Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 94 of 349
Found at i:29005707 original size:20 final size:20
Alignment explanation
Indices: 29005682--29005719 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
29005672 GTAACATATA
29005682 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
* *
29005702 TCATGAGCTCAGATCACA
1 TCATGAACTCAGACCACA
29005720 TAGTTCCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.32, G:0.13, T:0.18
Consensus pattern (20 bp):
TCATGAACTCAGACCACAAC
Found at i:29009798 original size:39 final size:39
Alignment explanation
Indices: 29009703--29009830 Score: 175
Period size: 39 Copynumber: 3.3 Consensus size: 39
29009693 GCTTAAAGAC
** * **
29009703 CCGCAGGCTATATGCTGGAATTATATTCGGGCTTAAAGAC
1 CCGCAGGCTATATGCTGGAATTATAACCGGACTT-AAGGT
*
29009743 CCGCAGGCTATATGCTGGAATTATACCCGGACTTAAGGT
1 CCGCAGGCTATATGCTGGAATTATAACCGGACTTAAGGT
* *
29009782 TCGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGGT
1 CCGCAGGCTATATGCTGGAATTATAACCGGACTTAAGGT
29009821 CCGCAGGCTA
1 CCGCAGGCTA
29009831 CGCGCTTGAA
Statistics
Matches: 79, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 48 0.61
40 31 0.39
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
CCGCAGGCTATATGCTGGAATTATAACCGGACTTAAGGT
Found at i:29013653 original size:40 final size:39
Alignment explanation
Indices: 29013598--29013712 Score: 142
Period size: 40 Copynumber: 2.9 Consensus size: 39
29013588 TGTGTATCCG
*
29013598 GGCTTAAAGAACCGCAGGCTATATGCTGGAATTATATTCA
1 GGCTTAAAGAACCGCAGGCTATATGCTGGAATTATA-CCA
* *
29013638 GGCTTAAAGACCCGCAGGCTATATGCTGGAATTATACCC
1 GGCTTAAAGAACCGCAGGCTATATGCTGGAATTATACCA
** * *
29013677 GGACTT-AAGGTCCACAGGCTATGTGCTGGAATTATA
1 GG-CTTAAAGAACCGCAGGCTATATGCTGGAATTATA
29013713 ACCGGACTTA
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
39 29 0.43
40 38 0.57
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (39 bp):
GGCTTAAAGAACCGCAGGCTATATGCTGGAATTATACCA
Found at i:29013706 original size:39 final size:39
Alignment explanation
Indices: 29013609--29013736 Score: 168
Period size: 39 Copynumber: 3.3 Consensus size: 39
29013599 GCTTAAAGAA
* * **
29013609 CCGCAGGCTATATGCTGGAATTATATTCAGG-CTTAAAGAC
1 CCGCAGGCTATATGCTGGAATTATA-ACCGGACTT-AAGGT
*
29013649 CCGCAGGCTATATGCTGGAATTATACCCGGACTTAAGGT
1 CCGCAGGCTATATGCTGGAATTATAACCGGACTTAAGGT
* *
29013688 CCACAGGCTATGTGCTGGAATTATAACCGGACTTAAGGT
1 CCGCAGGCTATATGCTGGAATTATAACCGGACTTAAGGT
29013727 CCGCAGGCTA
1 CCGCAGGCTA
29013737 CGCGTTGGAA
Statistics
Matches: 79, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 51 0.65
40 28 0.35
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (39 bp):
CCGCAGGCTATATGCTGGAATTATAACCGGACTTAAGGT
Found at i:29013746 original size:39 final size:39
Alignment explanation
Indices: 29013662--29013746 Score: 125
Period size: 39 Copynumber: 2.2 Consensus size: 39
29013652 CAGGCTATAT
* * *
29013662 GCTGGAATTATACCCGGACTTAAGGTCCACAGGCTATGT
1 GCTGGAATTATAACCGGACTTAAGGTCCACAGGCTACGC
*
29013701 GCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTACGC
1 GCTGGAATTATAACCGGACTTAAGGTCCACAGGCTACGC
*
29013740 GTTGGAA
1 GCTGGAA
29013747 ATATGTCCTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
GCTGGAATTATAACCGGACTTAAGGTCCACAGGCTACGC
Found at i:29021619 original size:39 final size:39
Alignment explanation
Indices: 29021523--29021650 Score: 175
Period size: 39 Copynumber: 3.3 Consensus size: 39
29021513 GCTTAAAGAC
** * **
29021523 CCGCAGGCTATATGCTGGAATTATATTCGGGCTTAAAGAC
1 CCGCAGGCTATATGCTGGAATTATAACCGGACTT-AAGGT
*
29021563 CCGCAGGCTATATGCTGGAATTATACCCGGACTTAAGGT
1 CCGCAGGCTATATGCTGGAATTATAACCGGACTTAAGGT
* *
29021602 CTGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGGT
1 CCGCAGGCTATATGCTGGAATTATAACCGGACTTAAGGT
29021641 CCGCAGGCTA
1 CCGCAGGCTA
29021651 GGCGCTGGAA
Statistics
Matches: 79, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 48 0.61
40 31 0.39
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
CCGCAGGCTATATGCTGGAATTATAACCGGACTTAAGGT
Found at i:29021658 original size:39 final size:39
Alignment explanation
Indices: 29021576--29021660 Score: 134
Period size: 39 Copynumber: 2.2 Consensus size: 39
29021566 CAGGCTATAT
* * * *
29021576 GCTGGAATTATACCCGGACTTAAGGTCTGCAGGCTATGT
1 GCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTAGGC
29021615 GCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTAGGC
1 GCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTAGGC
29021654 GCTGGAA
1 GCTGGAA
29021661 ATATGTCCTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.24
Consensus pattern (39 bp):
GCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTAGGC
Found at i:29035942 original size:14 final size:13
Alignment explanation
Indices: 29035911--29035949 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
29035901 TATCCTGGAA
29035911 AATTAA-AACAAG
1 AATTAAGAACAAG
*
29035923 AATTAAGAACACAT
1 AATTAAGAACA-AG
29035937 AATTAAGAACAAG
1 AATTAAGAACAAG
29035950 TCAAATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 6 0.26
13 5 0.22
14 12 0.52
ACGTcount: A:0.62, C:0.10, G:0.10, T:0.18
Consensus pattern (13 bp):
AATTAAGAACAAG
Found at i:29039613 original size:16 final size:16
Alignment explanation
Indices: 29039592--29039628 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
29039582 ATAGGAAATT
29039592 TGGCCATCATGGGTTA
1 TGGCCATCATGGGTTA
29039608 TGGCCATCATGGGTTA
1 TGGCCATCATGGGTTA
29039624 TGGCC
1 TGGCC
29039629 TAATTGTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.16, C:0.22, G:0.32, T:0.30
Consensus pattern (16 bp):
TGGCCATCATGGGTTA
Found at i:29040229 original size:45 final size:45
Alignment explanation
Indices: 29040103--29040235 Score: 135
Period size: 45 Copynumber: 2.9 Consensus size: 45
29040093 TACTGATATA
* *
29040103 TCAGCTCGTAAGAGCTTACTGTTTTCAGCTCATTGGAGCTTACCGTT
1 TCAGCTCGTAA-AGCTTACTG-TTTCAGCTCAATAGAGCTTACCGTT
* * * ** **
29040150 TCAACTCGTATGAGCTTACTATTT-AGCTTGATAGAGCTTATTGTT
1 TCAGCTCGTA-AAGCTTACTGTTTCAGCTCAATAGAGCTTACCGTT
29040195 T-AGCTCGATAAAGCTTACTGTTTCAGCTCAATAGAGCTTAC
1 TCAGCTCG-TAAAGCTTACTGTTTCAGCTCAATAGAGCTTAC
29040236 TGTCCATTAG
Statistics
Matches: 68, Mismatches: 15, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
44 16 0.24
45 32 0.47
46 3 0.04
47 17 0.25
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (45 bp):
TCAGCTCGTAAAGCTTACTGTTTCAGCTCAATAGAGCTTACCGTT
Found at i:29040232 original size:23 final size:23
Alignment explanation
Indices: 29040113--29040238 Score: 114
Period size: 23 Copynumber: 5.5 Consensus size: 23
29040103 TCAGCTCGTA
*
29040113 AGAGCTTACTGTTTTCAGCTCATT
1 AGAGCTTACTG-TTTCAGCTCAAT
* * * *
29040137 GGAGCTTACCGTTTCAACTC-GT
1 AGAGCTTACTGTTTCAGCTCAAT
* **
29040159 ATGAGCTTACTATTT-AGCTTGAT
1 A-GAGCTTACTGTTTCAGCTCAAT
* *
29040182 AGAGCTTATTGTTT-AGCTCGAT
1 AGAGCTTACTGTTTCAGCTCAAT
*
29040204 AAAGCTTACTGTTTCAGCTCAAT
1 AGAGCTTACTGTTTCAGCTCAAT
29040227 AGAGCTTACTGT
1 AGAGCTTACTGT
29040239 CCATTAGCCC
Statistics
Matches: 82, Mismatches: 17, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
22 34 0.41
23 39 0.48
24 9 0.11
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (23 bp):
AGAGCTTACTGTTTCAGCTCAAT
Found at i:29042315 original size:16 final size:16
Alignment explanation
Indices: 29042294--29042324 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
29042284 AAACTTCTAG
29042294 CTTTTCGGCATTTCGC
1 CTTTTCGGCATTTCGC
29042310 CTTTTCGGCATTTCG
1 CTTTTCGGCATTTCG
29042325 GGATTTGCCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.29, G:0.19, T:0.45
Consensus pattern (16 bp):
CTTTTCGGCATTTCGC
Found at i:29055595 original size:16 final size:16
Alignment explanation
Indices: 29055574--29055604 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
29055564 TGGTGACCGT
29055574 GAATTACAAGTTAAAC
1 GAATTACAAGTTAAAC
29055590 GAATTACAAGTTAAA
1 GAATTACAAGTTAAA
29055605 AGCTAAATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.10, G:0.13, T:0.26
Consensus pattern (16 bp):
GAATTACAAGTTAAAC
Found at i:29057593 original size:32 final size:32
Alignment explanation
Indices: 29057552--29057619 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
29057542 ATAGATTTTG
29057552 AATGATGCCATTATTGAATGCTTGGTTGTTTA
1 AATGATGCCATTATTGAATGCTTGGTTGTTTA
*
29057584 AATGATGCCATTGTTGAATGCTTGGTTGTTTA
1 AATGATGCCATTATTGAATGCTTGGTTGTTTA
29057616 AATG
1 AATG
29057620 TTTAATGATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.25, C:0.09, G:0.24, T:0.43
Consensus pattern (32 bp):
AATGATGCCATTATTGAATGCTTGGTTGTTTA
Found at i:29058337 original size:22 final size:22
Alignment explanation
Indices: 29058312--29058362 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
29058302 TGGCTCATTG
29058312 GAACTTATTGTTCAGCTCGATA
1 GAACTTATTGTTCAGCTCGATA
*
29058334 GAACTTATTGTTTAGCTCGATA
1 GAACTTATTGTTCAGCTCGATA
*
29058356 GAGCTTA
1 GAACTTA
29058363 CTGTCCATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (22 bp):
GAACTTATTGTTCAGCTCGATA
Found at i:29061189 original size:25 final size:25
Alignment explanation
Indices: 29061161--29061245 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 25
29061151 ATATTCTGTA
*
29061161 AAGCTTTTGTAGAGAACTCTTTGTG
1 AAGCCTTTGTAGAGAACTCTTTGTG
*
29061186 AAGCCTTTGTGGAGAACTCTTTGTG
1 AAGCCTTTGTAGAGAACTCTTTGTG
* * * * * *
29061211 GAGCCTTTATGGTGAACTCTCTATG
1 AAGCCTTTGTAGAGAACTCTTTGTG
*
29061236 AAGTCTTTGT
1 AAGCCTTTGT
29061246 GGAAAATTCC
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.21, C:0.15, G:0.25, T:0.39
Consensus pattern (25 bp):
AAGCCTTTGTAGAGAACTCTTTGTG
Found at i:29061209 original size:14 final size:14
Alignment explanation
Indices: 29061166--29061213 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
29061156 CTGTAAAGCT
*
29061166 TTTGTAGAGAACTC
1 TTTGTGGAGAACTC
*
29061180 TTTGT-GA-AGC-C
1 TTTGTGGAGAACTC
29061191 TTTGTGGAGAACTC
1 TTTGTGGAGAACTC
29061205 TTTGTGGAG
1 TTTGTGGAG
29061214 CCTTTATGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
11 6 0.21
12 4 0.14
13 4 0.14
14 15 0.52
ACGTcount: A:0.21, C:0.12, G:0.29, T:0.38
Consensus pattern (14 bp):
TTTGTGGAGAACTC
Found at i:29063588 original size:334 final size:333
Alignment explanation
Indices: 29062979--29063612 Score: 1187
Period size: 334 Copynumber: 1.9 Consensus size: 333
29062969 TCATCATATC
29062979 ATATAAATAACAATAAATTACTTAAAATGATAATTATGTTACTACATTTACACCTGAACTTACCT
1 ATATAAATAACAATAAATTACTTAAAATGATAATTATGTTACTACATTTACACCTGAACTTACCT
29063044 AGGTACAAAATAAAGAAATTTTGCAATTTACTCCACAATCTTTTCCTTTACCAGATAAAGGTTGA
66 AGGTACAAAATAAAGAAATTTTGCAATTTACTCCACAATCTTTTCCTTTACCAGATAAAGGTTGA
29063109 TTCAACGTCTTTCTTGGTCTAAAATAACACATTTAGCTGATTTAATACTCACATTTATCAAAATA
131 TTCAACGTCTTTCTTGGTCTAAAATAACACATTTAGCTGATTTAATACTCACATTTATCAAAATA
29063174 GTCCTTAACTCACTTTGGAAAAATTACAATTTTACCCCTAAACTTTTGCATATTTACACTTTTGC
196 GTCCTTAACTCACTTTGGAAAAATTACAATTTTACCCCTAAACTTTTGCATATTTACACTTTTGC
*
29063239 CCCAAAGCTCAAAAATTATATTTTTTTTCCAAAATTATTATAAATAACATTAAATTATCATATCA
261 CCCAAAGCTCAAAAATTA-ATTTTTTTTCCAAAATCATTATAAATAACATTAAATTATCATATCA
29063304 CAAAGTATA
325 CAAAGTATA
* * *
29063313 ATATAAATAACATTAAATTACTTAAAATGATAATTATGTTACTACATTTGCACTTGAACTTACCT
1 ATATAAATAACAATAAATTACTTAAAATGATAATTATGTTACTACATTTACACCTGAACTTACCT
* * *
29063378 AGGTACAAAATAAAGAAATTTTGCAATTTAGTCCACAATCTTTTCCTTTCCCAGATCAAGGTTGA
66 AGGTACAAAATAAAGAAATTTTGCAATTTACTCCACAATCTTTTCCTTTACCAGATAAAGGTTGA
29063443 TTCAACGTCTTTCTTGGTCTAAAATAACACATTTAGCTGATTTAATACTCACATTTATCAAAATA
131 TTCAACGTCTTTCTTGGTCTAAAATAACACATTTAGCTGATTTAATACTCACATTTATCAAAATA
*
29063508 GTCCTTAACTCACTTTGGAAAAATTACAATTTTGCCCCTAAACTTTTGCATATTTACACTTTTGC
196 GTCCTTAACTCACTTTGGAAAAATTACAATTTTACCCCTAAACTTTTGCATATTTACACTTTTGC
29063573 CCCAAAGCTCAAAAATTAATTTTTTTTCCAAAATCATTAT
261 CCCAAAGCTCAAAAATTAATTTTTTTTCCAAAATCATTAT
29063613 GTTTTATGAC
Statistics
Matches: 292, Mismatches: 8, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
333 21 0.07
334 271 0.93
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (333 bp):
ATATAAATAACAATAAATTACTTAAAATGATAATTATGTTACTACATTTACACCTGAACTTACCT
AGGTACAAAATAAAGAAATTTTGCAATTTACTCCACAATCTTTTCCTTTACCAGATAAAGGTTGA
TTCAACGTCTTTCTTGGTCTAAAATAACACATTTAGCTGATTTAATACTCACATTTATCAAAATA
GTCCTTAACTCACTTTGGAAAAATTACAATTTTACCCCTAAACTTTTGCATATTTACACTTTTGC
CCCAAAGCTCAAAAATTAATTTTTTTTCCAAAATCATTATAAATAACATTAAATTATCATATCAC
AAAGTATA
Found at i:29067555 original size:13 final size:13
Alignment explanation
Indices: 29067530--29067573 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
29067520 CTTACCTCAT
29067530 ACTCGGAATTGTCG
1 ACTCGG-ATTGTCG
29067544 ACTCGGATTGTCG
1 ACTCGGATTGTCG
* *
29067557 ACTCAGATTGTCT
1 ACTCGGATTGTCG
29067570 ACTC
1 ACTC
29067574 TATAACCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
13 22 0.79
14 6 0.21
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (13 bp):
ACTCGGATTGTCG
Found at i:29070024 original size:28 final size:28
Alignment explanation
Indices: 29069990--29070064 Score: 78
Period size: 33 Copynumber: 2.5 Consensus size: 28
29069980 CAGCATTCAC
29069990 TAACAGTCTGGGCCTTAACCCTATACAG
1 TAACAGTCTGGGCCTTAACCCTATACAG
* *
29070018 TATCAGTGCAATCTGGGCCTTAGCCCTATACAG
1 TA--A---CAGTCTGGGCCTTAACCCTATACAG
*
29070051 TAACAGTGTGGGCC
1 TAACAGTCTGGGCC
29070065 GAAGCCCAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
28 11 0.29
30 1 0.03
31 1 0.03
33 25 0.66
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (28 bp):
TAACAGTCTGGGCCTTAACCCTATACAG
Found at i:29070038 original size:33 final size:33
Alignment explanation
Indices: 29069996--29070058 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
29069986 TCACTAACAG
*
29069996 TCTGGGCCTTAACCCTATACAGTATCAGTGCAA
1 TCTGGGCCTTAACCCTATACAGTAACAGTGCAA
*
29070029 TCTGGGCCTTAGCCCTATACAGTAACAGTG
1 TCTGGGCCTTAACCCTATACAGTAACAGTG
29070059 TGGGCCGAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (33 bp):
TCTGGGCCTTAACCCTATACAGTAACAGTGCAA
Found at i:29070468 original size:27 final size:27
Alignment explanation
Indices: 29070438--29070493 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
29070428 GGGCATAATC
29070438 GTCATTTTACCATACAGGGGTATTACA
1 GTCATTTTACCATACAGGGGTATTACA
* *
29070465 GTCATTTTACCCTATAGGGGTATTACA
1 GTCATTTTACCATACAGGGGTATTACA
29070492 GT
1 GT
29070494 AATCCTACCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACA
Found at i:29070523 original size:27 final size:27
Alignment explanation
Indices: 29070453--29070515 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
29070443 TTTACCATAC
* **
29070453 AGGGGTATTACAGTCATTTTACCCTAT
1 AGGGGTATTACAGTAATCCTACCCTAT
29070480 AGGGGTATTACAGTAATCCTACCCTAT
1 AGGGGTATTACAGTAATCCTACCCTAT
29070507 AGGGGTATT
1 AGGGGTATT
29070516 TTGATAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.33
Consensus pattern (27 bp):
AGGGGTATTACAGTAATCCTACCCTAT
Found at i:29070538 original size:27 final size:27
Alignment explanation
Indices: 29070507--29070674 Score: 144
Period size: 27 Copynumber: 6.2 Consensus size: 27
29070497 CCTACCCTAT
* *
29070507 AGGGGTATTTT-GATAATTTTGCAAATT
1 AGGGGTATTTTAG-TAATTTTACAAATC
*
29070534 GGGGGTATTTTAGTAATTTTACAAATC
1 AGGGGTATTTTAGTAATTTTACAAATC
* *
29070561 AGGGGTATTTTAGTAAGTTTAC-AACC
1 AGGGGTATTTTAGTAATTTTACAAATC
* ** *
29070587 CGAGGGTATTTCGGTAATTTCACAAATC
1 AG-GGGTATTTTAGTAATTTTACAAATC
* * **
29070615 AGGGGTATTTCAGTAAGTTTACAACCC
1 AGGGGTATTTTAGTAATTTTACAAATC
* * *
29070642 TGGGGTA-TTTCGATAATTTCACAAATC
1 AGGGGTATTTTAG-TAATTTTACAAATC
29070669 AGGGGT
1 AGGGGT
29070675 CTTAACGATC
Statistics
Matches: 111, Mismatches: 26, Indels: 8
0.77 0.18 0.06
Matches are distributed among these distances:
26 7 0.06
27 99 0.89
28 5 0.05
ACGTcount: A:0.29, C:0.12, G:0.23, T:0.36
Consensus pattern (27 bp):
AGGGGTATTTTAGTAATTTTACAAATC
Found at i:29070565 original size:54 final size:54
Alignment explanation
Indices: 29070536--29070674 Score: 192
Period size: 54 Copynumber: 2.6 Consensus size: 54
29070526 TGCAAATTGG
* * *
29070536 GGGTATTTTAGTAATTTTACAAATCAGGGGTATTTTAGTAAGTTTACAACCCGA
1 GGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTAGTAAGTTTACAAACCGA
* * *
29070590 GGGTATTTCGGTAATTTCACAAATCAGGGGTATTTCAGTAAGTTTACAACCCTG-
1 GGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTAGTAAGTTTACAAACC-GA
29070644 GGGTATTTC-GATAATTTCACAAATCAGGGGT
1 GGGTATTTCAG-TAATTTCACAAATCAGGGGT
29070675 CTTAACGATC
Statistics
Matches: 79, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
53 1 0.01
54 77 0.97
55 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTAGTAAGTTTACAAACCGA
Found at i:29082659 original size:47 final size:46
Alignment explanation
Indices: 29082556--29082683 Score: 150
Period size: 47 Copynumber: 2.7 Consensus size: 46
29082546 ATCTCGAGGT
* **
29082556 TGATGCATGTCCCAGACATGTCTTACACTAGCACCCGTCTTAGTGC
1 TGATGCATGTCCCAGACATGTCTTACACTAGCACCCATAATAGTGC
* ** *
29082602 TGATGCCATGTCCCAAACATGGTCTTACACTAGCTTCCATAAT-GTGG
1 TGATG-CATGTCCCAGACAT-GTCTTACACTAGCACCCATAATAGTGC
*
29082649 TCGATGCATGTCCCAGACATGTCTTACAGTAGCAC
1 T-GATGCATGTCCCAGACATGTCTTACACTAGCAC
29082684 ACACAAGAGA
Statistics
Matches: 68, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
46 17 0.25
47 30 0.44
48 21 0.31
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (46 bp):
TGATGCATGTCCCAGACATGTCTTACACTAGCACCCATAATAGTGC
Found at i:29099851 original size:46 final size:46
Alignment explanation
Indices: 29099764--29099983 Score: 225
Period size: 46 Copynumber: 4.7 Consensus size: 46
29099754 GGTAAGGTTT
*
29099764 CGATGCCATGTCCCAGACATGGTCTTACACT-GATTATCATCTCGTAGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTTA-CATCTCGTAGC
* *
29099812 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTC-AAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGTA-GC
* * * *
29099858 CGATGCATGTCCCAGACATGTCTTGCACTAGCACT-CGTCTCAATA-C
1 CGATGCATGTCCCAGACATGTCTTACACTAGC-TTACATCTC-GTAGC
* * * *
29099904 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTTCCATAAT-GTGGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTTACAT-CTCGTAGC
29099952 CGATGCATGTCCCAGACATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
29099984 ACTCACAAGT
Statistics
Matches: 148, Mismatches: 14, Indels: 22
0.80 0.08 0.12
Matches are distributed among these distances:
45 1 0.01
46 72 0.49
47 49 0.33
48 25 0.17
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGTAGC
Found at i:29099970 original size:94 final size:92
Alignment explanation
Indices: 29099763--29099988 Score: 269
Period size: 94 Copynumber: 2.4 Consensus size: 92
29099753 GGGTAAGGTT
** *
29099763 TCGATGCCATGTCCCAGACATGGTCTTACACTGATTA-TCATCTCGTAGCCGATGCATGTCCCAG
1 TCGATG-CATGTCCCAGACAT-GTCTTACACT-AGCACTCATCTCATAGCCGATGCATGTCCCAG
* *
29099827 ACATGTCTTACACTGGCTTACATCTCAAGG
63 ACATGTCTTACACTAGCTTACATATCAAGG
* * *
29099857 CCGATGCATGTCCCAGACATGTCTTGCACTAGCACTCGTCTCAATA-CCGATGCCATGTCCCAGA
1 TCGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTC-ATAGCCGATG-CATGTCCCAGA
* **
29099921 CATGGTCTTACACTAGCTTCCATAAT-GTGG
64 CAT-GTCTTACACTAGCTTACAT-ATCAAGG
29099951 TCGATGCATGTCCCAGACATGTCTTACACTAGCACTCA
1 TCGATGCATGTCCCAGACATGTCTTACACTAGCACTCA
29099989 CAAGTGACCC
Statistics
Matches: 113, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
91 2 0.02
92 21 0.19
93 30 0.27
94 59 0.52
95 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (92 bp):
TCGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCATAGCCGATGCATGTCCCAGACA
TGTCTTACACTAGCTTACATATCAAGG
Found at i:29103665 original size:22 final size:23
Alignment explanation
Indices: 29103631--29103674 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
29103621 TCTTTCAAAA
29103631 ATTATCAAAATTAATCAAAATTT
1 ATTATCAAAATTAATCAAAATTT
*
29103654 ATTAT-AAAATTAATTAAAATT
1 ATTATCAAAATTAATCAAAATT
29103675 CAAAATTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (23 bp):
ATTATCAAAATTAATCAAAATTT
Found at i:29106068 original size:18 final size:18
Alignment explanation
Indices: 29106036--29106074 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
29106026 ACTTTATTAG
** *
29106036 AAAAAACCTTGTGGGATA
1 AAAAAACCTAATGGGACA
29106054 AAAAAACCTAATGGGACA
1 AAAAAACCTAATGGGACA
29106072 AAA
1 AAA
29106075 CCTAATGAAG
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:0.54, C:0.13, G:0.18, T:0.15
Consensus pattern (18 bp):
AAAAAACCTAATGGGACA
Found at i:29109466 original size:31 final size:31
Alignment explanation
Indices: 29109431--29109492 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
29109421 TAAAGCTTAG
29109431 TAAGTCCATATGAAAATAATAAACACTATGC
1 TAAGTCCATATGAAAATAATAAACACTATGC
29109462 TAAGTCCATATGAAAATAATAAACACTATGC
1 TAAGTCCATATGAAAATAATAAACACTATGC
29109493 CAACAAGCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.48, C:0.16, G:0.10, T:0.26
Consensus pattern (31 bp):
TAAGTCCATATGAAAATAATAAACACTATGC
Found at i:29110236 original size:32 final size:32
Alignment explanation
Indices: 29110198--29110265 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
29110188 AGTTAACATG
29110198 ATATTGCAACAAAATTTATAATCATAATTCAT
1 ATATTGCAACAAAATTTATAATCATAATTCAT
29110230 ATATTGCAACAAAATTTATAATCATAATTCAT
1 ATATTGCAACAAAATTTATAATCATAATTCAT
29110262 ATAT
1 ATAT
29110266 CTTAGCTCAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (32 bp):
ATATTGCAACAAAATTTATAATCATAATTCAT
Found at i:29110751 original size:44 final size:44
Alignment explanation
Indices: 29110667--29110751 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
29110657 ACATGCATCA
* * *
29110667 CATCCATTATGAACTCAAACCAATTCAACGAGTTTGGATGCTCG
1 CATCCATTATGAACTCAAACCAACTCAACGAGCTTAGATGCTCG
* *
29110711 CATCCA-TAGTGAACTCAGACCAACTCAATGAGCTTAGATGC
1 CATCCATTA-TGAACTCAAACCAACTCAACGAGCTTAGATGC
29110752 CTCATATATA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 2 0.06
44 33 0.94
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (44 bp):
CATCCATTATGAACTCAAACCAACTCAACGAGCTTAGATGCTCG
Found at i:29113750 original size:23 final size:23
Alignment explanation
Indices: 29113723--29113768 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
29113713 TTATTTCTAT
*
29113723 ATGTAAAACATGTACAGGTTTTA
1 ATGTAAAACATGTACAAGTTTTA
29113746 ATGTAAAACATGTACAAGTTTTA
1 ATGTAAAACATGTACAAGTTTTA
29113769 TTCAACATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (23 bp):
ATGTAAAACATGTACAAGTTTTA
Found at i:29114972 original size:5 final size:5
Alignment explanation
Indices: 29114962--29114993 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
29114952 GTATATGTGA
29114962 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
29114994 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:29114987 original size:9 final size:9
Alignment explanation
Indices: 29114963--29114993 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
29114953 TATATGTGAA
29114963 AAATAAAAT
1 AAATAAAAT
29114972 AAAATAAAAT
1 -AAATAAAAT
29114982 AAATAAAAT
1 AAATAAAAT
29114991 AAA
1 AAA
29114994 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:29120216 original size:27 final size:27
Alignment explanation
Indices: 29120185--29120362 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
29120175 TAAATTGTAC
*
29120185 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
29120212 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
29120238 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
29120266 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
29120293 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * * *
29120321 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
29120348 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
29120363 GACTTAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:29120246 original size:54 final size:55
Alignment explanation
Indices: 29120185--29120362 Score: 236
Period size: 54 Copynumber: 3.3 Consensus size: 55
29120175 TAAATTGTAC
* **
29120185 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
* * * *
29120240 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
* *
29120293 AGCACTAAGTGTGCGAGTTTGATTATGTGGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGA-TTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
*
29120348 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
29120363 GACTTAATAT
Statistics
Matches: 107, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
53 1 0.01
54 60 0.56
55 46 0.43
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:29123020 original size:5 final size:5
Alignment explanation
Indices: 29123010--29123041 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
29123000 CAATTTGTGA
29123010 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
29123042 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:29123771 original size:6 final size:6
Alignment explanation
Indices: 29123760--29123819 Score: 50
Period size: 6 Copynumber: 10.0 Consensus size: 6
29123750 TTCATCCCCA
* * * *
29123760 AAAATC AAAATC AAAATTC AAATTC -AAATC CAAATC GAAATC GAAATC
1 AAAATC AAAATC AAAA-TC AAAATC AAAATC AAAATC AAAATC AAAATC
* *
29123808 GAAATC GAAATC
1 AAAATC AAAATC
29123820 CAAACCCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
5 4 0.08
6 40 0.82
7 5 0.10
ACGTcount: A:0.55, C:0.18, G:0.07, T:0.20
Consensus pattern (6 bp):
AAAATC
Found at i:29123800 original size:18 final size:18
Alignment explanation
Indices: 29123779--29123829 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
29123769 ATCAAAATTC
29123779 AAATTCAAATCCAAATCG
1 AAATTCAAATCCAAATCG
*
29123797 AAA-TCGAAATCGAAATCG
1 AAATTC-AAATCCAAATCG
* *
29123815 AAATCCAAACCCAAA
1 AAATTCAAATCCAAA
29123830 CCCTAATCCC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
17 2 0.07
18 24 0.89
19 1 0.04
ACGTcount: A:0.53, C:0.24, G:0.08, T:0.16
Consensus pattern (18 bp):
AAATTCAAATCCAAATCG
Found at i:29127826 original size:30 final size:30
Alignment explanation
Indices: 29127790--29127846 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
29127780 TGAGCAGGAA
29127790 TGATAAAGGGAAAGGGAAAATGGTTGATGC
1 TGATAAAGGGAAAGGGAAAATGGTTGATGC
*
29127820 TGATAAAGGGAAAGGGAAACTGGTTGA
1 TGATAAAGGGAAAGGGAAAATGGTTGA
29127847 CACCATAGCG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.40, C:0.04, G:0.37, T:0.19
Consensus pattern (30 bp):
TGATAAAGGGAAAGGGAAAATGGTTGATGC
Found at i:29129299 original size:111 final size:111
Alignment explanation
Indices: 29129178--29129393 Score: 272
Period size: 111 Copynumber: 1.9 Consensus size: 111
29129168 CCATACCAAC
* * * * * *
29129178 CAATTCAAAAATAACCCATCAAACATAAAGACGTATTTAAGCACAATTCAGTATACGAAATTATT
1 CAATTAAAAAATAAACCATCAAACAGAAACACGTATTTAAGCACAACTCAGTATACGAAAATATT
*
29129243 CATTAAACATAACAAAAAAAAAG-GTCAGAAACCATACCAATCACAA
66 CATCAAACATAA-AAAAAAAAAGAGTCAGAAACCATACCAATCACAA
* ** * ** *
29129289 CAATTAAAAAATAAACCATTAAACAGAGTCATGTATTTAAGCACGGCTCAGTATAGGAAAATATT
1 CAATTAAAAAATAAACCATCAAACAGAAACACGTATTTAAGCACAACTCAGTATACGAAAATATT
* *
29129354 CATCCAGCATAAAAAAAAAAAGAGTCAGAAACCATACCAA
66 CATCAAACATAAAAAAAAAAAGAGTCAGAAACCATACCAA
29129394 CTATTAAACA
Statistics
Matches: 88, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
110 10 0.11
111 78 0.89
ACGTcount: A:0.51, C:0.19, G:0.10, T:0.20
Consensus pattern (111 bp):
CAATTAAAAAATAAACCATCAAACAGAAACACGTATTTAAGCACAACTCAGTATACGAAAATATT
CATCAAACATAAAAAAAAAAAGAGTCAGAAACCATACCAATCACAA
Found at i:29138991 original size:41 final size:41
Alignment explanation
Indices: 29138946--29139046 Score: 193
Period size: 41 Copynumber: 2.5 Consensus size: 41
29138936 ATCAACGGGT
29138946 CTGCTCACACAAGCTGATGGTCATGACGTAGCTACACAGTG
1 CTGCTCACACAAGCTGATGGTCATGACGTAGCTACACAGTG
*
29138987 CTGCTCACATAAGCTGATGGTCATGACGTAGCTACACAGTG
1 CTGCTCACACAAGCTGATGGTCATGACGTAGCTACACAGTG
29139028 CTGCTCACACAAGCTGATG
1 CTGCTCACACAAGCTGATG
29139047 AGAATCCGCA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.23
Consensus pattern (41 bp):
CTGCTCACACAAGCTGATGGTCATGACGTAGCTACACAGTG
Found at i:29146102 original size:18 final size:18
Alignment explanation
Indices: 29146079--29146114 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
29146069 TCCTTTTTCA
29146079 ATACTGGTTGTGTCAACG
1 ATACTGGTTGTGTCAACG
29146097 ATACTGGTTGTGTCAACG
1 ATACTGGTTGTGTCAACG
29146115 TAGATGCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (18 bp):
ATACTGGTTGTGTCAACG
Found at i:29148635 original size:25 final size:25
Alignment explanation
Indices: 29148598--29148645 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
29148588 CTCCAAATAC
29148598 AAATTTACAACAAGCATAT-AAAAGG
1 AAATTTACAACAA-CATATCAAAAGG
29148623 AAATTATAC-ACAACATATCAAAA
1 AAATT-TACAACAACATATCAAAA
29148646 AGGCCATTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 13 0.62
26 3 0.14
ACGTcount: A:0.58, C:0.15, G:0.06, T:0.21
Consensus pattern (25 bp):
AAATTTACAACAACATATCAAAAGG
Found at i:29151032 original size:23 final size:24
Alignment explanation
Indices: 29151001--29151052 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
29150991 TGGCAAGCCT
*
29151001 ACTTCGCCA-AATCTGGTAAACAC
1 ACTTCGCCATAATCTGGCAAACAC
* * *
29151024 ACTTTGCCATATTCTGGCGAACAC
1 ACTTCGCCATAATCTGGCAAACAC
29151048 ACTTC
1 ACTTC
29151053 ACCACATTCT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.29, C:0.31, G:0.13, T:0.27
Consensus pattern (24 bp):
ACTTCGCCATAATCTGGCAAACAC
Found at i:29151061 original size:24 final size:24
Alignment explanation
Indices: 29151019--29151064 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
29151009 AAATCTGGTA
** *
29151019 AACACACTTTGCCATATTCTGGCG
1 AACACACTTCACCACATTCTGGCG
29151043 AACACACTTCACCACATTCTGG
1 AACACACTTCACCACATTCTGG
29151065 AAAATTTATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.28, C:0.33, G:0.13, T:0.26
Consensus pattern (24 bp):
AACACACTTCACCACATTCTGGCG
Found at i:29151656 original size:18 final size:17
Alignment explanation
Indices: 29151629--29151692 Score: 56
Period size: 18 Copynumber: 3.6 Consensus size: 17
29151619 TACGTTGGTG
*
29151629 GGGTTAGCATATTTTCAT
1 GGGTTCGCATATTTT-AT
* *
29151647 GGGTTCGCATACATGTAT
1 GGGTTCGCATA-TTTTAT
* *
29151665 AGGTTCGCATATTTTTT
1 GGGTTCGCATATTTTAT
29151682 AGGGTTCGCAT
1 -GGGTTCGCAT
29151693 GTAATAAGAC
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
17 3 0.08
18 31 0.86
19 2 0.06
ACGTcount: A:0.20, C:0.14, G:0.25, T:0.41
Consensus pattern (17 bp):
GGGTTCGCATATTTTAT
Found at i:29153756 original size:40 final size:41
Alignment explanation
Indices: 29153674--29153757 Score: 116
Period size: 40 Copynumber: 2.0 Consensus size: 41
29153664 ATCACATGTA
*
29153674 TCGCATCCATTATGAACTCATACCACTCAACGAGCTCGGATGC
1 TCGCATCCATTATGAACTC--ACCACTCAACGAGCTCAGATGC
**
29153717 TCGCATCCATTATGAACTC-GGACTCAACGAGCTCAGATGC
1 TCGCATCCATTATGAACTCACCACTCAACGAGCTCAGATGC
29153757 T
1 T
29153758 ACATATATCA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
40 19 0.50
43 19 0.50
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (41 bp):
TCGCATCCATTATGAACTCACCACTCAACGAGCTCAGATGC
Found at i:29156031 original size:42 final size:42
Alignment explanation
Indices: 29155985--29156102 Score: 166
Period size: 42 Copynumber: 2.8 Consensus size: 42
29155975 TAGCTTGTAC
*
29155985 CTTAAACTCACATGGGGAGCTTTGCTGATACACAACTTATCA
1 CTTAAGCTCACATGGGGAGCTTTGCTGATACACAACTTATCA
*
29156027 CTTAAGCTCACATAGAGG-GCTTTGCTGATACACAACTTATCA
1 CTTAAGCTCACAT-GGGGAGCTTTGCTGATACACAACTTATCA
** **
29156069 CTTAAGCTCATGTGGGGAGCTTCACTGATACACA
1 CTTAAGCTCACATGGGGAGCTTTGCTGATACACA
29156103 GCCTATAAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
41 3 0.04
42 61 0.91
43 3 0.04
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.28
Consensus pattern (42 bp):
CTTAAGCTCACATGGGGAGCTTTGCTGATACACAACTTATCA
Found at i:29156443 original size:13 final size:13
Alignment explanation
Indices: 29156421--29156453 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
29156411 AAGGGTTTGT
29156421 TTAT-TAAACTAA
1 TTATCTAAACTAA
29156433 TTATCTAAACTAA
1 TTATCTAAACTAA
*
29156446 TTAACTAA
1 TTATCTAA
29156454 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:29159372 original size:12 final size:11
Alignment explanation
Indices: 29159357--29159413 Score: 50
Period size: 12 Copynumber: 5.3 Consensus size: 11
29159347 AAGGAAATTG
29159357 AAATGAAAATAA
1 AAAT-AAAATAA
*
29159369 AAATCAAAAGAA
1 AAAT-AAAATAA
29159381 AAATAAGAAT-A
1 AAATAA-AATAA
29159392 AAAT-AAAT-A
1 AAATAAAATAA
29159401 AAA-AAAATAA
1 AAATAAAATAA
29159411 AAA
1 AAA
29159414 AATAGGAGGA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
9 11 0.28
10 5 0.13
11 7 0.18
12 16 0.41
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:29159383 original size:18 final size:17
Alignment explanation
Indices: 29159362--29159412 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
29159352 AATTGAAATG
29159362 AAAATAAAAATCAAAAGA
1 AAAATAAAAAT-AAAAGA
* *
29159380 AAAATAAGAATAAAATA
1 AAAATAAAAATAAAAGA
*
29159397 AATAAAAAAAATAAAA
1 AA-AATAAAAATAAAA
29159413 AAATAGGAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 7 0.25
18 21 0.75
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.14
Consensus pattern (17 bp):
AAAATAAAAATAAAAGA
Found at i:29164601 original size:13 final size:13
Alignment explanation
Indices: 29164579--29164611 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
29164569 AAGGGTTTGT
29164579 TTAT-TAAACTAG
1 TTATCTAAACTAG
29164591 TTATCTAAACTAG
1 TTATCTAAACTAG
*
29164604 TTAACTAA
1 TTATCTAA
29164612 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAG
Found at i:29169825 original size:28 final size:28
Alignment explanation
Indices: 29169737--29169833 Score: 85
Period size: 28 Copynumber: 3.5 Consensus size: 28
29169727 TACCGGATGT
29169737 TTCGCACACTAAGTGTCATCATCAATAC
1 TTCGCACACTAAGTGTCATCATCAATAC
** * * *
29169765 TTCATACACT--GTGTCAT-TTCGGATGTC
1 TTCGCACACTAAGTGTCATCATC-AAT-AC
* *
29169792 TT-GCACACTAAGTGTCATCCTCTATAC
1 TTCGCACACTAAGTGTCATCATCAATAC
29169819 TTCGCACACTAAGTG
1 TTCGCACACTAAGTG
29169834 CCATTCGTTT
Statistics
Matches: 53, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
25 2 0.04
26 14 0.26
27 6 0.11
28 29 0.55
29 2 0.04
ACGTcount: A:0.26, C:0.27, G:0.14, T:0.33
Consensus pattern (28 bp):
TTCGCACACTAAGTGTCATCATCAATAC
Found at i:29171017 original size:35 final size:35
Alignment explanation
Indices: 29170971--29171040 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
29170961 CTTGTTAATG
29170971 ATGCATGTGATGGTGGATTGATGATTCTTGAATCT
1 ATGCATGTGATGGTGGATTGATGATTCTTGAATCT
29171006 ATGCATGTGATGGTGGATTGATGATTCTTGAATCT
1 ATGCATGTGATGGTGGATTGATGATTCTTGAATCT
29171041 TCTTTTTAGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.23, C:0.09, G:0.29, T:0.40
Consensus pattern (35 bp):
ATGCATGTGATGGTGGATTGATGATTCTTGAATCT
Found at i:29171922 original size:40 final size:39
Alignment explanation
Indices: 29171838--29172021 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 39
29171828 TTGAATGATG
* * * *
29171838 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
29171878 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
29171918 TCCGGGCTAAG-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
29171956 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
29171997 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
29172022 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
38 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:29171973 original size:78 final size:80
Alignment explanation
Indices: 29171838--29172021 Score: 216
Period size: 78 Copynumber: 2.3 Consensus size: 80
29171828 TTGAATGATG
*
29171838 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
29171902 TGTGCGAGATACTA-A
65 TGTGCGAGATACTATA
* * * **
29171917 TTCCGGGCTAAG-CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
*
29171979 TTGTGCGAGTTACTATA
64 TTGTGCGAGATACTATA
* *
29171996 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAG-CCCGAAGGCATTTG
29172022 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
77 1 0.01
78 57 0.63
79 8 0.09
80 24 0.27
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTATA
Found at i:29179943 original size:41 final size:39
Alignment explanation
Indices: 29179778--29179963 Score: 198
Period size: 40 Copynumber: 4.6 Consensus size: 39
29179768 TGAATGATGT
* * * *
29179778 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* * *
29179818 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
29179858 CCGGGCTAAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
29179897 TCCGGGTTAAGTCCCGAAGGCATTTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCA-TTTGTGCGAGTTACTA-AA
*
29179939 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
29179964 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
39 4 0.03
40 74 0.59
41 46 0.37
42 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:29179945 original size:81 final size:81
Alignment explanation
Indices: 29179778--29179963 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 81
29179768 TGAATGATGT
*
29179778 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
*
29179842 GTGCGAGATACTAATT
66 GTGCGAGATACTAATA
* * * **
29179858 CCGGGCTAAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA-
*
29179920 TTTGTGCGAGTTACT-ATAA
63 TTTGTGCGAGATACTAAT-A
*
29179939 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
29179964 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
79 1 0.01
80 45 0.49
81 45 0.49
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATA
Found at i:29179970 original size:81 final size:79
Alignment explanation
Indices: 29179830--29179996 Score: 196
Period size: 81 Copynumber: 2.1 Consensus size: 79
29179820 GGACTAAGAT
* **
29179830 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAAGCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAAGCCCGAAGGCATTTGAACGAG-TAGCT
*
29179894 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
* *
29179910 CCGAAGGCATTTTGTGCGAGTTACT-ATAACCGGGCT-ATGTCCCGAAGGCATTTGAACGAGTAG
1 CCGAAGGCA-TTTGTGCGAGATACTAAT-ACCGGGCTAAAG-CCCGAAGGCATTTGAACGAGTAG
* *
29179973 CTATATCCGGTTAAATT
63 CTAAATCCGGTTAAATC
29179990 CCGAAGG
1 CCGAAGG
29179997 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
80 29 0.39
81 46 0.61
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAAGCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:29184404 original size:34 final size:34
Alignment explanation
Indices: 29184356--29184436 Score: 99
Period size: 34 Copynumber: 2.3 Consensus size: 34
29184346 TACTAAATTG
* *
29184356 GGCTAAGGCCCAGACTACTAGTGTTACTGAAATA
1 GGCTAAGGCCCAGACTACTACTGCTACTGAAATA
* * *
29184390 GGCTTAGGCCCAGACTGCTACTGCTACTGAAAGA
1 GGCTAAGGCCCAGACTACTACTGCTACTGAAATA
29184424 GGGGCTAAGGCCC
1 --GGCTAAGGCCC
29184437 TAACTGAAAC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
34 29 0.74
36 10 0.26
ACGTcount: A:0.27, C:0.25, G:0.28, T:0.20
Consensus pattern (34 bp):
GGCTAAGGCCCAGACTACTACTGCTACTGAAATA
Found at i:29187920 original size:39 final size:39
Alignment explanation
Indices: 29187877--29187958 Score: 128
Period size: 39 Copynumber: 2.1 Consensus size: 39
29187867 AATTATGTTA
* *
29187877 CCAGCACAAAGCCTGTGGGACTTTAGCCTGGATACATTT
1 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
29187916 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
29187955 CCAG
1 CCAG
29187959 TGTCTTGCTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.23
Consensus pattern (39 bp):
CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:29191190 original size:17 final size:17
Alignment explanation
Indices: 29191103--29191203 Score: 62
Period size: 17 Copynumber: 5.5 Consensus size: 17
29191093 TATAAAGTAA
*
29191103 AAGGAATAAAAAGAAA-
1 AAGGAAAAAAAAGAAAG
29191119 AA-GAATAGAAAAAGAAAG
1 AAGGAA-A-AAAAAGAAAG
*
29191137 AAAGGATGAAACGAAACAGAGAG
1 -AAGGA--AAA--AAA-AGAAAG
* * *
29191160 CAAGGGAAAGAAAGAAGG
1 -AAGGAAAAAAAAGAAAG
29191178 AAGGAAAAAAAAGAAAG
1 AAGGAAAAAAAAGAAAG
29191195 AAGGAAAAA
1 AAGGAAAAA
29191204 GGGAAAAATT
Statistics
Matches: 65, Mismatches: 10, Indels: 19
0.69 0.11 0.20
Matches are distributed among these distances:
15 3 0.05
16 2 0.03
17 32 0.49
18 4 0.06
19 4 0.06
20 3 0.05
21 4 0.06
22 4 0.06
23 9 0.14
ACGTcount: A:0.67, C:0.03, G:0.27, T:0.03
Consensus pattern (17 bp):
AAGGAAAAAAAAGAAAG
Found at i:29191210 original size:21 final size:22
Alignment explanation
Indices: 29191161--29191210 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 22
29191151 AACAGAGAGC
29191161 AAGGG-AAAGAAAGAAGGAAGGA
1 AAGGGAAAAGAAAGAAGGAA-GA
*
29191183 AA--AAAAAGAAAGAAGGAA-A
1 AAGGGAAAAGAAAGAAGGAAGA
29191202 AAGGGAAAA
1 AAGGGAAAA
29191211 ATTGGGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 7
0.72 0.06 0.22
Matches are distributed among these distances:
19 3 0.13
21 18 0.78
22 2 0.09
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (22 bp):
AAGGGAAAAGAAAGAAGGAAGA
Found at i:29193336 original size:46 final size:46
Alignment explanation
Indices: 29193284--29193375 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
29193274 AGTGTGCTTT
* *
29193284 CTGATATGAAATGTGTAAGACCATGGTTGGAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
29193330 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
29193376 GTGACAGAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
Found at i:29193388 original size:46 final size:46
Alignment explanation
Indices: 29193284--29193413 Score: 154
Period size: 46 Copynumber: 2.7 Consensus size: 46
29193274 AGTGTGCTTT
* * *
29193284 CTGATATGAAATGTGTAAGACCATGGTTGGAAGATACCATGGCAAC
1 CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
*
29193330 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
* *
29193376 GTGACA-GAAAATGAATGAGTAAGACCATAGTTGAAAGA
1 CTGACATG-AAATG--T--GTAAGACCATGGTTGAAAGA
29193414 CACTATGGCA
Statistics
Matches: 74, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
45 1 0.01
46 53 0.72
48 1 0.01
50 19 0.26
ACGTcount: A:0.40, C:0.13, G:0.25, T:0.22
Consensus pattern (46 bp):
CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
Found at i:29198055 original size:45 final size:45
Alignment explanation
Indices: 29197892--29198112 Score: 169
Period size: 49 Copynumber: 4.7 Consensus size: 45
29197882 TATCCATCAA
* * *
29197892 GTCGATGCCATGTCCCAGACA-GATCTTACACTAACTTTCATATATCGAG
1 GTCGATG-CATGTCCCAGACATG-TCTTACACTGAC--T-ACATCTCGAG
* * ** * ***
29197941 GCCGATGTCATGTCCCAGACAGGTCTTACACTGGTTTTCATCTATTG
1 GTCGATG-CATGTCCCAGACATGTCTTACACT-GACTACATCTCGAG
*
29197988 GTTTCAATGCCATGTCCCAGACATGGTCTTACACTGAC-ACATCTCGTA-
1 G--TCGATG-CATGTCCCAGACAT-GTCTTACACTGACTACATCTCG-AG
*
29198036 GTCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAG
1 GTCGATGCATGTCCCAGACATGTCTTACACTGAC-TACATCTCGAG
* *
29198082 GTTGATGCATGTCTCAGACATGTCTTACACT
1 GTCGATGCATGTCCCAGACATGTCTTACACT
29198113 AGCTCTCGTC
Statistics
Matches: 138, Mismatches: 25, Indels: 21
0.75 0.14 0.11
Matches are distributed among these distances:
44 12 0.09
45 15 0.11
46 42 0.30
47 5 0.04
48 7 0.05
49 46 0.33
50 11 0.08
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (45 bp):
GTCGATGCATGTCCCAGACATGTCTTACACTGACTACATCTCGAG
Found at i:29198091 original size:46 final size:47
Alignment explanation
Indices: 29197850--29198160 Score: 203
Period size: 46 Copynumber: 6.6 Consensus size: 47
29197840 TAATGCCGAC
* *
29197850 GCCATGTCCTAGACATGGTCTTTACACTGGCTT--ATCCATC-AAGTCGAT
1 GCCATGTCCCAGACAT-GTC-TTACACTGGCTTACAT-C-TCGAGGTCGAT
** * * *
29197898 GCCATGTCCCAGACA-GATCTTACACTAACTTTCATATATCGAGGCCGAT
1 GCCATGTCCCAGACATG-TCTTACACTGGC-TT-ACATCTCGAGGTCGAT
* * * * *** *
29197947 GTCATGTCCCAGACAGGTCTTACACTGGTTTTCATCTATTGGTTTCAAT
1 GCCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGG--TCGAT
*
29197996 GCCATGTCCCAGACATGGTCTTACACTGAC--ACATCTCGTA-GTCGAT
1 GCCATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCG-AGGTCGAT
*
29198042 G-CATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGTTGAT
1 GCCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGTCGAT
* * * * * *
29198088 G-CATGTCTCAGACATGTCTTACACTAGCTCT-CGTCTCAATG-CTAAT
1 GCCATGTCCCAGACATGTCTTACACTGGCT-TACATCTCGAGGTC-GAT
*
29198134 GCCATGTCCTAGACATGGTCTTACACT
1 GCCATGTCCCAGACAT-GTCTTACACT
29198161 AAGTCTCGTA
Statistics
Matches: 207, Mismatches: 38, Indels: 36
0.74 0.14 0.13
Matches are distributed among these distances:
44 12 0.06
45 15 0.07
46 64 0.31
47 22 0.11
48 34 0.16
49 46 0.22
50 14 0.07
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.31
Consensus pattern (47 bp):
GCCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGTCGAT
Found at i:29198112 original size:140 final size:140
Alignment explanation
Indices: 29197850--29198207 Score: 345
Period size: 140 Copynumber: 2.5 Consensus size: 140
29197840 TAATGCCGAC
* * *
29197850 GCCATGTCCTAGACATGGTCTTTACACTGGCTTATCCATC-AAGTCGATGCCATGTCCCAGACA-
1 GCCATGTCCTAGACATGGTC-TTACACTGAC-AAT-C-TCGTAGTCGATG-CATGTCCCAGACAT
* * * *
29197913 GATCTTACACTAACTTTCATATATCGAGGCCGATGTCATGTCCCAGACAGGTCTTACACTGGTTT
61 G-TCTTACACTAACTTTCACATATCGAGGCCGATGTCATGTCCCAGACAGGTCTTACACTAGCTC
* *
29197978 TCATCT-ATTGGTTTCAAT
125 TCATCTCAAT-G-CT-AAT
*
29197996 GCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTAGTCGATGCATGTCCCAGACATGTCT
1 GCCATGTCCTAGACATGGTCTTACACTGACA-ATCTCGTAGTCGATGCATGTCCCAGACATGTCT
** * ** * * *
29198061 TACACTGGC-TT-ACATCTCGAGGTTGATG-CATGTCTCAGACATGTCTTACACTAGCTCTCGTC
65 TACACTAACTTTCACATATCGAGGCCGATGTCATGTCCCAGACAGGTCTTACACTAGCTCTCATC
29198123 TCAATGCTAAT
130 TCAATGCTAAT
* *
29198134 GCCATGTCCTAGACATGGTCTTACACT-A-AGTCTCGTAATGTGGCTGATGCATGTCACAGACAT
1 GCCATGTCCTAGACATGGTCTTACACTGACAATCTCGT-A-GT--C-GATGCATGTCCCAGACAT
29198197 GTCTTACACTA
61 GTCTTACACTA
29198208 GCACACAAAT
Statistics
Matches: 181, Mismatches: 22, Indels: 24
0.80 0.10 0.11
Matches are distributed among these distances:
135 6 0.03
136 2 0.01
137 3 0.02
138 29 0.16
139 2 0.01
140 57 0.31
141 15 0.08
142 2 0.01
143 25 0.14
144 10 0.06
145 11 0.06
146 19 0.10
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (140 bp):
GCCATGTCCTAGACATGGTCTTACACTGACAATCTCGTAGTCGATGCATGTCCCAGACATGTCTT
ACACTAACTTTCACATATCGAGGCCGATGTCATGTCCCAGACAGGTCTTACACTAGCTCTCATCT
CAATGCTAAT
Found at i:29203503 original size:14 final size:14
Alignment explanation
Indices: 29203471--29203532 Score: 63
Period size: 14 Copynumber: 4.2 Consensus size: 14
29203461 TTTAGGCTTC
29203471 ATTGCAACTTGCACA
1 ATTGCAACTTGCA-A
29203486 ACTTGC-ACATTGCAA
1 A-TTGCAAC-TTGCAA
* *
29203501 CTTGCAAATTGCAA
1 ATTGCAACTTGCAA
29203515 ATTGCAACTTGCACA
1 ATTGCAACTTGCA-A
29203530 ATT
1 ATT
29203533 AGGTAAGTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
14 21 0.54
15 9 0.23
16 9 0.23
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (14 bp):
ATTGCAACTTGCAA
Found at i:29203518 original size:21 final size:22
Alignment explanation
Indices: 29203471--29203532 Score: 99
Period size: 21 Copynumber: 2.8 Consensus size: 22
29203461 TTTAGGCTTC
*
29203471 ATTGCAACTTGCACAACTTGCAC
1 ATTGCAACTTGCACAA-TTGCAA
29203494 ATTGCAACTTGCA-AATTGCAA
1 ATTGCAACTTGCACAATTGCAA
29203515 ATTGCAACTTGCACAATT
1 ATTGCAACTTGCACAATT
29203533 AGGTAAGTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
21 18 0.49
22 6 0.16
23 13 0.35
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (22 bp):
ATTGCAACTTGCACAATTGCAA
Found at i:29206252 original size:7 final size:7
Alignment explanation
Indices: 29206242--29206267 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
29206232 ATAAAGGTTA
29206242 AAAATGT
1 AAAATGT
29206249 AAAATGT
1 AAAATGT
29206256 AAAATGT
1 AAAATGT
29206263 AAAAT
1 AAAAT
29206268 AATATATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.27
Consensus pattern (7 bp):
AAAATGT
Found at i:29208844 original size:47 final size:47
Alignment explanation
Indices: 29208781--29208885 Score: 192
Period size: 47 Copynumber: 2.2 Consensus size: 47
29208771 CCCTTCGGGA
* *
29208781 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
29208828 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
29208875 CTTATCACATA
1 CTTATCACATA
29208886 ATTAATACTA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
Found at i:29218812 original size:37 final size:37
Alignment explanation
Indices: 29218748--29218823 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
29218738 TTACAAGCCA
29218748 AAATCATTATAAGCCACATCTCATGGCTATAT-ACAAC
1 AAATCATTATAAGCCACATCTCATGGCTA-ATCACAAC
*
29218785 AAATCATTATAAGCCA-ATACAT-TTGGCTAATCACAAC
1 AAATCATTATAAGCCACAT-C-TCATGGCTAATCACAAC
29218822 AA
1 AA
29218824 CATCGATCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
36 4 0.11
37 30 0.86
38 1 0.03
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.26
Consensus pattern (37 bp):
AAATCATTATAAGCCACATCTCATGGCTAATCACAAC
Found at i:29222708 original size:50 final size:46
Alignment explanation
Indices: 29222637--29222758 Score: 136
Period size: 46 Copynumber: 2.6 Consensus size: 46
29222627 TGTCTTCGAC
** * *
29222637 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC----ATATATCTAAT
* * *
29222687 ATGGGCTTACATGGCTCATTCCTATCTCCAAAGCCATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATCTAAT
*
29222733 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
29222759 CTGTCCTGTC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
46 33 0.53
50 29 0.47
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (46 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATCTAAT
Found at i:29231353 original size:34 final size:34
Alignment explanation
Indices: 29231310--29231381 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
29231300 GTGCATTCTA
* *
29231310 TACTGAAATGGG-ATATGGCCTAGGCTGCCACTGC
1 TACTGAAATGGGCATAGGGCC-AGACTGCCACTGC
* *
29231344 TACTGAAATGGGCTTAGGGCCAGACTGCTACTGC
1 TACTGAAATGGGCATAGGGCCAGACTGCCACTGC
29231378 TACT
1 TACT
29231382 CAAAGAGGGG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 27 0.82
35 6 0.18
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (34 bp):
TACTGAAATGGGCATAGGGCCAGACTGCCACTGC
Found at i:29231936 original size:34 final size:34
Alignment explanation
Indices: 29231898--29231964 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
29231888 AAGTTTTATG
* **
29231898 TAGAATGAATTTTCATGCAATTTGTGTTTTGGAT
1 TAGAACGAATTTTCACACAATTTGTGTTTTGGAT
29231932 TAGAACGAATTTTCACACAATTTGTGTTTTGGA
1 TAGAACGAATTTTCACACAATTTGTGTTTTGGA
29231965 AAAACACTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.43
Consensus pattern (34 bp):
TAGAACGAATTTTCACACAATTTGTGTTTTGGAT
Found at i:29237630 original size:53 final size:53
Alignment explanation
Indices: 29237515--29237656 Score: 149
Period size: 53 Copynumber: 2.6 Consensus size: 53
29237505 AGGAAATCAT
* * * * * * * *
29237515 GTAAGACTATGTCAAGACATGGCATTGATAAACTACTATAAGGCAAAGATCCCAT
1 GTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGCAAAGATACCAC
* * *
29237570 GTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAAGGATACCAC
1 GTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAAGATACCAC
* *
29237623 GTAAGACCATGTCAAGACATTGCAATGGTAAGTT
1 GTAAGACCATGCCAAGACATGGCAATGGTAAGTT
29237657 TAAAAAGGAA
Statistics
Matches: 72, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
53 45 0.62
54 3 0.04
55 24 0.33
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (53 bp):
GTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAAGATACCAC
Found at i:29240516 original size:48 final size:48
Alignment explanation
Indices: 29240463--29240559 Score: 160
Period size: 48 Copynumber: 2.0 Consensus size: 48
29240453 ACTTCTCTTT
* *
29240463 GGCCGAATATCACTAGTCC-TTCCTCTCACAATCCTTTTTTGGTTTTTA
1 GGCCGAATATCACTAG-CCATTCCTCTCACAATCCCTTTTAGGTTTTTA
29240511 GGCCGAATATCACTAGCCATTCCTCTCACAATCCCTTTTAGGTTTTTA
1 GGCCGAATATCACTAGCCATTCCTCTCACAATCCCTTTTAGGTTTTTA
29240559 G
1 G
29240560 CCTTGCTTGG
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
47 2 0.04
48 44 0.96
ACGTcount: A:0.21, C:0.28, G:0.13, T:0.38
Consensus pattern (48 bp):
GGCCGAATATCACTAGCCATTCCTCTCACAATCCCTTTTAGGTTTTTA
Found at i:29250423 original size:27 final size:27
Alignment explanation
Indices: 29250382--29250459 Score: 90
Period size: 27 Copynumber: 3.0 Consensus size: 27
29250372 TTGGGTTATT
29250382 AATACCCC--TAGTGTAAAATTATTGA
1 AATACCCCTGTAGTGTAAAATTATTGA
* **
29250407 AATACCCTTGTAGTGTAAAATTACCGA
1 AATACCCCTGTAGTGTAAAATTATTGA
*
29250434 AATACCCCTGTA-TGGTAAAATGATTG
1 AATACCCCTGTAGT-GTAAAATTATTG
29250460 TTTTGCCCCT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
25 7 0.16
26 1 0.02
27 35 0.81
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (27 bp):
AATACCCCTGTAGTGTAAAATTATTGA
Found at i:29250873 original size:27 final size:27
Alignment explanation
Indices: 29250810--29250888 Score: 79
Period size: 27 Copynumber: 3.0 Consensus size: 27
29250800 TATTTAGCTG
* **
29250810 TGGCTATGTGCCTATCATATTTATTAA
1 TGGCTATGTGCCGATCATATTTACCAA
* * *
29250837 TGACTCTGTGCCGATCATATTTACCCA
1 TGGCTATGTGCCGATCATATTTACCAA
* *
29250864 TGGCTGTGTGCCGATTATA-TTACCA
1 TGGCTATGTGCCGATCATATTTACCA
29250889 TTGTTGATGG
Statistics
Matches: 42, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
26 5 0.12
27 37 0.88
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.38
Consensus pattern (27 bp):
TGGCTATGTGCCGATCATATTTACCAA
Found at i:29252536 original size:24 final size:24
Alignment explanation
Indices: 29252342--29252535 Score: 255
Period size: 24 Copynumber: 8.0 Consensus size: 24
29252332 TCTTTATCAT
*
29252342 ATAACTGGAGGCCT-AGCCCCTTTTA
1 ATAACTGG-GGCATAAG-CCCTTTTA
*
29252367 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
** *
29252391 ATAACTGAAGCATAAGCCCTTCTA
1 ATAACTGGGGCATAAGCCCTTTTA
29252415 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
**
29252439 ATAACTGGGGCATAAGCCCTTTCG
1 ATAACTGGGGCATAAGCCCTTTTA
29252463 ATAACTGGGGCATAAGCCCTTTTTTA
1 ATAACTGGGGCATAAGCCC--TTTTA
* * *
29252489 ATAACTGGTGCATAAGCTCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
29252513 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
29252536 GCACTTCCTC
Statistics
Matches: 148, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
24 118 0.80
25 10 0.07
26 20 0.14
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:29252610 original size:20 final size:20
Alignment explanation
Indices: 29252585--29252651 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
29252575 TTATGAATAC
29252585 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
29252605 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
29252625 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
29252645 ACCATGT
1 ATCATGT
29252652 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:29252616 original size:11 final size:11
Alignment explanation
Indices: 29252585--29252640 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
29252575 TTATGAATAC
29252585 ATCATGTGCAT
1 ATCATGTGCAT
*
29252596 ATCA--TACAT
1 ATCATGTGCAT
29252605 ATCATGTGCAT
1 ATCATGTGCAT
*
29252616 ATCA--TACAT
1 ATCATGTGCAT
*
29252625 GTCATGTGCAT
1 ATCATGTGCAT
29252636 ATCAT
1 ATCAT
29252641 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:29253017 original size:17 final size:17
Alignment explanation
Indices: 29252995--29253035 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
29252985 TTTTTACAAA
29252995 TGGGCCCGAAAGCCCAT
1 TGGGCCCGAAAGCCCAT
*
29253012 TGGGCCCGAAAGCCTAT
1 TGGGCCCGAAAGCCCAT
29253029 TGGGCCC
1 TGGGCCC
29253036 CACTTCGGCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.20, C:0.34, G:0.32, T:0.15
Consensus pattern (17 bp):
TGGGCCCGAAAGCCCAT
Found at i:29253986 original size:27 final size:27
Alignment explanation
Indices: 29253861--29254096 Score: 163
Period size: 27 Copynumber: 8.7 Consensus size: 27
29253851 TTCATCCTAC
* * * *
29253861 AAGGGTGTTTTGGTAAATCTACAAACC
1 AAGGGTATTTTGGTAATTTTACAAACT
* ** ** *
29253888 AAGGCTATTTCAGTAATTTTGTAAACC
1 AAGGGTATTTTGGTAATTTTACAAACT
* * * *
29253915 AATGGTATTTCT-ATAATTTCTAGAAAGT
1 AAGGGTATTT-TGGTAATTT-TACAAACT
** *
29253943 CAAGGGTATTTCT-GTAATTTTGTAAATT
1 -AAGGGTATTT-TGGTAATTTTACAAACT
*
29253971 AAGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTGGTAATTTTACAAACT
* * * *
29253998 GAGGGTATTTCGATAATTTCACAAAC-
1 AAGGGTATTTTGGTAATTTTACAAACT
* *
29254024 CAGTGGTATTTCGGTAATTTTACAAACT
1 AAG-GGTATTTTGGTAATTTTACAAACT
*
29254052 AGGGGTATTTTGGTAATTTTACAAACT
1 AAGGGTATTTTGGTAATTTTACAAACT
* *
29254079 AGGGGTATTTTTGTAATT
1 AAGGGTATTTTGGTAATT
29254097 CTATCCTATA
Statistics
Matches: 168, Mismatches: 35, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
26 3 0.02
27 138 0.82
28 10 0.06
29 17 0.10
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (27 bp):
AAGGGTATTTTGGTAATTTTACAAACT
Found at i:29254032 original size:54 final size:54
Alignment explanation
Indices: 29253973--29254129 Score: 165
Period size: 54 Copynumber: 2.9 Consensus size: 54
29253963 TGTAAATTAA
*
29253973 GGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCGATAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTCGATAATTTCACAAACCAG
* * * * * *
29254027 TGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGATAATTTCACAAACCAG
* * ** * *
29254081 GGGTATTTTTGTAATTCTATCCTA-TAGGGGTATTTCAATAATTTGACAA
1 GGGTATTTTGGTAATTTTA-CAAACTAGGGGTATTTCGATAATTTCACAA
29254130 TCGAGGGTAA
Statistics
Matches: 84, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
54 80 0.95
55 4 0.05
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGATAATTTCACAAACCAG
Found at i:29254116 original size:81 final size:81
Alignment explanation
Indices: 29253918--29254088 Score: 209
Period size: 81 Copynumber: 2.1 Consensus size: 81
29253908 GTAAACCAAT
* * * * * ** *
29253918 GGTATTTCTATAATTTCTAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATTAAGGGTATTTTG
1 GGTATTTCGATAATTTC-ACAAA-CCAGGGGTATTTCGGTAATTTTACAAACTAAGGGTATTTTG
*
29253983 GTAATTTTACAAATTGAG
64 GTAATTTTACAAATAGAG
* *
29254001 GGTATTTCGATAATTTCACAAACCAGTGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGT
1 GGTATTTCGATAATTTCACAAACCAGGGGTATTTCGGTAATTTTACAAACTAAGGGTATTTTGGT
29254066 AATTTTACAAACTAG-G
66 AATTTTACAAA-TAGAG
29254082 GGTATTT
1 GGTATTT
29254089 TTGTAATTCT
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
81 54 0.71
82 6 0.08
83 16 0.21
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (81 bp):
GGTATTTCGATAATTTCACAAACCAGGGGTATTTCGGTAATTTTACAAACTAAGGGTATTTTGGT
AATTTTACAAATAGAG
Found at i:29254152 original size:27 final size:27
Alignment explanation
Indices: 29254128--29254325 Score: 263
Period size: 27 Copynumber: 7.3 Consensus size: 27
29254118 ATAATTTGAC
29254128 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
29254155 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTTTGTA
* *
29254182 AATCGAGGGTAAAATGATAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* *
29254209 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* *
29254236 AATTGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* * * *
29254263 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* **
29254290 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTTTGTA
29254317 AATCGAGGG
1 AATCGAGGG
29254326 CATTTCAGTA
Statistics
Matches: 154, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
26 1 0.01
27 152 0.99
28 1 0.01
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTTTGTA
Found at i:29254243 original size:81 final size:81
Alignment explanation
Indices: 29254128--29254325 Score: 306
Period size: 81 Copynumber: 2.4 Consensus size: 81
29254118 ATAATTTGAC
* * * *
29254128 AATCGAGGGTAAAATGGTAATTTTGTAAACTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
1 AATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTA
* *
29254193 AAATGATAATTCTGTA
66 AAACGATAATTCTATA
*
29254209 AATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTA
*
29254274 AAACGGTAATTCTATA
66 AAACGATAATTCTATA
* *
29254290 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAATGGTAATTCTATAAATTGAGGG
29254326 CATTTCAGTA
Statistics
Matches: 107, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 107 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.29
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTA
AAACGATAATTCTATA
Found at i:29268165 original size:39 final size:39
Alignment explanation
Indices: 29268076--29268330 Score: 377
Period size: 39 Copynumber: 6.5 Consensus size: 39
29268066 ACAAAGCATA
* * *
29268076 CGGGACTTTAAGCCCGGATATAATACCAGTAC-AAAGCCTT
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
*
29268116 CGGGACTTAGCCCAGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
29268155 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
29268194 CGGGACTTAGCCCGAATATAACACCAGCATGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
29268233 CGGGACTTAGCCCGGATATAACACCAGCATGAATTCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
29268272 CGGGACTTAGCCCGGATATAACACCAGCACAAACGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
29268311 CGGGAATTAGCCAGGATATA
1 CGGGACTTAGCCCGGATATA
29268331 TATCTCACAC
Statistics
Matches: 199, Mismatches: 15, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
38 19 0.10
39 174 0.87
40 6 0.03
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:29275743 original size:41 final size:42
Alignment explanation
Indices: 29275669--29275814 Score: 121
Period size: 41 Copynumber: 3.6 Consensus size: 42
29275659 TTTATCAAAT
* **
29275669 CACCGGCATTTAGCCTGCTAGGTTTTAAACCCGA-ATTC-GTC
1 CACCGGCATTTAGCCTGCTAGGCTCGAAACCCGATA-TCAGTC
* * * *
29275710 CACCGGCATTTCGCCTGCTAGGCTCGAAGCCCGATATCATTT
1 CACCGGCATTTAGCCTGCTAGGCTCGAAACCCGATATCAGTC
*
29275752 CACCGGCATTATAGCCTGCTAGGCCCGAATA---G-TATC--T-
1 CACCGGCATT-TAGCCTGCTAGGCTCGAA-ACCCGATATCAGTC
29275789 CACCGGCATTATAGCCTGCTAGGCTC
1 CACCGGCATT-TAGCCTGCTAGGCTC
29275815 AAAGGCCCGA
Statistics
Matches: 90, Mismatches: 11, Indels: 12
0.80 0.10 0.11
Matches are distributed among these distances:
37 25 0.28
38 1 0.01
40 4 0.04
41 32 0.36
42 12 0.13
43 16 0.18
ACGTcount: A:0.21, C:0.32, G:0.21, T:0.26
Consensus pattern (42 bp):
CACCGGCATTTAGCCTGCTAGGCTCGAAACCCGATATCAGTC
Found at i:29275793 original size:37 final size:37
Alignment explanation
Indices: 29275751--29275902 Score: 124
Period size: 45 Copynumber: 3.7 Consensus size: 37
29275741 CGATATCATT
*
29275751 TCACCGGCATTATAGCCTGCTAGGCCCGAATAGTATC
1 TCACCGGCATCATAGCCTGCTAGGCCCGAATAGTATC
*
29275788 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATCATAG-C--CT--GCT---AGGCCCGAATAGTATC
*
29275833 TCACCGGTATCATAGCCTGCTAGGCTCAAAGGCTCGAATAGTATC
1 TCACCGGCATCATAGCCTGCTAGG--C-----C-CGAATAGTATC
*
29275878 TCATCGGCATCATAGCCTGCTAGGC
1 TCACCGGCATCATAGCCTGCTAGGC
29275903 TCAAAGACCC
Statistics
Matches: 95, Mismatches: 4, Indels: 26
0.76 0.03 0.21
Matches are distributed among these distances:
37 18 0.19
38 1 0.01
39 1 0.01
40 5 0.05
42 5 0.05
43 1 0.01
44 2 0.02
45 62 0.65
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (37 bp):
TCACCGGCATCATAGCCTGCTAGGCCCGAATAGTATC
Found at i:29275836 original size:45 final size:45
Alignment explanation
Indices: 29275772--29275920 Score: 253
Period size: 45 Copynumber: 3.3 Consensus size: 45
29275762 ATAGCCTGCT
*
29275772 AGGCCCGAATAGTATCTCACCGGCATTATAGCCTGCTAGGCTCAA
1 AGGCCCGAATAGTATCTCACCGGCATCATAGCCTGCTAGGCTCAA
*
29275817 AGGCCCGAATAGTATCTCACCGGTATCATAGCCTGCTAGGCTCAA
1 AGGCCCGAATAGTATCTCACCGGCATCATAGCCTGCTAGGCTCAA
* *
29275862 AGGCTCGAATAGTATCTCATCGGCATCATAGCCTGCTAGGCTCAA
1 AGGCCCGAATAGTATCTCACCGGCATCATAGCCTGCTAGGCTCAA
*
29275907 AGACCCGAATAGTA
1 AGGCCCGAATAGTA
29275921 CCGTACAATA
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 97 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (45 bp):
AGGCCCGAATAGTATCTCACCGGCATCATAGCCTGCTAGGCTCAA
Found at i:29278454 original size:37 final size:37
Alignment explanation
Indices: 29278404--29278478 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
29278394 AGCATACAAT
*
29278404 GAGTTTACTTTGAGTTATTCGAACTTTCCTGGTATTC
1 GAGTTTACTTTGAGTTATTCGAACTTACCTGGTATTC
*
29278441 GAGTTTACTTTGAGTTATTCGAACTTACTTGGTATTC
1 GAGTTTACTTTGAGTTATTCGAACTTACCTGGTATTC
29278478 G
1 G
29278479 TCTTGTTATC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.45
Consensus pattern (37 bp):
GAGTTTACTTTGAGTTATTCGAACTTACCTGGTATTC
Found at i:29278468 original size:20 final size:20
Alignment explanation
Indices: 29278408--29278470 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 20
29278398 TACAATGAGT
29278408 TTACTTTGAGTTATTCGAAC
1 TTACTTTGAGTTATTCGAAC
* * **
29278428 TTTC-CTG-G-TATTCGAGT
1 TTACTTTGAGTTATTCGAAC
29278445 TTACTTTGAGTTATTCGAAC
1 TTACTTTGAGTTATTCGAAC
29278465 TTACTT
1 TTACTT
29278471 GGTATTCGTC
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
17 10 0.31
18 3 0.09
19 3 0.09
20 16 0.50
ACGTcount: A:0.21, C:0.16, G:0.16, T:0.48
Consensus pattern (20 bp):
TTACTTTGAGTTATTCGAAC
Found at i:29278478 original size:17 final size:17
Alignment explanation
Indices: 29278419--29278478 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
29278409 TACTTTGAGT
* *
29278419 TATTCGAACTTTCCTGG
1 TATTCGAACTTACTTGG
**
29278436 TATTCGAGTTTACTTTGAG
1 TATTCGAACTTAC-TTG-G
29278455 TTATTCGAACTTACTTGG
1 -TATTCGAACTTACTTGG
29278473 TATTCG
1 TATTCG
29278479 TCTTGTTATC
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
17 16 0.47
18 3 0.09
19 4 0.12
20 11 0.32
ACGTcount: A:0.20, C:0.17, G:0.18, T:0.45
Consensus pattern (17 bp):
TATTCGAACTTACTTGG
Found at i:29282646 original size:10 final size:10
Alignment explanation
Indices: 29282631--29282659 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
29282621 CGTTCCTTTC
29282631 GCTCTCCTAT
1 GCTCTCCTAT
29282641 GCTCTCCTAT
1 GCTCTCCTAT
29282651 GCTCTCCTA
1 GCTCTCCTA
29282660 ATTATAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.10, C:0.41, G:0.10, T:0.38
Consensus pattern (10 bp):
GCTCTCCTAT
Found at i:29286090 original size:46 final size:46
Alignment explanation
Indices: 29286039--29286202 Score: 142
Period size: 46 Copynumber: 3.5 Consensus size: 46
29286029 TGGGCTTCCA
29286039 AACTCGTTGAGTTGAGT-TCGAGTTCACTTATGGATGCGAACGTCTG
1 AACTCGTTGAGTTGAGTCT-GAGTTCACTTATGGATGCGAACGTCTG
* * *
29286085 AACTCGTTGAGTTGAGTAC-GAGTTC-GTGA--GATG-TAACTAGGCATCTG
1 AACTCGTTGAGTTGAGT-CTGAGTTCACTTATGGATGCGAAC---G--TCTG
* * * * *
29286132 AGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATACGGATGCCTG
1 AACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGTCTG
*
29286178 AGCTCGTTGAGTTGAGTCTGAGTTC
1 AACTCGTTGAGTTGAGTCTGAGTTC
29286203 GTTTATGGGC
Statistics
Matches: 95, Mismatches: 11, Indels: 24
0.73 0.08 0.18
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 3 0.03
46 52 0.55
47 26 0.27
48 3 0.03
50 3 0.03
51 1 0.01
ACGTcount: A:0.21, C:0.16, G:0.30, T:0.32
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGTCTG
Found at i:29294936 original size:6 final size:6
Alignment explanation
Indices: 29294934--29294977 Score: 63
Period size: 6 Copynumber: 7.3 Consensus size: 6
29294924 AATGAAAAAG
*
29294934 AAAATA AAAATA AAAATA AAAATA AGAATA AATAA-A AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AA-AATA AAAATA AA
29294978 TAGGAGGATT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 2 0.06
6 30 0.88
7 2 0.06
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:29294944 original size:18 final size:17
Alignment explanation
Indices: 29294923--29294977 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 17
29294913 AATAAAATTG
*
29294923 AAATGAAAAAGAAAATAA
1 AAAT-AAAAAAAAAATAA
29294941 AAATAAAAATAAAAATAA
1 AAATAAAAA-AAAAATAA
*
29294959 GAATAAATAAAAAAATAA
1 AAATAAA-AAAAAAATAA
29294977 A
1 A
29294978 TAGGAGGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 5 0.16
18 25 0.78
19 2 0.06
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (17 bp):
AAATAAAAAAAAAATAA
Found at i:29297442 original size:40 final size:40
Alignment explanation
Indices: 29297341--29297565 Score: 254
Period size: 40 Copynumber: 5.6 Consensus size: 40
29297331 TATTCGAATG
* *
29297341 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACT
* * * * * *
29297382 ATAACTGGACTAAGATCCGAAGGCATTCGTGCAAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
* * ** *
29297422 ATATCCGGGCTATGACCCGAAGGCATTTGTGCTGGCAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
*
29297462 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
29297502 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* *
29297542 ACATCCGGGCTAAGACCTGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
29297566 CTTGTGCAAG
Statistics
Matches: 150, Mismatches: 32, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
40 122 0.81
41 28 0.19
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:29297548 original size:80 final size:80
Alignment explanation
Indices: 29297341--29297601 Score: 276
Period size: 80 Copynumber: 3.3 Consensus size: 80
29297331 TATTCGAATG
* * * * *
29297341 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACTGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
29297406 ATTCGTGCAAGTTGCT
65 ATTCGTGCAAGTTGCT
* * * ** * *
29297422 ATATCCGGGCTATGACCCGAAGGCATTTGTGCTGGCAATTATATCCGGGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
29297487 TTTGTGCTAG-TGACT
66 TTCGTGCAAGTTG-CT
* * * * *
29297502 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCTGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
29297567 TT-GTGCAAGTAGTT
66 TTCGTGCAAGTTGCT
* *
29297581 ATATCC-GGCTAAATCCTGAAG
1 ATATCCGGGCTAAGTCCCGAAG
29297602 ATTACTTGAG
Statistics
Matches: 147, Mismatches: 31, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
78 13 0.09
79 15 0.10
80 89 0.61
81 30 0.20
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCAAGTTGCT
Found at i:29297564 original size:120 final size:121
Alignment explanation
Indices: 29297341--29297565 Score: 294
Period size: 120 Copynumber: 1.9 Consensus size: 121
29297331 TATTCGAATG
** * *
29297341 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACTGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
* * * *
29297406 ATTCGTGCAAGTTGCTATATCCGGGCTATGACCCGAAGGCATTTGTGCTGGCAATT
66 ATTCATGCAAGTTGCCACATCCGGGCTAAGACCCGAAGGCATTTGTGCTGGCAATT
* *
29297462 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGGTGACTATAACCGGACTAAGAT-CCGAAGG
* * *
29297525 CATTTATGCTAG-TGACCACATCCGGGCTAAGACCTGAAGGC
65 CATTCATGCAAGTTG-CCACATCCGGGCTAAGACCCGAAGGC
29297566 CTTGTGCAAG
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
119 3 0.03
120 55 0.62
121 31 0.35
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (121 bp):
ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCAAGTTGCCACATCCGGGCTAAGACCCGAAGGCATTTGTGCTGGCAATT
Found at i:29305553 original size:40 final size:40
Alignment explanation
Indices: 29305459--29305683 Score: 224
Period size: 40 Copynumber: 5.6 Consensus size: 40
29305449 TATTCGAATG
* *
29305459 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GCGACT
* * * * * * *
29305500 ATAACCAGACTAAGATCCAAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-CGACT
* *
29305540 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGCGACT
* *
29305580 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGCGACT
* * *
29305620 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
*
29305660 ACATCCGGGCTAAGA-CCTGAAGGC
1 ATATCCGGGCTAAGATCC-GAAGGC
29305684 CTTGTGCAAG
Statistics
Matches: 154, Mismatches: 24, Indels: 13
0.81 0.13 0.07
Matches are distributed among these distances:
39 3 0.02
40 123 0.80
41 27 0.18
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGCGACT
Found at i:29305639 original size:80 final size:80
Alignment explanation
Indices: 29305459--29305719 Score: 285
Period size: 80 Copynumber: 3.3 Consensus size: 80
29305449 TATTCGAATG
* * * * * *
29305459 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCAGACTAAGATCCAAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
*
29305524 ATTCGTGCGAGTTGCT
65 ATTCGTGCGAGTCGCT
* * * *
29305540 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
29305605 TTTGTGCTAG-CGACT
66 TTCGTGCGAGTCG-CT
* * * * *
29305620 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCTGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* * *
29305685 TT-GTGCAAGTAGTT
66 TTCGTGCGAGTCGCT
*
29305699 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
29305720 ATGACTTGAG
Statistics
Matches: 152, Mismatches: 26, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
78 14 0.09
79 14 0.09
80 92 0.61
81 32 0.21
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:29305673 original size:120 final size:120
Alignment explanation
Indices: 29305459--29305719 Score: 298
Period size: 120 Copynumber: 2.2 Consensus size: 120
29305449 TATTCGAATG
* * *
29305459 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCAGACTAAGATCCAAAGGC
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCAGACTAAGATCCAAAGGC
* * * * *
29305524 ATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGA-TT
66 ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGC-CTTGTGCAAG-GAGTT
* * * * *
29305580 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCAGACTAAGAT-CCAAAGG
* * * *
29305643 CATTTATGCTAG-TGACCACATCCGGGCTAAGACCTGAAGGCCTTGTGCAAGTAGTT
65 CATTCATGCGAGTTG-CCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
29305699 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAATCCCGAAG
29305720 ATGACTTGAG
Statistics
Matches: 119, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
118 15 0.13
119 19 0.16
120 54 0.45
121 31 0.26
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (120 bp):
ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCAGACTAAGATCCAAAGGC
ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
Found at i:29311868 original size:13 final size:15
Alignment explanation
Indices: 29311852--29311883 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
29311842 TAAAATTTGG
29311852 AAGAAG-AATTGA-A
1 AAGAAGCAATTGATA
29311865 AAGAAGCAATTGATA
1 AAGAAGCAATTGATA
29311880 AAGA
1 AAGA
29311884 CGACACCCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 6 0.35
15 5 0.29
ACGTcount: A:0.59, C:0.03, G:0.22, T:0.16
Consensus pattern (15 bp):
AAGAAGCAATTGATA
Found at i:29323463 original size:68 final size:67
Alignment explanation
Indices: 29323391--29323540 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
29323381 CATCATGTGT
* * * *
29323391 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
29323453 ATGTAG
62 ATGTAG
** * *
29323459 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
29323524 AG
66 AG
29323526 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
29323541 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:29323496 original size:64 final size:64
Alignment explanation
Indices: 29323415--29323598 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
29323405 AGACATTATG
* *
29323415 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
29323479 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
29323544 AA
63 AA
* * * *
29323546 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
29323599 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:29323953 original size:16 final size:17
Alignment explanation
Indices: 29323921--29323955 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
29323911 CGTTACAACA
29323921 TTTGTTTGATGTTTATT
1 TTTGTTTGATGTTTATT
*
29323938 TTTGTTTG-TTTTTATT
1 TTTGTTTGATGTTTATT
29323954 TT
1 TT
29323956 GTAATATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.09, C:0.00, G:0.14, T:0.77
Consensus pattern (17 bp):
TTTGTTTGATGTTTATT
Found at i:29325287 original size:21 final size:21
Alignment explanation
Indices: 29325263--29325303 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
29325253 TCAACATACA
*
29325263 TAGATATAACCACAACAAAGC
1 TAGATACAACCACAACAAAGC
* *
29325284 TAGATACACCCACACCAAAG
1 TAGATACAACCACAACAAAG
29325304 TCCGATGCAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.49, C:0.29, G:0.10, T:0.12
Consensus pattern (21 bp):
TAGATACAACCACAACAAAGC
Found at i:29330847 original size:5 final size:5
Alignment explanation
Indices: 29330837--29330864 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
29330827 TTACTCTGTG
29330837 ATTTT ATTTT ATTTT ATTTT ATTTT ATT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATT
29330865 GAAGTTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:29332964 original size:22 final size:22
Alignment explanation
Indices: 29332934--29333010 Score: 82
Period size: 22 Copynumber: 3.5 Consensus size: 22
29332924 TACGGCCTTT
* * *
29332934 AGCCGTCCTGTCTACGGCGTTG
1 AGCCATCCTGTCCAAGGCGTTG
* * *
29332956 AGTCATCCTGTCCATGCCGTTG
1 AGCCATCCTGTCCAAGGCGTTG
*
29332978 AGCCATCCTATCCAAGGCGTTG
1 AGCCATCCTGTCCAAGGCGTTG
*
29333000 AGCCGTCCTGT
1 AGCCATCCTGT
29333011 TGACTTAGTG
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.14, C:0.32, G:0.26, T:0.27
Consensus pattern (22 bp):
AGCCATCCTGTCCAAGGCGTTG
Found at i:29335678 original size:17 final size:17
Alignment explanation
Indices: 29335658--29335694 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
29335648 ATTAAGTATA
29335658 CATTGTCATTACATTGT
1 CATTGTCATTACATTGT
*
29335675 CATTGTCATTACATTTT
1 CATTGTCATTACATTGT
29335692 CAT
1 CAT
29335695 ATTATTGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.19, G:0.08, T:0.49
Consensus pattern (17 bp):
CATTGTCATTACATTGT
Found at i:29341499 original size:28 final size:28
Alignment explanation
Indices: 29341433--29341558 Score: 162
Period size: 29 Copynumber: 4.4 Consensus size: 28
29341423 GTAGATTTCG
* * **
29341433 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
29341462 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
29341490 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
*
29341519 GCACTAATTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
29341547 ACACTAAGTGTG
1 GCACTAAGTGTG
29341559 GACTTACTAT
Statistics
Matches: 85, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
28 42 0.49
29 43 0.51
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:29341522 original size:57 final size:57
Alignment explanation
Indices: 29341433--29341558 Score: 173
Period size: 57 Copynumber: 2.2 Consensus size: 57
29341423 GTAGATTTCG
*
29341433 GCACTAAGTGTGCGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
* * * * *
29341490 GCACTAAGTGTGCGAGTTTGATTATGTA-AGCACTAATTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAAT-TGCATAGCACTAAGTGTGCAAGTTTGATTATATA
*
29341547 ACACTAAGTGTG
1 GCACTAAGTGTG
29341559 GACTTACTAT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
57 58 0.95
58 3 0.05
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
Found at i:29356382 original size:63 final size:63
Alignment explanation
Indices: 29356304--29356429 Score: 252
Period size: 63 Copynumber: 2.0 Consensus size: 63
29356294 AACTTTTGAA
29356304 TTTCACATCTAATCTTATGTTTGAATATGTGGAAGGTTTGTTAGCTAATATGAATTATCTGTT
1 TTTCACATCTAATCTTATGTTTGAATATGTGGAAGGTTTGTTAGCTAATATGAATTATCTGTT
29356367 TTTCACATCTAATCTTATGTTTGAATATGTGGAAGGTTTGTTAGCTAATATGAATTATCTGTT
1 TTTCACATCTAATCTTATGTTTGAATATGTGGAAGGTTTGTTAGCTAATATGAATTATCTGTT
29356430 GATATATTCA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.46
Consensus pattern (63 bp):
TTTCACATCTAATCTTATGTTTGAATATGTGGAAGGTTTGTTAGCTAATATGAATTATCTGTT
Done.