Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 34 of 187
Found at i:9902537 original size:22 final size:21
Alignment explanation
Indices: 9902512--9902559 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
9902502 TTGTTACCAT
*
9902512 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGGTTATGGATTAT-GG
* *
9902534 TTTAGGGGTTATGGTTTATGG
1 TTTAAGGGTTATGGATTATGG
9902555 TTTAA
1 TTTAA
9902560 AGGCTGGGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (21 bp):
TTTAAGGGTTATGGATTATGG
Found at i:9902612 original size:14 final size:14
Alignment explanation
Indices: 9902512--9902615 Score: 68
Period size: 14 Copynumber: 7.3 Consensus size: 14
9902502 TTGTTACCAT
* *
9902512 TTTAAGGTTTATGG
1 TTTATGGTTTAGGG
*
9902526 ATTATGGGTTTAGGG
1 TTTAT-GGTTTAGGG
* *
9902541 GTTATGGTTTATGG
1 TTTATGGTTTAGGG
* * *
9902555 TTTAAAGG-CTGGGG
1 TTT-ATGGTTTAGGG
*
9902569 TTTAAGGTTTAGAGG
1 TTTATGGTTTAG-GG
*
9902584 -TTATGTGTTAAGGG
1 TTTATG-GTTTAGGG
9902598 TTTATGGTTTAGGG
1 TTTATGGTTTAGGG
9902612 TTTA
1 TTTA
9902616 GATTAACTAG
Statistics
Matches: 69, Mismatches: 15, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
13 4 0.06
14 38 0.55
15 27 0.39
ACGTcount: A:0.20, C:0.01, G:0.35, T:0.44
Consensus pattern (14 bp):
TTTATGGTTTAGGG
Found at i:9902889 original size:14 final size:15
Alignment explanation
Indices: 9902863--9902900 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
9902853 AATAATTACA
9902863 TATGGATTTAGGGAT
1 TATGGATTTAGGGAT
9902878 TATGGA-TTAGGGAT
1 TATGGATTTAGGGAT
9902892 TATGG-TTTA
1 TATGGATTTA
9902901 AGGGTTGGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 16 0.73
15 6 0.27
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (15 bp):
TATGGATTTAGGGAT
Found at i:9902921 original size:21 final size:21
Alignment explanation
Indices: 9902866--9902964 Score: 74
Period size: 21 Copynumber: 4.7 Consensus size: 21
9902856 AATTACATAT
* * *
9902866 GGATTTAGGGATTATGGATTAG
1 GGATTTAGGGTTTAAGGGTT-G
*
9902888 GGA-TTATGGTTTAAGGGTTG
1 GGATTTAGGGTTTAAGGGTTG
* * *
9902908 GGATTTAAGGTTTAGGGGTTA
1 GGATTTAGGGTTTAAGGGTTG
* * **
9902929 GGAGTTAGGGGTTAATAGTTAG
1 GGATTTAGGGTTTAAGGGTT-G
9902951 GGATTTAGGGTTTA
1 GGATTTAGGGTTTA
9902965 GGATTTAAGG
Statistics
Matches: 59, Mismatches: 16, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
20 4 0.07
21 40 0.68
22 15 0.25
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.37
Consensus pattern (21 bp):
GGATTTAGGGTTTAAGGGTTG
Found at i:9902936 original size:14 final size:14
Alignment explanation
Indices: 9902919--9902952 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
9902909 GATTTAAGGT
*
9902919 TTAGGGGTTAGGAG
1 TTAGGGGTTAAGAG
*
9902933 TTAGGGGTTAATAG
1 TTAGGGGTTAAGAG
9902947 TTAGGG
1 TTAGGG
9902953 ATTTAGGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.44, T:0.32
Consensus pattern (14 bp):
TTAGGGGTTAAGAG
Found at i:9903314 original size:17 final size:17
Alignment explanation
Indices: 9903294--9903330 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
9903284 TTAAAAGATT
9903294 TATATAATTGATATGGA
1 TATATAATTGATATGGA
**
9903311 TATATTTTTGATATGGA
1 TATATAATTGATATGGA
9903328 TAT
1 TAT
9903331 TTGATATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (17 bp):
TATATAATTGATATGGA
Found at i:9903434 original size:14 final size:14
Alignment explanation
Indices: 9903415--9903442 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9903405 TTATCAAAAT
9903415 TTTAAATAATATTA
1 TTTAAATAATATTA
9903429 TTTAAATAATATTA
1 TTTAAATAATATTA
9903443 ATAATGATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTTAAATAATATTA
Found at i:9903679 original size:83 final size:82
Alignment explanation
Indices: 9903561--9903788 Score: 291
Period size: 83 Copynumber: 2.8 Consensus size: 82
9903551 TTTAAAAGTG
* * *
9903561 AAATCATTAGCGGCGTTTGGTAAAAAACGCCGCAAAAAATACATTTAAAATTTAACTAAACGGCG
1 AAAT-ATTAGTGGCGTTTTGTAAAAAACGCCGCAAAAAATACATTTAAAATTTAACTAAACAGCG
*
9903626 CCGTTTCATTGAAGAATT
65 CCGTTTCATCGAAGAATT
*
9903644 AAATATTAGTGGCGTTTTGTAAACAAACGCCGCAAAAAATATA-TTAAGAATTTAA-TAAAACAG
1 AAATATTAGTGGCGTTTTGTAAA-AAACGCCGCAAAAAATACATTTAA-AATTTAACT-AAACAG
* * *
9903707 CGGCGTTTGATCGATGAATT
63 CGCCGTTTCATCGAAGAATT
* * *
9903727 AAATATTAGTGGCGTTTTCTATAAAAACGCCGC-AAAAATACATTAAAAATTTAACAAAACAG
1 AAATATTAGTGGCGTTTTGTA-AAAAACGCCGCAAAAAATACATTTAAAATTTAACTAAACAG
9903789 GGCTATTTCA
Statistics
Matches: 127, Mismatches: 12, Indels: 13
0.84 0.08 0.09
Matches are distributed among these distances:
82 43 0.34
83 82 0.65
84 2 0.02
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (82 bp):
AAATATTAGTGGCGTTTTGTAAAAAACGCCGCAAAAAATACATTTAAAATTTAACTAAACAGCGC
CGTTTCATCGAAGAATT
Found at i:9908288 original size:43 final size:43
Alignment explanation
Indices: 9908202--9908292 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 43
9908192 CTTTGAGTTC
* * ** **
9908202 ATTA-CAAGATTTCCTTGATTAAGTAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATACATTATATAATTT
*
9908244 ATTACCAAGATTTACTTGATTAAGAAAATACATTGTATAATTT
1 ATTACCAAGATTTACTTGATTAAGAAAATACATTATATAATTT
9908287 ATTACC
1 ATTACC
9908293 TTGCATACGT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 4 0.10
43 37 0.90
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATACATTATATAATTT
Found at i:9908657 original size:43 final size:42
Alignment explanation
Indices: 9908556--9908966 Score: 163
Period size: 43 Copynumber: 9.6 Consensus size: 42
9908546 TATTTTTTTA
* * * **
9908556 AAAGATATGTTTTTTAGCGGTGTTTGTGTGAAAAGCGCCGCT
1 AAAGATCTGTTTTATAGCGGCGTTTGTACGAAAAGCGCCGCT
* * * *
9908598 AAAG-GCTAATTATATAGCGGCGTTTGTACGAAACAGCGTCGCT
1 AAAGATCT-GTTTTATAGCGGCGTTTGTACGAAA-AGCGCCGCT
* * ** * *
9908641 AAAGATCTGTTTTATAGTGGCGATTGTGGGAAAAGAGCCGTT
1 AAAGATCTGTTTTATAGCGGCGTTTGTACGAAAAGCGCCGCT
*** ** * *
9908683 AAA-AGTCATGACCTATAGCGGCGTTTGTGGGAGAAGCGCCACT
1 AAAGA-TC-TGTTTTATAGCGGCGTTTGTACGAAAAGCGCCGCT
* * * *
9908726 AAAGGTAATGGTTTT-TAGCGGCGTTTGTGA-TAAAAGCGCCACT
1 AAAGAT-CT-GTTTTATAGCGGCGTTTGT-ACGAAAAGCGCCGCT
* * * * *
9908769 AAAGGTAATGGTCTT-TAGCGGCGTTTGTGA-TAAAAGAGCCGCT
1 AAAGAT-CT-GTTTTATAGCGGCGTTTGT-ACGAAAAGCGCCGCT
* * * *
9908812 AAAGATAATGCTCTT-TAGCAGCGTTTGTGA-TAAAAGCGCCGCT
1 AAAGAT-CTG-TTTTATAGCGGCGTTTGT-ACGAAAAGCGCCGCT
* * * * * **
9908855 AAAGGTGGTGGTCTATAGTGGCGTTTGTGGGAAAAGCGCCGCT
1 AAAGAT-CTGTTTTATAGCGGCGTTTGTACGAAAAGCGCCGCT
* * * * **
9908898 AAAGGTCATGGTCTATAGCAGCGTTTGTGGGAAAAGCGCCGCT
1 AAAGATC-TGTTTTATAGCGGCGTTTGTACGAAAAGCGCCGCT
* * *
9908941 AAAGGTCATGGTCTATAGCGGCGTTT
1 AAAGATC-TGTTTTATAGCGGCGTTT
9908967 ATTTCTAAAA
Statistics
Matches: 300, Mismatches: 56, Indels: 25
0.79 0.15 0.07
Matches are distributed among these distances:
41 2 0.01
42 36 0.12
43 258 0.86
44 4 0.01
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.28
Consensus pattern (42 bp):
AAAGATCTGTTTTATAGCGGCGTTTGTACGAAAAGCGCCGCT
Found at i:9908754 original size:86 final size:86
Alignment explanation
Indices: 9908568--9908966 Score: 383
Period size: 86 Copynumber: 4.7 Consensus size: 86
9908558 AGATATGTTT
* * * * * **
9908568 TTTAGCGGTGTTTGTGTGAAAAGCGCCGCTAAAGGCTAAT--TATATAGCGGCGTTTGTACGAAA
1 TTTAGCAGCGTTTGTGAGAAAAGCGCCGCTAAAGG-TCATGGTCTATAGCGGCGTTTGTGGGAAA
* * * *
9908631 CAGCGTCGCTAAAGAT-CT-GTT
65 -AGCGCCGCTAAAGGTAATGGTC
** * * * * * ** *
9908652 TTATAGTGGCGATTGTGGGAAAAGAGCCGTTAAAAGTCATGACCTATAGCGGCGTTTGTGGGAGA
1 TT-TAGCAGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGGGAAA
* *
9908717 AGCGCCACTAAAGGTAATGGTT
65 AGCGCCGCTAAAGGTAATGGTC
* * * * * **
9908739 TTTAGCGGCGTTTGTGATAAAAGCGCCACTAAAGGTAATGGTCTTTAGCGGCGTTTGTGATAAAA
1 TTTAGCAGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGGGAAAA
* * *
9908804 GAGCCGCTAAAGATAATGCTC
66 GCGCCGCTAAAGGTAATGGTC
* ** *
9908825 TTTAGCAGCGTTTGTGATAAAAGCGCCGCTAAAGGTGGTGGTCTATAGTGGCGTTTGTGGGAAAA
1 TTTAGCAGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGGGAAAA
*
9908890 GCGCCGCTAAAGGTCATGGTC
66 GCGCCGCTAAAGGTAATGGTC
* *
9908911 TATAGCAGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTT
1 TTTAGCAGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTT
9908967 ATTTCTAAAA
Statistics
Matches: 255, Mismatches: 55, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
84 5 0.02
85 38 0.15
86 207 0.81
87 5 0.02
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.27
Consensus pattern (86 bp):
TTTAGCAGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGGGAAAA
GCGCCGCTAAAGGTAATGGTC
Found at i:9908965 original size:129 final size:128
Alignment explanation
Indices: 9908570--9909004 Score: 419
Period size: 129 Copynumber: 3.4 Consensus size: 128
9908560 ATATGTTTTT
* *
9908570 TAGCGGTGTTTGTGTGAAAAGCGCCGCTAAAGGCTAAT--TATATAGCGGCGTTTGT-ACGAAAC
1 TAGCGGCGTTTGTGT-AAAAGCGCCGCTAAAGG-TAATGGTCTATAGCGGCGTTTGTGA-GAAA-
* * * * * * * * *
9908632 AGCGTCGCTAAAGATC-TGTTTTATAGTGGCGATTGTGGGAAAAGAGCCGTTAAAAGTCATGACC
62 AGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGGGAAAAGAGCCGCTAAAGGTCATGATC
9908696 TA
127 TA
* * * * * *
9908698 TAGCGGCGTTTGTGGGAGAAGCGCCACTAAAGGTAATGGTTTTTAGCGGCGTTTGTGATAAAAGC
1 TAGCGGCGTTTGT-GTAAAAGCGCCGCTAAAGGTAATGGTCTATAGCGGCGTTTGTGAGAAAAGC
* * * ** * * * *
9908763 GCCACTAAAGGTAATGGTCTTTAGCGGCGTTTGTGATAAAAGAGCCGCTAAAGATAATGCTCTT
65 GCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGGGAAAAGAGCCGCTAAAGGTCATGATCTA
* ** * *
9908827 TAGCAGCGTTTGTGATAAAAGCGCCGCTAAAGGTGGTGGTCTATAGTGGCGTTTGTGGGAAAAGC
1 TAGCGGCGTTTGTG-TAAAAGCGCCGCTAAAGGTAATGGTCTATAGCGGCGTTTGTGAGAAAAGC
* * *
9908892 GCCGCTAAAGGTCATGGTCTATAGCAGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTA
65 GCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGGGAAAAGAGCCGCTAAAGGTCATGATCTA
* * ** *
9908956 TAGCGGCGTTTATTTCTAAAAAAGCCGCTAAAGGTCATGGTCTATAGCG
1 TAGCGGCG-TT-TGTGTAAAAGCGCCGCTAAAGGTAATGGTCTATAGCG
9909005 ACGTATTCAA
Statistics
Matches: 244, Mismatches: 55, Indels: 14
0.78 0.18 0.04
Matches are distributed among these distances:
127 4 0.02
128 40 0.16
129 167 0.68
130 31 0.13
131 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (128 bp):
TAGCGGCGTTTGTGTAAAAGCGCCGCTAAAGGTAATGGTCTATAGCGGCGTTTGTGAGAAAAGCG
CCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGGGAAAAGAGCCGCTAAAGGTCATGATCTA
Found at i:9909392 original size:25 final size:25
Alignment explanation
Indices: 9909327--9909453 Score: 211
Period size: 25 Copynumber: 5.1 Consensus size: 25
9909317 AAAGAACCCA
*
9909327 AAGCAACAGTTGATGAGGATTACCG
1 AAGCGACAGTTGATGAGGATTACCG
*
9909352 -AGCGACAGTTGCTGAGGATTACCG
1 AAGCGACAGTTGATGAGGATTACCG
*
9909376 AAGCGACAATTGATGAGGATTACCG
1 AAGCGACAGTTGATGAGGATTACCG
9909401 AAGCGACAGTTGATGAGGATTACCG
1 AAGCGACAGTTGATGAGGATTACCG
*
9909426 AAGCAACAGTTGATGAGGATTACCG
1 AAGCGACAGTTGATGAGGATTACCG
9909451 AAG
1 AAG
9909454 TGAGCTAATC
Statistics
Matches: 95, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
24 22 0.23
25 73 0.77
ACGTcount: A:0.34, C:0.17, G:0.30, T:0.20
Consensus pattern (25 bp):
AAGCGACAGTTGATGAGGATTACCG
Found at i:9911655 original size:26 final size:26
Alignment explanation
Indices: 9911626--9911677 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
9911616 GGAAGCTCGA
*
9911626 ATCAATAATACCTCGAAAAATAATTT
1 ATCAATAATACCCCGAAAAATAATTT
9911652 ATCAATAATACCCCGAAAAATAATTT
1 ATCAATAATACCCCGAAAAATAATTT
9911678 GGGGTTGGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.50, C:0.17, G:0.04, T:0.29
Consensus pattern (26 bp):
ATCAATAATACCCCGAAAAATAATTT
Found at i:9917806 original size:17 final size:17
Alignment explanation
Indices: 9917758--9917806 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
9917748 TTAATTAGTT
*
9917758 AATTATTATG-TTATTAA
1 AATTTTTATGTTTA-TAA
*
9917775 CATTTTTAT-TTTATAA
1 AATTTTTATGTTTATAA
9917791 AATTTTTATGTTTATA
1 AATTTTTATGTTTATA
9917807 TATTCAGGCC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 11 0.41
17 16 0.59
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (17 bp):
AATTTTTATGTTTATAA
Found at i:9919503 original size:46 final size:45
Alignment explanation
Indices: 9919436--9919569 Score: 169
Period size: 46 Copynumber: 2.9 Consensus size: 45
9919426 TATTTGTGAG
* *
9919436 TAGGTTCCGAGCTCCTGCATGTGTTGCGAACTCGAGAATATAAAAA
1 TAGGTTCTGAGCTCCTGCATGTGTTGC-AACTCGAGAATACAAAAA
* * ***
9919482 TAGGTTCTGAGCTCCTACATGTGTTGCAGACTCAAGAATACAAGTT
1 TAGGTTCTGAGCTCCTGCATGTGTTGCA-ACTCGAGAATACAAAAA
*
9919528 TAGGTTCTGAGCTCCTGCATATGTTGCAAACTCGAGAATACA
1 TAGGTTCTGAGCTCCTGCATGTGTTGC-AACTCGAGAATACA
9919570 TTAATATTAA
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
45 1 0.01
46 74 0.97
47 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (45 bp):
TAGGTTCTGAGCTCCTGCATGTGTTGCAACTCGAGAATACAAAAA
Found at i:9946278 original size:39 final size:39
Alignment explanation
Indices: 9946235--9946313 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
9946225 TAAAATGAGG
9946235 TAAGTTGTTATTTTGATAACTATGAACTTACTAAGCATT
1 TAAGTTGTTATTTTGATAACTATGAACTTACTAAGCATT
* *
9946274 TAAGTTGTTATTTTGATAACTGTGAACTTATTAAGCATT
1 TAAGTTGTTATTTTGATAACTATGAACTTACTAAGCATT
9946313 T
1 T
9946314 GTAATGCTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.46
Consensus pattern (39 bp):
TAAGTTGTTATTTTGATAACTATGAACTTACTAAGCATT
Found at i:9948734 original size:41 final size:41
Alignment explanation
Indices: 9948687--9948766 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
9948677 AATAATTAAT
*
9948687 GCCCAATAAACCTTAACCAACTTAAATCACTTTTAATTTTG
1 GCCCAATAAACCTTAACCAAATTAAATCACTTTTAATTTTG
9948728 GCCCAATAAACCTTAACCAAATTAAATCACTTTTAATTT
1 GCCCAATAAACCTTAACCAAATTAAATCACTTTTAATTT
9948767 GGGCTAACCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.39, C:0.24, G:0.04, T:0.34
Consensus pattern (41 bp):
GCCCAATAAACCTTAACCAAATTAAATCACTTTTAATTTTG
Found at i:9951763 original size:14 final size:14
Alignment explanation
Indices: 9951744--9951773 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9951734 AGTTGCAGTC
*
9951744 GGCCCAGAATACAA
1 GGCCCAAAATACAA
9951758 GGCCCAAAATACAA
1 GGCCCAAAATACAA
9951772 GG
1 GG
9951774 ATAGTGGCCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.27, G:0.23, T:0.07
Consensus pattern (14 bp):
GGCCCAAAATACAA
Found at i:9964530 original size:44 final size:42
Alignment explanation
Indices: 9964431--9965069 Score: 261
Period size: 44 Copynumber: 14.7 Consensus size: 42
9964421 AAACCTTGGA
* * * * *
9964431 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGCATCTAG
1 TCTTATCTC-CTGAAGTTGCAGTGGAGCAGACTAAGAAACAAG
9964471 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAACAAG
1 TCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTAAG-AAACAAG
* ** *
9964515 TCTTATCCTCTTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCAAA
1 TCTTAT-CTCCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AACAAG
* * * * *
9964560 TCTTATCTCCCTGAAGTTGTAGTGGATCAGATTAAAGCTAATAA-
1 TCTTATCT-CCTGAAGTTGCAGTGGAGCAGACT-AAG-AAACAAG
* * * * * * **
9964604 CCCTATTTCCCTTAAGTTGCAGTGGAGCAGATTAA-AACCTTGG
1 TCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTAAGAAAC-AAG
** * * * *
9964647 ATCTTATCTCTCTGAAGTTGCAG-AAAGCAGA-T-CGCATCTAG
1 -TCTTATCTC-CTGAAGTTGCAGTGGAGCAGACTAAGAAACAAG
* *
9964688 TCTTATCTCCCTAAAGTTGCAGTTGAGCAGACTAAGTAAACAAG
1 TCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTAAG-AAACAAG
* * * *
9964732 TTTTATCCTCCTGAAGTTGTAGT-GAGGCAGACTGAAGATGACAAA
1 TCTTAT-CTCCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AACAAG
* * * *
9964777 TCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAA-AACCGATAA
1 TCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTAAGAAAC-A-AG
* * * * **
9964821 T-TCTATCTCTCTGAAGTTGCAATGGAGCGGATTAA-AACCTTGG
1 TCT-TATCTC-CTGAAGTTGCAGTGGAGCAGACTAAGAAAC-AAG
* * * * * *
9964864 ATCTTATCTCTCTGAAGTTGCAG-AGAACAGA-T-CGCATCTAG
1 -TCTTATCTC-CTGAAGTTGCAGTGGAGCAGACTAAGAAACAAG
*
9964905 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAACAAG
1 TCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTAAG-AAACAAG
** * *
9964949 TCTTATCCTCCTGAAGTTGCAGT-GAGGCAGACTGGGAATGGCAAA
1 TCTTAT-CTCCTGAAGTTGCAGTGGA-GCAGACTAAGAA--ACAAG
* ** *
9964994 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA-AGCCGATAA
1 TCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTAAGAAAC-A-AG
* *
9965038 TCTTATCTCCCTAAAGTTGCAGTGGAGTAGAC
1 TCTTATCT-CCTGAAGTTGCAGTGGAGCAGAC
9965070 CCAAGAAATA
Statistics
Matches: 461, Mismatches: 90, Indels: 92
0.72 0.14 0.14
Matches are distributed among these distances:
40 58 0.13
41 27 0.06
42 11 0.02
43 30 0.07
44 229 0.50
45 100 0.22
46 6 0.01
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (42 bp):
TCTTATCTCCTGAAGTTGCAGTGGAGCAGACTAAGAAACAAG
Found at i:9964779 original size:217 final size:217
Alignment explanation
Indices: 9964379--9965064 Score: 1097
Period size: 217 Copynumber: 3.2 Consensus size: 217
9964369 CAGATCGGTG
*
9964379 GCCAATAATCCTATCTTCCTAAAGTTGCAATGGAGCGGATTAAAACCTTGGATCTTATCTCTCTG
1 GCCAATAATCCTATCTCCCTAAAGTTGCAATGGAGCGGATTAAAACCTTGGATCTTATCTCTCTG
*
9964444 AAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTA
66 AAGTTGCAGAAAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTA
*
9964509 AACAAGTCTTATCCTCTTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGA
131 AACAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGA
* *
9964574 AGTTGTAGTGGATCAGATTAAA
196 AGTTGCAGTGGAGCAGATTAAA
* * * * * *
9964596 GCTAATAACCCTATTTCCCTTAAGTTGCAGTGGAGCAGATTAAAACCTTGGATCTTATCTCTCTG
1 GCCAATAATCCTATCTCCCTAAAGTTGCAATGGAGCGGATTAAAACCTTGGATCTTATCTCTCTG
* *
9964661 AAGTTGCAGAAAGCAGATCGCATCTAGTCTTATCTCCCTAAAGTTGCAGTTGAGCAGACTAAGTA
66 AAGTTGCAGAAAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTA
* * *
9964726 AACAAGTTTTATCCTCCTGAAGTTGTAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTGA
131 AACAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGA
*
9964791 AGTTGCAATGGAGCAGATTAAA
196 AGTTGCAGTGGAGCAGATTAAA
* * * * *
9964813 ACCGATAATTCTATCTCTCTGAAGTTGCAATGGAGCGGATTAAAACCTTGGATCTTATCTCTCTG
1 GCCAATAATCCTATCTCCCTAAAGTTGCAATGGAGCGGATTAAAACCTTGGATCTTATCTCTCTG
*
9964878 AAGTTGCAGAGAA-CAGATCGCATCTAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGT
66 AAGTTGCAGA-AAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGT
*
9964942 AAACAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTG-GGAATGGCAAATCTTATCTCCCT
130 AAACAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAG-ATGGCAAATCTTATCTCCCT
9965006 GAAGTTGCAGTGGAGCAGATTAAA
194 GAAGTTGCAGTGGAGCAGATTAAA
* * *
9965030 GCCGATAATCTTATCTCCCTAAAGTTGCAGTGGAG
1 GCCAATAATCCTATCTCCCTAAAGTTGCAATGGAG
9965065 TAGACCCAAG
Statistics
Matches: 426, Mismatches: 41, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
216 1 0.00
217 423 0.99
218 2 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (217 bp):
GCCAATAATCCTATCTCCCTAAAGTTGCAATGGAGCGGATTAAAACCTTGGATCTTATCTCTCTG
AAGTTGCAGAAAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTA
AACAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGA
AGTTGCAGTGGAGCAGATTAAA
Found at i:9980718 original size:34 final size:34
Alignment explanation
Indices: 9980665--9980730 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
9980655 CAAACACCAG
*
9980665 AAAATATTTTCCAGTAAATTATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATTATTTTAC-GAAAAGT
*
9980700 AAAACATTTTTCAG-AAATTATTTTACGAAAA
1 AAAACATTTTCCAGTAAATTATTTTACGAAAA
9980731 ATATTTTACT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 5 0.17
34 12 0.41
35 12 0.41
ACGTcount: A:0.47, C:0.09, G:0.08, T:0.36
Consensus pattern (34 bp):
AAAACATTTTCCAGTAAATTATTTTACGAAAAGT
Found at i:9981204 original size:34 final size:33
Alignment explanation
Indices: 9981134--9981207 Score: 82
Period size: 34 Copynumber: 2.2 Consensus size: 33
9981124 ATTCAATAGG
* *
9981134 AAAATA-ATTGTATATAAATATAAGTACTCCAT
1 AAAATACATTGGATATAAATATAAGTACTCCAA
9981166 AAAATACATTGGACTATAAATA-AGAGTTACT-CAA
1 AAAATACATTGGA-TATAAATATA-AG-TACTCCAA
9981200 AAAATACA
1 AAAATACA
9981208 CTTCCCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
32 6 0.17
33 6 0.17
34 20 0.56
35 4 0.11
ACGTcount: A:0.53, C:0.11, G:0.08, T:0.28
Consensus pattern (33 bp):
AAAATACATTGGATATAAATATAAGTACTCCAA
Found at i:9982041 original size:12 final size:11
Alignment explanation
Indices: 9982023--9982092 Score: 61
Period size: 12 Copynumber: 6.0 Consensus size: 11
9982013 TTTAAATTTT
9982023 AAAAATTATAA
1 AAAAATTATAA
9982034 ACAAAATTAATAA
1 A-AAAATT-ATAA
9982047 AAAAATTAT-A
1 AAAAATTATAA
***
9982057 AGTTATTATAA
1 AAAAATTATAA
9982068 ACAAAATTAATAAA
1 A-AAAATT-AT-AA
9982082 AAAAATTATAA
1 AAAAATTATAA
9982093 GTTTTTCTTC
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
10 7 0.15
11 7 0.15
12 17 0.36
13 13 0.28
14 3 0.06
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.29
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:9982065 original size:34 final size:35
Alignment explanation
Indices: 9982027--9982095 Score: 131
Period size: 34 Copynumber: 2.0 Consensus size: 35
9982017 AATTTTAAAA
9982027 ATTATAAACAAAATTAAT-AAAAAAATTATAAGTT
1 ATTATAAACAAAATTAATAAAAAAAATTATAAGTT
9982061 ATTATAAACAAAATTAATAAAAAAAATTATAAGTT
1 ATTATAAACAAAATTAATAAAAAAAATTATAAGTT
9982096 TTTCTTCCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 18 0.53
35 16 0.47
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (35 bp):
ATTATAAACAAAATTAATAAAAAAAATTATAAGTT
Found at i:9985359 original size:41 final size:41
Alignment explanation
Indices: 9985314--9985422 Score: 114
Period size: 41 Copynumber: 2.6 Consensus size: 41
9985304 TGATTTTATG
*
9985314 TAAGACCATGTCTGGGATATTGGCATCGTATATG-ATT-CGTA
1 TAAGACCATGTCTGGGATA-TGGCATCG-ATATGCATTACATA
* * *
9985355 TAAGACCCTGTCTGGGACAGTGGCATCGATATGCATTAACATG
1 TAAGACCATGTCTGGGATA-TGGCATCGATATGCATT-ACATA
* *
9985398 TAAGACCATATCCGGGATATGGCAT
1 TAAGACCATGTCTGGGATATGGCAT
9985423 TGTGCGAGCT
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
40 5 0.09
41 28 0.50
42 6 0.11
43 17 0.30
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (41 bp):
TAAGACCATGTCTGGGATATGGCATCGATATGCATTACATA
Found at i:9996749 original size:16 final size:16
Alignment explanation
Indices: 9996728--9996764 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
9996718 CACAAACTAA
9996728 TCCTCTC-TC-AAATT
1 TCCTCTCTTCTAAATT
9996742 TCCTCTCTTCTAAATT
1 TCCTCTCTTCTAAATT
9996758 TCCTCTC
1 TCCTCTC
9996765 AATTTGCTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 7 0.33
15 2 0.10
16 12 0.57
ACGTcount: A:0.16, C:0.38, G:0.00, T:0.46
Consensus pattern (16 bp):
TCCTCTCTTCTAAATT
Found at i:9996823 original size:51 final size:53
Alignment explanation
Indices: 9996763--9996863 Score: 138
Period size: 51 Copynumber: 1.9 Consensus size: 53
9996753 AAATTTCCTC
9996763 TCAATTTGCTCTCAAATT-CT-TTCAAAATTTCTCTCAAAT-CC-ATTTTTATTT
1 TCAATTTGCTCTCAAATTCCTCTT--AAATTTCTCTCAAATCCCTATTTTTATTT
* *
9996814 TCAATTTGCTCTCAAGTTCCTCTTAAATTTCTCTTAAATCCCTATTTTTA
1 TCAATTTGCTCTCAAATTCCTCTTAAATTTCTCTCAAATCCCTATTTTTA
9996864 AATAATTTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
51 31 0.70
52 4 0.09
53 9 0.20
ACGTcount: A:0.26, C:0.23, G:0.03, T:0.49
Consensus pattern (53 bp):
TCAATTTGCTCTCAAATTCCTCTTAAATTTCTCTCAAATCCCTATTTTTATTT
Found at i:9998821 original size:14 final size:16
Alignment explanation
Indices: 9998802--9998838 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
9998792 NNNNNNCTAA
9998802 TCCTCTC-TC-AAATT
1 TCCTCTCTTCTAAATT
9998816 TCCTCTCTTCTAAATT
1 TCCTCTCTTCTAAATT
9998832 TCCTCTC
1 TCCTCTC
9998839 AATTTGCTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 7 0.33
15 2 0.10
16 12 0.57
ACGTcount: A:0.16, C:0.38, G:0.00, T:0.46
Consensus pattern (16 bp):
TCCTCTCTTCTAAATT
Found at i:9998897 original size:51 final size:53
Alignment explanation
Indices: 9998837--9998937 Score: 138
Period size: 51 Copynumber: 1.9 Consensus size: 53
9998827 AAATTTCCTC
9998837 TCAATTTGCTCTCAAATT-CT-TTCAAAATTTCTCTCAAAT-CC-ATTTTTATTT
1 TCAATTTGCTCTCAAATTCCTCTT--AAATTTCTCTCAAATCCCTATTTTTATTT
* *
9998888 TCAATTTGCTCTCAAGTTCCTCTTAAATTTCTCTTAAATCCCTATTTTTA
1 TCAATTTGCTCTCAAATTCCTCTTAAATTTCTCTCAAATCCCTATTTTTA
9998938 AATAATTTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
51 31 0.70
52 4 0.09
53 9 0.20
ACGTcount: A:0.26, C:0.23, G:0.03, T:0.49
Consensus pattern (53 bp):
TCAATTTGCTCTCAAATTCCTCTTAAATTTCTCTCAAATCCCTATTTTTATTT
Found at i:10000504 original size:18 final size:18
Alignment explanation
Indices: 10000477--10000516 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
10000467 TAGGTGCGTT
* *
10000477 TCCTAGCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
*
10000495 TCCTAACCCTTATATGTT
1 TCCTAACCCTTATATGTA
10000513 TCCT
1 TCCT
10000517 TTTTCAAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.30, G:0.07, T:0.45
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:10000784 original size:21 final size:21
Alignment explanation
Indices: 10000758--10000804 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
10000748 CAACTCCGAC
*
10000758 AACCAG-ATGCCCTACTAGAAG
1 AACCAGAAT-CCCTACCAGAAG
*
10000779 AACCAGAATCCCTACCGGAAG
1 AACCAGAATCCCTACCAGAAG
10000800 AACCA
1 AACCA
10000805 CAACCGCCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.40, C:0.32, G:0.17, T:0.11
Consensus pattern (21 bp):
AACCAGAATCCCTACCAGAAG
Found at i:10001086 original size:22 final size:22
Alignment explanation
Indices: 10001068--10001516 Score: 499
Period size: 22 Copynumber: 20.8 Consensus size: 22
10001058 GACAAAATCT
* *
10001068 TAAACCCTTAACCTAAAAACCT
1 TAAACCCTTAACTTAAAAACCC
10001090 TAAACCCTTAACTTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
* *
10001112 T-AACCATTAACCT-AAAACCC
1 TAAACCCTTAACTTAAAAACCC
* *
10001132 T-AACCCTTAAATTAAAAACCA
1 TAAACCCTTAACTTAAAAACCC
*
10001153 TAAACCCTTAACTT-AAAACCTA
1 TAAACCCTTAACTTAAAAACC-C
*
10001175 TAAACCCTTAACCTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
* *
10001197 T-AACCCTTAACTTTAAAACAC
1 TAAACCCTTAACTTAAAAACCC
* *
10001218 TAAACTCTTAACTTTAAAA-CC
1 TAAACCCTTAACTTAAAAACCC
*
10001239 TTAACCCTTTAACTTAAAAACCC
1 TAAACCC-TTAACTTAAAAACCC
*
10001262 TAACCCCTTAACTTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
* * *
10001284 TAACCCCTTAACTTTAAAACCA
1 TAAACCCTTAACTTAAAAACCC
*
10001306 TAAACCCTTAGCTTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
* * *
10001328 T-AACCTTTAACTTTAAAACCT
1 TAAACCCTTAACTTAAAAACCC
* *
10001349 TAAACCATTAACTTTAAAACCC
1 TAAACCCTTAACTTAAAAACCC
* * *
10001371 TAAACCTTTAAATTAAAAACCT
1 TAAACCCTTAACTTAAAAACCC
10001393 TAAACCCTTATA-TT-AAAACCC
1 TAAACCCTTA-ACTTAAAAACCC
* *
10001414 TTAAACCCTTAACCTAAAAACTC
1 -TAAACCCTTAACTTAAAAACCC
10001437 T-AACCCTTAACTTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
* *
10001458 T-AACCCTTAACTTTAAAATCC
1 TAAACCCTTAACTTAAAAACCC
*
10001479 TAAACCCTTAAATTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
10001501 T-AACCCTTAACTTAAA
1 TAAACCCTTAACTTAAA
10001517 TATAATTTGA
Statistics
Matches: 365, Mismatches: 49, Indels: 27
0.83 0.11 0.06
Matches are distributed among these distances:
20 17 0.05
21 123 0.34
22 205 0.56
23 20 0.05
ACGTcount: A:0.44, C:0.29, G:0.00, T:0.27
Consensus pattern (22 bp):
TAAACCCTTAACTTAAAAACCC
Found at i:10001222 original size:43 final size:43
Alignment explanation
Indices: 10001070--10001513 Score: 501
Period size: 43 Copynumber: 10.3 Consensus size: 43
10001060 CAAAATCTTA
* *
10001070 AACCCTTAACCTAAAAACCTTAAACCCTTAACTTAAAAACCCT
1 AACCCTTAACTTTAAAACCTTAAACCCTTAACTTAAAAACCCT
* * * * *
10001113 AACCATTAAC-CTAAAACCCT-AACCCTTAAATTAAAAACCAT
1 AACCCTTAACTTTAAAACCTTAAACCCTTAACTTAAAAACCCT
*
10001154 AAACCCTTAAC-TTAAAACCTATAAACCCTTAACCTAAAAACCCT
1 -AACCCTTAACTTTAAAACCT-TAAACCCTTAACTTAAAAACCCT
* * *
10001198 AACCCTTAACTTTAAAACAC-TAAACTCTTAACTTTAAAACCTT
1 AACCCTTAACTTTAAAAC-CTTAAACCCTTAACTTAAAAACCCT
* * *
10001241 AACCCTTTAACTTAAAAACCCTAACCCCTTAACTTAAAAACCCT
1 AACCC-TTAACTTTAAAACCTTAAACCCTTAACTTAAAAACCCT
* *
10001285 AACCCCTTAACTTTAAAACCATAAACCCTTAGCTTAAAAACCCT
1 AA-CCCTTAACTTTAAAACCTTAAACCCTTAACTTAAAAACCCT
* * *
10001329 AACCTTTAACTTTAAAACCTTAAACCATTAACTTTAAAACCCT
1 AACCCTTAACTTTAAAACCTTAAACCCTTAACTTAAAAACCCT
* * *
10001372 AAACCTTTAAATTAAAAACCTTAAACCCTTATA-TT-AAAACCCTT
1 -AACCCTTAACTTTAAAACCTTAAACCCTTA-ACTTAAAAACCC-T
* *
10001416 AAACCCTTAAC-CTAAAAACTCT-AACCCTTAACTTAAAAACCCT
1 -AACCCTTAACTTTAAAACCT-TAAACCCTTAACTTAAAAACCCT
*
10001459 AACCCTTAACTTTAAAATCC-TAAACCCTTAAATTAAAAACCCT
1 AACCCTTAACTTTAAAA-CCTTAAACCCTTAACTTAAAAACCCT
10001502 AACCCTTAACTT
1 AACCCTTAACTT
10001514 AAATATAATT
Statistics
Matches: 343, Mismatches: 41, Indels: 34
0.82 0.10 0.08
Matches are distributed among these distances:
41 19 0.06
42 35 0.10
43 142 0.41
44 142 0.41
45 5 0.01
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.27
Consensus pattern (43 bp):
AACCCTTAACTTTAAAACCTTAAACCCTTAACTTAAAAACCCT
Found at i:10001303 original size:109 final size:108
Alignment explanation
Indices: 10001068--10001516 Score: 518
Period size: 109 Copynumber: 4.2 Consensus size: 108
10001058 GACAAAATCT
* * *
10001068 TAAACCCTTAACCTAAAAACCTTAAACCCTTAACTTAAAAACCCTAAC-CATTAAC-CTAAAACC
1 TAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACTC-TTAACTTTAAAACC
* * * *
10001131 CTAACCCTTAAATTAAAAACCATAAACCCTTAACTT-AAAACCTA
65 CTAACCCTTAACTTAAAAACCCTAAACCCTTAAATTAAAAACC-C
* * *
10001175 TAAACCCTTAACCTAAAAACCCT-AACCCTTAACTTTAAAACACTAAACTCTTAACTTTAAAACC
1 TAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT-AACTCTTAACTTTAAAACC
* * *
10001239 TTAACCCTTTAACTTAAAAACCCTAACCCCTTAACTTAAAAACCC
65 CTAACCC-TTAACTTAAAAACCCTAAACCCTTAAATTAAAAACCC
* * * *
10001284 TAACCCCTTAACTTTAAAACCATAAACCCTTAGCTTAAAAACCCTAAC-CTTTAACTTTAAAACC
1 TAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACTC-TTAACTTTAAAACC
* * * * *
10001348 TTAAACCATTAACTTTAAAACCCTAAACCTTTAAATTAAAAACCT
65 CT-AACCCTTAACTTAAAAACCCTAAACCCTTAAATTAAAAACCC
* * * *
10001393 TAAACCCTTATA-TT-AAAACCCTTAAACCCTTAACCTAAAAACTCTAACCCTTAACTTAAAAAC
1 TAAACCCTTA-ACTTAAAAACCC-TAAACCCTTAACTTAAAAACCCTAACTCTTAACTTTAAAAC
* *
10001456 CCTAACCCTTAACTTTAAAATCCTAAACCCTTAAATTAAAAACCC
64 CCTAACCCTTAACTTAAAAACCCTAAACCCTTAAATTAAAAACCC
10001501 T-AACCCTTAACTTAAA
1 TAAACCCTTAACTTAAA
10001517 TATAATTTGA
Statistics
Matches: 296, Mismatches: 33, Indels: 25
0.84 0.09 0.07
Matches are distributed among these distances:
106 20 0.07
107 40 0.14
108 62 0.21
109 144 0.49
110 30 0.10
ACGTcount: A:0.44, C:0.29, G:0.00, T:0.27
Consensus pattern (108 bp):
TAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACTCTTAACTTTAAAACCC
TAACCCTTAACTTAAAAACCCTAAACCCTTAAATTAAAAACCC
Found at i:10005253 original size:124 final size:125
Alignment explanation
Indices: 10004690--10005257 Score: 759
Period size: 126 Copynumber: 4.5 Consensus size: 125
10004680 CCTAAACATG
* *
10004690 CTACTGTAGCAAAAGCGCGTCTACGTGGGCGCGATTTTACAAATTCTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* * * * *
10004755 TAGAAGCG-ATTTTATACTATTTGCTCAGAAACATCAAGTCGAAATTATTTTTCTAGGAC
66 TTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCTAGGAC
* * *
10004814 CTACTGTAGCAAAAGCGCGTCCACGAGGACGCGATTTCACAAATTCTTCTCA-AATAGCATGCTG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTG
* *
10004878 CTTGCAGCGTTGTTTTATACTATTTGCTCAGAAACGTCAACTC-AATATTATTTTT-TCAGGAC
65 CTTGAAGCGTT-TTTTAAACTATTTGCTCAGAAACGTCAACTCGAA-ATTATTTTTCT-AGGAC
* * * *
10004940 CTACTGTAGCAAAAGCGCGTCCATGTGGGCGCGACTTCACAAATTCTTCTTATAAAGCATTCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* * *
10005005 TTGAAGCGTTTTTTAAAACTATTTGCTAAAAAACGTCAACTCGAAATTATTTCTTCCAGGAC
66 TTGAAGCGTTTTTT-AAACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCTAGGAC
* * *
10005067 CAACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTTATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* * *
10005132 TTGAAGCG-TTTTTAAACTATTTGCTTAGAAGCGTCAAGTCGAAATTATTTTTCTAGGAC
66 TTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCTAGGAC
* ** * * * *
10005191 CTACTGTAGCAAAAGCGCGTACACGTGGGCGCGGCTTCAAAAATCCTTCTGATAAATCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
10005256 TT
66 TT
10005258 TGATTTTATC
Statistics
Matches: 394, Mismatches: 40, Indels: 20
0.87 0.09 0.04
Matches are distributed among these distances:
123 2 0.01
124 129 0.33
125 40 0.10
126 144 0.37
127 79 0.20
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
TTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCTAGGAC
Found at i:10018868 original size:17 final size:17
Alignment explanation
Indices: 10018846--10018878 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10018836 GCATTCTTCC
*
10018846 TTTTTTTTTCTTTTCTT
1 TTTTTTTTTCTCTTCTT
10018863 TTTTTTTTTCTCTTCT
1 TTTTTTTTTCTCTTCT
10018879 CTTCTGTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTTTTTTCTCTTCTT
Found at i:10019454 original size:30 final size:30
Alignment explanation
Indices: 10019416--10019489 Score: 114
Period size: 30 Copynumber: 2.5 Consensus size: 30
10019406 TTCTGGGGTC
*
10019416 AAAATGTAATTTTAGGAAAG-TTAGAGGGTT
1 AAAATGTAATTTTAGGAAAGTTTA-AAGGTT
*
10019446 AGAATGTAATTTTAGGAAAGTTTAAAGGTT
1 AAAATGTAATTTTAGGAAAGTTTAAAGGTT
10019476 AAAATGTAATTTTA
1 AAAATGTAATTTTA
10019490 AATAGTTGGG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 37 0.93
31 3 0.08
ACGTcount: A:0.42, C:0.00, G:0.22, T:0.36
Consensus pattern (30 bp):
AAAATGTAATTTTAGGAAAGTTTAAAGGTT
Found at i:10020273 original size:76 final size:76
Alignment explanation
Indices: 10019823--10021123 Score: 1667
Period size: 75 Copynumber: 17.1 Consensus size: 76
10019813 TATTTTTTTA
* * * * *
10019823 TTTGAAAAACAAAAATCT--AAAATAGCTC-GACGTGCGACCCGAAGCTCAACTCACCTCTCGGC
1 TTTGAAAAACAGAAAT-TGAAAAATACCTCAG-CGTGTGACCCGAGGCTCAACTCACCTCTCGGA
*
10019885 TTATGAGTTGATC
64 TTATGAGTTGATT
* * ** * *
10019898 TTT-AAAAACTAGAAATTG-ATAATACGTCAGCGTGCAACCTGAGGCTCAACTCACTTCTCGGAT
1 TTTGAAAAAC-AGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGGAT
10019961 TATGAGTTGATCT
65 TATGAGTTGAT-T
** * * * *
10019974 TTAAAAAAAACAGAAATTGAAAAATACCTCGGCGTGCGACCCGAGGCTCAACTCACCTCTCAGAC
1 TT-TGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGGAT
10020039 TATGAGTTGATT
65 TATGAGTTGATT
* * * *
10020051 TTTGAAAAAAATAGAAATTGAAAAATACCTCGGCGTGCGACCCGAAGCTCAACTCACCTCTCGGA
1 TTTG--AAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGGA
*
10020116 TTATGAGTTGGTT
64 TTATGAGTTGATT
* * * *
10020129 TTTGAAAAATAGAAATTG-AAAATACCTCAGCATGTGACCCAAGGCTCAACTCACCTCTCAGATT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGGATT
10020193 ATGAGTTGATT
66 ATGAGTTGATT
* * * **
10020204 TTTGAAAAACAGAAATTGAAAAATATCTCAGTGTGTGACCCGAGGCTCAACTCACCTTTTAGATT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGGATT
10020269 ATGAGTTGATT
66 ATGAGTTGATT
* * * * *
10020280 TTTGAAAAAACAGAAATTGAAAAATACCTCGGCGTGCGACCCAAAGCTCAACTCACCTCTCGAAT
1 TTTG-AAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGGAT
10020345 TATGAGTTGATT
65 TATGAGTTGATT
* * *
10020357 TTTGAAAAATAGAAATTG-AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTATCGAATT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGGATT
10020421 ATGAGTTGATT
66 ATGAGTTGATT
* *
10020432 TTTGAAAAATAGAAATTG-AAAATACCTAAGCGTGTGACCCGAGGCTCAACTCACCTCTCGGATT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGGATT
*
10020496 ATGAGTTGATC
66 ATGAGTTGATT
* * * * ** * * **
10020507 TTTAAAAAATAGAAATTG-AAAATACGTCAACGTGCAACCCGAGGCTCAACTCACTTTTCAAATT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGGATT
*
10020571 ATGAGTTGATC
66 ATGAGTTGATT
* *
10020582 TTTGAAAAAAATAGAAATTGAAAAATACCTCAGCGTGTAACCCGAGGCTCAACTCACCTCTCGGA
1 TTTG--AAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGGA
10020647 TTATGAGTTGATT
64 TTATGAGTTGATT
*
10020660 TTTGAAAAAACAGAAATTGAAAAATACCT-AGCGTGTGACCCGAAGCTCAACTCACCTCTCGGAT
1 TTTG-AAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGGAT
10020724 TATGAGTTGATT
65 TATGAGTTGATT
* * * *
10020736 TTTGAAAAACAAAAATTG-AAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACATATCGGATT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGGATT
10020800 ATGAGTTGATT
66 ATGAGTTGATT
* *
10020811 TTTGAAAAACAGAAATT-AAAAATACCTCGGCGTGTGACTCGAGGCTCAACTCACCTCTCGGATT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGGATT
10020875 ATGAGTTGATT
66 ATGAGTTGATT
* * ** ** *
10020886 TTTGCAAAACAGAAATT-AAAAATACCTCAGTGTGCAACCTAAGGTTCAACTCACCTCTCGGATT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGGATT
*
10020950 ATGAGTAGATT
66 ATGAGTTGATT
* * * *
10020961 TTTGAAAAATAGAAATTGGAAAATACCTCGGCGTGTGACCCGAGGCTCAA-TCCACCTCTCGGCT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACT-CACCTCTCGGAT
10021025 TATGAGTTGATT
65 TATGAGTTGATT
* * * * *
10021037 TTTAAAAAACAGAAATTGAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTTGAATT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGGATT
*
10021102 ATGAGTTAATT
66 ATGAGTTGATT
10021113 TTTGAAAAACA
1 TTTGAAAAACA
10021124 TAAAAAGAAA
Statistics
Matches: 1083, Mismatches: 124, Indels: 37
0.87 0.10 0.03
Matches are distributed among these distances:
74 16 0.01
75 517 0.48
76 256 0.24
77 116 0.11
78 178 0.16
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (76 bp):
TTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGGATT
ATGAGTTGATT
Found at i:10020789 original size:379 final size:377
Alignment explanation
Indices: 10019853--10021128 Score: 1752
Period size: 379 Copynumber: 3.4 Consensus size: 377
10019843 AATAGCTCGA
* * * *
10019853 CGTGCGACCCGAAGCTCAACTCACCTCTCGGCTTATGAGTTGATCTTT-AAAAACTAGAAATTG-
1 CGTGTGACCCGAGGCTCAACTCACCTCTCGGATTATGAGTTGATTTTTAAAAAAC-AGAAATTGA
* * * * * * * **
10019916 ATAATACGTCAGCGTGCAACCTGAGGCTCAACTCACTTCTCGGATTATGAGTTGATCTTTAAAAA
65 AAAATACCTCAGCGTGCGACCCGAAGCTCAACTCACCTCTCGAATTATGAGTTGAT-TTT-TGAA
* * * * *
10019981 AAACAGAAATTGAAAAATACCTCGGCGTGCGACCCGAGGCTCAACTCACCTCTC-AGACTATGAG
128 AAACAAAAATTG-AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTATCGA-ATTATGAG
* *
10020045 TTGATTTTTGAAAAAAATAGAAATTGAAAAATACCTCGGCGTGCGACCCGAAGCTCAACTCACCT
191 TTGATTTTTG--AAAAATAGAAATTG-AAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCT
* * **
10020110 CTCGGATTATGAGTTGGTTTTTGAAAAATAGAAATTGAAAATACCTCAGCATGTGACCCAAGGCT
253 CTCGGATTATGAGTTGATTTTTGAAAAATAGAAATTGAAAATACCTCAGCGTGCAACCCAAGGCT
* *
10020175 CAACTCACCTCTCAGATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATATCTCAG
318 CAACTCACCTCTCAGATTATGAGTTGATTTTTGAAAAATAGAAATTGAAAAATACCTCAG
* * **
10020235 TGTGTGACCCGAGGCTCAACTCACCTTTTAGATTATGAGTTGATTTTTGAAAAAACAGAAATTGA
1 CGTGTGACCCGAGGCTCAACTCACCTCTCGGATTATGAGTTGATTTTT-AAAAAACAGAAATTGA
* *
10020300 AAAATACCTCGGCGTGCGACCCAAAGCTCAACTCACCTCTCGAATTATGAGTTGATTTTTGAAAA
65 AAAATACCTCAGCGTGCGACCCGAAGCTCAACTCACCTCTCGAATTATGAGTTGATTTTTGAAAA
* *
10020365 ATAGAAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTATCGAATTATGAGTTGA
130 ACAAAAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTATCGAATTATGAGTTGA
**
10020430 TTTTTGAAAAATAGAAATTGAAAATACCTAAGCGTGTGACCCGAGGCTCAACTCACCTCTCGGAT
195 TTTTTGAAAAATAGAAATTGAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGGAT
* * * * *
10020495 TATGAGTTGATCTTTAAAAAATAGAAATTGAAAATACGTCAACGTGCAACCCGAGGCTCAACTCA
260 TATGAGTTGATTTTTGAAAAATAGAAATTGAAAATACCTCAGCGTGCAACCCAAGGCTCAACTCA
* * * *
10020560 CTTTTCAAATTATGAGTTGATCTTTGAAAAAAATAGAAATTGAAAAATACCTCAG
325 CCTCTCAGATTATGAGTTGATTTTTG--AAAAATAGAAATTGAAAAATACCTCAG
*
10020615 CGTGTAACCCGAGGCTCAACTCACCTCTCGGATTATGAGTTGATTTTTGAAAAAACAGAAATTGA
1 CGTGTGACCCGAGGCTCAACTCACCTCTCGGATTATGAGTTGATTTTT-AAAAAACAGAAATTGA
* *
10020680 AAAATACCT-AGCGTGTGACCCGAAGCTCAACTCACCTCTCGGATTATGAGTTGATTTTTGAAAA
65 AAAATACCTCAGCGTGCGACCCGAAGCTCAACTCACCTCTCGAATTATGAGTTGATTTTTGAAAA
* * *
10020744 ACAAAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACATATCGGATTATGAGTTGA
130 ACAAAAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTATCGAATTATGAGTTGA
* * *
10020809 TTTTTGAAAAACAGAAATTAAAAATACCTCGGCGTGTGACTCGAGGCTCAACTCACCTCTCGGAT
195 TTTTTGAAAAATAGAAATTGAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGGAT
* * * * * *
10020874 TATGAGTTGATTTTTGCAAAACAGAAATTAAAAATACCTCAGTGTGCAACCTAAGGTTCAACTCA
260 TATGAGTTGATTTTTGAAAAATAGAAATTGAAAATACCTCAGCGTGCAACCCAAGGCTCAACTCA
* * * *
10020939 CCTCTCGGATTATGAGTAGATTTTTGAAAAATAGAAATTGGAAAATACCTCGG
325 CCTCTCAGATTATGAGTTGATTTTTGAAAAATAGAAATTGAAAAATACCTCAG
*
10020992 CGTGTGACCCGAGGCTCAA-TCCACCTCTCGGCTTATGAGTTGATTTTTAAAAAACAGAAATTGA
1 CGTGTGACCCGAGGCTCAACT-CACCTCTCGGATTATGAGTTGATTTTTAAAAAACAGAAATTGA
* * * * * *
10021056 AAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTTGAATTATGAGTTAATTTTTGAAAA
65 AAAATACCTCAGCGTGCGACCCGAAGCTCAACTCACCTCTCGAATTATGAGTTGATTTTTGAAAA
10021121 ACATAAAA
130 ACA-AAAA
10021129 AGAAATAATT
Statistics
Matches: 796, Mismatches: 89, Indels: 22
0.88 0.10 0.02
Matches are distributed among these distances:
376 26 0.03
377 121 0.15
378 123 0.15
379 259 0.33
380 94 0.12
381 55 0.07
382 54 0.07
383 11 0.01
384 53 0.07
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (377 bp):
CGTGTGACCCGAGGCTCAACTCACCTCTCGGATTATGAGTTGATTTTTAAAAAACAGAAATTGAA
AAATACCTCAGCGTGCGACCCGAAGCTCAACTCACCTCTCGAATTATGAGTTGATTTTTGAAAAA
CAAAAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTATCGAATTATGAGTTGAT
TTTTGAAAAATAGAAATTGAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGGATT
ATGAGTTGATTTTTGAAAAATAGAAATTGAAAATACCTCAGCGTGCAACCCAAGGCTCAACTCAC
CTCTCAGATTATGAGTTGATTTTTGAAAAATAGAAATTGAAAAATACCTCAG
Found at i:10021998 original size:38 final size:38
Alignment explanation
Indices: 10021963--10022036 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 38
10021953 TTGTTTATTG
*
10021963 AGACGCAC-TTTTCGAGTTTTCATCTTGATTTTTTATCA
1 AGACGC-CTTTTTCGAGTTTTCATCTCGATTTTTTATCA
* *
10022001 AGACGCCTTTTTTGGGGTTTTCATCTCGATTTTTTA
1 AGACGCC-TTTTTCGAGTTTTCATCTCGATTTTTTA
10022037 GGCATAGTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 1 0.03
38 6 0.19
39 24 0.77
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.49
Consensus pattern (38 bp):
AGACGCCTTTTTCGAGTTTTCATCTCGATTTTTTATCA
Found at i:10024209 original size:41 final size:41
Alignment explanation
Indices: 10024152--10024258 Score: 187
Period size: 41 Copynumber: 2.6 Consensus size: 41
10024142 AGCTCAATGC
10024152 CTAGCAGGCTTAATGCCGGTGAATTATTTCAGACTTTATGT
1 CTAGCAGGCTTAATGCCGGTGAATTATTTCAGACTTTATGT
*
10024193 CTAGCAGGCTTAATGCCGGTGAATTATTTTAGACTTTATGT
1 CTAGCAGGCTTAATGCCGGTGAATTATTTCAGACTTTATGT
* *
10024234 CTAGCAAGCTTTATGCCGGTGAATT
1 CTAGCAGGCTTAATGCCGGTGAATT
10024259 GAATCGGGCT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 63 1.00
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.36
Consensus pattern (41 bp):
CTAGCAGGCTTAATGCCGGTGAATTATTTCAGACTTTATGT
Found at i:10030216 original size:38 final size:39
Alignment explanation
Indices: 10030155--10030233 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 39
10030145 TTTACGAACG
*
10030155 CCTCTGCAAACCTCTTGACTTATGTG-ATATGTTTGTAA
1 CCTCTGCAAACCTCTTGACTTATGTGAATATGTTTGCAA
* * *
10030193 CCTCTGCGAACCTCTT-ATGTTATGTGAATTTGTTTGCAA
1 CCTCTGCAAACCTCTTGA-CTTATGTGAATATGTTTGCAA
10030232 CC
1 CC
10030234 ATGTATATGT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
37 1 0.03
38 22 0.63
39 12 0.34
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (39 bp):
CCTCTGCAAACCTCTTGACTTATGTGAATATGTTTGCAA
Found at i:10037999 original size:3 final size:3
Alignment explanation
Indices: 10037991--10038015 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
10037981 TGCTCCAGTG
10037991 GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT G
10038016 GGTTCCTAAT
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:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:10038585 original size:13 final size:14
Alignment explanation
Indices: 10038561--10038589 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
10038551 TAGTTGTTAT
10038561 ATTTTTGTATTTTA
1 ATTTTTGTATTTTA
10038575 ATTTTTG-ATTTTA
1 ATTTTTGTATTTTA
10038588 AT
1 AT
10038590 GTAGTCATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (14 bp):
ATTTTTGTATTTTA
Found at i:10041143 original size:13 final size:14
Alignment explanation
Indices: 10041125--10041159 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
10041115 AAAAAACATT
10041125 AGAAAGAAA-AGAA
1 AGAAAGAAAGAGAA
10041138 AGAAAGAAAGAGAA
1 AGAAAGAAAGAGAA
10041152 AG-AAGAAA
1 AGAAAGAAA
10041160 CAGACGCACG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 15 0.71
14 6 0.29
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (14 bp):
AGAAAGAAAGAGAA
Found at i:10041147 original size:17 final size:17
Alignment explanation
Indices: 10041125--10041159 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
10041115 AAAAAACATT
10041125 AGAAAGA-AAAGAAAGAA
1 AGAAAGAGAAAG-AAGAA
10041142 AGAAAGAGAAAGAAGAA
1 AGAAAGAGAAAGAAGAA
10041159 A
1 A
10041160 CAGACGCACG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (17 bp):
AGAAAGAGAAAGAAGAA
Found at i:10043500 original size:26 final size:27
Alignment explanation
Indices: 10043470--10043541 Score: 76
Period size: 29 Copynumber: 2.6 Consensus size: 27
10043460 GTTTATTTTT
* *
10043470 AAAAAATATATTTTTTATGAA-TT-TA
1 AAAAAATATATTTTTAAAGAATTTATA
*
10043495 AAAAAATATAATTTTGAAAGAATTTATAA
1 AAAAAATAT-ATTTTTAAAGAATTTAT-A
10043524 AAAAAATTATATTTTTAA
1 AAAAAA-TATATTTTTAA
10043542 TTTTTTATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
25 9 0.24
26 9 0.24
27 2 0.05
28 1 0.03
29 14 0.37
30 3 0.08
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (27 bp):
AAAAAATATATTTTTAAAGAATTTATA
Found at i:10043503 original size:25 final size:27
Alignment explanation
Indices: 10043464--10043527 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 27
10043454 TACTTAGTTT
* ** *
10043464 ATTTTTAAAAAATAT-ATTTTTTATGA
1 ATTTATAAAAAATATAATTTTGAAAGA
10043490 ATTTA-AAAAAATATAATTTTGAAAGA
1 ATTTATAAAAAATATAATTTTGAAAGA
10043516 ATTTATAAAAAA
1 ATTTATAAAAAA
10043528 AATTATATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 9 0.28
26 17 0.53
27 6 0.19
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (27 bp):
ATTTATAAAAAATATAATTTTGAAAGA
Found at i:10045468 original size:125 final size:125
Alignment explanation
Indices: 10045141--10045506 Score: 540
Period size: 124 Copynumber: 2.9 Consensus size: 125
10045131 TAGGTCTTGA
*** **
10045141 AAGAAATAATTTTGAGTTGACGTTTCTGATTAAATAGTATAAAATCGCTTCTAGCAGGATGCTAT
1 AAGAAATAATTTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTAT
* * *
10045206 TTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGTTACAGTAGGTCATGG
66 TTGAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATAG
* * * *
10045266 AAGAAATAATTTTTTTTT-ACGTTTCTTAGCAAATAGTATAAAATCACTTTTAGCAGGATGTTAT
1 AAGAAATAATTTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTAT
* * *
10045330 TTGAGAAGAATTTGTAAAATCGTGCCCTCGTGGATGCGCTTTTGCTACAGTCGGTCATAG
66 TTGAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATAG
*
10045390 AAGAAATAATTTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGTAGGATGCTAT
1 AAGAAATAATTTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTAT
* *
10045455 TTGAGAAGAATTTGTGAAAATCACGCCCTCGT--AGGCGCTTTTGCTACAGTAG
66 TTGAGAAGAATTTGT-AAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
10045507 CATGTTTGGG
Statistics
Matches: 215, Mismatches: 24, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
124 130 0.60
125 71 0.33
126 14 0.07
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (125 bp):
AAGAAATAATTTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTAT
TTGAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATAG
Found at i:10046147 original size:124 final size:124
Alignment explanation
Indices: 10045995--10046250 Score: 399
Period size: 125 Copynumber: 2.1 Consensus size: 124
10045985 ACAAAATAGT
* *
10045995 TACAGTAGGTCATGGAAGAAATAATTTTTTTTT-ACGTTTCTTAGCAAATAGTATAAAATCACTT
1 TACAGTAGGTCATAGAAGAAATAATTTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCACTT
* * **
10046059 TTAGCAGGATGTTATTTGAGAAGAATTTGT-AAAATCGTGCCCTCGTGGATGCGCTTTTGC
66 CTAGCAGGATGCTATTTGAGAAGAATTTGTGAAAATCACGCCCTCGTGG--GCGCTTTTGC
* *
10046119 TACAGTCGGTCATAGAAGAAATAATTTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTT
1 TACAGTAGGTCATAGAAGAAATAATTTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCACTT
*
10046184 CTAGTAGGATGCTATTTGAGAAGAATTTGTGAAAATCACGCCCTCGTGGGCGCTTTTGC
66 CTAGCAGGATGCTATTTGAGAAGAATTTGTGAAAATCACGCCCTCGTGGGCGCTTTTGC
10046243 TACAGTAG
1 TACAGTAG
10046251 CATGTTTGGG
Statistics
Matches: 120, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
124 48 0.40
125 56 0.47
126 16 0.13
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (124 bp):
TACAGTAGGTCATAGAAGAAATAATTTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCACTT
CTAGCAGGATGCTATTTGAGAAGAATTTGTGAAAATCACGCCCTCGTGGGCGCTTTTGC
Found at i:10048874 original size:23 final size:23
Alignment explanation
Indices: 10048842--10049463 Score: 556
Period size: 23 Copynumber: 27.1 Consensus size: 23
10048832 AAGTAAAATT
* *
10048842 ATTAATTTAGTTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
10048865 ATTAAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
*
10048888 ATTTAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
***
10048911 AGTTAAGGGA-GTTAGGGTTTTTA
1 A-TTAAATTAGGTTAGGGTTTTTA
*
10048934 AGT---TTAGGGTTTAGGGTTTTTA
1 ATTAAATTA-GG-TTAGGGTTTTTA
* *
10048956 ATTTAATTATGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
* *
10048979 ATTTAATTATGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
*
10049002 ATTTAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
*
10049025 AGT---TTAGGGTTTAGGGTTTTTA
1 ATTAAATTA-GG-TTAGGGTTTTTA
10049047 ATTAAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
* *
10049070 ATTTAATTAGGTTAGGATTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
10049093 ATTAAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
*
10049116 AGT---TTAGGGTTTAGGGTTTTTA
1 ATTAAATTA-GG-TTAGGGTTTTTA
*
10049138 ATTAAATTAGGTTAAGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
*
10049161 ATTTAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
* *
10049184 AGTT-AATTAGGTTAGAGATTTTA
1 A-TTAAATTAGGTTAGGGTTTTTA
* *
10049207 AGT---TTAGGGTTTAGAGTTTTTA
1 ATTAAATTA-GG-TTAGGGTTTTTA
10049229 ATTAAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
*
10049252 ATTTAATTAGGTTAGGG-TTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
**
10049274 A--AGTTTAGGGTTTAGGGTTTTTAATTTTA
1 ATTAAATTA-GG-TTAGGG----T--TTTTA
*
10049303 ATTAAATTAGATTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
* *
10049326 AGT---TTAGGGTTTAGAGTTTTTA
1 ATTAAATTA-GG-TTAGGGTTTTTA
*
10049348 ATTAAATTAGGTTAAGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
*
10049371 ATTTAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
**
10049394 AGTT-AA-GGGGTTAGGGTTTTTA
1 A-TTAAATTAGGTTAGGGTTTTTA
* *
10049416 AGT---TTAGGGTTTAAGGTTTTTA
1 ATTAAATTA-GG-TTAGGGTTTTTA
10049438 ATTAAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
10049461 ATT
1 ATT
10049464 TAAGGGTATT
Statistics
Matches: 500, Mismatches: 53, Indels: 92
0.78 0.08 0.14
Matches are distributed among these distances:
19 1 0.00
20 15 0.03
21 13 0.03
22 110 0.22
23 306 0.61
24 19 0.04
25 19 0.04
29 12 0.02
30 1 0.00
31 4 0.01
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (23 bp):
ATTAAATTAGGTTAGGGTTTTTA
Found at i:10048954 original size:91 final size:91
Alignment explanation
Indices: 10048851--10049466 Score: 777
Period size: 91 Copynumber: 6.7 Consensus size: 91
10048841 TATTAATTTA
10048851 GTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTA
1 GTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTA
**
10048916 A-GGGAGTTAGGGTTTTTAAGTTTAGG
66 ATTAG-GTTAGGGTTTTTAAGTTTAGG
* * * *
10048942 GTTTAGGGTTTTTAATTTAATTATGTTAGGGTTTTTAATTTAATTATGTTAGGGTTTTTAATTTA
1 GTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTA
10049007 ATTAGGTTAGGGTTTTTAAGTTTAGG
66 ATTAGGTTAGGGTTTTTAAGTTTAGG
*
10049033 GTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGATTTTTAA-TTA
1 GTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTT-
10049097 AATTAGGTTAGGGTTTTTAAGTTTAGG
65 AATTAGGTTAGGGTTTTTAAGTTTAGG
*
10049124 GTTTAGGGTTTTTAATTAAATTAGGTTAAGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTA
1 GTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTA
* *
10049189 ATTAGGTTAGAGATTTTAAGTTTAGG
66 ATTAGGTTAGGGTTTTTAAGTTTAGG
* *
10049215 GTTTAGAGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTAAAG-T-
1 GTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTA
* **
10049278 -TTAGGGTTTAGGGTTTTTAATTTTAATTAAATTA
66 ATTA-GG-TTAGGGTTTTTAA--GT--TT--A-GG
* * * * * *
10049312 GATTAGGGTTTTTAAGT---TTAGGGTTTAGAGTTTTTAATTAAATTAGGTTAAGGTTTTTAATT
1 GTTTAGGGTTTTTAATTAAATTA-GG-TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGT
*
10049374 TAATTAGGTTAGGGTTTTTAAGTTAAGG
64 TAATTAGGTTAGGGTTTTTAAGTTTAGG
* * * * *
10049402 GGTTAGGGTTTTTAAGT---TTAGGGTTTAAGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATT
1 GTTTAGGGTTTTTAATTAAATTA-GG-TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGT
10049464 TAA
64 TAA
10049467 GGGTATTAAT
Statistics
Matches: 470, Mismatches: 38, Indels: 35
0.87 0.07 0.06
Matches are distributed among these distances:
88 3 0.01
89 2 0.00
90 75 0.16
91 311 0.66
92 4 0.01
93 1 0.00
94 5 0.01
95 3 0.01
96 33 0.07
97 28 0.06
98 2 0.00
99 3 0.01
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.50
Consensus pattern (91 bp):
GTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTA
ATTAGGTTAGGGTTTTTAAGTTTAGG
Found at i:10048963 original size:68 final size:68
Alignment explanation
Indices: 10048874--10049469 Score: 526
Period size: 68 Copynumber: 8.7 Consensus size: 68
10048864 AATTAAATTA
10048874 GGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGGA-GTTAGGGTTTTTAAGTT
1 GGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGGAGGTTAGGGTTTTTAAGTT
10048938 TAG
66 TAG
* * ** *
10048941 GGTTTAGGGTTTTTAATTTAATTATGTTAGGGTTTTTAATTTAA-TTATGTTAGGGTTTTTAA-T
1 GG-TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGGAGGTTAGGGTTTTTAAGT
*
10049004 TTAATTA
65 TT-A--G
* ***
10049011 GGTTAGGGTTTTTAAGTTT-A--GGGTTTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAA-
1 GGTTAGGGTTTTTAA-TTTAATTAGG-TTAGGGTTTTTAAGTTAAGGGAGGTTAGGGTTTTTAAG
*
10049071 TTTAATTA
64 TTT-A--G
* * * * *
10049079 GGTTAGGATTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTTA-GG-GTTTAGGGTTTTTAATTA
1 GGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGGAGGTTAGGGTTTTTAAGT-
10049142 AATTA-
65 --TTAG
* ** * *
10049147 GGTTAAGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAA-TTAGGTTAGAGATTTTAAGTT
1 GGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGGAGGTTAGGGTTTTTAAGTT
10049211 TAG
66 TAG
* * * ** *
10049214 GGTTTAGAGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAA-TTAGGTTAGGGTTTTAAAGT
1 GG-TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGGAGGTTAGGGTTTTTAAGT
10049278 TTAG
65 TTAG
* * * *
10049282 GGTTTAGGGTTTTTAATTTTAATTAAATTAGATTAGGGTTTTTAAGTTTA-GG-GTTTAGAGTTT
1 GG-TTAGGGTTTTTAA---T--TT-AATTAGGTTAGGGTTTTTAAGTTAAGGGAGGTTAGGGTTT
*
10049345 TTAATTAAATTA-
59 TTAAGT---TTAG
*
10049357 GGTTAAGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAA-GG-GGTTAGGGTTTTTAAGTT
1 GGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGGAGGTTAGGGTTTTTAAGTT
10049420 TAG
66 TAG
* * *
10049423 GGTTTAAGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAAGGG
1 GG-TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGG
10049470 TATTAATGGT
Statistics
Matches: 447, Mismatches: 51, Indels: 61
0.80 0.09 0.11
Matches are distributed among these distances:
65 3 0.01
66 5 0.01
67 54 0.12
68 274 0.61
69 43 0.10
70 10 0.02
71 3 0.01
72 2 0.00
73 14 0.03
74 34 0.08
75 2 0.00
76 3 0.01
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (68 bp):
GGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGGAGGTTAGGGTTTTTAAGTT
TAG
Found at i:10049311 original size:51 final size:51
Alignment explanation
Indices: 10049247--10049350 Score: 172
Period size: 51 Copynumber: 2.0 Consensus size: 51
10049237 AGGTTAGGGT
* * *
10049247 TTTTAATTTAATTAGGTTAGGGTTTTAAAGTTTAGGGTTTAGGGTTTTTAA
1 TTTTAATTAAATTAGATTAGGGTTTTAAAGTTTAGGGTTTAGAGTTTTTAA
*
10049298 TTTTAATTAAATTAGATTAGGGTTTTTAAGTTTAGGGTTTAGAGTTTTTAA
1 TTTTAATTAAATTAGATTAGGGTTTTAAAGTTTAGGGTTTAGAGTTTTTAA
10049349 TT
1 TT
10049351 AAATTAGGTT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.27, C:0.00, G:0.21, T:0.52
Consensus pattern (51 bp):
TTTTAATTAAATTAGATTAGGGTTTTAAAGTTTAGGGTTTAGAGTTTTTAA
Found at i:10049539 original size:25 final size:25
Alignment explanation
Indices: 10049509--10049556 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
10049499 TATCAAAAAT
10049509 TTCTATTTTATTACATCAAATAAAC
1 TTCTATTTTATTACATCAAATAAAC
10049534 TTCTATTTTATTACATCAAATAA
1 TTCTATTTTATTACATCAAATAA
10049557 TATCAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.46
Consensus pattern (25 bp):
TTCTATTTTATTACATCAAATAAAC
Found at i:10050012 original size:18 final size:18
Alignment explanation
Indices: 10049989--10050024 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
10049979 CGGAAAAGGG
*
10049989 TACATATAAGGGTTAGGA
1 TACATATAAGGGCTAGGA
10050007 TACATATAAGGGCTAGGA
1 TACATATAAGGGCTAGGA
10050025 AACGCACCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.08, G:0.28, T:0.25
Consensus pattern (18 bp):
TACATATAAGGGCTAGGA
Found at i:10051528 original size:11 final size:11
Alignment explanation
Indices: 10051512--10051553 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
10051502 AAAAAGAGAG
10051512 TTAAGAGAAAC
1 TTAAGAGAAAC
*
10051523 TTAAGAGGAAC
1 TTAAGAGAAAC
*
10051534 TTAAGAGGAAC
1 TTAAGAGAAAC
10051545 TTAAGAGAA
1 TTAAGAGAA
10051554 TTTTTGAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.50, C:0.07, G:0.24, T:0.19
Consensus pattern (11 bp):
TTAAGAGAAAC
Found at i:10051755 original size:22 final size:21
Alignment explanation
Indices: 10051730--10051770 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
10051720 CTGACGTGGA
10051730 CGCAATTTCCTGGCGACGTCAG
1 CGCAATTTCCTGGCG-CGTCAG
10051752 CGCAATTTCCTGGCGCGTC
1 CGCAATTTCCTGGCGCGTC
10051771 CCTTGACATC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.15, C:0.34, G:0.27, T:0.24
Consensus pattern (21 bp):
CGCAATTTCCTGGCGCGTCAG
Found at i:10052889 original size:43 final size:43
Alignment explanation
Indices: 10052840--10053067 Score: 318
Period size: 43 Copynumber: 5.3 Consensus size: 43
10052830 TTTTATAAAT
* *
10052840 AAACGCCGCTAAAGACCATGACCTTTAGCAGCGCTTTTCCAAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
10052883 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * *
10052926 AAACGCCGCTAAAGACTAGGACCTTTAACGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* *
10052969 AAACGCCGCGAAAGACCAGGACCTTTAGCGGCGCTTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGC-TTTTCCCAC
**
10053013 AAACGCCGCTATAA-A--ATAGACCTTTAGCGGCGCTTTTTACAC
1 AAACGCCGCTA-AAGACCAT-GACCTTTAGCGGCGCTTTTCCCAC
*
10053055 AAACGCCGTTAAA
1 AAACGCCGCTAAA
10053068 AATATATCTT
Statistics
Matches: 169, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
41 2 0.01
42 18 0.11
43 127 0.75
44 20 0.12
45 2 0.01
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:10053389 original size:43 final size:43
Alignment explanation
Indices: 10053341--10053431 Score: 123
Period size: 43 Copynumber: 2.1 Consensus size: 43
10053331 ACATATGCAA
* * *
10053341 GGTAATAAAATATACAATGCATTTTCTTAATC-AAGTAAATCTT
1 GGTAATAAAAGATACAATACATTTACTTAATCAAAG-AAATCTT
*
10053384 GGTAATAAAAGATATAATACATTTACTTAATCAAAGAAATCTT
1 GGTAATAAAAGATACAATACATTTACTTAATCAAAGAAATCTT
10053427 -GTAAT
1 GGTAAT
10053432 GAACTCAAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
42 5 0.12
43 35 0.81
44 3 0.07
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (43 bp):
GGTAATAAAAGATACAATACATTTACTTAATCAAAGAAATCTT
Found at i:10060432 original size:40 final size:41
Alignment explanation
Indices: 10060303--10060457 Score: 251
Period size: 41 Copynumber: 3.8 Consensus size: 41
10060293 AAATGTTTTT
*
10060303 GCGGCGCTT-CTACAAAAACGTCGCTAAAGGCCCGAGCATTA
1 GCGGCGCTTCCT-CAAAAACGCCGCTAAAGGCCCGAGCATTA
10060344 GCGGCGCTTCCTCAAAAACGCCGCTAAAGGCCCGAGCATTA
1 GCGGCGCTTCCTCAAAAACGCCGCTAAAGGCCCGAGCATTA
*
10060385 GCGGCGCTTCCTCAAAAACGCCGCTAAAGG-CTGAGCATTA
1 GCGGCGCTTCCTCAAAAACGCCGCTAAAGGCCCGAGCATTA
**
10060425 GCGGCGCTTATTCAAAAACGCCGCTAAAGGCCC
1 GCGGCGCTTCCTCAAAAACGCCGCTAAAGGCCC
10060458 AAAAAACCCA
Statistics
Matches: 107, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
40 37 0.35
41 68 0.64
42 2 0.02
ACGTcount: A:0.28, C:0.32, G:0.25, T:0.16
Consensus pattern (41 bp):
GCGGCGCTTCCTCAAAAACGCCGCTAAAGGCCCGAGCATTA
Found at i:10060446 original size:81 final size:82
Alignment explanation
Indices: 10060303--10060457 Score: 251
Period size: 81 Copynumber: 1.9 Consensus size: 82
10060293 AAATGTTTTT
* *
10060303 GCGGCGCTTCTACAAAAACGTCGCTAAAGGCCCGAGCATTAGCGGCGCTTCCTCAAAAACGCCGC
1 GCGGCGCTTCTACAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCGCTTACTCAAAAACGCCGC
10060368 TAAAGGCCCGAGCATTA
66 TAAAGGCCCGAGCATTA
* *
10060385 GCGGCGCTTCCT-CAAAAACGCCGCTAAAGG-CTGAGCATTAGCGGCGCTTATTCAAAAACGCCG
1 GCGGCGCTT-CTACAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCGCTTACTCAAAAACGCCG
10060448 CTAAAGGCCC
65 CTAAAGGCCC
10060458 AAAAAACCCA
Statistics
Matches: 68, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
81 40 0.59
82 26 0.38
83 2 0.03
ACGTcount: A:0.28, C:0.32, G:0.25, T:0.16
Consensus pattern (82 bp):
GCGGCGCTTCTACAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCGCTTACTCAAAAACGCCGC
TAAAGGCCCGAGCATTA
Found at i:10060584 original size:40 final size:38
Alignment explanation
Indices: 10060493--10060626 Score: 155
Period size: 40 Copynumber: 3.4 Consensus size: 38
10060483 GGGTTTAGGC
10060493 TTTTT-GCGGCGCTTTTCAAAAAACGCCGCTAATGCTT-A
1 TTTTTAGCGGCG-TTTTC-AAAAACGCCGCTAATGCTTGA
*
10060531 TTTTTAGCGGCGTTTTCCAAATAACACCGCTAATGCTTGA
1 TTTTTAGCGGCGTTTT-CAAA-AACGCCGCTAATGCTTGA
** *
10060571 CCTTTAGCGGCGTTTTTATAAAAGCGCCGCTAATGCTTGA
1 TTTTTAGCGGCGTTTTCA-AAAA-CGCCGCTAATGCTTGA
*
10060611 TTTTTAGTGGCGTTTT
1 TTTTTAGCGGCGTTTT
10060627 TTGCCCGAGC
Statistics
Matches: 82, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
38 12 0.15
39 25 0.30
40 45 0.55
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.37
Consensus pattern (38 bp):
TTTTTAGCGGCGTTTTCAAAAACGCCGCTAATGCTTGA
Found at i:10063513 original size:14 final size:15
Alignment explanation
Indices: 10063474--10063515 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
10063464 TAATTTAATC
*
10063474 ATTATTATTAAATAT
1 ATTATAATTAAATAT
10063489 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
10063503 A-TATAATTTAATA
1 ATTATAATTAAATA
10063516 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:10065893 original size:13 final size:13
Alignment explanation
Indices: 10065875--10065901 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10065865 AGCTTTTAAG
10065875 CAATGGTAATATC
1 CAATGGTAATATC
10065888 CAATGGTAATATC
1 CAATGGTAATATC
10065901 C
1 C
10065902 TTGAACAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (13 bp):
CAATGGTAATATC
Found at i:10068441 original size:27 final size:27
Alignment explanation
Indices: 10068411--10068467 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
10068401 GTAACCTAAG
10068411 AATACTTAGATTCTTGATCTTCTACGT
1 AATACTTAGATTCTTGATCTTCTACGT
10068438 AATACTTAGATTCTTGATCTTCTACGT
1 AATACTTAGATTCTTGATCTTCTACGT
10068465 AAT
1 AAT
10068468 CTTTTTGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.28, C:0.18, G:0.11, T:0.44
Consensus pattern (27 bp):
AATACTTAGATTCTTGATCTTCTACGT
Found at i:10078131 original size:27 final size:26
Alignment explanation
Indices: 10078087--10078137 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
10078077 AACACTCATA
10078087 TTTATATAATTAAAATAT-TCATATT
1 TTTATATAATTAAAATATGTCATATT
*
10078112 TTTATACTAGATTTAAATATGTCATA
1 TTTATA-TA-ATTAAAATATGTCATA
10078138 AGTTACTGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 6 0.27
26 2 0.09
27 9 0.41
28 5 0.23
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.49
Consensus pattern (26 bp):
TTTATATAATTAAAATATGTCATATT
Found at i:10078535 original size:19 final size:19
Alignment explanation
Indices: 10078511--10078547 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10078501 TATTCTTAAT
*
10078511 ATATTTATAATTGTAATAA
1 ATATTTATAATTGAAATAA
*
10078530 ATATTTATTATTGAAATA
1 ATATTTATAATTGAAATA
10078548 TTAATATTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (19 bp):
ATATTTATAATTGAAATAA
Found at i:10078548 original size:15 final size:15
Alignment explanation
Indices: 10078528--10078564 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
10078518 TAATTGTAAT
*
10078528 AAATATTTATTATTG
1 AAATATTTAATATTG
10078543 AAATA-TTAATATTG
1 AAATATTTAATATTG
10078557 AAATATTT
1 AAATATTT
10078565 TTCAATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (15 bp):
AAATATTTAATATTG
Found at i:10084774 original size:27 final size:26
Alignment explanation
Indices: 10084735--10084788 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 26
10084725 ATTGTTGTGC
* *
10084735 ATTGGTGTTGAAT-TATTATGTGATGA
1 ATTGGTGTCGAATGTATT-TGTAATGA
10084761 ATTGAGTGTCGAATGTATTTGTAATGA
1 ATTG-GTGTCGAATGTATTTGTAATGA
10084788 A
1 A
10084789 AGATGTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 4 0.17
27 16 0.67
28 4 0.17
ACGTcount: A:0.30, C:0.02, G:0.26, T:0.43
Consensus pattern (26 bp):
ATTGGTGTCGAATGTATTTGTAATGA
Found at i:10092614 original size:10 final size:10
Alignment explanation
Indices: 10092596--10092645 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
10092586 TTAGTAATTT
10092596 TTATTAAAAA
1 TTATTAAAAA
10092606 GTT-TTAAAAA
1 -TTATTAAAAA
10092616 TTATTAAAAA
1 TTATTAAAAA
*
10092626 TTACTAAAATA
1 TTATTAAAA-A
10092637 TTA-TAAAAA
1 TTATTAAAAA
10092646 CGGTAGACAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
9 3 0.08
10 27 0.75
11 6 0.17
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (10 bp):
TTATTAAAAA
Found at i:10098772 original size:15 final size:15
Alignment explanation
Indices: 10098752--10098783 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
10098742 ACTTTACTAT
10098752 ATTTTTATTCTAGAA
1 ATTTTTATTCTAGAA
10098767 ATTTTTATTCTAGAA
1 ATTTTTATTCTAGAA
10098782 AT
1 AT
10098784 AAGATACGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.53
Consensus pattern (15 bp):
ATTTTTATTCTAGAA
Found at i:10101963 original size:39 final size:38
Alignment explanation
Indices: 10101899--10101974 Score: 134
Period size: 39 Copynumber: 2.0 Consensus size: 38
10101889 AAACAATATG
10101899 GTATAGACACCAGATATGGTATTGATACTTTGGGGCAT
1 GTATAGACACCAGATATGGTATTGATACTTTGGGGCAT
*
10101937 GTATAGACACCAAGCTATGGTATTGATACTTTGGGGCA
1 GTATAGACACC-AGATATGGTATTGATACTTTGGGGCA
10101975 AGCTATCAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 11 0.31
39 25 0.69
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.30
Consensus pattern (38 bp):
GTATAGACACCAGATATGGTATTGATACTTTGGGGCAT
Found at i:10107203 original size:290 final size:289
Alignment explanation
Indices: 10106648--10107229 Score: 1155
Period size: 290 Copynumber: 2.0 Consensus size: 289
10106638 CTCTGAACTG
10106648 TCTTGTTTGTGGCCTTTGGTTTATAAATATCACTTTTGCGCTATTTGTTATGTATGACTAAATAT
1 TCTTGTTTGTGGCCTTTGGTTTATAAATATCACTTTTGCGCTATTTGTTATGTATGACTAAATAT
10106713 AAAAATGGAGAAGCAGTGAGTATCATTGAACAATAACGAAATATTCTTTCATAATTCAGACACTT
66 AAAAATGGAGAAGCAGTGAGTATCATTGAACAATAACGAAATATTCTTTCATAATTCAGACACTT
10106778 TTTTTTTTCTTCTGGAAATTTCAATGTTATTTTATCAGTTGGTTAAGTATACAGTAAGATGGATG
131 TTTTTTTTCTTCTGGAAATTTCAATGTTATTTTATCAGTTGGTTAAGTATACAGTAAGATGGATG
10106843 ATAACCAATGCTCAAATGAAATGATTACATGACTCGAATTTCCTAGCAAAGGCTTCGTTTTTTCA
196 ATAACCAATGCTCAAATGAAATGATTACATGACTCGAATTTCCTAGCAAAGGCTTCGTTTTTTCA
10106908 TTAGGAATAAATCAACAGTTTCATGAATA
261 TTAGGAATAAATCAACAGTTTCATGAATA
10106937 TCTTGTTTGTGGCCTTTGGTTTATAAATATCACTTTTGCGCTATTTGTTATGTATGACTAAATAT
1 TCTTGTTTGTGGCCTTTGGTTTATAAATATCACTTTTGCGCTATTTGTTATGTATGACTAAATAT
10107002 AAAAATGGAGAAGCAGTGAGTATCATTGAACAATAACGAAATATTCTTTCATAATTCAGACACTT
66 AAAAATGGAGAAGCAGTGAGTATCATTGAACAATAACGAAATATTCTTTCATAATTCAGACAC-T
10107067 TTTTTTTTTCTTCTGGAAATTTCAATGTTATTTTATCAGTTGGTTAAGTATACAGTAAGATGGAT
130 TTTTTTTTTCTTCTGGAAATTTCAATGTTATTTTATCAGTTGGTTAAGTATACAGTAAGATGGAT
10107132 GATAACCAATGCTCAAATGAAATGATTACATGACTCGAATTTCCTAGCAAAGGCTTCGTTTTTTC
195 GATAACCAATGCTCAAATGAAATGATTACATGACTCGAATTTCCTAGCAAAGGCTTCGTTTTTTC
10107197 ATTAGGAATAAATCAACAGTTTCATGAATA
260 ATTAGGAATAAATCAACAGTTTCATGAATA
10107227 TCT
1 TCT
10107230 AAGCATGCAT
Statistics
Matches: 292, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
289 128 0.44
290 164 0.56
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (289 bp):
TCTTGTTTGTGGCCTTTGGTTTATAAATATCACTTTTGCGCTATTTGTTATGTATGACTAAATAT
AAAAATGGAGAAGCAGTGAGTATCATTGAACAATAACGAAATATTCTTTCATAATTCAGACACTT
TTTTTTTTCTTCTGGAAATTTCAATGTTATTTTATCAGTTGGTTAAGTATACAGTAAGATGGATG
ATAACCAATGCTCAAATGAAATGATTACATGACTCGAATTTCCTAGCAAAGGCTTCGTTTTTTCA
TTAGGAATAAATCAACAGTTTCATGAATA
Found at i:10112318 original size:8 final size:8
Alignment explanation
Indices: 10112305--10112338 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
10112295 TAAAAAATAA
*
10112305 TTTATTAT
1 TTTATTGT
10112313 TTTATTGT
1 TTTATTGT
10112321 TTTATTGT
1 TTTATTGT
10112329 TTTATTGT
1 TTTATTGT
10112337 TT
1 TT
10112339 AGTATATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.15, C:0.00, G:0.09, T:0.76
Consensus pattern (8 bp):
TTTATTGT
Found at i:10116017 original size:18 final size:18
Alignment explanation
Indices: 10115989--10116078 Score: 110
Period size: 18 Copynumber: 4.9 Consensus size: 18
10115979 ATTATGTAGT
*
10115989 GATTCAATTCGGTTAATTC
1 GATT-AATTCGGGTAATTC
* *
10116008 AATTAATTCGGGTAATTT
1 GATTAATTCGGGTAATTC
10116026 GATTAATTCGGGTAATTC
1 GATTAATTCGGGTAATTC
*
10116044 GGTTAATTCGGGTAATTC
1 GATTAATTCGGGTAATTC
*
10116062 TG-TTAATTCGGTTAATT
1 -GATTAATTCGGGTAATT
10116079 TTTAACCAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
18 59 0.94
19 4 0.06
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.43
Consensus pattern (18 bp):
GATTAATTCGGGTAATTC
Found at i:10116023 original size:9 final size:9
Alignment explanation
Indices: 10115994--10116078 Score: 98
Period size: 9 Copynumber: 9.4 Consensus size: 9
10115984 GTAGTGATTC
10115994 AATTCGGTT
1 AATTCGGTT
**
10116003 AATTCAATT
1 AATTCGGTT
*
10116012 AATTCGGGT
1 AATTCGGTT
* *
10116021 AATTTGATT
1 AATTCGGTT
*
10116030 AATTCGGGT
1 AATTCGGTT
10116039 AATTCGGTT
1 AATTCGGTT
*
10116048 AATTCGGGT
1 AATTCGGTT
*
10116057 AATTCTGTT
1 AATTCGGTT
10116066 AATTCGGTT
1 AATTCGGTT
10116075 AATT
1 AATT
10116079 TTTAACCAAA
Statistics
Matches: 60, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
9 60 1.00
ACGTcount: A:0.27, C:0.09, G:0.20, T:0.44
Consensus pattern (9 bp):
AATTCGGTT
Found at i:10116254 original size:16 final size:16
Alignment explanation
Indices: 10116233--10116268 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
10116223 TTTGGTTCGC
10116233 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
10116249 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
10116265 TGTA
1 TGTA
10116269 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:10116525 original size:18 final size:17
Alignment explanation
Indices: 10116504--10116538 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
10116494 TTATTATTAA
*
10116504 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
10116522 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
10116539 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:10116633 original size:120 final size:120
Alignment explanation
Indices: 10116487--10116749 Score: 526
Period size: 120 Copynumber: 2.2 Consensus size: 120
10116477 ATCATATTTA
10116487 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
10116552 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
10116607 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
10116672 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
10116727 AACATAATTATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
10116750 AACTTGAGAA
Statistics
Matches: 143, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 143 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:10116645 original size:18 final size:17
Alignment explanation
Indices: 10116624--10116658 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
10116614 TTATTATTAA
*
10116624 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
10116642 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
10116659 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:10119818 original size:33 final size:33
Alignment explanation
Indices: 10119779--10119888 Score: 136
Period size: 33 Copynumber: 3.3 Consensus size: 33
10119769 ATTATAAAGC
10119779 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
* *
10119812 ATGTATAATTGACCTAAAATTACTTGTTGGTTT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
* *
10119845 AATGT-T-ATTGTCCCTAAAA-AACATTGTTGGTGT
1 -ATGTATAATTG-ACCTAAAATTA-ATTGTTGGTGT
10119878 ATGTATAATTG
1 ATGTATAATTG
10119889 TTGGTTTAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
32 9 0.14
33 49 0.74
34 8 0.12
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (33 bp):
ATGTATAATTGACCTAAAATTAATTGTTGGTGT
Found at i:10119895 original size:51 final size:51
Alignment explanation
Indices: 10119835--10119988 Score: 292
Period size: 51 Copynumber: 3.0 Consensus size: 51
10119825 CTAAAATTAC
10119835 TTGTTGGTTTAATGTTATTGT-CCCTAAAAAACATTGTTGGTGTATGTATAA
1 TTGTTGGTTTAATGTTATT-TACCCTAAAAAACATTGTTGGTGTATGTATAA
10119886 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
1 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
10119937 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
1 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
10119988 T
1 T
10119989 CTTTTAATTT
Statistics
Matches: 102, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
50 1 0.01
51 101 0.99
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (51 bp):
TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
Found at i:10126881 original size:21 final size:22
Alignment explanation
Indices: 10126852--10126898 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
10126842 CAGAAGGAGT
*
10126852 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
10126874 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
10126895 GAGT
1 GAGT
10126899 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:10129127 original size:21 final size:21
Alignment explanation
Indices: 10129087--10129137 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
10129077 GATATCGATT
* *
10129087 TCACTATTATAATATCTAATC
1 TCACTTTTATAATATCTAATA
*
10129108 TCATTTTTATAATAAT-TAATA
1 TCACTTTTATAAT-ATCTAATA
10129129 TCACTTTTA
1 TCACTTTTA
10129138 CTACTATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (21 bp):
TCACTTTTATAATATCTAATA
Found at i:10131806 original size:3 final size:3
Alignment explanation
Indices: 10131798--10131822 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
10131788 TTTGTCAATC
10131798 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
10131823 ATTTAGCCAT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:10132294 original size:23 final size:21
Alignment explanation
Indices: 10132235--10132331 Score: 63
Period size: 25 Copynumber: 4.2 Consensus size: 21
10132225 TTTTATTTTT
*
10132235 ATATAAAAATAAATTTAAAAA
1 ATATTAAAATAAATTTAAAAA
10132256 ATA-TAATACATCAAATTTACTAAAA
1 ATATTAA-A-AT-AAATTTA--AAAA
*
10132281 ATATTAAAATAAATGTTTCCGAACAA
1 ATATTAAAATAAA--TTT---AAAAA
*
10132307 AT-TGAAAATAAATTTAAAAA
1 ATATTAAAATAAATTTAAAAA
10132327 ATATT
1 ATATT
10132332 TATATTTAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 24
0.67 0.06 0.27
Matches are distributed among these distances:
20 8 0.14
21 5 0.08
22 2 0.03
23 13 0.22
24 2 0.03
25 20 0.34
26 8 0.14
28 1 0.02
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.32
Consensus pattern (21 bp):
ATATTAAAATAAATTTAAAAA
Found at i:10136752 original size:46 final size:46
Alignment explanation
Indices: 10136691--10136865 Score: 278
Period size: 46 Copynumber: 3.8 Consensus size: 46
10136681 TGGAACGTAA
* *
10136691 GTATGGTATTTCAGTAAAGAAAACCATATTGTGTTATGAAAAGTAG
1 GTATGGTATTTCAGTAAAGAAAACCATACTGAGTTATGAAAAGTAG
* *
10136737 GTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAGAAGTAG
1 GTATGGTATTTCAGTAAAGAAAACCATACTGAGTTATGAAAAGTAG
* * *
10136783 GTATGGTATTTCAATAATGAAAACCATACTGAGTTGTGAAAAGTAG
1 GTATGGTATTTCAGTAAAGAAAACCATACTGAGTTATGAAAAGTAG
*
10136829 GTATGGTATTTCAGTGAAGAAAACCATACTGAGTTAT
1 GTATGGTATTTCAGTAAAGAAAACCATACTGAGTTAT
10136866 AGCATTGTAA
Statistics
Matches: 118, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 118 1.00
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.31
Consensus pattern (46 bp):
GTATGGTATTTCAGTAAAGAAAACCATACTGAGTTATGAAAAGTAG
Found at i:10142611 original size:43 final size:43
Alignment explanation
Indices: 10142563--10142771 Score: 310
Period size: 43 Copynumber: 4.9 Consensus size: 43
10142553 TTATGAGGCA
* * *
10142563 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTACCCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTAACCAC
* *
10142606 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCCTTACCCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTAACCAC
* *
10142649 AAACGCTGCTAAAGAACATGATCTTTAGCGGCGCTTTAAACAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTAACCAC
* * *
10142692 AAATGCCGCTAAAGAACATGATCTTTAGCGACGCTTCAACCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTAACCAC
* *
10142735 AAACGCCGCTAAAAAACATGATCTTTAGCGACGCTTT
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTT
10142772 GGATAAAAGC
Statistics
Matches: 151, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 151 1.00
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTAACCAC
Found at i:10147182 original size:16 final size:16
Alignment explanation
Indices: 10147149--10147188 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
10147139 TTTCGGGTAT
10147149 GGGAA-AAA-TTGAAG
1 GGGAATAAATTTGAAG
*
10147163 GGGAATAAATTTGGAG
1 GGGAATAAATTTGAAG
10147179 GGGAATAAAT
1 GGGAATAAAT
10147189 ATTTCAACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.22
15 3 0.13
16 15 0.65
ACGTcount: A:0.45, C:0.00, G:0.35, T:0.20
Consensus pattern (16 bp):
GGGAATAAATTTGAAG
Found at i:10147660 original size:146 final size:146
Alignment explanation
Indices: 10147239--10147745 Score: 909
Period size: 146 Copynumber: 3.5 Consensus size: 146
10147229 GCGCCANAAA
*
10147239 TTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTA
1 TTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGGAAACGCCGCTATTGCTTACCTTTA
10147304 GCGGCGCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTAT
66 GCGGCGCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTAT
10147369 TCTAAAATTTTTTTATT
131 TCTAAAATTTTTTTA-T
10147386 TTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGGAAACGCCGCTATTG-----C-TTA
1 TTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGGAAACGCCGCTATTGCTTACCTTTA
*
10147445 GCGGCGCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCTTTTTGCTAT
66 GCGGCGCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTAT
*
10147510 TCTAAATTTTTTTTAT
131 TCTAAAATTTTTTTAT
10147526 TTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGGAAACGCCGCTATTGCTTACCTTTA
1 TTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGGAAACGCCGCTATTGCTTACCTTTA
* *
10147591 GCGGCGCTTCATATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGCTTTGCTAT
66 GCGGCGCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTAT
10147656 TCTAAAATTTTTTTAT
131 TCTAAAATTTTTTTAT
10147672 TTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGGAAACGCCGCTATTGCTTACCTTTA
1 TTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGGAAACGCCGCTATTGCTTACCTTTA
*
10147737 GCGACGCTT
66 GCGGCGCTT
10147746 TACGAAAAAC
Statistics
Matches: 346, Mismatches: 8, Indels: 13
0.94 0.02 0.04
Matches are distributed among these distances:
140 56 0.16
141 81 0.23
142 1 0.00
145 1 0.00
146 153 0.44
147 54 0.16
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.44
Consensus pattern (146 bp):
TTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGGAAACGCCGCTATTGCTTACCTTTA
GCGGCGCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTAT
TCTAAAATTTTTTTAT
Found at i:10147858 original size:72 final size:72
Alignment explanation
Indices: 10147741--10147908 Score: 221
Period size: 72 Copynumber: 2.3 Consensus size: 72
10147731 CCTTTAGCGA
* * * * * *
10147741 CGCTTTACGAAAAACGCCGCTAAATCTCTGAAAGTTCAGAAAACGGCATCGTTGGGCTTGGGTTT
1 CGCTTTACCAAAAACACCGCTAAATCTCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTA
10147806 TTTGCGG
66 TTTGCGG
* *
10147813 CGCTTTACCAAAAACATCGCTAAAT-TCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTT
1 CGCTTTACCAAAAACACCGCTAAATCT-CCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTT
10147877 ATTTGCGG
65 ATTTGCGG
* *
10147885 CGCTTTGCTCAAAAACGCCGCTAA
1 CGCTTTAC-CAAAAACACCGCTAA
10147909 TGCTTTTTTT
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
71 1 0.01
72 69 0.83
73 13 0.16
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.26
Consensus pattern (72 bp):
CGCTTTACCAAAAACACCGCTAAATCTCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTA
TTTGCGG
Found at i:10147992 original size:12 final size:12
Alignment explanation
Indices: 10147975--10148000 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10147965 TTTTTTATCC
10147975 AAACGCCGCTAA
1 AAACGCCGCTAA
10147987 AAACGCCGCTAA
1 AAACGCCGCTAA
10147999 AA
1 AA
10148001 GCCTGTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:10153324 original size:14 final size:14
Alignment explanation
Indices: 10153297--10153336 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
10153287 AAATATTTTT
10153297 AAAAAATT-ATATA
1 AAAAAATTAATATA
10153310 AAAATAA-TAATATA
1 AAAA-AATTAATATA
10153324 AAAAAATTAATAT
1 AAAAAATTAATAT
10153337 GGCTGGGCCG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 7 0.29
14 17 0.71
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AAAAAATTAATATA
Found at i:10153861 original size:17 final size:17
Alignment explanation
Indices: 10153839--10153877 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
10153829 AACTTTAAGG
10153839 AAAAAAATGAATATTGT
1 AAAAAAATGAATATTGT
* *
10153856 AAAAAAATGAATTTTTT
1 AAAAAAATGAATATTGT
10153873 AAAAA
1 AAAAA
10153878 TATTAGTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (17 bp):
AAAAAAATGAATATTGT
Found at i:10153963 original size:17 final size:18
Alignment explanation
Indices: 10153926--10153969 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
10153916 TATGGTTTAC
10153926 TTTTA-TTT-CTTTCTAG
1 TTTTATTTTACTTTCTAG
10153942 TTTTATTTTACTTTCT-G
1 TTTTATTTTACTTTCTAG
10153959 TTTTACTTTTA
1 TTTTA-TTTTA
10153970 AAACAATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.20
17 9 0.36
18 11 0.44
ACGTcount: A:0.14, C:0.11, G:0.05, T:0.70
Consensus pattern (18 bp):
TTTTATTTTACTTTCTAG
Found at i:10154363 original size:3 final size:3
Alignment explanation
Indices: 10154355--10154430 Score: 57
Period size: 3 Copynumber: 25.3 Consensus size: 3
10154345 TGTTATTAAT
* * * *
10154355 TTA TTA TTA TAA TTA TAA TTA TTAA TTA TTA TTA TGA TTT TCTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA T-TA TTA
* * *
10154401 TAA ATA TTA TTA TTA ATA TTA TTA -TA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
10154431 GAAATAAAAT
Statistics
Matches: 55, Mismatches: 14, Indels: 8
0.71 0.18 0.10
Matches are distributed among these distances:
2 3 0.05
3 47 0.85
4 5 0.09
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:10154380 original size:13 final size:13
Alignment explanation
Indices: 10154347--10154425 Score: 69
Period size: 12 Copynumber: 6.3 Consensus size: 13
10154337 TGAGATTTTG
10154347 TTATTAATTTATTA
1 TTATTAA-TTATTA
*
10154361 TTA-TAATTATAA
1 TTATTAATTATTA
10154373 TTATTAATTATTA
1 TTATTAATTATTA
*
10154386 TTA-TGATT-TT-
1 TTATTAATTATTA
* *
10154396 CTATTTAAATATTA
1 TTA-TTAATTATTA
10154410 TTATTAA-TATTA
1 TTATTAATTATTA
10154422 TTAT
1 TTAT
10154426 ATTATGAAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
10 2 0.04
11 2 0.04
12 24 0.45
13 20 0.38
14 5 0.09
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (13 bp):
TTATTAATTATTA
Found at i:10155092 original size:17 final size:18
Alignment explanation
Indices: 10155070--10155103 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10155060 TAAATGAGCT
10155070 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
10155087 AATTAGGGTATAAATTG
1 AATTAGGATATAAATTG
10155104 AAAAGAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:10161822 original size:30 final size:34
Alignment explanation
Indices: 10161783--10161844 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
10161773 AATCTTGAGA
*
10161783 TTTTGTTA-TT-AAT-TTATTATTATTATTATGG
1 TTTTGTTATTTAAATATTATTATTAATATTATGG
10161814 TTTT-TTATTTAAATATTATTATTAATATTAT
1 TTTTGTTATTTAAATATTATTATTAATATTAT
10161845 TATATTATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 3 0.11
31 6 0.22
32 3 0.11
33 15 0.56
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.65
Consensus pattern (34 bp):
TTTTGTTATTTAAATATTATTATTAATATTATGG
Found at i:10162108 original size:17 final size:17
Alignment explanation
Indices: 10162086--10162121 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
10162076 TTGAAACAGG
*
10162086 AAGAAAGAAAAGAAGAA
1 AAGAAAAAAAAGAAGAA
*
10162103 AAGAAAAAAAAGAGGAA
1 AAGAAAAAAAAGAAGAA
10162120 AA
1 AA
10162122 ACTAGGGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (17 bp):
AAGAAAAAAAAGAAGAA
Found at i:10162501 original size:17 final size:18
Alignment explanation
Indices: 10162479--10162512 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10162469 TAAATGAGCT
10162479 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
10162496 AATTAGGGTATAAATTG
1 AATTAGGATATAAATTG
10162513 AAAACAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:10164340 original size:15 final size:15
Alignment explanation
Indices: 10164317--10164346 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10164307 CTTCTGATTG
*
10164317 TTTATTATTATTATT
1 TTTACTATTATTATT
10164332 TTTACTATTATTATT
1 TTTACTATTATTATT
10164347 ACCGCTTCGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTACTATTATTATT
Found at i:10166560 original size:20 final size:21
Alignment explanation
Indices: 10166533--10166579 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
10166523 ACGGTATCTA
10166533 AGCAAAGACTAAAGAAA-TGG
1 AGCAAAGACTAAAGAAACTGG
* *
10166553 ATCAAAGATTAAAGAAACTGG
1 AGCAAAGACTAAAGAAACTGG
10166574 AGCAAA
1 AGCAAA
10166580 TGCAAAAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.55, C:0.11, G:0.21, T:0.13
Consensus pattern (21 bp):
AGCAAAGACTAAAGAAACTGG
Found at i:10173911 original size:26 final size:26
Alignment explanation
Indices: 10173881--10173932 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
10173871 TGAATGACAT
10173881 TGCTCGGTTCATCTCTCAACTGACGG
1 TGCTCGGTTCATCTCTCAACTGACGG
10173907 TGCTCGGTTCATCTCTCAACTGACGG
1 TGCTCGGTTCATCTCTCAACTGACGG
10173933 AGAAATGTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.15, C:0.31, G:0.23, T:0.31
Consensus pattern (26 bp):
TGCTCGGTTCATCTCTCAACTGACGG
Found at i:10175328 original size:21 final size:19
Alignment explanation
Indices: 10175299--10175353 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
10175289 AAAAGAAAAC
*
10175299 AACAAAAGAAAAAGACAAGAG
1 AACAGAAGAAAAA-AC-AGAG
10175320 AACAGAAGAAAACAACAGAG
1 AACAGAAGAAAA-AACAGAG
* *
10175340 AAGAGAACAAAAAA
1 AACAGAAGAAAAAA
10175354 GATTTTTGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 2 0.07
20 14 0.47
21 13 0.43
22 1 0.03
ACGTcount: A:0.71, C:0.11, G:0.18, T:0.00
Consensus pattern (19 bp):
AACAGAAGAAAAAACAGAG
Found at i:10176563 original size:13 final size:13
Alignment explanation
Indices: 10176545--10176574 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
10176535 CGGTTTTGTG
*
10176545 TTTATTTATTTAT
1 TTTATTTATTCAT
10176558 TTTATTTATTCAT
1 TTTATTTATTCAT
10176571 TTTA
1 TTTA
10176575 AACTATGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTATTTATTCAT
Found at i:10176779 original size:8 final size:8
Alignment explanation
Indices: 10176766--10176799 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
10176756 GTGTGGTCGA
10176766 TTTATTTG
1 TTTATTTG
10176774 TTTATTTG
1 TTTATTTG
*
10176782 TTTGTTTG
1 TTTATTTG
10176790 TTTATTTG
1 TTTATTTG
10176798 TT
1 TT
10176800 CAATTATTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (8 bp):
TTTATTTG
Found at i:10179946 original size:132 final size:131
Alignment explanation
Indices: 10179709--10180108 Score: 581
Period size: 132 Copynumber: 3.0 Consensus size: 131
10179699 AACAGATCAG
* * *
10179709 TGAAGATAGCAGATCTTATCTCCCTAAACAGTAGTGGAGCAAAT-AGAAGACGGCAAATCTTATC
1 TGAAGATTGTAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCA-AAGAC-GCAAATCTTATC
* * *
10179773 TTTCTAAGATAGTA-GGAAGAAAATTTAAGCCACCGAACCTTGTCTCCCTGAGCAGCAGCGGAGT
64 TTTCCAAGATAG-AGGGAAGCAGATTTAAGCCACCGAACCTTGTCTCCCTGAGCAGCAGCGGAGT
10179837 AGGT
128 AGGT
*
10179841 TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACAGCAAATCTTATCT
1 TGAAGATTGTAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCAAAGAC-GCAAATCTTATCT
*
10179906 TTCCAAGATAGAGGGAAGCTGATTTAAGCCACCGAACCTTGTCTCCCTGAGCAGCAGCGGAGTAG
65 TTCCAAGATAGAGGGAAGCAGATTTAAGCCACCGAACCTTGTCTCCCTGAGCAGCAGCGGAGTAG
10179971 GT
130 GT
* *
10179973 TGAAGATTGTAGATCTTATCTCCCTAAACAATAGTAGAGCAGATCAAAGACGACAAATCTTATCT
1 TGAAGATTGTAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCAAAGACG-CAAATCTTATCT
* * * * **
10180038 TTCCAAGATAGTGAGAAGCAGATTTATGCCACC-AAGCCTTGTCTCCCTGAGCAACAGTAGAGTA
65 TTCCAAGATAGAGGGAAGCAGATTTAAGCCACCGAA-CCTTGTCTCCCTGAGCAGCAGCGGAGTA
10180102 GGT
129 GGT
10180105 TGAA
1 TGAA
10180109 ATAGCAGGTC
Statistics
Matches: 245, Mismatches: 19, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
131 4 0.02
132 240 0.98
133 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.24
Consensus pattern (131 bp):
TGAAGATTGTAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCAAAGACGCAAATCTTATCTT
TCCAAGATAGAGGGAAGCAGATTTAAGCCACCGAACCTTGTCTCCCTGAGCAGCAGCGGAGTAGG
T
Found at i:10180147 original size:132 final size:131
Alignment explanation
Indices: 10179709--10180169 Score: 508
Period size: 132 Copynumber: 3.5 Consensus size: 131
10179699 AACAGATCAG
* * * * *
10179709 TGAAGATAGCAGATCTTATCTCCCTAA-ACAGTAGTGGAGCAAAT-AGAAGACGGCAAATCTTAT
1 TGAAGATTGTAGATCTTATCTCCCTAAGA-TG-AGTGGAGCAGATCA-AAGACGACAAATCTTAT
* * *
10179772 CTTTCTAAGATAGT-AGGAAGAAAATTTAAGCCACCGAACCTTGTCTCCCTGAGCAGCAGCGGAG
63 CTTTCCAAGATAGTGA-GAAGCAGATTTAAGCCACCGAACCTTGTCTCCCTGAGCAGCAGCGGAG
10179836 TAGGT
127 TAGGT
10179841 TGAAGATTGTAGATCTTATCTCCCTAAGCA-GTAGTGGAGCAGATCAAAGAC-AGCAAATCTTAT
1 TGAAGATTGTAGATCTTATCTCCCTAAG-ATG-AGTGGAGCAGATCAAAGACGA-CAAATCTTAT
* * *
10179904 CTTTCCAAGATAGAGGGAAGCTGATTTAAGCCACCGAACCTTGTCTCCCTGAGCAGCAGCGGAGT
63 CTTTCCAAGATAGTGAGAAGCAGATTTAAGCCACCGAACCTTGTCTCCCTGAGCAGCAGCGGAGT
10179969 AGGT
128 AGGT
* *
10179973 TGAAGATTGTAGATCTTATCTCCCTAAACAAT-AGTAGAGCAGATCAAAGACGACAAATCTTATC
1 TGAAGATTGTAGATCTTATCTCCCT-AA-GATGAGTGGAGCAGATCAAAGACGACAAATCTTATC
* * **
10180037 TTTCCAAGATAGTGAGAAGCAGATTTATGCCACC-AAGCCTTGTCTCCCTGAGCAACAGTAGAGT
64 TTTCCAAGATAGTGAGAAGCAGATTTAAGCCACCGAA-CCTTGTCTCCCTGAGCAGCAGCGGAGT
10180101 AGGT
128 AGGT
* * * * * * * * *
10180105 TGAA-ATAGCAGGTCTTATC-CTCCTAAGGTTGCAGTGGGGCAGATCGAAGATGATAACTCTTAT
1 TGAAGATTGTAGATCTTATCTC-CCTAA-GATG-AGTGGAGCAGATCAAAGACGACAAATCTTAT
10180168 CT
63 CT
10180170 CCCTGAGGTT
Statistics
Matches: 285, Mismatches: 31, Indels: 26
0.83 0.09 0.08
Matches are distributed among these distances:
130 4 0.01
131 17 0.06
132 258 0.91
133 5 0.02
134 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (131 bp):
TGAAGATTGTAGATCTTATCTCCCTAAGATGAGTGGAGCAGATCAAAGACGACAAATCTTATCTT
TCCAAGATAGTGAGAAGCAGATTTAAGCCACCGAACCTTGTCTCCCTGAGCAGCAGCGGAGTAGG
T
Found at i:10180185 original size:45 final size:44
Alignment explanation
Indices: 10180117--10180215 Score: 110
Period size: 45 Copynumber: 2.2 Consensus size: 44
10180107 AAATAGCAGG
* * *
10180117 TCTTATC-CTCCTAAGGTTGCAGTGGGGCAGATCGAAGATGATAA
1 TCTTATCTC-CCTAAGGTTACAGTGGAGCAGATCGAAGACGATAA
* * *
10180161 CTCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCGATAA
1 -TCTTATCTCCCTAAGGTTACAGTGGAGCAGATCGAAGACGATAA
*
10180206 TCCTATCTCC
1 TCTTATCTCC
10180216 TTGAAGTTGT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
44 9 0.20
45 36 0.78
46 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTAAGGTTACAGTGGAGCAGATCGAAGACGATAA
Found at i:10180561 original size:50 final size:49
Alignment explanation
Indices: 10180395--10180565 Score: 144
Period size: 50 Copynumber: 3.4 Consensus size: 49
10180385 TCCCCAGGCG
** * *
10180395 ATGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGAC
1 ATGCAGTTAAACAGATTAAAGCTACAACAGCGAATCTTGCTTCCCCGAC
* * ** **
10180444 ATTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTTCCGGGTG
1 A-TGCAGTTAAACAGATTAAAGCTACAACAGCGAATCTTGC-TTCCCCGAC
* * ** * * **
10180495 GTGTAGTGGAATAGATTGAAGCTACAACAGCGAATCTTGCTTCCTTGAC
1 ATGCAGTTAAACAGATTAAAGCTACAACAGCGAATCTTGCTTCCCCGAC
*
10180544 ATCACAGTTAAACAGATTAAAG
1 AT-GCAGTTAAACAGATTAAAG
10180566 TTACGATTTA
Statistics
Matches: 91, Mismatches: 28, Indels: 5
0.73 0.23 0.04
Matches are distributed among these distances:
49 7 0.08
50 79 0.87
51 5 0.05
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (49 bp):
ATGCAGTTAAACAGATTAAAGCTACAACAGCGAATCTTGCTTCCCCGAC
Found at i:10181495 original size:9 final size:9
Alignment explanation
Indices: 10181476--10181521 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
10181466 TGAGTTTTCG
*
10181476 AATTTGAAT
1 AATTCGAAT
*
10181485 AACTCGAAT
1 AATTCGAAT
10181494 AATTCGAAT
1 AATTCGAAT
10181503 AATTCGAAT
1 AATTCGAAT
10181512 AATTCGAAT
1 AATTCGAAT
10181521 A
1 A
10181522 TCAAACTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.33
Consensus pattern (9 bp):
AATTCGAAT
Found at i:10189792 original size:13 final size:14
Alignment explanation
Indices: 10189770--10189806 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
10189760 AAAACCCTAA
10189770 TTTT-TTTCTCT-T
1 TTTTCTTTCTCTGT
10189782 TTTTCTTTCTCTGT
1 TTTTCTTTCTCTGT
10189796 TTTTC-TTCTCT
1 TTTTCTTTCTCT
10189807 ATTTCGTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.17
13 13 0.57
14 6 0.26
ACGTcount: A:0.00, C:0.22, G:0.03, T:0.76
Consensus pattern (14 bp):
TTTTCTTTCTCTGT
Found at i:10189811 original size:25 final size:26
Alignment explanation
Indices: 10189770--10189829 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 26
10189760 AAAACCCTAA
* *
10189770 TTTTT-TTCTCTTTTTTCTTTCT-CT
1 TTTTTCTTCTCTTATTTCGTTCTACT
10189794 GTTTTTCTTCTC-TATTTCGTTCTACT
1 -TTTTTCTTCTCTTATTTCGTTCTACT
*
10189820 TTGTTCTTCT
1 TTTTTCTTCT
10189830 TCTTTTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 23 0.77
26 7 0.23
ACGTcount: A:0.03, C:0.22, G:0.05, T:0.70
Consensus pattern (26 bp):
TTTTTCTTCTCTTATTTCGTTCTACT
Found at i:10189948 original size:46 final size:46
Alignment explanation
Indices: 10189898--10189989 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
10189888 AAATAATAAG
10189898 TAAGTAATAATTATTATAAATGTATGTATTTAAATGTTACACATGT
1 TAAGTAATAATTATTATAAATGTATGTATTTAAATGTTACACATGT
*
10189944 TAAGTAATAATTATTATAAATGTATGTATTTAACTGTTACACATGT
1 TAAGTAATAATTATTATAAATGTATGTATTTAAATGTTACACATGT
10189990 CATTTCCAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.40, C:0.05, G:0.11, T:0.43
Consensus pattern (46 bp):
TAAGTAATAATTATTATAAATGTATGTATTTAAATGTTACACATGT
Found at i:10199960 original size:1 final size:1
Alignment explanation
Indices: 10199954--10200016 Score: 63
Period size: 1 Copynumber: 63.0 Consensus size: 1
10199944 TAGTGGAGGC
* * * * * * *
10199954 AAAAAAAAACAAAAAAAACAAAAAAAAAACAAAAAAAACAAGAAAATAAAAAACAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
10200017 CCTACCGGGG
Statistics
Matches: 48, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.89, C:0.08, G:0.02, T:0.02
Consensus pattern (1 bp):
A
Found at i:10199979 original size:20 final size:21
Alignment explanation
Indices: 10199954--10200015 Score: 90
Period size: 20 Copynumber: 2.9 Consensus size: 21
10199944 TAGTGGAGGC
10199954 AAAAAAAAACAAAAAAAAC-A
1 AAAAAAAAACAAAAAAAACAA
10199974 AAAAAAAAACAAAAAAAACAAGA
1 AAAAAAAAACAAAAAAAAC-A-A
10199997 AAATAAAAAACAAAAAAAA
1 AAA-AAAAAACAAAAAAAA
10200016 ACCTACCGGG
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
20 19 0.50
23 4 0.11
24 15 0.39
ACGTcount: A:0.89, C:0.08, G:0.02, T:0.02
Consensus pattern (21 bp):
AAAAAAAAACAAAAAAAACAA
Found at i:10201578 original size:88 final size:87
Alignment explanation
Indices: 10201462--10201650 Score: 245
Period size: 88 Copynumber: 2.2 Consensus size: 87
10201452 TACCGGCAGC
* * *
10201462 GAAGTAGATCAAAGCCACCAGTCCTATCTCCCTGAACAACAGCGGAATAGGTCGAAGATTGTAGA
1 GAAGCAGATCGAAGCCACCAGTCCTATCTCCCTGAACAACAGCGGAATAGGTCGAAGATTGCAGA
* * *
10201527 TCTTGTCTTCCTATA-CTGGTAGT
66 TCTTATCTCCCTA-AGC-AGTAGT
* * * * *
10201550 GAAGCAGATCGAAGCCACCAGTCTTATCTCCCTGAGCAGCAGTGGAATAGGTTGAAGATTGCAGA
1 GAAGCAGATCGAAGCCACCAGTCCTATCTCCCTGAACAACAGCGGAATAGGTCGAAGATTGCAGA
10201615 TCTTATCTCCCTAAGCAGTAGT
66 TCTTATCTCCCTAAGCAGTAGT
*
10201637 GGAGCAGATCGAAG
1 GAAGCAGATCGAAG
10201651 ATAGAAAATC
Statistics
Matches: 88, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
87 19 0.22
88 69 0.78
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (87 bp):
GAAGCAGATCGAAGCCACCAGTCCTATCTCCCTGAACAACAGCGGAATAGGTCGAAGATTGCAGA
TCTTATCTCCCTAAGCAGTAGT
Done.