Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 198 of 216
Found at i:61435291 original size:17 final size:17
Alignment explanation
Indices: 61435271--61435306 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
61435261 CCATTTTTAC
61435271 TTTTTCATTTTTTTTCA
1 TTTTTCATTTTTTTTCA
61435288 TTTTTCATTTTTTTTCA
1 TTTTTCATTTTTTTTCA
61435305 TT
1 TT
61435307 CATTTTTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTTCATTTTTTTTCA
Found at i:61435308 original size:21 final size:22
Alignment explanation
Indices: 61435284--61435324 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
61435274 TTCATTTTTT
61435284 TTCA-TTTTTCATTTTTTTTCA
1 TTCATTTTTTCATTTTTTTTCA
61435305 TTCATTTTTTCATTTTTTTT
1 TTCATTTTTTCATTTTTTTT
61435325 GTTTGACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (22 bp):
TTCATTTTTTCATTTTTTTTCA
Found at i:61436176 original size:25 final size:24
Alignment explanation
Indices: 61436130--61436206 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 24
61436120 TTCTTTCTTT
* * *
61436130 TTTTCATTTTTATTTTGA-TCTTGA
1 TTTTGATTTTT-TTTTCATTCTTCA
* *
61436154 TTTTGATTTTTTTCTTCTTTCTTCT
1 TTTTGATTTTTTT-TTCATTCTTCA
61436179 TTTTG-TTTTTTTTTCATT-TTCA
1 TTTTGATTTTTTTTTCATTCTTCA
61436201 TTTTGA
1 TTTTGA
61436207 CTTTGATTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
22 8 0.19
23 7 0.16
24 19 0.44
25 9 0.21
ACGTcount: A:0.10, C:0.10, G:0.06, T:0.73
Consensus pattern (24 bp):
TTTTGATTTTTTTTTCATTCTTCA
Found at i:61436241 original size:59 final size:59
Alignment explanation
Indices: 61436127--61436242 Score: 164
Period size: 59 Copynumber: 2.0 Consensus size: 59
61436117 CTCTTCTTTC
* * *
61436127 TTTTTTTCATTTTTATTTTGATCTTGATTTTGATTTTTTTCTTCTTTCTTCTTTTTGTT
1 TTTTTTTCATTTTCATTTTGATCTTGATTTTGATTTTTTTCTTCTTCCCTCTTTTTGTT
*
61436186 TTTTTTTCATTTTCATTTTGA-CTTTGATTTTGATTTTTCTTTTTCTTCCCT-TTTTTG
1 TTTTTTTCATTTTCATTTTGATC-TTGATTTTGATTTTT-TTCTTCTTCCCTCTTTTTG
61436243 ATCTGAGCCT
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
58 1 0.02
59 41 0.80
60 9 0.18
ACGTcount: A:0.09, C:0.12, G:0.07, T:0.72
Consensus pattern (59 bp):
TTTTTTTCATTTTCATTTTGATCTTGATTTTGATTTTTTTCTTCTTCCCTCTTTTTGTT
Found at i:61440436 original size:110 final size:110
Alignment explanation
Indices: 61440248--61440551 Score: 440
Period size: 109 Copynumber: 2.8 Consensus size: 110
61440238 ATATTTGACA
* *
61440248 ATTTGGTTAAACGA-G-AAATCGAA-ACCCAGCACCTTAGGGCACG-TTCCTCGAATTT-CCAAA
1 ATTTGGTTAAACGAGGAAAATC-AACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAA
* * * *
61440308 TGCAAAACATTGCCTTATTTTGAAATTTTTAGAAGGATATTAAGCC
65 CGCAAAACATTGCCTTATTTTAAAAGTTTTAAAAGGATATTAAGCC
*
61440354 ATTTGGTTTAACGAGGAAAATCAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAAC
1 ATTTGGTTAAACGAGGAAAATCAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAAC
*
61440419 GCAAAACATTGCCTTA-TTCAAAAGTTTTAAAAGGATATTAAGCC
66 GCAAAACATTGCCTTATTTTAAAAGTTTTAAAAGGATATTAAGCC
** *
61440463 ATTTGGTTGGACGAGAAAAATCAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAAC
1 ATTTGGTTAAACGAGGAAAATCAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAAC
* *
61440528 GCGAAATATTGCCTTATTTTAAAA
66 GCAAAACATTGCCTTATTTTAAAA
61440552 CATTTTCCTT
Statistics
Matches: 178, Mismatches: 14, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
106 13 0.07
107 3 0.02
108 24 0.13
109 111 0.62
110 27 0.15
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (110 bp):
ATTTGGTTAAACGAGGAAAATCAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAAC
GCAAAACATTGCCTTATTTTAAAAGTTTTAAAAGGATATTAAGCC
Found at i:61443103 original size:21 final size:22
Alignment explanation
Indices: 61443059--61443103 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
61443049 GAACAAATTG
*
61443059 TTGATTCTATTTTTTTCTTGAT
1 TTGATTCTATTCTTTTCTTGAT
61443081 TTGA-TCTATTCTTTT-TTGTAT
1 TTGATTCTATTCTTTTCTTG-AT
61443102 TT
1 TT
61443104 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 3 0.14
21 14 0.67
22 4 0.19
ACGTcount: A:0.13, C:0.09, G:0.09, T:0.69
Consensus pattern (22 bp):
TTGATTCTATTCTTTTCTTGAT
Found at i:61448035 original size:24 final size:24
Alignment explanation
Indices: 61448003--61448114 Score: 154
Period size: 24 Copynumber: 4.7 Consensus size: 24
61447993 TCCGGTGCTT
61448003 CCCGTTAAGTGCTCTTCGAAGCTA
1 CCCGTTAAGTGCTCTTCGAAGCTA
*
61448027 CCCGTTAAGTGCTCTTTGAAGCTA
1 CCCGTTAAGTGCTCTTCGAAGCTA
* *
61448051 CCCATTAATTGCTCTTCGAAGCTA
1 CCCGTTAAGTGCTCTTCGAAGCTA
* * *
61448075 CCCATTAATTGCTCTTCGGAGCTA
1 CCCGTTAAGTGCTCTTCGAAGCTA
61448099 CCCGTTATAG-GCTCTT
1 CCCGTTA-AGTGCTCTT
61448115 TGTGAGCTTC
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
24 79 0.99
25 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.33
Consensus pattern (24 bp):
CCCGTTAAGTGCTCTTCGAAGCTA
Found at i:61463889 original size:10 final size:10
Alignment explanation
Indices: 61463876--61463930 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
61463866 TTTTGAGTTT
61463876 TTTTTATATA
1 TTTTTATATA
*
61463886 TTTTTA-AGTT
1 TTTTTATA-TA
61463896 TTTTTATATA
1 TTTTTATATA
*
61463906 TTTTT-TAGA
1 TTTTTATATA
*
61463915 TTTTTTTATAA
1 TTTTTATAT-A
61463926 TTTTT
1 TTTTT
61463931 TGAGATGTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
9 9 0.24
10 21 0.57
11 7 0.19
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.73
Consensus pattern (10 bp):
TTTTTATATA
Found at i:61463931 original size:20 final size:21
Alignment explanation
Indices: 61463874--61463936 Score: 94
Period size: 20 Copynumber: 3.0 Consensus size: 21
61463864 GGTTTTGAGT
*
61463874 TTTTTTTATATATTTTTAAG-
1 TTTTTTTATATATTTTTTAGA
61463894 TTTTTTTATATATTTTTTAGA
1 TTTTTTTATATATTTTTTAGA
61463915 TTTTTTTATA-ATTTTTTGAGA
1 TTTTTTTATATATTTTTT-AGA
61463936 T
1 T
61463937 GTAAAGTTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
20 26 0.65
21 14 0.35
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (21 bp):
TTTTTTTATATATTTTTTAGA
Found at i:61463931 original size:21 final size:20
Alignment explanation
Indices: 61463874--61463936 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 20
61463864 GGTTTTGAGT
*
61463874 TTTTTTTATATATTTTTA-A
1 TTTTTTTATATTTTTTTAGA
61463893 GTTTTTTTATATATTTTTTAGA
1 -TTTTTTTATAT-TTTTTTAGA
*
61463915 TTTTTTTATAATTTTTTGAGA
1 TTTTTTTAT-ATTTTTTTAGA
61463936 T
1 T
61463937 GTAAAGTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
20 11 0.29
21 24 0.63
22 3 0.08
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (20 bp):
TTTTTTTATATTTTTTTAGA
Found at i:61484154 original size:14 final size:14
Alignment explanation
Indices: 61484132--61484166 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
61484122 ATACAAATTG
*
61484132 GAAAAAAAAAGAAA
1 GAAAGAAAAAGAAA
61484146 GAAAGAAAAAGAAA
1 GAAAGAAAAAGAAA
61484160 G-AAGAAA
1 GAAAGAAA
61484167 GGACAAAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 6 0.30
14 14 0.70
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (14 bp):
GAAAGAAAAAGAAA
Found at i:61484174 original size:18 final size:18
Alignment explanation
Indices: 61484132--61484167 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
61484122 ATACAAATTG
*
61484132 GAAAAAAAAAGAAAGAAA
1 GAAAAAGAAAGAAAGAAA
61484150 GAAAAAGAAAG-AAGAAA
1 GAAAAAGAAAGAAAGAAA
61484167 G
1 G
61484168 GACAAAGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (18 bp):
GAAAAAGAAAGAAAGAAA
Found at i:61487991 original size:19 final size:18
Alignment explanation
Indices: 61487960--61487995 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
61487950 TAAATCTATC
61487960 TTATACTAGTTTTTTATT
1 TTATACTAGTTTTTTATT
*
61487978 TTATCACTATTTTTTTAT
1 TTAT-ACTAGTTTTTTAT
61487996 ATTGGTTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.22, C:0.08, G:0.03, T:0.67
Consensus pattern (18 bp):
TTATACTAGTTTTTTATT
Found at i:61488063 original size:22 final size:23
Alignment explanation
Indices: 61488010--61488063 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
61488000 GTTTGTTTAT
*
61488010 TTTATTTTTCTTGCCAATATTAG
1 TTTATTTTTATTGCCAATATTAG
*
61488033 TGTTA-TTTTATT-CCATTATTAG
1 T-TTATTTTTATTGCCAATATTAG
61488055 TTTATTTTT
1 TTTATTTTT
61488064 TTTTTAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 3 0.11
22 14 0.52
23 7 0.26
24 3 0.11
ACGTcount: A:0.20, C:0.09, G:0.07, T:0.63
Consensus pattern (23 bp):
TTTATTTTTATTGCCAATATTAG
Found at i:61489204 original size:19 final size:19
Alignment explanation
Indices: 61489182--61489223 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
61489172 TGAGTTGTTT
* *
61489182 AATGCTCGAGCATGTAGGA
1 AATGCTAGAGCATATAGGA
*
61489201 AATGGTAGAGCATATAGGA
1 AATGCTAGAGCATATAGGA
61489220 AATG
1 AATG
61489224 GTAATTTGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.10, G:0.31, T:0.21
Consensus pattern (19 bp):
AATGCTAGAGCATATAGGA
Found at i:61489224 original size:19 final size:19
Alignment explanation
Indices: 61489189--61489226 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
61489179 TTTAATGCTC
*
61489189 GAGCATGTAGGAAATGGTA
1 GAGCATATAGGAAATGGTA
61489208 GAGCATATAGGAAATGGTA
1 GAGCATATAGGAAATGGTA
61489227 ATTTGTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.05, G:0.34, T:0.21
Consensus pattern (19 bp):
GAGCATATAGGAAATGGTA
Found at i:61491689 original size:32 final size:30
Alignment explanation
Indices: 61491653--61491725 Score: 85
Period size: 31 Copynumber: 2.3 Consensus size: 30
61491643 TGGCGATTGA
*
61491653 TATTTGAATTTGACATTTTTTTCTTAA-TTCGG
1 TATTT-AATTTGACA-CTTTTTCTTAAGTT-GG
*
61491685 TATTTAAACTTGACACTTTTTCTTAAGTTGG
1 TATTT-AATTTGACACTTTTTCTTAAGTTGG
61491716 TATTTAATTT
1 TATTTAATTT
61491726 TTTTCGGTCT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
30 4 0.11
31 17 0.47
32 15 0.42
ACGTcount: A:0.25, C:0.10, G:0.11, T:0.55
Consensus pattern (30 bp):
TATTTAATTTGACACTTTTTCTTAAGTTGG
Found at i:61498247 original size:10 final size:10
Alignment explanation
Indices: 61498223--61498254 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
61498213 CTTGTTTTCC
61498223 TTTTATTTA-
1 TTTTATTTAT
61498232 -TTTATTTAT
1 TTTTATTTAT
61498241 TTTTATTTAT
1 TTTTATTTAT
61498251 TTTT
1 TTTT
61498255 CCTTTTTTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.38
10 13 0.62
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTATTTAT
Found at i:61499308 original size:15 final size:14
Alignment explanation
Indices: 61499288--61499324 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
61499278 TCATTTTTTT
*
61499288 TTGTTATTGTTATTA
1 TTGTTATTGTTA-GA
61499303 TTGTTATTGTTAGA
1 TTGTTATTGTTAGA
61499317 TTGTTATT
1 TTGTTATT
61499325 TGCATTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.19, C:0.00, G:0.16, T:0.65
Consensus pattern (14 bp):
TTGTTATTGTTAGA
Found at i:61502253 original size:3 final size:3
Alignment explanation
Indices: 61502241--61502298 Score: 73
Period size: 3 Copynumber: 19.7 Consensus size: 3
61502231 TCATTGCTGC
* * *
61502241 TAT TAC TAT TAT TAT TAT TAT TAT TAA TAT TAA TAT TAT TAT TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
61502288 TAT TTT TAT TA
1 TAT TAT TAT TA
61502299 CGATTTATCT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:61503629 original size:16 final size:16
Alignment explanation
Indices: 61503604--61503637 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
61503594 TATGTTTTGC
* *
61503604 TTTGATTGCATGGCAT
1 TTTGACTGCATAGCAT
61503620 TTTGACTGCATAGCAT
1 TTTGACTGCATAGCAT
61503636 TT
1 TT
61503638 CATCCTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.44
Consensus pattern (16 bp):
TTTGACTGCATAGCAT
Found at i:61513392 original size:17 final size:16
Alignment explanation
Indices: 61513370--61513401 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
61513360 CATAAGAGAT
61513370 AAAAAATGATCATTCTA
1 AAAAAATGA-CATTCTA
61513387 AAAAAATGACATTCT
1 AAAAAATGACATTCT
61513402 GCATTCATGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.28
Consensus pattern (16 bp):
AAAAAATGACATTCTA
Found at i:61513773 original size:132 final size:132
Alignment explanation
Indices: 61513533--61513858 Score: 465
Period size: 132 Copynumber: 2.5 Consensus size: 132
61513523 ATTGAAAATA
* * * * * ** *
61513533 GCAGATCCTGTCTCCCCAAGCAGTGGCGGAGCAGATCAAAGACGGCAAATCTTATCTTCTCAAGA
1 GCAGATTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCAAGA
* * *
61513598 TAGTGGAGAAGTAGATTTAAGTCATTAATCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAGA
66 TAGTGGAGAAGCAGATTTAAGCCATTAATCCTATCTCCCTGAGCAACAGTGGAGTAGGTTAAAGA
61513663 TT
131 TT
* *
61513665 GCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGA
1 GCAGATTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCAAGA
* * ** *
61513730 TAGTGGAGAAGCAGATTTAGGCCATTAGTCCTATCTCTTTGAGCAACAGTGGAGTAGGTTGAAGA
66 TAGTGGAGAAGCAGATTTAAGCCATTAATCCTATCTCCCTGAGCAACAGTGGAGTAGGTTAAAGA
61513795 TT
131 TT
*
61513797 GCAGA-TCTTGTCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGTGAATCTTATCTTCCCA
1 GCAGATTC-TGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCA
61513859 TCGTAGTGGG
Statistics
Matches: 172, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
131 2 0.01
132 170 0.99
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (132 bp):
GCAGATTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCAAGA
TAGTGGAGAAGCAGATTTAAGCCATTAATCCTATCTCCCTGAGCAACAGTGGAGTAGGTTAAAGA
TT
Found at i:61514646 original size:17 final size:17
Alignment explanation
Indices: 61514611--61514665 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 17
61514601 TTCCAGCTTA
*
61514611 TTTACTTATTTACTTATT
1 TTTACTTTTTTA-TTATT
61514629 TTTACTTTTTTATTATTT
1 TTTACTTTTTTATTA-TT
61514647 TTTA-TTATTTT-TTATT
1 TTTACTT-TTTTATTATT
61514663 TTT
1 TTT
61514666 TTAAAAAACC
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
16 5 0.15
17 8 0.24
18 21 0.62
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTACTTTTTTATTATT
Found at i:61514659 original size:10 final size:10
Alignment explanation
Indices: 61514634--61514667 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
61514624 TTATTTTTAC
61514634 TTTTTTATTA
1 TTTTTTATTA
61514644 TTTTTTATTA
1 TTTTTTATTA
61514654 TTTTTTATT-
1 TTTTTTATTA
61514663 TTTTT
1 TTTTT
61514668 AAAAAACCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 5 0.21
10 19 0.79
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTTATTA
Found at i:61514666 original size:17 final size:18
Alignment explanation
Indices: 61514611--61514666 Score: 64
Period size: 17 Copynumber: 3.2 Consensus size: 18
61514601 TTCCAGCTTA
*
61514611 TTTACTTATTTACTTA-TT
1 TTTACTTATTT-TTTATTT
61514629 TTTACTT-TTTTATTATTT
1 TTTACTTATTTT-TTATTT
61514647 TTTA-TTATTTTTTATTT
1 TTTACTTATTTTTTATTT
61514664 TTT
1 TTT
61514667 TAAAAAACCA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
17 17 0.50
18 17 0.50
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTACTTATTTTTTATTT
Found at i:61515500 original size:3 final size:3
Alignment explanation
Indices: 61515486--61515524 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
61515476 TCATTACTGC
* * *
61515486 TAT TAC TAT TAT TAT TAA TAT TAT AAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
61515525 ATTTTATGAC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:61521414 original size:40 final size:42
Alignment explanation
Indices: 61521316--61521415 Score: 136
Period size: 41 Copynumber: 2.5 Consensus size: 42
61521306 ATTGATCTCG
* *
61521316 GTTTCGCACACTTAGTGC-CAGTCATTTAACATCATTATTTA
1 GTTTCGCACACTTAGTGCTCAGTCATTCAACATCATCATTTA
*
61521357 GTTTCGCACACTTAGTGCTC-GAT-ATTCAACCTCATCATTTA
1 GTTTCGCACACTTAGTGCTCAG-TCATTCAACATCATCATTTA
61521398 G-TTCGCACACTTAGTGCT
1 GTTTCGCACACTTAGTGCT
61521416 AATCAGATAA
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
40 17 0.31
41 35 0.65
42 2 0.04
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (42 bp):
GTTTCGCACACTTAGTGCTCAGTCATTCAACATCATCATTTA
Found at i:61522742 original size:51 final size:51
Alignment explanation
Indices: 61522682--61522813 Score: 167
Period size: 51 Copynumber: 2.6 Consensus size: 51
61522672 TGATAGGTCG
* *
61522682 CATGTGTAGTACTATGTGTAGGCTACTATGCGTACCGGATAGT-TTCGATCA
1 CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAAT-GATCA
* * * * * * *
61522733 CGTGTGTAGTACAATGTGCAGGCTACTACGTGTATCGGATGGTAATGGTCA
1 CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAATGATCA
61522784 CATGTGTAGTACTATGTGCAGGCTACTATG
1 CATGTGTAGTACTATGTGCAGGCTACTATG
61522814 TGAACCGAAC
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
51 67 0.99
52 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (51 bp):
CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAATGATCA
Found at i:61522873 original size:45 final size:45
Alignment explanation
Indices: 61522817--61522909 Score: 150
Period size: 45 Copynumber: 2.1 Consensus size: 45
61522807 TACTATGTGA
* * *
61522817 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTACGTGCTGAATCC
*
61522862 ACCGGACATCATTGATTAATAAGGTGGTTGCTACGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTACGTGCTGAATCC
61522907 ACC
1 ACC
61522910 TAGTATCTGT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTACGTGCTGAATCC
Found at i:61523217 original size:26 final size:26
Alignment explanation
Indices: 61523181--61523233 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
61523171 ATTGAAGCTG
61523181 AATGAGTCTATTTTCACATAAAAGAA
1 AATGAGTCTATTTTCACATAAAAGAA
61523207 AATGAGTCTATTTTCACATAAAAGAA
1 AATGAGTCTATTTTCACATAAAAGAA
61523233 A
1 A
61523234 CAGAGCAAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.30
Consensus pattern (26 bp):
AATGAGTCTATTTTCACATAAAAGAA
Found at i:61526572 original size:13 final size:13
Alignment explanation
Indices: 61526554--61526579 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
61526544 CATATATTAG
61526554 AAGGATTATATAA
1 AAGGATTATATAA
61526567 AAGGATTATATAA
1 AAGGATTATATAA
61526580 GTAATTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.31
Consensus pattern (13 bp):
AAGGATTATATAA
Found at i:61527529 original size:59 final size:59
Alignment explanation
Indices: 61527454--61527578 Score: 178
Period size: 59 Copynumber: 2.1 Consensus size: 59
61527444 CCCATCCTGA
* * * * *
61527454 ATTGCATTCCTAACAAAGTGACAATCCACTTCAATTGCAATATGCAAGGCAAATTAACT
1 ATTGCATCCCAAACAAAGTGACAATACACTTCAATTGCAACATGCAACGCAAATTAACT
* * *
61527513 ATTGCATCCCAAACAAAGTGACAATACACTTTAATTGCAACATGCAACGCAGATTGACT
1 ATTGCATCCCAAACAAAGTGACAATACACTTCAATTGCAACATGCAACGCAAATTAACT
61527572 ATTGCAT
1 ATTGCAT
61527579 ATTTAAATAT
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.26
Consensus pattern (59 bp):
ATTGCATCCCAAACAAAGTGACAATACACTTCAATTGCAACATGCAACGCAAATTAACT
Found at i:61530718 original size:26 final size:26
Alignment explanation
Indices: 61530683--61530733 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
61530673 ATGTGAAAAG
*
61530683 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
61530709 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
61530734 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:61530852 original size:103 final size:103
Alignment explanation
Indices: 61530604--61530869 Score: 410
Period size: 104 Copynumber: 2.6 Consensus size: 103
61530594 TTGTATATAA
** *
61530604 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
61530668 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCG
65 TTGAAA-GTGAAAAGGGGGTTGCTATGTGCTGATTCCCCG
* **
61530708 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACTGTATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
61530773 TGAAA-TGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAAGTGAAAAGGGGGTTGCTATGTGCTGATT-CCCCG
* * *
61530811 AGGGGTTGCTAAGTGATGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
61530870 ATAACGGTTA
Statistics
Matches: 148, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
102 27 0.18
103 58 0.39
104 62 0.42
105 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.30
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAAGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:61537960 original size:13 final size:13
Alignment explanation
Indices: 61537942--61537989 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
61537932 GTGTGTGGGG
61537942 AAGAAAAGAGAGA
1 AAGAAAAGAGAGA
*
61537955 AAGAAAGGAGAGA
1 AAGAAAAGAGAGA
* *
61537968 AAGGAGAAGAAAGA
1 AA-GAAAAGAGAGA
*
61537982 AAAAAAAG
1 AAGAAAAG
61537990 GGTAATGTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
13 18 0.64
14 10 0.36
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (13 bp):
AAGAAAAGAGAGA
Found at i:61538562 original size:106 final size:105
Alignment explanation
Indices: 61538284--61538718 Score: 509
Period size: 104 Copynumber: 4.2 Consensus size: 105
61538274 ATAAATTGTT
* *
61538284 GTGTTTTGTGAGTTTTTAGTAATGTAAAAAATTTTT--AAAAATA-ATTTTATAGTTATTTTGTT
1 GTGTTTTGTGATTTTTTAGTAATGT----AATTTTTAAAAAAAAATATTTTATAGTTATTTTGTT
* * *
61538346 AATAGTTTATGATTATG-T-TATAAATTGTTAGTG--T--TTT-
62 AGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTTA
* * * * * * *
61538383 GTGTTTTGTTATTTTTTAGTAACGTAATTTCTTTTAAAATAAATGTTATAGTTATTTATTTTGTT
1 GTGTTTTGTGATTTTTTAGTAATGTAA-TT-TTTAAAAAAAAATATTTTA--TAGTTATTTTGTT
*
61538448 AGTAATTTATGGGATTAGG-T-TATAAATTGTTAGTATTTAGTTTA
62 AGTAATTTAT--GATTAGGTTATATAAATTGTTAGTGTTTAGTTTA
* *
61538492 GGGTTTTGTGATTTTTTAGTAATGTAATTTTTAAAAAAAAATAATTTTATAGTTATTTTGTCAGT
1 GTGTTTTGTGATTTTTTAGTAATGTAATTTTTAAAAAAAAAT-ATTTTATAGTTATTTTGTTAGT
*
61538557 AATTTATGATTAGGTTATATAAATTCTTAGTGTTTAGTTTA
65 AATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTTA
*
61538598 GTGTTTTGTGATTTTTTAGTAATGTAATTTTTAAAAAAAAATA-TTTATAGTTATTTGGTTAGTA
1 GTGTTTTGTGATTTTTTAGTAATGTAATTTTTAAAAAAAAATATTTTATAGTTATTTTGTTAGTA
* *
61538662 ATTTATGATTAGGTTATATAAATGGTTAGTGTTTGGTTTA
66 ATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTTA
61538702 GTGTTTTGTGATTTTTT
1 GTGTTTTGTGATTTTTT
61538719 TTAAATTTAA
Statistics
Matches: 290, Mismatches: 29, Indels: 29
0.83 0.08 0.08
Matches are distributed among these distances:
95 2 0.01
96 2 0.01
97 3 0.01
99 27 0.09
100 4 0.01
102 20 0.07
104 101 0.35
105 2 0.01
106 85 0.29
107 11 0.04
108 9 0.03
109 24 0.08
ACGTcount: A:0.30, C:0.01, G:0.16, T:0.53
Consensus pattern (105 bp):
GTGTTTTGTGATTTTTTAGTAATGTAATTTTTAAAAAAAAATATTTTATAGTTATTTTGTTAGTA
ATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTTA
Found at i:61538734 original size:210 final size:206
Alignment explanation
Indices: 61538320--61538718 Score: 520
Period size: 210 Copynumber: 1.9 Consensus size: 206
61538310 AAAAATTTTT
* * * *
61538320 AAAAATAATTTTATAGTTATTTTGTTAATAGTTTATGATTATGTTATAAATTGTTAGTGTTTTGT
1 AAAAATAATTTTATAGTTATTTTGTCAATAATTTATGATTAGGTTATAAATTCTTAGTGTTTTGT
* * * * * *
61538385 GTTTTGTTATTTTTTAGTAACGTAATTTCTTTTAAAATAAATGTTATAGTTATTTATTTTGTTAG
66 GTTTTGTGATTTTTTAGTAACGTAATTTCTTTAAAAAAAAATATTATAG-TAGTTATTTGGTTAG
*
61538450 TAATTTATGGGATTAGGTTATAAATTGTTAGTATTTAGTTTAGGGTTTTGTGATTTTTTAGTAAT
130 TAATTTAT-GGATTAGGTTATAAATGGTTAGTATTTAGTTTAGGGTTTTGTGATTTTTTAGTAAT
61538515 GTAATTTTTAAAA
194 GTAATTTTTAAAA
*
61538528 AAAAATAATTTTATAGTTATTTTGTCAGTAATTTATGATTAGGTTATATAAATTCTTAGTGTTTA
1 AAAAATAATTTTATAGTTATTTTGTCAATAATTTATGATTAGG-T-TATAAATTCTTAGTG--T-
*
61538593 GTTTAGTGTTTTGTGATTTTTTAGTAATGTAA-TT-TTTAAAAAAAAATATT-TA-TAGTTATTT
61 -TTT-GTGTTTTGTGATTTTTTAGTAACGTAATTTCTTTAAAAAAAAATATTATAGTAGTTATTT
* * *
61538654 GGTTAGTAATTTAT-GATTAGGTTATATAAATGGTTAGTGTTTGGTTTAGTGTTTTGTGATTTTT
124 GGTTAGTAATTTATGGATTAGG-T-TATAAATGGTTAGTATTTAGTTTAGGGTTTTGTGATTTTT
61538718 T
187 T
61538719 TTAAATTTAA
Statistics
Matches: 166, Mismatches: 16, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
208 46 0.28
209 2 0.01
210 72 0.43
212 3 0.02
213 13 0.08
214 5 0.03
215 25 0.15
ACGTcount: A:0.30, C:0.01, G:0.16, T:0.53
Consensus pattern (206 bp):
AAAAATAATTTTATAGTTATTTTGTCAATAATTTATGATTAGGTTATAAATTCTTAGTGTTTTGT
GTTTTGTGATTTTTTAGTAACGTAATTTCTTTAAAAAAAAATATTATAGTAGTTATTTGGTTAGT
AATTTATGGATTAGGTTATAAATGGTTAGTATTTAGTTTAGGGTTTTGTGATTTTTTAGTAATGT
AATTTTTAAAA
Found at i:61539855 original size:50 final size:50
Alignment explanation
Indices: 61539795--61539896 Score: 177
Period size: 50 Copynumber: 2.0 Consensus size: 50
61539785 TGTAGTAGAC
*
61539795 ATAGGCGAATGCCTCAAATTGTTGCAGTCGTGGACACTTTACCGAATGCT
1 ATAGGCGAATGCCTCAAATTGTTGCAGTCATGGACACTTTACCGAATGCT
* *
61539845 ATAGGTGAATGCCTCATATTGTTGCAGTCATGGACACTTTACCGAATGCT
1 ATAGGCGAATGCCTCAAATTGTTGCAGTCATGGACACTTTACCGAATGCT
61539895 AT
1 AT
61539897 TCTTAGCATC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (50 bp):
ATAGGCGAATGCCTCAAATTGTTGCAGTCATGGACACTTTACCGAATGCT
Found at i:61540838 original size:33 final size:33
Alignment explanation
Indices: 61540769--61540844 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 33
61540759 TACCACTTCA
* ** *
61540769 GTACTCCAGTCATCTCGGTTCGTATCCACTACC
1 GTACTCCACTCATCTCGGCCCGTATCCACCACC
* **
61540802 GTACTCCACTCCTCTCGGCCCGTATCCACCGTC
1 GTACTCCACTCATCTCGGCCCGTATCCACCACC
61540835 GTACTCCACT
1 GTACTCCACT
61540845 ACTTCCGGCT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.16, C:0.42, G:0.14, T:0.28
Consensus pattern (33 bp):
GTACTCCACTCATCTCGGCCCGTATCCACCACC
Found at i:61541138 original size:76 final size:73
Alignment explanation
Indices: 61541008--61541199 Score: 237
Period size: 76 Copynumber: 2.6 Consensus size: 73
61540998 TCAAACCATC
* *
61541008 AATTTTAAGGG-TTTTTGTAATTTAAATA-AA-TTTATATTTATGTAATGAATTTTTTTTCCATT
1 AATTTTAGGGGTTTTTTGTAATTTAAATATAACTTTGTA-TTATGTAATGAATTTTTTTTCCATT
*
61541070 TTAGTTATT
65 TAAGTTATT
* *
61541079 AATTTTAGGGTTTTTTTGTAATTTAAATAGTCAACTTTGTACTTATGTAATGACTTTTTTTTCCA
1 AATTTTAGGGGTTTTTTGTAATTTAAATA-T-AACTTTGTA-TTATGTAATGAATTTTTTTTCCA
61541144 TTTAAGTTATT
63 TTTAAGTTATT
* **
61541155 AATTTTAGGGGTCTTTTACAATTTAAATAATAAACTTTGTATTAT
1 AATTTTAGGGGTTTTTTGTAATTTAAAT-AT-AACTTTGTATTAT
61541200 TTATGTAAAA
Statistics
Matches: 104, Mismatches: 11, Indels: 8
0.85 0.09 0.07
Matches are distributed among these distances:
71 9 0.09
72 17 0.16
75 6 0.06
76 71 0.68
77 1 0.01
ACGTcount: A:0.30, C:0.06, G:0.11, T:0.53
Consensus pattern (73 bp):
AATTTTAGGGGTTTTTTGTAATTTAAATATAACTTTGTATTATGTAATGAATTTTTTTTCCATTT
AAGTTATT
Found at i:61544181 original size:19 final size:19
Alignment explanation
Indices: 61544127--61544181 Score: 51
Period size: 19 Copynumber: 3.0 Consensus size: 19
61544117 ATTCAGAAGC
* *
61544127 TAACAAAATTAATAAC--C
1 TAACAAAATTACTAACAAA
* **
61544144 TAACAAAATAACTTTCAAA
1 TAACAAAATTACTAACAAA
61544163 TAACAAAATTACTAACAAA
1 TAACAAAATTACTAACAAA
61544182 ACTCTTCATT
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
17 12 0.43
19 16 0.57
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (19 bp):
TAACAAAATTACTAACAAA
Found at i:61547585 original size:106 final size:106
Alignment explanation
Indices: 61547398--61547607 Score: 316
Period size: 106 Copynumber: 2.0 Consensus size: 106
61547388 AAAATGAGTA
*
61547398 TTCTTATTTTTAGGGATTCGAGACATCGTGCCCTAACTTACAGGGCATAATTCTCTTCTTGATTA
1 TTCTTATTTTTAGGGATTCGAGACATCGTGCCCTAACTTACAGGGCATAATTCTCTTCTCGATTA
*
61547463 ACTCGAAATACGAAGACATTCTTCATAAAATTTGATTTAGT
66 ACTCGAAATACAAAGACATTCTTCATAAAATTTGATTTAGT
* * * * *
61547504 TTCTTATTTTTGGGGATTCGAGACATCGTGTCCTAACTTA-TGAGGCATGATTTTCTT-TCCGAT
1 TTCTTATTTTTAGGGATTCGAGACATCGTGCCCTAACTTACAG-GGCATAATTCTCTTCT-CGAT
*
61547567 TAACTCGAAATACAAAGACATTTTTCATAAAATTTGATTTA
64 TAACTCGAAATACAAAGACATTCTTCATAAAATTTGATTTA
61547608 ATTAACGATA
Statistics
Matches: 94, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
105 2 0.02
106 92 0.98
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (106 bp):
TTCTTATTTTTAGGGATTCGAGACATCGTGCCCTAACTTACAGGGCATAATTCTCTTCTCGATTA
ACTCGAAATACAAAGACATTCTTCATAAAATTTGATTTAGT
Found at i:61551494 original size:30 final size:30
Alignment explanation
Indices: 61551454--61551513 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
61551444 ATGGATATTG
*
61551454 AGTCAAATATG-GCACTCAACCTTTTAAAAAA
1 AGTCAAATATGACCAC-CAACC-TTTAAAAAA
61551485 AGTC-AATATGACCACCAACCTTTAAAAAA
1 AGTCAAATATGACCACCAACCTTTAAAAAA
61551514 TAATTAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 9 0.33
30 11 0.41
31 7 0.26
ACGTcount: A:0.47, C:0.22, G:0.08, T:0.23
Consensus pattern (30 bp):
AGTCAAATATGACCACCAACCTTTAAAAAA
Found at i:61551632 original size:10 final size:9
Alignment explanation
Indices: 61551613--61551661 Score: 50
Period size: 10 Copynumber: 5.4 Consensus size: 9
61551603 TTCATAATGA
61551613 TTTTTGAAT
1 TTTTTGAAT
61551622 TTTTATGAAT
1 TTTT-TGAAT
61551632 TTTTAT-ATAT
1 TTTT-TGA-AT
61551642 TTTTTGAA-
1 TTTTTGAAT
61551650 -TTTTGAAT
1 TTTTTGAAT
61551658 TTTT
1 TTTT
61551662 AGTTATTTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
7 7 0.20
9 10 0.29
10 18 0.51
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.67
Consensus pattern (9 bp):
TTTTTGAAT
Found at i:61551635 original size:18 final size:18
Alignment explanation
Indices: 61551612--61551680 Score: 63
Period size: 18 Copynumber: 3.8 Consensus size: 18
61551602 CTTCATAATG
61551612 ATTTTTGAATTTTTATGA
1 ATTTTTGAATTTTTATGA
*
61551630 ATTTTT-ATATATTTTTTGA
1 ATTTTTGA-AT-TTTTATGA
*
61551649 A-TTTTGAATTTTTA-GTT
1 ATTTTTGAATTTTTATG-A
*
61551666 ATTTTAGAATTTTTA
1 ATTTTTGAATTTTTA
61551681 AATTATTTGT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
16 1 0.02
17 6 0.14
18 26 0.62
19 9 0.21
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.64
Consensus pattern (18 bp):
ATTTTTGAATTTTTATGA
Found at i:61551679 original size:26 final size:26
Alignment explanation
Indices: 61551612--61551692 Score: 78
Period size: 26 Copynumber: 3.0 Consensus size: 26
61551602 CTTCATAATG
61551612 ATTTTTGAATTTTTATGAATTTTTA-TAT
1 ATTTTTGAA-TTTT-TGAATTTTTAGT-T
61551640 ATTTTTTGAA-TTTTGAATTTTTAGTT
1 A-TTTTTGAATTTTTGAATTTTTAGTT
* *
61551666 ATTTTAGAATTTTTAAATTATTT-GTT
1 ATTTTTGAATTTTTGAATT-TTTAGTT
61551692 A
1 A
61551693 ATGTGGCATA
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
25 7 0.15
26 24 0.51
27 7 0.15
28 1 0.02
29 8 0.17
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (26 bp):
ATTTTTGAATTTTTGAATTTTTAGTT
Found at i:61554558 original size:11 final size:11
Alignment explanation
Indices: 61554542--61554649 Score: 54
Period size: 11 Copynumber: 10.5 Consensus size: 11
61554532 AATTAATCAT
61554542 ATTAATATTAA
1 ATTAATATTAA
61554553 ATTAATA--AA
1 ATTAATATTAA
* *
61554562 A-TATTATCTAG
1 ATTAATAT-TAA
*
61554573 ATAAATATTAA
1 ATTAATATTAA
*
61554584 ATTAA-ATTTA
1 ATTAATATTAA
* * *
61554594 A-T-ATCTCAT
1 ATTAATATTAA
61554603 ATTAATATTAA
1 ATTAATATTAA
61554614 ATTAATA--AA
1 ATTAATATTAA
*
61554623 A-TACTATCTAA
1 ATTAATAT-TAA
*
61554634 ATAAATATTAA
1 ATTAATATTAA
61554645 ATTAA
1 ATTAA
61554650 ATTTAATATC
Statistics
Matches: 68, Mismatches: 18, Indels: 22
0.63 0.17 0.20
Matches are distributed among these distances:
8 9 0.13
9 9 0.13
10 6 0.09
11 36 0.53
12 8 0.12
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.41
Consensus pattern (11 bp):
ATTAATATTAA
Found at i:61554566 original size:16 final size:15
Alignment explanation
Indices: 61554545--61554649 Score: 51
Period size: 15 Copynumber: 6.9 Consensus size: 15
61554535 TAATCATATT
61554545 AATATTAAATTAATAA
1 AATATTAAATTAAT-A
61554561 AATATT--ATCTAGATA
1 AATATTAAAT-TA-ATA
61554576 AATATTAAA-T--TA
1 AATATTAAATTAATA
*
61554588 AAT-TTAATATCTCATATT
1 AATATTAA-AT-T-A-ATA
61554606 AATATTAAATTAATAA
1 AATATTAAATTAAT-A
* ** *
61554622 AATACTATCTAAATA
1 AATATTAAATTAATA
61554637 AATATTAAATTAA
1 AATATTAAATTAA
61554650 ATTTAATATC
Statistics
Matches: 66, Mismatches: 10, Indels: 27
0.64 0.10 0.26
Matches are distributed among these distances:
11 4 0.06
12 6 0.09
14 3 0.05
15 22 0.33
16 19 0.29
17 2 0.03
18 6 0.09
19 4 0.06
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.40
Consensus pattern (15 bp):
AATATTAAATTAATA
Found at i:61554583 original size:31 final size:31
Alignment explanation
Indices: 61554545--61554649 Score: 124
Period size: 31 Copynumber: 3.4 Consensus size: 31
61554535 TAATCATATT
* *
61554545 AATATTAAATTAATAAAATATTATCTAGATA
1 AATATTAAATTAATAAAATAATATCTAAATA
** * *
61554576 AATATTAAATT-A-AATTTAATATCTCATATT
1 AATATTAAATTAATAAAATAATATCT-AAATA
*
61554606 AATATTAAATTAATAAAATACTATCTAAATA
1 AATATTAAATTAATAAAATAATATCTAAATA
61554637 AATATTAAATTAA
1 AATATTAAATTAA
61554650 ATTTAATATC
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
29 9 0.15
30 15 0.25
31 28 0.46
32 9 0.15
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.40
Consensus pattern (31 bp):
AATATTAAATTAATAAAATAATATCTAAATA
Found at i:61554638 original size:61 final size:61
Alignment explanation
Indices: 61554538--61554663 Score: 234
Period size: 61 Copynumber: 2.1 Consensus size: 61
61554528 TTAGAATTAA
* *
61554538 TCATATTAATATTAAATTAATAAAATATTATCTAGATAAATATTAAATTAAATTTAATATC
1 TCATATTAATATTAAATTAATAAAATACTATCTAAATAAATATTAAATTAAATTTAATATC
61554599 TCATATTAATATTAAATTAATAAAATACTATCTAAATAAATATTAAATTAAATTTAATATC
1 TCATATTAATATTAAATTAATAAAATACTATCTAAATAAATATTAAATTAAATTTAATATC
61554660 TCAT
1 TCAT
61554664 TTTATTATAT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.42
Consensus pattern (61 bp):
TCATATTAATATTAAATTAATAAAATACTATCTAAATAAATATTAAATTAAATTTAATATC
Found at i:61556095 original size:12 final size:12
Alignment explanation
Indices: 61556080--61556109 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
61556070 AATGTTTAAA
61556080 TAAATTAAAAAT
1 TAAATTAAAAAT
*
61556092 TAAATTAGAAAT
1 TAAATTAAAAAT
61556104 TAAATT
1 TAAATT
61556110 CGGATTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (12 bp):
TAAATTAAAAAT
Found at i:61557240 original size:136 final size:136
Alignment explanation
Indices: 61556996--61557266 Score: 515
Period size: 136 Copynumber: 2.0 Consensus size: 136
61556986 TTCTATTTTT
* *
61556996 GGCTTTTACAAAGTCAAAAGAATATGATAAGTCCTTAACTTTTTCCACATTTTTTATTCGACCTC
1 GGCTTTTACAAAGTCAAAAGAATATGATAAGCCCTTAACTTTTTCCACATTTTTTATTCAACCTC
61557061 ATTTCATTGATTGTGTTTCAATTTGGTCATTTCCTGGTCGTTTTTTACTCTTAGCGTCCCAATTG
66 ATTTCATTGATTGTGTTTCAATTTGGTCATTTCCTGGTCGTTTTTTACTCTTAGCGTCCCAATTG
61557126 CATCCA
131 CATCCA
*
61557132 GGCTTTTACAAAGTCAGAAGAATATGATAAGCCCTTAACTTTTTCCACATTTTTTATTCAACCTC
1 GGCTTTTACAAAGTCAAAAGAATATGATAAGCCCTTAACTTTTTCCACATTTTTTATTCAACCTC
61557197 ATTTCATTGATTGTGTTTCAATTTGGTCATTTCCTGGTCGTTTTTTACTCTTAGCGTCCCAATTG
66 ATTTCATTGATTGTGTTTCAATTTGGTCATTTCCTGGTCGTTTTTTACTCTTAGCGTCCCAATTG
61557262 CATCC
131 CATCC
61557267 CTGATAAGAT
Statistics
Matches: 132, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
136 132 1.00
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.42
Consensus pattern (136 bp):
GGCTTTTACAAAGTCAAAAGAATATGATAAGCCCTTAACTTTTTCCACATTTTTTATTCAACCTC
ATTTCATTGATTGTGTTTCAATTTGGTCATTTCCTGGTCGTTTTTTACTCTTAGCGTCCCAATTG
CATCCA
Found at i:61557558 original size:61 final size:61
Alignment explanation
Indices: 61557463--61557580 Score: 236
Period size: 61 Copynumber: 1.9 Consensus size: 61
61557453 CTATTTACTT
61557463 AATGTTCAGATTCTTCTTTAACATCAACATTATCTTCTTCTTCTTCTTCATTAAGATAGAA
1 AATGTTCAGATTCTTCTTTAACATCAACATTATCTTCTTCTTCTTCTTCATTAAGATAGAA
61557524 AATGTTCAGATTCTTCTTTAACATCAACATTATCTTCTTCTTCTTCTTCATTAAGAT
1 AATGTTCAGATTCTTCTTTAACATCAACATTATCTTCTTCTTCTTCTTCATTAAGAT
61557581 CGAACTAAGA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.28, C:0.20, G:0.06, T:0.46
Consensus pattern (61 bp):
AATGTTCAGATTCTTCTTTAACATCAACATTATCTTCTTCTTCTTCTTCATTAAGATAGAA
Found at i:61558472 original size:25 final size:25
Alignment explanation
Indices: 61558444--61558497 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
61558434 GAATATTTTG
* * *
61558444 TAAAGATTTTGTGGTGAACTCTCTA
1 TAAAGACTTTATGGCGAACTCTCTA
* *
61558469 TAAAGCCTTTATGGCGAACTCTCTG
1 TAAAGACTTTATGGCGAACTCTCTA
61558494 TAAA
1 TAAA
61558498 ACATTCTTGG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (25 bp):
TAAAGACTTTATGGCGAACTCTCTA
Found at i:61562682 original size:3 final size:3
Alignment explanation
Indices: 61562674--61562716 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
61562664 TTTCGTGTCT
61562674 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
61562717 GTCATTTTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:61563086 original size:20 final size:18
Alignment explanation
Indices: 61563061--61563097 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 18
61563051 ATTAAAATAT
61563061 TTATTTCCTTTTTTATTTCA
1 TTATTT-CTTTTTT-TTTCA
61563081 TTATTTCTTTTTTTTTC
1 TTATTTCTTTTTTTTTC
61563098 CTTTCCCCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 7 0.41
20 6 0.35
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.76
Consensus pattern (18 bp):
TTATTTCTTTTTTTTTCA
Found at i:61566378 original size:5 final size:5
Alignment explanation
Indices: 61566370--61566394 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
61566360 ATCACATTTC
61566370 CCCTG CCCTG CCCTG CCCTG CCCTG
1 CCCTG CCCTG CCCTG CCCTG CCCTG
61566395 GTATCTTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.60, G:0.20, T:0.20
Consensus pattern (5 bp):
CCCTG
Found at i:61572529 original size:16 final size:16
Alignment explanation
Indices: 61572508--61572542 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
61572498 TTGTGTTTTG
*
61572508 TTTTGACTGCATGACA
1 TTTTGACTACATGACA
*
61572524 TTTTGACTACATGGCA
1 TTTTGACTACATGACA
61572540 TTT
1 TTT
61572543 CATTATAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.43
Consensus pattern (16 bp):
TTTTGACTACATGACA
Found at i:61575731 original size:15 final size:16
Alignment explanation
Indices: 61575694--61575732 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
61575684 ATGAAATGAA
61575694 AAAAAT-GAAAAAATG
1 AAAAATGGAAAAAATG
*
61575709 AAAAATGGAAAAAGT-
1 AAAAATGGAAAAAATG
61575724 AAAAATGGA
1 AAAAATGGA
61575733 GAGGCTAAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 15 0.68
16 7 0.32
ACGTcount: A:0.69, C:0.00, G:0.18, T:0.13
Consensus pattern (16 bp):
AAAAATGGAAAAAATG
Found at i:61577741 original size:252 final size:252
Alignment explanation
Indices: 61577296--61577791 Score: 773
Period size: 252 Copynumber: 2.0 Consensus size: 252
61577286 TACTTCTCTG
* * *
61577296 GCGGTGTAGGGGACCAGATTAAAGCTACGACGACGAATCTCGTTTCCCCGACATTACAGTTAAAT
1 GCGGTGTAGGGGACCAGATTAAAGCCACAACGACGAATCTCGTTTCCCCAACATTACAGTTAAAT
* *
61577361 AGATTGAAGCCACAACGGAAAATCTTACTTCTCCGGCATTGCAACGGAGCAGATTGAAGCCACGA
66 AGATTAAAGCCACAACGGAAAATCTTACTTCCCCGGCATTGCAACGGAGCAGATTGAAGCCACGA
* *
61577426 CGGTGAATCTTATCTTCCTAGCGTTAAGACTTGGATTAGCTAAAGTGGAGCGGATTAAGGCTGT-
131 CGGTGAATCTTATCTCCCTAGCGTTAAGACTTAGATTAGCTAAAGTGGAGCGGATTAAGGCTGTA
*
61577490 GGACAGCAAATCCTATCTCTTTGGCATTACAGTGGAATGGATTGAAGCCATGACGATA
196 GG-CAGCAAATCCTATCTCTTTGGCATTACAGTGGAATAGATTGAAGCCATGACGATA
* *
61577548 GCGGTGTAGGGGACCAGATTGAAGCCACAAC-AGCGAATCTCGTTTCCCCAACATTGCAGTTAAA
1 GCGGTGTAGGGGACCAGATTAAAGCCACAACGA-CGAATCTCGTTTCCCCAACATTACAGTTAAA
* * *
61577612 TAGATTAAAGCCACAAC-GACGAATCTTACTTCCCCGGCGTTGCAGCGGAGCAGATTGAAGCCAC
65 TAGATTAAAGCCACAACGGA-AAATCTTACTTCCCCGGCATTGCAACGGAGCAGATTGAAGCCAC
* * *
61577676 GATGGTGAATCTTATCTCCCTGGCGTTAAGACTTAGATTAGCTGAAGTGGAGCGGATTAAGGCTG
129 GACGGTGAATCTTATCTCCCTAGCGTTAAGACTTAGATTAGCTAAAGTGGAGCGGATTAAGGCTG
* * *
61577741 TAGGTAGCGAATCCTATCTTTTTGGCATTACAGTGGAATAGATTGAAGCCA
194 TAGGCAGCAAATCCTATCTCTTTGGCATTACAGTGGAATAGATTGAAGCCA
61577792 AAACGGCAAA
Statistics
Matches: 222, Mismatches: 19, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
251 3 0.01
252 217 0.98
253 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (252 bp):
GCGGTGTAGGGGACCAGATTAAAGCCACAACGACGAATCTCGTTTCCCCAACATTACAGTTAAAT
AGATTAAAGCCACAACGGAAAATCTTACTTCCCCGGCATTGCAACGGAGCAGATTGAAGCCACGA
CGGTGAATCTTATCTCCCTAGCGTTAAGACTTAGATTAGCTAAAGTGGAGCGGATTAAGGCTGTA
GGCAGCAAATCCTATCTCTTTGGCATTACAGTGGAATAGATTGAAGCCATGACGATA
Found at i:61577834 original size:50 final size:50
Alignment explanation
Indices: 61577771--61578262 Score: 356
Period size: 50 Copynumber: 9.8 Consensus size: 50
61577761 TTTGGCATTA
* * * *
61577771 CAGTGGAATAGATTGAAGCCAAAACGGCAAATCTTACTTCCCTAGCAGTG
1 CAGTGGAACAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCAGTG
* * * * * * * *
61577821 TAGTGGAACAGATTGAAGCTACGACGGCAAATCTTATTTCCCCGACATTG
1 CAGTGGAACAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCAGTG
* ** * ** * *
61577871 CAATTAAATAGATTGAAGCCACAACGATGAATCTTACTTCCTTGGCGGTG
1 CAGTGGAACAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCAGTG
* * * * * ** * * *
61577921 TAGTGGAATAGATTGAAGCTACGACGGTGAATCTTGTTTCCCCGACATTG
1 CAGTGGAACAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCAGTG
* * ** * *
61577971 TAATTAAATAGATTGAAGCCACAACGGCGAATCTTACTTCACTGGC-GATG
1 CAGTGGAACAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCAG-TG
** * * ** * * *
61578021 CAGTGGAACAGATTGAAGTTACAATGGTGAATCTTGTTTCCTTGACATTG
1 CAGTGGAACAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCAGTG
* ** * * ** *
61578071 CAATTAAAAAGATTGAAGCCACAATGATGAATCTTACTTCCCTGGCGGTG
1 CAGTGGAACAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCAGTG
** * * * * *
61578121 CAGTGGAACAGATTGAAGGTACAACGACGAATCTTACTTCCCCGACATTA
1 CAGTGGAACAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCAGTG
* ** * *
61578171 CAATTAAAAAGATTGAAGCCACAACGGCAAATCTTACTTCCCTGGCAGTG
1 CAGTGGAACAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCAGTG
* * *
61578221 CAGTGGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCC
1 CAGTGGAACAGATTGAAGCCACAACGGCGAATCTTACTTCCC
61578263 CGACATTGTA
Statistics
Matches: 327, Mismatches: 113, Indels: 4
0.74 0.25 0.01
Matches are distributed among these distances:
50 327 1.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (50 bp):
CAGTGGAACAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCAGTG
Found at i:61577954 original size:100 final size:100
Alignment explanation
Indices: 61577777--61578288 Score: 655
Period size: 100 Copynumber: 5.1 Consensus size: 100
61577767 ATTACAGTGG
* * * * *
61577777 AATAGATTGAAGCCAAAACGGCAAATCTTACTTCCCTAGCAGTGTAGTGGAACAGATTGAAGCTA
1 AATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTA
* * *
61577842 CGACGGCAAATCTTATTTCCCCGACATTGCAATTA
66 CAACGGCGAATCTTGTTTCCCCGACATTGCAATTA
** * * *
61577877 AATAGATTGAAGCCACAACGATGAATCTTACTTCCTTGGCGGTGTAGTGGAATAGATTGAAGCTA
1 AATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTA
* * *
61577942 CGACGGTGAATCTTGTTTCCCCGACATTGTAATTA
66 CAACGGCGAATCTTGTTTCCCCGACATTGCAATTA
* * *
61577977 AATAGATTGAAGCCACAACGGCGAATCTTACTTCACTGGCGATGCAGTGGAACAGATTGAAGTTA
1 AATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTA
* * **
61578042 CAATGGTGAATCTTGTTTCCTTGACATTGCAATTA
66 CAACGGCGAATCTTGTTTCCCCGACATTGCAATTA
* * ** *
61578077 AAAAGATTGAAGCCACAATGATGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGGTA
1 AATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTA
* ** *
61578142 CAACGACGAATCTTACTTCCCCGACATTACAATTA
66 CAACGGCGAATCTTGTTTCCCCGACATTGCAATTA
* * *
61578177 AAAAGATTGAAGCCACAACGGCAAATCTTACTTCCCTGGCAGTGCAGTGGAACAGATTGAAGCTA
1 AATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTA
* * * *
61578242 CAACAGCGAATCTTGCTTCCCCGACATTGTAGTTA
66 CAACGGCGAATCTTGTTTCCCCGACATTGCAATTA
* *
61578277 ATTAGACTGAAG
1 AATAGATTGAAG
61578289 ATAGCGAATC
Statistics
Matches: 357, Mismatches: 55, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
100 357 1.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (100 bp):
AATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTA
CAACGGCGAATCTTGTTTCCCCGACATTGCAATTA
Found at i:61578672 original size:44 final size:44
Alignment explanation
Indices: 61578580--61578681 Score: 118
Period size: 44 Copynumber: 2.3 Consensus size: 44
61578570 AACATTATCT
* * * * *
61578580 CCCTGAAGTTGCAGTGGAGCAGGTAGAAGATACAAGTCTTATCT
1 CCCTGAAGTTGCAGTGGAGCAGCTAAAACATACAAGTCTCATCC
*
61578624 CCCTGAAGTTGCAGTGGAGCAGACTAAAACCAT-CAA-TCTCGTCC
1 CCCTGAAGTTGCAGTGGAGCAG-CTAAAA-CATACAAGTCTCATCC
61578668 CCCTGAAGTTGCAG
1 CCCTGAAGTTGCAG
61578682 CAGAGTGGAT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
44 41 0.82
45 7 0.14
46 2 0.04
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.23
Consensus pattern (44 bp):
CCCTGAAGTTGCAGTGGAGCAGCTAAAACATACAAGTCTCATCC
Found at i:61579983 original size:3 final size:3
Alignment explanation
Indices: 61579968--61580060 Score: 57
Period size: 3 Copynumber: 31.3 Consensus size: 3
61579958 TAGGTTTTTT
* * * *
61579968 TTA TT- TTA ATA TTA TTA ATA TTG TTA -TA TTGCA TCA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT--A TTA TTA TTA TTA
* * * * * *
61580013 -TA TTT TTA TTA TTA TTA CTA TTA TTA ATA TAA TAA TAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
61580060 T
1 T
61580061 AACCATGTAT
Statistics
Matches: 69, Mismatches: 16, Indels: 10
0.73 0.17 0.11
Matches are distributed among these distances:
2 6 0.09
3 61 0.88
5 2 0.03
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:61581331 original size:25 final size:24
Alignment explanation
Indices: 61581303--61581349 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
61581293 TTTTATATTA
*
61581303 ATATTAATATTAAATAAATATAATT
1 ATATGAATATTAAATAAA-ATAATT
61581328 ATATGAATATTAAATAAAATAA
1 ATATGAATATTAAATAAAATAA
61581350 AAATCTCCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (24 bp):
ATATGAATATTAAATAAAATAATT
Found at i:61583446 original size:16 final size:16
Alignment explanation
Indices: 61583403--61583448 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
61583393 ACACTTGTAG
61583403 TTATAA-AAAAAATAA
1 TTATAATAAAAAATAA
* *
61583418 TTATAATAGAAAATAG
1 TTATAATAAAAAATAA
61583434 TT-TAATTAAAAAATA
1 TTATAA-TAAAAAATA
61583449 TAAGAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 9 0.35
16 17 0.65
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (16 bp):
TTATAATAAAAAATAA
Found at i:61603492 original size:24 final size:26
Alignment explanation
Indices: 61603465--61603519 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
61603455 AGTTCATCGT
*
61603465 TTTAGGAATCTTAT-TTTTTTATT-A
1 TTTAGGAACCTTATCTTTTTTATTAA
*
61603489 TTTA-GCACCTTATCTTTTTTATTAA
1 TTTAGGAACCTTATCTTTTTTATTAA
61603514 TTTAGG
1 TTTAGG
61603520 TATTAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 7 0.27
24 13 0.50
25 5 0.19
26 1 0.04
ACGTcount: A:0.24, C:0.09, G:0.09, T:0.58
Consensus pattern (26 bp):
TTTAGGAACCTTATCTTTTTTATTAA
Found at i:61605686 original size:25 final size:24
Alignment explanation
Indices: 61605654--61605703 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
61605644 TATATTAAAA
61605654 TATTTTTTACTTTAAATAAAATAT
1 TATTTTTTACTTTAAATAAAATAT
* * *
61605678 TATTATTTTATTTTTATTAAAATAT
1 TATT-TTTTACTTTAAATAAAATAT
61605703 T
1 T
61605704 TAAATATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (24 bp):
TATTTTTTACTTTAAATAAAATAT
Found at i:61606027 original size:60 final size:60
Alignment explanation
Indices: 61605928--61606046 Score: 193
Period size: 60 Copynumber: 2.0 Consensus size: 60
61605918 TTATTTTTTA
* *
61605928 TAATTATTTTAAAATTAATTTGTTAGTAATTTAATATTATGTTATAAACTGTTGTGTTTG
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAAGATTATGTTATAAACTGTTGTGTTTG
* * *
61605988 TAATTATTTTAAAATTATTTTATTAGTAATTTAGGATTATGTTATAAATTGTTGTGTTT
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAAGATTATGTTATAAACTGTTGTGTTT
61606047 AGTTTAGTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.33, C:0.01, G:0.12, T:0.55
Consensus pattern (60 bp):
TAATTATTTTAAAATTAATTTATTAGTAATTTAAGATTATGTTATAAACTGTTGTGTTTG
Found at i:61613143 original size:15 final size:15
Alignment explanation
Indices: 61613125--61613168 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
61613115 TCGTCCACCT
*
61613125 CCTCCTCCGCCTCCG
1 CCTCCTCCACCTCCG
*
61613140 CCTCCCCCACCTCCG
1 CCTCCTCCACCTCCG
*
61613155 CCCCCTCCACCTCC
1 CCTCCTCCACCTCC
61613169 TCCGGCACTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.05, C:0.73, G:0.07, T:0.16
Consensus pattern (15 bp):
CCTCCTCCACCTCCG
Found at i:61619928 original size:21 final size:24
Alignment explanation
Indices: 61619904--61619946 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
61619894 AAATTTATTA
61619904 TTAA-GCTTT-ATT-TTAACAATT
1 TTAACGCTTTCATTCTTAACAATT
*
61619925 TTAACGTTTTCATTCTTAACAA
1 TTAACGCTTTCATTCTTAACAA
61619947 GCATTATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 4 0.22
22 4 0.22
23 3 0.17
24 7 0.39
ACGTcount: A:0.33, C:0.14, G:0.05, T:0.49
Consensus pattern (24 bp):
TTAACGCTTTCATTCTTAACAATT
Found at i:61622310 original size:28 final size:27
Alignment explanation
Indices: 61622279--61622346 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
61622269 ATGTTTTTGA
** *
61622279 ATTTATTTTTTTAATAATTATAATTTAT
1 ATTTATTTTTAAAATAA-CATAATTTAT
* *
61622307 ATTTATTTCTAAAATAACATTATTTAT
1 ATTTATTTTTAAAATAACATAATTTAT
61622334 ATTTATTTTTAAA
1 ATTTATTTTTAAA
61622347 TCCTTATTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
27 20 0.59
28 14 0.41
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (27 bp):
ATTTATTTTTAAAATAACATAATTTAT
Found at i:61624216 original size:49 final size:50
Alignment explanation
Indices: 61624128--61624229 Score: 188
Period size: 49 Copynumber: 2.1 Consensus size: 50
61624118 TAAAACAACC
*
61624128 ATAGTTATGGTAGTTGTGCTTCCCTCCCCTTCAATGTAATAATATATATA
1 ATAGTTATGGTAGTTGTGATTCCCTCCCCTTCAATGTAATAATATATATA
61624178 ATAGTTATGGTAGTTGTGATT-CCTCCCCTTCAATGTAATAATATATATA
1 ATAGTTATGGTAGTTGTGATTCCCTCCCCTTCAATGTAATAATATATATA
61624227 ATA
1 ATA
61624230 AAACCTAAAG
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 31 0.61
50 20 0.39
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (50 bp):
ATAGTTATGGTAGTTGTGATTCCCTCCCCTTCAATGTAATAATATATATA
Found at i:61629060 original size:41 final size:39
Alignment explanation
Indices: 61628939--61629073 Score: 141
Period size: 37 Copynumber: 3.5 Consensus size: 39
61628929 ACCAGTTTGG
*
61628939 CACCCAGTGCCTCATCGAA-AATTCAAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCGAATAAATCAAAGTA-TAAATTGA
* ** * * *
61628978 CACCCAGTGTCTCATCGGTTTAATCGAAG--TAAATTGG
1 CACCCAGTGCCTCATCGAATAAATCAAAGTATAAATTGA
*
61629015 CACCCAGTGCCTCATCAAATAAATCTAAAGTAATAAATTGA
1 CACCCAGTGCCTCATCGAATAAATC-AAAGT-ATAAATTGA
*
61629056 CACCCAGTGTCTCATCGA
1 CACCCAGTGCCTCATCGA
61629074 CTCAAAGCCG
Statistics
Matches: 75, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
37 27 0.36
38 3 0.04
39 16 0.21
40 6 0.08
41 23 0.31
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGAATAAATCAAAGTATAAATTGA
Found at i:61629986 original size:23 final size:23
Alignment explanation
Indices: 61629942--61629986 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
61629932 CTTCGTCTCC
*
61629942 TTCTTTCTCCCTTTTTTCTTTCT
1 TTCTTTCTCCCTTTTCTCTTTCT
** *
61629965 TTCTTTCTTTCTTTTCTGTTTC
1 TTCTTTCTCCCTTTTCTCTTTC
61629987 GTTTTTGCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.00, C:0.27, G:0.02, T:0.71
Consensus pattern (23 bp):
TTCTTTCTCCCTTTTCTCTTTCT
Found at i:61634694 original size:13 final size:13
Alignment explanation
Indices: 61634676--61634700 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61634666 CCCGTATTAA
61634676 ATTTTTTTATATT
1 ATTTTTTTATATT
61634689 ATTTTTTTATAT
1 ATTTTTTTATAT
61634701 AAAAAAATTT
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
ATTTTTTTATATT
Found at i:61636624 original size:3 final size:3
Alignment explanation
Indices: 61636616--61636650 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
61636606 ACAGTCTAAC
61636616 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
61636651 TAATTTCCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:61646786 original size:5 final size:5
Alignment explanation
Indices: 61646776--61646800 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
61646766 GTGCTACTTG
61646776 CATGA CATGA CATGA CATGA CATGA
1 CATGA CATGA CATGA CATGA CATGA
61646801 GAGACGGAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (5 bp):
CATGA
Found at i:61651065 original size:23 final size:23
Alignment explanation
Indices: 61651039--61651104 Score: 87
Period size: 24 Copynumber: 2.8 Consensus size: 23
61651029 CTATTGCATC
*
61651039 GAAGTGTCACTTTCATTTGCACA
1 GAAGTGCCACTTTCATTTGCACA
* **
61651062 GAAGTGCCACATTTCAATTGCATT
1 GAAGTGCCAC-TTTCATTTGCACA
61651086 GAAGTGCCACTTTCATTTG
1 GAAGTGCCACTTTCATTTG
61651105 TGCGCATAGG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 17 0.46
24 20 0.54
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (23 bp):
GAAGTGCCACTTTCATTTGCACA
Found at i:61651082 original size:24 final size:22
Alignment explanation
Indices: 61651031--61651100 Score: 77
Period size: 24 Copynumber: 3.0 Consensus size: 22
61651021 CAGTTATACT
*
61651031 ATTGCATCGAAGTGTCACTTTCA
1 ATTGCA-CGAAGTGCCACTTTCA
*
61651054 TTTGCACAGAAGTGCCACATTTCA
1 ATTGCAC-GAAGTGCCAC-TTTCA
*
61651078 ATTGCATTGAAGTGCCACTTTCA
1 ATTGCA-CGAAGTGCCACTTTCA
61651101 TTTGTGCGCA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 1 0.03
23 19 0.47
24 20 0.50
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (22 bp):
ATTGCACGAAGTGCCACTTTCA
Found at i:61651634 original size:28 final size:28
Alignment explanation
Indices: 61651602--61651658 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
61651592 TGTTGCTTTT
61651602 TCCACATTATGATGGTTACACTTTCTCC
1 TCCACATTATGATGGTTACACTTTCTCC
61651630 TCCACATTATGATGGTTACACTTTCTCC
1 TCCACATTATGATGGTTACACTTTCTCC
61651658 T
1 T
61651659 ATACAGTGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.21, C:0.28, G:0.11, T:0.40
Consensus pattern (28 bp):
TCCACATTATGATGGTTACACTTTCTCC
Found at i:61656151 original size:13 final size:14
Alignment explanation
Indices: 61656128--61656156 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
61656118 CTTCCTTCTT
61656128 TTTCTTTTTCTTTC
1 TTTCTTTTTCTTTC
61656142 TTTC-TTTTCTTTC
1 TTTCTTTTTCTTTC
61656155 TT
1 TT
61656157 ATTTTGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTCTTTTTCTTTC
Found at i:61657988 original size:21 final size:20
Alignment explanation
Indices: 61657962--61658007 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
61657952 AATCTTAGGC
* *
61657962 TAAAAATTATTAGAAAATCTA
1 TAAAAATAATTAAAAAATC-A
61657983 TAAAAATAATTAAAAAATCA
1 TAAAAATAATTAAAAAATCA
61658003 TAAAA
1 TAAAA
61658008 TTTAAAAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.28
Consensus pattern (20 bp):
TAAAAATAATTAAAAAATCA
Found at i:61669230 original size:20 final size:21
Alignment explanation
Indices: 61669194--61669232 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
61669184 AAAAGACGGT
61669194 CAAAATAGTTTCTTAAAGAGC
1 CAAAATAGTTTCTTAAAGAGC
61669215 CAAAA-AGTTTGC-TAAAGA
1 CAAAATAGTTT-CTTAAAGA
61669233 ATGAGAGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.26
Consensus pattern (21 bp):
CAAAATAGTTTCTTAAAGAGC
Found at i:61683722 original size:26 final size:26
Alignment explanation
Indices: 61683699--61683759 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 26
61683689 GTCCCGATAT
*
61683699 ATGGCTCTTCGTGAGCTTCTCGATTA
1 ATGGCTCTTCATGAGCTTCTCGATTA
* *
61683725 AAGGCTCTTTCATGAGCTTCTTGATTA
1 ATGGCTC-TTCATGAGCTTCTCGATTA
61683752 ATGGCTCT
1 ATGGCTCT
61683760 CCAGAACTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 7 0.23
27 23 0.77
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.39
Consensus pattern (26 bp):
ATGGCTCTTCATGAGCTTCTCGATTA
Found at i:61683862 original size:24 final size:24
Alignment explanation
Indices: 61683835--61683896 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
61683825 TGGCTCTTTG
*
61683835 GAGCTACCCGTTATTAGCTCGTAT
1 GAGCTTCCCGTTATTAGCTCGTAT
* * *
61683859 GAGCTTCCTGATTA-TGGCTCTTAT
1 GAGCTTCCCG-TTATTAGCTCGTAT
61683883 GAGCTTCCCGTTAT
1 GAGCTTCCCGTTAT
61683897 ACAGCCCGGA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
23 3 0.10
24 25 0.81
25 3 0.10
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (24 bp):
GAGCTTCCCGTTATTAGCTCGTAT
Found at i:61683964 original size:12 final size:12
Alignment explanation
Indices: 61683947--61683971 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
61683937 TTCCTGTTAA
61683947 ATGGCTCGAGAG
1 ATGGCTCGAGAG
61683959 ATGGCTCGAGAG
1 ATGGCTCGAGAG
61683971 A
1 A
61683972 GAGCATCCCG
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:0.28, C:0.16, G:0.40, T:0.16
Consensus pattern (12 bp):
ATGGCTCGAGAG
Found at i:61684782 original size:23 final size:23
Alignment explanation
Indices: 61684752--61684798 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
61684742 TGCATAAGAC
61684752 TTAGTCTTGGCTCGGTTTTAATG
1 TTAGTCTTGGCTCGGTTTTAATG
61684775 TTAGTCTTGGCTCGGTTTTAATG
1 TTAGTCTTGGCTCGGTTTTAATG
61684798 T
1 T
61684799 ATTGAATTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.13, C:0.13, G:0.26, T:0.49
Consensus pattern (23 bp):
TTAGTCTTGGCTCGGTTTTAATG
Found at i:61685206 original size:42 final size:42
Alignment explanation
Indices: 61685147--61685238 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
61685137 CCTAAATTGG
61685147 ACACGGCCGTAAACACGGGCGTGTCTCTTGGCCATGTGAGCC
1 ACACGGCCGTAAACACGGGCGTGTCTCTTGGCCATGTGAGCC
*
61685189 ACACGGCCGTAGACACGGGCGTGTCTCTTGGCCATGTGAGCC
1 ACACGGCCGTAAACACGGGCGTGTCTCTTGGCCATGTGAGCC
61685231 ACACGGCC
1 ACACGGCC
61685239 TGGCCATATG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.18, C:0.33, G:0.32, T:0.17
Consensus pattern (42 bp):
ACACGGCCGTAAACACGGGCGTGTCTCTTGGCCATGTGAGCC
Found at i:61689647 original size:28 final size:29
Alignment explanation
Indices: 61689599--61689668 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 29
61689589 AGGGGTCTGA
*
61689599 TGCCGCCTGACAACATTCCTCCAAAT-GG
1 TGCCGCCTGACAACATCCCTCCAAATGGG
* ** **
61689627 TGTCGCCTGACAATGTCCCTCCACCTGGG
1 TGCCGCCTGACAACATCCCTCCAAATGGG
61689656 TGCCGCCTGACAA
1 TGCCGCCTGACAA
61689669 ATCTCTTCCA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
28 20 0.59
29 14 0.41
ACGTcount: A:0.20, C:0.37, G:0.21, T:0.21
Consensus pattern (29 bp):
TGCCGCCTGACAACATCCCTCCAAATGGG
Found at i:61698639 original size:43 final size:43
Alignment explanation
Indices: 61698578--61698663 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
61698568 ATCAAAACAG
61698578 ACTGCATTCTAATGACAAGCAAAGTCCAAATATAAAAGTACCT
1 ACTGCATTCTAATGACAAGCAAAGTCCAAATATAAAAGTACCT
61698621 ACTGCATTCTAATGACAAGCAAAGTCCAAATATAAAAGTACCT
1 ACTGCATTCTAATGACAAGCAAAGTCCAAATATAAAAGTACCT
61698664 CTTCTTTCTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.44, C:0.21, G:0.12, T:0.23
Consensus pattern (43 bp):
ACTGCATTCTAATGACAAGCAAAGTCCAAATATAAAAGTACCT
Found at i:61702625 original size:21 final size:21
Alignment explanation
Indices: 61702599--61702639 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
61702589 ATCTGCTCAA
* *
61702599 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
61702620 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
61702640 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:61710534 original size:19 final size:19
Alignment explanation
Indices: 61710475--61710549 Score: 71
Period size: 19 Copynumber: 3.9 Consensus size: 19
61710465 TGACCCGAAT
*
61710475 TATATATTAAATATATATTT
1 TATATATTAAATATATA-TA
* * * *
61710495 TTTATTTTTAATCTA-ATA
1 TATATATTAAATATATATA
* *
61710513 TATATTTTATATATATATA
1 TATATATTAAATATATATA
61710532 TATATATTAAATATATAT
1 TATATATTAAATATATAT
61710550 TTAAAATGGG
Statistics
Matches: 43, Mismatches: 11, Indels: 3
0.75 0.19 0.05
Matches are distributed among these distances:
18 12 0.28
19 20 0.47
20 11 0.26
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATATTAAATATATATA
Found at i:61710538 original size:25 final size:25
Alignment explanation
Indices: 61710475--61710538 Score: 62
Period size: 23 Copynumber: 2.7 Consensus size: 25
61710465 TGACCCGAAT
* *
61710475 TATATAT-TAAATATATATTTTTTA
1 TATATATATATATATATATATTTTA
* * *
61710499 TTTTTA-ATCTA-ATATATATTTTA
1 TATATATATATATATATATATTTTA
61710522 TATATATATATATATAT
1 TATATATATATATATAT
61710539 TAAATATATA
Statistics
Matches: 29, Mismatches: 8, Indels: 5
0.69 0.19 0.12
Matches are distributed among these distances:
23 15 0.52
24 10 0.34
25 4 0.14
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (25 bp):
TATATATATATATATATATATTTTA
Found at i:61711386 original size:1 final size:1
Alignment explanation
Indices: 61711380--61711406 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
61711370 ATTTTGTGAG
61711380 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
61711407 GTCTTGGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:61716184 original size:69 final size:67
Alignment explanation
Indices: 61716089--61716224 Score: 202
Period size: 69 Copynumber: 2.0 Consensus size: 67
61716079 TTTATATTTT
*
61716089 AATTTTGTAATTTATTTTTTTCAAATTTCTTTTAGAAATTAAAATATTTAAATTTTAAGATTTTG
1 AATTTTGTAATTTATTTTTTTCAAATTTCTTTTAGAAATTAAAATATTTAAAATTTAAGATTTTG
61716154 AA
66 AA
* * *
61716156 AATTTTGGATAATTTATTATTTTT-AAATTTTTTTTGGAAATTAAAATATTTAAAATTTATGATT
1 AATTTT-G-TAATTTATT-TTTTTCAAATTTCTTTTAGAAATTAAAATATTTAAAATTTAAGATT
61716220 TTGAA
63 TTGAA
61716225 TTAATCTAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
67 6 0.10
68 1 0.02
69 50 0.81
70 5 0.08
ACGTcount: A:0.38, C:0.01, G:0.07, T:0.54
Consensus pattern (67 bp):
AATTTTGTAATTTATTTTTTTCAAATTTCTTTTAGAAATTAAAATATTTAAAATTTAAGATTTTG
AA
Found at i:61719139 original size:35 final size:35
Alignment explanation
Indices: 61719087--61719283 Score: 166
Period size: 35 Copynumber: 5.6 Consensus size: 35
61719077 ACTCTCTATT
*
61719087 TTGGTGTGTTTCGGTTGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTTCAGTTGGATTAGCTCTTATGAGCA
* * *
61719122 TTAGTGTGTTTCAGTTGGATTAGCTCTTACGAGAA
1 TTGGTGTGTTTCAGTTGGATTAGCTCTTATGAGCA
* ** * *
61719157 TTGGTGTGTTTCGGAGGGATTAACTCTTACGAGCA
1 TTGGTGTGTTTCAGTTGGATTAGCTCTTATGAGCA
* * *
61719192 TTAAAGTGT-TTTGAAG--GGATTAGCTCTTATTAGCA
1 TT--GGTGTGTTT-CAGTTGGATTAGCTCTTATGAGCA
* * * * *
61719227 TTGGTGTGTTTCAGATGGATTGGCTTTTCTAAGCA
1 TTGGTGTGTTTCAGTTGGATTAGCTCTTATGAGCA
**
61719262 TCTGGTGTGTTTTGGTTGGATT
1 T-TGGTGTGTTTCAGTTGGATT
61719284 GTCGATGTAC
Statistics
Matches: 130, Mismatches: 25, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
33 6 0.05
34 3 0.02
35 96 0.74
36 20 0.15
37 5 0.04
ACGTcount: A:0.19, C:0.11, G:0.29, T:0.42
Consensus pattern (35 bp):
TTGGTGTGTTTCAGTTGGATTAGCTCTTATGAGCA
Found at i:61719201 original size:70 final size:70
Alignment explanation
Indices: 61719087--61719247 Score: 193
Period size: 70 Copynumber: 2.3 Consensus size: 70
61719077 ACTCTCTATT
* * * *
61719087 TTGGTGTGTTTCGGTTGGATTAGCTCTTATGAGCATT--AGTGTGTTT-CAGTTGGATTAGCTCT
1 TTGGTGTGTTTCGGATGGATTAACTCTTACGAGCATTAAAGTGT-TTTGAAG--GGATTAGCTCT
61719149 TACGAGAA
63 TACGAGAA
* *
61719157 TTGGTGTGTTTCGGAGGGATTAACTCTTACGAGCATTAAAGTGTTTTGAAGGGATTAGCTCTTAT
1 TTGGTGTGTTTCGGATGGATTAACTCTTACGAGCATTAAAGTGTTTTGAAGGGATTAGCTCTTAC
* *
61719222 TAGCA
66 GAGAA
*
61719227 TTGGTGTGTTTCAGATGGATT
1 TTGGTGTGTTTCGGATGGATT
61719248 GGCTTTTCTA
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
70 68 0.87
71 3 0.04
72 7 0.09
ACGTcount: A:0.20, C:0.11, G:0.29, T:0.40
Consensus pattern (70 bp):
TTGGTGTGTTTCGGATGGATTAACTCTTACGAGCATTAAAGTGTTTTGAAGGGATTAGCTCTTAC
GAGAA
Found at i:61722474 original size:58 final size:58
Alignment explanation
Indices: 61722384--61722500 Score: 234
Period size: 58 Copynumber: 2.0 Consensus size: 58
61722374 AGAAGCCATA
61722384 TTCGTTTCTTCTTCAAGCTCAATCGGCTTTCCATGTGAGTAATTCTTCAATCCATTTT
1 TTCGTTTCTTCTTCAAGCTCAATCGGCTTTCCATGTGAGTAATTCTTCAATCCATTTT
61722442 TTCGTTTCTTCTTCAAGCTCAATCGGCTTTCCATGTGAGTAATTCTTCAATCCATTTT
1 TTCGTTTCTTCTTCAAGCTCAATCGGCTTTCCATGTGAGTAATTCTTCAATCCATTTT
61722500 T
1 T
61722501 AGTAATTTTT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.19, C:0.24, G:0.12, T:0.45
Consensus pattern (58 bp):
TTCGTTTCTTCTTCAAGCTCAATCGGCTTTCCATGTGAGTAATTCTTCAATCCATTTT
Found at i:61730284 original size:6 final size:7
Alignment explanation
Indices: 61730267--61730298 Score: 50
Period size: 6 Copynumber: 4.9 Consensus size: 7
61730257 TCTATTTACA
61730267 GAAAAAT
1 GAAAAAT
61730274 GAAAAAT
1 GAAAAAT
61730281 -AAAAAT
1 GAAAAAT
61730287 G-AAAAT
1 GAAAAAT
61730293 GAAAAA
1 GAAAAA
61730299 ATCGCCCCCG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
6 12 0.52
7 11 0.48
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (7 bp):
GAAAAAT
Found at i:61730297 original size:13 final size:14
Alignment explanation
Indices: 61730267--61730298 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
61730257 TCTATTTACA
61730267 GAAAAATGAAAAAT
1 GAAAAATGAAAAAT
61730281 -AAAAATG-AAAAT
1 GAAAAATGAAAAAT
61730293 GAAAAA
1 GAAAAA
61730299 ATCGCCCCCG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (14 bp):
GAAAAATGAAAAAT
Found at i:61732113 original size:18 final size:19
Alignment explanation
Indices: 61732090--61732126 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
61732080 AAACATATCA
61732090 GATTAA-AACTATT-TAATT
1 GATTAATAA-TATTATAATT
61732108 GATTAATAATATTATAATT
1 GATTAATAATATTATAATT
61732127 TTAGCAACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (19 bp):
GATTAATAATATTATAATT
Found at i:61735746 original size:45 final size:45
Alignment explanation
Indices: 61735697--61735874 Score: 171
Period size: 45 Copynumber: 4.0 Consensus size: 45
61735687 AATACCACCC
*
61735697 TTATAGTCAATAGTA-CTCGGTGAAATCAGCACATAGCAACCACTT
1 TTATAATCAATAGTATC-CGGTGAAATCAGCACATAGCAACCACTT
* * *
61735742 TTATACTCAATAGTA-CCGGGTGAATTCAGCACATAGCAATCACTT
1 TTATAATCAATAGTATCC-GGTGAAATCAGCACATAGCAACCACTT
* * * * * * *
61735787 ATATAACCATTGGCATCCGGTGAAATCAGCACATAGCAATCACCT
1 TTATAATCAATAGTATCCGGTGAAATCAGCACATAGCAACCACTT
** * * * *
61735832 TTATTTTCATTAATATCCGGTGGAATCAGCACATAGCATCCAC
1 TTATAATCAATAGTATCCGGTGAAATCAGCACATAGCAACCAC
61735875 CTATATTTCC
Statistics
Matches: 110, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
44 1 0.01
45 107 0.97
46 2 0.02
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.28
Consensus pattern (45 bp):
TTATAATCAATAGTATCCGGTGAAATCAGCACATAGCAACCACTT
Found at i:61735880 original size:90 final size:90
Alignment explanation
Indices: 61735714--61735880 Score: 223
Period size: 90 Copynumber: 1.9 Consensus size: 90
61735704 CAATAGTACT
* *
61735714 CGGTGAAATCAGCACATAGCAACCACTTTTATACTCAATAGTACCGGGTGAATTCAGCACATAGC
1 CGGTGAAATCAGCACATAGCAACCACCTTTATACTCAATAATACCGGGTGAATTCAGCACATAGC
*
61735779 AATCACTTATATAACCATTGGCATC
66 AATCACCTATATAACCATTGGCATC
* ** *
61735804 CGGTGAAATCAGCACATAGCAATCACCTTTATTTTCATTAATATCC-GGTGGAA-TCAGCACATA
1 CGGTGAAATCAGCACATAGCAACCACCTTTATACTCAATAATA-CCGGGT-GAATTCAGCACATA
61735867 GC-ATCCACCTATAT
64 GCAAT-CACCTATAT
61735881 TTCCAACGAT
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
89 2 0.03
90 60 0.90
91 5 0.07
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.27
Consensus pattern (90 bp):
CGGTGAAATCAGCACATAGCAACCACCTTTATACTCAATAATACCGGGTGAATTCAGCACATAGC
AATCACCTATATAACCATTGGCATC
Found at i:61735893 original size:45 final size:45
Alignment explanation
Indices: 61735714--61735895 Score: 127
Period size: 45 Copynumber: 4.0 Consensus size: 45
61735704 CAATAGTACT
* * * * * *
61735714 CGGTGAAATCAGCACATAGCAACCACTTTTA-TACTCAATAGTA-C
1 CGGTGAAATCAGCACATAGCAATCACCTATATTTC-CAACAATATC
* * ** *****
61735758 CGGGTGAATTCAGCACATAGCAATCACTTATATAACCATTGGCATC
1 C-GGTGAAATCAGCACATAGCAATCACCTATATTTCCAACAATATC
* * **
61735804 CGGTGAAATCAGCACATAGCAATCACCTTTATTTTCATTAATATC
1 CGGTGAAATCAGCACATAGCAATCACCTATATTTCCAACAATATC
* *
61735849 CGGTGGAATCAGCACATAGC-ATCCACCTATATTTCCAACGATATC
1 CGGTGAAATCAGCACATAGCAAT-CACCTATATTTCCAACAATATC
61735894 CG
1 CG
61735896 ATCCATTCCA
Statistics
Matches: 112, Mismatches: 22, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
44 3 0.03
45 105 0.94
46 4 0.04
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (45 bp):
CGGTGAAATCAGCACATAGCAATCACCTATATTTCCAACAATATC
Found at i:61736334 original size:48 final size:50
Alignment explanation
Indices: 61736258--61736440 Score: 162
Period size: 50 Copynumber: 3.7 Consensus size: 50
61736248 CCGAGTAGGA
* * * *
61736258 TGCCAATGCCATATCCCAGATATGGTCTTACA-TGGGA-TC-AC-ATATCGG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACT--GACTCTACTATATCCG
* * *
61736306 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCCTCTGTCCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTACTATATCCG
* *** *
61736356 TGCCGATGCCATGTCCTAGACATGGTCTTACACTAGCACT-T-CTCGGTCTG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACTCTACTATATCCG
* *
61736406 CGCCAATGCCATGTCCCAGACATGGTCTTACACTG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTG
61736441 GCACACTCGC
Statistics
Matches: 116, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
47 2 0.02
48 31 0.27
49 3 0.03
50 75 0.65
51 2 0.02
52 3 0.03
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTACTATATCCG
Found at i:61736377 original size:50 final size:49
Alignment explanation
Indices: 61736305--61736440 Score: 193
Period size: 50 Copynumber: 2.7 Consensus size: 49
61736295 TCACATATCG
*
61736305 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTG-ACTCTCCTCTGTCC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGCACT-T-CTCGGTCC
* *
61736355 GTGCCGATGCCATGTCCTAGACATGGTCTTACACTAGCACTTCTCGGTCT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACT-GCACTTCTCGGTCC
* *
61736405 GCGCCAATGCCATGTCCCAGACATGGTCTTACACTG
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTG
61736441 GCACACTCGC
Statistics
Matches: 78, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
49 1 0.01
50 72 0.92
51 2 0.03
52 3 0.04
ACGTcount: A:0.18, C:0.33, G:0.21, T:0.27
Consensus pattern (49 bp):
GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGCACTTCTCGGTCC
Found at i:61736468 original size:50 final size:47
Alignment explanation
Indices: 61736314--61736468 Score: 120
Period size: 50 Copynumber: 3.1 Consensus size: 47
61736304 GGTGCCGATG
* *
61736314 CCATGTCCCAGACATGGTCTTACACTG-ACTCTCCTCTGTCC-GTGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTGCACTCT-CGCTG-CCTG-GCC-A-A
* *
61736364 CCATGTCCTAGACATGGTCTTACACTAGCACTTCTCG--GTCTGCGCCAA
1 CCATGTCCCAGACATGGTCTTACACT-GCAC-TCTCGCTGCCTG-GCCAA
*
61736412 TGCCATGTCCCAGACATGGTCTTACACTGGCACACTCGCTGCCATGGTCCAA
1 --CCATGTCCCAGACATGGTCTTACACT-GCACTCTCGCTGCC-TGG-CCAA
61736464 CCATG
1 CCATG
61736469 GTCTTTTCTG
Statistics
Matches: 86, Mismatches: 9, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
49 6 0.07
50 64 0.74
51 4 0.05
52 9 0.10
53 3 0.03
ACGTcount: A:0.19, C:0.35, G:0.20, T:0.26
Consensus pattern (47 bp):
CCATGTCCCAGACATGGTCTTACACTGCACTCTCGCTGCCTGGCCAA
Found at i:61738834 original size:29 final size:30
Alignment explanation
Indices: 61738775--61738832 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
61738765 TCCGAGCCTT
*
61738775 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
61738805 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
61738833 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:61739062 original size:13 final size:13
Alignment explanation
Indices: 61739044--61739075 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
61739034 TTTCCAGAAA
61739044 TTATGAATTTATT
1 TTATGAATTTATT
61739057 TTATGAATTTATT
1 TTATGAATTTATT
*
61739070 TGATGA
1 TTATGA
61739076 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:61739283 original size:50 final size:50
Alignment explanation
Indices: 61739170--61739411 Score: 290
Period size: 50 Copynumber: 4.7 Consensus size: 50
61739160 ATTTGGGTAA
* * *
61739170 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
61739226 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
61739276 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* *
61739326 AGAGGTCTCC-TATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTC-CCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
61739376 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
61739412 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 16, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:61739363 original size:100 final size:103
Alignment explanation
Indices: 61739170--61739419 Score: 355
Period size: 100 Copynumber: 2.4 Consensus size: 103
61739160 ATTTGGGTAA
61739170 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
61739235 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * * *
61739276 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCTCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
61739338 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
61739376 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
61739420 GTTATTATCA
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 39 0.30
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:61743249 original size:50 final size:50
Alignment explanation
Indices: 61743125--61743373 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
61743115 GATAATAACA
* * ** * *
61743125 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
61743176 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
61743226 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
61743276 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
61743331 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
61743374 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:61743303 original size:100 final size:104
Alignment explanation
Indices: 61743124--61743373 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
61743114 TGATAATAAC
**
61743124 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
61743189 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
61743226 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
61743289 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
61743331 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
61743374 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:61743489 original size:13 final size:13
Alignment explanation
Indices: 61743468--61743499 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
61743458 GCTTGGATCA
*
61743468 TCATCAAATAAAT
1 TCATAAAATAAAT
61743481 TCATAAAATAAAT
1 TCATAAAATAAAT
61743494 TCATAA
1 TCATAA
61743500 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:61743746 original size:30 final size:30
Alignment explanation
Indices: 61743711--61743768 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
61743701 CCTCGACTCT
*
61743711 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
61743741 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
61743769 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:61748502 original size:29 final size:30
Alignment explanation
Indices: 61748443--61748500 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
61748433 TCCGAGCCTT
*
61748443 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
61748473 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
61748501 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:61748730 original size:13 final size:13
Alignment explanation
Indices: 61748712--61748743 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
61748702 TTTCCAGCAA
61748712 TTATGAATTTATT
1 TTATGAATTTATT
61748725 TTATGAATTTATT
1 TTATGAATTTATT
*
61748738 TGATGA
1 TTATGA
61748744 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:61748951 original size:50 final size:50
Alignment explanation
Indices: 61748838--61749078 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
61748828 ATTTGGGTAA
* * *
61748838 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
61748894 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
61748944 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* *
61748994 AGAGGTCCC-TATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
61749043 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
61749079 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 16, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
48 1 0.01
49 35 0.21
50 61 0.37
51 24 0.14
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Done.