Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 279 of 322
Found at i:92571479 original size:46 final size:46
Alignment explanation
Indices: 92571327--92571483 Score: 174
Period size: 46 Copynumber: 3.4 Consensus size: 46
92571317 GGGAGATAAA
* * * * *
92571327 ATTTATGGTTTCTTCCATCCATCCCACTACAAATCAAGGGTATAGG
1 ATTTGTGGCTTCTTCAATCCATCCCACTACAACTCAGGGGTATAGG
** * * *
92571373 ATTTGTACCATCTTTAATCCATCCCACTGCAACTCAGGGGTATTA-G
1 ATTTGTGGCTTCTTCAATCCATCCCACTACAACTCAGGGGTA-TAGG
**
92571419 ATTTGT-ATTATCTTCAATCCATCCCACTACAACTCAGGGGTATAGG
1 ATTTGTGGCT-TCTTCAATCCATCCCACTACAACTCAGGGGTATAGG
92571465 ATTTGTGGCTTCTTCAATC
1 ATTTGTGGCTTCTTCAATC
92571484 AATTTGATCT
Statistics
Matches: 90, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
45 2 0.02
46 85 0.94
47 3 0.03
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.34
Consensus pattern (46 bp):
ATTTGTGGCTTCTTCAATCCATCCCACTACAACTCAGGGGTATAGG
Found at i:92571944 original size:65 final size:64
Alignment explanation
Indices: 92571870--92572040 Score: 166
Period size: 53 Copynumber: 2.8 Consensus size: 64
92571860 ACAATGGACG
*
92571870 AGAAGGAAATTGATTAGGAGCATAGCTCGAAATGAATAAATTAATTAAAGATAACAAATGCAATA
1 AGAAGGAAATTGATT-GGAGCATAGCTCGAAATGAATAAATTAATCAAAGATAACAAATGCAATA
* * * *
92571935 AGAAGG-AA---A-T----CA-A-CTCGAAATGAATGAGTTAATCAAAGATAGCAAATGTAATA
1 AGAAGGAAATTGATTGGAGCATAGCTCGAAATGAATAAATTAATCAAAGATAACAAATGCAATA
* * * *
92571988 AGAAGGAAATTGATTGGTAGCGTAGCTCAAAATGAATACAGTAATCAAAGATA
1 AGAAGGAAATTGATTGG-AGCATAGCTCGAAATGAATAAATTAATCAAAGATA
92572041 GTAAATTCAA
Statistics
Matches: 83, Mismatches: 11, Indels: 24
0.70 0.09 0.20
Matches are distributed among these distances:
53 41 0.49
54 3 0.04
55 2 0.02
57 1 0.01
58 1 0.01
60 1 0.01
61 1 0.01
63 1 0.01
64 3 0.04
65 29 0.35
ACGTcount: A:0.49, C:0.09, G:0.20, T:0.22
Consensus pattern (64 bp):
AGAAGGAAATTGATTGGAGCATAGCTCGAAATGAATAAATTAATCAAAGATAACAAATGCAATA
Found at i:92585249 original size:15 final size:15
Alignment explanation
Indices: 92585229--92585263 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
92585219 ATACATACTC
92585229 AATAAA-AATAAAATA
1 AATAAATAAT-AAATA
92585244 AATAAATAATAAATA
1 AATAAATAATAAATA
92585259 AATAA
1 AATAA
92585264 TGAATTGGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 16 0.84
16 3 0.16
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AATAAATAATAAATA
Found at i:92585254 original size:11 final size:11
Alignment explanation
Indices: 92585229--92585264 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
92585219 ATACATACTC
92585229 AATAA-AAAT-
1 AATAATAAATA
92585238 AA-AATAAATA
1 AATAATAAATA
92585248 AATAATAAATA
1 AATAATAAATA
92585259 AATAAT
1 AATAAT
92585265 GAATTGGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 2 0.08
9 6 0.25
10 2 0.08
11 14 0.58
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (11 bp):
AATAATAAATA
Found at i:92587154 original size:45 final size:46
Alignment explanation
Indices: 92587098--92587209 Score: 127
Period size: 46 Copynumber: 2.5 Consensus size: 46
92587088 AATCTATTCC
* *
92587098 ACTGGAACTTCAAAGAGGTAAGAATTG-GTAATTTCAACCTGCTCT
1 ACTGCAACTTCAAAGAGATAAGAATTGTGTAATTTCAACCTGCTCT
** ** * * *
92587143 ACTGCAACTTCAGGGAGATAAGGCTTGTGTATTTTTATCCTGCTCT
1 ACTGCAACTTCAAAGAGATAAGAATTGTGTAATTTCAACCTGCTCT
*
92587189 ACTGTAACTTCAAAGAGATAA
1 ACTGCAACTTCAAAGAGATAA
92587210 AGACTGTGGC
Statistics
Matches: 54, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
45 21 0.39
46 33 0.61
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (46 bp):
ACTGCAACTTCAAAGAGATAAGAATTGTGTAATTTCAACCTGCTCT
Found at i:92587517 original size:143 final size:143
Alignment explanation
Indices: 92587318--92587675 Score: 457
Period size: 143 Copynumber: 2.5 Consensus size: 143
92587308 TTTCAACCTG
* * ** * * *
92587318 CTCCACTGCAACTTTAAGGAGATAAGGCTAGTGGCTTTGATCTGCTTCACTACAACTTCAGGAAG
1 CTCCGCTGCAACTTCAAGGAGATAAGGCTAGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAG
** * **
92587383 ATAAGATCTGCCATAATTTGTAGCTTCAATCTGTTCCACTGTAACTTCAGGGAAATAAGATTTGC
66 ATAAGATCTGCCATAATTTGTAGCTTCAATCTGTTCCACTACAACGTCAGGGAAATAAGATCCGC
* *
92587448 TATCTTTAGTCTG
131 TATCTTCAGTCTA
* * * * *
92587461 CTCTGCTGCAACTTCAGGGAGATAAGACTGGTGGCTTCAATCTACTCCACTGCAACTTCAGGGAG
1 CTCCGCTGCAACTTCAAGGAGATAAGGCTAGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAG
* * * *
92587526 ATAA-AGTTTTCCATAATTTGTAGCTTTAATCTGTTCCACTACAACGTCATGGAAATAAGATCCG
66 ATAAGA-TCTGCCATAATTTGTAGCTTCAATCTGTTCCACTACAACGTCAGGGAAATAAGATCCG
92587590 CTATCTTCAGTCTA
130 CTATCTTCAGTCTA
* * * *
92587604 CTCCGCAGCAACTTCAAGAAGAAAAGGCTAGTGGCTGCAATCTGCTCCACTGCAACTTCAGGGAG
1 CTCCGCTGCAACTTCAAGGAGATAAGGCTAGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAG
92587669 ATAAGAT
66 ATAAGAT
92587676 TCACCATTAT
Statistics
Matches: 181, Mismatches: 32, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
142 1 0.01
143 179 0.99
144 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (143 bp):
CTCCGCTGCAACTTCAAGGAGATAAGGCTAGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAG
ATAAGATCTGCCATAATTTGTAGCTTCAATCTGTTCCACTACAACGTCAGGGAAATAAGATCCGC
TATCTTCAGTCTA
Found at i:92590435 original size:167 final size:168
Alignment explanation
Indices: 92590158--92590488 Score: 637
Period size: 167 Copynumber: 2.0 Consensus size: 168
92590148 GAATAAACAT
*
92590158 GAAGTAAATTGGGGAAATACTTTTCGAAAAAACTGATTGATTTAGACAATACCCAAGGAAGAATC
1 GAAGTAAATTGAGGAAATACTTTTCGAAAAAACTGATTGATTTAGACAATACCCAAGGAAGAATC
92590223 CACCTAGACTTCACTTATTATTTGACTCTGAACTAGACGATTTATTCACTTGACTTGATCCTTAG
66 CACCTAGACTTCACTTATTATTTGACTCTGAACTAGACGATTTATTCACTTGACTTGATCCTTAG
92590288 GAATCCCTAATTTATATTATTATCTCTCGAGACTGCAG
131 GAATCCCTAATTTATATTATTATCTCTCGAGACTGCAG
*
92590326 GAAGTAAATTGAGGAAATACTTTT-GGAAAAACTGATTGATTTAGACAATACCCAAGGAAGAATC
1 GAAGTAAATTGAGGAAATACTTTTCGAAAAAACTGATTGATTTAGACAATACCCAAGGAAGAATC
92590390 CACCTAGACTTCACTTATTATTTGACTCTGAACTAGACGATTTATTCACTTGACTTGATCCTTAG
66 CACCTAGACTTCACTTATTATTTGACTCTGAACTAGACGATTTATTCACTTGACTTGATCCTTAG
92590455 GAATCCCTAATTTATATTATTATCTCTCGAGACT
131 GAATCCCTAATTTATATTATTATCTCTCGAGACT
92590489 AACAACGTCT
Statistics
Matches: 161, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
167 138 0.86
168 23 0.14
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (168 bp):
GAAGTAAATTGAGGAAATACTTTTCGAAAAAACTGATTGATTTAGACAATACCCAAGGAAGAATC
CACCTAGACTTCACTTATTATTTGACTCTGAACTAGACGATTTATTCACTTGACTTGATCCTTAG
GAATCCCTAATTTATATTATTATCTCTCGAGACTGCAG
Found at i:92591276 original size:20 final size:20
Alignment explanation
Indices: 92591240--92591278 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
92591230 CCCACGTTGA
*
92591240 CCCATTTTCTCTGCTTTTTG
1 CCCATTTTCGCTGCTTTTTG
92591260 CCCATTTCTCGCT-CTTTTT
1 CCCATTT-TCGCTGCTTTTT
92591279 ACTCTCCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.05, C:0.33, G:0.08, T:0.54
Consensus pattern (20 bp):
CCCATTTTCGCTGCTTTTTG
Found at i:92591920 original size:17 final size:16
Alignment explanation
Indices: 92591897--92591938 Score: 61
Period size: 15 Copynumber: 2.7 Consensus size: 16
92591887 GAGATTGAAT
92591897 TGAAAAATTACCTAAC
1 TGAAAAATTACCTAAC
92591913 TAGAAAAA-TA-CTAAC
1 T-GAAAAATTACCTAAC
92591928 TGAAAAATTAC
1 TGAAAAATTAC
92591939 ATTCCTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
14 6 0.26
15 8 0.35
16 3 0.13
17 6 0.26
ACGTcount: A:0.55, C:0.14, G:0.07, T:0.24
Consensus pattern (16 bp):
TGAAAAATTACCTAAC
Found at i:92591928 original size:15 final size:15
Alignment explanation
Indices: 92591897--92591935 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 15
92591887 GAGATTGAAT
92591897 TGAAAAATTACCTAAC
1 TGAAAAA-TACCTAAC
92591913 TAGAAAAATA-CTAAC
1 T-GAAAAATACCTAAC
92591928 TGAAAAAT
1 TGAAAAAT
92591936 TACATTCCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 7 0.32
15 6 0.27
16 3 0.14
17 6 0.27
ACGTcount: A:0.56, C:0.13, G:0.08, T:0.23
Consensus pattern (15 bp):
TGAAAAATACCTAAC
Found at i:92593250 original size:20 final size:21
Alignment explanation
Indices: 92593220--92593258 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
92593210 AGTAAGTTAA
*
92593220 AAAATAAATAAAGATAAAAGT
1 AAAATAAATAAAAATAAAAGT
92593241 AAAA-AAATAAAAATAAAA
1 AAAATAAATAAAAATAAAA
92593259 AGTCTTCAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.15
Consensus pattern (21 bp):
AAAATAAATAAAAATAAAAGT
Found at i:92593252 original size:14 final size:15
Alignment explanation
Indices: 92593219--92593259 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
92593209 AAGTAAGTTA
92593219 AAAAATAAATAAAGAT
1 AAAAATAAA-AAAGAT
*
92593235 AAAAGTAAAAAA-AT
1 AAAAATAAAAAAGAT
92593249 AAAAATAAAAA
1 AAAAATAAAAA
92593260 GTCTTCAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 12 0.52
15 3 0.13
16 8 0.35
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (15 bp):
AAAAATAAAAAAGAT
Found at i:92598740 original size:26 final size:25
Alignment explanation
Indices: 92598710--92598762 Score: 97
Period size: 26 Copynumber: 2.1 Consensus size: 25
92598700 CACAGGAAGT
92598710 AAATTGGGGAAATACTTTTGGGAAAA
1 AAATTGGGGAAATACTTTT-GGAAAA
92598736 AAATTGGGGAAATACTTTTGGAAAA
1 AAATTGGGGAAATACTTTTGGAAAA
92598761 AA
1 AA
92598763 CTGATTGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 8 0.30
26 19 0.70
ACGTcount: A:0.45, C:0.04, G:0.25, T:0.26
Consensus pattern (25 bp):
AAATTGGGGAAATACTTTTGGAAAA
Found at i:92606489 original size:26 final size:25
Alignment explanation
Indices: 92606459--92606511 Score: 97
Period size: 26 Copynumber: 2.1 Consensus size: 25
92606449 CACAGGAAGT
92606459 AAATTGGGGAAATACTTTTGGGAAAA
1 AAATTGGGGAAATACTTTT-GGAAAA
92606485 AAATTGGGGAAATACTTTTGGAAAA
1 AAATTGGGGAAATACTTTTGGAAAA
92606510 AA
1 AA
92606512 CTGATTGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 8 0.30
26 19 0.70
ACGTcount: A:0.45, C:0.04, G:0.25, T:0.26
Consensus pattern (25 bp):
AAATTGGGGAAATACTTTTGGAAAA
Found at i:92619194 original size:26 final size:26
Alignment explanation
Indices: 92619165--92619270 Score: 160
Period size: 26 Copynumber: 4.1 Consensus size: 26
92619155 TGATACAAAT
92619165 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
92619191 TGATAATGGATTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
92619217 TGATAATGGGTTAGGTAAATGTT-TA
1 TGATAATGGGTTAGGTAAATGTTCCA
92619242 CTGATAATGGGTTAGGTAAATGTTCCA
1 -TGATAATGGGTTAGGTAAATGTTCCA
92619269 TG
1 TG
92619271 GTGGGCATTT
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
25 2 0.03
26 69 0.96
27 1 0.01
ACGTcount: A:0.32, C:0.06, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:92625529 original size:12 final size:12
Alignment explanation
Indices: 92625501--92625535 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
92625491 TACATATCTA
*
92625501 TTCATATAAACAT
1 TTCATAT-AACAC
92625514 TTCATATAACAC
1 TTCATATAACAC
92625526 TTCATATAAC
1 TTCATATAAC
92625536 TATTTACATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 14 0.67
13 7 0.33
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (12 bp):
TTCATATAACAC
Found at i:92625613 original size:13 final size:13
Alignment explanation
Indices: 92625593--92625701 Score: 92
Period size: 13 Copynumber: 8.3 Consensus size: 13
92625583 GTATAACTGA
92625593 TTCATATAACCAT
1 TTCATATAACCAT
** *
92625606 TTTGTATATCCATT
1 TTCATATAACCA-T
* *
92625620 TTTATATAACCAA
1 TTCATATAACCAT
* *
92625633 TTCTTATAATCAT
1 TTCATATAACCAT
* *
92625646 TTCACATAACCAA
1 TTCATATAACCAT
* *
92625659 TTCGTATAACCAA
1 TTCATATAACCAT
92625672 TTCATATAACCAT
1 TTCATATAACCAT
* *
92625685 TTCGTATAGCCAT
1 TTCATATAACCAT
92625698 TTCA
1 TTCA
92625702 AACTGTTAAC
Statistics
Matches: 74, Mismatches: 21, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
13 63 0.85
14 11 0.15
ACGTcount: A:0.35, C:0.21, G:0.04, T:0.40
Consensus pattern (13 bp):
TTCATATAACCAT
Found at i:92625701 original size:26 final size:26
Alignment explanation
Indices: 92625593--92625701 Score: 119
Period size: 26 Copynumber: 4.2 Consensus size: 26
92625583 GTATAACTGA
* * *
92625593 TTCATATAACCATTTTGTATATCCATT
1 TTCATATAACCAATTCGTATAACCA-T
* * *
92625620 TTTATATAACCAATTCTTATAATCAT
1 TTCATATAACCAATTCGTATAACCAT
* *
92625646 TTCACATAACCAATTCGTATAACCAA
1 TTCATATAACCAATTCGTATAACCAT
* *
92625672 TTCATATAACCATTTCGTATAGCCAT
1 TTCATATAACCAATTCGTATAACCAT
92625698 TTCA
1 TTCA
92625702 AACTGTTAAC
Statistics
Matches: 67, Mismatches: 15, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
26 48 0.72
27 19 0.28
ACGTcount: A:0.35, C:0.21, G:0.04, T:0.40
Consensus pattern (26 bp):
TTCATATAACCAATTCGTATAACCAT
Found at i:92629765 original size:14 final size:15
Alignment explanation
Indices: 92629740--92629768 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
92629730 ATGATGTGTT
92629740 GATGTCTTGGTTGTA
1 GATGTCTTGGTTGTA
92629755 GATGT-TTGGTTGTA
1 GATGTCTTGGTTGTA
92629769 TGTATATGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.14, C:0.03, G:0.34, T:0.48
Consensus pattern (15 bp):
GATGTCTTGGTTGTA
Found at i:92630227 original size:30 final size:31
Alignment explanation
Indices: 92630193--92630259 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
92630183 CGGGACACGG
*
92630193 GCGTGTGTGTCCACA-CGCCTGCCCACACAA
1 GCGTGTGTGTCCACATAGCCTGCCCACACAA
*
92630223 GCGTGTGTGTCCACATAGCCTGCCCACACAG
1 GCGTGTGTGTCCACATAGCCTGCCCACACAA
92630254 GCGTGT
1 GCGTGT
92630260 CCCATATCCA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
30 15 0.44
31 19 0.56
ACGTcount: A:0.18, C:0.36, G:0.27, T:0.19
Consensus pattern (31 bp):
GCGTGTGTGTCCACATAGCCTGCCCACACAA
Found at i:92631566 original size:25 final size:25
Alignment explanation
Indices: 92631516--92631629 Score: 149
Period size: 25 Copynumber: 4.6 Consensus size: 25
92631506 TCTCTCGAGC
* ***
92631516 ATAT-ACGGGAAGCTTATGTAATCT
1 ATATAACGGGAAGCTTATTTGGGCT
* *
92631540 ATGTAATGGGAAGCTTATTTGGGCT
1 ATATAACGGGAAGCTTATTTGGGCT
92631565 ATATAACGGGAAGCTTATTTGGGCT
1 ATATAACGGGAAGCTTATTTGGGCT
*
92631590 ATATAACGGGAAGCTTATCTGGGCT
1 ATATAACGGGAAGCTTATTTGGGCT
*
92631615 GTATAACGGGAAGCT
1 ATATAACGGGAAGCT
92631630 CATAAGAGCC
Statistics
Matches: 79, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
24 3 0.04
25 76 0.96
ACGTcount: A:0.29, C:0.12, G:0.28, T:0.31
Consensus pattern (25 bp):
ATATAACGGGAAGCTTATTTGGGCT
Found at i:92632030 original size:2 final size:2
Alignment explanation
Indices: 92632023--92632057 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
92632013 TTACAAATTC
92632023 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
92632058 ACATTTCAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:92638810 original size:26 final size:26
Alignment explanation
Indices: 92638770--92638819 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
92638760 CGGTGAGTTT
*
92638770 AAATGTATTGTGTATTAAAAGAATGA
1 AAATGTATTGAGTATTAAAAGAATGA
*
92638796 AAATGTATTGAGTATTGAAAGAAT
1 AAATGTATTGAGTATTAAAAGAAT
92638820 TATTTGTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.20, T:0.34
Consensus pattern (26 bp):
AAATGTATTGAGTATTAAAAGAATGA
Found at i:92643871 original size:26 final size:26
Alignment explanation
Indices: 92643838--92643887 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
92643828 TGGTGAGTTG
*
92643838 AAATGTATTGTGTATTGAAAGAATGA
1 AAATGTATTGAGTATTGAAAGAATGA
92643864 AAATGTATTGAGTATTGAAAGAAT
1 AAATGTATTGAGTATTGAAAGAAT
92643888 TCTTTGTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.34
Consensus pattern (26 bp):
AAATGTATTGAGTATTGAAAGAATGA
Found at i:92653124 original size:19 final size:19
Alignment explanation
Indices: 92653102--92653160 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
92653092 ATACCAACCC
92653102 AAATTTATAAACATTAAAT
1 AAATTTATAAACATTAAAT
* * *
92653121 AAATTT-T--A-TTTTAAG
1 AAATTTATAAACATTAAAT
92653136 AAATTTATAAACATTAAAT
1 AAATTTATAAACATTAAAT
92653155 AAATTT
1 AAATTT
92653161 TATTTTAAGA
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
15 10 0.33
16 2 0.07
18 2 0.07
19 16 0.53
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (19 bp):
AAATTTATAAACATTAAAT
Found at i:92653140 original size:34 final size:34
Alignment explanation
Indices: 92653102--92653172 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
92653092 ATACCAACCC
92653102 AAATTTATAAACATTAAATAAATTTTATTTTAAG
1 AAATTTATAAACATTAAATAAATTTTATTTTAAG
92653136 AAATTTATAAACATTAAATAAATTTTATTTTAAG
1 AAATTTATAAACATTAAATAAATTTTATTTTAAG
92653170 AAA
1 AAA
92653173 CTGGAATTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (34 bp):
AAATTTATAAACATTAAATAAATTTTATTTTAAG
Found at i:92659126 original size:48 final size:48
Alignment explanation
Indices: 92658965--92659251 Score: 247
Period size: 48 Copynumber: 5.9 Consensus size: 48
92658955 GACCATGGAG
*
92658965 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGGT-
1 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG--CC-TTA
* * * * * * *
92659015 ATATGCGAGTCAGTGTAAAACCAT-TTTGGAACATGGCATCGGCATTG
1 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTA
* * * *
92659062 TTATGTGAGCCAGTGTAAGACCATGTCTGGGACATAGCATTGGCCTTA
1 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTA
* * * * * *
92659110 ATATGCGAGCCAGTGTAAGACCATATTTGGAACATGGCATCGGCATTG
1 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTA
* * * * * **
92659158 TTAT-ATGTGTCAATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
1 ATATGA-GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTTA
* * *
92659207 TGTATGAGAGCCAGTGTAAGACCATGTCCGAGACATGGCATCGGC
1 -ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
92659252 ATTTTACCCT
Statistics
Matches: 185, Mismatches: 46, Indels: 12
0.76 0.19 0.05
Matches are distributed among these distances:
46 1 0.01
47 21 0.11
48 90 0.49
49 16 0.09
50 56 0.30
51 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (48 bp):
ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTA
Found at i:92659175 original size:96 final size:95
Alignment explanation
Indices: 92658971--92659254 Score: 354
Period size: 96 Copynumber: 2.9 Consensus size: 95
92658961 GGAGATATGA
* * * *
92658971 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGGT-ATATGCGAGTCAGTGTAAAA
1 GAGCCAATGTAAGACCATGTCTGGGACATGGCATTGGC-CC--TAATATGCGAGCCAGTGTAAGA
*
92659035 CCATTTTGGAACATGGCATCGGCATTGTTATGT
63 CCATTTTGGAACATGGCATCGGCATTGTTATAT
* * *
92659068 GAGCCAGTGTAAGACCATGTCTGGGACATAGCATTGGCCTTAATATGCGAGCCAGTGTAAGACCA
1 GAGCCAATGTAAGACCATGTCTGGGACATGGCATTGGCCCTAATATGCGAGCCAGTGTAAGACCA
92659133 TATTTGGAACATGGCATCGGCATTGTTATAT
66 T-TTTGGAACATGGCATCGGCATTGTTATAT
* * * * *
92659164 GTGTCAATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATGTATGAGAGCCAGTGTAAGAC
1 GAGCCAATGTAAGACCATGTCTGGGACATGGCATTGGC-CCTA-ATATGCGAGCCAGTGTAAGAC
* **
92659229 CATGTCCGAGACATGGCATCGGCATT
64 CATTTTGGA-ACATGGCATCGGCATT
92659255 TTACCCTTTT
Statistics
Matches: 165, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
94 1 0.01
95 22 0.13
96 63 0.38
97 41 0.25
98 38 0.23
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (95 bp):
GAGCCAATGTAAGACCATGTCTGGGACATGGCATTGGCCCTAATATGCGAGCCAGTGTAAGACCA
TTTTGGAACATGGCATCGGCATTGTTATAT
Found at i:92665987 original size:96 final size:96
Alignment explanation
Indices: 92665823--92666013 Score: 364
Period size: 96 Copynumber: 2.0 Consensus size: 96
92665813 CAGATCGACA
*
92665823 CGAATACCTGATGCTGACACAATATGCCCCAGAAAACCAACTTCACTCAACCAAAATTTTACTGA
1 CGAATACCTGATGCTGACACAATATGCCCCAGAAAACCAACTTCACTCAACCAAAATTTTACTAA
*
92665888 ACTTTTCATATAACGCTTATCTCTCAGAGTT
66 ACTTTGCATATAACGCTTATCTCTCAGAGTT
92665919 CGAATACCTGATGCTGACACAATATGCCCCAGAAAACCAACTTCACTCAACCAAAATTTTACTAA
1 CGAATACCTGATGCTGACACAATATGCCCCAGAAAACCAACTTCACTCAACCAAAATTTTACTAA
92665984 ACTTTGCATATAACGCTTATCTCTCAGAGT
66 ACTTTGCATATAACGCTTATCTCTCAGAGT
92666014 CTGCAATACA
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
96 93 1.00
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.27
Consensus pattern (96 bp):
CGAATACCTGATGCTGACACAATATGCCCCAGAAAACCAACTTCACTCAACCAAAATTTTACTAA
ACTTTGCATATAACGCTTATCTCTCAGAGTT
Found at i:92668383 original size:43 final size:42
Alignment explanation
Indices: 92668328--92668497 Score: 175
Period size: 43 Copynumber: 4.0 Consensus size: 42
92668318 ATATCGTACA
*
92668328 ATGCCAACGTCCCAGATGTGGTCTTACATGCAATCACATATCG
1 ATGCCAACGTCCCAGATGTGGTCTTACACG-AATCACATATCG
* *
92668371 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAATCAAATA-CG
1 ATGCCAAC-GTCCCAGA-TGTGGTCTTACACGAATCACATATCG
* ** *
92668412 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATAG
1 ATGCCAACGTCCCAGATGTGGTCTTACACG-AATCACATATCG
* * * *
92668455 ATGCCAACGTCCTAGATTTGGTCTTACATGAGAACACATATCG
1 ATGCCAACGTCCCAGATGTGGTCTTACACGA-ATCACATATCG
92668498 GAAATCCTAT
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
41 26 0.25
42 20 0.19
43 58 0.55
44 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGATGTGGTCTTACACGAATCACATATCG
Found at i:92670365 original size:56 final size:56
Alignment explanation
Indices: 92670279--92670447 Score: 199
Period size: 56 Copynumber: 3.1 Consensus size: 56
92670269 TGCAACGTTA
92670279 GCCAATCCATACTCAGGATTATATCAAACTCGTCAAATGGTAACAACATTAAATCG
1 GCCAATCCATACTCAGGATTATATCAAACTCGTCAAATGGTAACAACATTAAATCG
* * * * *
92670335 GCCAATCCATACTCAGGATTATATCAAACTC-ACAATAGCATCGT-GCAGCGTT--A---
1 GCCAATCCATACTCAGGATTATATCAAACTCGTC-A-A--ATGGTAACAACATTAAATCG
*
92670388 GCCAATCCATACTCAGGATTATATCAAACTCGTCAAATGGTAACAATATTAAATCG
1 GCCAATCCATACTCAGGATTATATCAAACTCGTCAAATGGTAACAACATTAAATCG
92670444 GCCA
1 GCCA
92670448 GAAAACAATT
Statistics
Matches: 91, Mismatches: 11, Indels: 22
0.73 0.09 0.18
Matches are distributed among these distances:
50 4 0.04
51 4 0.04
52 1 0.01
53 33 0.36
54 1 0.01
55 1 0.01
56 37 0.41
57 1 0.01
58 5 0.05
59 4 0.04
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (56 bp):
GCCAATCCATACTCAGGATTATATCAAACTCGTCAAATGGTAACAACATTAAATCG
Found at i:92670415 original size:53 final size:52
Alignment explanation
Indices: 92670255--92670418 Score: 181
Period size: 53 Copynumber: 3.0 Consensus size: 52
92670245 CTTTTGCAAT
92670255 TCACAACAGCATCGTGCAACGTTAGCCAATCCATACTCAGGATTATATCAAAC
1 TCACAA-AGCATCGTGCAACGTTAGCCAATCCATACTCAGGATTATATCAAAC
* * * *
92670308 TCGTC-AA--ATGGTAACAACATTAAATCGGCCAATCCATACTCAGGATTATATCAAAC
1 TC-ACAAAGCATCGT-GCAACGTT--A---GCCAATCCATACTCAGGATTATATCAAAC
*
92670364 TCACAATAGCATCGTGCAGCGTTAGCCAATCCATACTCAGGATTATATCAAAC
1 TCACAA-AGCATCGTGCAACGTTAGCCAATCCATACTCAGGATTATATCAAAC
92670417 TC
1 TC
92670419 GTCAAATGGT
Statistics
Matches: 91, Mismatches: 9, Indels: 22
0.75 0.07 0.18
Matches are distributed among these distances:
50 4 0.04
51 6 0.07
52 1 0.01
53 35 0.38
54 1 0.01
55 1 0.01
56 33 0.36
57 1 0.01
58 5 0.05
59 4 0.04
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.24
Consensus pattern (52 bp):
TCACAAAGCATCGTGCAACGTTAGCCAATCCATACTCAGGATTATATCAAAC
Found at i:92672027 original size:32 final size:33
Alignment explanation
Indices: 92671979--92672091 Score: 104
Period size: 33 Copynumber: 3.4 Consensus size: 33
92671969 GTACCTAAAT
*
92671979 TGTACAACTTGAAAAGGTTATGTACACTTTGTG
1 TGTACAACTTGAAAAGGTTAGGTACACTTTGTG
* *
92672012 TGTAC-ACTTGGAAAGGTTAGGTATACTTTGTG
1 TGTACAACTTGAAAAGGTTAGGTACACTTTGTG
* * ** * *
92672044 TATACCA-TATGAAAAGGAAAGGTATATTTTGTG
1 TGTACAACT-TGAAAAGGTTAGGTACACTTTGTG
*
92672077 TGTACGACTTCGAAA
1 TGTACAACTT-GAAA
92672092 GGAATGTACA
Statistics
Matches: 66, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
32 29 0.44
33 32 0.48
34 5 0.08
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.35
Consensus pattern (33 bp):
TGTACAACTTGAAAAGGTTAGGTACACTTTGTG
Found at i:92675711 original size:8 final size:8
Alignment explanation
Indices: 92675693--92675730 Score: 60
Period size: 8 Copynumber: 4.8 Consensus size: 8
92675683 TTTAAGAAAT
92675693 TAATAATTA
1 TAATAA-TA
92675702 TAATAATA
1 TAATAATA
92675710 TAATAAT-
1 TAATAATA
92675717 TAATAATA
1 TAATAATA
92675725 TAATAA
1 TAATAA
92675731 AAGAAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 7 0.25
8 15 0.54
9 6 0.21
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
TAATAATA
Found at i:92675722 original size:15 final size:15
Alignment explanation
Indices: 92675702--92675730 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
92675692 TTAATAATTA
92675702 TAATAATATAATAAT
1 TAATAATATAATAAT
92675717 TAATAATATAATAA
1 TAATAATATAATAA
92675731 AAGAAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TAATAATATAATAAT
Found at i:92675738 original size:24 final size:24
Alignment explanation
Indices: 92675690--92675740 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
92675680 TTATTTAAGA
* *
92675690 AATTAATAATTATAATAATATAAT
1 AATTAATAATTATAATAAAAAAAT
92675714 AATTAATAA-TATAATAAAAGAAAT
1 AATTAATAATTATAATAAAA-AAAT
92675738 AAT
1 AAT
92675741 AAAAGAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (24 bp):
AATTAATAATTATAATAAAAAAAT
Found at i:92675739 original size:12 final size:12
Alignment explanation
Indices: 92675724--92675748 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
92675714 AATTAATAAT
92675724 ATAATAAAAGAA
1 ATAATAAAAGAA
92675736 ATAATAAAAGAA
1 ATAATAAAAGAA
92675748 A
1 A
92675749 AAAGAAAAAG
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:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (12 bp):
ATAATAAAAGAA
Found at i:92694387 original size:21 final size:21
Alignment explanation
Indices: 92694374--92694412 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
92694364 AAACAGAACA
92694374 GGGAAAGAAAG-AAAGAAAAAT
1 GGGAAAGAAAGAAAAG-AAAAT
92694395 GGGAAAGAAA-AAAAGAAA
1 GGGAAAGAAAGAAAAGAAA
92694413 GAAAAATGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.69, C:0.00, G:0.28, T:0.03
Consensus pattern (21 bp):
GGGAAAGAAAGAAAAGAAAAT
Found at i:92694404 original size:25 final size:24
Alignment explanation
Indices: 92694376--92694443 Score: 102
Period size: 25 Copynumber: 2.8 Consensus size: 24
92694366 ACAGAACAGG
92694376 GAAAGAAAGAAAGAAAAATGGGAAA
1 GAAA-AAAGAAAGAAAAATGGGAAA
92694401 GAAAAAAAGAAAGAAAAATGGGAAA
1 G-AAAAAAGAAAGAAAAATGGGAAA
92694426 G-AAAAAGAAAGGAAAAAT
1 GAAAAAAGAAA-GAAAAAT
92694444 AAGGTTTTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
23 9 0.22
24 7 0.17
25 22 0.54
26 3 0.07
ACGTcount: A:0.71, C:0.00, G:0.25, T:0.04
Consensus pattern (24 bp):
GAAAAAAGAAAGAAAAATGGGAAA
Found at i:92694405 original size:12 final size:13
Alignment explanation
Indices: 92694384--92694431 Score: 71
Period size: 13 Copynumber: 3.8 Consensus size: 13
92694374 GGGAAAGAAA
92694384 GAAAGAAAAATGG
1 GAAAGAAAAATGG
**
92694397 GAAAGAAAAA-AA
1 GAAAGAAAAATGG
92694409 GAAAGAAAAATGG
1 GAAAGAAAAATGG
92694422 GAAAGAAAAA
1 GAAAGAAAAA
92694432 GAAAGGAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
12 10 0.33
13 20 0.67
ACGTcount: A:0.71, C:0.00, G:0.25, T:0.04
Consensus pattern (13 bp):
GAAAGAAAAATGG
Found at i:92701879 original size:13 final size:13
Alignment explanation
Indices: 92701861--92701885 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
92701851 AATATTGCAT
92701861 GAAAATTTTTATA
1 GAAAATTTTTATA
92701874 GAAAATTTTTAT
1 GAAAATTTTTAT
92701886 CAATTATGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
GAAAATTTTTATA
Found at i:92703178 original size:33 final size:33
Alignment explanation
Indices: 92703089--92703180 Score: 107
Period size: 33 Copynumber: 2.8 Consensus size: 33
92703079 GGTTATGTAC
* **
92703089 ACTTTGTGTGTA-CACTTGGAAATGTCAGGTAT
1 ACTTTGTGTGTACCACTTGGAAAGGAAAGGTAT
* * *
92703121 ATTTTGTGTATACCA-TATGAAAAGGAAAGGTAT
1 ACTTTGTGTGTACCACT-TGGAAAGGAAAGGTAT
92703154 ACTTTGTGTGTACCACTTGGAAAGGAA
1 ACTTTGTGTGTACCACTTGGAAAGGAA
92703181 TGTACATCTT
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
32 11 0.23
33 36 0.75
34 1 0.02
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.34
Consensus pattern (33 bp):
ACTTTGTGTGTACCACTTGGAAAGGAAAGGTAT
Found at i:92707848 original size:42 final size:41
Alignment explanation
Indices: 92707802--92707880 Score: 104
Period size: 42 Copynumber: 1.9 Consensus size: 41
92707792 ACAGGTCCTA
* **
92707802 AACTGAAACCCATAAGGGTTACACTGAAGCTCGAAAGAACTG
1 AACTGAAACCCAAAAGGACTACACTGAAGCTC-AAAGAACTG
* *
92707844 AACTGAAACCTAAAAGGACTATACTGAAGCTCAAAGA
1 AACTGAAACCCAAAAGGACTACACTGAAGCTCAAAGA
92707881 GCTAAACAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
41 5 0.16
42 27 0.84
ACGTcount: A:0.44, C:0.20, G:0.19, T:0.16
Consensus pattern (41 bp):
AACTGAAACCCAAAAGGACTACACTGAAGCTCAAAGAACTG
Found at i:92714242 original size:22 final size:23
Alignment explanation
Indices: 92714217--92714262 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
92714207 CAACCAAATC
92714217 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
92714239 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
92714262 A
1 A
92714263 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:92714268 original size:23 final size:23
Alignment explanation
Indices: 92714224--92714268 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
92714214 ATCAATTCAA
*
92714224 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
92714247 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
92714269 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:92719853 original size:20 final size:21
Alignment explanation
Indices: 92719814--92719866 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
92719804 TCGTGTTTGC
*
92719814 CTTCAGTTTAGCTCTCATGAG
1 CTTCAGTTTAACTCTCATGAG
*
92719835 CTTCAG-TTAACTCTTATGAG
1 CTTCAGTTTAACTCTCATGAG
* *
92719855 TTTCAATTTAAC
1 CTTCAGTTTAAC
92719867 CCTAATTGGG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.42
Consensus pattern (21 bp):
CTTCAGTTTAACTCTCATGAG
Found at i:92719900 original size:43 final size:42
Alignment explanation
Indices: 92719851--92719931 Score: 126
Period size: 43 Copynumber: 1.9 Consensus size: 42
92719841 TTAACTCTTA
92719851 TGAGTTTCAATTTAACCCTAATTGGGTTTCAGTTCAGCTTTTT
1 TGAGTTTCAATTTAACCCTAA-TGGGTTTCAGTTCAGCTTTTT
* * *
92719894 TGAGTTTCAGTTTAACCCTTATGGGTTTCCGTTCAGCT
1 TGAGTTTCAATTTAACCCTAATGGGTTTCAGTTCAGCT
92719932 CCTATGAGCT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
42 16 0.46
43 19 0.54
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (42 bp):
TGAGTTTCAATTTAACCCTAATGGGTTTCAGTTCAGCTTTTT
Found at i:92719919 original size:42 final size:42
Alignment explanation
Indices: 92719836--92719968 Score: 142
Period size: 42 Copynumber: 3.2 Consensus size: 42
92719826 TCTCATGAGC
* * * *
92719836 TTCAGTT-AACTCTTATGAGTTTCAATTTAACCCTAATTGGGT
1 TTCAGTTCAGCTCCTATGAGTTTCAGTTTAACCCTTA-TGGGT
** *
92719878 TTCAGTTCAGCTTTTTTGAGTTTCAGTTTAACCCTTATGGGT
1 TTCAGTTCAGCTCCTATGAGTTTCAGTTTAACCCTTATGGGT
* * * *
92719920 TTCCGTTCAGCTCCTATGAGCTTCCGTTCAACCCTTATGGGT
1 TTCAGTTCAGCTCCTATGAGTTTCAGTTTAACCCTTATGGGT
*
92719962 TCCAGTT
1 TTCAGTT
92719969 TAACAATTAT
Statistics
Matches: 76, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 52 0.68
43 24 0.32
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.42
Consensus pattern (42 bp):
TTCAGTTCAGCTCCTATGAGTTTCAGTTTAACCCTTATGGGT
Found at i:92719921 original size:21 final size:21
Alignment explanation
Indices: 92719815--92719972 Score: 86
Period size: 21 Copynumber: 7.5 Consensus size: 21
92719805 CGTGTTTGCC
* * * *
92719815 TTCAGTTTAGCTCTCATGAGC
1 TTCAGTTTAACCCTTATGAGT
*
92719836 TTCAG-TTAACTCTTATGAGT
1 TTCAGTTTAACCCTTATGAGT
* * *
92719856 TTCAATTTAACCCTAATTGGGT
1 TTCAGTTTAACCCTTA-TGAGT
* * ** *
92719878 TTCAGTTCAGCTTTTTTGAGT
1 TTCAGTTTAACCCTTATGAGT
*
92719899 TTCAGTTTAACCCTTATGGGT
1 TTCAGTTTAACCCTTATGAGT
* * * *
92719920 TTCCGTTCAGCTCC-TATGAGC
1 TTCAGTTTAAC-CCTTATGAGT
* * *
92719941 TTCCGTTCAACCCTTATGGGT
1 TTCAGTTTAACCCTTATGAGT
*
92719962 TCCAGTTTAAC
1 TTCAGTTTAAC
92719973 AATTATGTGC
Statistics
Matches: 101, Mismatches: 32, Indels: 8
0.72 0.23 0.06
Matches are distributed among these distances:
20 18 0.18
21 68 0.67
22 15 0.15
ACGTcount: A:0.20, C:0.22, G:0.17, T:0.41
Consensus pattern (21 bp):
TTCAGTTTAACCCTTATGAGT
Found at i:92735824 original size:150 final size:150
Alignment explanation
Indices: 92735610--92735909 Score: 591
Period size: 150 Copynumber: 2.0 Consensus size: 150
92735600 TTGTGTGTGG
92735610 TATTGAGTATATAATTGGCCTCAACACAGACATGCATAATCGGCCACATGAATGAGTACATAGGT
1 TATTGAGTATATAATTGGCCTCAACACAGACATGCATAATCGGCCACATGAATGAGTACATAGGT
92735675 TGATGTGTTGTTCGGCCATAGGTAAGCATATTGAAGGCTTTATCTTGACTTAGAAAATTCGGCTA
66 TGATGTGTTGTTCGGCCATAGGTAAGCATATTGAAGGCTTTATCTTGACTTAGAAAATTCGGCTA
92735740 AGGAGAGTATTAACTAATGT
131 AGGAGAGTATTAACTAATGT
*
92735760 TATTGAGTATATAATTGGCCTCAACATAGACATGCATAATCGGCCACATGAATGAGTACATAGGT
1 TATTGAGTATATAATTGGCCTCAACACAGACATGCATAATCGGCCACATGAATGAGTACATAGGT
92735825 TGATGTGTTGTTCGGCCATAGGTAAGCATATTGAAGGCTTTATCTTGACTTAGAAAATTCGGCTA
66 TGATGTGTTGTTCGGCCATAGGTAAGCATATTGAAGGCTTTATCTTGACTTAGAAAATTCGGCTA
92735890 AGGAGAGTATTAACTAATGT
131 AGGAGAGTATTAACTAATGT
92735910 GTTGAGTTTG
Statistics
Matches: 149, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
150 149 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (150 bp):
TATTGAGTATATAATTGGCCTCAACACAGACATGCATAATCGGCCACATGAATGAGTACATAGGT
TGATGTGTTGTTCGGCCATAGGTAAGCATATTGAAGGCTTTATCTTGACTTAGAAAATTCGGCTA
AGGAGAGTATTAACTAATGT
Found at i:92736410 original size:40 final size:40
Alignment explanation
Indices: 92736316--92736579 Score: 291
Period size: 40 Copynumber: 6.5 Consensus size: 40
92736306 TACTCGAATG
* *
92736316 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACT
* * *
92736357 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGTGACT
* *
92736397 ATATCTGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCAT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGA-C-T
* * *
92736439 ATATTCCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACT
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
92736480 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * * **
92736520 ATATCCGGGCTAAGACCCGACGGC-CTTGTGCAAGTGGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
92736559 ATATCC-GGCTAAATCCTGAAG
1 ATATCCGGGCTAAGTCCCGAAG
92736580 ATAATTGGGT
Statistics
Matches: 190, Mismatches: 28, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
38 11 0.06
39 17 0.09
40 93 0.49
41 33 0.17
42 6 0.03
43 30 0.16
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:92736481 original size:83 final size:82
Alignment explanation
Indices: 92736316--92736539 Score: 287
Period size: 83 Copynumber: 2.8 Consensus size: 82
92736306 TACTCGAATG
* * *
92736316 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGA-C-TACATCCGGACTAAGATCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACCATATATCCGGACTAAGATCCGAAG
*
92736379 GCATTTGTGCTAGCGACT
65 GCATTTGTGCGAGCGACT
* * *
92736397 ATATCTGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCATATATTCCGGGCTAAG-TCCTGAA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACCATATA-TCCGGACTAAGATCC-GAA
**
92736461 GGCATTTGTGCGAGTTACT
64 GGCATTTGTGCGAGCGACT
* *
92736480 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACC--ATATCCGGGCTAAGACCCGA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACCATATATCCGGACTAAGATCCGA
92736540 CGGCCTTGTG
Statistics
Matches: 126, Mismatches: 12, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
80 17 0.13
81 36 0.29
82 6 0.05
83 67 0.53
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.26
Consensus pattern (82 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACCATATATCCGGACTAAGATCCGAAGG
CATTTGTGCGAGCGACT
Found at i:92737375 original size:65 final size:63
Alignment explanation
Indices: 92737275--92737396 Score: 172
Period size: 65 Copynumber: 1.9 Consensus size: 63
92737265 ATATTTGGAT
* **
92737275 AGCCATGCAAAAATGGCTTATATATTTTGAGCATAGTGTTATAATCATTTTGTATGTATATGG
1 AGCCATGCAAAAATGGCTTATATACTTTGAGCATAGCATTATAATCATTTTGTATGTATATGG
* * *
92737338 AGCCATGCGAAAATGGCTTAAATATACTTTGATCATAGCATTATAATCGTTTTGTATGT
1 AGCCATGCAAAAATGGCTT--ATATACTTTGAGCATAGCATTATAATCATTTTGTATGT
92737397 TGTCCGTCGA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
63 18 0.35
65 33 0.65
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (63 bp):
AGCCATGCAAAAATGGCTTATATACTTTGAGCATAGCATTATAATCATTTTGTATGTATATGG
Found at i:92737592 original size:90 final size:90
Alignment explanation
Indices: 92737479--92737661 Score: 357
Period size: 90 Copynumber: 2.0 Consensus size: 90
92737469 TATGTATGAC
*
92737479 AAACTCTAGTTGATCCATGGAGGATCATGAAATAGGTAAAGTTTACCTTAAAAAAACAGATGCTG
1 AAACTCTAGTTGATCCATGGAGGATCATGAAATAGATAAAGTTTACCTTAAAAAAACAGATGCTG
92737544 GCAGCAGCAGTGATGTGGATGTGAA
66 GCAGCAGCAGTGATGTGGATGTGAA
92737569 AAACTCTAGTTGATCCATGGAGGATCATGAAATAGATAAAGTTTACCTTAAAAAAACAGATGCTG
1 AAACTCTAGTTGATCCATGGAGGATCATGAAATAGATAAAGTTTACCTTAAAAAAACAGATGCTG
92737634 GCAGCAGCAGTGATGTGGATGTGAA
66 GCAGCAGCAGTGATGTGGATGTGAA
92737659 AAA
1 AAA
92737662 TCACTAAAAA
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 92 1.00
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.24
Consensus pattern (90 bp):
AAACTCTAGTTGATCCATGGAGGATCATGAAATAGATAAAGTTTACCTTAAAAAAACAGATGCTG
GCAGCAGCAGTGATGTGGATGTGAA
Found at i:92737692 original size:90 final size:90
Alignment explanation
Indices: 92737508--92737791 Score: 258
Period size: 90 Copynumber: 3.1 Consensus size: 90
92737498 GAGGATCATG
*
92737508 AAATAGGTAAAGTTTACCTTAAAAAAACAGATGCTGGCAGCAGCAGTGATGTGGATGTGAAAAA-
1 AAATAGATAAAGTTTACCTTAAAAAAACAGATGCTGGCAGCAGCAGTGATGTGGATGTGAAAAAT
* *** *
92737572 CTCTAGTTGATCCA-T-GG-A-GGATCATG
66 CACTA-AAAAT--AGTAGGAATGGA--ATT
92737598 AAATAGATAAAGTTTACCTTAAAAAAACAGATGCTGGCAGCAGCAGTGATGTGGATGTGAAAAAT
1 AAATAGATAAAGTTTACCTTAAAAAAACAGATGCTGGCAGCAGCAGTGATGTGGATGTGAAAAAT
92737663 CACTAAAAATAGTAGGAATGGAATT
66 CACTAAAAATAGTAGGAATGGAATT
** * *
92737688 AAATAGTATGAAATAGGTAAAGTCTACCTT--AAAGGCAGATGCTGGCAGCAGCAGTGATATAGA
1 AAATAG-AT--AA-A-GT----T-TACCTTAAAAAAACAGATGCTGGCAGCAGCAGTGATGTGGA
* * *
92737751 TTTGGGAAAATCACTAAAAATAGTAGGATTGGAATT
56 TGT-GAAAAATCACTAAAAATAGTAGGAATGGAATT
92737787 AAATA
1 AAATA
92737792 ATGAATAAAT
Statistics
Matches: 165, Mismatches: 13, Indels: 23
0.82 0.06 0.11
Matches are distributed among these distances:
88 1 0.01
89 1 0.01
90 75 0.45
91 7 0.04
92 3 0.02
93 2 0.01
94 1 0.01
95 2 0.01
98 31 0.19
99 36 0.22
100 6 0.04
ACGTcount: A:0.41, C:0.11, G:0.24, T:0.24
Consensus pattern (90 bp):
AAATAGATAAAGTTTACCTTAAAAAAACAGATGCTGGCAGCAGCAGTGATGTGGATGTGAAAAAT
CACTAAAAATAGTAGGAATGGAATT
Found at i:92737786 original size:99 final size:99
Alignment explanation
Indices: 92737595--92737791 Score: 288
Period size: 99 Copynumber: 2.0 Consensus size: 99
92737585 ATGGAGGATC
* * *
92737595 ATGAAATAGATAAAGTTTACCTTAAAAAAACAGATGCTGGCAGCAGCAGTGATGTGGATGTGAAA
1 ATGAAATAGATAAAGTCTACCTT-AAAAAACAGATGCTGGCAGCAGCAGTGATATAGATGTGAAA
92737660 AATCACTAAAAATAGTAGGAATGGAATTAAATAGT
65 AATCACTAAAAATAGTAGGAATGGAATTAAATAGT
* ** * *
92737695 ATGAAATAGGTAAAGTCTACCTT-AAAGGCAGATGCTGGCAGCAGCAGTGATATAGATTTGGGAA
1 ATGAAATAGATAAAGTCTACCTTAAAAAACAGATGCTGGCAGCAGCAGTGATATAGATGT-GAAA
*
92737759 AATCACTAAAAATAGTAGGATTGGAATTAAATA
65 AATCACTAAAAATAGTAGGAATGGAATTAAATA
92737792 ATGAATAAAT
Statistics
Matches: 87, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
98 31 0.36
99 35 0.40
100 21 0.24
ACGTcount: A:0.43, C:0.10, G:0.23, T:0.24
Consensus pattern (99 bp):
ATGAAATAGATAAAGTCTACCTTAAAAAACAGATGCTGGCAGCAGCAGTGATATAGATGTGAAAA
ATCACTAAAAATAGTAGGAATGGAATTAAATAGT
Found at i:92741887 original size:27 final size:27
Alignment explanation
Indices: 92741849--92741914 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
92741839 TTACCTAAAC
*
92741849 CCTCTATTTGATAAAATGAACGTTATG
1 CCTCTATGTGATAAAATGAACGTTATG
**
92741876 CCTCTATGTGATAAAATGATTGTTATG
1 CCTCTATGTGATAAAATGAACGTTATG
92741903 -CTCCTATGTGAT
1 CCT-CTATGTGAT
92741915 GTATGATTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
26 2 0.06
27 33 0.94
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (27 bp):
CCTCTATGTGATAAAATGAACGTTATG
Found at i:92744746 original size:41 final size:40
Alignment explanation
Indices: 92744693--92744862 Score: 168
Period size: 41 Copynumber: 4.2 Consensus size: 40
92744683 AGTTCGACTC
*
92744693 TTAG-CACCGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
* * * *
92744732 TTAGACTACTGGCTCGAAGGCCCTTCG-GAACTAAG-TCCGA
1 TTAGAC-ACTGGCTCAAAAGCCCTTCGAG-ACCAAGCTCGGA
* * *
92744772 TTATGACACTGGCTCTAAAAAGCCCTTCGAAACTAAGTTCGGTTA
1 TTA-GACACTGGCTC--AAAAGCCCTTCGAGACCAAGCTCGG--A
92744817 TTAG-CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
92744856 TTTAGAC
1 -TTAGAC
92744863 CCCGATTAGC
Statistics
Matches: 107, Mismatches: 12, Indels: 22
0.76 0.09 0.16
Matches are distributed among these distances:
39 5 0.05
40 21 0.20
41 48 0.45
42 16 0.15
43 12 0.11
44 1 0.01
45 4 0.04
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
Found at i:92750703 original size:41 final size:41
Alignment explanation
Indices: 92750628--92750705 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 41
92750618 ATAGTGATAT
*
92750628 TCGGGCTTTGAGCCTAGCAAGCCTTGTGCTGGTGAATTTGA
1 TCGGGCTTTGAGCCTAGCAAGCCTTGTGCCGGTGAATTTGA
* *
92750669 TCGGGCTTT-ATGCCTAGC-AGGCTTATTGCCGGTGAAT
1 TCGGGCTTTGA-GCCTAGCAAGCCTT-GTGCCGGTGAAT
92750706 AAAAAAAATC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 6 0.19
41 26 0.81
ACGTcount: A:0.17, C:0.21, G:0.31, T:0.32
Consensus pattern (41 bp):
TCGGGCTTTGAGCCTAGCAAGCCTTGTGCCGGTGAATTTGA
Found at i:92750922 original size:50 final size:50
Alignment explanation
Indices: 92750840--92751076 Score: 226
Period size: 50 Copynumber: 4.7 Consensus size: 50
92750830 GGAATTGAGT
* * * * * * ** *
92750840 ATATTCGGCCACATAGGTATGTACATAAGTGATGTTGTATTGGATCTTGA
1 ATATTCGACCATATAGGTAAGCACATATGTGATATTAAATTGGATCTTGC
* * ** * *
92750890 ATATTCGACCATGAT-GGTATGCACAAATGTGATATTATTTTTGAAT-TTGT
1 ATATTCGACCAT-ATAGGTAAGCACATATGTGATATTA-AATTGGATCTTGC
* * * * * *
92750940 ATATTTGGCCATATAAGTAAGTACATATGTGATGTTAAATTTGATCTTGC
1 ATATTCGACCATATAGGTAAGCACATATGTGATATTAAATTGGATCTTGC
*
92750990 ATATTCGACCATATAGGTAAGCACATATGTGATATTAAATTTGATCTTGC
1 ATATTCGACCATATAGGTAAGCACATATGTGATATTAAATTGGATCTTGC
* *
92751040 ATATTTGGCCATATAGGTAAGCACATATGTGATATTA
1 ATATTCGACCATATAGGTAAGCACATATGTGATATTA
92751077 TAACTAATCT
Statistics
Matches: 154, Mismatches: 29, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
49 6 0.04
50 140 0.91
51 8 0.05
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (50 bp):
ATATTCGACCATATAGGTAAGCACATATGTGATATTAAATTGGATCTTGC
Found at i:92751014 original size:100 final size:100
Alignment explanation
Indices: 92750838--92751072 Score: 303
Period size: 100 Copynumber: 2.4 Consensus size: 100
92750828 TGGGAATTGA
* * * * **
92750838 GTATATTCGGCCACATAGGTATGTACATAAGTGATGTTGTATTGGATCTTGAATATTCGACCATG
1 GTATATTTGGCCATATAGGTAAGTACATATGTGATGTTAAATTGGATCTTGAATATTCGACCATG
* **
92750903 ATGGTATGCACAAATGTGATATTATTTTTGAAT-TT
66 ATGGTAAGCACAAATGTGATATTAAATTTG-ATCTT
* * *
92750938 GTATATTTGGCCATATAAGTAAGTACATATGTGATGTTAAATTTGATCTTGCATATTCGACCAT-
1 GTATATTTGGCCATATAGGTAAGTACATATGTGATGTTAAATTGGATCTTGAATATTCGACCATG
*
92751002 ATAGGTAAGCACATATGTGATATTAAATTTGATCTT
66 AT-GGTAAGCACAAATGTGATATTAAATTTGATCTT
* *
92751038 GCATATTTGGCCATATAGGTAAGCACATATGTGAT
1 GTATATTTGGCCATATAGGTAAGTACATATGTGAT
92751073 ATTATAACTA
Statistics
Matches: 117, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
99 4 0.03
100 113 0.97
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (100 bp):
GTATATTTGGCCATATAGGTAAGTACATATGTGATGTTAAATTGGATCTTGAATATTCGACCATG
ATGGTAAGCACAAATGTGATATTAAATTTGATCTT
Found at i:92751087 original size:50 final size:50
Alignment explanation
Indices: 92750883--92751097 Score: 229
Period size: 50 Copynumber: 4.3 Consensus size: 50
92750873 GTTGTATTGG
* * * * * **
92750883 ATCTTGAATATTCGACCATGAT-GGTATGCACAAATGTGATATTATTTTTGA
1 ATCTTGCATATTTGGCCAT-ATAGGTAAGCACATATGTGATATTAAATTT-A
* * * * *
92750934 AT-TTGTATATTTGGCCATATAAGTAAGTACATATGTGATGTTAAATTTG
1 ATCTTGCATATTTGGCCATATAGGTAAGCACATATGTGATATTAAATTTA
* * *
92750983 ATCTTGCATATTCGACCATATAGGTAAGCACATATGTGATATTAAATTTG
1 ATCTTGCATATTTGGCCATATAGGTAAGCACATATGTGATATTAAATTTA
*
92751033 ATCTTGCATATTTGGCCATATAGGTAAGCACATATGTGATATTATAA-CTA
1 ATCTTGCATATTTGGCCATATAGGTAAGCACATATGTGATATTA-AATTTA
*
92751083 ATCTTGTATATTTGG
1 ATCTTGCATATTTGG
92751098 TCAAATAAGT
Statistics
Matches: 139, Mismatches: 22, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
49 4 0.03
50 131 0.94
51 4 0.03
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (50 bp):
ATCTTGCATATTTGGCCATATAGGTAAGCACATATGTGATATTAAATTTA
Found at i:92751087 original size:100 final size:100
Alignment explanation
Indices: 92750883--92751094 Score: 268
Period size: 100 Copynumber: 2.1 Consensus size: 100
92750873 GTTGTATTGG
* ** *
92750883 ATCTTGAATATTCGACCATGATGGTATGCACAAATGTGATATTATTTTTGAATTTGTATATTTGG
1 ATCTTGAATATTCGACCATGATGGTAAGCACAAATGTGATATTAAATTTGAATTTGCATATTTGG
* * * *
92750948 CCATATAAGTAAGTACATATGTGATGTTAAATTTG
66 CCATATAAGTAAGCACATATGTGATATTAAATCTA
* *
92750983 ATCTTGCATATTCGACCAT-ATAGGTAAGCACATATGTGATATTAAATTTG-ATCTTGCATATTT
1 ATCTTGAATATTCGACCATGAT-GGTAAGCACAAATGTGATATTAAATTTGAAT-TTGCATATTT
*
92751046 GGCCATATAGGTAAGCACATATGTGATATTATAA-CTA
64 GGCCATATAAGTAAGCACATATGTGATATTA-AATCTA
*
92751083 ATCTTGTATATT
1 ATCTTGAATATT
92751095 TGGTCAAATA
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
99 4 0.04
100 91 0.94
101 2 0.02
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.40
Consensus pattern (100 bp):
ATCTTGAATATTCGACCATGATGGTAAGCACAAATGTGATATTAAATTTGAATTTGCATATTTGG
CCATATAAGTAAGCACATATGTGATATTAAATCTA
Found at i:92754320 original size:110 final size:110
Alignment explanation
Indices: 92754146--92754958 Score: 1599
Period size: 110 Copynumber: 7.4 Consensus size: 110
92754136 TAATGTTTTA
92754146 TTGAGTTGTAAATGTAACCATACAATATACACCATAAATGATTCTGTTACTCTCATAAAGAGACA
1 TTGAGTTGTAAATGTAACCATACAATATACACCATAAATGATTCTGTTACTCTCATAAAGAGACA
92754211 TTTACATTAATGAATAAAAGAAAAAGAGGAATTCAGTAGATTGGG
66 TTTACATTAATGAATAAAAGAAAAAGAGGAATTCAGTAGATTGGG
92754256 TTGAGTTGTAAATGTAACCATACAATATACACCATAAATGATTCTGTTACTCTCATAAAGAGACA
1 TTGAGTTGTAAATGTAACCATACAATATACACCATAAATGATTCTGTTACTCTCATAAAGAGACA
92754321 TTTACATTAATGAATAAAAGAAAAAGAGGAATTCAGTAGATTGGG
66 TTTACATTAATGAATAAAAGAAAAAGAGGAATTCAGTAGATTGGG
92754366 TTGAGTTGTAAATGTAACCATACAATATACACCATAAATGATTCTGTTACTCTCATAAAGAGACA
1 TTGAGTTGTAAATGTAACCATACAATATACACCATAAATGATTCTGTTACTCTCATAAAGAGACA
92754431 TTTACATTAATGAATAAAAGAAAAAGAGGAATTCAGTAGATTGGG
66 TTTACATTAATGAATAAAAGAAAAAGAGGAATTCAGTAGATTGGG
92754476 TTGAGTTGTAAATGTAACCATACAATATACACCATAAATGATTCTGTTACTCTCATAAAGAGACA
1 TTGAGTTGTAAATGTAACCATACAATATACACCATAAATGATTCTGTTACTCTCATAAAGAGACA
92754541 TTTACATTAATGAATAAAAGAAAAAGAGGAATTCAGTAGATTGGG
66 TTTACATTAATGAATAAAAGAAAAAGAGGAATTCAGTAGATTGGG
92754586 TTGAGTTGTAAATGTAACCATACAATATACACCATAAATGATTCTGTTACTCTCATAAAGAGACA
1 TTGAGTTGTAAATGTAACCATACAATATACACCATAAATGATTCTGTTACTCTCATAAAGAGACA
92754651 TTTACATTAATGAATAAAAGAAAAAGAGGAATTCAGTAGATTGGG
66 TTTACATTAATGAATAAAAGAAAAAGAGGAATTCAGTAGATTGGG
92754696 TTGAGTTGTAAATGTAACCATACAATATACACCATAAATGATTCTGTTACTCTCATAAAGAGACA
1 TTGAGTTGTAAATGTAACCATACAATATACACCATAAATGATTCTGTTACTCTCATAAAGAGACA
92754761 TTTACATTAATGAATAAAAGAAAAAGAGGAATTCAGTAGATTGGG
66 TTTACATTAATGAATAAAAGAAAAAGAGGAATTCAGTAGATTGGG
92754806 TTGAGTTGTAAATGTAACCATACAATATACACCATAAATGATTCTGTTACTCTCATAAAGAGACA
1 TTGAGTTGTAAATGTAACCATACAATATACACCATAAATGATTCTGTTACTCTCATAAAGAGACA
92754871 TTTACATTAATGAATAAAAGAAAAAGAGGAATTCAGTAGATTGGG
66 TTTACATTAATGAATAAAAGAAAAAGAGGAATTCAGTAGATTGGG
** *
92754916 TTGAGTTGTAAATGTAACCATACAATATATGCCATAAAAGATT
1 TTGAGTTGTAAATGTAACCATACAATATACACCATAAATGATT
92754959 TATAAGAAGG
Statistics
Matches: 700, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
110 700 1.00
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (110 bp):
TTGAGTTGTAAATGTAACCATACAATATACACCATAAATGATTCTGTTACTCTCATAAAGAGACA
TTTACATTAATGAATAAAAGAAAAAGAGGAATTCAGTAGATTGGG
Found at i:92756943 original size:27 final size:27
Alignment explanation
Indices: 92756905--92756970 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
92756895 TTACCTAAAC
*
92756905 CCTCTATTTGATAAAATGAACGTTATG
1 CCTCTATGTGATAAAATGAACGTTATG
**
92756932 CCTCTATGTGATAAAATGATTGTTATG
1 CCTCTATGTGATAAAATGAACGTTATG
92756959 -CTCCTATGTGAT
1 CCT-CTATGTGAT
92756971 GTATGATTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
26 2 0.06
27 33 0.94
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (27 bp):
CCTCTATGTGATAAAATGAACGTTATG
Found at i:92765946 original size:100 final size:100
Alignment explanation
Indices: 92765770--92766079 Score: 399
Period size: 100 Copynumber: 3.1 Consensus size: 100
92765760 TGGGAATTGA
* * * * ** * *
92765770 GTATATTCGGCCACATAGGTATGTACATAAGTGATGTTGTATTGGATCTTGAATATTCGACCATG
1 GTATATTTGGCCATATAGGTAAGTACATATGTGATGTTAAATTTGATCTTGCATATTCGACCAT-
* * *
92765835 AT-GGTATGCACAAATGTGATATTATTTTTGAAT-TT
65 ATAGGTAAGCACATATGTGATATTATATTTG-ATCTT
*
92765870 GTATATTTGGCCATATAAGTAAGTACATATGTGATGTTAAATTTGATCTTGCATATTCGACCATA
1 GTATATTTGGCCATATAGGTAAGTACATATGTGATGTTAAATTTGATCTTGCATATTCGACCATA
*
92765935 TAGGTAAGCACATATGTGATATTAAATTTGATCTT
66 TAGGTAAGCACATATGTGATATTATATTTGATCTT
* * * * *
92765970 GCATATTTGGCCATATAGGTAAGCACATATGTGATATTAAATTTGATCTTGCATATTTGGCCATA
1 GTATATTTGGCCATATAGGTAAGTACATATGTGATGTTAAATTTGATCTTGCATATTCGACCATA
** *
92766035 TAGGTAAGCACATATGTGATATTATAACTAATCTT
66 TAGGTAAGCACATATGTGATATTATATTTGATCTT
92766070 GTATATTTGG
1 GTATATTTGG
92766080 TCAAATAAGT
Statistics
Matches: 184, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
99 4 0.02
100 180 0.98
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (100 bp):
GTATATTTGGCCATATAGGTAAGTACATATGTGATGTTAAATTTGATCTTGCATATTCGACCATA
TAGGTAAGCACATATGTGATATTATATTTGATCTT
Found at i:92766079 original size:50 final size:50
Alignment explanation
Indices: 92765772--92766058 Score: 344
Period size: 50 Copynumber: 5.7 Consensus size: 50
92765762 GGAATTGAGT
* * * * * * ** * *
92765772 ATATTCGGCCACATAGGTATGTACATAAGTGATGTTGTATTGGATCTTGA
1 ATATTTGGCCATATAGGTAAGCACATATGTGATATTAAATTTGATCTTGC
* * * * ** *
92765822 ATATTCGACCATGAT-GGTATGCACAAATGTGATATTATTTTTGAAT-TTGT
1 ATATTTGGCCAT-ATAGGTAAGCACATATGTGATATTAAATTTG-ATCTTGC
* * *
92765872 ATATTTGGCCATATAAGTAAGTACATATGTGATGTTAAATTTGATCTTGC
1 ATATTTGGCCATATAGGTAAGCACATATGTGATATTAAATTTGATCTTGC
* *
92765922 ATATTCGACCATATAGGTAAGCACATATGTGATATTAAATTTGATCTTGC
1 ATATTTGGCCATATAGGTAAGCACATATGTGATATTAAATTTGATCTTGC
92765972 ATATTTGGCCATATAGGTAAGCACATATGTGATATTAAATTTGATCTTGC
1 ATATTTGGCCATATAGGTAAGCACATATGTGATATTAAATTTGATCTTGC
92766022 ATATTTGGCCATATAGGTAAGCACATATGTGATATTA
1 ATATTTGGCCATATAGGTAAGCACATATGTGATATTA
92766059 TAACTAATCT
Statistics
Matches: 206, Mismatches: 27, Indels: 8
0.85 0.11 0.03
Matches are distributed among these distances:
49 4 0.02
50 198 0.96
51 4 0.02
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (50 bp):
ATATTTGGCCATATAGGTAAGCACATATGTGATATTAAATTTGATCTTGC
Found at i:92770866 original size:43 final size:42
Alignment explanation
Indices: 92770815--92770935 Score: 149
Period size: 43 Copynumber: 2.9 Consensus size: 42
92770805 ATATGTGTTC
92770815 TCATGTAAGACCATGTCTGGGACGTTGGCATCGAT-TTGTGAT
1 TCATGTAAGACCATGTCTGGGACGTTGGCATCGATATT-TGAT
* * *
92770857 TACGTGTAAGACCATGTCTGGGACATCGGCATCG-TATTTGAT
1 T-CATGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGAT
* *
92770899 TCATGTAAGACCCTGACTGGGACAG-TGGCATCGATAT
1 TCATGTAAGACCATGTCTGGGAC-GTTGGCATCGATAT
92770936 GAGATAGCAT
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
41 26 0.39
42 10 0.15
43 31 0.46
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (42 bp):
TCATGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGAT
Found at i:92772245 original size:32 final size:32
Alignment explanation
Indices: 92772200--92772264 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
92772190 TTAGTTAGAA
92772200 AAATGCTTGTCATTTATATGTGGCGTATTGGC
1 AAATGCTTGTCATTTATATGTGGCGTATTGGC
*
92772232 AAATGCTTTTCATTTATATGTGGCGTATTGGC
1 AAATGCTTGTCATTTATATGTGGCGTATTGGC
92772264 A
1 A
92772265 TATTTTGTGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.23, C:0.12, G:0.23, T:0.42
Consensus pattern (32 bp):
AAATGCTTGTCATTTATATGTGGCGTATTGGC
Found at i:92775731 original size:46 final size:46
Alignment explanation
Indices: 92775679--92775850 Score: 217
Period size: 46 Copynumber: 3.7 Consensus size: 46
92775669 TAGGCATCCA
*
92775679 AGCTCGTTGAGTCGAGTCCGAGTTCACTTATGGATGCGAATGCCCG
1 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCG
* *
92775725 AGCTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATG-TAACTAGGCATCCG
1 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--GC--CCG
*
92775772 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
1 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCG
* *
92775818 AGCTCGTTGAGTTGAGTTCGAGTTCGCTTATGG
1 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
92775851 GCAGGTTACA
Statistics
Matches: 109, Mismatches: 8, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 59 0.54
47 29 0.27
48 4 0.04
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (46 bp):
AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCG
Found at i:92775828 original size:93 final size:93
Alignment explanation
Indices: 92775669--92775842 Score: 312
Period size: 93 Copynumber: 1.9 Consensus size: 93
92775659 TTTGGTTATT
*
92775669 TAGGCATCCAAGCTCGTTGAGTCGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTG
1 TAGGCATCCAAGCTCGTTGAGTCGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTG
92775734 AGTTGAGTCCGAGTTCATGAGATGTAAC
66 AGTTGAGTCCGAGTTCATGAGATGTAAC
* *
92775762 TAGGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTG
1 TAGGCATCCAAGCTCGTTGAGTCGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTG
*
92775827 AGTTGAGTTCGAGTTC
66 AGTTGAGTCCGAGTTC
92775843 GCTTATGGGC
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
TAGGCATCCAAGCTCGTTGAGTCGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTG
AGTTGAGTCCGAGTTCATGAGATGTAAC
Found at i:92778211 original size:18 final size:18
Alignment explanation
Indices: 92778186--92778238 Score: 60
Period size: 17 Copynumber: 3.1 Consensus size: 18
92778176 ATGAGTCAAA
92778186 TGTGAATTTAGAAATAATT
1 TGTGAA-TTAGAAATAATT
92778205 T-TGAATTAGTAAAT--TT
1 TGTGAATTAG-AAATAATT
92778221 TGTGAATTA-AAATAATT
1 TGTGAATTAGAAATAATT
92778238 T
1 T
92778239 ATTAAAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
15 4 0.13
16 3 0.10
17 14 0.47
18 8 0.27
19 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (18 bp):
TGTGAATTAGAAATAATT
Found at i:92786421 original size:33 final size:34
Alignment explanation
Indices: 92786343--92786424 Score: 84
Period size: 33 Copynumber: 2.4 Consensus size: 34
92786333 ATGGCATGGT
*
92786343 GTGAATGTAAGACCATAGCTGGGCTTTGGCATTTCA
1 GTGAA-GTAAGACCATAACTGGGCTTTGGCA-TTCA
92786379 GTGAA--AAGACCATAACTGGG-TTGTGGCA-TC-
1 GTGAAGTAAGACCATAACTGGGCTT-TGGCATTCA
92786409 GTGAACGTAAGACCAT
1 GTGAA-GTAAGACCAT
92786425 GATTGGACCA
Statistics
Matches: 41, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
30 5 0.12
31 2 0.05
32 2 0.05
33 27 0.66
36 5 0.12
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (34 bp):
GTGAAGTAAGACCATAACTGGGCTTTGGCATTCA
Found at i:92792720 original size:46 final size:47
Alignment explanation
Indices: 92792667--92792886 Score: 208
Period size: 46 Copynumber: 4.8 Consensus size: 47
92792657 TTTGGGCATT
*
92792667 CGAACTCGTTGAGTTGAGTCT-GATTTCACTTATGGATGCGAATGCC
1 CGAACTCGTTGAGTTGAGTCTCGAGTTCACTTATGGATGCGAATGCC
*
92792713 CGAACTCGTTGAGTTGAGT-TCGAGTTCACTTATGGATGCGAATGTC
1 CGAACTCGTTGAGTTGAGTCTCGAGTTCACTTATGGATGCGAATGCC
* * * *
92792759 CGAACTCGTTGAGTTGAGTC-CAAGTTC-GTGA--GATG-TAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCTCGAGTTCACTTATGGATGCGAA-T--GC--C
* * * * *
92792806 TGAACTCGTTGAGTTGAGT-TCGATTTTACTTATGGATGTGAAAGCC
1 CGAACTCGTTGAGTTGAGTCTCGAGTTCACTTATGGATGCGAATGCC
*
92792852 C-AAGCTCGTTGAGTTGAGTC-CGAGTTCGCTTATGG
1 CGAA-CTCGTTGAGTTGAGTCTCGAGTTCACTTATGG
92792887 GCGGGTTACA
Statistics
Matches: 141, Mismatches: 19, Indels: 28
0.75 0.10 0.15
Matches are distributed among these distances:
42 2 0.01
43 5 0.04
45 6 0.04
46 95 0.67
47 23 0.16
48 4 0.03
50 4 0.03
51 2 0.01
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (47 bp):
CGAACTCGTTGAGTTGAGTCTCGAGTTCACTTATGGATGCGAATGCC
Found at i:92796946 original size:29 final size:29
Alignment explanation
Indices: 92796904--92797033 Score: 188
Period size: 29 Copynumber: 4.5 Consensus size: 29
92796894 GTTTACAATC
*
92796904 GCCACAAAGGCTTCCTTTTAACAGAGATA
1 GCCACAAAGGCTTCCTTTTAACAAAGATA
* * *
92796933 GCCATAAAGGCTTCCTTTTAACAGAGATC
1 GCCACAAAGGCTTCCTTTTAACAAAGATA
* *
92796962 GACACAAAGGCTTTCTTTTAACAAAGATA
1 GCCACAAAGGCTTCCTTTTAACAAAGATA
*
92796991 GCCATAAAGGCTTCCTTTTAACAAAGATA
1 GCCACAAAGGCTTCCTTTTAACAAAGATA
*
92797020 GCGACAAAGGCTTC
1 GCCACAAAGGCTTC
92797034 GATACAAAAA
Statistics
Matches: 89, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 89 1.00
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.25
Consensus pattern (29 bp):
GCCACAAAGGCTTCCTTTTAACAAAGATA
Found at i:92799103 original size:12 final size:12
Alignment explanation
Indices: 92799086--92799121 Score: 72
Period size: 12 Copynumber: 3.0 Consensus size: 12
92799076 TTTCCCATAT
92799086 ATAAAATATTTA
1 ATAAAATATTTA
92799098 ATAAAATATTTA
1 ATAAAATATTTA
92799110 ATAAAATATTTA
1 ATAAAATATTTA
92799122 TGGATCATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
ATAAAATATTTA
Found at i:92802635 original size:10 final size:10
Alignment explanation
Indices: 92802607--92802637 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
92802597 GAAGTCCAAA
92802607 AATATATTTT
1 AATATATTTT
92802617 AATATTATTTT
1 AATA-TATTTT
92802628 AATATATTTT
1 AATATATTTT
92802638 GCATGATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
AATATATTTT
Found at i:92807132 original size:86 final size:86
Alignment explanation
Indices: 92806987--92807248 Score: 515
Period size: 86 Copynumber: 3.0 Consensus size: 86
92806977 ATATGGAACA
*
92806987 TGACCAAGGGTTGCTTATTCTTGAATGAGCAATTTATCGCAGTCATTTGTTGACAGATCTCATAT
1 TGACCAAGGGTTACTTATTCTTGAATGAGCAATTTATCGCAGTCATTTGTTGACAGATCTCATAT
92807052 TAATCATTAAGAACACAATGG
66 TAATCATTAAGAACACAATGG
92807073 TGACCAAGGGTTACTTATTCTTGAATGAGCAATTTATCGCAGTCATTTGTTGACAGATCTCATAT
1 TGACCAAGGGTTACTTATTCTTGAATGAGCAATTTATCGCAGTCATTTGTTGACAGATCTCATAT
92807138 TAATCATTAAGAACACAATGG
66 TAATCATTAAGAACACAATGG
92807159 TGACCAAGGGTTACTTATTCTTGAATGAGCAATTTATCGCAGTCATTTGTTGACAGATCTCATAT
1 TGACCAAGGGTTACTTATTCTTGAATGAGCAATTTATCGCAGTCATTTGTTGACAGATCTCATAT
92807224 TAATCATTAAGAACACAATGG
66 TAATCATTAAGAACACAATGG
92807245 TGAC
1 TGAC
92807249 AATGAGATAA
Statistics
Matches: 175, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
86 175 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (86 bp):
TGACCAAGGGTTACTTATTCTTGAATGAGCAATTTATCGCAGTCATTTGTTGACAGATCTCATAT
TAATCATTAAGAACACAATGG
Found at i:92808346 original size:18 final size:17
Alignment explanation
Indices: 92808325--92808358 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
92808315 AAGATTTAAT
92808325 ATTAAATTTAAATATTAG
1 ATTAAATTT-AATATTAG
92808343 ATTAAATTTAATATTA
1 ATTAAATTTAATATTA
92808359 AAGCGATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
ATTAAATTTAATATTAG
Found at i:92812702 original size:43 final size:41
Alignment explanation
Indices: 92812655--92812781 Score: 110
Period size: 43 Copynumber: 3.0 Consensus size: 41
92812645 TCCCAAACGT
92812655 GGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACATGTAATCAAATA-CGATGCCA-TGTCCCAGACAG
* * * * ** *
92812698 GGTCTTATACGAAATCAAATAAGATGTTGATGTCCCAGACAT
1 GGTCTTACATGTAATCAAATACGATG-CCATGTCCCAGACAG
* **
92812740 TGTCTTACATGTAAATCATAAGCCGATGCCAATGTCCCAGAC
1 GGTCTTACATGT-AATCA-AATACGATGCC-ATGTCCCAGAC
92812782 GTGGCCTTAC
Statistics
Matches: 64, Mismatches: 16, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
42 23 0.36
43 24 0.38
44 17 0.27
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (41 bp):
GGTCTTACATGTAATCAAATACGATGCCATGTCCCAGACAG
Found at i:92819349 original size:654 final size:654
Alignment explanation
Indices: 92818101--92819411 Score: 2525
Period size: 654 Copynumber: 2.0 Consensus size: 654
92818091 ATAATTAAGA
92818101 ACAAGTCAAATATTTATCATACAATTCAGAAAATAATAACAAGATTCGTCTTCGGTTTCATTCCC
1 ACAAGTCAAATATTTATCATACAATTCAGAAAATAATAACAAGATTCGTCTTCGGTTTCATTCCC
92818166 CTTAGGTATTTAGGGGATTTAGTTTATAACTAAATAAGAAAACATCTCAGAATAATAAAGAATAC
66 CTTAGGTATTTAGGGGATTTAGTTTATAACTAAATAAGAAAACATCTCAGAATAATAAAGAATAC
92818231 AAAATATAAAGAAAACCCAAAACTCCTGAAGGGGAATTAAGGAGAGATCTTCAGTCTTGATGATG
131 AAAATATAAAGAAAACCCAAAACTCCTGAAGGGGAATTAAGGAGAGATCTTCAGTCTTGATGATG
*
92818296 AATCCGGCTTCTGAGATGAATCAATCAGCTTTCTTGGAGTAATTCCTTACCCCCTACTCTGTCCT
196 AATCCGGCTTCTGAGATAAATCAATCAGCTTTCTTGGAGTAATTCCTTACCCCCTACTCTGTCCT
92818361 CCCCTTTCTTCCTTCTTTAGGGTGTATTTATAGGCTTTGGAATGCCTAAAAGCCCTCAAAATTAG
261 CCCCTTTCTTCCTTCTTTAGGGTGTATTTATAGGCTTTGGAATGCCTAAAAGCCCTCAAAATTAG
92818426 CCTTTTCCGAATTGGACTCAACTTGGGATCGGTAGGGACACGCCCGTGTGCGATTACTTCAGGCC
326 CCTTTTCCGAATTGGACTCAACTTGGGATCGGTAGGGACACGCCCGTGTGCGATTACTTCAGGCC
92818491 GGTCTCGAGCCTGCCAAATTGACACAGCCATGTGGTCTGCCCGTGTGAGGAGGTCCAGGCTGTGT
391 GGTCTCGAGCCTGCCAAATTGACACAGCCATGTGGTCTGCCCGTGTGAGGAGGTCCAGGCTGTGT
*
92818556 TGATTTCGTACTTTGGCCCATTTTCTTCATTTTTGGCCCGTTTCTCGTTCCTTTCGCTCTCTTAT
456 TGATTTCGTACTTTGGCCCATTTTCTCCATTTTTGGCCCGTTTCTCGTTCCTTTCGCTCTCTTAT
*
92818621 GCTCTTCTAAGTGTAAAACATGAAATTAAAGCATTAGGAGCATCGAATTCACCATATCTATTGGA
521 GCTCTTCTAAGTGTAAAACATGAAATTAAAGCATTAGGAGCATCGAATTCACCATATCTAATGGA
*
92818686 AAATCATCCATAAAATGCGTTAAGCATGGGATAAAAATATGTATAAATTACGGTTTATCAAATTC
586 AAATCATCCATAAAATGCGTTAAACATGGGATAAAAATATGTATAAATTACGGTTTATCAAATTC
92818751 CCCC
651 CCCC
92818755 ACAAGTCAAATATTTATCATACAATTCAGAAAATAATAACAAGATTCGTCTTCGGTTTCATTCCC
1 ACAAGTCAAATATTTATCATACAATTCAGAAAATAATAACAAGATTCGTCTTCGGTTTCATTCCC
92818820 CTTAGGTATTTAGGGGATTTAGTTTATAACTAAATAAGAAAACATCTCAGAATAATAAAGAATAC
66 CTTAGGTATTTAGGGGATTTAGTTTATAACTAAATAAGAAAACATCTCAGAATAATAAAGAATAC
92818885 AAAATATAAAGAAAACCCAAAACTCCTGAAGGGGAATTAAGGAGAGATCTTCAGTCTTGATGATG
131 AAAATATAAAGAAAACCCAAAACTCCTGAAGGGGAATTAAGGAGAGATCTTCAGTCTTGATGATG
*
92818950 AATCTGGCTTCTGAGATAAATCAATCAGCTTTCTTGGAGTAATTCCTTACCCCCTACTCTGTCCT
196 AATCCGGCTTCTGAGATAAATCAATCAGCTTTCTTGGAGTAATTCCTTACCCCCTACTCTGTCCT
92819015 CCCCTTTCTTCCTTCTTTAGGGTGTATTTATAGGCTTTGGAATGCCTAAAAGCCCTCAAAATTAG
261 CCCCTTTCTTCCTTCTTTAGGGTGTATTTATAGGCTTTGGAATGCCTAAAAGCCCTCAAAATTAG
* * * *
92819080 CCTTTTCCGAATTGGACTCAACTTGGGCTCGGTAGGGACATGCCCGTGTGTGATTATTTCAGGCC
326 CCTTTTCCGAATTGGACTCAACTTGGGATCGGTAGGGACACGCCCGTGTGCGATTACTTCAGGCC
92819145 GGTCTCGAGCCTGCCAAATTGACACAGCCATGTGGTCTGCCCGTGTGAGGAGGTCCAGGCTGTGT
391 GGTCTCGAGCCTGCCAAATTGACACAGCCATGTGGTCTGCCCGTGTGAGGAGGTCCAGGCTGTGT
92819210 TGATTTCGTACTTTGGCCCATTTTCTCCATTTTTGGCCCGTTTCTCGTTCCTTTCGCTCTCTTAT
456 TGATTTCGTACTTTGGCCCATTTTCTCCATTTTTGGCCCGTTTCTCGTTCCTTTCGCTCTCTTAT
92819275 GCTCTTCTAAGTGTAAAACATGAAATTAAAGCATTAGGAGCATCGAATTCACCA-ATTCTAATGG
521 GCTCTTCTAAGTGTAAAACATGAAATTAAAGCATTAGGAGCATCGAATTCACCATA-TCTAATGG
92819339 AAAATCATCCATAAAATGCGTTAAACATGGGATAAAAATATGTATAAATTACGGTTTATCAAATT
585 AAAATCATCCATAAAATGCGTTAAACATGGGATAAAAATATGTATAAATTACGGTTTATCAAATT
92819404 CCCCC
650 CCCCC
92819409 ACA
1 ACA
92819412 CTTAAGCATT
Statistics
Matches: 647, Mismatches: 9, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
653 1 0.00
654 646 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (654 bp):
ACAAGTCAAATATTTATCATACAATTCAGAAAATAATAACAAGATTCGTCTTCGGTTTCATTCCC
CTTAGGTATTTAGGGGATTTAGTTTATAACTAAATAAGAAAACATCTCAGAATAATAAAGAATAC
AAAATATAAAGAAAACCCAAAACTCCTGAAGGGGAATTAAGGAGAGATCTTCAGTCTTGATGATG
AATCCGGCTTCTGAGATAAATCAATCAGCTTTCTTGGAGTAATTCCTTACCCCCTACTCTGTCCT
CCCCTTTCTTCCTTCTTTAGGGTGTATTTATAGGCTTTGGAATGCCTAAAAGCCCTCAAAATTAG
CCTTTTCCGAATTGGACTCAACTTGGGATCGGTAGGGACACGCCCGTGTGCGATTACTTCAGGCC
GGTCTCGAGCCTGCCAAATTGACACAGCCATGTGGTCTGCCCGTGTGAGGAGGTCCAGGCTGTGT
TGATTTCGTACTTTGGCCCATTTTCTCCATTTTTGGCCCGTTTCTCGTTCCTTTCGCTCTCTTAT
GCTCTTCTAAGTGTAAAACATGAAATTAAAGCATTAGGAGCATCGAATTCACCATATCTAATGGA
AAATCATCCATAAAATGCGTTAAACATGGGATAAAAATATGTATAAATTACGGTTTATCAAATTC
CCCC
Found at i:92835337 original size:33 final size:33
Alignment explanation
Indices: 92835295--92835361 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
92835285 CTTTTACTCG
92835295 CAACTGATAATAGCCTGACCTCAAATCTATTTT
1 CAACTGATAATAGCCTGACCTCAAATCTATTTT
*
92835328 CAACTGATAATAGCCTGATCTCAAATCTATTTT
1 CAACTGATAATAGCCTGACCTCAAATCTATTTT
92835361 C
1 C
92835362 GAAAACACAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.34
Consensus pattern (33 bp):
CAACTGATAATAGCCTGACCTCAAATCTATTTT
Found at i:92846124 original size:20 final size:20
Alignment explanation
Indices: 92846099--92846150 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
92846089 GAGGCAATGC
92846099 ACACGCCCGTGTGCTTTGGG
1 ACACGCCCGTGTGCTTTGGG
*
92846119 ACACGCCCATGTGCTTTGGG
1 ACACGCCCGTGTGCTTTGGG
*
92846139 ACACTCCCGTGT
1 ACACGCCCGTGT
92846151 CCCCTACCCG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.13, C:0.33, G:0.29, T:0.25
Consensus pattern (20 bp):
ACACGCCCGTGTGCTTTGGG
Found at i:92852069 original size:110 final size:108
Alignment explanation
Indices: 92851872--92852090 Score: 366
Period size: 110 Copynumber: 2.0 Consensus size: 108
92851862 CCCGATATAC
92851872 TTAAAGAGCTTATTCTCAAGAAAAGTAGTGTCTTTTCGTAACTTTTAGATTTTAAGCTAATAAGT
1 TTAAAGAGCTTATTCTCAAGAAAAGTAGTGTCTTTTCGTAACTTTTAGATTTTAAGCTAATAAGT
* *
92851937 GTAAATGCCTCGTTTTTAGTCATTTGGAGGCCCAACTTGGCCAA
66 ATAAATGCCTCGTTTTTAGTCATTTAGAGGCCCAA-TTGGCCAA
* * *
92851981 TTAAGGAGCTTATTCTCAAGAAAAGTAGTGTCTTTTTCTTAATTTTTAGATTTTAAGCTAATAAG
1 TTAAAGAGCTTATTCTCAAGAAAAGTAGTGTC-TTTTCGTAACTTTTAGATTTTAAGCTAATAAG
*
92852046 TATAAATGCCTCGTTTTTAGTCATTTAGTGGCCCAATTGGCCAA
65 TATAAATGCCTCGTTTTTAGTCATTTAGAGGCCCAATTGGCCAA
92852090 T
1 T
92852091 AGTGTTGTTG
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
109 40 0.39
110 63 0.61
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (108 bp):
TTAAAGAGCTTATTCTCAAGAAAAGTAGTGTCTTTTCGTAACTTTTAGATTTTAAGCTAATAAGT
ATAAATGCCTCGTTTTTAGTCATTTAGAGGCCCAATTGGCCAA
Found at i:92860550 original size:18 final size:17
Alignment explanation
Indices: 92860500--92860551 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
92860490 GTCTAGCATG
* *
92860500 GAAGAACAAGATGAAAAT
1 GAAG-ACAAGATGGAGAT
*
92860518 GAAGACAATGTTGGAGAT
1 GAAGACAA-GATGGAGAT
92860536 GAAGATCAAGATGGAG
1 GAAGA-CAAGATGGAG
92860552 GCGTAGGTGG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 4 0.14
18 21 0.75
19 3 0.11
ACGTcount: A:0.48, C:0.06, G:0.31, T:0.15
Consensus pattern (17 bp):
GAAGACAAGATGGAGAT
Found at i:92862753 original size:16 final size:18
Alignment explanation
Indices: 92862732--92862765 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
92862722 TAATAAATAA
92862732 ATAATAA-A-ATGTTATT
1 ATAATAATATATGTTATT
92862748 ATAATAATATATGTTATT
1 ATAATAATATATGTTATT
92862766 GTGAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 1 0.06
18 8 0.50
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (18 bp):
ATAATAATATATGTTATT
Found at i:92868183 original size:43 final size:43
Alignment explanation
Indices: 92868136--92868291 Score: 142
Period size: 43 Copynumber: 3.6 Consensus size: 43
92868126 GTGTTCTCAT
92868136 GTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTTCGA
1 GTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTTCGA
* * * *
92868179 GTAAGACCATGTCTGGGACATCGGCATCG-TAATTGTGA-TTCGT
1 GTAAGACCACGTCTGGGACGTTGGCATCGAT-A-TGTGATTTCGA
* * * *
92868222 GTAAGACC-CTGTCTAGGACAG-TGGCATCAACATGTGATTAC-A
1 GTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATGTGATTTCGA
* *
92868264 TGTAAGACCAGGTCTGGGACGTTAGCAT
1 -GTAAGACCACGTCTGGGACGTTGGCAT
92868292 TGTACGATAT
Statistics
Matches: 89, Mismatches: 15, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
42 7 0.08
43 77 0.87
44 5 0.06
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (43 bp):
GTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTTCGA
Found at i:92877353 original size:81 final size:81
Alignment explanation
Indices: 92877183--92877352 Score: 227
Period size: 81 Copynumber: 2.1 Consensus size: 81
92877173 GTAAAAAAAG
* * *
92877183 AAAAAAATTTACTTCGTGAAATTCAAGTATTATATTGTAATTATCATTTTAGATAGTTTATAAAT
1 AAAAAAAATTACTTCGTGAAATTCAAGTATTATATTGTAATTATCATTTTAGATAGTTTAAAAAA
* * *
92877248 ATATTTATATATATGC
66 ATATATATAAAAATGC
*
92877264 AAAAAAAATTACTTCGTGAAATTCAAGTATTATTTTGTAATTATCATTTTAG-TAGTTATTAAAA
1 AAAAAAAATTACTTCGTGAAATTCAAGTATTATATTGTAATTATCATTTTAGATAG-T-TTAAAA
*
92877328 AAAGTATATA-AAAAATTC
64 AAA-TATATATAAAAATGC
92877346 AAAAAAA
1 AAAAAAA
92877353 TAAAAAAATT
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
80 3 0.04
81 51 0.65
82 19 0.24
83 5 0.06
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (81 bp):
AAAAAAAATTACTTCGTGAAATTCAAGTATTATATTGTAATTATCATTTTAGATAGTTTAAAAAA
ATATATATAAAAATGC
Found at i:92886500 original size:55 final size:55
Alignment explanation
Indices: 92886402--92886531 Score: 145
Period size: 55 Copynumber: 2.4 Consensus size: 55
92886392 GTAATCCTAC
* * * *
92886402 CAAATTAACACGGGCGTGCAACACGCTCGTGGCTATAAACCGTGGTAGAAACTGAT
1 CAAATTAACACGGGCGTGCAACACGCCCATGCCTACAAACCGTGGTAGAAACTG-T
* * * * *
92886458 -AAATTAACACGGGCGTGCGACACGCCCATGCCTACCACCCGTGGTCGAAGCTGT
1 CAAATTAACACGGGCGTGCAACACGCCCATGCCTACAAACCGTGGTAGAAACTGT
* *
92886512 CAAAATAACATGGGCGTGCA
1 CAAATTAACACGGGCGTGCA
92886532 CATATATACA
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
54 1 0.02
55 60 0.98
ACGTcount: A:0.30, C:0.27, G:0.25, T:0.18
Consensus pattern (55 bp):
CAAATTAACACGGGCGTGCAACACGCCCATGCCTACAAACCGTGGTAGAAACTGT
Found at i:92892450 original size:18 final size:16
Alignment explanation
Indices: 92892420--92892458 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
92892410 TTAGTAATTA
92892420 AATAATAAAATGTTAT
1 AATAATAAAATGTTAT
*
92892436 TATAATAATATATGTTAT
1 AATAATAA-A-ATGTTAT
92892454 AATAA
1 AATAA
92892459 AATTAAACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 7 0.37
17 1 0.05
18 11 0.58
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (16 bp):
AATAATAAAATGTTAT
Found at i:92893447 original size:43 final size:43
Alignment explanation
Indices: 92893400--92893493 Score: 104
Period size: 43 Copynumber: 2.2 Consensus size: 43
92893390 TAATACCATG
* * *
92893400 TCTGGGACA-TCGGCATCGTAATTGTGATT-CGTGTAAGACC-CTA
1 TCTGGGACAGT-GACATCGGAA-TGTGATTACATGTAAGACCAC-A
*
92893443 TCTGGGACAGTGACATCGGCATGTGATTACATGTAAGACCACA
1 TCTGGGACAGTGACATCGGAATGTGATTACATGTAAGACCACA
92893486 TCTGGGAC
1 TCTGGGAC
92893494 GTTGGCATTG
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
42 7 0.16
43 35 0.80
44 2 0.05
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (43 bp):
TCTGGGACAGTGACATCGGAATGTGATTACATGTAAGACCACA
Found at i:92896026 original size:53 final size:54
Alignment explanation
Indices: 92895941--92896147 Score: 200
Period size: 53 Copynumber: 3.8 Consensus size: 54
92895931 TTTCTTTTTA
* * * *
92895941 AACTTACCATTTCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * *
92895994 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGAATCTTTGCCTTATCG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * * *
92896048 TAGTTTATCAATGTCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * *
92896103 AACTTACCAATGCTATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
92896148 AAACCCTAAT
Statistics
Matches: 120, Mismatches: 32, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
53 45 0.38
54 36 0.30
55 39 0.32
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:92896096 original size:55 final size:53
Alignment explanation
Indices: 92895953--92896147 Score: 167
Period size: 54 Copynumber: 3.6 Consensus size: 53
92895943 CTTACCATTT
* * *
92895953 CCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCATTG
1 CCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATGAACTCACCAATG
* * * ** * *
92896006 CCATGCCTTGGCATGGTCTTACATGGA-ATCTTTGCCTTATCGTAGTTTATCAATG
1 CCATGTCTTGACATGGTCTTACAT-GATATCCTTGCCTTAT-G-AACTCACCAATG
* * * * *
92896061 TCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAAAACTTACCAATG
1 CCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAT-GAACTCACCAATG
* * * * *
92896115 CTATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 CCATGTCTTGACATGGTCTTACATGATATCCTT
92896148 AAACCCTAAT
Statistics
Matches: 110, Mismatches: 28, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
53 33 0.30
54 39 0.35
55 38 0.35
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.38
Consensus pattern (53 bp):
CCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATGAACTCACCAATG
Found at i:92902657 original size:43 final size:43
Alignment explanation
Indices: 92902610--92902697 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
92902600 TAGAATTCGA
* *
92902610 AATAGGGTCACACGGCCGTGTAACATCTTGTGACTGTGTAGGG
1 AATAGGGTCACACGGCCGAGTAACATCTTGTGACTGGGTAGGG
92902653 AATAGGGTCACACGGCCGAGTAACATCTTGTGACTGGGTAGGG
1 AATAGGGTCACACGGCCGAGTAACATCTTGTGACTGGGTAGGG
92902696 AA
1 AA
92902698 AACCTGCAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.26, C:0.18, G:0.33, T:0.23
Consensus pattern (43 bp):
AATAGGGTCACACGGCCGAGTAACATCTTGTGACTGGGTAGGG
Found at i:92906778 original size:13 final size:13
Alignment explanation
Indices: 92906732--92906779 Score: 69
Period size: 13 Copynumber: 3.7 Consensus size: 13
92906722 TATTTCTATG
*
92906732 TAACCAATTCATA
1 TAACCATTTCATA
*
92906745 TAACCACTTCATA
1 TAACCATTTCATA
*
92906758 TAATCATTTCATA
1 TAACCATTTCATA
92906771 TAACCATTT
1 TAACCATTT
92906780 TATTTCAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.38
Consensus pattern (13 bp):
TAACCATTTCATA
Found at i:92913381 original size:80 final size:80
Alignment explanation
Indices: 92913229--92913450 Score: 319
Period size: 80 Copynumber: 2.8 Consensus size: 80
92913219 AACCCAAGTA
* *
92913229 CCTTCAGGAT-TTAGCCGGATATAGTAACTAGCACAAATGCCTTCGGGA-CTTAGCCCGGATATA
1 CCTTCAGGATCTTAGCCGGATATAGTAACTAGCACAAATGCCTTC-GGATCTTAGTCCGGTTATA
92913292 GTAAATAGCACAAATG
65 GTAAATAGCACAAATG
* *
92913308 CCTTC-GGATCTTAGTCCGGTTATAGTAACTAGC-CAAAATGCCTTCAGATCTTAGTCCGGTTAT
1 CCTTCAGGATCTTAG-CCGGATATAGTAACTAGCAC-AAATGCCTTCGGATCTTAGTCCGGTTAT
*
92913371 AGTAACTAGCACAAATG
64 AGTAAATAGCACAAATG
*
92913388 CCTTCGGGA-CTTAGCCTGGATATAGTAACTAGCACAAATGCCTTCGGATCTTAGTCCGGTTAT
1 CCTTCAGGATCTTAGCC-GGATATAGTAACTAGCACAAATGCCTTCGGATCTTAGTCCGGTTAT
92913451 CATCCGAATA
Statistics
Matches: 129, Mismatches: 7, Indels: 13
0.87 0.05 0.09
Matches are distributed among these distances:
78 4 0.03
79 14 0.11
80 107 0.83
81 4 0.03
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.28
Consensus pattern (80 bp):
CCTTCAGGATCTTAGCCGGATATAGTAACTAGCACAAATGCCTTCGGATCTTAGTCCGGTTATAG
TAAATAGCACAAATG
Found at i:92913441 original size:40 final size:40
Alignment explanation
Indices: 92913229--92913446 Score: 288
Period size: 40 Copynumber: 5.5 Consensus size: 40
92913219 AACCCAAGTA
*
92913229 CCTTCAGGAT-TTAGCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGATCTTAGCCGGATATAGTAACTAGCACAAATG
*
92913268 CCTTCGGGA-CTTAGCCCGGATATAGTAAATAGCACAAATG
1 CCTTCGGGATCTTAG-CCGGATATAGTAACTAGCACAAATG
*
92913308 CCTTC-GGATCTTAGTCCGGTTATAGTAACTAGC-CAAAATG
1 CCTTCGGGATCTTAG-CCGGATATAGTAACTAGCAC-AAATG
* *
92913348 CCTTC-AGATCTTAGTCCGGTTATAGTAACTAGCACAAATG
1 CCTTCGGGATCTTAG-CCGGATATAGTAACTAGCACAAATG
92913388 CCTTCGGGA-CTTAGCCTGGATATAGTAACTAGCACAAATG
1 CCTTCGGGATCTTAGCC-GGATATAGTAACTAGCACAAATG
92913428 CCTTC-GGATCTTAGTCCGG
1 CCTTCGGGATCTTAG-CCGG
92913447 TTATCATCCG
Statistics
Matches: 162, Mismatches: 8, Indels: 17
0.87 0.04 0.09
Matches are distributed among these distances:
39 21 0.13
40 136 0.84
41 5 0.03
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (40 bp):
CCTTCGGGATCTTAGCCGGATATAGTAACTAGCACAAATG
Found at i:92914865 original size:13 final size:13
Alignment explanation
Indices: 92914849--92914876 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
92914839 TTTATTATTT
92914849 TTAACACAAAATA
1 TTAACACAAAATA
92914862 TTAACACAAAATA
1 TTAACACAAAATA
92914875 TT
1 TT
92914877 TATAATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (13 bp):
TTAACACAAAATA
Found at i:92921887 original size:67 final size:67
Alignment explanation
Indices: 92921779--92921910 Score: 246
Period size: 67 Copynumber: 2.0 Consensus size: 67
92921769 CAGTTATAAC
*
92921779 ATCAGGAGCGTCACCCTCCTCACGACGTCGTGCAGCATAAACCAACACCGGTTGTCAAGCTTCAG
1 ATCAGGAGCGTCACCCTCCTCACGACGTCGTGCAGCATAAACCAACACCGATTGTCAAGCTTCAG
92921844 CA
66 CA
*
92921846 ATCAGGAGCGTCACCCTCCTCACGACGTCGTGCAGCATAAACCAACACCGATTGTCGAGCTTCAG
1 ATCAGGAGCGTCACCCTCCTCACGACGTCGTGCAGCATAAACCAACACCGATTGTCAAGCTTCAG
92921911 TGTGTCCAGC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 63 1.00
ACGTcount: A:0.27, C:0.34, G:0.21, T:0.18
Consensus pattern (67 bp):
ATCAGGAGCGTCACCCTCCTCACGACGTCGTGCAGCATAAACCAACACCGATTGTCAAGCTTCAG
CA
Found at i:92935550 original size:9 final size:9
Alignment explanation
Indices: 92935536--92935592 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
92935526 ATCTCGTGTG
92935536 CATATCATA
1 CATATCATA
*
92935545 CATATCATGTG
1 CATATCA--TA
92935556 CATATCATA
1 CATATCATA
* *
92935565 CATTTCATGTG
1 CATATCA--TA
92935576 CATATCATA
1 CATATCATA
92935585 CATATCAT
1 CATATCAT
92935593 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.07, T:0.37
Consensus pattern (9 bp):
CATATCATA
Found at i:92935555 original size:20 final size:20
Alignment explanation
Indices: 92935532--92935594 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
92935522 GAACATCTCG
92935532 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
92935552 TGTGCATATCATACATTTCA
1 TGTGCATATCATACATATCA
92935572 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
92935592 TGT
1 TGT
92935595 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:92935659 original size:25 final size:25
Alignment explanation
Indices: 92935631--92935678 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
92935621 ATATATAAAC
* * *
92935631 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
92935656 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
92935679 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:92940461 original size:22 final size:22
Alignment explanation
Indices: 92940433--92940476 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
92940423 TAGACTTTTT
92940433 CTTGATTAAGCTCAGAATTGTG
1 CTTGATTAAGCTCAGAATTGTG
92940455 CTTGATTAAGCTCAGAATTGTG
1 CTTGATTAAGCTCAGAATTGTG
92940477 GCATGTACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (22 bp):
CTTGATTAAGCTCAGAATTGTG
Found at i:92946358 original size:44 final size:42
Alignment explanation
Indices: 92946283--92946383 Score: 100
Period size: 44 Copynumber: 2.3 Consensus size: 42
92946273 CCGATATGTG
** *
92946283 TTATCGTGTAAGACCATGTCTTGGACGTTGGCAT-TGACTTATGAT
1 TTAT-GTGTAAGACCACATCTTGGACATTGGCATAT-A-TT-TGAT
92946328 TTATGTGTAAGACCACAT-TTGGAACATTGGCATCATATTTGAT
1 TTATGTGTAAGACCACATCTTGG-ACATTGGCAT-ATATTTGAT
92946371 TT-TGTGTAAGACC
1 TTATGTGTAAGACC
92946384 CTGTCTGGGA
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
42 11 0.22
43 10 0.20
44 23 0.46
45 5 0.10
46 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.38
Consensus pattern (42 bp):
TTATGTGTAAGACCACATCTTGGACATTGGCATATATTTGAT
Found at i:92946409 original size:43 final size:43
Alignment explanation
Indices: 92946324--92946429 Score: 112
Period size: 42 Copynumber: 2.5 Consensus size: 43
92946314 CATTGACTTA
*
92946324 TGATTTATGTGTAAGACCACATTTGGAACATTGGCATCATATT
1 TGATTTATGTGTAAGACCACATTTGGAACAGTGGCATCATATT
* *
92946367 TGATTT-TGTGTAAGACC-C-TGTCTGGGACAGTGGTATCAATATT
1 TGATTTATGTGTAAGACCACAT-T-TGGAACAGTGGCATC-ATATT
*
92946410 TGATTACATGT-TAAGACCAC
1 TGATT-TATGTGTAAGACCAC
92946430 GTCTAAGACG
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
40 1 0.02
41 2 0.04
42 23 0.43
43 16 0.30
44 7 0.13
45 4 0.08
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (43 bp):
TGATTTATGTGTAAGACCACATTTGGAACAGTGGCATCATATT
Found at i:92957791 original size:28 final size:28
Alignment explanation
Indices: 92957751--92957842 Score: 166
Period size: 28 Copynumber: 3.3 Consensus size: 28
92957741 TGTACTAGAG
92957751 TACCCCTATGTATGCAAAATTACCATTA
1 TACCCCTATGTATGCAAAATTACCATTA
92957779 TACCCCTATGTATGCAAAATTACCATTA
1 TACCCCTATGTATGCAAAATTACCATTA
* *
92957807 TACCCCTATGTATGCAAAATGACCTTTA
1 TACCCCTATGTATGCAAAATTACCATTA
92957835 TACCCCTA
1 TACCCCTA
92957843 GGGTTAATTT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 62 1.00
ACGTcount: A:0.34, C:0.27, G:0.08, T:0.32
Consensus pattern (28 bp):
TACCCCTATGTATGCAAAATTACCATTA
Found at i:92958006 original size:27 final size:28
Alignment explanation
Indices: 92957948--92958037 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
92957938 AGGAAGCGTC
*
92957948 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
92957976 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
92958003 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
92958032 CTGGTG
1 CTGGTG
92958038 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:92958048 original size:29 final size:28
Alignment explanation
Indices: 92957958--92958048 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
92957948 CTGGTGGCTA
* * *
92957958 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
92957986 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
92958013 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
92958042 TGTCACA
1 TGCCACA
92958049 TTTTCTGTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:92958056 original size:55 final size:56
Alignment explanation
Indices: 92957948--92958062 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
92957938 AGGAAGCGTC
* * *
92957948 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
92958003 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
92958059 CTGG
1 CTGG
92958063 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:92960801 original size:30 final size:30
Alignment explanation
Indices: 92960756--92960813 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
92960746 TTTTCAGGAG
*
92960756 TCACATGGGTAGGACACACGCCCATGTGTA
1 TCACACGGGTAGGACACACGCCCATGTGTA
* * *
92960786 TCACACGGGTTGGACACACTCCTATGTG
1 TCACACGGGTAGGACACACGCCCATGTG
92960814 CCAGTCCGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.24, C:0.28, G:0.26, T:0.22
Consensus pattern (30 bp):
TCACACGGGTAGGACACACGCCCATGTGTA
Found at i:92961880 original size:5 final size:5
Alignment explanation
Indices: 92961870--92961898 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
92961860 TAATTTAGCC
92961870 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
92961899 AATTTTACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:92975392 original size:32 final size:33
Alignment explanation
Indices: 92975346--92975409 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
92975336 AGCAGCGGGT
92975346 ATTGGGCCGAAG-CCCTTTTCAGA-ATACAGTAA
1 ATTGGGCCGAAGCCCCTTTTCAGATA-ACAGTAA
**
92975378 ATTGGGCCTTAGCCCCTTTTCAGATAACAGTA
1 ATTGGGCCGAAGCCCCTTTTCAGATAACAGTA
92975410 TGGCCCATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 10 0.36
33 17 0.61
34 1 0.04
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (33 bp):
ATTGGGCCGAAGCCCCTTTTCAGATAACAGTAA
Found at i:92978149 original size:19 final size:18
Alignment explanation
Indices: 92978112--92978155 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
92978102 ATACATACAG
92978112 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
92978129 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
92978148 TACTAATT
1 TAATAATT
92978156 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:92982947 original size:66 final size:67
Alignment explanation
Indices: 92982818--92982957 Score: 196
Period size: 66 Copynumber: 2.1 Consensus size: 67
92982808 AATCTCTATT
* * * *
92982818 TGGTGTGCTAGTTGGATTAGCTCTTATGAACATTGGTGTGATGGTTGGTTTAGCTCTTATGAGCA
1 TGGTGTGATAGTTGGATTAGCTCTTATGAACATTGGTGTGATGGATGGATTAGCTCTAATGAGCA
92982883 -C
66 TC
*
92982884 TGGTGTGATAGTTGGATTAGCTCTTAT-AAGCATTGGTGTGATGGATGGATTGGCTC-AAGTGAG
1 TGGTGTGATAGTTGGATTAGCTCTTATGAA-CATTGGTGTGATGGATGGATTAGCTCTAA-TGAG
92982947 CATC
64 CATC
92982951 TGGTGTG
1 TGGTGTG
92982958 TTTGGTTGGA
Statistics
Matches: 66, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
65 3 0.05
66 55 0.83
67 8 0.12
ACGTcount: A:0.19, C:0.11, G:0.33, T:0.37
Consensus pattern (67 bp):
TGGTGTGATAGTTGGATTAGCTCTTATGAACATTGGTGTGATGGATGGATTAGCTCTAATGAGCA
TC
Found at i:92982949 original size:33 final size:33
Alignment explanation
Indices: 92982817--92982967 Score: 169
Period size: 33 Copynumber: 4.5 Consensus size: 33
92982807 TAATCTCTAT
* * *
92982817 TTGGTGTGCTAGTTGGATTAGCTCTTATGAACA
1 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
*
92982850 TTGGTGTGATGGTTGGTTTAGCTCTTATGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
* * *
92982883 CTGGTGTGATAGTTGGATTAGCTCTTATAAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
* * *
92982916 TTGGTGTGATGGATGGATTGGCTC-AAGTGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTTA-TGAGCA
*
92982949 TCTGGTGTGTTTGGTTGGA
1 T-TGGTGTG-ATGGTTGGA
92982968 CTGATAATGT
Statistics
Matches: 99, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
32 1 0.01
33 84 0.85
34 7 0.07
35 7 0.07
ACGTcount: A:0.19, C:0.10, G:0.33, T:0.38
Consensus pattern (33 bp):
TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
Found at i:92983131 original size:26 final size:28
Alignment explanation
Indices: 92983102--92983160 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 28
92983092 CCAATTGGGA
*
92983102 TTGTGGATGAC-GA-GAAACTTTCATGG
1 TTGTAGATGACTGAGGAAACTTTCATGG
* * *
92983128 TTGTATATTACTTAGGAAACTTTCATGG
1 TTGTAGATGACTGAGGAAACTTTCATGG
92983156 TTGTA
1 TTGTA
92983161 TATTACTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 8 0.30
27 1 0.04
28 18 0.67
ACGTcount: A:0.27, C:0.10, G:0.24, T:0.39
Consensus pattern (28 bp):
TTGTAGATGACTGAGGAAACTTTCATGG
Found at i:92983147 original size:28 final size:28
Alignment explanation
Indices: 92983115--92983168 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
92983105 TGGATGACGA
92983115 GAAACTTTCATGGTTGTATATTACTTAG
1 GAAACTTTCATGGTTGTATATTACTTAG
92983143 GAAACTTTCATGGTTGTATATTACTT
1 GAAACTTTCATGGTTGTATATTACTT
92983169 TTTGAATTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.44
Consensus pattern (28 bp):
GAAACTTTCATGGTTGTATATTACTTAG
Found at i:92985086 original size:51 final size:51
Alignment explanation
Indices: 92985016--92985125 Score: 193
Period size: 51 Copynumber: 2.1 Consensus size: 51
92985006 TATATCTTAG
*
92985016 TAAGTATGCCCGAGAGATTGTACCTACTAAAGAAGAAATGTGTATCTAGTTT
1 TAAG-ATGCCCGAGAGATTGTACCTACTAAAGAAGAAATGTGTATCCAGTTT
*
92985068 TAAGATGCCCGAGGGATTGTACCTACTAAAGAAGAAATGTGTATCCAGTTT
1 TAAGATGCCCGAGAGATTGTACCTACTAAAGAAGAAATGTGTATCCAGTTT
92985119 TAAGATG
1 TAAGATG
92985126 GCATGAATGA
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
51 52 0.93
52 4 0.07
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.29
Consensus pattern (51 bp):
TAAGATGCCCGAGAGATTGTACCTACTAAAGAAGAAATGTGTATCCAGTTT
Found at i:92988569 original size:79 final size:81
Alignment explanation
Indices: 92988433--92988617 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
92988423 TTGAATGATG
*
92988433 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
92988497 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
92988512 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
92988574 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
92988592 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
92988618 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:92988631 original size:40 final size:40
Alignment explanation
Indices: 92988434--92988617 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
92988424 TGAATGATGT
* * * *
92988434 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
92988474 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
92988514 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
92988552 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
92988593 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
92988618 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Done.