Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 158 of 199
Found at i:52160247 original size:40 final size:40
Alignment explanation
Indices: 52160191--52160895 Score: 1178
Period size: 40 Copynumber: 17.6 Consensus size: 40
52160181 CATTTGAATG
52160191 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
52160231 ATATCCGGGTTTAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
52160271 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
52160311 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
52160351 ATATCCGGGTTTAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
52160391 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
52160431 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
52160471 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
52160511 ATATCCGGGCTAAGACCCGATGGCGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
52160551 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
52160591 ACATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
52160631 AGATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
52160671 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
52160711 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
52160751 ATATCCGGGCTAAGACCCGATGGCGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
52160791 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGAT
* * *
52160831 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
52160871 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
52160896 ATTGAGCTTG
Statistics
Matches: 629, Mismatches: 34, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
39 2 0.00
40 626 1.00
41 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:52172861 original size:19 final size:21
Alignment explanation
Indices: 52172822--52172867 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
52172812 ATCTCTTCAT
52172822 ATAA-ATATCATATATCATAC
1 ATAATATATCATATATCATAC
*
52172842 ATTATATATC-TATATC-TAC
1 ATAATATATCATATATCATAC
52172861 ATAATAT
1 ATAATAT
52172868 GTATTATAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 9 0.39
20 9 0.39
21 5 0.22
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (21 bp):
ATAATATATCATATATCATAC
Found at i:52173502 original size:16 final size:18
Alignment explanation
Indices: 52173481--52173518 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
52173471 TTTAAATTGC
52173481 ATATTTAA-AAGAATA-A
1 ATATTTAACAAGAATAGA
*
52173497 ATATTTAACAATAATAGA
1 ATATTTAACAAGAATAGA
52173515 ATAT
1 ATAT
52173519 AAAAAGAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (18 bp):
ATATTTAACAAGAATAGA
Found at i:52176402 original size:23 final size:23
Alignment explanation
Indices: 52176376--52176445 Score: 70
Period size: 23 Copynumber: 2.9 Consensus size: 23
52176366 TTATGATGAT
*
52176376 AAACTAAAAATAATAATACAAGA
1 AAACTAAAAATAATAATACAAAA
*
52176399 AAAC-ATAAAATAATACATATAAAA
1 AAACTA-AAAATAATA-ATACAAAA
*
52176423 AAACTTTTAAAATAATAATACAA
1 AAAC--TAAAAATAATAATACAA
52176446 CAATAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
22 1 0.03
23 13 0.34
24 10 0.26
25 5 0.13
26 9 0.24
ACGTcount: A:0.67, C:0.09, G:0.01, T:0.23
Consensus pattern (23 bp):
AAACTAAAAATAATAATACAAAA
Found at i:52180704 original size:18 final size:19
Alignment explanation
Indices: 52180659--52180704 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
52180649 TCTTATGCTT
*
52180659 AATTCCAATACGTGTCTTCA
1 AATTCCAA-ACGTGTATTCA
52180679 AATT-CAAACGTG-ATTCA
1 AATTCCAAACGTGTATTCA
*
52180696 TATTCCAAA
1 AATTCCAAA
52180705 GTTATTCTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 7 0.30
18 9 0.39
19 3 0.13
20 4 0.17
ACGTcount: A:0.37, C:0.22, G:0.09, T:0.33
Consensus pattern (19 bp):
AATTCCAAACGTGTATTCA
Found at i:52181711 original size:17 final size:18
Alignment explanation
Indices: 52181676--52181712 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
52181666 GCCCACATTG
*
52181676 CATGCCCGTGTGCGCCCA
1 CATGCCCATGTGCGCCCA
52181694 CATGCCCATGTG-GCCCA
1 CATGCCCATGTGCGCCCA
52181711 CA
1 CA
52181713 CGACCCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.16, C:0.43, G:0.24, T:0.16
Consensus pattern (18 bp):
CATGCCCATGTGCGCCCA
Found at i:52185384 original size:21 final size:22
Alignment explanation
Indices: 52185326--52185410 Score: 86
Period size: 21 Copynumber: 4.0 Consensus size: 22
52185316 CCTGATCAGT
*
52185326 ATACGAAACAT-AAGTGCCTA-
1 ATACGACACATAAAGTGCCTAG
* * ** *
52185346 AAACGAGACACGAGGTGCCT-G
1 ATACGACACATAAAGTGCCTAG
52185367 ATACGACACATAAAGTGCCTGAG
1 ATACGACACATAAAGTGCCT-AG
52185390 ATACGACACATAAAGTGCCTA
1 ATACGACACATAAAGTGCCTA
52185411 ATCGGCAAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
20 8 0.15
21 22 0.42
22 1 0.02
23 21 0.40
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.16
Consensus pattern (22 bp):
ATACGACACATAAAGTGCCTAG
Found at i:52185396 original size:23 final size:23
Alignment explanation
Indices: 52185366--52185409 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
52185356 CGAGGTGCCT
52185366 GATACGACACATAAAGTGCCTGA
1 GATACGACACATAAAGTGCCTGA
52185389 GATACGACACATAAAGTGCCT
1 GATACGACACATAAAGTGCCT
52185410 AATCGGCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.18
Consensus pattern (23 bp):
GATACGACACATAAAGTGCCTGA
Found at i:52189168 original size:18 final size:17
Alignment explanation
Indices: 52189142--52189207 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 17
52189132 AATAAAAATA
*
52189142 AACGTTTTGAAATTGAAT
1 AACGATTTGAAA-TGAAT
52189160 AACGATTTGTAAATGAAT
1 AACGATTTG-AAATGAAT
* *
52189178 AATGTTTTGAAAATGAAT
1 AACGATTTG-AAATGAAT
52189196 GACACGATTTGA
1 -A-ACGATTTGA
52189208 GGTTAAGAGA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
18 28 0.72
19 5 0.13
20 6 0.15
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.35
Consensus pattern (17 bp):
AACGATTTGAAATGAAT
Found at i:52196894 original size:641 final size:641
Alignment explanation
Indices: 52195622--52197092 Score: 1957
Period size: 641 Copynumber: 2.3 Consensus size: 641
52195612 ATTTCAGGAG
* *
52195622 TGAAAGCAAATATGAAAGGTCCCCTCACTCTCGTCGCTTCTAAACTCATATTCAAATTTGATTAC
1 TGAAAGAAAATATGAAAGGTCCCCTCACTCCCGTCGCTTCTAAACTCATATTCAAATTTGATTAC
* * *
52195687 TCATAGTTTTAAAATTATTATTTACAATTATGAACCTTTTTTTTTTGAATTCAAGTTGTCCTCTG
66 TCATAGTTTTAAAATTATTATTTACAATTATGAACCTTTTTTTTTTGAAATCAGGTTGTCCACTG
* * * *
52195752 CTGATAACAATGGCTCTGATTTGACCTCTAACTTGGAAAAATGTGGAAGCAAATATCAATGGATC
131 CTGATAACAATGACTCTGATTTGACCTCCAACTTGGACAAATGTAGAAGCAAATATCAATGGATC
* * *****
52195817 CCTAACTCGTAACGGACAAATGCAAAAGAAAATATGAAACAGTCCCCACTCCCAATGTTGCCTAA
196 CCTAACTCCTAACAGACAAATGCAAAAGAAAATATGAAACAGTCCCCACTCCCAACACCACCTAA
52195882 TATATTCAAATTTGACTACTCACAATATTATTATTCACAATTATCAATATTTTATTGACAAAATC
261 TATATTCAAATTTGACTACTCACAATATTATTATTCACAATTATCAATATTTTATTGACAAAATC
* * * * *
52195947 ATGGTGTTCATTGTCAATTGCAATGTCTACTCCCTTCGTCGCAGACGCTCCTCAAAGAACTAAAC
326 ACGGTGTTCATTGTCAATAGCAATGACTAATCCCTTCGTCACAGACGCTCCTCAAAGAACTAAAC
* * * * *
52196012 AGTGGCCATGGAATGTATTCCATTCCCATGGGTTGGAATCCAACTCCTAAGGTCATAGTTAAGGG
391 AGTGGCCATGGAATGTACTCCATTCCCATGGGTAGGAATCCAACTCCCAACGTCATAATTAAGGG
* * * * *
52196077 ATTAGTTGAGCATGGGCCACATCATTCTTAATAAGAAATTTAAAATGGCATTATTATGATTTTTA
456 ATTAGTTGAGCAAGGGCCACATCATTCTTAATAACAAAGTTAAAATGCCATCATTATGATTTTTA
* * *
52196142 CAAACAAAGAAAAGAACAAGAAAATTATTTATGTTTATAATAAAAATGGAAAATTTTGTATTTAA
521 CAAACAAAGAAAAAAACAAGAAAATTATTTAGGTTCATAATAAAAATGGAAAATTTTGTATTTAA
* * *
52196207 GGAGTAGTTTGATGAAAATGGCTAAACGATATGGGAATTCTCATAAGAGAAGGTCA
586 GGAGTAGTTAGATCAAAATGGCTAAACGATATGGGAATTATCATAAGAGAAGGTCA
52196263 TGAAAGAAAATATGAAAGGTCCCCTCACTCCCGTCGCTTCTAAACTCATATTCAAATTTGATTAC
1 TGAAAGAAAATATGAAAGGTCCCCTCACTCCCGTCGCTTCTAAACTCATATTCAAATTTGATTAC
* * * *
52196328 TCACAGTTTTAAAATTATTATTTACAATTATGAACC-ATTTCTTTT-AAATCAGGTTGTCCGCTG
66 TCATAGTTTTAAAATTATTATTTACAATTATGAACCTTTTTTTTTTGAAATCAGGTTGTCCACTG
*
52196391 CTGATAACAATGACTCTGATTTGAGCTCCAACTTGGACAAATGTAGAAGCAAATATCAATGGATC
131 CTGATAACAATGACTCTGATTTGACCTCCAACTTGGACAAATGTAGAAGCAAATATCAATGGATC
* * * * ** * * **
52196456 CCTTACTCCTAATAGACAAATGTAATAGAAAATATGAAAGGGTCCCTACTGCCAACACCATTTAA
196 CCTAACTCCTAACAGACAAATGCAAAAGAAAATATGAAACAGTCCCCACTCCCAACACCACCTAA
* *
52196521 TATATTCTAATTTGACTACTCACAATATCATTATTATTCACAATTATCAATATTTTATTGAGAAA
261 TATATTCAAATTTGACTACTCAC-A-AT-ATTATTATTCACAATTATCAATATTTTATTGACAAA
** * * *** * *
52196586 ATCACGGTGTTCATTGTCGGTAGTAATGACTAATCCCTTCGTCATAGGTTCTCTTCAAATG-AGT
323 ATCACGGTGTTCATTGTCAATAGCAATGACTAATCCCTTCGTCACAGACGCTCCTCAAA-GAACT
** * *
52196650 AAACCTTGGCCATGGAATGTGCTCCATTCCCATGGGTAGGGATCCAACTCCCAACGTCATAATTA
387 AAACAGTGGCCATGGAATGTACTCCATTCCCATGGGTAGGAATCCAACTCCCAACGTCATAATTA
* * **
52196715 AGGGATTAGTTGAGCAAGGTCCACATCATTCTTAATATCAAAGTTAAAATGCCATCATTATTTTT
452 AGGGATTAGTTGAGCAAGGGCCACATCATTCTTAATAACAAAGTTAAAATGCCATCATTATGATT
* ** * * * * *
52196780 TTTAGAAACATTGAAAAAAATAGGAAAACTT-TTT-GGTTCATAATAGAAATGGGAAATTTTTTA
517 TTTACAAACAAAGAAAAAAACAAGAAAA-TTATTTAGGTTCATAATAAAAATGGAAAATTTTGTA
**
52196843 TTTAAGGAGTAGTTAGATCAAAATGGCTAAACGATATGGGAATTATCATAAGAGAAGGTTG
581 TTTAAGGAGTAGTTAGATCAAAATGGCTAAACGATATGGGAATTATCATAAGAGAAGGTCA
* * * * *
52196904 TGAAAGGAAATATGAAAGGTCCCCTCACTCCTGTCGCTGCCAAACTCGTATTCAAATATT-ATTA
1 TGAAAGAAAATATGAAAGGTCCCCTCACTCCCGTCGCTTCTAAACTCATATTCAAAT-TTGATTA
* ** * * *
52196968 CTCATAGTATTACTATTATT-TATTACAATTATCAACCTTTTTTTTTGTTGAAATTAGGGTGTCC
65 CTCATAGTTTTAAAATTATTAT-TTACAATTATGAACC-TTTTTTTT-TTGAAATCAGGTTGTCC
* * *
52197032 ACTTCTGATAACAATGACTCTGATTTGATCTCCAACTTGGACAAATGTAGAAGTAAATATC
127 ACTGCTGATAACAATGACTCTGATTTGACCTCCAACTTGGACAAATGTAGAAGCAAATATC
52197093 TAAAATTGAA
Statistics
Matches: 721, Mismatches: 98, Indels: 18
0.86 0.12 0.02
Matches are distributed among these distances:
639 145 0.20
640 9 0.01
641 266 0.37
642 222 0.31
643 8 0.01
644 2 0.00
645 69 0.10
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (641 bp):
TGAAAGAAAATATGAAAGGTCCCCTCACTCCCGTCGCTTCTAAACTCATATTCAAATTTGATTAC
TCATAGTTTTAAAATTATTATTTACAATTATGAACCTTTTTTTTTTGAAATCAGGTTGTCCACTG
CTGATAACAATGACTCTGATTTGACCTCCAACTTGGACAAATGTAGAAGCAAATATCAATGGATC
CCTAACTCCTAACAGACAAATGCAAAAGAAAATATGAAACAGTCCCCACTCCCAACACCACCTAA
TATATTCAAATTTGACTACTCACAATATTATTATTCACAATTATCAATATTTTATTGACAAAATC
ACGGTGTTCATTGTCAATAGCAATGACTAATCCCTTCGTCACAGACGCTCCTCAAAGAACTAAAC
AGTGGCCATGGAATGTACTCCATTCCCATGGGTAGGAATCCAACTCCCAACGTCATAATTAAGGG
ATTAGTTGAGCAAGGGCCACATCATTCTTAATAACAAAGTTAAAATGCCATCATTATGATTTTTA
CAAACAAAGAAAAAAACAAGAAAATTATTTAGGTTCATAATAAAAATGGAAAATTTTGTATTTAA
GGAGTAGTTAGATCAAAATGGCTAAACGATATGGGAATTATCATAAGAGAAGGTCA
Found at i:52203988 original size:25 final size:25
Alignment explanation
Indices: 52203960--52204014 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
52203950 CACTGATTTT
*
52203960 AGCTCATATGAGCTTACCAATACTC
1 AGCTCACATGAGCTTACCAATACTC
* * *
52203985 AGCTCGCATGAGCTTACCATTATTC
1 AGCTCACATGAGCTTACCAATACTC
52204010 AGCTC
1 AGCTC
52204015 GGAGGAGCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (25 bp):
AGCTCACATGAGCTTACCAATACTC
Found at i:52204015 original size:25 final size:25
Alignment explanation
Indices: 52203967--52204024 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
52203957 TTTAGCTCAT
52203967 ATGAGCTTACCAATACTCAGCTCGC
1 ATGAGCTTACCAATACTCAGCTCGC
* * *
52203992 ATGAGCTTACCATTATTCAGCTCGG
1 ATGAGCTTACCAATACTCAGCTCGC
*
52204017 AGGAGCTT
1 ATGAGCTT
52204025 TCCGTTTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.28
Consensus pattern (25 bp):
ATGAGCTTACCAATACTCAGCTCGC
Found at i:52206458 original size:44 final size:43
Alignment explanation
Indices: 52206380--52206463 Score: 105
Period size: 44 Copynumber: 1.9 Consensus size: 43
52206370 ACCTCTAACT
* * *
52206380 TGGACAAATGTAGAAGAAAATATCAATGGATCCCCTACTCCTAA
1 TGGAAAAATGTAAAAGAAAATATCAAAGGATCCCC-ACTCCTAA
* * *
52206424 TGGAAAAATGTAAAAGCAAATATGAAAGGGTCCCCACTCC
1 TGGAAAAATGTAAAAGAAAATATCAAAGGATCCCCACTCC
52206464 CAACGCCACT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
43 5 0.15
44 29 0.85
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.20
Consensus pattern (43 bp):
TGGAAAAATGTAAAAGAAAATATCAAAGGATCCCCACTCCTAA
Found at i:52209505 original size:3 final size:3
Alignment explanation
Indices: 52209497--52209521 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
52209487 ACTACTCACA
52209497 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
52209522 CACAATTATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:52211471 original size:16 final size:14
Alignment explanation
Indices: 52211446--52211489 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
52211436 AATTTACTAC
52211446 AAATATTTATTCTT
1 AAATATTTATTCTT
* *
52211460 ATATTCATTTATTGTT
1 A-AAT-ATTTATTCTT
52211476 AAATATTTATTCTT
1 AAATATTTATTCTT
52211490 TTAAATATGC
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
14 10 0.42
15 4 0.17
16 10 0.42
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (14 bp):
AAATATTTATTCTT
Found at i:52219752 original size:13 final size:13
Alignment explanation
Indices: 52219736--52219767 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
52219726 ATATTTGTCC
*
52219736 ACCCAATTTTTTT
1 ACCCAATTTTTGT
52219749 ACCCAATTTTTGT
1 ACCCAATTTTTGT
52219762 ACCCAA
1 ACCCAA
52219768 AAAATAGTTA
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:0.28, C:0.28, G:0.03, T:0.41
Consensus pattern (13 bp):
ACCCAATTTTTGT
Found at i:52226550 original size:21 final size:22
Alignment explanation
Indices: 52226508--52226560 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 22
52226498 ACCCCACTTT
*
52226508 ACCAGATTTT-TAACCATCAAA
1 ACCATATTTTATAACCATCAAA
*
52226529 ACACTTATTTTATAACC-T-AAA
1 AC-CATATTTTATAACCATCAAA
52226550 ACCATATTTTA
1 ACCATATTTTA
52226561 CCTTTAGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
20 8 0.30
21 7 0.26
22 7 0.26
23 5 0.19
ACGTcount: A:0.42, C:0.21, G:0.02, T:0.36
Consensus pattern (22 bp):
ACCATATTTTATAACCATCAAA
Found at i:52230969 original size:46 final size:46
Alignment explanation
Indices: 52230895--52231037 Score: 198
Period size: 46 Copynumber: 3.1 Consensus size: 46
52230885 TGGACAACAT
52230895 TTATACATCAAATTGGAAAGCATCAATATGCTCAAAATGGAAAGCA
1 TTATACATCAAATTGGAAAGCATCAATATGCTCAAAATGGAAAGCA
* * * * * *
52230941 TTATACATCAAAATGGATAGCTTTAATATGCTCAAATTGGATAGCA
1 TTATACATCAAATTGGAAAGCATCAATATGCTCAAAATGGAAAGCA
* *
52230987 TTATACATCAAATTGGACAGCATCAATATACTCAAAATGGACAA-CA
1 TTATACATCAAATTGGAAAGCATCAATATGCTCAAAATGGA-AAGCA
52231033 TTATA
1 TTATA
52231038 ACATATAAAA
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
46 82 0.99
47 1 0.01
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.28
Consensus pattern (46 bp):
TTATACATCAAATTGGAAAGCATCAATATGCTCAAAATGGAAAGCA
Found at i:52231029 original size:24 final size:24
Alignment explanation
Indices: 52230896--52231027 Score: 107
Period size: 24 Copynumber: 5.7 Consensus size: 24
52230886 GGACAACATT
*
52230896 TATACATCAAATTGGAAAGCATCAA
1 TATACATCAAAATGGAAAGCAT-AA
*
52230921 TATGC-TCAAAATGGAAAGCAT--
1 TATACATCAAAATGGAAAGCATAA
* *
52230942 TATACATCAAAATGGATAGCTTTAA
1 TATACATCAAAATGGAAAGC-ATAA
* * *
52230967 TATGC-TCAAATTGGATAGCAT--
1 TATACATCAAAATGGAAAGCATAA
* *
52230988 TATACATCAAATTGGACAGCATCAA
1 TATACATCAAAATGGAAAGCAT-AA
52231013 TATAC-TCAAAATGGA
1 TATACATCAAAATGGA
52231028 CAACATTATA
Statistics
Matches: 88, Mismatches: 11, Indels: 17
0.76 0.09 0.15
Matches are distributed among these distances:
21 8 0.09
22 28 0.32
23 2 0.02
24 37 0.42
25 13 0.15
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.27
Consensus pattern (24 bp):
TATACATCAAAATGGAAAGCATAA
Found at i:52238840 original size:42 final size:44
Alignment explanation
Indices: 52238775--52238859 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 44
52238765 GCAGGCCACC
52238775 TAAAATATACTATCTAAAGAAGTAA-TTTATT-ATTTAATTTAAT
1 TAAAATATACTATCTAAAGAAGTAATTTTATTAATTT-ATTTAAT
* *
52238818 TAAAATATAGT-TCTAAATAAGTAATTTTATTAATTTATTTAA
1 TAAAATATACTATCTAAAGAAGTAATTTTATTAATTTATTTAA
52238860 ACATAAATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
42 12 0.32
43 22 0.58
44 4 0.11
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.46
Consensus pattern (44 bp):
TAAAATATACTATCTAAAGAAGTAATTTTATTAATTTATTTAAT
Found at i:52239482 original size:8 final size:8
Alignment explanation
Indices: 52239471--52239515 Score: 54
Period size: 8 Copynumber: 5.1 Consensus size: 8
52239461 TATATTTAAA
52239471 TATATTTT
1 TATATTTT
52239479 TATATTTT
1 TATATTTT
52239487 TATATTTTT
1 TATA-TTTT
52239496 TATAAATTTT
1 TAT--ATTTT
52239506 TATATATTT
1 TATAT-TTT
52239515 T
1 T
52239516 TTTTCAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
8 14 0.42
9 11 0.33
10 7 0.21
11 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (8 bp):
TATATTTT
Found at i:52239483 original size:10 final size:10
Alignment explanation
Indices: 52239456--52239516 Score: 74
Period size: 10 Copynumber: 6.4 Consensus size: 10
52239446 GTTTTAGTGA
52239456 TTTTATATAT
1 TTTTATATAT
**
52239466 TTAAATATA-
1 TTTTATATAT
52239475 TTTT-TATAT
1 TTTTATATAT
52239484 TTTTATAT-T
1 TTTTATATAT
*
52239493 TTTTATAAAT
1 TTTTATATAT
52239503 TTTTATATAT
1 TTTTATATAT
52239513 TTTT
1 TTTT
52239517 TTTCAAAATA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
8 4 0.10
9 14 0.33
10 24 0.57
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTTATATAT
Found at i:52239588 original size:25 final size:26
Alignment explanation
Indices: 52239534--52239590 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
52239524 ATACTATAAG
* *
52239534 ATTTTTATATATTTGTAATTGTATGC
1 ATTTTTATATATTTATAATTGTATAC
*
52239560 ATTTTTATA-ATTTTATAATT-TATAT
1 ATTTTTATATA-TTTATAATTGTATAC
52239585 ATTTTT
1 ATTTTT
52239591 TAAAATATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 10 0.37
26 17 0.63
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (26 bp):
ATTTTTATATATTTATAATTGTATAC
Found at i:52240512 original size:31 final size:31
Alignment explanation
Indices: 52240453--52240542 Score: 114
Period size: 31 Copynumber: 2.9 Consensus size: 31
52240443 TATGTGATAG
* * *
52240453 TACAGGGTTTGAATATG-AAATATTAATGA-
1 TACATGGTATGAATATGAAAATATGAATGAT
52240482 TA-ATAGGATATGAATATGAAAATATGAATGAT
1 TACAT-GG-TATGAATATGAAAATATGAATGAT
52240514 TACATGGTATGAATATGAAAATATGAATG
1 TACATGGTATGAATATGAAAATATGAATG
52240543 GTTGATACCA
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
28 1 0.02
29 4 0.08
30 9 0.17
31 33 0.62
32 4 0.08
33 2 0.04
ACGTcount: A:0.46, C:0.02, G:0.20, T:0.32
Consensus pattern (31 bp):
TACATGGTATGAATATGAAAATATGAATGAT
Found at i:52244323 original size:23 final size:23
Alignment explanation
Indices: 52244293--52244342 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
52244283 TACATACGTA
*
52244293 ATCAGGAAGCTCACAAAGAGCCT
1 ATCAGGAAGCTCACAAAAAGCCT
*
52244316 ATCAGGAAGCTCACAAAAAGCTT
1 ATCAGGAAGCTCACAAAAAGCCT
52244339 ATCA
1 ATCA
52244343 TCCATTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.42, C:0.24, G:0.18, T:0.16
Consensus pattern (23 bp):
ATCAGGAAGCTCACAAAAAGCCT
Found at i:52244493 original size:26 final size:26
Alignment explanation
Indices: 52244461--52244525 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
52244451 ATGAGAGCAA
* *
52244461 TAATCAGGAAGTTCAC-AATGAACTTT
1 TAATCAGGAAGCTCACGAA-GAACCTT
*
52244487 TAATCAGGAAGCTCACGAAGAGCCTT
1 TAATCAGGAAGCTCACGAAGAACCTT
52244513 TAATCAGG-AGCTC
1 TAATCAGGAAGCTC
52244526 CGGATAGCCA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
25 5 0.14
26 28 0.80
27 2 0.06
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (26 bp):
TAATCAGGAAGCTCACGAAGAACCTT
Found at i:52246992 original size:64 final size:65
Alignment explanation
Indices: 52246867--52247040 Score: 200
Period size: 64 Copynumber: 2.8 Consensus size: 65
52246857 CAAACAAAAC
* *
52246867 ATTCGAACCACATATGTAT---AATTTACA-ACATTAAATTTCAGCTCAAAGAATTTGTAACCTA
1 ATTCGAACCACATATGTATAGAAAATT-CATACATTAAATTCCAGCTCAAAGAATTTGTAACCTA
52246928 T
65 T
* *
52246929 ATTCGAACCTCATATGTATGGAAAATTCATACATTAAATTCCA-CTCAAA-AATTTTGTAACCTA
1 ATTCGAACCACATATGTATAGAAAATTCATACATTAAATTCCAGCTCAAAGAA-TTTGTAACCTA
52246992 T
65 T
* * * * *
52246993 ATTTGAACCACATATGTATATATAATTCATACATTGAA-TACAGCTCAA
1 ATTCGAACCACATATGTATAGAAAATTCATACATTAAATTCCAGCTCAA
52247041 GAACTTTAAA
Statistics
Matches: 96, Mismatches: 10, Indels: 10
0.83 0.09 0.09
Matches are distributed among these distances:
62 18 0.19
63 5 0.05
64 57 0.59
65 16 0.17
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.34
Consensus pattern (65 bp):
ATTCGAACCACATATGTATAGAAAATTCATACATTAAATTCCAGCTCAAAGAATTTGTAACCTAT
Found at i:52247160 original size:21 final size:22
Alignment explanation
Indices: 52247119--52247161 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
52247109 TCAAAGAACT
52247119 TATATCATACATTCAAACTTTA
1 TATATCATACATTCAAACTTTA
52247141 TATAT-ATA-ATTCACAACTTTA
1 TATATCATACATTCA-AACTTTA
52247162 AATTCAACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.25
21 10 0.50
22 5 0.25
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (22 bp):
TATATCATACATTCAAACTTTA
Found at i:52254858 original size:63 final size:64
Alignment explanation
Indices: 52254746--52254890 Score: 188
Period size: 63 Copynumber: 2.3 Consensus size: 64
52254736 ATAATTTACA
* * * * *
52254746 ACATTAAATTTCAGCTCAAAGAATTTGTAACCTTTATTCGAACCTCATATGTATGTAAAATTCAT
1 ACATTAAATTCCAGCTCAAAGAATTTGTAACCTATATTCGAAACACATATGTATAT-AAATTCAT
* *
52254811 ACATTAAATTCCA-CTCAAA-ACTTTGTAACCTATATTTGAAACACATATGTATATAAATTCAT
1 ACATTAAATTCCAGCTCAAAGAATTTGTAACCTATATTCGAAACACATATGTATATAAATTCAT
*
52254873 ACATTAAA-TACAGCTCAA
1 ACATTAAATTCCAGCTCAA
52254891 GAACTTTAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
61 3 0.04
62 21 0.30
63 29 0.41
64 6 0.08
65 12 0.17
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.34
Consensus pattern (64 bp):
ACATTAAATTCCAGCTCAAAGAATTTGTAACCTATATTCGAAACACATATGTATATAAATTCAT
Found at i:52254896 original size:63 final size:64
Alignment explanation
Indices: 52254719--52254897 Score: 210
Period size: 62 Copynumber: 2.9 Consensus size: 64
52254709 GCAAACAAAC
* * *
52254719 ATTTGAACCACATATG--TATAATTTACA-ACATTAAATTTCAGCTCAAAGAA-TTTGTAACCTT
1 ATTTGAACCACATATGTATATAAATT-CATACATTAAATTACAGCTC-AAGAACTTTGTAACCTA
52254780 T
64 T
* * * *
52254781 ATTCGAACCTCATATGTATGTAAAATTCATACATTAAATTCCA-CTCAA-AACTTTGTAACCTAT
1 ATTTGAACCACATATGTATAT-AAATTCATACATTAAATTACAGCTCAAGAACTTTGTAACCTAT
*
52254844 ATTTGAAACACATATGTATATAAATTCATACATTAAA-TACAGCTCAAGAACTTT
1 ATTTGAACCACATATGTATATAAATTCATACATTAAATTACAGCTCAAGAACTTT
52254898 AAATATATAT
Statistics
Matches: 99, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
61 3 0.03
62 37 0.37
63 36 0.36
64 7 0.07
65 16 0.16
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.35
Consensus pattern (64 bp):
ATTTGAACCACATATGTATATAAATTCATACATTAAATTACAGCTCAAGAACTTTGTAACCTAT
Found at i:52254927 original size:62 final size:62
Alignment explanation
Indices: 52254746--52254920 Score: 160
Period size: 63 Copynumber: 2.8 Consensus size: 62
52254736 ATAATTTACA
* * * * * * * *
52254746 ACATTAAATTTCAGCTCAAAGAATTTGTAACCTTTATTCGAACCTCATATGTATGTAAAATTCAT
1 ACATTAAATTACA-CTCAAA-ACTTTGAAACATATATTCGAAACACATATGTATAT-AAATTCAT
* * * *
52254811 ACATTAAATTCCACTCAAAACTTTGTAACCTATATTTGAAACACATATGTATATAAATTCAT
1 ACATTAAATTACACTCAAAACTTTGAAACATATATTCGAAACACATATGTATATAAATTCAT
*
52254873 ACATTAAA-TACAGCTCAAGAACTTT-AAATATATATTCG-AAC-CATATGT
1 ACATTAAATTACA-CTCAA-AACTTTGAAACATATATTCGAAACACATATGT
52254921 GCATATATAT
Statistics
Matches: 96, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
60 7 0.07
61 6 0.06
62 30 0.31
63 35 0.36
64 6 0.06
65 12 0.12
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.35
Consensus pattern (62 bp):
ACATTAAATTACACTCAAAACTTTGAAACATATATTCGAAACACATATGTATATAAATTCAT
Found at i:52255008 original size:21 final size:22
Alignment explanation
Indices: 52254967--52255009 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
52254957 TCAAAGAACT
52254967 TATATCATACATTCAAACTTTA
1 TATATCATACATTCAAACTTTA
52254989 TATAT-ATA-ATTCACAACTTTA
1 TATATCATACATTCA-AACTTTA
52255010 AATTCAACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.25
21 10 0.50
22 5 0.25
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (22 bp):
TATATCATACATTCAAACTTTA
Found at i:52255618 original size:28 final size:28
Alignment explanation
Indices: 52255587--52255640 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
52255577 CATGCATTTC
* *
52255587 ATTTA-TTTCATATTTTAGTCCCTAAAAA
1 ATTTATTTTCACAATTTAG-CCCTAAAAA
52255615 ATTTATTTTCACAATTTAGCCCTAAA
1 ATTTATTTTCACAATTTAGCCCTAAA
52255641 TACTCAAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 12 0.52
29 11 0.48
ACGTcount: A:0.35, C:0.17, G:0.04, T:0.44
Consensus pattern (28 bp):
ATTTATTTTCACAATTTAGCCCTAAAAA
Found at i:52260487 original size:42 final size:44
Alignment explanation
Indices: 52260422--52260506 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 44
52260412 GCAGGCCACC
52260422 TAAAATATACTATCTAAAGAAGTAA-TTTATT-ATTTAATTTAAT
1 TAAAATATACTATCTAAAGAAGTAATTTTATTAATTT-ATTTAAT
* *
52260465 TAAAATATAGT-TCTAAATAAGTAATTTTATTAATTTATTTAA
1 TAAAATATACTATCTAAAGAAGTAATTTTATTAATTTATTTAA
52260507 ACATAAATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
42 12 0.32
43 22 0.58
44 4 0.11
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.46
Consensus pattern (44 bp):
TAAAATATACTATCTAAAGAAGTAATTTTATTAATTTATTTAAT
Found at i:52260710 original size:16 final size:15
Alignment explanation
Indices: 52260693--52260738 Score: 60
Period size: 13 Copynumber: 3.1 Consensus size: 15
52260683 AATTGCATAT
52260693 TTTAAAAAATAAATA
1 TTTAAAAAATAAATA
*
52260708 TTTATAATAATAAATA
1 TTTA-AAAAATAAATA
52260724 --TAAAAAATAAATA
1 TTTAAAAAATAAATA
52260737 TT
1 TT
52260739 GATAGTAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 10 0.38
14 2 0.08
15 4 0.15
16 10 0.38
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TTTAAAAAATAAATA
Found at i:52261127 original size:8 final size:8
Alignment explanation
Indices: 52261116--52261160 Score: 54
Period size: 8 Copynumber: 5.1 Consensus size: 8
52261106 TATATTTAAA
52261116 TATATTTT
1 TATATTTT
52261124 TATATTTT
1 TATATTTT
52261132 TATATTTTT
1 TATA-TTTT
52261141 TATAAATTTT
1 TAT--ATTTT
52261151 TATATATTT
1 TATAT-TTT
52261160 T
1 T
52261161 TTTTCAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
8 14 0.42
9 11 0.33
10 7 0.21
11 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (8 bp):
TATATTTT
Found at i:52261128 original size:10 final size:10
Alignment explanation
Indices: 52261101--52261161 Score: 74
Period size: 10 Copynumber: 6.4 Consensus size: 10
52261091 AGTTTAGTGA
52261101 TTTTATATAT
1 TTTTATATAT
**
52261111 TTAAATATA-
1 TTTTATATAT
52261120 TTTT-TATAT
1 TTTTATATAT
52261129 TTTTATAT-T
1 TTTTATATAT
*
52261138 TTTTATAAAT
1 TTTTATATAT
52261148 TTTTATATAT
1 TTTTATATAT
52261158 TTTT
1 TTTT
52261162 TTTCAAAATA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
8 4 0.10
9 14 0.33
10 24 0.57
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTTATATAT
Found at i:52261233 original size:25 final size:26
Alignment explanation
Indices: 52261179--52261235 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
52261169 ATACTATAAG
* *
52261179 ATTTTTATATATTTGTAATTGTATGC
1 ATTTTTATATATTTATAATTGTATAC
*
52261205 ATTTTTATA-ATTTTATAATT-TATAT
1 ATTTTTATATA-TTTATAATTGTATAC
52261230 ATTTTT
1 ATTTTT
52261236 TAAAATATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 10 0.37
26 17 0.63
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (26 bp):
ATTTTTATATATTTATAATTGTATAC
Found at i:52262162 original size:31 final size:31
Alignment explanation
Indices: 52262103--52262192 Score: 114
Period size: 31 Copynumber: 2.9 Consensus size: 31
52262093 TATGTGATAG
* * *
52262103 TACAGGGTTTGAATATG-AAATATTAATGA-
1 TACATGGTATGAATATGAAAATATGAATGAT
52262132 TA-ATAGGATATGAATATGAAAATATGAATGAT
1 TACAT-GG-TATGAATATGAAAATATGAATGAT
52262164 TACATGGTATGAATATGAAAATATGAATG
1 TACATGGTATGAATATGAAAATATGAATG
52262193 GTTGATACCA
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
28 1 0.02
29 4 0.08
30 9 0.17
31 33 0.62
32 4 0.08
33 2 0.04
ACGTcount: A:0.46, C:0.02, G:0.20, T:0.32
Consensus pattern (31 bp):
TACATGGTATGAATATGAAAATATGAATGAT
Found at i:52264422 original size:29 final size:31
Alignment explanation
Indices: 52264380--52264456 Score: 104
Period size: 29 Copynumber: 2.5 Consensus size: 31
52264370 TTTACCTCAG
* *
52264380 GTTACATTTTAGTCACTTATGTT-TGA-AAT
1 GTTACATTTTAGTCACTTACGTTATCATAAT
*
52264409 GTTACATTTTAGTCACTTACGTTATCATATT
1 GTTACATTTTAGTCACTTACGTTATCATAAT
*
52264440 GTAACATTTTAGTCACT
1 GTTACATTTTAGTCACT
52264457 AAGCTATTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 22 0.52
30 2 0.05
31 18 0.43
ACGTcount: A:0.27, C:0.14, G:0.12, T:0.47
Consensus pattern (31 bp):
GTTACATTTTAGTCACTTACGTTATCATAAT
Found at i:52269524 original size:14 final size:14
Alignment explanation
Indices: 52269507--52269547 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
52269497 TTTTTTATTT
52269507 TAATAATAATAAAA
1 TAATAATAATAAAA
52269521 TAATAATAAT-AAA
1 TAATAATAATAAAA
* *
52269534 TAAGAAAAATAAAA
1 TAATAATAATAAAA
52269548 AACTTAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (14 bp):
TAATAATAATAAAA
Found at i:52269638 original size:57 final size:57
Alignment explanation
Indices: 52269564--52269682 Score: 159
Period size: 57 Copynumber: 2.1 Consensus size: 57
52269554 AAATTTACAT
*
52269564 TTTGACCCCCAACTTTCCTAAAATTATATTTTAACCCCTAA-CTTTTCTAAAATTATA
1 TTTGACCCCCAACTTTCCTAAAATTACATTTTAA-CCCTAATCTTTTCTAAAATTATA
* * * *
52269621 TTTGACCCCTAATTTTCCTAAAATTACATTTTGACCCTAATTTTTTTTCTAAAATTATA
1 TTTGACCCCCAACTTTCCTAAAATTACATTTTAACCCTAA--TCTTTTCTAAAATTATA
52269680 TTT
1 TTT
52269683 TTTCCCTAGA
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
56 6 0.11
57 30 0.56
59 18 0.33
ACGTcount: A:0.31, C:0.21, G:0.03, T:0.45
Consensus pattern (57 bp):
TTTGACCCCCAACTTTCCTAAAATTACATTTTAACCCTAATCTTTTCTAAAATTATA
Found at i:52269665 original size:29 final size:29
Alignment explanation
Indices: 52269552--52269683 Score: 144
Period size: 29 Copynumber: 4.5 Consensus size: 29
52269542 ATAAAAAACT
* * *
52269552 TAAAATTTACATTTTGACCCCCAACTTTCC
1 TAAAA-TTATATTTTGACCCCTAATTTTCC
*
52269582 TAAAATTATATTTTAACCCCTAACTTTT-C
1 TAAAATTATATTTTGACCCCTAA-TTTTCC
52269611 TAAAATTATA-TTTGACCCCTAATTTTCC
1 TAAAATTATATTTTGACCCCTAATTTTCC
* *
52269639 TAAAATTACATTTTGA-CCCTAATTTTTTTTC
1 TAAAATTATATTTTGACCCCTAA---TTTTCC
52269670 TAAAATTATATTTT
1 TAAAATTATATTTT
52269684 TTCCCTAGAA
Statistics
Matches: 88, Mismatches: 8, Indels: 11
0.82 0.07 0.10
Matches are distributed among these distances:
27 4 0.05
28 27 0.31
29 31 0.35
30 8 0.09
31 18 0.20
ACGTcount: A:0.33, C:0.20, G:0.02, T:0.45
Consensus pattern (29 bp):
TAAAATTATATTTTGACCCCTAATTTTCC
Found at i:52270112 original size:25 final size:25
Alignment explanation
Indices: 52270051--52270133 Score: 114
Period size: 25 Copynumber: 3.3 Consensus size: 25
52270041 TCAGGCTTTC
* *
52270051 AAAAGAAAAAGAAAAAGAGAGAAGAG
1 AAAAGAGAAA-AAAAAGAAAGAAGAG
*
52270077 AGAAGAG-AAAAAAAGAAAGAAGAG
1 AAAAGAGAAAAAAAAGAAAGAAGAG
*
52270101 ATAAGAGAAAAAAAAGAAAGAAGAG
1 AAAAGAGAAAAAAAAGAAAGAAGAG
52270126 AAAAGAGA
1 AAAAGAGA
52270134 GGGGAAATGC
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
24 20 0.39
25 26 0.51
26 5 0.10
ACGTcount: A:0.72, C:0.00, G:0.27, T:0.01
Consensus pattern (25 bp):
AAAAGAGAAAAAAAAGAAAGAAGAG
Found at i:52270234 original size:18 final size:17
Alignment explanation
Indices: 52270213--52270272 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 17
52270203 TGAAAAGAAG
52270213 AAGAAAAAAGAAAACAAA
1 AAGAAAAAAGAAAA-AAA
52270231 AAGAAAGAAGAAGGAAAAAAA
1 AAG-AA-AA-AA-GAAAAAAA
*
52270252 AGAGAAGAAAGAAAAAAA
1 A-AGAAAAAAGAAAAAAA
52270270 AAG
1 AAG
52270273 GGGGAAGAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
17 2 0.06
18 12 0.33
19 4 0.11
20 3 0.08
21 8 0.22
22 7 0.19
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (17 bp):
AAGAAAAAAGAAAAAAA
Found at i:52270241 original size:25 final size:24
Alignment explanation
Indices: 52270205--52270272 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 24
52270195 TTAGGGTTTG
52270205 AAAAG-AAGAAGAAAAAAGAAAACA
1 AAAAGAAAGAAGAAAAAAGAAAA-A
*
52270229 AAAAGAAAGAAGAAGGAAAA-AAAAG
1 AAAAGAAAGAAGAA--AAAAGAAAAA
* *
52270254 AGAAGAAAGAAAAAAAAAG
1 AAAAGAAAGAAGAAAAAAG
52270273 GGGGAAGAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
23 4 0.11
24 5 0.14
25 20 0.54
26 4 0.11
27 4 0.11
ACGTcount: A:0.78, C:0.01, G:0.21, T:0.00
Consensus pattern (24 bp):
AAAAGAAAGAAGAAAAAAGAAAAA
Found at i:52270247 original size:22 final size:20
Alignment explanation
Indices: 52270205--52270272 Score: 77
Period size: 19 Copynumber: 3.4 Consensus size: 20
52270195 TTAGGGTTTG
* *
52270205 AAAAGAAGAAGAAAAAAGAA
1 AAAAAAAGAAGAAGAAAGAA
*
52270225 AACAAAAAGAAAGAAG-AAGGA
1 AA-AAAAAG-AAGAAGAAAGAA
52270246 AAAAAAAG-AGAAGAAAGAA
1 AAAAAAAGAAGAAGAAAGAA
52270265 AAAAAAAG
1 AAAAAAAG
52270273 GGGGAAGAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
18 5 0.12
19 12 0.29
20 8 0.20
21 11 0.27
22 5 0.12
ACGTcount: A:0.78, C:0.01, G:0.21, T:0.00
Consensus pattern (20 bp):
AAAAAAAGAAGAAGAAAGAA
Found at i:52270257 original size:15 final size:15
Alignment explanation
Indices: 52270207--52270267 Score: 63
Period size: 15 Copynumber: 3.9 Consensus size: 15
52270197 AGGGTTTGAA
52270207 AAGAAGAAGAAAAAAG
1 AAGAAGAA-AAAAAAG
*
52270223 AA-AACAAAAAGAAAG
1 AAGAAGAAAAA-AAAG
52270238 AAGAAGGAAAAAAAAG
1 AAGAA-GAAAAAAAAG
52270254 -AGAAGAAAGAAAAA
1 AAGAAGAAA-AAAAA
52270268 AAAAGGGGGA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
14 7 0.18
15 19 0.49
16 8 0.21
17 5 0.13
ACGTcount: A:0.77, C:0.02, G:0.21, T:0.00
Consensus pattern (15 bp):
AAGAAGAAAAAAAAG
Found at i:52277316 original size:61 final size:61
Alignment explanation
Indices: 52277130--52277321 Score: 188
Period size: 61 Copynumber: 3.2 Consensus size: 61
52277120 ATGTTGTATT
* * *
52277130 ATTTATATTTTATTACATGAAATAATATAGAAATATTCAAAATATTTCCTTATTTATAAGA
1 ATTTCTATTTTATTACATGAAATAATATAGAAATATTCAAAATATTACCTTATTTAAAAGA
* * * * *
52277191 ATTTCTATTTTATTA-A--AAAT-ATAAAAGTAAAT-TT---TA-ATTACTTTATTCAAAACAA
1 ATTTCTATTTTATTACATGAAATAAT-ATAG-AAATATTCAAAATATTACCTTATTTAAAA-GA
*
52277246 CATTT-TATTTTATTACATGAAATAATATAGAAATATTCAAAATATTGCCTTATTTAAAAGA
1 -ATTTCTATTTTATTACATGAAATAATATAGAAATATTCAAAATATTACCTTATTTAAAAGA
*
52277307 ATTTCTATTTCATTA
1 ATTTCTATTTTATTA
52277322 AAAATATAAA
Statistics
Matches: 102, Mismatches: 15, Indels: 28
0.70 0.10 0.19
Matches are distributed among these distances:
54 12 0.12
55 12 0.12
56 5 0.05
57 6 0.06
58 18 0.18
59 6 0.06
60 5 0.05
61 25 0.25
62 13 0.13
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (61 bp):
ATTTCTATTTTATTACATGAAATAATATAGAAATATTCAAAATATTACCTTATTTAAAAGA
Found at i:52277339 original size:116 final size:117
Alignment explanation
Indices: 52277130--52277340 Score: 388
Period size: 116 Copynumber: 1.8 Consensus size: 117
52277120 ATGTTGTATT
* *
52277130 ATTTATATTTTATTACATGAAATAATATAGAAATATTCAAAATATTTCCTTATTTATAAGAATTT
1 ATTTATATTTTATTACATGAAATAATATAGAAATATTCAAAATATTGCCTTATTTAAAAGAATTT
*
52277195 CTATTTTATTAAAAATATAAAAGTAAATTTTAATTACTTTATTCAAAACAAC
66 CTATTTCATTAAAAATATAAAAGTAAATTTTAATTACTTTATTCAAAACAAC
52277247 ATTT-TATTTTATTACATGAAATAATATAGAAATATTCAAAATATTGCCTTATTTAAAAGAATTT
1 ATTTATATTTTATTACATGAAATAATATAGAAATATTCAAAATATTGCCTTATTTAAAAGAATTT
52277311 CTATTTCATTAAAAATATAAAAGTAAATTT
66 CTATTTCATTAAAAATATAAAAGTAAATTT
52277341 CTATTTTTTA
Statistics
Matches: 91, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
116 87 0.96
117 4 0.04
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.43
Consensus pattern (117 bp):
ATTTATATTTTATTACATGAAATAATATAGAAATATTCAAAATATTGCCTTATTTAAAAGAATTT
CTATTTCATTAAAAATATAAAAGTAAATTTTAATTACTTTATTCAAAACAAC
Found at i:52277341 original size:30 final size:29
Alignment explanation
Indices: 52277300--52277384 Score: 100
Period size: 30 Copynumber: 2.8 Consensus size: 29
52277290 TTGCCTTATT
52277300 TAAAAGAATTTCTATTTCATTAAA-AATA
1 TAAAAGAATTTCTATTTCATTAAATAATA
*
52277328 TAAAAGTAAATTTCTATTTTTTACATGAAATAATA
1 TAAAAG--AATTTCTA---TTT-CATTAAATAATA
52277363 TAAAAGAATTTCTATTTCATTA
1 TAAAAGAATTTCTATTTCATTA
52277385 CATGAAATAA
Statistics
Matches: 48, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
28 6 0.12
29 4 0.08
30 11 0.23
33 11 0.23
34 6 0.12
35 10 0.21
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.42
Consensus pattern (29 bp):
TAAAAGAATTTCTATTTCATTAAATAATA
Found at i:52277391 original size:34 final size:34
Alignment explanation
Indices: 52277300--52277401 Score: 128
Period size: 34 Copynumber: 3.1 Consensus size: 34
52277290 TTGCCTTATT
52277300 TAAAAGAATTTCTATTTCA-T---T-AAA-AATA
1 TAAAAGAATTTCTATTTCATTACATGAAATAATA
*
52277328 TAAAAGTAAATTTCTATTT-TTTACATGAAATAATA
1 TAAAAG--AATTTCTATTTCATTACATGAAATAATA
52277363 TAAAAGAATTTCTATTTCATTACATGAAATAATA
1 TAAAAGAATTTCTATTTCATTACATGAAATAATA
52277397 TAAAA
1 TAAAA
52277402 ATACTCAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 12
0.82 0.03 0.16
Matches are distributed among these distances:
28 6 0.10
30 12 0.19
33 12 0.19
34 23 0.37
35 10 0.16
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.39
Consensus pattern (34 bp):
TAAAAGAATTTCTATTTCATTACATGAAATAATA
Found at i:52277547 original size:21 final size:21
Alignment explanation
Indices: 52277523--52277566 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
52277513 CTAGCTTCTA
* * *
52277523 GCAGGGGTTGTGGTTGCTCCG
1 GCAGGGATTCTGGTTCCTCCG
52277544 GCAGGGATTCTGGTTCCTCCG
1 GCAGGGATTCTGGTTCCTCCG
52277565 GC
1 GC
52277567 CGGTGTTCGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.07, C:0.25, G:0.41, T:0.27
Consensus pattern (21 bp):
GCAGGGATTCTGGTTCCTCCG
Found at i:52279637 original size:18 final size:18
Alignment explanation
Indices: 52279591--52279644 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
52279581 GGAAATTTTG
*
52279591 ATGATTTAAAAAAAATTA
1 ATGATTTTAAAAAAATTA
* **
52279609 AGAGAAATTAAAAAAATTA
1 A-TGATTTTAAAAAAATTA
52279628 ATGATTTTAAAAAAATT
1 ATGATTTTAAAAAAATT
52279645 CAAAAAAATA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
18 14 0.50
19 14 0.50
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.31
Consensus pattern (18 bp):
ATGATTTTAAAAAAATTA
Found at i:52279640 original size:19 final size:18
Alignment explanation
Indices: 52279591--52279644 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
52279581 GGAAATTTTG
52279591 ATGATTTAAAAAAAATTA
1 ATGATTTAAAAAAAATTA
* *
52279609 AGAGAAATT-AAAAAAATTA
1 A-TG-ATTTAAAAAAAATTA
*
52279628 ATGATTTTAAAAAAATT
1 ATGATTTAAAAAAAATT
52279645 CAAAAAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
17 3 0.10
18 11 0.38
19 12 0.41
20 3 0.10
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.31
Consensus pattern (18 bp):
ATGATTTAAAAAAAATTA
Found at i:52284791 original size:8 final size:9
Alignment explanation
Indices: 52284761--52284789 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
52284751 ATTTAGGCCC
52284761 TTTAAAATT
1 TTTAAAATT
52284770 TTTAAAATT
1 TTTAAAATT
52284779 TTTAAAATT
1 TTTAAAATT
52284788 TT
1 TT
52284790 AACCCTCCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
TTTAAAATT
Found at i:52288940 original size:45 final size:44
Alignment explanation
Indices: 52288591--52289885 Score: 612
Period size: 44 Copynumber: 28.8 Consensus size: 44
52288581 TGACTCGTAG
* ** *
52288591 CTTCAATCTACTCTGCTGCAACTTCAGGGAGATAAGATTGGTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAT
*
52288635 CTTCAATCTGCTCCACTGCAACTTC-GGGTAGATAAGGTTTGTCAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGG-AGATAAGATTTGT-AT
* * * * *
52288680 CTTCAGTCTGCTCCACTGTAGCTTTAGGGAGATAAGACTTGTTATGGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA----TT-T-GTAT
* * * * * * **
52288730 ATTTAATCTAAC-CTACTGCAACTTTAGAGG-TATAAGATTCATCAT
1 CTTCAATCT-GCTCCACTGCAACTTCAG-GGAGATAAGATTTGT-AT
* * * * *
52288775 -TTTAATCTGCTCCAATGCAACTTCAGGGAGATAGGATTAGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAT
* *
52288818 CTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTGGTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAT
* ** *
52288862 CTTCAACCTGCTCCACTGCAACTTCAGATAGATAAGGTTTGTCAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT-AT
* * * * * *
52288907 CTTTAGTATGCTCCACTGTAACTTTAGGGAGATAAGACTTGTTATGGT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TA---T
* * * * * *
52288955 ACATTTAATCAGAC-CTACTGCAACTTCAGAGG-TATAGGA-TT-CAT
1 -C-TTCAATCTG-CTCCACTGCAACTTCAG-GGAGATAAGATTTGTAT
* * * * * *
52288999 CATTCTAATCCGCTCCACTACAACTTAAGGGAGATAGGATTAGTAG
1 C-TTC-AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAT
* * * * * *
52289045 CTTCAA--T-CT--ACT-C--CTTTAGGGACATAGGATTAGCAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAT
* *
52289081 CTTCAATCTGCTCCGCTGCAACTTCAGGGAGATATA-ATTGGTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATA-AGATTTGTAT
* * * *
52289125 CTTCAACCTGCTCCAGTGCAACTTCAGGAAGATAAGGTTTGTCAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT-AT
*** *
52289170 CTTTGGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTATGGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA----TT-T-GTAT
* * * * * * **
52289220 ATTTAATCCGAC-CTACTGCAACTTCAGAGG-TATAGGATTCATCAT
1 CTTCAATCTG-CTCCACTGCAACTTCAG-GGAGATAAGATTTGT-AT
* * * * * * *
52289265 -TTTAATCTACTCCACTGCAACTTCAGCGAGATAGGATTAGGAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAT
* * *
52289308 CTTCAATCTGTTCCACTGCAACTTCAGGGAGCTAAGA-TCGATAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAT
* * * *
52289352 CTTCAACCTACTCCACTGCAACTTCAAGGAGATAAGGTTTGTCAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT-AT
* * * * *
52289397 CTTTAGTCTGCTCCACTACAACTTCAGGGATATAAGACTTGTTATGGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA----TT-T-GTAT
* * * * * **
52289447 ATTTAATCTGAC-CTACTGCAACTTCAGAGG-TATAGGATTCATCAT
1 CTTCAATCTG-CTCCACTGCAACTTCAG-GGAGATAAGATTTGT-AT
* * * * * * *
52289492 -TTTAATCCGCTCCATTACAACTTCAGGGAGATAGGATTAGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAT
* *
52289535 CTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTGGTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAT
* * * *
52289579 CTTTAA-CTTGCTCCACTGCAACTTTAGGGAGATAAGGTTTGCCAT
1 CTTCAATC-TGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAT
* * * *
52289624 CTTTAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTTATGGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA----TT-T-GTAT
* * * * * * * *
52289674 ATTTAATATGAC-CTACTACAACTTCAGAGG-TATAGGATTTATTAT
1 CTTCAATCTG-CTCCACTGCAACTTCAG-GGAGATAAGATTT-GTAT
* * * * * *
52289719 -TTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTAGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAT
** * * * *
52289762 CTTCAATCTGCTCTGCTGTAACTTGAGAGAGATAAGATTGGTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAT
* * * *
52289806 CTTCAACCTACTCCACTGTAACTTCAGGGAGATAAGGTTTGTCAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT-AT
* * * *
52289851 CTTTAGTCTACTCCACTGCAACTTCAGGCAGATAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
52289886 TACTTGTTAT
Statistics
Matches: 953, Mismatches: 216, Indels: 163
0.72 0.16 0.12
Matches are distributed among these distances:
36 26 0.03
38 2 0.00
39 5 0.01
41 4 0.00
42 1 0.00
43 30 0.03
44 498 0.52
45 206 0.22
46 15 0.02
47 1 0.00
48 1 0.00
49 11 0.01
50 131 0.14
51 22 0.02
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAT
Found at i:52288988 original size:227 final size:227
Alignment explanation
Indices: 52288569--52289058 Score: 784
Period size: 227 Copynumber: 2.2 Consensus size: 227
52288559 CTACTACGTT
* * * * *
52288569 TTCAGAGAGATATGACTCGTAGCTTCAATCTACTCTGCTGCAACTTCAGGGAGATAAGATTGGTA
1 TTCAGGGAGATAGGATTAGTAGCTTCAATCTACTCCGCTGCAACTTCAGGGAGATAAGATTGGTA
* * * *
52288634 TCTTCAATCTGCTCCACTGCAACTTCGGGTAGATAAGGTTTGTCATCTTCAGTCTGCTCCACTGT
66 TCTTCAACCTGCTCCACTGCAACTTCAGATAGATAAGGTTTGTCATCTTCAGTATGCTCCACTGT
* * *
52288699 AGCTTTAGGGAGATAAGACTTGTTATGGTAGATTTAATCTAACCTACTGCAACTTTAGAGGTATA
131 AACTTTAGGGAGATAAGACTTGTTATGGTACATTTAATCTAACCTACTGCAACTTCAGAGGTATA
* * *
52288764 AGATTCATCATTTTAATCTGCTCCAATGCAAC
196 AGATTCATCATTCTAATCCGCTCCAATACAAC
*
52288796 TTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTGGTA
1 TTCAGGGAGATAGGATTAGTAGCTTCAATCTACTCCGCTGCAACTTCAGGGAGATAAGATTGGTA
*
52288861 TCTTCAACCTGCTCCACTGCAACTTCAGATAGATAAGGTTTGTCATCTTTAGTATGCTCCACTGT
66 TCTTCAACCTGCTCCACTGCAACTTCAGATAGATAAGGTTTGTCATCTTCAGTATGCTCCACTGT
52288926 AACTTTAGGGAGATAAGACTTGTTATGGTACATTTAATC-AGACCTACTGCAACTTCAGAGGTAT
131 AACTTTAGGGAGATAAGACTTGTTATGGTACATTTAATCTA-ACCTACTGCAACTTCAGAGGTAT
* *
52288990 AGGATTCATCATTCTAATCCGCTCCACTACAAC
195 AAGATTCATCATTCTAATCCGCTCCAATACAAC
*
52289023 TTAAGGGAGATAGGATTAGTAGCTTCAATCTACTCC
1 TTCAGGGAGATAGGATTAGTAGCTTCAATCTACTCC
52289059 TTTAGGGACA
Statistics
Matches: 241, Mismatches: 21, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
226 1 0.00
227 240 1.00
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (227 bp):
TTCAGGGAGATAGGATTAGTAGCTTCAATCTACTCCGCTGCAACTTCAGGGAGATAAGATTGGTA
TCTTCAACCTGCTCCACTGCAACTTCAGATAGATAAGGTTTGTCATCTTCAGTATGCTCCACTGT
AACTTTAGGGAGATAAGACTTGTTATGGTACATTTAATCTAACCTACTGCAACTTCAGAGGTATA
AGATTCATCATTCTAATCCGCTCCAATACAAC
Found at i:52289073 original size:36 final size:36
Alignment explanation
Indices: 52289026--52289094 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
52289016 CTACAACTTA
* *
52289026 AGGGAGATAGGATTAGTAGCTTCAATCTACTCCTTT
1 AGGGACATAGGATTAGCAGCTTCAATCTACTCCTTT
*
52289062 AGGGACATAGGATTAGCAGCTTCAATCTGCTCC
1 AGGGACATAGGATTAGCAGCTTCAATCTACTCC
52289095 GCTGCAACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (36 bp):
AGGGACATAGGATTAGCAGCTTCAATCTACTCCTTT
Found at i:52289329 original size:227 final size:227
Alignment explanation
Indices: 52289062--52290068 Score: 1480
Period size: 227 Copynumber: 4.4 Consensus size: 227
52289052 CTACTCCTTT
* *
52289062 AGGGACATAGGATTAGCAGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATATA-ATTGGTATC
1 AGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATA-AGATTGGTATC
* * * *
52289126 TTCAACCTGCTCCAGTGCAACTTCAGGAAGATAAGGTTTGTCATCTTTGGTCTGCTCCACTGCAA
65 TTCAACCTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTCATCTTTAGTCTGCTCCACTGCAA
52289191 CTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCCGACCTACTGCAACTTCAGAGGTATAGG
130 CTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCCGACCTACTGCAACTTCAGAGGTATAGG
* *
52289256 ATTCATCATTTTAATCTACTCCACTGCAACTTC
195 ATTCATCATTTTAATCCACTCCACTACAACTTC
* * * * * * *
52289289 AGCGAGATAGGATTAGGAGCTTCAATCTGTTCCACTGCAACTTCAGGGAGCTAAGATCGATATCT
1 AGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTGGTATCT
* *
52289354 TCAACCTACTCCACTGCAACTTCAAGGAGATAAGGTTTGTCATCTTTAGTCTGCTCCACTACAAC
66 TCAACCTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTCATCTTTAGTCTGCTCCACTGCAAC
* *
52289419 TTCAGGGATATAAGACTTGTTATGGTAGATTTAATCTGACCTACTGCAACTTCAGAGGTATAGGA
131 TTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCCGACCTACTGCAACTTCAGAGGTATAGGA
* *
52289484 TTCATCATTTTAATCCGCTCCATTACAACTTC
196 TTCATCATTTTAATCCACTCCACTACAACTTC
52289516 AGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTGGTATCT
1 AGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTGGTATCT
* * * * *
52289581 TTAACTTGCTCCACTGCAACTTTAGGGAGATAAGGTTTGCCATCTTTAGTCTGCTCCACTGCAAC
66 TCAACCTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTCATCTTTAGTCTGCTCCACTGCAAC
* ** *
52289646 TTTAGGGAGATAAGACTTGTTATGGTAGATTTAATATGACCTACTACAACTTCAGAGGTATAGGA
131 TTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCCGACCTACTGCAACTTCAGAGGTATAGGA
* * *
52289711 TTTATTATTTTAATCCGCTCCACTACAACTTC
196 TTCATCATTTTAATCCACTCCACTACAACTTC
* * * *
52289743 AGGGAGATAGGATTAGTAGCTTCAATCTGCTCTGCTGTAACTTGAGAGAGATAAGATTGGTATCT
1 AGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTGGTATCT
* *
52289808 TCAACCTACTCCACTGTAACTTCAGGGAGATAAGGTTTGTCATCTTTAGTCTACTCCACTGCAAC
66 TCAACCTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTCATCTTTAGTCTGCTCCACTGCAAC
* * * *
52289873 TTCAGGCAGATAATACTTGTTATGGTACATTTAATTCGACCTACTGCAACTTCAGAGGTATAGGA
131 TTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCCGACCTACTGCAACTTCAGAGGTATAGGA
* *
52289938 TTCATCATTTTAATCCACTCCACTGCAGCTTC
196 TTCATCATTTTAATCCACTCCACTACAACTTC
* * * * **
52289970 AGGGTGATAGGATTAGTAGCTTCAATCTACTCTGCTGCAACTTCAGGGAGATAAGGTCTGCAAT-
1 AGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGAT-TGGTATC
* * * *
52290034 TTCAACATGCCCCACTGTAACTTCAGGG-GATAAGG
65 TTCAACCTACTCCACTGCAACTTCAGGGAGATAAGG
52290069 CTGGTGTCTT
Statistics
Matches: 703, Mismatches: 75, Indels: 5
0.90 0.10 0.01
Matches are distributed among these distances:
226 8 0.01
227 691 0.98
228 4 0.01
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (227 bp):
AGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTGGTATCT
TCAACCTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTCATCTTTAGTCTGCTCCACTGCAAC
TTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCCGACCTACTGCAACTTCAGAGGTATAGGA
TTCATCATTTTAATCCACTCCACTACAACTTC
Found at i:52289513 original size:490 final size:490
Alignment explanation
Indices: 52288589--52289548 Score: 1555
Period size: 490 Copynumber: 2.0 Consensus size: 490
52288579 TATGACTCGT
* *
52288589 AGCTTCAATCTACTCTGCTGCAACTTCAGGGAGATAAGATTGGTATCTTCAATCTGCTCCACTGC
1 AGCTTCAATCTACTCCGCTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACCTGCTCCACTGC
* * * * *
52288654 AACTTCGGGTAGATAAGGTTTGTCATCTTCAGTCTGCTCCACTGTAGCTTTAGGGAGATAAGACT
66 AACTTCAGGAAGATAAGGTTTGTCATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
* * *
52288719 TGTTATGGTAGATTTAATCTAACCTACTGCAACTTTAGAGGTATAAGATTCATCATTTTAATCTG
131 TGTTATGGTAGATTTAATCCAACCTACTGCAACTTCAGAGGTATAAGATTCATCATTTTAATCTA
* * *
52288784 CTCCAATGCAACTTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAGGGAG
196 CTCCAATGCAACTTCAGCGAGATAGGATTAGGAGCTTCAATCTGCTCCACTGCAACTTCAGGGAG
* * * *
52288849 ATAAGATTGGTATCTTCAACCTGCTCCACTGCAACTTCAGATAGATAAGGTTTGTCATCTTTAGT
261 ATAAGATCGATATCTTCAACCTACTCCACTGCAACTTCAGAGAGATAAGGTTTGTCATCTTTAGT
** *
52288914 ATGCTCCACTGTAACTTTAGGGAGATAAGACTTGTTATGGTACATTTAATCAGACCTACTGCAAC
326 ATGCTCCACTACAACTTCAGGGAGATAAGACTTGTTATGGTACATTTAATCAGACCTACTGCAAC
52288979 TTCAGAGGTATAGGATTCATCATTCTAATCCGCTCCACTACAACTTAAGGGAGATAGGATTAGTA
391 TTCAGAGGTATAGGATTCATCATTCTAATCCGCTCCACTACAACTTAAGGGAGATAGGATTAGTA
52289044 GCTTCAATCTACTCCTTTAGGGACATAGGATTAGC
456 GCTTCAATCTACTCCTTTAGGGACATAGGATTAGC
* *
52289079 AGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATATA-ATTGGTATCTTCAACCTGCTCCAGTG
1 AGCTTCAATCTACTCCGCTGCAACTTCAGGGAGATA-AGATTGGTATCTTCAACCTGCTCCACTG
**
52289143 CAACTTCAGGAAGATAAGGTTTGTCATCTTTGGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
65 CAACTTCAGGAAGATAAGGTTTGTCATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
* *
52289208 TTGTTATGGTAGATTTAATCCGACCTACTGCAACTTCAGAGGTATAGGATTCATCATTTTAATCT
130 TTGTTATGGTAGATTTAATCCAACCTACTGCAACTTCAGAGGTATAAGATTCATCATTTTAATCT
* *
52289273 ACTCCACTGCAACTTCAGCGAGATAGGATTAGGAGCTTCAATCTGTTCCACTGCAACTTCAGGGA
195 ACTCCAATGCAACTTCAGCGAGATAGGATTAGGAGCTTCAATCTGCTCCACTGCAACTTCAGGGA
*
52289338 GCTAAGATCGATATCTTCAACCTACTCCACTGCAACTTCA-AGGAGATAAGGTTTGTCATCTTTA
260 GATAAGATCGATATCTTCAACCTACTCCACTGCAACTTCAGA-GAGATAAGGTTTGTCATCTTTA
* * * *
52289402 GTCTGCTCCACTACAACTTCAGGGATATAAGACTTGTTATGGTAGATTTAATCTGACCTACTGCA
324 GTATGCTCCACTACAACTTCAGGGAGATAAGACTTGTTATGGTACATTTAATCAGACCTACTGCA
* * *
52289467 ACTTCAGAGGTATAGGATTCATCATTTTAATCCGCTCCATTACAACTTCAGGGAGATAGGATTAG
389 ACTTCAGAGGTATAGGATTCATCATTCTAATCCGCTCCACTACAACTTAAGGGAGATAGGATTAG
*
52289532 TAGCTTCAATCTGCTCC
454 TAGCTTCAATCTACTCC
52289549 GCTGCAACTT
Statistics
Matches: 431, Mismatches: 37, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
489 1 0.00
490 429 1.00
491 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (490 bp):
AGCTTCAATCTACTCCGCTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACCTGCTCCACTGC
AACTTCAGGAAGATAAGGTTTGTCATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
TGTTATGGTAGATTTAATCCAACCTACTGCAACTTCAGAGGTATAAGATTCATCATTTTAATCTA
CTCCAATGCAACTTCAGCGAGATAGGATTAGGAGCTTCAATCTGCTCCACTGCAACTTCAGGGAG
ATAAGATCGATATCTTCAACCTACTCCACTGCAACTTCAGAGAGATAAGGTTTGTCATCTTTAGT
ATGCTCCACTACAACTTCAGGGAGATAAGACTTGTTATGGTACATTTAATCAGACCTACTGCAAC
TTCAGAGGTATAGGATTCATCATTCTAATCCGCTCCACTACAACTTAAGGGAGATAGGATTAGTA
GCTTCAATCTACTCCTTTAGGGACATAGGATTAGC
Found at i:52298685 original size:15 final size:13
Alignment explanation
Indices: 52298654--52298693 Score: 55
Period size: 15 Copynumber: 3.0 Consensus size: 13
52298644 CACCAATTTT
52298654 TTTAAAATAAA-A
1 TTTAAAATAAATA
52298666 TTTAAAATAAATCTA
1 TTTAAAATAAA--TA
52298681 TTTAAAATAAATA
1 TTTAAAATAAATA
52298694 GATTAGTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 11 0.44
13 2 0.08
15 12 0.48
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (13 bp):
TTTAAAATAAATA
Found at i:52300683 original size:3 final size:3
Alignment explanation
Indices: 52300677--52300710 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
52300667 ATAACATTAT
* *
52300677 TAA TAA TAG TAA TAA TAA TAA TAC TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
52300711 GAAAGCAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:52300695 original size:15 final size:15
Alignment explanation
Indices: 52300677--52300732 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
52300667 ATAACATTAT
52300677 TAATAATAGTAATAA
1 TAATAATAGTAATAA
*
52300692 TAATAATACTAATAA
1 TAATAATAGTAATAA
*
52300707 TAATGAA-AGCAATAA
1 TAAT-AATAGTAATAA
* *
52300722 TTATAAGAGTA
1 TAATAATAGTA
52300733 CAAAAATAGC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
14 2 0.06
15 30 0.88
16 2 0.06
ACGTcount: A:0.57, C:0.04, G:0.09, T:0.30
Consensus pattern (15 bp):
TAATAATAGTAATAA
Found at i:52305656 original size:28 final size:27
Alignment explanation
Indices: 52305625--52305679 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
52305615 AATATAAAAG
52305625 TAATATT-ATATTAATTTTTATATTTTTA
1 TAATATTAATATTAA-TTTTA-ATTTTTA
* *
52305653 TAATTTTAATTTTAATTTTAATTTTTA
1 TAATATTAATATTAATTTTAATTTTTA
52305680 AACAATAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 7 0.29
28 11 0.46
29 6 0.25
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (27 bp):
TAATATTAATATTAATTTTAATTTTTA
Found at i:52305664 original size:6 final size:6
Alignment explanation
Indices: 52305653--52305677 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
52305643 TATATTTTTA
52305653 TAATTT TAATTT TAATTT TAATTT T
1 TAATTT TAATTT TAATTT TAATTT T
52305678 TAAACAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TAATTT
Found at i:52307428 original size:20 final size:20
Alignment explanation
Indices: 52307403--52307442 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
52307393 ATCAAGCCTC
*
52307403 TATTTATTTTTTGTAACTTA
1 TATTTATTCTTTGTAACTTA
52307423 TATTTATTCTTTGTAACTTA
1 TATTTATTCTTTGTAACTTA
52307443 AATAGAGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.07, G:0.05, T:0.62
Consensus pattern (20 bp):
TATTTATTCTTTGTAACTTA
Found at i:52322597 original size:26 final size:26
Alignment explanation
Indices: 52322547--52322604 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
52322537 CTGGAGCTCT
* *
52322547 TGATTAAAAGCTCTTCGTGAGCTTCC
1 TGATTAAAAGCTCTTCATGAACTTCC
* *
52322573 TGATTAAAAGTTCTTTATGAACTTCC
1 TGATTAAAAGCTCTTCATGAACTTCC
*
52322599 TAATTA
1 TGATTA
52322605 TTGCTCTTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (26 bp):
TGATTAAAAGCTCTTCATGAACTTCC
Found at i:52322759 original size:23 final size:23
Alignment explanation
Indices: 52322729--52322772 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
52322719 TGGATGAAAA
*
52322729 GCTCTTTGTGAGCTTCTTGATAG
1 GCTCTTTGTGAGCTTCCTGATAG
52322752 GCTCTTTGTGAGCTTCCTGAT
1 GCTCTTTGTGAGCTTCCTGAT
52322773 TACATATGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.11, C:0.20, G:0.25, T:0.43
Consensus pattern (23 bp):
GCTCTTTGTGAGCTTCCTGATAG
Found at i:52323974 original size:26 final size:26
Alignment explanation
Indices: 52323917--52323974 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
52323907 CCAGAGCTTT
* *
52323917 TGATTAAAGGCTCTTCGTGAGCTTCC
1 TGATTAAAAGCTCTTCGTGAACTTCC
* * * *
52323943 TAATTAAAAGTTCTTTGTGAACTTCG
1 TGATTAAAAGCTCTTCGTGAACTTCC
52323969 TGATTA
1 TGATTA
52323975 TTGCTCTTAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.40
Consensus pattern (26 bp):
TGATTAAAAGCTCTTCGTGAACTTCC
Found at i:52324387 original size:12 final size:12
Alignment explanation
Indices: 52324351--52324389 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
52324341 GTTAAATTTC
52324351 TTTTCTTTTCTT
1 TTTTCTTTTCTT
* **
52324363 TTTTCATAACTT
1 TTTTCTTTTCTT
52324375 TTTTCTTTTCTT
1 TTTTCTTTTCTT
52324387 TTT
1 TTT
52324390 GTTCCCTCTG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTCTTTTCTT
Found at i:52332971 original size:21 final size:20
Alignment explanation
Indices: 52332937--52332987 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
52332927 TAAACAGAAA
52332937 AAAACTC-CAAACAAAGTT-C
1 AAAACTCACAAAC-AAGTTAC
52332956 AAAACTCACAACACAAGTTAC
1 AAAACTCACAA-ACAAGTTAC
*
52332977 ACAACTCACAA
1 AAAACTCACAA
52332988 GCAAATGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 7 0.25
20 8 0.29
21 13 0.46
ACGTcount: A:0.53, C:0.29, G:0.04, T:0.14
Consensus pattern (20 bp):
AAAACTCACAAACAAGTTAC
Found at i:52334001 original size:18 final size:19
Alignment explanation
Indices: 52333978--52334018 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
52333968 TTTAAATACA
52333978 TTTATTTTAT-TATATCAT
1 TTTATTTTATCTATATCAT
*
52333996 TTTA-TTTATCTATATCCT
1 TTTATTTTATCTATATCAT
52334014 TTTAT
1 TTTAT
52334019 ATAATTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTATTTTATCTATATCAT
Found at i:52334056 original size:3 final size:3
Alignment explanation
Indices: 52334041--52334090 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
52334031 TTTAAGATTT
* * **
52334041 TTA TTA TTG TTA TTA TTA TTA TTA ATA CCA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
52334089 TT
1 TT
52334091 CTTAAATTGT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:52336599 original size:13 final size:13
Alignment explanation
Indices: 52336567--52336604 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
52336557 CAGTTAATTA
52336567 AATTAT-TTAATTT
1 AATTATATT-ATTT
52336580 AATTTATATTATTT
1 AA-TTATATTATTT
52336594 AATTATATTAT
1 AATTATATTAT
52336605 ACATTTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 11 0.48
14 10 0.43
15 2 0.09
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
AATTATATTATTT
Found at i:52337583 original size:18 final size:18
Alignment explanation
Indices: 52337551--52337589 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
52337541 ACCTTTTATG
* *
52337551 TATCCTCCTCCTCAAATA
1 TATCCTCCACATCAAATA
*
52337569 TATCCTCCACATCAATTA
1 TATCCTCCACATCAAATA
52337587 TAT
1 TAT
52337590 GAAAACCAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.36
Consensus pattern (18 bp):
TATCCTCCACATCAAATA
Found at i:52350578 original size:46 final size:46
Alignment explanation
Indices: 52350510--52350753 Score: 346
Period size: 46 Copynumber: 5.3 Consensus size: 46
52350500 TACCCCATTT
* *
52350510 TGGACAACATTTATACATCAAATTGGACAGCATCAATATGCTCAAAA
1 TGGACAGCA-TTATACATCAAATTGGACAGCATCAATATACTCAAAA
* *
52350557 TGGACAGTATTATACATCAAATTGGAGAGCATCAATATACTCAAAA
1 TGGACAGCATTATACATCAAATTGGACAGCATCAATATACTCAAAA
* * *
52350603 TGGACAGCATTATGCATCAAATTGGACAGCTTTAATATACTCAAAA
1 TGGACAGCATTATACATCAAATTGGACAGCATCAATATACTCAAAA
* ** * *
52350649 TGGACAGCATTATACATCAAAATGGACAGC-TTTATATGCTCAAAT
1 TGGACAGCATTATACATCAAATTGGACAGCATCAATATACTCAAAA
*
52350694 TGGATAGCATTATACATCAAATTGGACAGCATCAATATACTCAAAA
1 TGGACAGCATTATACATCAAATTGGACAGCATCAATATACTCAAAA
*
52350740 TGGACAACATTATA
1 TGGACAGCATTATA
52350754 ACATATAAAA
Statistics
Matches: 174, Mismatches: 22, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
45 40 0.23
46 127 0.73
47 7 0.04
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.27
Consensus pattern (46 bp):
TGGACAGCATTATACATCAAATTGGACAGCATCAATATACTCAAAA
Found at i:52350582 original size:22 final size:23
Alignment explanation
Indices: 52350520--52350753 Score: 175
Period size: 22 Copynumber: 10.2 Consensus size: 23
52350510 TGGACAACAT
52350520 TTATACATCAAATTGGACAGCATCA
1 TTATACATCAAATTGGACAGC-T-A
* * *
52350545 ATATGC-TCAAAATGGACAG-TA
1 TTATACATCAAATTGGACAGCTA
*
52350566 TTATACATCAAATTGGAGAGCATCA
1 TTATACATCAAATTGGACAGC-T-A
* *
52350591 ATATAC-TCAAAATGGACAGC-A
1 TTATACATCAAATTGGACAGCTA
*
52350612 TTATGCATCAAATTGGACAGCT-
1 TTATACATCAAATTGGACAGCTA
* *
52350634 TTAATATACTCAAAATGGACAGC-A
1 TT-ATACA-TCAAATTGGACAGCTA
*
52350658 TTATACATCAAAATGGACAGCT-
1 TTATACATCAAATTGGACAGCTA
*
52350680 TTATATGC-TCAAATTGGATAGC-A
1 TTATA--CATCAAATTGGACAGCTA
52350703 TTATACATCAAATTGGACAGCATCA
1 TTATACATCAAATTGGACAGC-T-A
* * *
52350728 ATATAC-TCAAAATGGACAAC-A
1 TTATACATCAAATTGGACAGCTA
52350749 TTATA
1 TTATA
52350754 ACATATAAAA
Statistics
Matches: 168, Mismatches: 24, Indels: 38
0.73 0.10 0.17
Matches are distributed among these distances:
21 16 0.10
22 59 0.35
23 24 0.14
24 53 0.32
25 16 0.10
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.27
Consensus pattern (23 bp):
TTATACATCAAATTGGACAGCTA
Found at i:52350731 original size:91 final size:92
Alignment explanation
Indices: 52350510--52350753 Score: 346
Period size: 91 Copynumber: 2.7 Consensus size: 92
52350500 TACCCCATTT
* * *
52350510 TGGACAACATTTATACATCAAATTGGACAGCATCAATATGCTCAAAATGGACAGTATTATACATC
1 TGGACAGCA-TTATACATCAAATTGGACAGCATCAATATACTCAAAATGGACAGCATTATACATC
* *
52350575 AAATTGGAGAGCATCAATATACTCAAAA
65 AAAATGGACAGCATCAATATACTCAAAA
* * *
52350603 TGGACAGCATTATGCATCAAATTGGACAGCTTTAATATACTCAAAATGGACAGCATTATACATCA
1 TGGACAGCATTATACATCAAATTGGACAGCATCAATATACTCAAAATGGACAGCATTATACATCA
** * *
52350668 AAATGGACAGC-TTTATATGCTCAAAT
66 AAATGGACAGCATCAATATACTCAAAA
* *
52350694 TGGATAGCATTATACATCAAATTGGACAGCATCAATATACTCAAAATGGACAACATTATA
1 TGGACAGCATTATACATCAAATTGGACAGCATCAATATACTCAAAATGGACAGCATTATA
52350754 ACATATAAAA
Statistics
Matches: 134, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
91 66 0.49
92 60 0.45
93 8 0.06
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.27
Consensus pattern (92 bp):
TGGACAGCATTATACATCAAATTGGACAGCATCAATATACTCAAAATGGACAGCATTATACATCA
AAATGGACAGCATCAATATACTCAAAA
Found at i:52351093 original size:18 final size:18
Alignment explanation
Indices: 52351070--52351107 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
52351060 TCAAAAGTAC
52351070 AAACTTATAAGGTACCGA
1 AAACTTATAAGGTACCGA
52351088 AAACTTATAAGGTACCGA
1 AAACTTATAAGGTACCGA
52351106 AA
1 AA
52351108 TAGCAATCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.21
Consensus pattern (18 bp):
AAACTTATAAGGTACCGA
Found at i:52355181 original size:15 final size:15
Alignment explanation
Indices: 52355144--52355180 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
52355134 GCACTTTTCC
52355144 CTTTTTTTTTCCTCT
1 CTTTTTTTTTCCTCT
52355159 CTTTTTTTTT-CT-T
1 CTTTTTTTTTCCTCT
52355172 -TTTTTTTTT
1 CTTTTTTTTT
52355181 TAGAAAACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 9 0.41
13 1 0.05
14 2 0.09
15 10 0.45
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
CTTTTTTTTTCCTCT
Found at i:52357169 original size:3 final size:3
Alignment explanation
Indices: 52357137--52357203 Score: 56
Period size: 3 Copynumber: 23.3 Consensus size: 3
52357127 TTATACTCAT
52357137 TTA TTCA TTA TTA -TA TT- TCTA -TA TTA -TA TTA TTA TT- TT- TGTA
1 TTA TT-A TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA T-TA
*
52357179 TTA TTA TTA TTA TTA TCA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
52357204 AGTTGCTCTT
Statistics
Matches: 54, Mismatches: 2, Indels: 16
0.75 0.03 0.22
Matches are distributed among these distances:
2 10 0.19
3 40 0.74
4 4 0.07
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:52365052 original size:19 final size:21
Alignment explanation
Indices: 52365013--52365060 Score: 66
Period size: 19 Copynumber: 2.4 Consensus size: 21
52365003 ATCTCTTCAT
52365013 ATAA-ATATCATATATCATAC
1 ATAATATATCATATATCATAC
*
52365033 ATCATATATC-TATATC-TAC
1 ATAATATATCATATATCATAC
52365052 ATAATATAT
1 ATAATATAT
52365061 ATTATAGGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 11 0.44
20 9 0.36
21 5 0.20
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.40
Consensus pattern (21 bp):
ATAATATATCATATATCATAC
Found at i:52365545 original size:192 final size:190
Alignment explanation
Indices: 52365208--52365604 Score: 514
Period size: 193 Copynumber: 2.1 Consensus size: 190
52365198 GCAGACCACC
* *
52365208 TAAAATATACTATCTAAATAAGTAATTTATTATTTATTTAAACTTAAATTAATTAATATTAAAAA
1 TAAAATATAGT-TCTAAATAAGTAATTTATTATTTATTTAAACATAAATTAATTAATATTAAAAA
* * * * *
52365273 TAGAATTTACAATATATTAATATACTTCAAATTTAATAAATTTAAATTTGAAATTTTAATTGGAT
65 TAGAATTCACAATATATTAATATACTTCAAATTTAATAAATTTAAATATAAAATTTT-ATTGAAA
* * * *
52365338 TTTTCAAACTTAATAAAGTTTATCTATTTAAATAT-ATAAAAAATAAATTATAT-AATTTAAT
129 ATTTCAAAATTAATAAAGTTTATCTATTTAAATATAAT-AAAAATAAAATAAATCAATTTAAT
52365399 TAAAATATAGTTCTAAATAAGTAATTTTATTAATTTATTTAAACATAAATTAATTAATATTTAAA
1 TAAAATATAGTTCTAAATAAGTAA-TTTATT-ATTTATTTAAACATAAATTAATTAATA-TTAAA
* * * * *
52365464 ATTAGAATTCACATTATATTAATCTACTTTAAATTTAATAAATTTAAATAATAATAATTTT-TTT
63 AATAGAATTCACAATATATTAATATACTTCAAATTTAATAAATTTAAAT-ATAA-AATTTTATTG
** * *
52365528 AAAATTT-AAAATTAATAATTTTTCTCTATTTAAGTATAATAAAAATAAAATAAATCAATTTAAT
126 AAAATTTCAAAATTAATAAAGTTTATCTATTTAAATATAATAAAAATAAAATAAATCAATTTAAT
52365592 TAAAATATAGTTC
1 TAAAATATAGTTC
52365605 GTTAATTTAT
Statistics
Matches: 179, Mismatches: 20, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
190 13 0.07
191 16 0.09
192 64 0.36
193 78 0.44
194 2 0.01
195 6 0.03
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (190 bp):
TAAAATATAGTTCTAAATAAGTAATTTATTATTTATTTAAACATAAATTAATTAATATTAAAAAT
AGAATTCACAATATATTAATATACTTCAAATTTAATAAATTTAAATATAAAATTTTATTGAAAAT
TTCAAAATTAATAAAGTTTATCTATTTAAATATAATAAAAATAAAATAAATCAATTTAAT
Found at i:52365666 original size:16 final size:18
Alignment explanation
Indices: 52365645--52365681 Score: 53
Period size: 15 Copynumber: 2.2 Consensus size: 18
52365635 TTTAAATTGC
52365645 ATATTTTAAAA-AATA-A
1 ATATTTTAAAATAATAGA
52365661 ATA-TTTAAAATAATAGA
1 ATATTTTAAAATAATAGA
52365678 ATAT
1 ATAT
52365682 AAAATAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
15 7 0.39
16 7 0.39
17 4 0.22
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
ATATTTTAAAATAATAGA
Found at i:52366006 original size:44 final size:44
Alignment explanation
Indices: 52365943--52366030 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
52365933 ATCGTTTACT
*
52365943 ATTTTAGAGTAAACTTGCAATAAGAGAATTAGTCATTGCCTACC
1 ATTTTAAAGTAAACTTGCAATAAGAGAATTAGTCATTGCCTACC
*
52365987 ATTTTAAAGTACACTTGCAATAAGAGAATTAGTCATTGCCTACC
1 ATTTTAAAGTAAACTTGCAATAAGAGAATTAGTCATTGCCTACC
52366031 GACAGCAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (44 bp):
ATTTTAAAGTAAACTTGCAATAAGAGAATTAGTCATTGCCTACC
Found at i:52367263 original size:31 final size:31
Alignment explanation
Indices: 52367215--52367292 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
52367205 ATAGGGTTTA
* * *
52367215 AATATG-AAATATTAATGATTATAGGATATG
1 AATATGAAAATATGAATGACTACAGGATATG
* *
52367245 AATGTGAAAATATGAATGACTACAGGGTATG
1 AATATGAAAATATGAATGACTACAGGATATG
*
52367276 AATATGCAAATATGAAT
1 AATATGAAAATATGAAT
52367293 AGTATGAATA
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 5 0.12
31 35 0.88
ACGTcount: A:0.46, C:0.04, G:0.19, T:0.31
Consensus pattern (31 bp):
AATATGAAAATATGAATGACTACAGGATATG
Found at i:52373470 original size:40 final size:39
Alignment explanation
Indices: 52373415--52373525 Score: 150
Period size: 40 Copynumber: 2.8 Consensus size: 39
52373405 AGGGCTTCAA
* * *
52373415 AAGTAGAAAAAGGGGCACGTATGTGCATTCAAGCGTACTG
1 AAGTACAAACAGGGGCACATATGTGCATTCAAG-GTACTG
* *
52373455 AAGTATAAACAGGGGCACATATGTGCATTCCTAGGTACTG
1 AAGTACAAACAGGGGCACATATGTGCATT-CAAGGTACTG
*
52373495 AAGTACAAACAGGGGCACCTATGTGCATTCA
1 AAGTACAAACAGGGGCACATATGTGCATTCA
52373526 GACAATAATT
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
39 1 0.02
40 59 0.94
41 3 0.05
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (39 bp):
AAGTACAAACAGGGGCACATATGTGCATTCAAGGTACTG
Found at i:52377936 original size:27 final size:28
Alignment explanation
Indices: 52377897--52378013 Score: 125
Period size: 27 Copynumber: 4.3 Consensus size: 28
52377887 AAAGGTCGAT
*
52377897 AAATGACCGAAATATCCC-CATAGGGTA
1 AAATGACTGAAATATCCCTCATAGGGTA
* * *
52377924 AAATGACTAAAATATCCCTGA-ATGGTA
1 AAATGACTGAAATATCCCTCATAGGGTA
* *
52377951 AAATAACTGAAATA-CCCTCAAAGGGTA
1 AAATGACTGAAATATCCCTCATAGGGTA
** *
52377978 AAACAACTGAAATA-CCCCCATAGGGTA
1 AAATGACTGAAATATCCCTCATAGGGTA
52378005 AAATGACTG
1 AAATGACTG
52378014 TTATACCCCT
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
26 5 0.07
27 69 0.92
28 1 0.01
ACGTcount: A:0.44, C:0.20, G:0.16, T:0.20
Consensus pattern (28 bp):
AAATGACTGAAATATCCCTCATAGGGTA
Found at i:52378216 original size:26 final size:26
Alignment explanation
Indices: 52378177--52378230 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
52378167 GGAAATATAT
52378177 TGTTACTGGCAGCTTTGCTGCGATAC
1 TGTTACTGGCAGCTTTGCTGCGATAC
*
52378203 TGTTACTGGTAGCTTTGCTGCGATAC
1 TGTTACTGGCAGCTTTGCTGCGATAC
52378229 TG
1 TG
52378231 GTGTGTTGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.15, C:0.20, G:0.28, T:0.37
Consensus pattern (26 bp):
TGTTACTGGCAGCTTTGCTGCGATAC
Found at i:52378347 original size:28 final size:28
Alignment explanation
Indices: 52378316--52378383 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
52378306 TTGGCAAAGG
*
52378316 CCCACACTATTACTGTATTGGGCTGAGA
1 CCCACACTATTACTGTATTGGGCTAAGA
* *
52378344 CCCACACTGTTACTGTATTGGGCTAAGG
1 CCCACACTATTACTGTATTGGGCTAAGA
*
52378372 CCCACACAATTA
1 CCCACACTATTA
52378384 TTGTTACTGA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.26
Consensus pattern (28 bp):
CCCACACTATTACTGTATTGGGCTAAGA
Found at i:52380729 original size:7 final size:7
Alignment explanation
Indices: 52380712--52380744 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
52380702 CGACTGATTG
52380712 TTTTTAT
1 TTTTTAT
52380719 TTTTT-T
1 TTTTTAT
52380725 ATTTTTAT
1 -TTTTTAT
52380733 TTTTTAT
1 TTTTTAT
52380740 TTTTT
1 TTTTT
52380745 CCTTTTTTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 1 0.04
7 22 0.92
8 1 0.04
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:52380744 original size:14 final size:14
Alignment explanation
Indices: 52380712--52380743 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
52380702 CGACTGATTG
52380712 TTTTTATTTTTTTA
1 TTTTTATTTTTTTA
52380726 TTTTTA-TTTTTTA
1 TTTTTATTTTTTTA
52380739 TTTTT
1 TTTTT
52380744 TCCTTTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (14 bp):
TTTTTATTTTTTTA
Found at i:52380750 original size:15 final size:14
Alignment explanation
Indices: 52380719--52380794 Score: 59
Period size: 14 Copynumber: 5.4 Consensus size: 14
52380709 TTGTTTTTAT
*
52380719 TTTTTTA-TTTTTA
1 TTTTTTATTTTTTC
52380732 TTTTTTATTTTTTCC
1 TTTTTTATTTTTT-C
*
52380747 TTTTTTCCTTTTTTC
1 TTTTTT-ATTTTTTC
* *
52380762 -TTTTTCTTCTTTC
1 TTTTTTATTTTTTC
*
52380775 TTTTTT-TTCTCTTC
1 TTTTTTATT-TTTTC
52380789 TTTTTT
1 TTTTTT
52380795 GGGCCAAAAG
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
13 16 0.30
14 24 0.45
15 7 0.13
16 6 0.11
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTTTATTTTTTC
Found at i:52380750 original size:21 final size:21
Alignment explanation
Indices: 52380712--52380751 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
52380702 CGACTGATTG
*
52380712 TTTTTATTTTTTTATTTTTAT
1 TTTTTATTTTTTCATTTTTAT
*
52380733 TTTTTATTTTTTCCTTTTT
1 TTTTTATTTTTTCATTTTT
52380752 TCCTTTTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.05, G:0.00, T:0.85
Consensus pattern (21 bp):
TTTTTATTTTTTCATTTTTAT
Found at i:52380771 original size:9 final size:8
Alignment explanation
Indices: 52380739--52380794 Score: 51
Period size: 8 Copynumber: 6.6 Consensus size: 8
52380729 TTATTTTTTA
*
52380739 TTTTTTCC
1 TTTTTTCT
*
52380747 TTTTTTCC
1 TTTTTTCT
52380755 TTTTTTCT
1 TTTTTTCT
52380763 TTTTCTTCT
1 TTTT-TTCT
52380772 TTCTTTT-T
1 TT-TTTTCT
52380780 TTTCTCTTCT
1 TTT-T-TTCT
52380790 TTTTT
1 TTTTT
52380795 GGGCCAAAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
7 1 0.02
8 24 0.57
9 11 0.26
10 6 0.14
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTTCT
Found at i:52380773 original size:16 final size:16
Alignment explanation
Indices: 52380739--52380794 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
52380729 TTATTTTTTA
*
52380739 TTTTTTCCTTTTT-TCC
1 TTTTTT-CTTTTTCTTC
52380755 TTTTTTCTTTTTCTTC
1 TTTTTTCTTTTTCTTC
*
52380771 TTTCTTTTTTTTCTCTTC
1 TTT-TTTCTTTT-TCTTC
52380789 TTTTTT
1 TTTTTT
52380795 GGGCCAAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
15 6 0.17
16 11 0.31
17 10 0.29
18 8 0.23
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTTCTTTTTCTTC
Found at i:52380778 original size:18 final size:18
Alignment explanation
Indices: 52380756--52380791 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
52380746 CTTTTTTCCT
*
52380756 TTTTTCTTTTTCTTCTTTC
1 TTTTT-TTTCTCTTCTTTC
52380775 TTTTTTTTCTCTTCTTT
1 TTTTTTTTCTCTTCTTT
52380792 TTTGGGCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTTTTTTCTCTTCTTTC
Found at i:52380789 original size:14 final size:13
Alignment explanation
Indices: 52380758--52380794 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
52380748 TTTTTCCTTT
*
52380758 TTTCTTTTTCTTC
1 TTTCTTTTTTTTC
52380771 TTTCTTTTTTTTC
1 TTTCTTTTTTTTC
52380784 TCTTCTTTTTT
1 T-TTCTTTTTT
52380795 GGGCCAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTCTTTTTTTTC
Found at i:52381510 original size:29 final size:28
Alignment explanation
Indices: 52381478--52381536 Score: 82
Period size: 29 Copynumber: 2.1 Consensus size: 28
52381468 TATAAAAATA
*
52381478 TAGGGCCAAAATGTAATTTCTTGAAAGTT
1 TAGGGCCAAAATGTAATTT-TGGAAAGTT
* *
52381507 TAGGGCCCAAATTTAATTTTGGAAAGTT
1 TAGGGCCAAAATGTAATTTTGGAAAGTT
52381535 TA
1 TA
52381537 AAGGGTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 10 0.37
29 17 0.63
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.36
Consensus pattern (28 bp):
TAGGGCCAAAATGTAATTTTGGAAAGTT
Found at i:52381889 original size:75 final size:75
Alignment explanation
Indices: 52381804--52382908 Score: 1486
Period size: 75 Copynumber: 14.6 Consensus size: 75
52381794 TGATCCAAAA
* * * ** *
52381804 CTCAACTCACCTCTCG-AGTTATGAGTTGATCTTTGAGAAACAGAAATTGAAA-ATACCTCATTG
1 CTCAACTCACCTCTCGCA-ATATGAGTTGATTTTTGAAAAACAGAAATT-AAAGATACCTCGGTA
* * *
52381867 TGCGGCTCGAGG
64 TGTGACCCGAGG
* * * * ** *
52381879 CTCAGCTCACCTCTTGGATTACAAGTTGATTTTTGAAAGAC-GTAAATTAAAAGAAATACCTCGG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAG-AAATT-AAAG--ATACCTCGG
** * * *
52381943 CGTGCGGCCCAAGG
62 TATGTGACCCGAGG
* * *
52381957 CTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAAAAATTCAAA-ATACCTCGGCAT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT-AAAGATACCTCGGTAT
52382021 GTGACCCGAGG
65 GTGACCCGAGG
* * **
52382032 CTCAACACACCTCTCGTAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAGATACGACGGTAT
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTAAAGATACCTCGGTAT
52382097 GTGACCCGAGG
65 GTGACCCGAGG
* * *
52382108 CTCAACTCACCTCTCGCAATATGAGATT-TTTTTTAAAAAACAAAAATTAAAGATACCTCGGTAT
1 CTCAACTCACCTCTCGCAATATGAG-TTGATTTTTGAAAAACAGAAATTAAAGATACCTCGGTAT
52382172 GTGACCCGAGG
65 GTGACCCGAGG
* *
52382183 CTCAACTCACCTCTCGAAATATGAGTTGATTTTTGAAAAATAGAAATTAAAGATACCTCGGTATG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAGATACCTCGGTATG
52382248 TGACCCGAGG
66 TGACCCGAGG
52382258 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAGATACCTCGGTATG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAGATACCTCGGTATG
*
52382323 TGACCCAAGG
66 TGACCCGAGG
* * * *
52382333 CTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAATAGTAATTAAAGATGCCTCGGTATG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAGATACCTCGGTATG
*
52382398 TGACCCAAGG
66 TGACCCGAGG
* *
52382408 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAGATACCCCGGTTTG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAGATACCTCGGTATG
*
52382473 CGACCCGAGG
66 TGACCCGAGG
*
52382483 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTAAAGATACCTCGGTA
1 CTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTAAAGATACCTCGGTA
52382548 TGTGACCCGAGG
64 TGTGACCCGAGG
* * * *
52382560 CTCAACTCACCTCTTGCAATATGAGTT-ATTTTTGAAAAATAGATATTAAAGATACCCCGGTATG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAGATACCTCGGTATG
*
52382624 TGACCCAAGG
66 TGACCCGAGG
* * * *
52382634 CTCAACTCACCTTTCGCAGTAT-AGTTGATTTTTTTGAATAGCAGAAATTAAAGATACCTCGGTA
1 CTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTAAAGATACCTCGGTA
52382698 TGTGACCCGAGG
64 TGTGACCCGAGG
** * *
52382710 CTCAACTCACCTCTCGCAATATGAGTTGATTTTCAAAAAATAGAGATTAAAGATACCTCGGTATG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAGATACCTCGGTATG
52382775 TGACCCGAGG
66 TGACCCGAGG
* * * *
52382785 CTCAACTCACCTCTCACAATATGAGTTGATTGTTGAGAAATAGAAATTAAAGATACCTCGGTATG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAGATACCTCGGTATG
52382850 TGACCCGAGG
66 TGACCCGAGG
*
52382860 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATT
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATT
52382909 GAAAAATATA
Statistics
Matches: 916, Mismatches: 97, Indels: 33
0.88 0.09 0.03
Matches are distributed among these distances:
73 4 0.00
74 64 0.07
75 573 0.63
76 138 0.15
77 76 0.08
78 61 0.07
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (75 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAGATACCTCGGTATG
TGACCCGAGG
Found at i:52382729 original size:452 final size:451
Alignment explanation
Indices: 52381804--52382913 Score: 1548
Period size: 452 Copynumber: 2.5 Consensus size: 451
52381794 TGATCCAAAA
* * * ** *
52381804 CTCAACTCACCTCTCG-AGTTATGAGTTGATCTTTGAGAAACAGAAATTGAAA-ATACCTCATTG
1 CTCAACTCACCTCTCGCA-ATATGAGTTGATTTTTGAAAAACAGAAATT-AAAGATACCTCGGTA
* * * * * * * ** * *
52381867 TGCGGCTCGAGGCTCAGCTCACCTCTTGGATTACAAGTTGATTTTTGAAAGA-CGTAAATTAAAA
64 TGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGT-AATT-AAA
** * * *
52381931 GAAATACCTCGGCGTGCGGCCCAAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAA
127 G--ATACCTCGGTATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
* * *
52381996 ACAAAAATTCAAAATACCTCGGCATGTGACCCGAGGCTCAACACACCTCTCGTAATATGAGTTGA
190 ACAAAAATTCAAAATACCCCGGCATGCGACCCGAGGCTCAACACACCTCTCGCAATATGAGTTGA
*
52382061 TTTTTTGAAAAACAGAAATTAAAGATACGACGGTATGTGACCCGAGGCTCAACTCACCTCTCGCA
255 TTTTTTGAAAAACAGAAATTAAAGATACCACGGTATGTGACCCGAGGCTCAACTCACCTCTCGCA
* * *
52382126 ATATGAGATTTTTTTTAAAAAACAAAAATTAAAGATACCTCGGTATGTGACCCGAGGCTCAACTC
320 ATATGAGATTATTTTTAAAAAACAAAAATTAAAGATACCCCGGTATGTGACCCAAGGCTCAACTC
*
52382191 ACCTCTCGAAATATGAGTTGATTTTTGAAAAATAGAAATTAAAGATACCTCGGTATGTGACCCGA
385 ACCTCTCGAAATATGAGTTGATTTTTGAAAAACAGAAATTAAAGATACCTCGGTATGTGACCCGA
52382256 GG
450 GG
52382258 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAGATACCTCGGTATG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAGATACCTCGGTATG
* * *
52382323 TGACCCAAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAATAGTAATTAAAGATG
66 TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGTAATTAAAGATA
*
52382388 CCTCGGTATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAA
131 CCTCGGTATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAA
** *
52382453 ATT-AAAGATACCCCGGTTTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
196 ATTCAAA-ATACCCCGGCATGCGACCCGAGGCTCAACACACCTCTCGCAATATGAGTTGA-TTTT
* * *
52382517 TTGAAAAGCAGAAATTAAAGATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTTGCAATAT
259 TTGAAAAACAGAAATTAAAGATACCACGGTATGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
* * * *
52382582 GAG-TTATTTTTGAAAAATAGATATTAAAGATACCCCGGTATGTGACCCAAGGCTCAACTCACCT
324 GAGATTATTTTTAAAAAACAAAAATTAAAGATACCCCGGTATGTGACCCAAGGCTCAACTCACCT
* * * * *
52382646 TTCGCAGTAT-AGTTGATTTTTTTGAATAGCAGAAATTAAAGATACCTCGGTATGTGACCCGAGG
389 CTCGAAATATGAGTTGA--TTTTTGAAAAACAGAAATTAAAGATACCTCGGTATGTGACCCGAGG
** * *
52382710 CTCAACTCACCTCTCGCAATATGAGTTGATTTTCAAAAAATAGAGATTAAAGATACCTCGGTATG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAGATACCTCGGTATG
* * * *
52382775 TGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTGTTGAGAAATAGAAATTAAAGATA
66 TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGTAATTAAAGATA
*
52382840 CCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAA
131 CCTCGGTATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAAA
*
52382905 AATTGAAAA
195 AATTCAAAA
52382914 ATATAATTCT
Statistics
Matches: 586, Mismatches: 61, Indels: 19
0.88 0.09 0.03
Matches are distributed among these distances:
450 9 0.02
451 171 0.29
452 278 0.47
453 26 0.04
454 99 0.17
455 3 0.01
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (451 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAGATACCTCGGTATG
TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGTAATTAAAGATA
CCTCGGTATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAA
ATTCAAAATACCCCGGCATGCGACCCGAGGCTCAACACACCTCTCGCAATATGAGTTGATTTTTT
GAAAAACAGAAATTAAAGATACCACGGTATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
GATTATTTTTAAAAAACAAAAATTAAAGATACCCCGGTATGTGACCCAAGGCTCAACTCACCTCT
CGAAATATGAGTTGATTTTTGAAAAACAGAAATTAAAGATACCTCGGTATGTGACCCGAGG
Found at i:52395032 original size:21 final size:21
Alignment explanation
Indices: 52395005--52395080 Score: 80
Period size: 21 Copynumber: 3.4 Consensus size: 21
52394995 CAATTCGGGC
*
52395005 CTTTTTTGTTTTTTTCTTTTCT
1 CTTTTTT-CTTTTTTCTTTTCT
*
52395027 CTTTTTTCTTTTTTCTTTTTT
1 CTTTTTTCTTTTTTCTTTTCT
52395048 CTTTTTTCCTTTTTTTCCTTTTTCT
1 CTTTTTT-C-TTTTTT-C-TTTTCT
*
52395073 ATTTTTTC
1 CTTTTTTC
52395081 ATGTAGTTGG
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
21 19 0.41
22 8 0.17
23 6 0.13
24 2 0.04
25 11 0.24
ACGTcount: A:0.01, C:0.17, G:0.01, T:0.80
Consensus pattern (21 bp):
CTTTTTTCTTTTTTCTTTTCT
Found at i:52395033 original size:9 final size:7
Alignment explanation
Indices: 52395014--52395078 Score: 85
Period size: 7 Copynumber: 8.9 Consensus size: 7
52395004 CCTTTTTTGT
52395014 TTTTTTC
1 TTTTTTC
*
52395021 TTTTCTC
1 TTTTTTC
52395028 TTTTTTC
1 TTTTTTC
52395035 TTTTTTC
1 TTTTTTC
52395042 TTTTTTC
1 TTTTTTC
52395049 TTTTTTCC
1 TTTTTT-C
52395057 TTTTTTTC
1 -TTTTTTC
*
52395065 CTTTTTC
1 TTTTTTC
52395072 TATTTTT
1 T-TTTTT
52395079 TCATGTAGTT
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
7 38 0.75
8 7 0.14
9 6 0.12
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTTC
Found at i:52395039 original size:23 final size:23
Alignment explanation
Indices: 52395005--52395080 Score: 77
Period size: 22 Copynumber: 3.3 Consensus size: 23
52394995 CAATTCGGGC
*
52395005 CTTTTTT-GTTTTTTTCTTTTCT
1 CTTTTTTCTTTTTTTTCTTTTCT
52395027 CTTTTTTCTTTTTTCTT-TTTTCT
1 CTTTTTTCTTTTTT-TTCTTTTCT
* *
52395050 -TTTTTCCTTTTTTTCCTTTTTCT
1 CTTTTTTCTTTTTTTTC-TTTTCT
*
52395073 ATTTTTTC
1 CTTTTTTC
52395081 ATGTAGTTGG
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
21 1 0.02
22 19 0.42
23 17 0.38
24 8 0.18
ACGTcount: A:0.01, C:0.17, G:0.01, T:0.80
Consensus pattern (23 bp):
CTTTTTTCTTTTTTTTCTTTTCT
Found at i:52395079 original size:9 final size:8
Alignment explanation
Indices: 52395006--52395080 Score: 70
Period size: 7 Copynumber: 9.9 Consensus size: 8
52394996 AATTCGGGCC
*
52395006 TTTTTTGT
1 TTTTTTCT
52395014 TTTTTTC-
1 TTTTTTCT
*
52395021 TTTTCTC-
1 TTTTTTCT
52395028 TTTTTTC-
1 TTTTTTCT
52395035 TTTTTTC-
1 TTTTTTCT
52395042 TTTTTTCT
1 TTTTTTCT
*
52395050 TTTTTCCT
1 TTTTTTCT
52395058 TTTTTTC-
1 TTTTTTCT
*
52395065 CTTTTTCT
1 TTTTTTCT
52395073 ATTTTTTC
1 -TTTTTTC
52395081 ATGTAGTTGG
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
7 32 0.56
8 19 0.33
9 6 0.11
ACGTcount: A:0.01, C:0.16, G:0.01, T:0.81
Consensus pattern (8 bp):
TTTTTTCT
Found at i:52395284 original size:12 final size:12
Alignment explanation
Indices: 52395269--52395307 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
52395259 TCGCTCTCTT
52395269 TTTTCTTTTCTC
1 TTTTCTTTTCTC
52395281 TTTTCTTTTCTC
1 TTTTCTTTTCTC
**
52395293 CCTTCTTTT-TC
1 TTTTCTTTTCTC
52395304 TTTT
1 TTTT
52395308 TGGTTGCTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
11 4 0.17
12 19 0.83
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTCTTTTCTC
Found at i:52395289 original size:19 final size:18
Alignment explanation
Indices: 52395265--52395308 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
52395255 CTCCTCGCTC
**
52395265 TCTTTTTTCTTTTCTCTTT
1 TCTTTTTTCCCTTCT-TTT
*
52395284 TCTTTTCTCCCTTCTTTT
1 TCTTTTTTCCCTTCTTTT
52395302 TCTTTTT
1 TCTTTTT
52395309 GGTTGCTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (18 bp):
TCTTTTTTCCCTTCTTTT
Found at i:52401815 original size:29 final size:29
Alignment explanation
Indices: 52401779--52401839 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
52401769 TTGGGACAAC
52401779 CCACTAAGGGAG-AAAGATGCCCAAACCAT
1 CCACTAAGGGAGCAAAGA-GCCCAAACCAT
* *
52401808 CCACTAAGGGAGCAATGAGCCCAAGCCAT
1 CCACTAAGGGAGCAAAGAGCCCAAACCAT
52401837 CCA
1 CCA
52401840 TGTGACTTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 25 0.86
30 4 0.14
ACGTcount: A:0.38, C:0.31, G:0.21, T:0.10
Consensus pattern (29 bp):
CCACTAAGGGAGCAAAGAGCCCAAACCAT
Found at i:52403089 original size:71 final size:72
Alignment explanation
Indices: 52403004--52403143 Score: 174
Period size: 71 Copynumber: 1.9 Consensus size: 72
52402994 CACTGTGACA
* ** *
52403004 ATGGTCTATCGACTCTATGGAGCGACACTGTGACGGTGGTTATCAACTAG-CGCTAGAGTGACAC
1 ATGGTCTATCGACTCTATCGAGCGACACTGTGACGGCAGTTATCAACTAGCCACTAGAGTGACAC
52403068 CGTGATG
66 CGTGATG
* * * * **
52403075 ATGGTCTATTGACTCTATCGAGTGACATTGTGATGGCAGTTATTGACTAGCTCACTAGAGTGACA
1 ATGGTCTATCGACTCTATCGAGCGACACTGTGACGGCAGTTATCAACTAGC-CACTAGAGTGACA
52403140 CCGT
65 CCGT
52403144 CACAATGATC
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
71 41 0.72
73 16 0.28
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (72 bp):
ATGGTCTATCGACTCTATCGAGCGACACTGTGACGGCAGTTATCAACTAGCCACTAGAGTGACAC
CGTGATG
Found at i:52405152 original size:22 final size:22
Alignment explanation
Indices: 52405127--52405168 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
52405117 AATTAATCAC
52405127 TCACTCATCATT-CATTCTTCAT
1 TCACTCA-CATTCCATTCTTCAT
52405149 TCACTCACATTCCATTCTTC
1 TCACTCACATTCCATTCTTC
52405169 TCTTTCATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.21, C:0.36, G:0.00, T:0.43
Consensus pattern (22 bp):
TCACTCACATTCCATTCTTCAT
Found at i:52415210 original size:42 final size:43
Alignment explanation
Indices: 52415150--52415232 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 43
52415140 AGCATTTACA
** * *
52415150 AAAATAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTAG
1 AAAATAAACGCCGCTAAAGAACATGATCTTTAACGGCGCTTAG
52415193 AAAA-AAACGCCGCTAAAGAACATGATCTTTAACGGCGCTT
1 AAAATAAACGCCGCTAAAGAACATGATCTTTAACGGCGCTT
52415233 TCTTCACAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 32 0.89
43 4 0.11
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (43 bp):
AAAATAAACGCCGCTAAAGAACATGATCTTTAACGGCGCTTAG
Found at i:52415287 original size:43 final size:43
Alignment explanation
Indices: 52415155--52415294 Score: 133
Period size: 43 Copynumber: 3.3 Consensus size: 43
52415145 TTACAAAAAT
** * * *
52415155 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGC-TTAGAAAA
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTGTAAA
* * *
52415197 AAACGCCGCTAAAGAACATGATCTTTAACGGCGCTTTCT-TCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTT-TGTAAA
* * *
52415240 AAACGCCGCTATAGAAGATGA-CTTTTAGCGGCGCTTTTGTGAA
1 AAACGCCGCTAAAGAACATGATC-TTTAGCGGCGCTTTTGTAAA
*
52415283 AAACGCCACTAA
1 AAACGCCGCTAA
52415295 TTTGGGATTT
Statistics
Matches: 79, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
42 32 0.41
43 47 0.59
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTGTAAA
Found at i:52431640 original size:31 final size:31
Alignment explanation
Indices: 52431596--52431662 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 31
52431586 TAGTAAAGAT
52431596 AAAATTGTAATTTAACCCCCTCT-AAAATTATA
1 AAAATTGTAATTTAA--CCCTCTAAAAATTATA
* * *
52431628 AAAATT-TGATTTAATCCTTTAAAAATTATA
1 AAAATTGTAATTTAACCCTCTAAAAATTATA
52431658 AAAAT
1 AAAAT
52431663 ATAGACTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
29 4 0.13
30 14 0.45
31 7 0.23
32 6 0.19
ACGTcount: A:0.48, C:0.12, G:0.03, T:0.37
Consensus pattern (31 bp):
AAAATTGTAATTTAACCCTCTAAAAATTATA
Found at i:52433506 original size:20 final size:21
Alignment explanation
Indices: 52433465--52433521 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 21
52433455 TTAAAATCAA
*
52433465 TAAAA-ATTATAAAAAT-TAT
1 TAAAATATAATAAAAATATAT
*
52433484 TAAACTATAATAAAAATAT-T
1 TAAAATATAATAAAAATATAT
* *
52433504 TAAAATTTACTAAAAATA
1 TAAAATATAATAAAAATA
52433522 GAATATATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 4 0.13
20 26 0.84
21 1 0.03
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATATAATAAAAATATAT
Found at i:52435568 original size:18 final size:17
Alignment explanation
Indices: 52435524--52435568 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
52435514 ATTTCAAAAT
52435524 ATTATAAAAATATTAAA
1 ATTATAAAAATATTAAA
* *
52435541 ATTTTCAAAAATATTGATA
1 ATTAT-AAAAATATT-AAA
52435560 ATTATAAAA
1 ATTATAAAA
52435569 TTTATTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 4 0.17
18 13 0.57
19 6 0.26
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (17 bp):
ATTATAAAAATATTAAA
Found at i:52435650 original size:26 final size:25
Alignment explanation
Indices: 52435613--52435665 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
52435603 AATGTTATTA
* *
52435613 AAAAATTCTAAAACATTGTAAAAAT
1 AAAAATTATAAAAAATTGTAAAAAT
*
52435638 AAAAATATATAAAAAATTGTTAAAAT
1 AAAAAT-TATAAAAAATTGTAAAAAT
52435664 AA
1 AA
52435666 TTTATTACAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (25 bp):
AAAAATTATAAAAAATTGTAAAAAT
Found at i:52440979 original size:16 final size:15
Alignment explanation
Indices: 52440954--52440983 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
52440944 ATTGAATTAA
52440954 TTAGCTAAATGCAAG
1 TTAGCTAAATGCAAG
52440969 TTAGCCTAAATGCAA
1 TTAG-CTAAATGCAA
52440984 ATGGAATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.27
Consensus pattern (15 bp):
TTAGCTAAATGCAAG
Found at i:52441007 original size:75 final size:75
Alignment explanation
Indices: 52440918--52441071 Score: 236
Period size: 75 Copynumber: 2.1 Consensus size: 75
52440908 AAGAAAACAT
* * * *
52440918 AATAATTTAAGGTGATAAATGTTAAGATTGAATTAATTAGCTAAATGCAAGTTAGCCTAAATGCA
1 AATAATTTAAGGTGATAAATGTTAAGATTAAATTAATTAGCTAAATGCAAATGAACCTAAATGCA
52440983 AATGGAATGA
66 AATGGAATGA
** *
52440993 AATAATTTGGGGTGATAAATGTTAAGATTAAATTAATTAGCTAAATGCAAATGAACCTAGATGCA
1 AATAATTTAAGGTGATAAATGTTAAGATTAAATTAATTAGCTAAATGCAAATGAACCTAAATGCA
*
52441058 AATGGGATGA
66 AATGGAATGA
52441068 AATA
1 AATA
52441072 TGAAAGGTGA
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
75 71 1.00
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.30
Consensus pattern (75 bp):
AATAATTTAAGGTGATAAATGTTAAGATTAAATTAATTAGCTAAATGCAAATGAACCTAAATGCA
AATGGAATGA
Found at i:52444466 original size:7 final size:7
Alignment explanation
Indices: 52444450--52444485 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
52444440 CACATAATCC
*
52444450 CCACTGA
1 CCACTAA
52444457 CCACTAA
1 CCACTAA
52444464 CCACTAA
1 CCACTAA
*
52444471 ACACTAA
1 CCACTAA
52444478 CCACTAA
1 CCACTAA
52444485 C
1 C
52444486 AACCTTATCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.42, C:0.42, G:0.03, T:0.14
Consensus pattern (7 bp):
CCACTAA
Done.