCCATGCTCAG-AAATCGCATCATTTGGTCCAAATAGTTTGTC
** * ** * *
28893241 ATTTTGTAAACAACTTTTGGTCTTAAAATTAAAAACTTAATTACACGAGAA-TGACTTCTCCCTT
128 ATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTG-TTTCTCTCTT
* * * *
28893305 GGTTCATGACTGAACTTTCAAAC
192 GGTTCTTGACCGAACTTCCGAAC
* * * * *
28893328 TTGTCAAACTTTTACGATTTATTTTACAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTTC
1 TTGTCAAACTTTTTCGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCC
* ** * * * * *
28893393 TTCAAGCAATTTCCCAAACATTCCATGCTCGTGAAATTTGCATCATTTGGTCCGAATATTTTATC
66 TTCGAGCAATTT-CTGAACATTCCATGCTC-AGAAA-TCGCATCATTTGGTCCAAATAGTTTGTC
* ** * *
28893458 CTTTAATAAACAACTTTCT-GTCTTTGAATTAAAAACTTATTTATGTGAGAATTGTTTCTCCCTT
128 ATTTTGTAAACAACTTT-TGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTT
* * * **
28893522 GATTCTTGGCCGAATTTTTGAAC
192 GGTTCTTGACCGAACTTCCGAAC
* * * **
28893545 TTGTCAAACATTTTCGAGTTCTTTTATACCTTCGGTTCTTTAAAGTATTCAAGACGATAGATTCC
1 TTGTCAAACTTTTTCGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCC
* * ** * * *
28893610 TTTGAGCAATTTTCCT-AACATTTCACCCTCGAGAAATCGCACCATTTGGCCCAAATAGTTTTTC
66 TTCGAGCAA-TTT-CTGAACATTCCATGCTC-AGAAATCGCATCATTTGGTCCAAATAGTTTGTC
* * * * *
28893674 CTTTTGCAAA-ATACCTTCGTTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTT
128 ATTTTGTAAACA-ACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTT
* *
28893738 GGTTCTTGGCCGAACATCCGAAC
192 GGTTCTTGACCGAACTTCCGAAC
* * * *
28893761 TTTTAAAACTTTTTCGAGTTCTTTTATAACTTCGGTTCCTTAAAGAATTCAAGACAATCCATTCC
1 TTGTCAAACTTTTTCGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCC
* * * * ** * * * * * *
28893826 TTCGAGCAATTTTTCAAACATTCGATTCTTGGGAATTCACATCATTTTGTCCAAATAATCTGTTA
66 TTCGAGCAATTTCT-GAACATTCCATGC-TCAGAAATCGCATCATTTGGTCCAAATAGTTTGTCA
** * * * *
28893891 TTTTGTAAACAACTTTTGGTCTTTGGTTTTAAAACTTATGTACGTGAGAATTATTTTTCTCTTGG
129 TTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGG
* *
28893956 TTATT-AGCCGAACTTTCGAAC
194 TTCTTGA-CCGAACTTCCGAAC
* * *
28893977 TAGTCAAACTTTTAT-GAGTTCTTTT-TAACTTCGGTTTCTTAAAGTATTCAGGACGATCCATTC
1 TTGTCAAACTTTT-TCGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTC
* * * * *
28894040 CTTCTAGCAATTTTTCGAACATTCCATGCTCGAGAAATCGCATCCTTTGGTCCAAATAGTTTCTT
65 CTTCGAGCAATTTCT-GAACATTCCATGCTC-AGAAATCGCATCATTTGGTCCAAATAGTTTGTC
* * * * * *
28894105 ATTTCGTAAACAACTTTTGGTCTTTTAATGAAAGACTTATTTACATGAGAATTATTTCTCTCTTG
128 ATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTG
28894170 GTTCTTGGA-CGAACTTCCGAAC
193 GTTCTT-GACCGAACTTCCGAAC
* * ** * * *
28894192 TTGTCAAACTTTTTCGAGTTCTTTTATAACTTTGGTTCCGTATGGTATTCAAGACAATTCAGTCC
1 TTGTCAAACTTTTTCGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCC
* * * ** *
28894257 TTCGAGCAATTTTCTGAGCATTCCATGCTCAAGAAATCGCATCATTTCGACCATGTAGTTCGTCA
66 TTCGAGCAA-TTTCTGAACATTCCATGCTC-AGAAATCGCATCATTTGGTCCAAATAGTTTGTCA
* ** * * * *
28894322 TTTTGTAAACAAATTTTACTCTTTGAATTAAAAACTTAATTACGTGGGAATGGTTTCTCTCTTTG
129 TTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGG
** * *
28894387 TTCTTGGTCGAACTACCAAACC
194 TTCTTGACCGAACTTCCGAA-C
* * * * * ** *
28894409 TT-TCAATCTCTTTT-GAGTTCTATTATAGCTTCGATTCCTTACAGTATTCAAGACGATCTGTTT
1 TTGTCAAACT-TTTTCGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTC
* * * *
28894472 CTTCGAGCAATTCCTCAAACATTTCATGCTCGAGAAATCACATCATTTGGTCCAAATAGTTTGTC
65 CTTCGAGCAATTTCT-GAACATTCCATGCTC-AGAAATCGCATCATTTGGTCCAAATAGTTTGTC
* * * *
28894537 ATTTTGTAAACAACTTTTGGTCTTAGAATTAAAAACTTATTTATGTGAGAATGGTTTCTCCCTTG
128 ATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTG
* * * *
28894602 GTTCTTGA-CTAAGATTTCGAAA
193 GTTCTTGACCGAA-CTTCCGAAC
* * * * *
28894624 TTGTC-AATTTTTTACGAGTTATTTTATAACTTCGATTACTTAAAGTATTCAAGATGATCCATTC
1 TTGTCAAACTTTTT-CGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTC
** * * * * *
28894688 CTTCGAGCAATTTACCAAACATTCCATGCTCGGGAAATTGCATCATTAGGTCCAAATATTTTATC
65 CTTCGAGCAATTT-CTGAACATTCCATGCTC-AGAAATCGCATCATTTGGTCCAAATAGTTTGTC
*
28894753 CTTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTT-CTGTGAGAATTGTTTCTCTCTT
128 ATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTAC-GTGAGAATTGTTTCTCTCTT
* *
28894817 GGTTCTTGGCCGAAGTTCCGAAC
192 GGTTCTTGACCGAACTTCCGAAC
* * *
28894840 TTGTCAAACTTTTTCGAGTTCTTTTATAATTTTGGTTCCTTAAAGTATTCAAGACGATCGATTCC
1 TTGTCAAACTTTTTCGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCC
* *
28894905 TTCGAGCAATTTTCTGAACATTCCTTTCTCAAGAAATCGCATCATTTGGTCCAAATAGTTAT-TC
66 TTCGAGCAA-TTTCTGAACATTCCATGCTC-AGAAATCGCATCATTTGGTCCAAATAGTT-TGTC
* * * * *
28894969 CTTTTGT-AACAAACTTTCGGTCTTTGAATTAAAAACTTATTTATGTGAGAATTATTTTTCTCTT
128 ATTTTGTAAAC-AACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTT
* ** * *
28895033 GGTTCTAGGTCGAACTTTCAAAC
192 GGTTCTTGACCGAACTTCCGAAC
* *
28895056 TT-TGCAAACTTTTTCGAGTTCTTTTATAACTTTGGTTCCTTAAAGTGA-TCAAGACAATCCATT
1 TTGT-CAAACTTTTTCGAGTTCTTTTATAACTTCGGTTCCTTAAAGT-ATTCAAGACGATCCATT
* ** * * * * * * * *
28895119 TCTTCGAATAATTTTTGAACATTCTATTCTCGGGAAATCGTATAATTTGGTCCAAATAATCTGTC
64 CCTTCGAGCAATTTCTGAACATTCCATGCTC-AGAAATCGCATCATTTGGTCCAAATAGTTTGTC
* * * ** *
28895184 ATTTTGTAAACAATTTTTGGTCTTTGGATTAAAAATTTATTTATTTGAGAATTGTTTCTCTTTTG
128 ATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTG
* *
28895249 GTTCTTGGCCGAACTTTCGAAC
193 GTTCTTGACCGAACTTCCGAAC
* * * * * * * * *
28895271 TTGTCAAAATTTTTCTAGTACTTTTAGAACTTCAGTTCCTTAAAATATTCATGACTATCGATTCC
1 TTGTCAAACTTTTTCGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCC
* * * * * *
28895336 TTCGAGAAATTATCCGAACATTCCTTGCTCGGTAAATCGCATCATTTGGTCCAAATAATTTATCA
66 TTCGAGCAATT-TCTGAACATTCCATGCTCAG-AAATCGCATCATTTGGTCCAAATAGTTTGTCA
* * * *
28895401 TTTTGTAAACAACTTTTGGTCTTAGAATTAAAAATTTATTTACGTGAGAATGGTTTCTCCCTTGG
129 TTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGG
* * * *
28895466 TTCATGACTGAACTTTCAAAC
194 TTCTTGACCGAACTTCCGAAC
* * * * * *
28895487 TTTTCAAACTTTTACGATTTATGTTATAACTTCGGTTCATTAAAGTATTCAAGACGATCCATTCC
1 TTGTCAAACTTTTTCGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCC
* * ** * * * * *
28895552 TTCGTGAAATTTTCAAAACATTCCATGCTCGGGAAATCGCATCATTTGGTCCGAATATTTTATCC
66 TTCGAGCAA-TTTCTGAACATTCCATGCTC-AGAAATCGCATCATTTGGTCCAAATAGTTTGTCA
* *
28895617 TTTTGTAAACAACTTTTGATCTTTGAATTAAAAACTTATTTATGTGAGAATTGTTTCTCTCTTGG
129 TTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGG
*
28895682 TTCTTGGCCGAACTTCCGAAC
194 TTCTTGACCGAACTTCCGAAC
* * **
28895703 TTTTCAAACTTTTTCGAG-ACTTTTATAACTTCATTTCCTTAAAGTATTCAAGACGATCCATTCC
1 TTGTCAAACTTTTTCGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCC
** * ** * * * * * *
28895767 TTCGAGCAATTTGTCT-AACATTCGGTTCTTGGGAAATTGTATCATTTTGTCCAAATAATCTGTT
66 TTCGAGCAA-TT-TCTGAACATTCCATGC-TCAGAAATCGCATCATTTGGTCCAAATAGTTTGTC
* * *
28895831 ATTTTGTAAACAACTTTTGGTCTTTGGATTAAAAACTTATTTACGTGAGAGTTATTTCTCTCTTG
128 ATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTG
28895896 GTTCTT-AGCCGAACTTCCGAAC
193 GTTCTTGA-CCGAACTTCCGAAC
* * * * * *
28895918 TAGTCAAACTTTTACGAGTTGTTGT-TAACTTCGATTCCTTAAATTATTCAAGACGATCCATTCC
1 TTGTCAAACTTTTTCGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCC
* * * * * *
28895982 TTCTAGCAATTTTTCGAACATTCCATGCTTGAGAAATCGTATCCTTTGGTCCATATAGTTTGTCA
66 TTCGAGCAATTTCT-GAACATTCCATGC-TCAGAAATCGCATCATTTGGTCCAAATAGTTTGTCA
* * * *
28896047 TTTCGTAAACAACTATTGGTCTTTGATTTAAAGACTTATTTACGTGAGAATTGTTTCTCTCTTGG
129 TTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGG
*
28896112 TTCTTGGA-CGAACATT-TGAAC
194 TTCTT-GACCGAAC-TTCCGAAC
* * * * * * * *
28896133 ATGTCAAACTTTTACAAGTTCTTTTATAAATTTGGTTCCTTAAAGCATTCAAGACAATCCATTCT
1 TTGTCAAACTTTTTCGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCC
* * * * *
28896198 TTTGAGCAATTTTCTGAGCATTCCATGCTCGAGAAATCGCATCATTTCGACCAAGTAGTTTGTCA
66 TTCGAGCAA-TTTCTGAACATTCCATGCTC-AGAAATCGCATCATTTGGTCCAAATAGTTTGTCA
** * * * *
28896263 TTTTGTAAACAACTTTTTCTCTTTGAATTAAAAACTTATTAACATTAGAATTGTTTCTCTCTTTG
129 TTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGG
*** * *
28896328 TTCTTGGTTGAACTTTCAAAC
194 TTCTTGACCGAACTTCCGAAC
* * * * * * * * *
28896349 TT-TCAAACTTTTTTGAGTTCTATTATAGCTTTGATTTCTTACAGTATTCATGACGATCCTTTCC
1 TTGTCAAACTTTTTCGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCC
* * *
28896413 TTCGAGCAACTTTCTGAACATTCCATGCTCGGGAAATCGCATCATTTGGTACAAATAGTTTATCA
66 TTCGAGCAA-TTTCTGAACATTCCATGCTC-AGAAATCGCATCATTTGGTCCAAATAGTTTGTCA
* * * * * *
28896478 TTTAGTAAACAACTTTTTGTCTTAGAATTAAAAACTTATTTACGTGAGAATGGTTTCACCCTTGG
129 TTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGG
* *
28896543 TTCTTGACTGAACTTTCGAAC
194 TTCTTGACCGAACTTCCGAAC
* * *
28896564 TTGTCAAACTTTTACGAGTTATTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCTATTCC
1 TTGTCAAACTTTTTCGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCC
** * ** * *
28896629 TTCGAGCAATTTTCCAAACATTCCATGCTCGAGAAATCGCATCATTGGGTCCAAATTTTTTATCC
66 TTCGAGCAA-TTTCTGAACATTCCATGCTC-AGAAATCGCATCATTTGGTCCAAATAGTTTGTCA
* * *
28896694 TTTTGTAAACAACTTTTGTTCTTTGAATTAAAAACTTATTTAGGTGAGAATTGTTTCTCACTTGG
129 TTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGG
*
28896759 TTCTTGGCCGAACTTCCGAAC
194 TTCTTGACCGAACTTCCGAAC
** * * * *
28896780 TTGTCAAACTTTTTCGAGTTCTTTTATAACTTCATTTCCTTAAAGTATCCATGACTATCGATTCC
1 TTGTCAAACTTTTTCGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCC
* * * *
28896845 TTCGAGCAATTATC-CAAAATTCCATGCTCGGTAAATCGCATCATTTGGGCCAAATAGTTTGTCA
66 TTCGAGCAATT-TCTGAACATTCCATGCTCAG-AAATCGCATCATTTGGTCCAAATAGTTTGTCA
* * * * * *
28896909 TTTTGTAAACAACTTTTGGACTTAGAATTAAAAACTTATTTACATGACAA-TGACTTCTCCCTTG
129 TTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTG-TTTCTCTCTTG
*
28896973 GTTC---A-TG-AC-T--GAAC
193 GTTCTTGACCGAACTTCCGAAC
* * *
28896987 TT-TCAAACTTTTACGATTTATTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCC
1 TTGTCAAACTTTTTCGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCC
** * * * * * * *
28897051 TTCGAGCAATTTTCCAAACATTCGAAGCTCGAGAAATCGCATCATTTCGTCCGAATATTTTATCC
66 TTCGAGCAA-TTTCTGAACATTCCATGCTC-AGAAATCGCATCATTTGGTCCAAATAGTTTGTCA
* * * * *
28897116 TTTTGTAAATAACTTTCGATCTTTGAATTAAAAACTTATTTATGTGAGAATTATTTCTCT
129 TTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCT
28897176 GATACCACTA
Statistics
Matches: 5796, Mismatches: 1156, Indels: 282
0.80 0.16 0.04
Matches are distributed among these distances:
206 64 0.01
207 92 0.02
208 2 0.00
209 1 0.00
210 2 0.00
211 1 0.00
213 2 0.00
214 22 0.00
215 1221 0.21
216 3947 0.68
217 426 0.07
218 16 0.00
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (214 bp):
TTGTCAAACTTTTTCGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCC
TTCGAGCAATTTCTGAACATTCCATGCTCAGAAATCGCATCATTTGGTCCAAATAGTTTGTCATT
TTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTT
CTTGACCGAACTTCCGAAC
Found at i:28898517 original size:26 final size:26
Alignment explanation
Indices: 28898489--28898707 Score: 203
Period size: 26 Copynumber: 8.5 Consensus size: 26
28898479 ACATAGTACT
* *
28898489 TGCTAAACATTCACTGGCTCAAAGCT
1 TGCTAAACATTCACCGGCTCAAAGCC
* * *
28898515 TGCTAATCAATCACCGACT-AAAGGCC
1 TGCTAAACATTCACCGGCTCAAA-GCC
* * * *
28898541 TACTAAACATTCACCGGGTTAAGGCC
1 TGCTAAACATTCACCGGCTCAAAGCC
** ** * *
28898567 TGCTAAA-AGACACCAACTCAAGGTC
1 TGCTAAACATTCACCGGCTCAAAGCC
28898592 TGCTAAACATTCACCGGCTCAAAGCC
1 TGCTAAACATTCACCGGCTCAAAGCC
* *
28898618 TGCTAAA-AGTCACCGGCTCAAGGCC
1 TGCTAAACATTCACCGGCTCAAAGCC
* *
28898643 TGCTAAACATTCACTGGCTCGAAGCC
1 TGCTAAACATTCACCGGCTCAAAGCC
* *
28898669 TGCTAAA-AGTCACCGGCTCAAAGTC
1 TGCTAAACATTCACCGGCTCAAAGCC
*
28898694 TACTAAACATTCAC
1 TGCTAAACATTCAC
28898708 ATCACATTTC
Statistics
Matches: 151, Mismatches: 37, Indels: 10
0.76 0.19 0.05
Matches are distributed among these distances:
25 64 0.42
26 85 0.56
27 2 0.01
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (26 bp):
TGCTAAACATTCACCGGCTCAAAGCC
Found at i:28898606 original size:51 final size:50
Alignment explanation
Indices: 28898489--28898707 Score: 242
Period size: 51 Copynumber: 4.3 Consensus size: 50
28898479 ACATAGTACT
* * * * *
28898489 TGCTAAACATTCACTGGCTCAAAGCTTGCTAATCAA-TCACCGACTAAAGGCC
1 TGCTAAACATTCACCGGCTC-AAGCCTGCTAA--AAGTCACCGGCTCAAGGTC
* * * * **
28898541 TACTAAACATTCACCGGGTTAAGGCCTGCTAAAAGACACCAACTCAAGGTC
1 TGCTAAACATTCACCGGCTCAA-GCCTGCTAAAAGTCACCGGCTCAAGGTC
*
28898592 TGCTAAACATTCACCGGCTCAAAGCCTGCTAAAAGTCACCGGCTCAAGGCC
1 TGCTAAACATTCACCGGCTC-AAGCCTGCTAAAAGTCACCGGCTCAAGGTC
* *
28898643 TGCTAAACATTCACTGGCTCGAAGCCTGCTAAAAGTCACCGGCTCAAAGTC
1 TGCTAAACATTCACCGGCTC-AAGCCTGCTAAAAGTCACCGGCTCAAGGTC
*
28898694 TACTAAACATTCAC
1 TGCTAAACATTCAC
28898708 ATCACATTTC
Statistics
Matches: 143, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
50 2 0.01
51 115 0.80
52 26 0.18
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (50 bp):
TGCTAAACATTCACCGGCTCAAGCCTGCTAAAAGTCACCGGCTCAAGGTC
Found at i:28898670 original size:102 final size:102
Alignment explanation
Indices: 28898489--28898707 Score: 280
Period size: 102 Copynumber: 2.1 Consensus size: 102
28898479 ACATAGTACT
* *
28898489 TGCTAAACATTCACTGGCTCAAAGCTTGCTAATCAATCACCGACTAAAGGCCTACTAAACATTCA
1 TGCTAAACATTCACCGGCTCAAAGCCTGCTAA-CAATCACCGACTAAAGGCCTACTAAACATTCA
* * *
28898554 CCGGGTTAAGGCCTGCTAAAAGACACCAACTCAAGGTC
65 CCGGCTGAAGGCCTGCTAAAAGACACCAACTCAAAGTC
* * *
28898592 TGCTAAACATTCACCGGCTCAAAGCCTGCTAA-AAGTCACCGGCTCAAGGCCTGCTAAACATTCA
1 TGCTAAACATTCACCGGCTCAAAGCCTGCTAACAA-TCACCGACTAAAGGCCTACTAAACATTCA
* * **
28898656 CTGGCTCGAA-GCCTGCTAAAAGTCACCGGCTCAAAGTC
65 CCGGCT-GAAGGCCTGCTAAAAGACACCAACTCAAAGTC
*
28898694 TACTAAACATTCAC
1 TGCTAAACATTCAC
28898708 ATCACATTTC
Statistics
Matches: 101, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
101 2 0.02
102 67 0.66
103 32 0.32
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (102 bp):
TGCTAAACATTCACCGGCTCAAAGCCTGCTAACAATCACCGACTAAAGGCCTACTAAACATTCAC
CGGCTGAAGGCCTGCTAAAAGACACCAACTCAAAGTC
Found at i:28900642 original size:6 final size:6
Alignment explanation
Indices: 28900633--28900667 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
28900623 AAATCTACCT
28900633 CTACTC CTACTC CTACTC CTACTC CTACTC CTACT
1 CTACTC CTACTC CTACTC CTACTC CTACTC CTACT
28900668 AATAAATAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.49, G:0.00, T:0.34
Consensus pattern (6 bp):
CTACTC
Found at i:28902245 original size:3 final size:3
Alignment explanation
Indices: 28902237--28902286 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
28902227 GGCTCAAATT
*
28902237 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC CTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
28902285 AT
1 AT
28902287 TATTATTATT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.32, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:28902291 original size:3 final size:3
Alignment explanation
Indices: 28902285--28902338 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
28902275 CATCATCCTC
28902285 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
28902333 ATT ATT
1 ATT ATT
28902339 GTTGTTGTTG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:28902343 original size:3 final size:3
Alignment explanation
Indices: 28902337--28902397 Score: 97
Period size: 3 Copynumber: 20.7 Consensus size: 3
28902327 ATTATTATTA
*
28902337 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT- TTG TTG TTG CTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
*
28902384 TTG TTG TTA TTG TT
1 TTG TTG TTG TTG TT
28902398 TTTAGGGTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
2 2 0.04
3 51 0.96
ACGTcount: A:0.02, C:0.02, G:0.30, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:28902954 original size:20 final size:20
Alignment explanation
Indices: 28902931--28902974 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
28902921 TAAAAATCTG
*
28902931 TTTTTTAGA-AAAGTTTAAA
1 TTTTTTAAACAAAGTTTAAA
*
28902950 -TTTTTAAACAAAGTTTTAA
1 TTTTTTAAACAAAGTTTAAA
28902969 TTTTTT
1 TTTTTT
28902975 TTAACTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 7 0.33
19 9 0.43
20 5 0.24
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (20 bp):
TTTTTTAAACAAAGTTTAAA
Found at i:28903015 original size:138 final size:141
Alignment explanation
Indices: 28902829--28903086 Score: 434
Period size: 140 Copynumber: 1.8 Consensus size: 141
28902819 AAGTTTTGTT
*
28902829 TTTTTTTTAAATAATTTCGAAATAAAAGCTTTTGATTTTTAAGTAAAATAGTGATTTTCTTT-AA
1 TTTTTTTTAAATAATTTCGAAATAAAAGCTTTGGATTTTTAAGTAAAATAGTGATTTTCTTTAAA
28902893 AAAAAGAGAAAATTTAGATTTTTAAAAATAAAAATCTG-TTTTTTAGAAAAGTTTAAATTTTTAA
66 AAAAAGAGAAAATTTAGATTTTT-AAAATAAAAATCTGTTTTTTTAGAAAAGTTTAAATTTTTAA
28902957 ACAAAGTTTTAA
130 ACAAAGTTTTAA
*
28902969 TTTTTTTTAACT-ATTTCGAAATAAAAG-TTTGGATTTTTAAGTAAAATAGTGATTTTCTTTAAA
1 TTTTTTTTAAATAATTTCGAAATAAAAGCTTTGGATTTTTAAGTAAAATAGTGATTTTCTTT-AA
* *
28903032 AAAAAAGAGAAAGTTTTGATTTTTAAAATAAAAATCTGTTTTTTTAGAAAAGTTT
65 AAAAAAGAGAAAATTTAGATTTTTAAAATAAAAATCTGTTTTTTTAGAAAAGTTT
28903087 TGATTTTTTG
Statistics
Matches: 111, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
138 32 0.29
139 29 0.26
140 50 0.45
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.44
Consensus pattern (141 bp):
TTTTTTTTAAATAATTTCGAAATAAAAGCTTTGGATTTTTAAGTAAAATAGTGATTTTCTTTAAA
AAAAAGAGAAAATTTAGATTTTTAAAATAAAAATCTGTTTTTTTAGAAAAGTTTAAATTTTTAAA
CAAAGTTTTAA
Found at i:28903093 original size:121 final size:118
Alignment explanation
Indices: 28902950--28903192 Score: 321
Period size: 121 Copynumber: 2.0 Consensus size: 118
28902940 AAAGTTTAAA
* * * **
28902950 TTTTTAAACAAAGTTTTAATTTTTTTTAACTATTTCGAAATAAAAGTTTGGATTTTTAAGTAAAA
1 TTTTTAAACAAAGTTTTAATTTTTTGTAACTATTTCAAAATAAAAATTTGGATTTTTAAAAAAAA
* * *
28903015 TAGTGATTTTCTTTAAAAAAAAAGAGAAAGTTT-TGATTTTTAAA-ATAAAAATCTGTT
66 TACTAATTTT-TTT---AAAAAA-AGAAAGTTTAT-ATTTTTAAATATAAAAATCAGTT
* *
28903072 TTTTTAGA-AAAGTTTTGATTTTTTGTAACTATTTCAAAATAAAAATTTGGATTTTTAAAAAAAA
1 TTTTTAAACAAAGTTTTAATTTTTTGTAACTATTTCAAAATAAAAATTTGGATTTTTAAAAAAAA
28903136 TACTAATTTTTTTAAAAAAAGAAAGTTTATATTTTTAAATATAAAAATCAGTT
66 TACTAATTTTTTTAAAAAAAGAAAGTTTATATTTTTAAATATAAAAATCAGTT
28903189 TTTT
1 TTTT
28903193 AGTCATTTTA
Statistics
Matches: 109, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
116 18 0.17
117 23 0.21
120 3 0.03
121 58 0.53
122 7 0.06
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.45
Consensus pattern (118 bp):
TTTTTAAACAAAGTTTTAATTTTTTGTAACTATTTCAAAATAAAAATTTGGATTTTTAAAAAAAA
TACTAATTTTTTTAAAAAAAGAAAGTTTATATTTTTAAATATAAAAATCAGTT
Found at i:28903266 original size:51 final size:51
Alignment explanation
Indices: 28903206--28903417 Score: 130
Period size: 51 Copynumber: 4.2 Consensus size: 51
28903196 CATTTTAAAG
*
28903206 AAAAGGTTTAAATTTTTAAATAAAGTTTTGATTTTTTTAACTATTTCGAAAT
1 AAAA-GTTTAAATTTTTAAATAAAATTTTGATTTTTTTAACTATTTCGAAAT
* ** * ** ** * ****
28903258 AAAAGTTTAGATTTTTAGGTAAAGTAGTGATTTCATTAA-AAAAAAGAAA-
1 AAAAGTTTAAATTTTTAAATAAAATTTTGATTTTTTTAACTATTTCGAAAT
* * * * * * *
28903307 GAAAGTTTAGATTTTTAAAAAATAAAAATTTG--CTTTTT-AGTGATTT-TAAAGA
1 AAAAGTTTAAATTTTT---AAATAAAATTTTGATTTTTTTAACT-ATTTCGAAA-T
*
28903359 AAAAGTTTAAATTTTTAAACAAAATTTTGATTTTTTTAACTATTTCGAAAT
1 AAAAGTTTAAATTTTTAAATAAAATTTTGATTTTTTTAACTATTTCGAAAT
28903410 AAAAGTTT
1 AAAAGTTT
28903418 TGATTTTGAA
Statistics
Matches: 114, Mismatches: 35, Indels: 23
0.66 0.20 0.13
Matches are distributed among these distances:
49 27 0.24
50 11 0.10
51 46 0.40
52 30 0.26
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.42
Consensus pattern (51 bp):
AAAAGTTTAAATTTTTAAATAAAATTTTGATTTTTTTAACTATTTCGAAAT
Found at i:28903387 original size:152 final size:150
Alignment explanation
Indices: 28903149--28903442 Score: 453
Period size: 152 Copynumber: 1.9 Consensus size: 150
28903139 TAATTTTTTT
* * * *
28903149 AAAAAAAGAAAGTTTATATTTTTAAATATAAAAATCAGTTTTTTAGTCATTTTAAAGAAAAGGTT
1 AAAAAAAGAAAGTTTAGATTTTTAAAAATAAAAATCAGCTTTTTAGTCATTTTAAAGAAAAAGTT
* * * *
28903214 TAAATTTTTAAATAAAGTTTTGATTTTTTTAACTATTTCGAAATAAAAGTTTAGATTTTTAGGTA
66 TAAATTTTTAAACAAAATTTTGATTTTTTTAACTATTTCGAAATAAAAGTTTAGATTTTGAAGTA
*
28903279 AAGTAGTGATTTCATTAAAA
131 AAGAAGTGATTTCATTAAAA
** *
28903299 AAAAGAAAGAAAGTTTAGATTTTTAAAAAATAAAAATTTGCTTTTTAGTGATTTTAAAGAAAAAG
1 AAAA-AAAGAAAGTTTAGATTTTT-AAAAATAAAAATCAGCTTTTTAGTCATTTTAAAGAAAAAG
*
28903364 TTTAAATTTTTAAACAAAATTTTGATTTTTTTAACTATTTCGAAATAAAAGTTTTGATTTTGAAG
64 TTTAAATTTTTAAACAAAATTTTGATTTTTTTAACTATTTCGAAATAAAAGTTTAGATTTTGAAG
28903429 TAAAGAAGTGATTT
129 TAAAGAAGTGATTT
28903443 TGTTTTAATC
Statistics
Matches: 129, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
150 4 0.03
151 18 0.14
152 107 0.83
ACGTcount: A:0.43, C:0.03, G:0.12, T:0.42
Consensus pattern (150 bp):
AAAAAAAGAAAGTTTAGATTTTTAAAAATAAAAATCAGCTTTTTAGTCATTTTAAAGAAAAAGTT
TAAATTTTTAAACAAAATTTTGATTTTTTTAACTATTTCGAAATAAAAGTTTAGATTTTGAAGTA
AAGAAGTGATTTCATTAAAA
Found at i:28903474 original size:152 final size:147
Alignment explanation
Indices: 28903079--28903481 Score: 418
Period size: 152 Copynumber: 2.7 Consensus size: 147
28903069 GTTTTTTTAG
* * * * * * *
28903079 AAAAGTTTTGATTTTTTGTAACTATTTCAAAATAAAAATTTGGATTTTTAA-AAAAAATACTAAT
1 AAAA-TTTTGATTTTTT-TAACTATTTCGAAATAAAAGTTTAGATTTTTAAGTAAAGA-AGTGAT
* * * *
28903143 TTTTTTAAAAAAAGAAAGTTT-ATATTTTT-AAATATAAAAATCAGTTTTTTAGTCATTTTAAAG
63 TTTTTTAAAAAAAAAAATTTTGAT-TTTTTAAAAAATAAAAATCAGCTTTTTAGTCATTTTAAAG
* *
28903206 AAAAGGTTTAAATTTTTAAAT
127 AAAAAGTTTAAATTTTTAAAC
* * *
28903227 AAAGTTTTGATTTTTTTAACTATTTCGAAATAAAAGTTTAGATTTTTAGGTAAAGTAGTGATTTC
1 AAAATTTTGATTTTTTTAACTATTTCGAAATAAAAGTTTAGATTTTTAAGTAAAGAAGTGATTT-
** * ** *
28903292 ATTAAAAAAAAGAAAGAAAGTTTAGA-TTTTTAAAAAATAAAAATTTGCTTTTTAGTGATTTTAA
65 -TT-TTAAAAA-AAA-AAA-TTTTGATTTTTTAAAAAATAAAAATCAGCTTTTTAGTCATTTTAA
28903356 AGAAAAAGTTTAAATTTTTAAAC
125 AGAAAAAGTTTAAATTTTTAAAC
* *
28903379 AAAATTTTGATTTTTTTAACTATTTCGAAATAAAAGTTTTGATTTTGAAGTAAAGAAGTGATTTT
1 AAAATTTTGATTTTTTTAACTATTTCGAAATAAAAGTTTAGATTTTTAAGTAAAGAAGTGA-TTT
28903444 GTTTTAATCAAAAAAAAACTTTTGATTTTTTTAAAAAA
65 -TTTTAA--AAAAAAAAA-TTTTGA-TTTTTTAAAAAA
28903482 AGAAAAAAAA
Statistics
Matches: 209, Mismatches: 32, Indels: 23
0.79 0.12 0.09
Matches are distributed among these distances:
146 35 0.17
147 15 0.07
148 5 0.02
149 5 0.02
150 2 0.01
151 18 0.09
152 111 0.53
153 18 0.09
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.43
Consensus pattern (147 bp):
AAAATTTTGATTTTTTTAACTATTTCGAAATAAAAGTTTAGATTTTTAAGTAAAGAAGTGATTTT
TTTAAAAAAAAAAATTTTGATTTTTTAAAAAATAAAAATCAGCTTTTTAGTCATTTTAAAGAAAA
AGTTTAAATTTTTAAAC
Found at i:28907960 original size:4 final size:4
Alignment explanation
Indices: 28907951--28907984 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
28907941 GTGTCCCAAT
* *
28907951 TTCA TTCA TTCA CTCA TTCA TTCA TTCA CTCA TT
1 TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TT
28907985 TGCTCATTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.24, C:0.29, G:0.00, T:0.47
Consensus pattern (4 bp):
TTCA
Found at i:28907972 original size:16 final size:16
Alignment explanation
Indices: 28907951--28907984 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
28907941 GTGTCCCAAT
28907951 TTCATTCATTCACTCA
1 TTCATTCATTCACTCA
28907967 TTCATTCATTCACTCA
1 TTCATTCATTCACTCA
28907983 TT
1 TT
28907985 TGCTCATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.29, G:0.00, T:0.47
Consensus pattern (16 bp):
TTCATTCATTCACTCA
Found at i:28916010 original size:11 final size:10
Alignment explanation
Indices: 28915994--28916018 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
28915984 AGAGATTTCT
28915994 AAAAAAAAAG
1 AAAAAAAAAG
28916004 AAAAAAAAAG
1 AAAAAAAAAG
28916014 AAAAA
1 AAAAA
28916019 TGGTACGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:28916300 original size:12 final size:12
Alignment explanation
Indices: 28916253--28916303 Score: 50
Period size: 12 Copynumber: 4.0 Consensus size: 12
28916243 TTAAATCAAG
*
28916253 AAAAAATACAAA
1 AAAAAATAGAAA
28916265 AAAAAGA-AGAAA
1 AAAAA-ATAGAAA
28916277 AATAGTAAATAGAAA
1 AA-A--AAATAGAAA
28916292 AAAAAATAGAAA
1 AAAAAATAGAAA
28916304 GAGAGAGCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
12 20 0.61
13 2 0.06
14 2 0.06
15 9 0.27
ACGTcount: A:0.78, C:0.02, G:0.10, T:0.10
Consensus pattern (12 bp):
AAAAAATAGAAA
Found at i:28919161 original size:42 final size:42
Alignment explanation
Indices: 28919109--28919611 Score: 643
Period size: 42 Copynumber: 11.9 Consensus size: 42
28919099 AAAGAAAGCA
* **
28919109 TTCATTGCATTTAGAGGCTCAAGTGTGGAGGTGTATTTACTT
1 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTT
* * *
28919151 TTCATCGCATTTAGAGGCCAAAGTGTGGAGGCCCATTTACTTT
1 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTAC-TT
* *
28919194 TTCATTGCATTTAAAGGCCCAAGTGTGAAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTT
* * *
28919236 TTCATTGTATTTAAAGGCCTAAGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTT
* * *
28919278 TTCATTGCATTCAGAGGGCCCAGGTGTGGAGGCCCATTTACTT
1 TTCATTGCATTTAGA-GGCCCAAGTGTGGAGGTCCATTTACTT
28919321 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTT
* * *
28919363 TTCATTGCATTTAGAGGCCCAGGTGTAGAGGTTCATTTACTT
1 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTT
* *
28919405 TTCATTGCATTTAGAGGCCTAGGTGTGGAGG-CCTATTTACTT
1 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCC-ATTTACTT
* * *
28919447 TTTATTGCATTTAGAGGCCCAAGTGTGGAGGCCCTTTTACTT
1 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTT
* *
28919489 TTCGTTGCATTTA-AGGGCCCAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGA-GGCCCAAGTGTGGAGGTCCATTTACTT
* * *
28919531 TTCATTGCA-CTCGAAAGCCCAAGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAG-AGGCCCAAGTGTGGAGGTCCATTTACTT
* * * ** *
28919573 TTCGTTGCAATTAGAGGCCTAAGCATAGAGGTCCATTTA
1 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTA
28919612 TTTATTTCAT
Statistics
Matches: 402, Mismatches: 51, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
41 3 0.01
42 319 0.79
43 80 0.20
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (42 bp):
TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTT
Found at i:28919975 original size:3 final size:3
Alignment explanation
Indices: 28919955--28920026 Score: 117
Period size: 3 Copynumber: 24.0 Consensus size: 3
28919945 AAGGGCCCAA
* *
28919955 ATT ATA ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
28920003 ATT ATT ATT ATT ATT ATT GTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT
28920027 GTTGTTGTTG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (3 bp):
ATT
Done.