Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 181 of 295
Found at i:62144294 original size:28 final size:28
Alignment explanation
Indices: 62144262--62144345 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
62144252 AACTGTGATC
62144262 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
62144290 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
62144312 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
62144340 ACGTGT
1 ACGTGT
62144346 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:62144385 original size:49 final size:49
Alignment explanation
Indices: 62144214--62144438 Score: 297
Period size: 49 Copynumber: 4.5 Consensus size: 49
62144204 TGAGGTCGCA
* * * * * *
62144214 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACG
* * **
62144265 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACG
62144315 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* * *
62144364 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
*
62144413 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
62144439 TGCATACCAG
Statistics
Matches: 155, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
49 78 0.50
50 45 0.29
51 32 0.21
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
Found at i:62144394 original size:99 final size:100
Alignment explanation
Indices: 62144207--62144438 Score: 306
Period size: 99 Copynumber: 2.3 Consensus size: 100
62144197 TCTATTGTGA
* * *
62144207 GGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAG
* **
62144272 TACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
66 TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
62144307 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACGTGTGTA
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTA
* *
62144370 GTACTAAGTGTAGGCTACTACGTGTACCGGATAATT
65 GTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
62144406 GGTCGCATGTGTAGTACTATGTGCAGGCTACTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
62144439 TGCATACCAG
Statistics
Matches: 115, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
98 30 0.26
99 44 0.38
100 1 0.01
101 40 0.35
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (100 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAG
TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:62152644 original size:28 final size:26
Alignment explanation
Indices: 62152613--62152677 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 26
62152603 AATTACTTGA
**
62152613 ATACCCCTATGTATGGAAAATTACTGTT
1 ATACCCCTA-G-ATGGAAAATTACCATT
* *
62152641 ATACCCCTAGGTGTAAAATTACCATT
1 ATACCCCTAGATGGAAAATTACCATT
62152667 ATACCCCTAGA
1 ATACCCCTAGA
62152678 GGGACTTTTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 22 0.69
27 1 0.03
28 9 0.28
ACGTcount: A:0.34, C:0.23, G:0.12, T:0.31
Consensus pattern (26 bp):
ATACCCCTAGATGGAAAATTACCATT
Found at i:62153747 original size:25 final size:23
Alignment explanation
Indices: 62153715--62153761 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
62153705 GCTTTATCAT
*
62153715 ATAATTGGAGGCCTAGCCTCTTTTA
1 ATAATTGG-GGCATAGCC-CTTTTA
62153740 ATAATTGGGGCATAGCCCTTTT
1 ATAATTGGGGCATAGCCCTTTT
62153762 CAGTAAACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.24
24 8 0.38
25 8 0.38
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.36
Consensus pattern (23 bp):
ATAATTGGGGCATAGCCCTTTTA
Found at i:62153785 original size:26 final size:26
Alignment explanation
Indices: 62153747--62153813 Score: 109
Period size: 26 Copynumber: 2.6 Consensus size: 26
62153737 TTAATAATTG
62153747 GGGCAT-AGCCCTTTTCAGTAAACTA
1 GGGCATAAGCCCTTTTCAGTAAACTA
* *
62153772 GGGCATAAGCCCTTTTCGGTAAACTG
1 GGGCATAAGCCCTTTTCAGTAAACTA
62153798 GGGCATAAGCCCTTTT
1 GGGCATAAGCCCTTTT
62153814 GCACTTCCTC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
25 6 0.15
26 33 0.85
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (26 bp):
GGGCATAAGCCCTTTTCAGTAAACTA
Found at i:62153888 original size:20 final size:20
Alignment explanation
Indices: 62153863--62153919 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
62153853 TTATGAATAC
62153863 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
62153883 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
62153903 ATCATGTGCATATCATA
1 ATCATGTGCATATCATA
62153920 TCAATATTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:62153894 original size:11 final size:11
Alignment explanation
Indices: 62153863--62153918 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
62153853 TTATGAATAC
62153863 ATCATGTGCAT
1 ATCATGTGCAT
*
62153874 ATCA--TACAT
1 ATCATGTGCAT
62153883 ATCATGTGCAT
1 ATCATGTGCAT
*
62153894 ATC--GTACAT
1 ATCATGTGCAT
62153903 ATCATGTGCAT
1 ATCATGTGCAT
62153914 ATCAT
1 ATCAT
62153919 ATCAATATTG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:62159047 original size:46 final size:45
Alignment explanation
Indices: 62158980--62159154 Score: 163
Period size: 46 Copynumber: 3.8 Consensus size: 45
62158970 TGTAACCCGC
*
62158980 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
* * * * * *
62159026 CCATAAGTGAACTTGGACTCAACTCAACAAGCTCAGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-G-GGCTTCGCAT
* *** * **
62159072 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
*
62159119 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
62159155 ATGCCCAAAT
Statistics
Matches: 100, Mismatches: 24, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
45 1 0.01
46 66 0.66
47 31 0.31
48 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGCAT
Found at i:62164548 original size:25 final size:23
Alignment explanation
Indices: 62164505--62164605 Score: 71
Period size: 26 Copynumber: 4.0 Consensus size: 23
62164495 TGCTTTATCA
*
62164505 TATAACTGGAGGCCT-AGCCTCTTT
1 TATAACTGG-GGCATAAGCC-CTTT
62164529 TAATAACTGGGGCATAAGCCCTCTT
1 T-ATAACTGGGGCATAAGCCCT-TT
*
62164554 CGGTA-AACTAGGGCATAAGCCCTTT
1 ---TATAACTGGGGCATAAGCCCTTT
*
62164579 TCGGTAAACTGGGGCATAAGCCCTTT
1 T--AT-AACTGGGGCATAAGCCCTTT
62164605 T
1 T
62164606 GCACTTCCTC
Statistics
Matches: 63, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
22 1 0.02
24 7 0.11
25 16 0.25
26 37 0.59
27 1 0.02
28 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.29
Consensus pattern (23 bp):
TATAACTGGGGCATAAGCCCTTT
Found at i:62164603 original size:26 final size:26
Alignment explanation
Indices: 62164533--62164605 Score: 128
Period size: 26 Copynumber: 2.8 Consensus size: 26
62164523 CTCTTTTAAT
*
62164533 AACTGGGGCATAAGCCCTCTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
62164559 AACTAGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
62164585 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
62164606 GCACTTCCTC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:62164680 original size:20 final size:20
Alignment explanation
Indices: 62164655--62164711 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
62164645 TTATGAATAC
62164655 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
62164675 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
62164695 ACCATGTGCATATCATA
1 ATCATGTGCATATCATA
62164712 TCAATATTGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:62164686 original size:11 final size:11
Alignment explanation
Indices: 62164655--62164710 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
62164645 TTATGAATAC
62164655 ATCATGTGCAT
1 ATCATGTGCAT
*
62164666 ATCA--TACAT
1 ATCATGTGCAT
62164675 ATCATGTGCAT
1 ATCATGTGCAT
*
62164686 ATCA--TACAT
1 ATCATGTGCAT
*
62164695 ACCATGTGCAT
1 ATCATGTGCAT
62164706 ATCAT
1 ATCAT
62164711 ATCAATATTG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:62166618 original size:28 final size:27
Alignment explanation
Indices: 62166525--62166636 Score: 122
Period size: 27 Copynumber: 4.1 Consensus size: 27
62166515 AGGAAGCGTC
*
62166525 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
*
62166552 CTGGTGGCTCTGCCACATATATCTAT-T
1 CTGGTGGCTCTGCCACAT-TATCTGTAT
*
62166579 CTGGTGGCTCTGCCATGATTATCTGTAT
1 CTGGTGGCTCTGCCA-CATTATCTGTAT
* **
62166607 CTGGTGACTCTGTTACATTATCTGT-T
1 CTGGTGGCTCTGCCACATTATCTGTAT
62166633 CTGG
1 CTGG
62166637 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
26 7 0.10
27 51 0.70
28 15 0.21
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTATCTGTAT
Found at i:62166629 original size:54 final size:54
Alignment explanation
Indices: 62166525--62166636 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
62166515 AGGAAGCGTC
*
62166525 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
* ** ** *
62166579 CTGGTGGCTCTGCCATGATTATCTGTATCTGGTGACTCTGTTACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTATT
62166633 CTGG
1 CTGG
62166637 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
Found at i:62168751 original size:20 final size:20
Alignment explanation
Indices: 62168726--62168770 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
62168716 AGGGACTAAA
*
62168726 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAGTTCTAAAATTTG
* *
62168746 ATGAAAATTTCTAAAATTTT
1 ATGAAAAGTTCTAAAATTTG
62168766 ATGAA
1 ATGAA
62168771 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.47, C:0.02, G:0.13, T:0.38
Consensus pattern (20 bp):
ATGAAAAGTTCTAAAATTTG
Found at i:62176435 original size:43 final size:43
Alignment explanation
Indices: 62176373--62176457 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
62176363 ATGTGATTTT
** *
62176373 GATATGTGTTTACAAGTAAGACCCCGTCTGGGACAG-TGGCATC
1 GATATGTGACTACAAGTAAGACCCCGTCCGGGAC-GTTGGCATC
*
62176416 GATATGTGACTACATGTAAGACCCCGTCCGGGACGTTGGCAT
1 GATATGTGACTACAAGTAAGACCCCGTCCGGGACGTTGGCAT
62176458 TGTACGACTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
42 1 0.03
43 36 0.97
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (43 bp):
GATATGTGACTACAAGTAAGACCCCGTCCGGGACGTTGGCATC
Found at i:62178566 original size:24 final size:24
Alignment explanation
Indices: 62178534--62178585 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
62178524 ATAAGTTAGT
62178534 TTTTCTTGGTCCTTTTTATTTATG
1 TTTTCTTGGTCCTTTTTATTTATG
62178558 TTTTCTTGGTCCTTTTTATTTATG
1 TTTTCTTGGTCCTTTTTATTTATG
62178582 TTTT
1 TTTT
62178586 GGTTATTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.08, C:0.12, G:0.12, T:0.69
Consensus pattern (24 bp):
TTTTCTTGGTCCTTTTTATTTATG
Found at i:62178594 original size:21 final size:23
Alignment explanation
Indices: 62178535--62178599 Score: 80
Period size: 24 Copynumber: 2.9 Consensus size: 23
62178525 TAAGTTAGTT
*
62178535 TTTCTTGGTCCTTTTTATTTATG
1 TTTCTTGGTCATTTTTATTTATG
*
62178558 TTTTCTTGGTCCTTTTTATTTATG
1 -TTTCTTGGTCATTTTTATTTATG
*
62178582 -TT-TTGGTTATTTTTATTT
1 TTTCTTGGTCATTTTTATTT
62178600 CTATTGTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
21 14 0.36
22 2 0.05
24 23 0.59
ACGTcount: A:0.09, C:0.09, G:0.12, T:0.69
Consensus pattern (23 bp):
TTTCTTGGTCATTTTTATTTATG
Found at i:62206734 original size:33 final size:33
Alignment explanation
Indices: 62206660--62206735 Score: 118
Period size: 34 Copynumber: 2.3 Consensus size: 33
62206650 TTTTCCCTTT
*
62206660 TTATTCTTTTATTAACCAAATGAAAAAAAGGCC
1 TTATTCTTTTATTAACCAAATGAAAAAAAGCCC
62206693 TTAATTCTTTTATTAACCAAATGAAAAAAATGCCC
1 TT-ATTCTTTTATTAACCAAATGAAAAAAA-GCCC
62206728 TT-TTCTTT
1 TTATTCTTT
62206736 GAAAATTTAC
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
33 8 0.20
34 27 0.68
35 5 0.12
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.39
Consensus pattern (33 bp):
TTATTCTTTTATTAACCAAATGAAAAAAAGCCC
Found at i:62212352 original size:24 final size:24
Alignment explanation
Indices: 62212324--62212389 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
62212314 AATGGAAGGT
**
62212324 TGGAGTGATTTATGGA-ATGTATCA
1 TGGAGTGATTTATGGAGA-AAATCA
*
62212348 TGGAGAGATATTA-GGAGAAAATCA
1 TGGAGTGAT-TTATGGAGAAAATCA
*
62212372 AGGAGTGATTTATGGAGA
1 TGGAGTGATTTATGGAGA
62212390 GATTTAAGGA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
23 3 0.09
24 27 0.79
25 4 0.12
ACGTcount: A:0.36, C:0.03, G:0.32, T:0.29
Consensus pattern (24 bp):
TGGAGTGATTTATGGAGAAAATCA
Found at i:62214592 original size:16 final size:16
Alignment explanation
Indices: 62214571--62214601 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
62214561 ACTATGGTAT
*
62214571 ATGAAATATTGATATA
1 ATGAAATAATGATATA
62214587 ATGAAATAATGATAT
1 ATGAAATAATGATAT
62214602 GTGTTTATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.13, T:0.35
Consensus pattern (16 bp):
ATGAAATAATGATATA
Found at i:62214634 original size:107 final size:109
Alignment explanation
Indices: 62214432--62214653 Score: 421
Period size: 107 Copynumber: 2.1 Consensus size: 109
62214422 AGGAAAATAA
62214432 ATATATGTGGAATACATGGAAACTATGGTATATGAAATATTGATATAATGAAATAAATAATATGT
1 ATATATGTGGAATACATGGAAACTATGGTATATGAAATATTGATATAATGAAATAAATAATATGT
62214497 GTTTATAAGAAAACAGAAAGAGAATGATATGTATCATGACATGT
66 GTTTATAAGAAAACAGAAAGAGAATGATATGTATCATGACATGT
*
62214541 ATAT-TGTGGAATACATGGAAACTATGGTATATGAAATATTGATATAATGAAAT-AATGATATGT
1 ATATATGTGGAATACATGGAAACTATGGTATATGAAATATTGATATAATGAAATAAATAATATGT
62214604 GTTTATAAGAAAACAGAAAGAGAATGATATGTATCATGACATGT
66 GTTTATAAGAAAACAGAAAGAGAATGATATGTATCATGACATGT
62214648 ATATAT
1 ATATAT
62214654 ATATGACTAG
Statistics
Matches: 111, Mismatches: 1, Indels: 3
0.97 0.01 0.03
Matches are distributed among these distances:
107 57 0.51
108 50 0.45
109 4 0.04
ACGTcount: A:0.45, C:0.05, G:0.18, T:0.32
Consensus pattern (109 bp):
ATATATGTGGAATACATGGAAACTATGGTATATGAAATATTGATATAATGAAATAAATAATATGT
GTTTATAAGAAAACAGAAAGAGAATGATATGTATCATGACATGT
Found at i:62217979 original size:81 final size:78
Alignment explanation
Indices: 62217869--62218258 Score: 336
Period size: 81 Copynumber: 4.8 Consensus size: 78
62217859 GTATTTCATT
* * *
62217869 AATTTTACACTACAAGGGTATTTCAGTAATTTTAAAAATCAAGGGTATTTTGATAATTTTACAAA
1 AATTTTACA-TACAGGGGTATTTCGGTAATTTT-ACAATCAAGGGTATTTTGATAATTTTACAAA
*
62217934 TTGAGGGTATTTCAGA
64 CTGAGGGTATTTC-GA
* * * * **
62217950 AATTTTACATTACAGGGGTTTTTTGGTAATTTTACACTACAAGGGCATTTCAATAATTTTACAAA
1 AATTTTACA-TACAGGGGTATTTCGGTAATTTTACAAT-CAAGGGTATTTTGATAATTTTACAAA
*
62218015 -TCGAGGATATTTCGA
64 CT-GAGGGTATTTCGA
* * **
62218030 TAATTTTA-AAACTGGGGGTATTTTAGTAATTTTACAATCCAAGGGTATTTT-AGTAATTTTACA
1 -AATTTTACATAC-AGGGGTATTTCGGTAATTTTACAAT-CAAGGGTATTTTGA-TAATTTTACA
* *
62218093 AACTAAGGGTATTTCGGT
62 AACTGAGGGTATTTC-GA
* * ** * ** *
62218111 AATTTTATAAATTGAGGGTATTTCGATAATTTTACAAATCGGGGGTATTTCGATAATTTTACAAA
1 AATTTTACATACAG-GGGTATTTCGGTAATTTTAC-AATCAAGGGTATTTTGATAATTTTACAAA
*
62218176 CTGGGGGTATTTCGA
64 CTGAGGGTATTTCGA
* * * * *
62218191 TAATTTTACAAACTGGGGGTATTTCGATAATTTTACAATCTGAGGGTATTTTGGTAATTTTACAA
1 -AATTTTACATAC-AGGGGTATTTCGGTAATTTTACAATC-AAGGGTATTTTGATAATTTTACAA
62218256 ACT
63 ACT
62218259 ACCATACATG
Statistics
Matches: 256, Mismatches: 39, Indels: 28
0.79 0.12 0.09
Matches are distributed among these distances:
79 3 0.01
80 72 0.28
81 176 0.69
82 5 0.02
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (78 bp):
AATTTTACATACAGGGGTATTTCGGTAATTTTACAATCAAGGGTATTTTGATAATTTTACAAACT
GAGGGTATTTCGA
Found at i:62218128 original size:27 final size:27
Alignment explanation
Indices: 62217883--62218256 Score: 300
Period size: 27 Copynumber: 13.9 Consensus size: 27
62217873 TTACACTACA
* **
62217883 AGGGTATTTC-AGTAATTTTAAAAATCA
1 AGGGTATTTCGA-TAATTTTACAAATTG
*
62217910 AGGGTATTTTGATAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATTG
*
62217937 AGGGTATTTCAGA-AATTTTAC--ATTAC
1 AGGGTATTTC-GATAATTTTACAAATT-G
* * * * **
62217963 AGGGGTTTTTTGGTAATTTTAC-ACTACA
1 A-GGGTATTTCGATAATTTTACAAAT-TG
* * *
62217991 AGGGCATTTCAATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATTG
* *
62218018 AGGATATTTCGATAATTTTA-AAACTG
1 AGGGTATTTCGATAATTTTACAAATTG
* * **
62218044 GGGGTATTT-TAGTAATTTTAC-AATCCA
1 AGGGTATTTCGA-TAATTTTACAAAT-TG
* * *
62218071 AGGGTATTT-TAGTAATTTTACAAACTA
1 AGGGTATTTCGA-TAATTTTACAAATTG
* *
62218098 AGGGTATTTCGGTAATTTTATAAATTG
1 AGGGTATTTCGATAATTTTACAAATTG
*
62218125 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATTG
* *
62218152 GGGGTATTTCGATAATTTTACAAACTG
1 AGGGTATTTCGATAATTTTACAAATTG
* *
62218179 GGGGTATTTCGATAATTTTACAAACTG
1 AGGGTATTTCGATAATTTTACAAATTG
*
62218206 GGGGTATTTCGATAATTTTAC-AATCTG
1 AGGGTATTTCGATAATTTTACAAAT-TG
* *
62218233 AGGGTATTTTGGTAATTTTACAAA
1 AGGGTATTTCGATAATTTTACAAA
62218257 CTACCATACA
Statistics
Matches: 284, Mismatches: 48, Indels: 29
0.79 0.13 0.08
Matches are distributed among these distances:
25 4 0.01
26 25 0.09
27 244 0.86
28 11 0.04
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATTG
Found at i:62218258 original size:54 final size:54
Alignment explanation
Indices: 62217883--62218258 Score: 342
Period size: 54 Copynumber: 7.0 Consensus size: 54
62217873 TTACACTACA
* * *
62217883 AGGGTATTTC-AGTAATTTTAAAAATC-AAGGGTATTTTGATAATTTTACAAATTG
1 AGGGTATTTCGA-TAATTTT-ACAATCTGAGGGTATTTTGATAATTTTACAAACTG
* * * * * *
62217937 AGGGTATTTCAGA-AATTTTACATTACAG-GGGTTTTTTGGTAATTTTACACTAC-A
1 AGGGTATTTC-GATAATTTTACAAT-CTGAGGGTATTTTGATAATTTTACA-AACTG
* * * *
62217991 AGGGCATTTCAATAATTTTACAAATC-GAGGATATTTCGATAATTTTA-AAACTG
1 AGGGTATTTCGATAATTTTAC-AATCTGAGGGTATTTTGATAATTTTACAAACTG
* * ** *
62218044 GGGGTATTT-TAGTAATTTTACAATCCAAGGGTATTTT-AGTAATTTTACAAACTA
1 AGGGTATTTCGA-TAATTTTACAATCTGAGGGTATTTTGA-TAATTTTACAAACTG
* * *
62218098 AGGGTATTTCGGTAATTTTATAAAT-TGAGGGTATTTCGATAATTTTACAAA-TCG
1 AGGGTATTTCGATAATTTTA-CAATCTGAGGGTATTTTGATAATTTTACAAACT-G
* * * *
62218152 GGGGTATTTCGATAATTTTACAAACTGGGGGTATTTCGATAATTTTACAAACTG
1 AGGGTATTTCGATAATTTTACAATCTGAGGGTATTTTGATAATTTTACAAACTG
* *
62218206 GGGGTATTTCGATAATTTTACAATCTGAGGGTATTTTGGTAATTTTACAAACT
1 AGGGTATTTCGATAATTTTACAATCTGAGGGTATTTTGATAATTTTACAAACT
62218259 ACCATACATG
Statistics
Matches: 262, Mismatches: 41, Indels: 38
0.77 0.12 0.11
Matches are distributed among these distances:
52 8 0.03
53 41 0.16
54 204 0.78
55 8 0.03
56 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (54 bp):
AGGGTATTTCGATAATTTTACAATCTGAGGGTATTTTGATAATTTTACAAACTG
Found at i:62223291 original size:30 final size:30
Alignment explanation
Indices: 62223213--62223295 Score: 141
Period size: 31 Copynumber: 2.7 Consensus size: 30
62223203 TCAGTCTCGA
62223213 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACT-GGCCGAAGCCTTTTCATAAAT
62223243 CATATCACTGGACCGAAGCCTTTTCATAAAT
1 CATATCACTGG-CCGAAGCCTTTTCATAAAT
62223274 CATATCACTGGCCGAAGCCTTT
1 CATATCACTGGCCGAAGCCTTT
62223296 ACTGTAAGCG
Statistics
Matches: 51, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
30 18 0.35
31 33 0.65
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (30 bp):
CATATCACTGGCCGAAGCCTTTTCATAAAT
Found at i:62223542 original size:25 final size:25
Alignment explanation
Indices: 62223514--62223583 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
62223504 CTCTTTTAAT
62223514 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
62223539 AACTGGGGCAGAGCCCTTTTTGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
62223564 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
62223584 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:62224530 original size:26 final size:27
Alignment explanation
Indices: 62224500--62224551 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
62224490 GGGTGTCTTG
62224500 GTAAATCTACAAACCAA-GGTATTTCA
1 GTAAATCTACAAACCAATGGTATTTCA
* **
62224526 GTAAATTTGTAAACCAATGGTATTTC
1 GTAAATCTACAAACCAATGGTATTTC
62224552 TATAATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.33
Consensus pattern (27 bp):
GTAAATCTACAAACCAATGGTATTTCA
Found at i:62224612 original size:27 final size:27
Alignment explanation
Indices: 62224572--62224729 Score: 142
Period size: 27 Copynumber: 5.9 Consensus size: 27
62224562 AGAAAGTCAA
*
62224572 GGGTATTTCT-GTAATTTTGTAAA-TAAG
1 GGGTATTT-TGGTAATTTTATAAACT-AG
62224599 GGGTATTTTGGTAATTTTATAAACT-G
1 GGGTATTTTGGTAATTTTATAAACTAG
** * * *
62224625 AGGGTATTTCAGTTATTTCACAAACTAG
1 -GGGTATTTTGGTAATTTTATAAACTAG
* *
62224653 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACTAG
* * *
62224680 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTATAAACTAG
* * *
62224707 TGGTATTTTAGTAATTTTGTAAA
1 GGGTATTTTGGTAATTTTATAAA
62224730 TCGAGGGTAA
Statistics
Matches: 109, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
26 2 0.02
27 105 0.96
28 2 0.02
ACGTcount: A:0.30, C:0.06, G:0.20, T:0.44
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACTAG
Found at i:62224711 original size:54 final size:54
Alignment explanation
Indices: 62224517--62224724 Score: 188
Period size: 54 Copynumber: 3.8 Consensus size: 54
62224507 TACAAACCAA
* * * * *
62224517 GGTATTTCAGTAAATTTGTAAACCAATGGTATTTCT-ATAATTTTTAGAAAGTCAAG
1 GGTATTTCAGTAATTTTGTAAACCAATGGTATTT-TGGTAA-TTTTACAAACT-AGG
* * * *
62224573 GGTATTTCTGTAATTTTGTAAA-TAAGGGGTATTTTGGTAATTTTATAAACT-GAG
1 GGTATTTCAGTAATTTTGTAAACCAA-TGGTATTTTGGTAATTTTACAAACTAG-G
* *** * *
62224627 GGTATTTCAGTTATTTCACAAACTAGTGGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTCAGTAATTTTGTAAACCAATGGTATTTTGGTAATTTTACAAACTAGG
** *
62224681 GGTATTTTGGTAATTTTGTAAACCAATGGTATTTTAGTAATTTT
1 GGTATTTCAGTAATTTTGTAAACCAATGGTATTTTGGTAATTTT
62224725 GTAAATCGAG
Statistics
Matches: 122, Mismatches: 25, Indels: 12
0.77 0.16 0.08
Matches are distributed among these distances:
54 77 0.63
55 15 0.12
56 30 0.25
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (54 bp):
GGTATTTCAGTAATTTTGTAAACCAATGGTATTTTGGTAATTTTACAAACTAGG
Found at i:62224738 original size:27 final size:27
Alignment explanation
Indices: 62224517--62224891 Score: 115
Period size: 27 Copynumber: 13.8 Consensus size: 27
62224507 TACAAACCAA
* * * * *
62224517 GGTATTTCAGTAAATTTGTAAACCAAT
1 GGTATTTTAGTAATTTTGTAAATCGAG
*
62224544 GGTATTTCTA-TAATTTT-TAGAAAGTCAAG
1 GGTATTT-TAGTAATTTTGT--AAA-TCGAG
*
62224573 GGTATTTCT-GTAATTTTGTAAAT-AAGG
1 GGTATTT-TAGTAATTTTGTAAATCGA-G
* *
62224600 GGTATTTTGGTAATTTTATAAA-CTGAG
1 GGTATTTTAGTAATTTTGTAAATC-GAG
* * *** *
62224627 GGTATTTCAGTTATTTCACAAA-CTAG
1 GGTATTTTAGTAATTTTGTAAATCGAG
* ** *
62224653 TGGTATTTTGGTAATTTTACAAA-CTAGG
1 -GGTATTTTAGTAATTTTGTAAATCGA-G
* * * *
62224681 GGTATTTTGGTAATTTTGTAAACCAAT
1 GGTATTTTAGTAATTTTGTAAATCGAG
62224708 GGTATTTTAGTAATTTTGTAAATCGAG
1 GGTATTTTAGTAATTTTGTAAATCGAG
** * *
62224735 GGTA--AAACGATAATTCTATAAATCGAG
1 GGTATTTTA-G-TAATTTTGTAAATCGAG
** *
62224762 GGTA--AAACGATAATTCTGTAAATCGAG
1 GGTATTTTA-G-TAATTTTGTAAATCGAG
*** * * *
62224789 GGTAAAATGGTAATTCTATAAATCGAG
1 GGTATTTTAGTAATTTTGTAAATCGAG
**** *
62224816 GGTAAAGCAGTAATTCTGTAAATCGAG
1 GGTATTTTAGTAATTTTGTAAATCGAG
* * ** *
62224843 GGTACTTTGGTAATTTTACAAATTGAG
1 GGTATTTTAGTAATTTTGTAAATCGAG
** *
62224870 GACATTTTAGTAATTTGGTAAA
1 GGTATTTTAGTAATTTTGTAAA
62224892 CTAAAGTATT
Statistics
Matches: 279, Mismatches: 52, Indels: 34
0.76 0.14 0.09
Matches are distributed among these distances:
25 1 0.00
26 7 0.03
27 238 0.85
28 12 0.04
29 20 0.07
30 1 0.00
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.38
Consensus pattern (27 bp):
GGTATTTTAGTAATTTTGTAAATCGAG
Found at i:62224765 original size:81 final size:81
Alignment explanation
Indices: 62224680--62224859 Score: 182
Period size: 81 Copynumber: 2.2 Consensus size: 81
62224670 TACAAACTAG
* * *** * *
62224680 GGGTATTTTGGTAATTTTGTAAACCAATGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAAC-G
1 GGGTAATTTGGTAATTTTGTAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACAG
62224744 ATAATTCTATAAATCGA
66 -TAATTCTATAAATCGA
*** * * * * * *
62224761 GGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAGCAG
1 GGGTAATTTGGTAATTTTGTAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACAG
*
62224826 TAATTCTGTAAATCGA
66 TAATTCTATAAATCGA
*
62224842 GGGTACTTTGGTAATTTT
1 GGGTAATTTGGTAATTTT
62224860 ACAAATTGAG
Statistics
Matches: 75, Mismatches: 23, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
81 74 0.99
82 1 0.01
ACGTcount: A:0.35, C:0.08, G:0.22, T:0.34
Consensus pattern (81 bp):
GGGTAATTTGGTAATTTTGTAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACAG
TAATTCTATAAATCGA
Found at i:62224857 original size:54 final size:54
Alignment explanation
Indices: 62224716--62224846 Score: 210
Period size: 54 Copynumber: 2.4 Consensus size: 54
62224706 ATGGTATTTT
* * *
62224716 AGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAAC
*
62224770 -GATAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAGC
1 AG-TAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAAC
62224824 AGTAATTCTGTAAATCGAGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
62224847 CTTTGGTAAT
Statistics
Matches: 71, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
53 1 0.01
54 69 0.97
55 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (54 bp):
AGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAAC
Found at i:62231092 original size:46 final size:45
Alignment explanation
Indices: 62231034--62231206 Score: 163
Period size: 46 Copynumber: 3.7 Consensus size: 45
62231024 GGGTTATTGT
* * *
62231034 GAGCTAGTGTAAGACATGTCTGGCACATGCATCGGCCACATTACGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCC-CATTACGA
*
62231080 GACCCAGTGTAAGACTATGTCTGGGACATGGCATCAG--CATTGAGACGA
1 GAGCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCAGCCCATT---ACGA
* * * ** *
62231128 GAGCTAGTGTAAGAAATGTCTGGGACATGCATCAACCTCAAGATGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCC-CATTACG-A
62231175 -AGCCAGTGTAAGACATGTCTGGGACATGCATC
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATC
62231207 GACTACGAGT
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
45 4 0.04
46 51 0.49
47 26 0.25
48 22 0.21
49 2 0.02
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCCATTACGA
Found at i:62255828 original size:46 final size:46
Alignment explanation
Indices: 62255761--62256103 Score: 351
Period size: 46 Copynumber: 7.6 Consensus size: 46
62255751 GATGCCCTGA
* * * *
62255761 TGTCTTTCAACCATGGTCTTATTCACTTTCTGATATGTTGTCGTAG
1 TGTCTTTCAACCATGGTCTTATTCATTTTCCGATATGATGTCATAG
* * * *
62255807 TGTCTTTCAACCATGGTCTTATTTATTTTCCGGTATGATGCCACAG
1 TGTCTTTCAACCATGGTCTTATTCATTTTCCGATATGATGTCATAG
*
62255853 TG-CATTTCAACCATGGTCTTATTCATTTTCCAATATGAT-TCCATCA-
1 TGTC-TTTCAACCATGGTCTTATTCATTTTCCGATATGATGT-CAT-AG
* *
62255899 TGTCTTTCAACCATGGTCGTATTCATTTTCCAATATGATGTCATAG
1 TGTCTTTCAACCATGGTCTTATTCATTTTCCGATATGATGTCATAG
* * * ** *
62255945 TGTCTTTCAACCATGGTCTTA--AATTTT--TATTTGATACCATTG
1 TGTCTTTCAACCATGGTCTTATTCATTTTCCGATATGATGTCATAG
* * *
62255987 TGTCTTTCAACCATGGTCTCATTCATTTTCTGATATGATGTCATTG
1 TGTCTTTCAACCATGGTCTTATTCATTTTCCGATATGATGTCATAG
* * * *
62256033 TGTCATTCAACTATGCTCTTATTCATTTT-CGATAAGATGTCATAG
1 TGTCTTTCAACCATGGTCTTATTCATTTTCCGATATGATGTCATAG
* * * *
62256078 TGTCCTTCAACTATGCTCTTACTCAT
1 TGTCTTTCAACCATGGTCTTATTCAT
62256104 CTAAATCATG
Statistics
Matches: 251, Mismatches: 36, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
42 30 0.12
44 10 0.04
45 39 0.16
46 169 0.67
47 3 0.01
ACGTcount: A:0.22, C:0.21, G:0.14, T:0.43
Consensus pattern (46 bp):
TGTCTTTCAACCATGGTCTTATTCATTTTCCGATATGATGTCATAG
Found at i:62256056 original size:134 final size:136
Alignment explanation
Indices: 62255760--62256098 Score: 382
Period size: 134 Copynumber: 2.5 Consensus size: 136
62255750 GGATGCCCTG
* * * *
62255760 ATGTCTTTCAACCATGGTCTTATTCACTTTCTGATATGTTGTCGTAGTGTCTTTCAACCATGGTC
1 ATGTCTTTCAACCATGGTCTTATTCATTTTCCGATATGATGTCATAGTGTCTTTCAACCATGGTC
* * * *
62255825 TTATTTATTTTCCGGTATGATGCCACAGTGCATTTCAACCATGGTCTTATTCATTTTCCAATATG
66 TTA-TAATTTT-CGATATGATACCACAGTGCATTTCAACCATGGTCTCATTCATTTTCCAATATG
62255890 ATTCCATC
129 ATTCCATC
* *
62255898 ATGTCTTTCAACCATGGTCGTATTCATTTTCCAATATGATGTCATAGTGTCTTTCAACCATGGTC
1 ATGTCTTTCAACCATGGTCTTATTCATTTTCCGATATGATGTCATAGTGTCTTTCAACCATGGTC
* * ** **
62255963 TTA-AATTTT-TATTTGATACCATTGTGTC-TTTCAACCATGGTCTCATTCATTTTCTGATATGA
66 TTATAATTTTCGATATGATACCACAGTG-CATTTCAACCATGGTCTCATTCATTTTCCAATATGA
*
62256025 TGT-CATT
130 T-TCCATC
* * * * * * * *
62256032 GTGTCATTCAACTATGCTCTTATTCATTTT-CGATAAGATGTCATAGTGTCCTTCAACTATGCTC
1 ATGTCTTTCAACCATGGTCTTATTCATTTTCCGATATGATGTCATAGTGTCTTTCAACCATGGTC
62256096 TTA
66 TTA
62256099 CTCATCTAAA
Statistics
Matches: 172, Mismatches: 27, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
133 32 0.19
134 71 0.41
135 2 0.01
136 5 0.03
138 62 0.36
ACGTcount: A:0.22, C:0.20, G:0.14, T:0.43
Consensus pattern (136 bp):
ATGTCTTTCAACCATGGTCTTATTCATTTTCCGATATGATGTCATAGTGTCTTTCAACCATGGTC
TTATAATTTTCGATATGATACCACAGTGCATTTCAACCATGGTCTCATTCATTTTCCAATATGAT
TCCATC
Found at i:62256117 original size:45 final size:45
Alignment explanation
Indices: 62256019--62256120 Score: 125
Period size: 45 Copynumber: 2.3 Consensus size: 45
62256009 TCATTTTCTG
* * * **
62256019 ATATGATGTCATTGTGTCATTCAACTATGCTCTTATTCATTTTCG
1 ATATGATGTCATAGTGTCATTCAACTATGCTCTTACTCATTCTAA
* *
62256064 ATAAGATGTCATAGTGTCCTTCAACTATGCTCTTACTCA-TCTAA
1 ATATGATGTCATAGTGTCATTCAACTATGCTCTTACTCATTCTAA
62256108 ATCATGATGTCAT
1 AT-ATGATGTCAT
62256121 TGATAAACCA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 4 0.08
45 44 0.92
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (45 bp):
ATATGATGTCATAGTGTCATTCAACTATGCTCTTACTCATTCTAA
Found at i:62257593 original size:19 final size:19
Alignment explanation
Indices: 62257558--62257595 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
62257548 TTACAATTTA
*
62257558 AATTTTTATTTTCTTTTCT
1 AATTTTTATTTTATTTTCT
62257577 AATTCTTTA-TTTATTTTCT
1 AATT-TTTATTTTATTTTCT
62257596 TCTGACAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.18, C:0.11, G:0.00, T:0.71
Consensus pattern (19 bp):
AATTTTTATTTTATTTTCT
Found at i:62268573 original size:46 final size:45
Alignment explanation
Indices: 62268522--62268652 Score: 149
Period size: 46 Copynumber: 2.8 Consensus size: 45
62268512 ATGGTTGAGC
62268522 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA-T-GCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACTAG-GA
* *** *
62268566 ATGTCCGAACTCGTTGAGTTGAGTTCGAGTTCGAGAGATGTAACTAGGA
1 A--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GACTAGGA
*
62268615 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62268653 GCGGGTTACA
Statistics
Matches: 70, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
44 1 0.01
46 32 0.46
47 31 0.44
48 1 0.01
49 4 0.06
50 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (45 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACTAGGA
Found at i:62271627 original size:15 final size:15
Alignment explanation
Indices: 62271589--62271632 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
62271579 CATAGTATCG
* *
62271589 TATCTTGGGTTTCTT
1 TATCTTGGATTTCTC
62271604 TAT-TCTGGATTTCTC
1 TATCT-TGGATTTCTC
62271619 TATCTTGGATTTCT
1 TATCTTGGATTTCT
62271633 TTATTCGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 1 0.04
15 23 0.92
16 1 0.04
ACGTcount: A:0.11, C:0.16, G:0.16, T:0.57
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:62307988 original size:94 final size:97
Alignment explanation
Indices: 62307832--62308006 Score: 243
Period size: 94 Copynumber: 1.8 Consensus size: 97
62307822 TCCGTTAAGT
* *
62307832 CGATGCCATGTCCCAAACACGGTCTTACACTGACTATCAAACTCGAGGCTGACGCCATGTCCCAG
1 CGATGCCATGTCCCAAACACGGTCTTACACTGACTATCAAAC-CGAAGCTGACACCATGTCCCAG
*
62307897 ACGTGGTCTTACACTAGCTTTCATCTATTGGTGC
65 ACAT-GTCTTACACTAGCTTTCATCTATTGGTGC
* *
62307931 CGATGCCATGTCCTAGACA-GGTCTTACACTGAC-A-CACAA-C-AAGCTGACACCATGTCCCAG
1 CGATGCCATGTCCCAAACACGGTCTTACACTGACTATCA-AACCGAAGCTGACACCATGTCCCAG
62307991 ACATGTCTTACACTAG
65 ACATGTCTTACACTAG
62308007 GACAGAAATG
Statistics
Matches: 70, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
93 12 0.17
94 21 0.30
95 1 0.01
96 2 0.03
97 3 0.04
98 14 0.20
99 17 0.24
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (97 bp):
CGATGCCATGTCCCAAACACGGTCTTACACTGACTATCAAACCGAAGCTGACACCATGTCCCAGA
CATGTCTTACACTAGCTTTCATCTATTGGTGC
Found at i:62317777 original size:42 final size:42
Alignment explanation
Indices: 62317714--62317818 Score: 133
Period size: 42 Copynumber: 2.5 Consensus size: 42
62317704 GTAGCCTAGC
*
62317714 TATGGTCTTACACGGAA-TCTCAT-ATCGATGTCATATCCCAAA
1 TATGGTCTTACAC-AAAGTCTCATAAT-GATGTCATATCCCAAA
* * *
62317756 TATGGTCTTAAACAAAGTCTCATAATGATGTCGTATCCCAGA
1 TATGGTCTTACACAAAGTCTCATAATGATGTCATATCCCAAA
*
62317798 TATGGTCTTACACATAGTCTC
1 TATGGTCTTACACAAAGTCTC
62317819 GTTAACCCTA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
41 2 0.04
42 51 0.93
43 2 0.04
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.32
Consensus pattern (42 bp):
TATGGTCTTACACAAAGTCTCATAATGATGTCATATCCCAAA
Found at i:62322048 original size:259 final size:258
Alignment explanation
Indices: 62321578--62322090 Score: 701
Period size: 259 Copynumber: 2.0 Consensus size: 258
62321568 TAACACTCCA
* * * *
62321578 TAAATATTCTATTAAATATTTAAGGGCTCAGTTTACAAAAACGAGATCTCGATACGTCATTTTCT
1 TAAATATTCTATTAAATATTGAAGGGCTCAGTTTACAAAAACAAGATCTCGATACCTCATTTTCC
* * *
62321643 AAAACCACTTGACTTTAGGAATTAACCACTTGAACTTGACTATATGACTAGTTAGCAAATTTTAT
66 AAAACCACTTGACTTTAGGAATTAACCACTTAAACTTGACTATACGACTAATTAGCAAATTTTAT
* * *
62321708 TAAATCGGAACTTCAAATATTATACCTGACTCATAAATATTAATTAATAATATTTACGAGCTCAC
131 TAAATCGAAACTTCAAACATTATACCTGACTCATAAATATTAATTAATAAAATTTACGAGCTCAC
*
62321773 TCATCGAATTTGTGGTTCCAAAACCACTATTTCTGACACCACTGGAAAAGGGGTTGTTACTAC
196 TCATCGAATTTGTGGTTCCAAAACCACTATTTCTGACACCACTGAAAAAGGGGTTGTTACTAC
* * * * *
62321836 TAAATATTTTATTAAATATTGATA-GGCTC-GATTTATAGAAACAAGGTCTCGATACCTGATTTT
1 TAAATATTCTATTAAATATTGA-AGGGCTCAG-TTTACAAAAACAAGATCTCGATACCTCATTTT
* *
62321899 CCAAAACCACTTGGCTTTAGGAATTAACCAC-TAAACTTGACTATACGA-TGAATTAGCAACTTT
64 CCAAAACCACTTGACTTTAGGAATTAACCACTTAAACTTGACTATACGACT-AATTAGCAAATTT
* * *
62321962 TATTAAATTGAAACTTCAATAACATTATACTTGATTCATAAATATTAATTAATAAAATTTACGAG
128 TATTAAATCGAAACTTC-A-AACATTATACCTGACTCATAAATATTAATTAATAAAATTTACGAG
* * * * * * *
62322027 CTCACTCATTGAATTTGTGGTTTCGAAACTACTATTTTTGGCACCACTGAAAAATGGGTTGTTA
191 CTCACTCATCGAATTTGTGGTTCCAAAACCACTATTTCTGACACCACTGAAAAAGGGGTTGTTA
62322091 TAGCTGTAGT
Statistics
Matches: 222, Mismatches: 28, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
256 1 0.00
257 42 0.19
258 81 0.36
259 98 0.44
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (258 bp):
TAAATATTCTATTAAATATTGAAGGGCTCAGTTTACAAAAACAAGATCTCGATACCTCATTTTCC
AAAACCACTTGACTTTAGGAATTAACCACTTAAACTTGACTATACGACTAATTAGCAAATTTTAT
TAAATCGAAACTTCAAACATTATACCTGACTCATAAATATTAATTAATAAAATTTACGAGCTCAC
TCATCGAATTTGTGGTTCCAAAACCACTATTTCTGACACCACTGAAAAAGGGGTTGTTACTAC
Found at i:62330280 original size:27 final size:27
Alignment explanation
Indices: 62330257--62330395 Score: 158
Period size: 27 Copynumber: 5.2 Consensus size: 27
62330247 GATATTATTT
62330257 AAATACCCTCGATTTGTAAAATTATCG
1 AAATACCCTCGATTTGTAAAATTATCG
* *
62330284 AAATACCCCCGATTTGTGAAATTA-CTG
1 AAATACCCTCGATTTGTAAAATTATC-G
* *
62330311 AAATACCCTCGA-TTGTGAAATTACCG
1 AAATACCCTCGATTTGTAAAATTATCG
* *
62330337 AAATACCCTCAATTTATAAAATTATCG
1 AAATACCCTCGATTTGTAAAATTATCG
* * *
62330364 AAACAACCC-CTATTTGTAAAATTATCA
1 AAA-TACCCTCGATTTGTAAAATTATCG
62330391 AAATA
1 AAATA
62330396 TCATTGTAAT
Statistics
Matches: 96, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
26 25 0.26
27 67 0.70
28 4 0.04
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATACCCTCGATTTGTAAAATTATCG
Found at i:62330359 original size:53 final size:54
Alignment explanation
Indices: 62330257--62330387 Score: 151
Period size: 53 Copynumber: 2.4 Consensus size: 54
62330247 GATATTATTT
* * * *
62330257 AAATACCCTCGATTTGTAAAATTATCGAAATACCCCCGATTTGTGAAATTACTG
1 AAATACCCTCGATTTGTAAAATTACCGAAATACCCCCAATTTATAAAATTACTG
* *
62330311 AAATACCCTCGA-TTGTGAAATTACCGAAATACCCTCAATTTATAAAATTA-TCG
1 AAATACCCTCGATTTGTAAAATTACCGAAATACCCCCAATTTATAAAATTACT-G
* *
62330364 AAACAACCC-CTATTTGTAAAATTA
1 AAA-TACCCTCGATTTGTAAAATTA
62330388 TCAAAATATC
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
52 1 0.02
53 38 0.58
54 26 0.40
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.31
Consensus pattern (54 bp):
AAATACCCTCGATTTGTAAAATTACCGAAATACCCCCAATTTATAAAATTACTG
Found at i:62330408 original size:27 final size:27
Alignment explanation
Indices: 62330378--62330439 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
62330368 AACCCCTATT
*
62330378 TGTAAAATTATCA-AAATATCATTGTAA
1 TGTAAAATTA-CAGAAATACCATTGTAA
* *
62330405 TGTAAAATTACAGAAATACCCTTGTAG
1 TGTAAAATTACAGAAATACCATTGTAA
62330432 TGTAAAAT
1 TGTAAAAT
62330440 GACTATTTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
26 2 0.06
27 29 0.94
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.34
Consensus pattern (27 bp):
TGTAAAATTACAGAAATACCATTGTAA
Found at i:62334633 original size:42 final size:43
Alignment explanation
Indices: 62334563--62334674 Score: 145
Period size: 43 Copynumber: 2.6 Consensus size: 43
62334553 TCTGAACTCA
** * **
62334563 TTGAGTGGTCCGAGTTTGTGATATATGTG-GCATCCGAGCTCG
1 TTGAGTGGTCCGAGTTCATAATGGATGTGAGCATCCGAGCTCG
* * *
62334605 TTGAGTGGTCCGAGTTCATTATGGATGTGAGCATCTGAGCTTG
1 TTGAGTGGTCCGAGTTCATAATGGATGTGAGCATCCGAGCTCG
62334648 TTGAGTGGTCCGAGTTCATAATGGATG
1 TTGAGTGGTCCGAGTTCATAATGGATG
62334675 CGATACATGT
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
42 24 0.39
43 37 0.61
ACGTcount: A:0.19, C:0.14, G:0.33, T:0.34
Consensus pattern (43 bp):
TTGAGTGGTCCGAGTTCATAATGGATGTGAGCATCCGAGCTCG
Found at i:62338291 original size:15 final size:15
Alignment explanation
Indices: 62338267--62338324 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
62338257 TATGATATTG
62338267 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
*
62338282 TATCTAGGATTTCTT
1 TATCTTGGATTTCTT
* *
62338297 TTTCTTGGACTTCTT
1 TATCTTGGATTTCTT
*
62338312 TATCTTGGTTTTC
1 TATCTTGGATTTC
62338325 ATGTCATCTC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.12, C:0.16, G:0.14, T:0.59
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:62344288 original size:48 final size:48
Alignment explanation
Indices: 62344215--62344345 Score: 176
Period size: 48 Copynumber: 2.7 Consensus size: 48
62344205 CTCGTACCCT
* **
62344215 AAGTGCCAATATCATGGCCCGAAGCCAACTCAATGAATCTTGCAC-CGG
1 AAGTGCCAATATCATGGCCCAAAGCCAACTCAATGAATCTCACACTC-G
* *
62344263 AAGTGTTC-ATATCATGGCCTAAAGCCAACTCAATGAATCTCACACTCG
1 AAGTG-CCAATATCATGGCCCAAAGCCAACTCAATGAATCTCACACTCG
*
62344311 AAGTGCCAATATCATGGCCCAAAGCCAACTAAATG
1 AAGTGCCAATATCATGGCCCAAAGCCAACTCAATG
62344346 TAACCCCTAA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
47 1 0.01
48 69 0.96
49 2 0.03
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (48 bp):
AAGTGCCAATATCATGGCCCAAAGCCAACTCAATGAATCTCACACTCG
Found at i:62346586 original size:20 final size:20
Alignment explanation
Indices: 62346558--62346596 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
62346548 AAATAGGGTT
*
62346558 ACACTCCCGTGTGGCTTGGG
1 ACACGCCCGTGTGGCTTGGG
*
62346578 ACACGCCCGTGTGGGTTGG
1 ACACGCCCGTGTGGCTTGG
62346597 CCGTATGGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.10, C:0.28, G:0.38, T:0.23
Consensus pattern (20 bp):
ACACGCCCGTGTGGCTTGGG
Found at i:62351896 original size:32 final size:32
Alignment explanation
Indices: 62351855--62351920 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
62351845 AACTTGCTAA
62351855 TTAGGACCTTCTAATTTATAATCTAAAGCAAT
1 TTAGGACCTTCTAATTTATAATCTAAAGCAAT
62351887 TTAGGACCTTCTAATTTATAATCTAAAGCAAT
1 TTAGGACCTTCTAATTTATAATCTAAAGCAAT
62351919 TT
1 TT
62351921 CATGCTAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.39
Consensus pattern (32 bp):
TTAGGACCTTCTAATTTATAATCTAAAGCAAT
Found at i:62354332 original size:38 final size:38
Alignment explanation
Indices: 62354289--62354458 Score: 234
Period size: 38 Copynumber: 4.4 Consensus size: 38
62354279 TAAAGATCCA
62354289 CAGGCTTCA-TGCTGGTATTATATCCGAGTTAAATCCCG
1 CAGGCTT-AGTGCTGGTATTATATCCGAGTTAAATCCCG
* *
62354327 CAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCG
1 CAGGCTTAGTGCTGGTATTATATCCGAGTTAAATCCCG
* * *
62354365 CAGGCTTAGTGCTGGTATTATAACCGGGTTAAATCTCG
1 CAGGCTTAGTGCTGGTATTATATCCGAGTTAAATCCCG
*
62354403 CAGGCTTAGTGCTGGTATTATATTCGAGCTTAAAGTCCCG
1 CAGGCTTAGTGCTGGTATTATATCCGAG-TTAAA-TCCCG
* *
62354443 CAGGTTTTGTGCTGGT
1 CAGGCTTAGTGCTGGT
62354459 GACTGGATTC
Statistics
Matches: 118, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
38 95 0.81
39 5 0.04
40 18 0.15
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.33
Consensus pattern (38 bp):
CAGGCTTAGTGCTGGTATTATATCCGAGTTAAATCCCG
Found at i:62354378 original size:76 final size:78
Alignment explanation
Indices: 62354269--62354458 Score: 244
Period size: 76 Copynumber: 2.5 Consensus size: 78
62354259 ATTTGATATG
* * *
62354269 TATCCGGGCTTAAAGAT-CCACAGGCTTCA-TGCTGGTATTATATCCGAGTTAAATCCCGCAGGC
1 TATCCGAGCTTAAAG-TCCCGCAGGCTT-AGTGCTGGTATTATAACCGAGTTAAATCCCGCAGGC
*
62354332 TTCGTGCTGGTATTA
64 TTAGTGCTGGTATTA
* * *
62354347 TATCCG-GGTTAAA-TCCCGCAGGCTTAGTGCTGGTATTATAACCGGGTTAAATCTCGCAGGCTT
1 TATCCGAGCTTAAAGTCCCGCAGGCTTAGTGCTGGTATTATAACCGAGTTAAATCCCGCAGGCTT
62354410 AGTGCTGGTATTA
66 AGTGCTGGTATTA
* * *
62354423 TATTCGAGCTTAAAGTCCCGCAGGTTTTGTGCTGGT
1 TATCCGAGCTTAAAGTCCCGCAGGCTTAGTGCTGGT
62354459 GACTGGATTC
Statistics
Matches: 98, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
75 2 0.02
76 59 0.60
77 12 0.12
78 25 0.26
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (78 bp):
TATCCGAGCTTAAAGTCCCGCAGGCTTAGTGCTGGTATTATAACCGAGTTAAATCCCGCAGGCTT
AGTGCTGGTATTA
Found at i:62363118 original size:19 final size:19
Alignment explanation
Indices: 62363077--62363118 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
62363067 ATGTAATGTT
* *
62363077 TGTTTTTAATTTGATTTTC
1 TGTTTTTAATTTGAGTTTA
62363096 TGTTTTTGAATTT-AGTTTA
1 TGTTTTT-AATTTGAGTTTA
62363115 TGTT
1 TGTT
62363119 ATATTTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.17, C:0.02, G:0.14, T:0.67
Consensus pattern (19 bp):
TGTTTTTAATTTGAGTTTA
Found at i:62364044 original size:12 final size:12
Alignment explanation
Indices: 62364022--62364080 Score: 75
Period size: 12 Copynumber: 4.9 Consensus size: 12
62364012 AACAAAAAAT
62364022 TGAAGTAAATAAG
1 TGAA-TAAATAAG
62364035 TGAATAAATAAG
1 TGAATAAATAAG
62364047 TGAATAAATAAG
1 TGAATAAATAAG
* *
62364059 AGAGTAAATAAG
1 TGAATAAATAAG
*
62364071 T-AAAAAATAA
1 TGAATAAATAA
62364081 TTAAAAAGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
11 7 0.17
12 30 0.73
13 4 0.10
ACGTcount: A:0.61, C:0.00, G:0.17, T:0.22
Consensus pattern (12 bp):
TGAATAAATAAG
Found at i:62369263 original size:91 final size:91
Alignment explanation
Indices: 62369131--62369338 Score: 274
Period size: 91 Copynumber: 2.3 Consensus size: 91
62369121 TTGATTTTAG
* *
62369131 TAAATTCATATAAGAACATTTTATTATTAACAATTTCATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAACAATTTCATGAAATTATATATCACTATTAAATTAT
* *
62369196 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
* * * * *
62369223 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTTTATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAACAATTTCATGAAATTATATATCACTATTAAATTATA
62369288 TGTAATAATTATTATTTTAAATTATA
66 TGTAATAATTATTATTTTAAATTATA
* * * *
62369314 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
62369339 GTTATAATTA
Statistics
Matches: 102, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
91 83 0.81
92 19 0.19
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAACAATTTCATGAAATTATATATCACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:62369387 original size:16 final size:17
Alignment explanation
Indices: 62369368--62369399 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
62369358 TTATTAAATC
62369368 ATATATTTAA-ATTAAA
1 ATATATTTAATATTAAA
62369384 ATATATTTAATATTAA
1 ATATATTTAATATTAA
62369400 TTATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATATTTAATATTAAA
Found at i:62369463 original size:66 final size:63
Alignment explanation
Indices: 62369392--62369604 Score: 194
Period size: 61 Copynumber: 3.4 Consensus size: 63
62369382 AAATATATTT
62369392 AATATTAATTATTTAA-AATTTTATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTA-TTAAGAATTTTA--TTA-AGTATCATATATTATGATTTGAGTAAATTCATATA
62369456 AG
62 AG
* * * * * * *
62369458 AATATTAATTATTAAGAATTTTATTAA--ATTATATATTTTAATTAT-ATTATATTTA-ATAAT
1 AATATTAATTATTAAGAATTTTATTAAGTATCATATATTATGATT-TGAGTAAATTCATATAAG
* * * *
62369518 AATTATGTTATT-TT-A-TATTTTA--CAGTATCATATATTATGGTTTGAGTAAATTCATATAAG
1 AA-TAT-TAATTATTAAGAATTTTATTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
62369578 AATATTAATTATTAAGAATTTTATTAA
1 AATATTAATTATTAAGAATTTTATTAA
62369605 ATTATATATT
Statistics
Matches: 113, Mismatches: 21, Indels: 29
0.69 0.13 0.18
Matches are distributed among these distances:
57 1 0.01
58 5 0.04
59 30 0.27
60 14 0.12
61 31 0.27
62 5 0.04
63 2 0.02
64 3 0.03
65 4 0.04
66 18 0.16
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (63 bp):
AATATTAATTATTAAGAATTTTATTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:62369478 original size:120 final size:120
Alignment explanation
Indices: 62369354--62369646 Score: 482
Period size: 120 Copynumber: 2.4 Consensus size: 120
62369344 AATTATTTTA
* * *
62369354 AATTTTATTAAATCATATATTTAAATTAAAATATATTTAATATTAATTAT-TTAAAATTT-TATT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT--AATTTATATT
*
62369417 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* * *
62369474 AATTTTATTAAATTATATATTTTAATTATATTATATTTAATAATAATTATGTTATTTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
*
62369539 ACAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
62369594 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
62369647 TAAATATGAT
Statistics
Matches: 161, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
119 4 0.02
120 155 0.96
121 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:62369506 original size:18 final size:17
Alignment explanation
Indices: 62369475--62369509 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
62369465 ATTATTAAGA
62369475 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
62369492 ATTTTAATTATATTATAT
1 ATTTT-ATTAAATTATAT
62369510 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:62369623 original size:18 final size:17
Alignment explanation
Indices: 62369595--62369629 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
62369585 ATTATTAAGA
*
62369595 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
62369612 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
62369630 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:62369743 original size:147 final size:143
Alignment explanation
Indices: 62369583--62369851 Score: 459
Period size: 147 Copynumber: 1.9 Consensus size: 143
62369573 ATAAGAATAT
* *
62369583 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAAATATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
62369648 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAA-AATAATTT
66 AAATATGATTAAATTATTTATTATTGATA-T--T-AT-TTATTAAAATTTAAATAACAATAATTT
62369712 ACCAAAACAAATTTCTGC
126 ACCAAAACAAATTTCTGC
62369730 TAATTATTAAGAATTTTATTAAAATATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAAATATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
62369795 AAATATGATTAAATTATTTATTTTTGATATTATTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATATTATTTATTAAAATTTAAATAACAATAA
62369852 CAATAATCAT
Statistics
Matches: 118, Mismatches: 3, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
142 18 0.15
143 7 0.06
144 1 0.01
146 1 0.01
147 91 0.77
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (143 bp):
TAATTATTAAGAATTTTATTAAAATATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATATTATTTATTAAAATTTAAATAACAATAATTTACCAA
AACAAATTTCTGC
Found at i:62369777 original size:16 final size:17
Alignment explanation
Indices: 62369742--62369776 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
62369732 ATTATTAAGA
62369742 ATTTTATTAAAATATAT
1 ATTTTATTAAAATATAT
62369759 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
62369777 TAAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:62369981 original size:44 final size:45
Alignment explanation
Indices: 62369932--62370026 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
62369922 TTACACCTCT
* *
62369932 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
62369976 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
62370021 ATTACA
1 ATTACA
62370027 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:62370026 original size:16 final size:16
Alignment explanation
Indices: 62370007--62370058 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
62369997 GATTTGCTAT
* *
62370007 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
62370023 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
62370039 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
62370055 TACA
1 TACA
62370059 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:62370671 original size:20 final size:22
Alignment explanation
Indices: 62370631--62370681 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
62370621 AAAAACAATA
62370631 AATTTATTAATATTTAAATAAAT
1 AATTTATTAATATTT-AATAAAT
*
62370654 AATTTATT-ATATTT-ATAAAA
1 AATTTATTAATATTTAATAAAT
*
62370674 AATATATT
1 AATTTATT
62370682 TTTATTCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 12 0.46
22 6 0.23
23 8 0.31
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AATTTATTAATATTTAATAAAT
Found at i:62370687 original size:26 final size:23
Alignment explanation
Indices: 62370621--62370682 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 23
62370611 ATAGTATGTG
62370621 AAAAACAATAAATTTATTAATATTT
1 AAAAA-AAT-AATTTATTAATATTT
*
62370646 AAATAAATAATTTATT-ATATTT
1 AAAAAAATAATTTATTAATATTT
62370668 ATAAAAAATATATTT
1 A-AAAAAATA-ATTT
62370683 TTATTCATTC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
22 7 0.21
23 15 0.45
24 7 0.21
25 4 0.12
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (23 bp):
AAAAAAATAATTTATTAATATTT
Found at i:62379496 original size:20 final size:19
Alignment explanation
Indices: 62379460--62379498 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
62379450 CAGAAAAACA
62379460 TGATATTGGAAATAAAAAG
1 TGATATTGGAAATAAAAAG
* *
62379479 TGATATTGGGAGTAAAAAG
1 TGATATTGGAAATAAAAAG
62379498 T
1 T
62379499 ATCTTAGTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.26, T:0.28
Consensus pattern (19 bp):
TGATATTGGAAATAAAAAG
Found at i:62384893 original size:132 final size:133
Alignment explanation
Indices: 62384663--62384904 Score: 353
Period size: 132 Copynumber: 1.8 Consensus size: 133
62384653 AAAATTTGAT
* * *
62384663 CAAAATGTGAAAATGTAAGTTATTATTCATTAATTGATATAAGAATAAGATGAAATATGTCTTGG
1 CAAAATGTGAAAATATAAGTTATTATTCATTAATTGAAATAAGAATAAGATGAAATATGTCTTAG
**
62384728 TATGATGGAAATAAAATTTGGGACTAAAATGGAAAAATTA-AAAAGTACATGAACAATACAATTT
66 TATGATGGAAATAAAATTTGAAACTAAAATGGAAAAATTAGAAAAGTACATGAACAATACAATTT
62384792 GGC
131 GGC
* * * *
62384795 CAAAATGTGAAAATATAAGTTATTATTGATTTATTGAAATAAGAATTAGTTGAAATATG-CATTA
1 CAAAATGTGAAAATATAAGTTATTATTCATTAATTGAAATAAGAATAAGATGAAATATGTC-TTA
* * *
62384859 GTATGATGGAAATCAAATTTGAAATTAAATTGGAAAAATTAGAAAA
65 GTATGATGGAAATAAAATTTGAAACTAAAATGGAAAAATTAGAAAA
62384905 TATAAGAACT
Statistics
Matches: 96, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
131 1 0.01
132 91 0.95
133 4 0.04
ACGTcount: A:0.47, C:0.05, G:0.17, T:0.32
Consensus pattern (133 bp):
CAAAATGTGAAAATATAAGTTATTATTCATTAATTGAAATAAGAATAAGATGAAATATGTCTTAG
TATGATGGAAATAAAATTTGAAACTAAAATGGAAAAATTAGAAAAGTACATGAACAATACAATTT
GGC
Found at i:62386297 original size:28 final size:28
Alignment explanation
Indices: 62386257--62386314 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
62386247 TAAGCTTTAC
62386257 GCTTAGTAAGTTTATAAGAAAACAATAA
1 GCTTAGTAAGTTTATAAGAAAACAATAA
62386285 GCTTAGTAAGTTTATAAGAAAACAATAA
1 GCTTAGTAAGTTTATAAGAAAACAATAA
62386313 GC
1 GC
62386315 AACTCATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.48, C:0.09, G:0.16, T:0.28
Consensus pattern (28 bp):
GCTTAGTAAGTTTATAAGAAAACAATAA
Found at i:62387565 original size:41 final size:40
Alignment explanation
Indices: 62387466--62387569 Score: 118
Period size: 40 Copynumber: 2.6 Consensus size: 40
62387456 CTTTTATCAA
* *
62387466 ATCACCGGCATTTAGCCTGCTAGATTTTAAACCCGAATTC
1 ATCACCGGCATTTAGCCTGCTAGACTTTAAACCCGAACTC
*** ** *
62387506 ATCACCGGCACGAAGCCTGCTAGACTTTAAGTCTGAACTC
1 ATCACCGGCATTTAGCCTGCTAGACTTTAAACCCGAACTC
*
62387546 ATTCACCGGCATTTCGCCTGCTAG
1 A-TCACCGGCATTTAGCCTGCTAG
62387570 GCTTGAAGCC
Statistics
Matches: 51, Mismatches: 12, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
40 33 0.65
41 18 0.35
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (40 bp):
ATCACCGGCATTTAGCCTGCTAGACTTTAAACCCGAACTC
Found at i:62387610 original size:43 final size:43
Alignment explanation
Indices: 62387544--62387670 Score: 152
Period size: 43 Copynumber: 3.0 Consensus size: 43
62387534 AAGTCTGAAC
* * **
62387544 TCAT-TCACCGGCATT-TCGCCTGCTAGGCTTGAAGCCCGATA
1 TCATCTCACCGACATTATAGCCTGCTAGGCCCGAAGCCCGATA
* *
62387585 TCATTTCACCCG-TATTATAGCCTGCTAGGCCCGAAGCCCGATA
1 TCATCTCA-CCGACATTATAGCCTGCTAGGCCCGAAGCCCGATA
* *
62387628 TTATCTCATCGACATTATAGCCTGCTAGGCCCGAAGCCCGATA
1 TCATCTCACCGACATTATAGCCTGCTAGGCCCGAAGCCCGATA
62387671 ATATTATTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
41 4 0.05
42 8 0.11
43 62 0.84
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (43 bp):
TCATCTCACCGACATTATAGCCTGCTAGGCCCGAAGCCCGATA
Found at i:62389930 original size:20 final size:20
Alignment explanation
Indices: 62389905--62389942 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
62389895 TGAATTGCTC
62389905 TGTTTAATTAAAATTATGTA
1 TGTTTAATTAAAATTATGTA
62389925 TGTTTAATTAAAATTATG
1 TGTTTAATTAAAATTATG
62389943 ATATAAGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (20 bp):
TGTTTAATTAAAATTATGTA
Found at i:62392231 original size:68 final size:68
Alignment explanation
Indices: 62392117--62392316 Score: 294
Period size: 68 Copynumber: 2.9 Consensus size: 68
62392107 GAAATCCGCT
* * * *
62392117 AGGAAAGTAAACATGAGAACATATTGTGTAAGGCCATAGTTGGGCTATGGCAACATATAAAGTTC
1 AGGAAAGTAAACATGGGAACATATTGTGTAAGACCATAGTTGGGCTATGACAACATATGAAGTTC
62392182 ACC
66 ACC
* * *
62392185 AGGATAGTAAACATGGGAACATATTGTGTAAGACCATAGTTGGGCTACGACAACATATGAAGTTT
1 AGGAAAGTAAACATGGGAACATATTGTGTAAGACCATAGTTGGGCTATGACAACATATGAAGTTC
*
62392250 TCC
66 ACC
**
62392253 AGGACAA-TAAACATGGGAACATATTGTGTAAGACCATAGTTGCACTATGACAACATATGAAGTT
1 AGGA-AAGTAAACATGGGAACATATTGTGTAAGACCATAGTTGGGCTATGACAACATATGAAGTT
62392317 TGCCAAGACA
Statistics
Matches: 119, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
68 118 0.99
69 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (68 bp):
AGGAAAGTAAACATGGGAACATATTGTGTAAGACCATAGTTGGGCTATGACAACATATGAAGTTC
ACC
Found at i:62396542 original size:48 final size:47
Alignment explanation
Indices: 62396482--62396847 Score: 347
Period size: 48 Copynumber: 7.6 Consensus size: 47
62396472 TATGTGTGCC
*
62396482 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACTATATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CAATATATGAGAGCT
* * * * *
62396530 AGTGTAAGACCATATTTGGAACATGGCATCGGCAATGTAATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAATAT-ATGAGAGCT
* * * * *
62396578 AGTGTAAGACCATGTCTAGGACATGGCATCGGTATTGATATGTGCGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAAT-ATATGAGAGCT
* ** *
62396626 AGTGTAAGACCATGTCTGGGACATGGCATTGGGCACGATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCA-TCGGCAATATATGAGAGCT
* * *
62396674 AGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTAATGAGAG-T
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAATAT-ATGAGAGCT
* * * * ** * * *
62396721 CAGTCTAAGACCATGTCTGAGATATGACATTAGCATTGATATGTGCGCT
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCAAT-ATATGAGAGCT
* * * * *
62396770 AGTGTAAGACCATGTTTGGGACATGTCATCGACAATGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAAT-ATATGAGAGCT
* *
62396818 AGTATAAGACCATGCCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
62396848 AGTTTCGACA
Statistics
Matches: 251, Mismatches: 60, Indels: 14
0.77 0.18 0.04
Matches are distributed among these distances:
47 10 0.04
48 234 0.93
49 7 0.03
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCAATATATGAGAGCT
Found at i:62396650 original size:96 final size:96
Alignment explanation
Indices: 62396469--62396901 Score: 392
Period size: 96 Copynumber: 4.5 Consensus size: 96
62396459 GACATTTGGG
* * *
62396469 TGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACT-ATATGAGAGCTAGT
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CAATGATATGAGAGCTAGT
* * *
62396533 GTAAGACCATATTTGGAACATGGCATCGGCAA
65 GTAAGACCATGTCTGGGACATGGCATCGGCAA
* * * * *
62396565 TG-TAATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGTATTGATATGTGCGCTAGT
1 TGAT-ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGATATGAGAGCTAGT
*
62396629 GTAAGACCATGTCTGGGACATGGCATTGGGC-A
65 GTAAGACCATGTCTGGGACATGGCA-TCGGCAA
* * *
62396661 CGATATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCAATG-TAATGAGAG-TCAG
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGAT-ATGAGAGCT-AG
* * * * ** *
62396724 TCTAAGACCATGTCTGAGATATGACATTAGCAT
64 TGTAAGACCATGTCTGGGACATGGCATCGGCAA
* * * * * * * * *
62396757 TGATATGTGCGCTAGTGTAAGACCATGTTTGGGACATGTCATCGACAATGAGACGAGAGCTAGTA
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGATATGAGAGCTAGTG
* * **
62396822 TAAGACCATGCCTGGGACATGGCATCAG-TT
66 TAAGACCATGTCTGGGACATGGCATCGGCAA
* * * * * * *
62396852 TCGACATGTGAGCCAATGTAAGACCGTGTTTGGAACATGGCATCGACAAT
1 T-GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAAT
62396902 TCACCCTCTT
Statistics
Matches: 278, Mismatches: 49, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
95 10 0.04
96 262 0.94
97 6 0.02
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (96 bp):
TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGATATGAGAGCTAGTG
TAAGACCATGTCTGGGACATGGCATCGGCAA
Found at i:62396730 original size:144 final size:144
Alignment explanation
Indices: 62396469--62396800 Score: 504
Period size: 144 Copynumber: 2.3 Consensus size: 144
62396459 GACATTTGGG
* * * *
62396469 TGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACTATATGAGAGCTAGTG
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGTG
*
62396534 TAAGACCATATTTGGAACATGGCATCGGCAATGTAATGAGAGCCAGTGTAAGACCATGTCT-AGG
66 TAAGACCATATTTGGAACATGGCATCGGCAATGTAATGAGAGCCAGTCTAAGACCATGTCTGA-G
* * *
62396598 ACATGGCATCGGTAT
130 ACATGACATCAGCAT
* *
62396613 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGGCACGATATGAGAGCCAGTG
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGTG
* *
62396678 TAAGACCATGTTTGGAACATGGCATCGGCAATGTAATGAGAGTCAGTCTAAGACCATGTCTGAGA
66 TAAGACCATATTTGGAACATGGCATCGGCAATGTAATGAGAGCCAGTCTAAGACCATGTCTGAGA
* *
62396743 TATGACATTAGCAT
131 CATGACATCAGCAT
* *
62396757 TGATATGTGCGCTAGTGTAAGACCATGTTTGGGACATGTCATCG
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
62396801 ACAATGAGAC
Statistics
Matches: 170, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
144 169 0.99
145 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (144 bp):
TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGTG
TAAGACCATATTTGGAACATGGCATCGGCAATGTAATGAGAGCCAGTCTAAGACCATGTCTGAGA
CATGACATCAGCAT
Found at i:62396876 original size:144 final size:144
Alignment explanation
Indices: 62396469--62396847 Score: 494
Period size: 144 Copynumber: 2.6 Consensus size: 144
62396459 GACATTTGGG
* * * *
62396469 TGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACT-ATATGAGAGCTAGT
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATC-GACAATGATATGAGAGCTAGT
*
62396533 GTAAGACCATATTTGGAACATGGCATCGGCAATGTAATGAGAGCCAGTGTAAGACCATGTCTAGG
65 GTAAGACCATGTTTGGAACATGGCATCGGCAATGTAATGAGAGCCAGTGTAAGACCATGTCTAGG
* * *
62396598 ACATGGCATCGGTAT
130 ACATGACATCAGCAT
* * * *
62396613 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGGC-ACGATATGAGAGCCAGT
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCA-TCGACAATGATATGAGAGCTAGT
* *
62396677 GTAAGACCATGTTTGGAACATGGCATCGGCAATGTAATGAGAGTCAGTCTAAGACCATGTCT-GA
65 GTAAGACCATGTTTGGAACATGGCATCGGCAATGTAATGAGAGCCAGTGTAAGACCATGTCTAG-
* *
62396741 GATATGACATTAGCAT
129 GACATGACATCAGCAT
* * * * *
62396757 TGATATGTGCGCTAGTGTAAGACCATGTTTGGGACATGTCATCGACAATGAGACGAGAGCTAGTA
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACAATGATATGAGAGCTAGTG
** *
62396822 TAAGACCATGCCTGGGACATGGCATC
66 TAAGACCATGTTTGGAACATGGCATC
62396848 AGTTTCGACA
Statistics
Matches: 204, Mismatches: 27, Indels: 8
0.85 0.11 0.03
Matches are distributed among these distances:
143 4 0.02
144 199 0.98
145 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (144 bp):
TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACAATGATATGAGAGCTAGTG
TAAGACCATGTTTGGAACATGGCATCGGCAATGTAATGAGAGCCAGTGTAAGACCATGTCTAGGA
CATGACATCAGCAT
Found at i:62398613 original size:37 final size:37
Alignment explanation
Indices: 62398563--62398712 Score: 246
Period size: 37 Copynumber: 4.1 Consensus size: 37
62398553 CTTTAGCTCA
* * *
62398563 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCTG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
62398600 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
* *
62398637 GACATAATCTTCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
62398674 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
62398711 GA
1 GA
62398713 ATATATTTCC
Statistics
Matches: 107, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 107 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
Found at i:62398978 original size:47 final size:47
Alignment explanation
Indices: 62398917--62399101 Score: 280
Period size: 47 Copynumber: 3.9 Consensus size: 47
62398907 TACATATATT
** * * *
62398917 TCACATTAACCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
62398964 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
62399011 TCACATTGGCCATTTGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
**
62399058 TCACATTGGCCATTCGGCCTTATCACATATATGCACATTCACAT
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACAT
62399102 CACAATTATC
Statistics
Matches: 125, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 125 1.00
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:62399037 original size:22 final size:22
Alignment explanation
Indices: 62399010--62399085 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
62399000 GCTCACATTC
62399010 ATCACATTGGCCATTTGGCCTT
1 ATCACATTGGCCATTTGGCCTT
* ** *
62399032 ATCACATATATG-CATGTTCACATT
1 ATCACAT-T-GGCCAT-TTGGCCTT
*
62399056 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTTGGCCTT
62399079 ATCACAT
1 ATCACAT
62399086 ATATGCACAT
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 14 0.35
23 9 0.22
24 10 0.25
25 7 0.17
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTTGGCCTT
Found at i:62402421 original size:24 final size:25
Alignment explanation
Indices: 62402394--62402446 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 25
62402384 TTTTCTTAGG
62402394 CTTTAGGTTTATTTTAGTTTTTG-T
1 CTTTAGGTTTATTTTAGTTTTTGTT
*
62402418 CTTTCGGTTTATTTTAGTTTTTGTT
1 CTTTAGGTTTATTTTAGTTTTTGTT
62402443 CTTT
1 CTTT
62402447 GCTTTGTGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 22 0.81
25 5 0.19
ACGTcount: A:0.09, C:0.08, G:0.15, T:0.68
Consensus pattern (25 bp):
CTTTAGGTTTATTTTAGTTTTTGTT
Found at i:62406195 original size:43 final size:43
Alignment explanation
Indices: 62406148--62406375 Score: 280
Period size: 43 Copynumber: 5.3 Consensus size: 43
62406138 GTTTTTTAGA
* * * *
62406148 AAAAAACGCCGTTAAAGACCACGATCTTTAGCGGTGCTTTTAT
1 AAAAAACGCCGCTAAAGACCAAGAACTTTAGCGGCGCTTTTAT
* * * *
62406191 AAAAAATGCCGCTAAAGACCAGGACCTTTAGCGGCGCTCTTA-
1 AAAAAACGCCGCTAAAGACCAAGAACTTTAGCGGCGCTTTTAT
* * * * * *
62406233 AAAAAACACCGCCAAAGAACAGGACCTTTAGCGGCGCTTTTTT
1 AAAAAACGCCGCTAAAGACCAAGAACTTTAGCGGCGCTTTTAT
* **
62406276 AAAAAACGCCGCTATAGACCAAGAACTTTAGTAGCGCTTTTAT
1 AAAAAACGCCGCTAAAGACCAAGAACTTTAGCGGCGCTTTTAT
*
62406319 AAAAAACGCCGCTATAGACCAAGAACTTTAGCGGCGCTTTT-T
1 AAAAAACGCCGCTAAAGACCAAGAACTTTAGCGGCGCTTTTAT
62406361 AAAAAACGCCGCTAA
1 AAAAAACGCCGCTAA
62406376 TTTGCCCAGT
Statistics
Matches: 160, Mismatches: 24, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
42 51 0.32
43 109 0.68
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (43 bp):
AAAAAACGCCGCTAAAGACCAAGAACTTTAGCGGCGCTTTTAT
Found at i:62406295 original size:85 final size:86
Alignment explanation
Indices: 62406173--62406375 Score: 257
Period size: 85 Copynumber: 2.4 Consensus size: 86
62406163 AGACCACGAT
* * * * * *
62406173 CTTTAGCGGTGCTTTTATAAAAAATGCCGCTAAAGACCAGGACCTTTAGCGGCGCTCTTA-AAAA
1 CTTTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAGACCAAGAACTTTAGCAGCGCTCTTATAAAA
* *
62406237 AACACCGCCAAAGAACAGGAC
66 AACACCGCCAAAGAACAAGAA
* * *
62406258 CTTTAGCGGCGCTTTTTTAAAAAACGCCGCTATAGACCAAGAACTTTAGTAGCGCTTTTATAAAA
1 CTTTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAGACCAAGAACTTTAGCAGCGCTCTTATAAAA
* * * *
62406323 AACGCCGCTATAGACCAAGAA
66 AACACCGCCAAAGAACAAGAA
62406344 CTTTAGCGGCGC-TTTTTAAAAAACGCCGCTAA
1 CTTTAGCGGCGCTTTTTTAAAAAACGCCGCTAA
62406376 TTTGCCCAGT
Statistics
Matches: 101, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
85 70 0.69
86 31 0.31
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.24
Consensus pattern (86 bp):
CTTTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAGACCAAGAACTTTAGCAGCGCTCTTATAAAA
AACACCGCCAAAGAACAAGAA
Found at i:62407286 original size:18 final size:18
Alignment explanation
Indices: 62407254--62407291 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
62407244 TACAATATAG
62407254 TAGTAAAAATATTATTTAA
1 TAGTAAAAATATTA-TTAA
*
62407273 TAGTAAAAA-GTTATTAA
1 TAGTAAAAATATTATTAA
62407290 TA
1 TA
62407292 CTTGATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TAGTAAAAATATTATTAA
Found at i:62412559 original size:18 final size:21
Alignment explanation
Indices: 62412513--62412559 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
62412503 TAAAATATTT
62412513 AAATAATAATTAAGTTGAATC
1 AAATAATAATTAAGTTGAATC
*
62412534 AAATAATAATTAAGTTGAACC
1 AAATAATAATTAAGTTGAATC
62412555 AAATA
1 AAATA
62412560 TAAAAGCTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.55, C:0.06, G:0.09, T:0.30
Consensus pattern (21 bp):
AAATAATAATTAAGTTGAATC
Found at i:62414601 original size:19 final size:20
Alignment explanation
Indices: 62414577--62414616 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
62414567 GACTTCAGTT
62414577 TGCAGAAAAAAG-AATCATA
1 TGCAGAAAAAAGCAATCATA
**
62414596 TGCAGACCAAAGCAATCATA
1 TGCAGAAAAAAGCAATCATA
62414616 T
1 T
62414617 TCTACCTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.50, C:0.17, G:0.15, T:0.17
Consensus pattern (20 bp):
TGCAGAAAAAAGCAATCATA
Found at i:62416564 original size:18 final size:19
Alignment explanation
Indices: 62416527--62416565 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
62416517 AAATCATATT
62416527 TATTATTTTCATATAAAAA
1 TATTATTTTCATATAAAAA
*
62416546 TATTATTTTGATA-AAAAA
1 TATTATTTTCATATAAAAA
62416564 TA
1 TA
62416566 AAAAAGATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (19 bp):
TATTATTTTCATATAAAAA
Found at i:62418007 original size:41 final size:41
Alignment explanation
Indices: 62417594--62418000 Score: 602
Period size: 41 Copynumber: 9.9 Consensus size: 41
62417584 TTATATAACT
* *
62417594 TTTAGTGGCGTTTTAGCAAAAGTGCCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTAGCAAAAGCGCCGCTAATGCTCTGGTC
*
62417635 TTTAGCGGCGTTTTAGCAAAAGCGCCGCTAATGCTCTAGTC
1 TTTAGCGGCGTTTTAGCAAAAGCGCCGCTAATGCTCTGGTC
62417676 TTTAGCGGCGTTTTAGCAAAAGCGCCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTAGCAAAAGCGCCGCTAATGCTCTGGTC
* *
62417717 TTTAGCGGCGTTTTAGCAAAAGCTCCGCTAATGCTCAGGTC
1 TTTAGCGGCGTTTTAGCAAAAGCGCCGCTAATGCTCTGGTC
*
62417758 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTAGCAAAAGCGCCGCTAATGCTCTGGTC
62417799 TTTAGCGGCGTTTTAGCAAAAGCGCCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTAGCAAAAGCGCCGCTAATGCTCTGGTC
* * *
62417840 TTTAGTGGCGTTTTACCAAAAGCGCCGCTAATGCTCAGGTC
1 TTTAGCGGCGTTTTAGCAAAAGCGCCGCTAATGCTCTGGTC
* * *
62417881 TTTAGCGGCGTTTTACCAAAAGTGCCGCTAATGCTCTGGTA
1 TTTAGCGGCGTTTTAGCAAAAGCGCCGCTAATGCTCTGGTC
* * * * *
62417922 TTTAGCGGCGTTTTAACAGAAAACGCCGCTATTGCTC-AGTT
1 TTTAGCGGCGTTTTAGCA-AAAGCGCCGCTAATGCTCTGGTC
* * *
62417963 TTTAGCGGCGTTTTTGTTAAAA-CGCCGCTATTGCTCTG
1 TTTAGCGGCGTTTTAG-CAAAAGCGCCGCTAATGCTCTG
62418001 TGTTTTACAA
Statistics
Matches: 336, Mismatches: 27, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
40 14 0.04
41 306 0.91
42 16 0.05
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.31
Consensus pattern (41 bp):
TTTAGCGGCGTTTTAGCAAAAGCGCCGCTAATGCTCTGGTC
Found at i:62425538 original size:28 final size:28
Alignment explanation
Indices: 62425506--62425583 Score: 120
Period size: 28 Copynumber: 2.8 Consensus size: 28
62425496 TCAAATATGA
*
62425506 CACTTAGTGTGTGAAATATTGAGAATGG
1 CACTTAGTGTGCGAAATATTGAGAATGG
* *
62425534 CACTTTGTGTGCGAGATATTGAGAATGG
1 CACTTAGTGTGCGAAATATTGAGAATGG
*
62425562 CATTTAGTGTGCGAAATATTGA
1 CACTTAGTGTGCGAAATATTGA
62425584 ATGATTCAAC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.29, C:0.09, G:0.28, T:0.33
Consensus pattern (28 bp):
CACTTAGTGTGCGAAATATTGAGAATGG
Found at i:62432058 original size:50 final size:50
Alignment explanation
Indices: 62431878--62432064 Score: 194
Period size: 51 Copynumber: 3.7 Consensus size: 50
62431868 TGAGAACACA
* * *** *
62431878 TGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATTGTTTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TG-GTTAGGTCACG
* * * * ** * *
62431930 TGTGTAGTACTAAGTGCAGACTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GGTTAGGTCACG
* * *
62431981 TGTGTAGTACTAAGTGCAGGCTGCTACGTGTATCAGATGGTTAGGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACG
62432031 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACC
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACC
62432065 TGATTGTTGG
Statistics
Matches: 110, Mismatches: 24, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
50 39 0.35
51 41 0.37
52 30 0.27
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.33
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACG
Found at i:62432064 original size:101 final size:103
Alignment explanation
Indices: 62431878--62432064 Score: 270
Period size: 101 Copynumber: 1.8 Consensus size: 103
62431868 TGAGAACACA
* * * *
62431878 TGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATTGTTTTAGGTCACGTGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAGATTGTGTTAGGTCACGTGTGTAGTACTAA
*
62431943 GTGCAGACTACTATGCGTACCCGATAACTTCGATCACG
66 GTGCAGACTACTACGCGTACCCGATAACTTCGATCACG
* * *
62431981 TGTGTAGTACTAAGTGCAGGCTGCTACGTGTATCAGA-TG-GTTAGGTCATGTGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAGATTGTGTTAGGTCACGTGTGTAGTACTAA
* *
62432044 GTGCAGGCTACTACGTGTACC
66 GTGCAGACTACTACGCGTACC
62432065 TGATTGTTGG
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
101 40 0.54
102 2 0.03
103 32 0.43
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.33
Consensus pattern (103 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAGATTGTGTTAGGTCACGTGTGTAGTACTAA
GTGCAGACTACTACGCGTACCCGATAACTTCGATCACG
Found at i:62432327 original size:16 final size:15
Alignment explanation
Indices: 62432306--62432335 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
62432296 GAATGGAGTA
62432306 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
62432322 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
62432336 TAAAATAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:62443630 original size:45 final size:42
Alignment explanation
Indices: 62443594--62443746 Score: 146
Period size: 45 Copynumber: 3.6 Consensus size: 42
62443584 TGCGTTCCCC
62443594 TGTAAGACCATGTCTGGGACATTGGCATCGATATATGTGGTTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATA--TGGTT-CA
* * * *
62443639 TGTAAGACCATGTCTGGGACATCGGCATCG-TATTTGATTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATATGGTTCA
* * * * * *
62443680 TGTAAGACCCTGCCTGGGACAGTGGCATCGATATGTGATAGCA
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATATGGT-TCA
* * *
62443723 TGCAAGACCACGTTTGGGACATTG
1 TGTAAGACCATGTCTGGGACATTG
62443747 TCATTGTACG
Statistics
Matches: 89, Mismatches: 17, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
41 27 0.30
42 11 0.12
43 19 0.21
44 3 0.03
45 29 0.33
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATATATGGTTCA
Found at i:62443697 original size:41 final size:42
Alignment explanation
Indices: 62443594--62443744 Score: 155
Period size: 41 Copynumber: 3.5 Consensus size: 42
62443584 TGCGTTCCCC
*
62443594 TGTAAGACCATGTCTGGGACATTGGCATCGATATATGTGGTTACA
1 TGTAAGACCATGTCTGGGACA-TGGCATCGATAT-T-TGATTACA
*
62443639 TGTAAGACCATGTCTGGGACATCGGCATCG-TATTTGATT-CG
1 TGTAAGACCATGTCTGGGACAT-GGCATCGATATTTGATTACA
* * *
62443680 TGTAAGACCCTGCCTGGGACAGTGGCATCGATATGTGA-TAGCA
1 TGTAAGACCATGTCTGGGACA-TGGCATCGATATTTGATTA-CA
* * *
62443723 TGCAAGACCACGTTTGGGACAT
1 TGTAAGACCATGTCTGGGACAT
62443745 TGTCATTGTA
Statistics
Matches: 90, Mismatches: 11, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
41 28 0.31
42 12 0.13
43 18 0.20
44 4 0.04
45 28 0.31
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATGGCATCGATATTTGATTACA
Found at i:62451024 original size:43 final size:44
Alignment explanation
Indices: 62450921--62451024 Score: 124
Period size: 42 Copynumber: 2.4 Consensus size: 44
62450911 GTCCCGGTTG
* **
62450921 TGGTCTTACATGTAATTCAATATCGATGCCTCTGTTCCTAGACA
1 TGGTCTTACATGTAAATCAATATCGATGCCGATGTTCCTAGACA
*
62450965 GGGTCTTACATG-AAATCAGATAT-GATGCCGATG-TCCTAGACA
1 TGGTCTTACATGTAAATCA-ATATCGATGCCGATGTTCCTAGACA
* *
62451007 TGGTCTTATACGTAAATC
1 TGGTCTTACATGTAAATC
62451025 TCAATCGAGG
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
42 18 0.35
43 18 0.35
44 15 0.29
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (44 bp):
TGGTCTTACATGTAAATCAATATCGATGCCGATGTTCCTAGACA
Found at i:62451269 original size:27 final size:27
Alignment explanation
Indices: 62451231--62451286 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
62451221 TTGTAATTTG
62451231 ACTTACCTTGGACGGATTTCGGATAAA
1 ACTTACCTTGGACGGATTTCGGATAAA
62451258 ACTTACCTTGGACGGATTTCGGATAAA
1 ACTTACCTTGGACGGATTTCGGATAAA
62451285 AC
1 AC
62451287 GAGTCGTCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (27 bp):
ACTTACCTTGGACGGATTTCGGATAAA
Found at i:62456343 original size:43 final size:43
Alignment explanation
Indices: 62456267--62456367 Score: 121
Period size: 43 Copynumber: 2.3 Consensus size: 43
62456257 ACGAACTTGC
* * * * *
62456267 ACACTTAGTGCCGATTAATTAGCTAAAGCTATAATTGTATCGA
1 ACACTTAGTGCCAATTAATTAGCCAAAGATATAATTGCACCGA
* * *
62456310 ACACTTAGTGCCAATTAATTAGCCGAGGATATAATTGCACCGC
1 ACACTTAGTGCCAATTAATTAGCCAAAGATATAATTGCACCGA
*
62456353 ACACTTAGTGGCAAT
1 ACACTTAGTGCCAAT
62456368 ACATTAAACT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.29
Consensus pattern (43 bp):
ACACTTAGTGCCAATTAATTAGCCAAAGATATAATTGCACCGA
Found at i:62465212 original size:22 final size:22
Alignment explanation
Indices: 62465185--62465307 Score: 58
Period size: 22 Copynumber: 5.3 Consensus size: 22
62465175 ATGTGCATAT
62465185 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * *
62465207 ATGTGATGAATG-TGAACAT-GCATA
1 ATGTGAT-AAGGCCG-A-ATGGC-CA
*
62465231 TATGTGATAAGGCCAAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
* *
62465254 ATGTGATGAATGTG-AGCAT-G-CA
1 ATGTGAT-AA-G-GCCGAATGGCCA
62465276 TATGTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGGCCGAATGGCCA
62465301 ATGTGAT
1 ATGTGAT
62465308 GAATATGAAC
Statistics
Matches: 73, Mismatches: 12, Indels: 32
0.62 0.10 0.27
Matches are distributed among these distances:
22 24 0.33
23 17 0.23
24 16 0.22
25 16 0.22
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:62465229 original size:47 final size:47
Alignment explanation
Indices: 62465169--62465353 Score: 289
Period size: 47 Copynumber: 3.9 Consensus size: 47
62465159 GATAATTGTG
**
62465169 ATGTGAATGTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
*
62465216 ATGTGAACATGCATATATGTGATAAGGCCAAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* *
62465263 ATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* * * *
62465310 ATATGAACATGCATATATGTGGTAAAGCCGAATGGCTAATGTGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGA
62465354 AATATATGTA
Statistics
Matches: 126, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 126 1.00
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
Found at i:62465613 original size:37 final size:37
Alignment explanation
Indices: 62465558--62465707 Score: 246
Period size: 37 Copynumber: 4.1 Consensus size: 37
62465548 GGAAATATAT
*
62465558 TCCGGGTAAGACCTGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
62465595 TCCGGGTAAGACCCGATGACTACGTGTGAAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
62465632 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
62465669 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
62465706 TC
1 TC
62465708 TGAGCTAAAG
Statistics
Matches: 107, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 107 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:62468557 original size:44 final size:44
Alignment explanation
Indices: 62468492--62468578 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
62468482 TTGATATCTC
* * *
62468492 AGAGTCCATGGTTGTACCATGGCAATTAGGGAAGAATTGACGGA
1 AGAGTCCATGGTTATAACATGGCAATTAAGGAAGAATTGACGGA
* *
62468536 AGAGTCCAT-GTTCATAACATGGCATTTAAGGAGGAATTGACGG
1 AGAGTCCATGGTT-ATAACATGGCAATTAAGGAAGAATTGACGG
62468579 TTAAGGATAC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
43 3 0.08
44 34 0.92
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.24
Consensus pattern (44 bp):
AGAGTCCATGGTTATAACATGGCAATTAAGGAAGAATTGACGGA
Found at i:62468774 original size:47 final size:47
Alignment explanation
Indices: 62468715--62468836 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
62468705 GCATCAGCAT
*
62468715 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTAGG
*
62468762 TAAGACAAGGATACCATGTAAGACCATATTTGGAACATGACATTAGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTAGG
* *
62468809 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
62468837 CCAAGGCATG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTAGG
Found at i:62469798 original size:44 final size:44
Alignment explanation
Indices: 62469680--62469813 Score: 170
Period size: 44 Copynumber: 3.1 Consensus size: 44
62469670 TTAAAAACCT
* *
62469680 GAAT-TCAT-TCACCGGCATT-TCGCCTGCTAGGCTCGAAGCCC
1 GAATATCATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCC
*
62469721 G-ATATCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCC
1 GAATATCATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCC
* *
62469764 GAATAGT-ATCTCACTGGCATTATAGCTTGCTAGGCTCAAAGGCCC
1 GAATA-TCATCTCACCGGCATTATAGCCTGCTAGGCTCAAA-GCCC
62469809 GAATA
1 GAATA
62469814 ATACTGTGCG
Statistics
Matches: 82, Mismatches: 5, Indels: 8
0.86 0.05 0.08
Matches are distributed among these distances:
40 2 0.02
41 5 0.06
42 11 0.13
43 21 0.26
44 33 0.40
45 10 0.12
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (44 bp):
GAATATCATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCC
Found at i:62470681 original size:47 final size:47
Alignment explanation
Indices: 62470625--62470767 Score: 241
Period size: 47 Copynumber: 3.0 Consensus size: 47
62470615 AAAATTTTCT
*
62470625 TTAACTAAGTAACTTATCTAGAAATAATAAGGGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCTAGAAATATTAAGGGCAAATTTAACAAGC
**
62470672 TTAACTAAGTAACTTATCCGGAAATATTAAGGGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCTAGAAATATTAAGGGCAAATTTAACAAGC
* *
62470719 TTAACTAAGTAACTTACCTAGAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCTAGAAATATTAAGGGCAAATTTAACAAGC
62470766 TT
1 TT
62470768 TAAATTCAAC
Statistics
Matches: 89, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 89 1.00
ACGTcount: A:0.45, C:0.14, G:0.13, T:0.29
Consensus pattern (47 bp):
TTAACTAAGTAACTTATCTAGAAATATTAAGGGCAAATTTAACAAGC
Found at i:62473488 original size:64 final size:64
Alignment explanation
Indices: 62473407--62473578 Score: 177
Period size: 67 Copynumber: 2.7 Consensus size: 64
62473397 AGACATTATG
* *
62473407 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * * *
62473471 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGTTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGATACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
62473536 AA
63 AA
* * * *
62473538 AT-TGGCTAGGTCACATGGGTGATATTGA-GTGTTCACCATGT
1 ATGTAGCTAGGTCGCATGGGTGATACT-ATGTGTACACCATGT
62473579 GTGCAAGAGA
Statistics
Matches: 85, Mismatches: 19, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
63 9 0.11
64 25 0.29
66 19 0.22
67 32 0.38
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:62475734 original size:12 final size:12
Alignment explanation
Indices: 62475717--62475792 Score: 91
Period size: 12 Copynumber: 6.3 Consensus size: 12
62475707 AAGAAACATT
62475717 ATCAAAA-CTAGA
1 ATCAAAATC-AGA
*
62475729 ATCAAAATGAGA
1 ATCAAAATCAGA
62475741 ATCAAAATCAGA
1 ATCAAAATCAGA
*
62475753 ATCAGAATCAGA
1 ATCAAAATCAGA
*
62475765 ATCAGAATCAGA
1 ATCAAAATCAGA
* *
62475777 ATCAGAATTAGA
1 ATCAAAATCAGA
62475789 ATCA
1 ATCA
62475793 GAATTAGGTG
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
12 59 1.00
ACGTcount: A:0.54, C:0.14, G:0.13, T:0.18
Consensus pattern (12 bp):
ATCAAAATCAGA
Found at i:62475755 original size:6 final size:6
Alignment explanation
Indices: 62475726--62475846 Score: 113
Period size: 6 Copynumber: 19.8 Consensus size: 6
62475716 TATCAAAACT
* * *
62475726 AGAATC AAAATG AGAATC AAAATC AGAATC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
* * * *
62475774 AGAATC AGAATT AGAATC AGAATT AG-GTGAC AGAATT AGAATC A-ATATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGA-ATC
62475823 AGGTAA-C AGAATC AGAATC AGAAT
1 A-G-AATC AGAATC AGAATC AGAAT
62475847 GTGAATGAAA
Statistics
Matches: 93, Mismatches: 14, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
5 4 0.04
6 82 0.88
7 4 0.04
8 2 0.02
9 1 0.01
ACGTcount: A:0.50, C:0.12, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:62475813 original size:25 final size:25
Alignment explanation
Indices: 62475738--62475846 Score: 111
Period size: 25 Copynumber: 4.4 Consensus size: 25
62475728 AATCAAAATG
* *
62475738 AGAATCAAAATCA-G-AATCAGAATC
1 AGAATCAGAATCAGGTAA-CAGAATT
62475762 AGAATCAGAATCA-G-AATCAGAATT
1 AGAATCAGAATCAGGTAA-CAGAATT
* *
62475786 AGAATCAGAATTAGGTGACAGAATT
1 AGAATCAGAATCAGGTAACAGAATT
*
62475811 AGAATCA-ATATCAGGTAACAGAATC
1 AGAATCAGA-ATCAGGTAACAGAATT
62475836 AGAATCAGAAT
1 AGAATCAGAAT
62475847 GTGAATGAAA
Statistics
Matches: 74, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
24 35 0.47
25 37 0.50
26 2 0.03
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (25 bp):
AGAATCAGAATCAGGTAACAGAATT
Found at i:62476001 original size:27 final size:26
Alignment explanation
Indices: 62475964--62476071 Score: 117
Period size: 27 Copynumber: 4.0 Consensus size: 26
62475954 AGCATGGCTG
* *
62475964 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
* * *
62475990 CCAGATACAGATATTATGGTAGAGCCT
1 CCAGA-ACAGATATTGTGGCAGAGCCA
*
62476017 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
* *
62476044 CCAGAAACAGATAATGTGGCAAAGCCA
1 CCAG-AACAGATATTGTGGCAGAGCCA
62476071 C
1 C
62476072 TTAACAAAAT
Statistics
Matches: 68, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
26 12 0.18
27 48 0.71
28 8 0.12
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:62476712 original size:27 final size:27
Alignment explanation
Indices: 62476682--62476823 Score: 212
Period size: 27 Copynumber: 5.3 Consensus size: 27
62476672 GAGGCAAAAT
* * *
62476682 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
62476709 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
62476736 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
62476763 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
62476790 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
62476817 AGTAATT
1 GGTAATT
62476824 TTGTAAATCT
Statistics
Matches: 103, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 103 1.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:62476837 original size:27 final size:27
Alignment explanation
Indices: 62476807--62477115 Score: 281
Period size: 27 Copynumber: 11.5 Consensus size: 27
62476797 CTACCCTACA
** **
62476807 AGGGTATTTCAGTAATTTTGTAAATCT
1 AGGGTATTTTGGTAATTTTACAAATCT
* * *
62476834 AGGG-ACTTTGGTAATTTTACAAGTCG
1 AGGGTATTTTGGTAATTTTACAAATCT
*** * * *
62476860 AGGGTATTTCAATAATTTTACTAGTCG
1 AGGGTATTTTGGTAATTTTACAAATCT
* * *
62476887 AGGGTATTTTAGTAATTTCACAAAT-A
1 AGGGTATTTTGGTAATTTTACAAATCT
62476913 AGGGGTATTTTGGTAATTTTACAAA-CT
1 A-GGGTATTTTGGTAATTTTACAAATCT
* *
62476940 AGGGGTATTTTGGTAATTTTACAAACCA
1 A-GGGTATTTTGGTAATTTTACAAATCT
* * * *
62476968 ATGGTATTTTGGTAATTTTATAAACCA
1 AGGGTATTTTGGTAATTTTACAAATCT
*
62476995 AGGGTATTTTAGTAATTTTACAAA-CT
1 AGGGTATTTTGGTAATTTTACAAATCT
*
62477021 AAGGGTATTTGGGTAATTTTACAAA-CT
1 -AGGGTATTTTGGTAATTTTACAAATCT
**
62477048 AGGGGTATTTTGGTAATTTT-GTAATCT
1 A-GGGTATTTTGGTAATTTTACAAATCT
62477075 AAGGGTATTTTGGTAATTTTACAAA-CT
1 -AGGGTATTTTGGTAATTTTACAAATCT
62477102 AGGGGTATTTTGGT
1 A-GGGTATTTTGGT
62477116 GACTTGGTAA
Statistics
Matches: 237, Mismatches: 35, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
26 25 0.11
27 207 0.87
28 5 0.02
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTACAAATCT
Found at i:62476949 original size:81 final size:79
Alignment explanation
Indices: 62476752--62477111 Score: 330
Period size: 81 Copynumber: 4.5 Consensus size: 79
62476742 TCTACCCTAC
* * ** * **
62476752 AAGGGTATTTCGGTAATTCTACCCTAC-AGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTT
1 AAGGGTATTTTGGTAATTTTA-CAAACTAGGGGTATTTCGGTAATTTTA-CAAACAAGGGTATTT
** *
62476816 CAGTAATTTTGTAAAT
64 TGGTAATTTTATAAAT
* * * * ** ** *
62476832 CTAGGG-ACTTTGGTAATTTTAC-AAGTCGAGGGTATTTCAATAATTTTACTAGTCGAGGGTATT
1 -AAGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTCGGTAATTTTAC-AAACAAGGGTATT
* * *
62476895 TTAGTAATTTCACAAAT
63 TTGGTAATTTTATAAAT
* *
62476912 AAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAATGGTATTT
1 AA-GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTTACAAA-CAAGGGTATTT
*
62476977 TGGTAATTTTATAAACC
64 TGGTAATTTTATAAA-T
* * * *
62476994 AAGGGTATTTTAGTAATTTTACAAACTAAGGGTATTTGGGTAATTTTACAAACTAGGGGTATTTT
1 AAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTTACAAAC-AAGGGTATTTT
* *
62477059 GGTAATTTTGTAATCT
65 GGTAATTTTATAA-AT
62477075 AAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTT
1 AAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTT
62477112 TGGTGACTTG
Statistics
Matches: 226, Mismatches: 43, Indels: 20
0.78 0.15 0.07
Matches are distributed among these distances:
78 1 0.00
79 4 0.02
80 55 0.24
81 160 0.71
82 6 0.03
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (79 bp):
AAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTTACAAACAAGGGTATTTTG
GTAATTTTATAAAT
Found at i:62477113 original size:54 final size:54
Alignment explanation
Indices: 62476888--62477115 Score: 332
Period size: 54 Copynumber: 4.2 Consensus size: 54
62476878 TACTAGTCGA
* *
62476888 GGGTATTTTAGTAATTTCACAAA-TAAGGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAA-GGGTATTTTGGTAATTTTACAAACTAG
* * * * *
62476942 GGGTATTTTGGTAATTTTACAAACCAATGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAACTAG
* *
62476996 GGGTATTTTAGTAATTTTACAAACTAAGGGTATTTGGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAACTAG
** *
62477050 GGGTATTTTGGTAATTTTGTAATCTAAGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAACTAG
62477104 GGGTATTTTGGT
1 GGGTATTTTGGT
62477116 GACTTGGTAA
Statistics
Matches: 154, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
54 152 0.99
55 2 0.01
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.41
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAACTAG
Found at i:62478668 original size:42 final size:42
Alignment explanation
Indices: 62478609--62478730 Score: 165
Period size: 43 Copynumber: 2.9 Consensus size: 42
62478599 TTAGGGTTAC
62478609 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
* * * *
62478651 TGAGACTT-CGTGTAAGACCATAGCTAGGCTATTTGCATCGATA
1 TGAGA-TTACGTGTAAGACCATATCTGGGATA-TGGCATCGATA
* *
62478694 CGAGATTACATGTAAGACCATATCTGGGATATGGCAT
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCAT
62478731 TGGTATGGTA
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
42 32 0.48
43 35 0.52
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:62481586 original size:17 final size:18
Alignment explanation
Indices: 62481559--62481604 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
62481549 CTGCATCTGC
* *
62481559 ACACATAAATTAA-TTCA
1 ACACATTAATTAATTTAA
*
62481576 GCACATTAATTAATTTAA
1 ACACATTAATTAATTTAA
62481594 ACACATTAATT
1 ACACATTAATT
62481605 TCGGCTGCTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.48, C:0.15, G:0.02, T:0.35
Consensus pattern (18 bp):
ACACATTAATTAATTTAA
Found at i:62487174 original size:11 final size:11
Alignment explanation
Indices: 62487160--62487199 Score: 71
Period size: 11 Copynumber: 3.6 Consensus size: 11
62487150 TTTGAATTCT
62487160 TTTTTTTTGAA
1 TTTTTTTTGAA
*
62487171 TTTTTTTCGAA
1 TTTTTTTTGAA
62487182 TTTTTTTTGAA
1 TTTTTTTTGAA
62487193 TTTTTTT
1 TTTTTTT
62487200 AATGTACTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.15, C:0.03, G:0.07, T:0.75
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:62487189 original size:15 final size:15
Alignment explanation
Indices: 62487145--62487177 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
62487135 AAAACACCTC
62487145 TTTTTTTTGAATTCT
1 TTTTTTTTGAATTCT
62487160 TTTTTTTTGAATT-T
1 TTTTTTTTGAATTCT
62487174 TTTT
1 TTTT
62487178 CGAATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.12, C:0.03, G:0.06, T:0.79
Consensus pattern (15 bp):
TTTTTTTTGAATTCT
Found at i:62491686 original size:20 final size:20
Alignment explanation
Indices: 62491620--62491686 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
62491610 ATTTTGATAA
*
62491620 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* * *
62491640 ATATGACATGTATAATATGC
1 ACATGATATGTATGATATGC
62491660 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
62491680 ACATGAT
1 ACATGAT
62491687 GTACTCATAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Done.