Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 104 of 240
Found at i:32095351 original size:9 final size:9
Alignment explanation
Indices: 32095337--32095403 Score: 66
Period size: 9 Copynumber: 7.4 Consensus size: 9
32095327 GTAGTGATTC
32095337 AATTCGGTT
1 AATTCGGTT
*
32095346 AATTCGGGT
1 AATTCGGTT
* *
32095355 AATCCGATT
1 AATTCGGTT
32095364 AATTCGGTT
1 AATTCGGTT
*
32095373 AATTTTGG-T
1 AA-TTCGGTT
32095382 AATTCGAG-T
1 AATTCG-GTT
32095391 AATTCGGTT
1 AATTCGGTT
32095400 AATT
1 AATT
32095404 TTTAACCAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
8 4 0.09
9 39 0.83
10 4 0.09
ACGTcount: A:0.27, C:0.10, G:0.21, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:32095404 original size:27 final size:27
Alignment explanation
Indices: 32095337--32095405 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 27
32095327 GTAGTGATTC
** *
32095337 AATTCGGTTAATTCGGGTAATCCGATT
1 AATTCGGTTAATTTTGGTAATCCGAGT
*
32095364 AATTCGGTTAATTTTGGTAATTCGAGT
1 AATTCGGTTAATTTTGGTAATCCGAGT
32095391 AATTCGGTTAATTTT
1 AATTCGGTTAATTTT
32095406 TAACCAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.26, C:0.10, G:0.20, T:0.43
Consensus pattern (27 bp):
AATTCGGTTAATTTTGGTAATCCGAGT
Found at i:32097763 original size:17 final size:17
Alignment explanation
Indices: 32097709--32097765 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 17
32097699 TGTGTATTTG
32097709 AAATATTTCACATATAA
1 AAATATTTCACATATAA
* * * **
32097726 ACATAATT-ATAT-TTG
1 AAATATTTCACATATAA
32097741 AAATATTTCACATATAA
1 AAATATTTCACATATAA
32097758 AAATATTT
1 AAATATTT
32097766 GAAATATCAT
Statistics
Matches: 28, Mismatches: 10, Indels: 4
0.67 0.24 0.10
Matches are distributed among these distances:
15 7 0.25
16 6 0.21
17 15 0.54
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (17 bp):
AAATATTTCACATATAA
Found at i:32097763 original size:26 final size:30
Alignment explanation
Indices: 32097703--32097772 Score: 94
Period size: 32 Copynumber: 2.4 Consensus size: 30
32097693 TTTGTATGTG
32097703 TATTTGAAATATTTCACATATAAACATAATTA
1 TATTTGAAATATTTCACATAT-AACATAA-TA
32097735 TATTTGAAATATTTCACATAT-A-A-AA-A
1 TATTTGAAATATTTCACATATAACATAATA
32097761 TATTTGAAATAT
1 TATTTGAAATAT
32097773 CATACTCACA
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
26 13 0.34
28 2 0.05
29 1 0.03
30 1 0.03
32 21 0.55
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.41
Consensus pattern (30 bp):
TATTTGAAATATTTCACATATAACATAATA
Found at i:32098838 original size:14 final size:15
Alignment explanation
Indices: 32098816--32098892 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
32098806 CAATCAAACA
32098816 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
32098830 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
32098845 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
32098865 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
32098879 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
32098893 ACTCTCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:32098857 original size:20 final size:20
Alignment explanation
Indices: 32098832--32098871 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
32098822 AATATTTTCC
*
32098832 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
32098852 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
32098872 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:32098877 original size:34 final size:35
Alignment explanation
Indices: 32098820--32098886 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
32098810 CAAACACCAG
*
32098820 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
32098855 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
32098887 TATTTTACTC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:32102189 original size:67 final size:71
Alignment explanation
Indices: 32102117--32102249 Score: 184
Period size: 73 Copynumber: 1.9 Consensus size: 71
32102107 TGTTTTACAT
*
32102117 ATATTAATATACATAT-T-AATAATTTTT-C-TATTAAGCACATTTCTCTTTAAATTTTCTATTA
1 ATATTAATATACATATATGAATAATTTTTACATATTAAGCACATTTCTCTTTAAAATTTCTATTA
32102178 CTATAC
66 CTATAC
* * *
32102184 ATATTAATATACATATATGATTTATTTTTACATATATTAAGCACCTTTCTCTTTAAAATTTCTAT
1 ATATTAATATACATATATGAATAATTTTTAC--ATATTAAGCACATTTCTCTTTAAAATTTCTAT
32102249 T
64 T
32102250 TGTACCTACC
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
67 16 0.29
68 1 0.02
69 8 0.14
70 1 0.02
73 30 0.54
ACGTcount: A:0.35, C:0.13, G:0.02, T:0.50
Consensus pattern (71 bp):
ATATTAATATACATATATGAATAATTTTTACATATTAAGCACATTTCTCTTTAAAATTTCTATTA
CTATAC
Found at i:32102719 original size:14 final size:14
Alignment explanation
Indices: 32102696--32102731 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
32102686 AAATTGAAGA
*
32102696 AGGAGAAGCACGGT
1 AGGAGGAGCACGGT
32102710 AGGAGGAGCACGGT
1 AGGAGGAGCACGGT
32102724 AGGAGGAG
1 AGGAGGAG
32102732 GAAAGATATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.11, G:0.50, T:0.06
Consensus pattern (14 bp):
AGGAGGAGCACGGT
Found at i:32106348 original size:43 final size:43
Alignment explanation
Indices: 32106287--32106369 Score: 148
Period size: 43 Copynumber: 1.9 Consensus size: 43
32106277 ATCAAATATG
*
32106287 TTAGTTATTCATTTCATGTAAACATCAATAACAAAGATGAGCT
1 TTAGTTATTCATATCATGTAAACATCAATAACAAAGATGAGCT
*
32106330 TTAGTTATTCATATCATGTAAACATCAATAACAAATATGA
1 TTAGTTATTCATATCATGTAAACATCAATAACAAAGATGA
32106370 ACTCATCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (43 bp):
TTAGTTATTCATATCATGTAAACATCAATAACAAAGATGAGCT
Found at i:32106647 original size:25 final size:24
Alignment explanation
Indices: 32106618--32106669 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
32106608 AGCATATAAA
32106618 GGGAAGCTCACAAACAACACTTAAC
1 GGGAAGCTC-CAAACAACACTTAAC
* * *
32106643 GGGAAGCTCCGAAGAGCACTTAAC
1 GGGAAGCTCCAAACAACACTTAAC
32106667 GGG
1 GGG
32106670 TAGCACCGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.37, C:0.25, G:0.27, T:0.12
Consensus pattern (24 bp):
GGGAAGCTCCAAACAACACTTAAC
Found at i:32109703 original size:22 final size:23
Alignment explanation
Indices: 32109673--32109723 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
32109663 AATATTATTA
*
32109673 ATTAATTTAATTCGATT-TT-AAT
1 ATTATTTTAATT-GATTATTAAAT
*
32109695 ATTATTTTAATTGGTTATTAAAT
1 ATTATTTTAATTGATTATTAAAT
32109718 ATTATT
1 ATTATT
32109724 ATTTGTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 3 0.12
22 13 0.52
23 9 0.36
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (23 bp):
ATTATTTTAATTGATTATTAAAT
Found at i:32110408 original size:24 final size:25
Alignment explanation
Indices: 32110362--32110409 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
32110352 TTTTTCCATT
32110362 ATTCGAATTTTAAAAATTCAACTCG
1 ATTCGAATTTTAAAAATTCAACTCG
32110387 ATTCGAA-TTTAAAAGATT-AACTC
1 ATTCGAATTTTAAAA-ATTCAACTC
32110410 AAAAAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (25 bp):
ATTCGAATTTTAAAAATTCAACTCG
Found at i:32117484 original size:18 final size:16
Alignment explanation
Indices: 32117452--32117493 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 16
32117442 AATCATTATT
32117452 TAATTAATTTAATATC
1 TAATTAATTTAATATC
32117468 TAATTATATTGTAATAT-
1 TAATTA-ATT-TAATATC
32117485 TAACTTAAT
1 TAA-TTAAT
32117494 CAATAATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 6 0.26
17 8 0.35
18 9 0.39
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (16 bp):
TAATTAATTTAATATC
Found at i:32119022 original size:13 final size:15
Alignment explanation
Indices: 32118978--32119026 Score: 50
Period size: 14 Copynumber: 3.3 Consensus size: 15
32118968 ACAAATTTTT
*
32118978 ATAAAATATAT-TAA
1 ATAATATATATATAA
32118992 A-AACTATATATATAA
1 ATAA-TATATATATAA
32119007 ATAATATA-ATATAA
1 ATAATATATATATAA
32119021 TATAAT
1 -ATAAT
32119027 TTACTTGTGA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 2 0.07
14 13 0.43
15 13 0.43
16 2 0.07
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (15 bp):
ATAATATATATATAA
Found at i:32119706 original size:15 final size:16
Alignment explanation
Indices: 32119686--32119729 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 16
32119676 CTAAAAATTT
32119686 TAAAAATAT-TAAAAA
1 TAAAAATATATAAAAA
*
32119701 TAAAAATTTATAAAAA
1 TAAAAATATATAAAAA
*
32119717 TTCAAAATATATA
1 -TAAAAATATATA
32119730 TGTAAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 8 0.33
16 6 0.25
17 10 0.42
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (16 bp):
TAAAAATATATAAAAA
Found at i:32119710 original size:23 final size:24
Alignment explanation
Indices: 32119677--32119725 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
32119667 ACAATAATTC
32119677 TAAAAATTTTA-AAAATATTAAAAA
1 TAAAAATTTTATAAAA-ATTAAAAA
*
32119701 TAAAAA-TTTATAAAAATTCAAAA
1 TAAAAATTTTATAAAAATTAAAAA
32119724 TA
1 TA
32119726 TATATGTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (24 bp):
TAAAAATTTTATAAAAATTAAAAA
Found at i:32119723 original size:24 final size:24
Alignment explanation
Indices: 32119677--32119723 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
32119667 ACAATAATTC
*
32119677 TAAAAATTTTAAAAATATTAAAAA
1 TAAAAATTTTAAAAATATCAAAAA
32119701 TAAAAATTTATAAAAAT-TCAAAA
1 TAAAAATTT-TAAAAATATCAAAA
32119724 TATATATGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (24 bp):
TAAAAATTTTAAAAATATCAAAAA
Found at i:32122570 original size:43 final size:42
Alignment explanation
Indices: 32122497--32122719 Score: 293
Period size: 42 Copynumber: 5.2 Consensus size: 42
32122487 ACGTCGCTAA
* *
32122497 CTTTTGCGGCGCTTACAGAAAAAAATGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTA-AG-AAAAAACGCCGCTAAAGATCATGTT
* *
32122541 CTTTAGTGGCGCTAAAGAAATAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAAGAAA-AAACGCCGCTAAAGATCATGTT
* *
32122584 CTTTAGCAGCGCTTACGAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAAG-AAAAAACGCCGCTAAAGATCATGTT
* * **
32122627 TTTTAGTGGCGCTTGGGAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAAGAAAAAACGCCGCTAAAGATCATGTT
* **
32122669 CTTTAGCGGCTCTTGGGAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAAGAAAAAACGCCGCTAAAGATCATGTT
32122711 CTTTAGCGG
1 CTTTAGCGG
32122720 ATGATCTTTA
Statistics
Matches: 161, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
42 76 0.47
43 70 0.43
44 15 0.09
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.26
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAAGAAAAAACGCCGCTAAAGATCATGTT
Found at i:32122671 original size:85 final size:86
Alignment explanation
Indices: 32122505--32122716 Score: 320
Period size: 86 Copynumber: 2.5 Consensus size: 86
32122495 AACTTTTGCG
*
32122505 GCGCTTACAGAAAAAAATGCCGCTAAAGATCATGTTCTTTAGTGGCGCTAAAGAAATAAACGCCG
1 GCGCTTAC-GAAAAAAACGCCGCTAAAGATCATGTTCTTTAGTGGCGCTAAAGAAATAAACGCCG
32122570 CTAAAGATCATGTTCTTTAGCA
65 CTAAAGATCATGTTCTTTAGCA
* ***
32122592 GCGCTTACGAAAAAAACGCCGCTAAAGATCATGTTTTTTAGTGGCGCTTGGGAAA-AAACGCCGC
1 GCGCTTACGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGTGGCGCTAAAGAAATAAACGCCGC
*
32122656 TAAAGATCATGTTCTTTAGCG
66 TAAAGATCATGTTCTTTAGCA
* * *
32122677 GCTCTT-GGGAAAAAACGCCGCTAAAGATCATGTTCTTTAG
1 GCGCTTACGAAAAAAACGCCGCTAAAGATCATGTTCTTTAG
32122717 CGGATGATCT
Statistics
Matches: 115, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
84 31 0.27
85 34 0.30
86 42 0.37
87 8 0.07
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.26
Consensus pattern (86 bp):
GCGCTTACGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGTGGCGCTAAAGAAATAAACGCCGC
TAAAGATCATGTTCTTTAGCA
Found at i:32122729 original size:14 final size:14
Alignment explanation
Indices: 32122710--32122749 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 14
32122700 AAGATCATGT
32122710 TCTTTAGCGGATGA
1 TCTTTAGCGGATGA
*
32122724 TCTTTAGCGGCGCTGA
1 TCTTTAGC-G-GATGA
32122740 TCTTTAGCGG
1 TCTTTAGCGG
32122750 CGCTTAGGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 9 0.39
15 2 0.09
16 12 0.52
ACGTcount: A:0.15, C:0.20, G:0.30, T:0.35
Consensus pattern (14 bp):
TCTTTAGCGGATGA
Found at i:32122742 original size:16 final size:16
Alignment explanation
Indices: 32122721--32122753 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
32122711 CTTTAGCGGA
32122721 TGATCTTTAGCGGCGC
1 TGATCTTTAGCGGCGC
32122737 TGATCTTTAGCGGCGC
1 TGATCTTTAGCGGCGC
32122753 T
1 T
32122754 TAGGAAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.24, G:0.30, T:0.33
Consensus pattern (16 bp):
TGATCTTTAGCGGCGC
Found at i:32122813 original size:42 final size:43
Alignment explanation
Indices: 32122744--32122840 Score: 135
Period size: 42 Copynumber: 2.3 Consensus size: 43
32122734 CGCTGATCTT
32122744 TAGCGGCGCTTAGGAAGAAAACGCCGCTAAAAGTAATGTTCTA
1 TAGCGGCGCTTAGGAAGAAAACGCCGCTAAAAGTAATGTTCTA
* * * *
32122787 TAGCGGCGCTT-GGTCA-AAAACGCCGCTAACAGTAGTGTTCTT
1 TAGCGGCGCTTAGG-AAGAAAACGCCGCTAAAAGTAATGTTCTA
32122829 TAGCGGCGCTTA
1 TAGCGGCGCTTA
32122841 TTTCACAAAC
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
42 36 0.75
43 12 0.25
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.24
Consensus pattern (43 bp):
TAGCGGCGCTTAGGAAGAAAACGCCGCTAAAAGTAATGTTCTA
Found at i:32123311 original size:21 final size:21
Alignment explanation
Indices: 32123287--32123334 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
32123277 GCTTCTATCG
*
32123287 CTGCTTCTCTCGCTGTAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
*
32123308 CTGCTTCTCTCGCTGCCGCCT
1 CTGCTTCTCTCGCTGCAGCCT
32123329 CTGCTT
1 CTGCTT
32123335 TAAGTTGTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.02, C:0.42, G:0.19, T:0.38
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:32129815 original size:41 final size:40
Alignment explanation
Indices: 32129751--32129990 Score: 221
Period size: 41 Copynumber: 5.9 Consensus size: 40
32129741 TTTTGTTACT
* *
32129751 ATTAGCGGCGCTTC-GACAAAAACGCCGCTAAAGGTAAATGC
1 ATTAGCGGCGC-TCAGATAAAAACGCCGCTAAAGGTAGA-GC
* * * *
32129792 ATTAGCGGCGCTTAGATATAAACGCCGCTAAAGGCCAGAGA
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGG-TAGAGC
* * * * *
32129833 ATTAGTGGCGCTCAGATAAATACGCCACTAAAGATCTGAGC
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGT-AGAGC
* * * * * *
32129874 ATTAGCGGCGCTTAGACAAAAACGCCGCTAACGGCCATAGG
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGG-TAGAGC
* * * *
32129915 ATTAGCGACGCACAGATAAAAACGCCGCTAAAGATCTGAGC
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGT-AGAGC
*
32129956 ATTAGCGGCGCTCAAATAAAAACGCCGCTAAAGGT
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGT
32129991 TTAAAAATCG
Statistics
Matches: 154, Mismatches: 40, Indels: 10
0.75 0.20 0.05
Matches are distributed among these distances:
40 1 0.01
41 151 0.98
42 2 0.01
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (40 bp):
ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGTAGAGC
Found at i:32129888 original size:82 final size:82
Alignment explanation
Indices: 32129790--32129989 Score: 292
Period size: 82 Copynumber: 2.4 Consensus size: 82
32129780 AAAGGTAAAT
* * * * *
32129790 GCATTAGCGGCGCTTAGATATAAACGCCGCTAAAGGCCAGAGAATTAGTGGCGCTCAGATAAATA
1 GCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAGAATTAGCGACGCACAGATAAAAA
32129855 CGCCACTAAAGATCTGA
66 CGCCACTAAAGATCTGA
* * * *
32129872 GCATTAGCGGCGCTTAGACAAAAACGCCGCTAACGGCCATAGGATTAGCGACGCACAGATAAAAA
1 GCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAGAATTAGCGACGCACAGATAAAAA
*
32129937 CGCCGCTAAAGATCTGA
66 CGCCACTAAAGATCTGA
* *
32129954 GCATTAGCGGCGCTCAAATAAAAACGCCGCTAAAGG
1 GCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGG
32129990 TTTAAAAATC
Statistics
Matches: 104, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
82 104 1.00
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (82 bp):
GCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAGAATTAGCGACGCACAGATAAAAA
CGCCACTAAAGATCTGA
Found at i:32129975 original size:123 final size:123
Alignment explanation
Indices: 32129751--32129988 Score: 307
Period size: 123 Copynumber: 1.9 Consensus size: 123
32129741 TTTTGTTACT
* * * ** *
32129751 ATTAGCGGCGCTTCGACAAAAACGCCGCTAAAGGTAAATGCATTAGCGGCGCTTAGATATAAACG
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGGCAAATGCATTAGCGACGCACAGATAAAAACG
* * * *
32129816 CCGCTAAAGGCCAGAGAATTAGTGGCGCTCAGATAAATACGCCACTAAAGATCTGAGC
66 CCGCTAAAGACCAGAGAATTAGCGGCGCTCAAATAAAAACGCCACTAAAGATCTGAGC
* * *
32129874 ATTAGCGGCGCTTAGACAAAAACGCCGCTAACGGC-CATAGGATTAGCGACGCACAGATAAAAAC
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGGCAAAT-GCATTAGCGACGCACAGATAAAAAC
* * * *
32129938 GCCGCTAAAGATCTGAGCATTAGCGGCGCTCAAATAAAAACGCCGCTAAAG
65 GCCGCTAAAGACCAGAGAATTAGCGGCGCTCAAATAAAAACGCCACTAAAG
32129989 GTTTAAAAAT
Statistics
Matches: 97, Mismatches: 17, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
122 2 0.02
123 95 0.98
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (123 bp):
ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGGCAAATGCATTAGCGACGCACAGATAAAAACG
CCGCTAAAGACCAGAGAATTAGCGGCGCTCAAATAAAAACGCCACTAAAGATCTGAGC
Found at i:32130952 original size:114 final size:113
Alignment explanation
Indices: 32130740--32130952 Score: 295
Period size: 114 Copynumber: 1.9 Consensus size: 113
32130730 AAAATAAGCA
* * *
32130740 TTAGCGGCGTTTTCTAGAAAGCGCTGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATT
1 TTAGCGGCATTTTCTAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTGACCATT
* *
32130805 CAGGGATTTAGCGGCATTTTTGAGGAAGTGCCGCTAATGCTCAGGGCT
66 CAGGGATTTAGCGGCATTTTTGAGAAAGCGCCGCTAATGCTCAGGGCT
* *
32130853 TTAGCGGCATTTT-TGAGAAAGTGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGACCT
1 TTAGCGGCATTTTCT-AGAAAGCGCCGC-AAAAAACCTAAGCCCAACGACGCCGTTTTCTGACCA
* * *
32130917 TTCGGGGCTTTAGCGGCGTTTTTG-GTAAAGCGCCGC
64 TTCAGGGATTTAGCGGCATTTTTGAG-AAAGCGCCGC
32130953 AAAAAAACAT
Statistics
Matches: 87, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
112 1 0.01
113 23 0.26
114 63 0.72
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (113 bp):
TTAGCGGCATTTTCTAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTGACCATT
CAGGGATTTAGCGGCATTTTTGAGAAAGCGCCGCTAATGCTCAGGGCT
Found at i:32130967 original size:73 final size:74
Alignment explanation
Indices: 32130848--32131013 Score: 282
Period size: 73 Copynumber: 2.3 Consensus size: 74
32130838 CTAATGCTCA
* * *
32130848 GGGCTTTAGCGGCATTTTTGAGAAAGTGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTG
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTCTG
32130913 ACCTTTC-G
66 ACCTTTCGG
32130921 GGGCTTTAGCGGCGTTTTTG-GTAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTCT
1 GGGCTTTAGCGGCGTTTTTGAG-AAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTCT
32130985 GACCTTTCGG
65 GACCTTTCGG
32130995 GGGCTTTAGCGGCGTTTTT
1 GGGCTTTAGCGGCGTTTTT
32131014 AATACAGCAC
Statistics
Matches: 88, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
72 1 0.01
73 67 0.76
74 20 0.23
ACGTcount: A:0.23, C:0.25, G:0.26, T:0.27
Consensus pattern (74 bp):
GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTCTG
ACCTTTCGG
Found at i:32133424 original size:66 final size:66
Alignment explanation
Indices: 32133301--32133430 Score: 179
Period size: 66 Copynumber: 2.0 Consensus size: 66
32133291 ACAGTTGAGA
* * * * *
32133301 TTCAAAGGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGCTGTAGCGAGAGAAACAGAG
1 TTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAACAGAGGCGGCAGCAAGAGAAACAGAG
32133366 G
66 G
* * * *
32133367 TTCAAAAGAAATATTAAGAACTCCAGCTACAACTTAAAACAGATGCGGCATCAAGAGAAGCAGA
1 TTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAACAGAGGCGGCAGCAAGAGAAACAGA
32133431 CAATGCAGCG
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
66 55 1.00
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.16
Consensus pattern (66 bp):
TTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAACAGAGGCGGCAGCAAGAGAAACAGAG
G
Found at i:32133876 original size:43 final size:42
Alignment explanation
Indices: 32133801--32133959 Score: 176
Period size: 43 Copynumber: 3.7 Consensus size: 42
32133791 ACCAAACAAA
* * *
32133801 TAGCGGCGTTTGTGTAAAAACGCCGCTAAAAGAACATGACCTT
1 TAGCGGCGTTTGAGGAAAAGCGCCGCT-AAAGAACATGACCTT
* *
32133844 TAGTGGCGTTTGAGGAAGAAGCGCCGCTAAAGAACATGATCTT
1 TAGCGGCGTTTGAGGAA-AAGCGCCGCTAAAGAACATGACCTT
* * * * *
32133887 TAGCGGCGTTTGTTGAAAAAGCGCCACTAACGAACATGACATT
1 TAGCGGCGTTTG-AGGAAAAGCGCCGCTAAAGAACATGACCTT
*
32133930 TAGCGGCGTTTGTAGGAAAA-CGCAGCTAAA
1 TAGCGGCGTTTG-AGGAAAAGCGCCGCTAAA
32133960 ACGCCGCTAA
Statistics
Matches: 97, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
42 7 0.07
43 78 0.80
44 12 0.12
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (42 bp):
TAGCGGCGTTTGAGGAAAAGCGCCGCTAAAGAACATGACCTT
Found at i:32133922 original size:86 final size:85
Alignment explanation
Indices: 32133801--32133959 Score: 216
Period size: 86 Copynumber: 1.9 Consensus size: 85
32133791 ACCAAACAAA
* * *
32133801 TAGCGGCGTTTGTGTAAAAACGCCGCTAAAAGAACATGACCTTTAGTGGCGTTTG-AGGAAGAAG
1 TAGCGGCGTTTGTGTAAAAACGCCACTAAAAGAACATGACATTTAGCGGCGTTTGTAGGAA-AA-
*
32133865 CGCCGCTAAAGAACATGATCTT
64 CGCAGCTAAAGAACATGATCTT
*
32133887 TAGCGGCGTTTGT-TGAAAAAGCGCCACT-AACGAACATGACATTTAGCGGCGTTTGTAGGAAAA
1 TAGCGGCGTTTGTGT-AAAAA-CGCCACTAAAAGAACATGACATTTAGCGGCGTTTGTAGGAAAA
32133950 CGCAGCTAAA
64 CGCAGCTAAA
32133960 ACGCCGCTAA
Statistics
Matches: 65, Mismatches: 5, Indels: 7
0.84 0.06 0.09
Matches are distributed among these distances:
85 10 0.15
86 44 0.68
87 11 0.17
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (85 bp):
TAGCGGCGTTTGTGTAAAAACGCCACTAAAAGAACATGACATTTAGCGGCGTTTGTAGGAAAACG
CAGCTAAAGAACATGATCTT
Found at i:32134513 original size:29 final size:29
Alignment explanation
Indices: 32134480--32134559 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 29
32134470 TAAAAAAACC
* **
32134480 AATAAAAATTATAAAAGTTGTTAAATTTT
1 AATAAAAATTATAAAAATAATTAAATTTT
*
32134509 AATAAAAA-TATAAGAAATAATTAATTTTT
1 AATAAAAATTATAA-AAATAATTAAATTTT
* * *
32134538 ATTAAAAATTAGAAAAAAAATT
1 AATAAAAATTATAAAAATAATT
32134560 GTAAAAATTG
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
28 5 0.12
29 33 0.79
30 4 0.10
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (29 bp):
AATAAAAATTATAAAAATAATTAAATTTT
Found at i:32134584 original size:9 final size:9
Alignment explanation
Indices: 32134553--32134685 Score: 56
Period size: 9 Copynumber: 14.0 Consensus size: 9
32134543 AAATTAGAAA
*
32134553 AAAAATTGT
1 AAAAATTAT
*
32134562 AAAAATTGT
1 AAAAATTAT
32134571 AAAAAATTAT
1 -AAAAATTAT
32134581 -AAAATATAT
1 AAAAAT-TAT
* *
32134590 AGAAATATAG
1 AAAAAT-TAT
*
32134600 AAAAAATAT
1 AAAAATTAT
*
32134609 AAAAATTTT
1 AAAAATTAT
* *
32134618 ATAAAGTTGT
1 A-AAAATTAT
*
32134628 AAGGAAATGAT
1 AA--AAATTAT
32134639 AAAAA-TAT
1 AAAAATTAT
*
32134647 AAAGAAATAT
1 AAA-AATTAT
*
32134657 -AAAATTCGT
1 AAAAATT-AT
32134666 AAAATAATTAT
1 -AAA-AATTAT
32134677 AAAAATTAT
1 AAAAATTAT
32134686 CATACCAAAA
Statistics
Matches: 95, Mismatches: 17, Indels: 24
0.70 0.12 0.18
Matches are distributed among these distances:
8 13 0.14
9 37 0.39
10 32 0.34
11 9 0.09
12 4 0.04
ACGTcount: A:0.61, C:0.01, G:0.08, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:32134886 original size:20 final size:20
Alignment explanation
Indices: 32134863--32134925 Score: 62
Period size: 19 Copynumber: 3.2 Consensus size: 20
32134853 TTGATGCATA
32134863 TTATAATTTTTTAATGATTT
1 TTATAATTTTTTAATGATTT
**
32134883 TTATAAAATTTTACA--ATTT
1 TTATAATTTTTTA-ATGATTT
32134902 TT-TATATTTTTT-ATGATTT
1 TTATA-ATTTTTTAATGATTT
32134921 TTATA
1 TTATA
32134926 TTGTTTTTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
17 1 0.03
18 2 0.06
19 17 0.50
20 13 0.38
21 1 0.03
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (20 bp):
TTATAATTTTTTAATGATTT
Found at i:32134970 original size:10 final size:10
Alignment explanation
Indices: 32134863--32134972 Score: 59
Period size: 10 Copynumber: 11.1 Consensus size: 10
32134853 TTGATGCATA
32134863 TTATAATTTT
1 TTATAATTTT
*
32134873 TTAATGA-TTT
1 TT-ATAATTTT
**
32134883 TTATAAAATT
1 TTATAATTTT
*
32134893 TTACAATTTT
1 TTATAATTTT
32134903 TTAT-ATTTT
1 TTATAATTTT
*
32134912 TTATGA-TTT
1 TTATAATTTT
*
32134921 TTATATTGTTT
1 TTATAAT-TTT
* *
32134932 TTCTAA-GTT
1 TTATAATTTT
*
32134941 TTAGTAA-ATT
1 TTA-TAATTTT
*
32134951 TTAAATATTTT
1 TTATA-ATTTT
32134962 TTATAATTTT
1 TTATAATTTT
32134972 T
1 T
32134973 ATTAAAGTTT
Statistics
Matches: 75, Mismatches: 17, Indels: 16
0.69 0.16 0.15
Matches are distributed among these distances:
9 24 0.32
10 35 0.47
11 16 0.21
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (10 bp):
TTATAATTTT
Found at i:32134971 original size:9 final size:9
Alignment explanation
Indices: 32134863--32135027 Score: 64
Period size: 9 Copynumber: 17.2 Consensus size: 9
32134853 TTGATGCATA
32134863 TTATAATTTT
1 TTATAA-TTT
*
32134873 TTAATGATTT
1 TT-ATAATTT
*
32134883 TTATAAAATT
1 TTAT-AATTT
*
32134893 TTACAATTTT
1 TTATAA-TTT
*
32134903 TTATATTTT
1 TTATAATTT
*
32134912 TTATGATTT
1 TTATAATTT
*
32134921 TTATATTGTTT
1 TTATA--ATTT
* *
32134932 TTCTAAGTT
1 TTATAATTT
32134941 TTAGTAAATTT
1 TTA-T-AATTT
* *
32134952 TAAATATTTT
1 T-TATAATTT
32134962 TTATAATTT
1 TTATAATTT
*
32134971 TTATTAAAGTT
1 TTA-T-AATTT
* *
32134982 TAATAACTT
1 TTATAATTT
*
32134991 TTATAACTT
1 TTATAATTT
**
32135000 TTATTTGTTT
1 TTA-TAATTT
32135010 TTAT-A-TT
1 TTATAATTT
32135017 TTATAATTT
1 TTATAATTT
32135026 TT
1 TT
32135028 TTACCACATG
Statistics
Matches: 114, Mismatches: 28, Indels: 27
0.67 0.17 0.16
Matches are distributed among these distances:
7 6 0.05
8 1 0.01
9 51 0.45
10 33 0.29
11 22 0.19
12 1 0.01
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.63
Consensus pattern (9 bp):
TTATAATTT
Found at i:32142038 original size:15 final size:16
Alignment explanation
Indices: 32142007--32142038 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
32141997 GTATAAGATC
32142007 TATTTTTTTTTCTCTT
1 TATTTTTTTTTCTCTT
32142023 TATTTTTTTTTC-CTT
1 TATTTTTTTTTCTCTT
32142038 T
1 T
32142039 CGAAGCTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.81
Consensus pattern (16 bp):
TATTTTTTTTTCTCTT
Found at i:32145221 original size:19 final size:18
Alignment explanation
Indices: 32145180--32145222 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
32145170 ACGTCTTTTT
32145180 TGCATTCATTTCATGCATC
1 TGCATTCATTTCATGCA-C
32145199 TGCATTGCATTTCATTGCA-
1 TGCATT-CATTTCA-TGCAC
32145218 TGCAT
1 TGCAT
32145223 CAAATTTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 11 0.50
20 7 0.32
21 4 0.18
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (18 bp):
TGCATTCATTTCATGCAC
Found at i:32147064 original size:9 final size:9
Alignment explanation
Indices: 32147048--32147097 Score: 75
Period size: 9 Copynumber: 5.6 Consensus size: 9
32147038 TCTCATGAGT
32147048 TCAAAAAAA
1 TCAAAAAAA
*
32147057 TAAAAAAAAA
1 T-CAAAAAAA
32147067 TCAAAAAAA
1 TCAAAAAAA
32147076 TC-AAAAAA
1 TCAAAAAAA
32147084 TCAAAAAAA
1 TCAAAAAAA
32147093 TCAAA
1 TCAAA
32147098 GTCAAAATAG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
8 8 0.22
9 21 0.57
10 8 0.22
ACGTcount: A:0.78, C:0.10, G:0.00, T:0.12
Consensus pattern (9 bp):
TCAAAAAAA
Found at i:32147081 original size:17 final size:17
Alignment explanation
Indices: 32147061--32147097 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
32147051 AAAAAATAAA
32147061 AAAAAATCAAAAAAATC
1 AAAAAATCAAAAAAATC
32147078 AAAAAATCAAAAAAATC
1 AAAAAATCAAAAAAATC
32147095 AAA
1 AAA
32147098 GTCAAAATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.78, C:0.11, G:0.00, T:0.11
Consensus pattern (17 bp):
AAAAAATCAAAAAAATC
Found at i:32148087 original size:21 final size:21
Alignment explanation
Indices: 32148061--32148107 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
32148051 GCTCAAATGT
32148061 TGATCAGAATGGGGCATGAAG
1 TGATCAGAATGGGGCATGAAG
* *
32148082 TGATCAGATTGGGGCATGATG
1 TGATCAGAATGGGGCATGAAG
32148103 TGATC
1 TGATC
32148108 TTGTTATACC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.28, C:0.11, G:0.36, T:0.26
Consensus pattern (21 bp):
TGATCAGAATGGGGCATGAAG
Found at i:32149228 original size:46 final size:46
Alignment explanation
Indices: 32149161--32149790 Score: 1035
Period size: 46 Copynumber: 13.7 Consensus size: 46
32149151 TATCAATGAG
*
32149161 GATAGCAGATCTTATGTTCCTGTATTTGGCAGCGGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
*
32149207 GATAGCGGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
*
32149253 GATAGCGGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* *
32149299 GATAGCAGATCTTATCTTCCAGTATTTGGCAGCGGAGGAGATCAAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
*
32149345 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCAGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* * * *
32149391 GATAGCAGATCTTATCTTCCTATATGTGGCAGTGGAGGAGATCAAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* *
32149437 GATAGCCGATCTTATCTTCCTGTATTTGGCAGCCGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
*
32149483 GATAGCAGATCTTATCTTCCTGTATTTAGCAGCGGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
*
32149529 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCAGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* * *
32149575 GATAGAAGATCTTGTCTTCCTGTATTTGGCAGCGGAGAAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* *
32149621 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGAAAGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* *
32149667 GATAGCAGATATTATCTTCCTGTATTTAGCAGCGGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* *
32149713 GATAGCAGATCTTATCTTCCTGTACTTGGCAGCGGAGGAGATCGAG
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* *
32149759 GATAGCAGATCTTGTCTTCCTGTAATTGGCAG
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAG
32149791 TAGAGGGATT
Statistics
Matches: 541, Mismatches: 43, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 541 1.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.28
Consensus pattern (46 bp):
GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
Found at i:32149957 original size:132 final size:132
Alignment explanation
Indices: 32149802--32151166 Score: 2253
Period size: 132 Copynumber: 10.3 Consensus size: 132
32149792 AGAGGGATTT
* * * *
32149802 AAGATTACAGATTATGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTAAATCTTATCTTC
1 AAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTC
*
32149867 CCAATACAGTGAAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
66 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
32149932 CG
131 CG
*
32149934 AAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTC
1 AAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTC
* *
32149999 CCAATACAGTGAAGAAGTAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
66 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
32150064 CG
131 CG
* * *
32150066 AAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGAAGCAGATCGAAGACGGTGAATCTTATCTTC
1 AAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTC
*
32150131 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAATAGGT
66 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
32150196 CG
131 CG
* * * * * *
32150198 AAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAAATCGAATATAGTAAATATTATCTTC
1 AAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTC
* * *
32150263 CCAATACAGTGGAGAAGCAGATTTAAGTCGTTAGTCCTATCACCTTAAGCAGTAGTGGAGTAGGT
66 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
**
32150328 TA
131 CG
*
32150330 AAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTC
1 AAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTC
32150395 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
66 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
*
32150460 TG
131 CG
* * * * *
32150462 AAGATTGCAGATTCTGTTACCCTAATCAGTAGTGGAGTAGATCAAAGATAGTGAATTTTATCTTC
1 AAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTC
*
32150527 CCAATACAGTGGAGAAGCAGATTTAAGCCATTTGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
66 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
*
32150592 TG
131 CG
*
32150594 AAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTC
1 AAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTC
*
32150659 CCAATACAGTGGAGAAGTAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
66 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
32150724 CG
131 CG
* * *
32150726 AAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAAATCGAAGACGGTGAATCTTATCTTC
1 AAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTC
32150791 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
66 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
32150856 CG
131 CG
* *
32150858 AAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTC
1 AAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTC
* *
32150923 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGTAGTAGTGGAATAGGT
66 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
32150988 CG
131 CG
* * * * * *
32150990 AAAATTACAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGAATATGGTAAATATTATCTTC
1 AAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTC
* *
32151055 CCAATACAGTGGAGAAGCAGATTTAAGCCGTTAGTCCTATCACCCTAAGCAGTAGTGGAATAGGT
66 CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
32151120 CG
131 CG
* * * *
32151122 AAGATTGTAAATTCTGTCACCCTAAGCAGTAGTAGAGCAAATCAA
1 AAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCAA
32151167 CAATAATGAA
Statistics
Matches: 1163, Mismatches: 70, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 1163 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (132 bp):
AAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTC
CCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGT
CG
Found at i:32152789 original size:49 final size:47
Alignment explanation
Indices: 32152731--32152825 Score: 113
Period size: 47 Copynumber: 2.0 Consensus size: 47
32152721 TAATTTTACA
*
32152731 ATATCATGTATACATATATAT-TTTTATTTTATTTTATAATCTATATACCT
1 ATATCATGTA-A-ATATATATCTTTTA-TTT-TTTTATAATCCATATACCT
*
32152781 ATAT-ATGTAAATATTTATGCTTTTATTTTTTTATAATCCATATAC
1 ATATCATGTAAATATATAT-CTTTTATTTTTTTATAATCCATATAC
32152826 ATATCTTTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
47 23 0.56
48 4 0.10
49 10 0.24
50 4 0.10
ACGTcount: A:0.34, C:0.09, G:0.03, T:0.54
Consensus pattern (47 bp):
ATATCATGTAAATATATATCTTTTATTTTTTTATAATCCATATACCT
Found at i:32157560 original size:24 final size:24
Alignment explanation
Indices: 32157533--32157579 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
32157523 ACCGATGGCG
32157533 ACACCAAT-ACCATCATCAATGCTA
1 ACACCAATGACCA-CATCAATGCTA
*
32157557 ACACCAATGCCCACATCAATGCT
1 ACACCAATGACCACATCAATGCT
32157580 GATGTATTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.38, C:0.36, G:0.06, T:0.19
Consensus pattern (24 bp):
ACACCAATGACCACATCAATGCTA
Found at i:32163808 original size:25 final size:25
Alignment explanation
Indices: 32163777--32163863 Score: 129
Period size: 25 Copynumber: 3.5 Consensus size: 25
32163767 ACAAGCTTTA
* * * *
32163777 AACGGTAAACTCTTTCGAGCTGAAT
1 AACGGTAAGCTCCTCCGAGCTAAAT
*
32163802 AATGGTAAGCTCCTCCGAGCTAAAT
1 AACGGTAAGCTCCTCCGAGCTAAAT
32163827 AACGGTAAGCTCCTCCGAGCTAAAT
1 AACGGTAAGCTCCTCCGAGCTAAAT
32163852 AACGGTAAGCTC
1 AACGGTAAGCTC
32163864 ATATGAGCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (25 bp):
AACGGTAAGCTCCTCCGAGCTAAAT
Found at i:32163871 original size:25 final size:25
Alignment explanation
Indices: 32163777--32163902 Score: 108
Period size: 25 Copynumber: 5.0 Consensus size: 25
32163767 ACAAGCTTTA
* * * *
32163777 AACGGTAAACTCTTTCGAGCTGAAT
1 AACGGTAAGCTCATACGAGCTAAAT
* * *
32163802 AATGGTAAGCTCCTCCGAGCTAAAT
1 AACGGTAAGCTCATACGAGCTAAAT
* *
32163827 AACGGTAAGCTCCTCCGAGCTAAAT
1 AACGGTAAGCTCATACGAGCTAAAT
* * *
32163852 AACGGTAAGCTCATATGAGCTGAGT
1 AACGGTAAGCTCATACGAGCTAAAT
* * *
32163877 ATCGATAAGCTCATAAGAGCTGAAAT
1 AACGGTAAGCTCATACGAGCT-AAAT
32163903 CGATAACCCT
Statistics
Matches: 84, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
25 82 0.98
26 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (25 bp):
AACGGTAAGCTCATACGAGCTAAAT
Found at i:32166836 original size:18 final size:18
Alignment explanation
Indices: 32166792--32166838 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
32166782 TAATATAAAT
* *
32166792 TAAATAGTAAATTATTTA
1 TAAATATTAAAATATTTA
* *
32166810 GAAAT-TTAAAATATTTC
1 TAAATATTAAAATATTTA
32166827 TAAATATTAAAA
1 TAAATATTAAAA
32166839 ATTCCGATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (18 bp):
TAAATATTAAAATATTTA
Found at i:32167953 original size:140 final size:139
Alignment explanation
Indices: 32167646--32168106 Score: 531
Period size: 140 Copynumber: 3.3 Consensus size: 139
32167636 TATTTTTAAA
* * * * * *
32167646 ATTTTTGTTTTAACCAAGCGCAGCCTCTCAATTTTCAAGTCCAAGATTCAAC-ACTTTGAAGTCC
1 ATTTTTGTTTTAACCAAGTGCAGCCTCTCAACTCTCAAGTCCAAGATACAACAAATTTAAAGTCC
*
32167710 AAGATCCAACTTCAAATATAACTACTTATT---C-AA--CATGCAATTTTTGTAATTTTACAGTT
66 AAGATCCAACTTCAAATATAACTACTTATTCAACTAACTCATGCAATTTTTGTAA--TTACACTT
*
32167769 CATATGCTAAT
129 CATATACTAAT
* * * *
32167780 ATTTTTGTTTTAAACAAATGCAGCCTCTCAACTCTTAAGTCTAAGATACAACAAATTCTAAAGTC
1 ATTTTTGTTTTAACCAAGTGCAGCCTCTCAACTCTCAAGTCCAAGATACAACAAATT-TAAAGTC
* * *
32167845 CAGGATCAAACTTCAAATGTAACTACTTATTCAACTAACTCATGCAATTTTTGTAATTACACTTC
65 CAAGATCCAACTTCAAATATAACTACTTATTCAACTAACTCATGCAATTTTTGTAATTACACTTC
*
32167910 ATATACTAGT
130 ATATACTAAT
* * * * * * *
32167920 ATTTTTGCTTTAACCAAGTGTAGCCTCTTAACTCTCAAGTCCAAGATCCAATAGATTTTTAAGTC
1 ATTTTTGTTTTAACCAAGTGCAGCCTCTCAACTCTCAAGTCCAAGATACAACA-AATTTAAAGTC
* ** ** * *
32167985 CAAGATCCAACTTCAAATATAACTACTTATCCAACTAACTTGTGCAAAATTTGTAATTCCACTTT
65 CAAGATCCAACTTCAAATATAACTACTTATTCAACTAACTCATGCAATTTTTGTAATTACACTTC
32168050 ATATACTAAT
130 ATATACTAAT
* * * *
32168060 ATTTTTGTTTTAACTAAGTGAAACCTCTCAACTCTCAAGTTCAAGAT
1 ATTTTTGTTTTAACCAAGTGCAGCCTCTCAACTCTCAAGTCCAAGAT
32168107 CCAAATCTAT
Statistics
Matches: 274, Mismatches: 44, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
134 44 0.16
135 3 0.01
136 34 0.12
139 1 0.00
140 173 0.63
141 3 0.01
142 16 0.06
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (139 bp):
ATTTTTGTTTTAACCAAGTGCAGCCTCTCAACTCTCAAGTCCAAGATACAACAAATTTAAAGTCC
AAGATCCAACTTCAAATATAACTACTTATTCAACTAACTCATGCAATTTTTGTAATTACACTTCA
TATACTAAT
Found at i:32168233 original size:22 final size:22
Alignment explanation
Indices: 32168182--32168226 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
32168172 CACATTAGCG
32168182 AACAAATATATAAATATAAATA
1 AACAAATATATAAATATAAATA
* *
32168204 AACAAATATTTATATA-AAATA
1 AACAAATATATAAATATAAATA
32168225 AA
1 AA
32168227 ATAAATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (22 bp):
AACAAATATATAAATATAAATA
Found at i:32172041 original size:77 final size:77
Alignment explanation
Indices: 32171941--32172166 Score: 224
Period size: 77 Copynumber: 2.8 Consensus size: 77
32171931 TAAAATTATG
* * * * *
32171941 AAACAAAATCAAAATCAATTCTGTTGAATGGCAAGATTAAATC-CTGAAACAAAATTATTTAATT
1 AAACAAAATCAAAATAAAATCTGTTAAACGGCAAGAATAAATCTC-GAAACAAAATTATTTAATT
32172005 AAATCTTGTTTGC
65 AAATCTTGTTTGC
* *
32172018 AAACAAAATCAAAATAAAATCTGTTAAACGGCAGGAATAAATCTCGAAACATAATTATTTAATTA
1 AAACAAAATCAAAATAAAATCTGTTAAACGGCAAGAATAAATCTCGAAACAAAATTATTTAATTA
32172083 AATCTTCTCGTTTAG-
66 AATC-T-T-GTTT-GC
* * * * * *
32172098 AAAGAAAATCAAAATCGAATAAAATCTGTTAAACGACAGGAATAAATCCCGAAAC-AGATTATTC
1 AAACAAAATC--AA---AATAAAATCTGTTAAACGGCAAGAATAAATCTCGAAACAAAATTATTT
32172162 AATTA
61 AATTA
32172167 TTTGTCATTT
Statistics
Matches: 126, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
77 60 0.48
78 2 0.02
79 1 0.01
80 13 0.10
81 1 0.01
82 2 0.02
84 11 0.09
85 36 0.29
ACGTcount: A:0.47, C:0.14, G:0.11, T:0.28
Consensus pattern (77 bp):
AAACAAAATCAAAATAAAATCTGTTAAACGGCAAGAATAAATCTCGAAACAAAATTATTTAATTA
AATCTTGTTTGC
Found at i:32172221 original size:81 final size:81
Alignment explanation
Indices: 32172021--32172464 Score: 460
Period size: 81 Copynumber: 5.3 Consensus size: 81
32172011 TGTTTGCAAA
* * * * *
32172021 CAAAATCAAAATAAAATCTGTTAAACGGCAGGAATAAATCTCGAAACATAATTATTTAATTAAAT
1 CAAAATC-GAATAAAATCTGTTAAACGGCGGGAATAAATCTCAAAACA-GATTATTCAATT--AT
* *
32172086 CTTCTCGTTTAGAAAGAAAAT
62 -TTCTCGTTTGGAAACAAAAT
* * * * *
32172107 CAAAATCGAATAAAATCTGTTAAACGACAGGAATAAATCCCGAAACAGATTATTCAATTATTTGT
1 CAAAATCGAATAAAATCTGTTAAACGGCGGGAATAAATCTCAAAACAGATTATTCAATTATTTCT
* **
32172172 CATTTGGAAGGAAAAT
66 CGTTTGGAAACAAAAT
* ** *
32172188 AAAAATTAAATAAAATCTATTAAACGGCGGGAATAAATCTCAAAACAGATTATTCAATTATTTCT
1 CAAAATCGAATAAAATCTGTTAAACGGCGGGAATAAATCTCAAAACAGATTATTCAATTATTTCT
32172253 CGTTTGGAAACAAAAT
66 CGTTTGGAAACAAAAT
* * *
32172269 CAAAATCGAATAAAATCTGTTAAACGACGGGAATAAATC-CAAAAACAAATTATTCAACTATTTC
1 CAAAATCGAATAAAATCTGTTAAACGGCGGGAATAAATCTC-AAAACAGATTATTCAATTATTTC
32172333 TCGTTTGGAAACAAAAT
65 TCGTTTGGAAACAAAAT
* * * * * *
32172350 CAAAATCGAATAAATTTTGTTAAAAGGCGAGAATAAATCTCAAAACAGGTTTTATTTAATTTTAA
1 CAAAATCGAATAAAATCTGTTAAACGGCGGGAATAAATCTCAAAACA-G-ATTATTCAA--TT-A
* *
32172415 ATTCTCATTTGGCAAA-AAAATT
61 TTTCTCGTTTGG-AAACAAAA-T
* * *
32172437 AAAAATGGAATAAAATCTGTTGAACGGC
1 CAAAATCGAATAAAATCTGTTAAACGGC
32172465 AAGATTAAAT
Statistics
Matches: 304, Mismatches: 45, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
80 1 0.00
81 197 0.65
82 3 0.01
83 7 0.02
84 10 0.03
85 38 0.12
86 22 0.07
87 26 0.09
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.29
Consensus pattern (81 bp):
CAAAATCGAATAAAATCTGTTAAACGGCGGGAATAAATCTCAAAACAGATTATTCAATTATTTCT
CGTTTGGAAACAAAAT
Found at i:32172474 original size:87 final size:87
Alignment explanation
Indices: 32172330--32172592 Score: 275
Period size: 88 Copynumber: 3.0 Consensus size: 87
32172320 ATTCAACTAT
* * * * * *
32172330 TTCTCGTTTGGAAACAAAA-TCAAAATCGAATAAATTTTGTTAAAAGGCGAGAATAAATCTCAAA
1 TTCTCGTTTGGAAACAAAATTAAAAATGGAATAAAATCTGTTGAAAGGCAAGAATAAATCTCAAA
**
32172394 ACAGGTTTTATTTAATTTTAAA
66 ACAAATTTTATTTAATTTTAAA
* * *
32172416 TTCTCATTTGGCAAA-AAAATTAAAAATGGAATAAAATCTGTTGAACGGCAAGATTAAAT-TCCG
1 TTCTCGTTTGG-AAACAAAATTAAAAATGGAATAAAATCTGTTGAAAGGCAAGAATAAATCT-C-
32172479 AAAA-AAATTTTATTTAATTTT-AA
63 AAAACAAATTTTATTTAATTTTAAA
* * * * * * *
32172502 TACTCGTTTGGAAACAAAATAAAAAAAATGGAATAAAATCTGTTGAATGGCAGGAATAGATCCCG
1 TTCTCGTTTGGAAACAAAAT--TAAAAATGGAATAAAATCTGTTGAAAGGCAAGAATAAATCTCA
*
32172567 AAACAAATTTTATTCAATTTTAAA
64 AAACAAATTTTATTTAATTTTAAA
32172591 TT
1 TT
32172593 TTATTTTCAA
Statistics
Matches: 145, Mismatches: 22, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
85 3 0.02
86 31 0.21
87 53 0.37
88 55 0.38
89 3 0.02
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.32
Consensus pattern (87 bp):
TTCTCGTTTGGAAACAAAATTAAAAATGGAATAAAATCTGTTGAAAGGCAAGAATAAATCTCAAA
ACAAATTTTATTTAATTTTAAA
Found at i:32172733 original size:22 final size:22
Alignment explanation
Indices: 32172683--32172733 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
32172673 CACGTTAGCC
32172683 AATAAATATATAAATATAAATA
1 AATAAATATATAAATATAAATA
* * *
32172705 AACAAATATTTATATA-AAATAA
1 AATAAATATATAAATATAAAT-A
32172727 AATAAAT
1 AATAAAT
32172734 TGAATAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (22 bp):
AATAAATATATAAATATAAATA
Found at i:32173198 original size:20 final size:20
Alignment explanation
Indices: 32173175--32173215 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
32173165 TTAAATCAGT
*
32173175 TTGATTAAAATCAAATCAAA
1 TTGATTAAAATCAAATAAAA
**
32173195 TTGATTGGAATCAAATAAAA
1 TTGATTAAAATCAAATAAAA
32173215 T
1 T
32173216 CATGATATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.07, G:0.10, T:0.32
Consensus pattern (20 bp):
TTGATTAAAATCAAATAAAA
Found at i:32175821 original size:25 final size:25
Alignment explanation
Indices: 32175791--32175889 Score: 108
Period size: 25 Copynumber: 4.0 Consensus size: 25
32175781 GGTCACCGAT
** *
32175791 TTCAGCTCTTATGAGCTTCCCGATA
1 TTCAGCTCACATGAGCTTCCCGTTA
* *
32175816 CTCAGCTCACATGAGCTTCCTGTTA
1 TTCAGCTCACATGAGCTTCCCGTTA
* *
32175841 TTCAGCTCGCATAAGCTTCCCGTTA
1 TTCAGCTCACATGAGCTTCCCGTTA
* * *
32175866 TTCAGCTAATATGAACTTCCCGTT
1 TTCAGCTCACATGAGCTTCCCGTT
32175890 TACAACTCGT
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 60 1.00
ACGTcount: A:0.21, C:0.29, G:0.15, T:0.34
Consensus pattern (25 bp):
TTCAGCTCACATGAGCTTCCCGTTA
Found at i:32193212 original size:69 final size:69
Alignment explanation
Indices: 32193100--32193293 Score: 205
Period size: 69 Copynumber: 2.8 Consensus size: 69
32193090 TGAAAAATAG
* * ** * *
32193100 GGACACAATCTTAAATCTTCGTCCTATGTAGATCT-GTCGTGATCTTAAATCAGCGGACTGT-AA
1 GGACACGATATTAAATCAGCGTGCTATGTAGAT-TAGTCGTGATCTTAAATCAGCGGACTATAAA
*
32193163 AATAA
65 AAAAA
* * * *
32193168 GGGCACGATTTTTAAATCAGCGTGCTATGTAGATTAGTCATGATCTAAAATCAGCGGACTATAAA
1 GGACACGA-TATTAAATCAGCGTGCTATGTAGATTAGTCGTGATCTTAAATCAGCGGACTATAAA
32193233 AAAAA
65 AAAAA
* * * *
32193238 GTACACTATATTAAATCTGCGTGCTATGTAGATTAG-CTGTGAGCTTAAATCAGCGG
1 GGACACGATATTAAATCAGCGTGCTATGTAGATTAGTC-GTGATCTTAAATCAGCGG
32193294 GTTACAAAAT
Statistics
Matches: 104, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
68 8 0.08
69 85 0.82
70 11 0.11
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (69 bp):
GGACACGATATTAAATCAGCGTGCTATGTAGATTAGTCGTGATCTTAAATCAGCGGACTATAAAA
AAAA
Found at i:32200228 original size:13 final size:13
Alignment explanation
Indices: 32200210--32200234 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32200200 CTGATGGTCG
32200210 AAAATGTGTCCAT
1 AAAATGTGTCCAT
32200223 AAAATGTGTCCA
1 AAAATGTGTCCA
32200235 CAGTCATCGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (13 bp):
AAAATGTGTCCAT
Found at i:32201315 original size:82 final size:80
Alignment explanation
Indices: 32201176--32201325 Score: 183
Period size: 82 Copynumber: 1.9 Consensus size: 80
32201166 AATCATCCAC
* * * ** *
32201176 ATCTATACTACTATATAAAAGATAGGCCTAAGGCCTTCCTTAAAAGATATTTTTCCATTCTTATC
1 ATCTATACTACCATATAAAAGATAGCCCTAAGGCCTTCCTAAAAAGATACATGTCCATTCTTATC
32201241 TTTTGCATCAAAAAA
66 TTTTGCATCAAAAAA
* * ** *
32201256 ATCTATACTTACCGTATAAAAGTTAAGCCCTAAGGCCTTTGTAAAAAGATACATGTCCATTCTTT
1 ATCTATAC-TACCATATAAAAGAT-AGCCCTAAGGCCTTCCTAAAAAGATACATGTCCATTCTTA
32201321 TCTTT
64 TCTTT
32201326 CACATGAGAA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
80 8 0.14
81 12 0.21
82 37 0.65
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.37
Consensus pattern (80 bp):
ATCTATACTACCATATAAAAGATAGCCCTAAGGCCTTCCTAAAAAGATACATGTCCATTCTTATC
TTTTGCATCAAAAAA
Found at i:32203741 original size:25 final size:25
Alignment explanation
Indices: 32203712--32203802 Score: 107
Period size: 25 Copynumber: 3.8 Consensus size: 25
32203702 TTAAGGAATC
*
32203712 TTAGTGCGCTCTGATTATTAGCACG
1 TTAGTGCTCTCTGATTATTAGCACG
32203737 TTAGTGCTCTCTGATTATTAGCACG
1 TTAGTGCTCTCTGATTATTAGCACG
** *
32203762 CCAGTGCTCTCTG---ATTAGCACA
1 TTAGTGCTCTCTGATTATTAGCACG
* *
32203784 TTTGTGCTCTCTGTTTATT
1 TTAGTGCTCTCTGATTATT
32203803 CGCTTCAGTG
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
22 18 0.32
25 38 0.68
ACGTcount: A:0.18, C:0.22, G:0.20, T:0.41
Consensus pattern (25 bp):
TTAGTGCTCTCTGATTATTAGCACG
Found at i:32208309 original size:6 final size:6
Alignment explanation
Indices: 32208298--32208323 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
32208288 GATGACTCAC
32208298 CAAAGA CAAAGA CAAAGA CAAAGA CA
1 CAAAGA CAAAGA CAAAGA CAAAGA CA
32208324 TGAATGTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.65, C:0.19, G:0.15, T:0.00
Consensus pattern (6 bp):
CAAAGA
Found at i:32209384 original size:16 final size:17
Alignment explanation
Indices: 32209363--32209395 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
32209353 TTGAATCAAT
32209363 TTTTTAAT-ATTTTTTA
1 TTTTTAATGATTTTTTA
32209379 TTTTTAATGATTTTTTA
1 TTTTTAATGATTTTTTA
32209396 ATTGAACTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (17 bp):
TTTTTAATGATTTTTTA
Found at i:32217699 original size:8 final size:7
Alignment explanation
Indices: 32217675--32217723 Score: 54
Period size: 6 Copynumber: 7.6 Consensus size: 7
32217665 CCAAAGAGGG
32217675 AAAAATT
1 AAAAATT
32217682 AAAAA-T
1 AAAAATT
32217688 -AAAATT
1 AAAAATT
32217694 GAAAAATT
1 -AAAAATT
32217702 -AAAATT
1 AAAAATT
32217708 -AAAATT
1 AAAAATT
32217714 -AAAATT
1 AAAAATT
32217720 AAAA
1 AAAA
32217724 TGAGCCAAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
5 4 0.11
6 20 0.53
7 8 0.21
8 6 0.16
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (7 bp):
AAAAATT
Found at i:32217699 original size:20 final size:20
Alignment explanation
Indices: 32217674--32217723 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
32217664 CCCAAAGAGG
32217674 GAAAAATTAAAAATAAAATT
1 GAAAAATTAAAAATAAAATT
*
32217694 GAAAAATTAAAATTAAAATT
1 GAAAAATTAAAAATAAAATT
32217714 --AAAATTAAAA
1 GAAAAATTAAAA
32217724 TGAGCCAAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 10 0.34
20 19 0.66
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (20 bp):
GAAAAATTAAAAATAAAATT
Found at i:32217724 original size:12 final size:12
Alignment explanation
Indices: 32217676--32217724 Score: 71
Period size: 12 Copynumber: 3.9 Consensus size: 12
32217666 CAAAGAGGGA
*
32217676 AAAATTAAAAAT
1 AAAATTAAAATT
32217688 AAAATTGAAAAATT
1 AAAATT--AAAATT
32217702 AAAATTAAAATT
1 AAAATTAAAATT
32217714 AAAATTAAAAT
1 AAAATTAAAAT
32217725 GAGCCAAACA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
12 23 0.68
14 11 0.32
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (12 bp):
AAAATTAAAATT
Found at i:32221503 original size:174 final size:179
Alignment explanation
Indices: 32221191--32221510 Score: 461
Period size: 174 Copynumber: 1.8 Consensus size: 179
32221181 GTATCACTAG
* * * * * * *
32221191 TTATGCCTTTTTAGGCCTCTTAAATCTGTCAACTGCTTGTACTTCTTTCAATTTTTCTTGTATTG
1 TTATGCCTTTCTAGGCCTCTCAAATATATCAACTGCTTCTACTTCTTTCAATTTTTCTTATATCG
* * * *
32221256 GGACTTTGCTGCATTTGGCTTGTCTGTCTGTATAATTAGAATGACTAGTGATTACTTTAGACGGT
66 AGACTTTGCTGCATTTGGCTTATCTCTCTGTATAATTAGAATGACTAGTGATTACTTTAGACGGA
*
32221321 TTGATGATTCATCATTGATATGATATGTCTTTAATTATTTTAGTCTGTA
131 TCGATGATTCATCATTGATATGATATGTCTTTAATTATTTTAGTCTGTA
*
32221370 TTATGCCTTTCTAGGCCTCTCAAATATATCAATTGCTTCTAC-T-TTTCAA-TTTTCTTATATCG
1 TTATGCCTTTCTAGGCCTCTCAAATATATCAACTGCTTCTACTTCTTTCAATTTTTCTTATATCG
* * *
32221432 AGACTTTGCTGCATTTGGCTTATTTCTTTGTAT-A-TAGAATGACTAGTGATTACTTTTGACGGA
66 AGACTTTGCTGCATTTGGCTTATCTCTCTGTATAATTAGAATGACTAGTGATTACTTTAGACGGA
32221495 TCGATGATTCATCATT
131 TCGATGATTCATCATT
32221511 ATTTATATGA
Statistics
Matches: 125, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
174 42 0.34
175 1 0.01
176 39 0.31
177 6 0.05
178 1 0.01
179 36 0.29
ACGTcount: A:0.22, C:0.16, G:0.16, T:0.46
Consensus pattern (179 bp):
TTATGCCTTTCTAGGCCTCTCAAATATATCAACTGCTTCTACTTCTTTCAATTTTTCTTATATCG
AGACTTTGCTGCATTTGGCTTATCTCTCTGTATAATTAGAATGACTAGTGATTACTTTAGACGGA
TCGATGATTCATCATTGATATGATATGTCTTTAATTATTTTAGTCTGTA
Found at i:32225328 original size:48 final size:48
Alignment explanation
Indices: 32225272--32225369 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
32225262 GGGCATTTCA
32225272 TACTATCGCTATGGTAGAATGCTTTACTTTTTATGATAATTACAGATT
1 TACTATCGCTATGGTAGAATGCTTTACTTTTTATGATAATTACAGATT
32225320 TACTATCGCTATGGTAGAATGCTTTACTTTTTATGATAATTACAGATT
1 TACTATCGCTATGGTAGAATGCTTTACTTTTTATGATAATTACAGATT
32225368 TA
1 TA
32225370 GATGGTCTGG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (48 bp):
TACTATCGCTATGGTAGAATGCTTTACTTTTTATGATAATTACAGATT
Found at i:32246478 original size:18 final size:18
Alignment explanation
Indices: 32246455--32246489 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
32246445 CATTAGACCA
32246455 TTTAAATAGTTAGTGGAG
1 TTTAAATAGTTAGTGGAG
32246473 TTTAAATAGTTAGTGGA
1 TTTAAATAGTTAGTGGA
32246490 CTTTTATGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.26, T:0.40
Consensus pattern (18 bp):
TTTAAATAGTTAGTGGAG
Found at i:32254145 original size:14 final size:13
Alignment explanation
Indices: 32254126--32254162 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 13
32254116 ATTTTGATTA
32254126 AATAAAATTAAATT
1 AATAAAATT-AATT
32254140 AATAAAATTAATT
1 AATAAAATTAATT
32254153 -A-AAAATTAAT
1 AATAAAATTAAT
32254163 ATGGTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 9 0.39
12 1 0.04
13 4 0.17
14 9 0.39
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
AATAAAATTAATT
Found at i:32254738 original size:58 final size:61
Alignment explanation
Indices: 32254624--32254739 Score: 168
Period size: 61 Copynumber: 2.0 Consensus size: 61
32254614 AGTGATTATC
*
32254624 TTAATATTAAATTTTATTCAATATTTACCTTGTAGATAAATATTATATTAATTTAATAGAT
1 TTAATATTAAATTTAATTCAATATTTACCTTGTAGATAAATATTATATTAATTTAATAGAT
* *
32254685 TTAATATTAAATTTAA-TCTAATATTTATC-T-T-GATAAGTATTATATTAATTTAATA
1 TTAATATTAAATTTAATTC-AATATTTACCTTGTAGATAAATATTATATTAATTTAATA
32254740 TTAAAGTGAT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
58 23 0.45
59 1 0.02
60 3 0.06
61 24 0.47
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.50
Consensus pattern (61 bp):
TTAATATTAAATTTAATTCAATATTTACCTTGTAGATAAATATTATATTAATTTAATAGAT
Found at i:32255212 original size:17 final size:17
Alignment explanation
Indices: 32255175--32255222 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
32255165 GAATTTAGAA
*
32255175 GAATTTT-TGAATTAGT
1 GAATTTTGTGATTTAGT
*
32255191 GAATTTTGTGATTTATT
1 GAATTTTGTGATTTAGT
32255208 GAATTTTGTGATTTA
1 GAATTTTGTGATTTA
32255223 AAAATAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (17 bp):
GAATTTTGTGATTTAGT
Found at i:32256515 original size:46 final size:46
Alignment explanation
Indices: 32256448--32256626 Score: 216
Period size: 46 Copynumber: 3.9 Consensus size: 46
32256438 CATGGCAAAG
*
32256448 TGTGAAACGTAGGTATGGTATTCCAATGAAGAAAACCATACAGAGT
1 TGTGAAAAGTAGGTATGGTATTCCAATGAAGAAAACCATACAGAGT
* ** *
32256494 TGTGAAAAGTAGGTATGGTATTTCAATGAAGAAAACCATATTGCGT
1 TGTGAAAAGTAGGTATGGTATTCCAATGAAGAAAACCATACAGAGT
* * ** * * *
32256540 TGTGAAAAGTAAGTATGGTATTTCGGTAAAGAAAATCATACCGAGT
1 TGTGAAAAGTAGGTATGGTATTCCAATGAAGAAAACCATACAGAGT
* *
32256586 TGTGAAAAGTAGGTATGGTATTTCC-GTGAAGAAAATCATAC
1 TGTGAAAAGTAGGTATGGTA-TTCCAATGAAGAAAACCATAC
32256627 TGATTTATAG
Statistics
Matches: 116, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
46 113 0.97
47 3 0.03
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.28
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTATTCCAATGAAGAAAACCATACAGAGT
Found at i:32256605 original size:92 final size:92
Alignment explanation
Indices: 32256448--32256625 Score: 257
Period size: 92 Copynumber: 1.9 Consensus size: 92
32256438 CATGGCAAAG
* * *
32256448 TGTGAAACGTAGGTATGGTATTCCAATGAAGAAAACCATACAGAGTTGTGAAAAGTAGGTATGGT
1 TGTGAAAAGTAAGTATGGTATTCCAATAAAGAAAACCATACAGAGTTGTGAAAAGTAGGTATGGT
32256513 ATTTCAATGAAGAAAACCATATTGCGT
66 ATTTCAATGAAGAAAACCATATTGCGT
* ** * *
32256540 TGTGAAAAGTAAGTATGGTATTTCGGTAAAGAAAATCATACCGAGTTGTGAAAAGTAGGTATGGT
1 TGTGAAAAGTAAGTATGGTATTCCAATAAAGAAAACCATACAGAGTTGTGAAAAGTAGGTATGGT
** *
32256605 ATTTCCGTGAAGAAAATCATA
66 ATTTCAATGAAGAAAACCATA
32256626 CTGATTTATA
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
92 75 1.00
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.28
Consensus pattern (92 bp):
TGTGAAAAGTAAGTATGGTATTCCAATAAAGAAAACCATACAGAGTTGTGAAAAGTAGGTATGGT
ATTTCAATGAAGAAAACCATATTGCGT
Found at i:32263851 original size:3 final size:3
Alignment explanation
Indices: 32263843--32263882 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
32263833 AGAACGACAT
32263843 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
32263883 ATGGACGCAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:32270367 original size:48 final size:48
Alignment explanation
Indices: 32270308--32270492 Score: 235
Period size: 48 Copynumber: 3.9 Consensus size: 48
32270298 AATAGATTTC
* * * * * *
32270308 TCGGTGGCCTGCACACAGTCCGTACCAGCTTTGTGTAATAACAGATTC
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGATTA
* * *
32270356 TCGGTGGCCTGCACATAGTCCGTGCCACCCTTGTATCTTAACAGGTTA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGATTA
* * *
32270404 TTGGTGGCCTGCACACATTCCGTGCCACCCTTGTATCATAACAGAATA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGATTA
* * *
32270452 TCGGTGGCCTACACACAATCCGTGCCACCCTTGTGTCATAA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAA
32270493 TAAAATATCG
Statistics
Matches: 118, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 118 1.00
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (48 bp):
TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGATTA
Found at i:32277266 original size:3 final size:3
Alignment explanation
Indices: 32277260--32277286 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
32277250 CATCATCATC
32277260 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
32277287 TGGTTAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:32277422 original size:13 final size:14
Alignment explanation
Indices: 32277392--32277426 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
32277382 TGTTTTATTG
*
32277392 AAAATGGTTTTTGA
1 AAAATGATTTTTGA
*
32277406 AAAATGATTTTTAA
1 AAAATGATTTTTGA
32277420 AAAATGA
1 AAAATGA
32277427 CTTACTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.37
Consensus pattern (14 bp):
AAAATGATTTTTGA
Found at i:32277650 original size:21 final size:20
Alignment explanation
Indices: 32277598--32277666 Score: 61
Period size: 21 Copynumber: 3.5 Consensus size: 20
32277588 TTATTTCATA
32277598 AATCTT-ATTATATTTTAATT
1 AATCTTAATT-TATTTTAATT
* **
32277618 AATCATGTTTTAGTTTTAATT
1 AATCTTAATTTA-TTTTAATT
*
32277639 AATCTTAATTTA-CTTAATT
1 AATCTTAATTTATTTTAATT
*
32277658 AAGCTTAAT
1 AATCTTAAT
32277667 CATTAATTCG
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
19 14 0.35
20 7 0.17
21 19 0.47
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.54
Consensus pattern (20 bp):
AATCTTAATTTATTTTAATT
Found at i:32279566 original size:49 final size:49
Alignment explanation
Indices: 32279491--32279587 Score: 158
Period size: 49 Copynumber: 2.0 Consensus size: 49
32279481 TCTAGAAGGG
* * *
32279491 ATAAATAGTGATAAGAGTGTAAACAGTGGAAGACTAAGTTTAGCAATGT
1 ATAAATAGTGATAAGAGTGCAAACAGTGGAAGACCAAGTTTAGAAATGT
*
32279540 ATAAATAGTGATAAGAGTGCAGACAGTGGAAGACCAAGTTTAGAAATG
1 ATAAATAGTGATAAGAGTGCAAACAGTGGAAGACCAAGTTTAGAAATG
32279588 CATAGCATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.43, C:0.07, G:0.26, T:0.24
Consensus pattern (49 bp):
ATAAATAGTGATAAGAGTGCAAACAGTGGAAGACCAAGTTTAGAAATGT
Found at i:32302867 original size:21 final size:21
Alignment explanation
Indices: 32302828--32302879 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
32302818 GGTCTACAAA
32302828 CCCGTGTGGAAAGAGACACACG
1 CCCGTGT-GAAAGAGACACACG
**
32302850 CCCGTGTGAAAGTTACACACG
1 CCCGTGTGAAAGAGACACACG
* *
32302871 ACAGTGTGA
1 CCCGTGTGA
32302880 TCGAGTTACA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.31, C:0.25, G:0.29, T:0.15
Consensus pattern (21 bp):
CCCGTGTGAAAGAGACACACG
Found at i:32302997 original size:21 final size:21
Alignment explanation
Indices: 32302973--32303027 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
32302963 TAGAAAGCTC
32302973 ACACGTCTGTGTGGC-TAAGGA
1 ACACGTC-GTGTGGCTTAAGGA
*
32302994 ACACGGTCGTGT-GCTTAAGGC
1 ACAC-GTCGTGTGGCTTAAGGA
32303015 ACACGTCCGTGTG
1 ACACGT-CGTGTG
32303028 AAAATTGACA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 4 0.14
21 22 0.76
22 3 0.10
ACGTcount: A:0.20, C:0.24, G:0.33, T:0.24
Consensus pattern (21 bp):
ACACGTCGTGTGGCTTAAGGA
Found at i:32304635 original size:205 final size:204
Alignment explanation
Indices: 32304283--32304659 Score: 673
Period size: 205 Copynumber: 1.8 Consensus size: 204
32304273 TATCATCATT
* * *
32304283 ATATTACACAACCCCATTTCATCATTAAACACACATATTGCATATTAGAAGATATATTTCAATTT
1 ATATTACACAACCCCATTTCACCATCAAACACACATATTGCATATTAGAAGATATATTTCAATAT
* *
32304348 AATTTTCACATCACATATCATAATTTAAGTATTTCATATCATTTCTCATTTTATCCTTTTTAGTC
66 AATTTTCACATCACATATCATAATTTAAGTATTTCATATCATTTCCCATTTTATCCATTTTAGTC
32304413 CTCTACCTCGATGTTTCATATCAAAATTCAATCAAACATTTCAATATACCCGAAACTACTAGACC
131 CTCTACCTCGATGTTTCATATC-AAATTCAATCAAACATTTCAATATACCCGAAACTACTAGACC
32304478 CGGTTTAGGA
195 CGGTTTAGGA
*
32304488 ATATTACACAACCCTATTTCACCATCAAACACACATATTGCATATTAGAAGATATATTTCAATAT
1 ATATTACACAACCCCATTTCACCATCAAACACACATATTGCATATTAGAAGATATATTTCAATAT
*
32304553 AATTTTCATATCACATATCATAATTTAAGTATTTCATATCATTTCCCATTTTATCCATTTTAGTC
66 AATTTTCACATCACATATCATAATTTAAGTATTTCATATCATTTCCCATTTTATCCATTTTAGTC
*
32304618 CTCTACCTTGATGTTTCATATCAAATTCAATCAAACATTTCA
131 CTCTACCTCGATGTTTCATATCAAATTCAATCAAACATTTCA
32304660 TATTATCATA
Statistics
Matches: 164, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
204 20 0.12
205 144 0.88
ACGTcount: A:0.35, C:0.21, G:0.05, T:0.38
Consensus pattern (204 bp):
ATATTACACAACCCCATTTCACCATCAAACACACATATTGCATATTAGAAGATATATTTCAATAT
AATTTTCACATCACATATCATAATTTAAGTATTTCATATCATTTCCCATTTTATCCATTTTAGTC
CTCTACCTCGATGTTTCATATCAAATTCAATCAAACATTTCAATATACCCGAAACTACTAGACCC
GGTTTAGGA
Found at i:32305446 original size:22 final size:24
Alignment explanation
Indices: 32305417--32305470 Score: 76
Period size: 22 Copynumber: 2.3 Consensus size: 24
32305407 TTTAATTTAT
*
32305417 TTAATTAATTATGA-TTTCTTAAC
1 TTAATTAATCATGACTTTCTTAAC
*
32305440 -TAATTAATCATTACTTTCTTAAC
1 TTAATTAATCATGACTTTCTTAAC
32305463 TTAATTAA
1 TTAATTAA
32305471 CACATGCACC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 11 0.41
23 9 0.33
24 7 0.26
ACGTcount: A:0.37, C:0.11, G:0.02, T:0.50
Consensus pattern (24 bp):
TTAATTAATCATGACTTTCTTAAC
Found at i:32309668 original size:20 final size:18
Alignment explanation
Indices: 32309626--32309673 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 18
32309616 TCCAAAATTA
32309626 GTATCGATATAAATTTTG
1 GTATCGATATAAATTTTG
32309644 GTATCGATAT-AATTTTCAAG
1 GTATCGATATAAATTTT---G
32309664 GTATCGATAT
1 GTATCGATAT
32309674 TTATTGTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 6 0.22
18 10 0.37
20 11 0.41
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (18 bp):
GTATCGATATAAATTTTG
Found at i:32331793 original size:21 final size:21
Alignment explanation
Indices: 32331754--32331805 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
32331744 GGTCTACAAA
32331754 CCCGTGTGGAAAGAGACACACG
1 CCCGTGT-GAAAGAGACACACG
**
32331776 CCCGTGTGAAAGTTACACACG
1 CCCGTGTGAAAGAGACACACG
* *
32331797 ACAGTGTGA
1 CCCGTGTGA
32331806 TCGAGTTACA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.31, C:0.25, G:0.29, T:0.15
Consensus pattern (21 bp):
CCCGTGTGAAAGAGACACACG
Found at i:32331923 original size:21 final size:21
Alignment explanation
Indices: 32331899--32331953 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
32331889 TAGAAAGCTC
32331899 ACACGTCTGTGTGGC-TAAGGA
1 ACACGTC-GTGTGGCTTAAGGA
*
32331920 ACACGGTCGTGT-GCTTAAGGC
1 ACAC-GTCGTGTGGCTTAAGGA
32331941 ACACGTCCGTGTG
1 ACACGT-CGTGTG
32331954 AAAATTGACA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 4 0.14
21 22 0.76
22 3 0.10
ACGTcount: A:0.20, C:0.24, G:0.33, T:0.24
Consensus pattern (21 bp):
ACACGTCGTGTGGCTTAAGGA
Found at i:32333560 original size:205 final size:204
Alignment explanation
Indices: 32333208--32333584 Score: 673
Period size: 205 Copynumber: 1.8 Consensus size: 204
32333198 TATCATCATT
* * *
32333208 ATATTACACAACCCCATTTCATCATTAAACACACATATTGCATATTAGAAGATATATTTCAATTT
1 ATATTACACAACCCCATTTCACCATCAAACACACATATTGCATATTAGAAGATATATTTCAATAT
* *
32333273 AATTTTCACATCACATATCATAATTTAAGTATTTCATATCATTTCTCATTTTATCCTTTTTAGTC
66 AATTTTCACATCACATATCATAATTTAAGTATTTCATATCATTTCCCATTTTATCCATTTTAGTC
32333338 CTCTACCTCGATGTTTCATATCAAAATTCAATCAAACATTTCAATATACCCGAAACTACTAGACC
131 CTCTACCTCGATGTTTCATATC-AAATTCAATCAAACATTTCAATATACCCGAAACTACTAGACC
32333403 CGGTTTAGGA
195 CGGTTTAGGA
*
32333413 ATATTACACAACCCTATTTCACCATCAAACACACATATTGCATATTAGAAGATATATTTCAATAT
1 ATATTACACAACCCCATTTCACCATCAAACACACATATTGCATATTAGAAGATATATTTCAATAT
*
32333478 AATTTTCATATCACATATCATAATTTAAGTATTTCATATCATTTCCCATTTTATCCATTTTAGTC
66 AATTTTCACATCACATATCATAATTTAAGTATTTCATATCATTTCCCATTTTATCCATTTTAGTC
*
32333543 CTCTACCTTGATGTTTCATATCAAATTCAATCAAACATTTCA
131 CTCTACCTCGATGTTTCATATCAAATTCAATCAAACATTTCA
32333585 TATTATCATA
Statistics
Matches: 164, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
204 20 0.12
205 144 0.88
ACGTcount: A:0.35, C:0.21, G:0.05, T:0.38
Consensus pattern (204 bp):
ATATTACACAACCCCATTTCACCATCAAACACACATATTGCATATTAGAAGATATATTTCAATAT
AATTTTCACATCACATATCATAATTTAAGTATTTCATATCATTTCCCATTTTATCCATTTTAGTC
CTCTACCTCGATGTTTCATATCAAATTCAATCAAACATTTCAATATACCCGAAACTACTAGACCC
GGTTTAGGA
Found at i:32334373 original size:22 final size:24
Alignment explanation
Indices: 32334344--32334397 Score: 76
Period size: 22 Copynumber: 2.3 Consensus size: 24
32334334 TTTAATTTAT
*
32334344 TTAATTAATTATGA-TTTCTTAAC
1 TTAATTAATCATGACTTTCTTAAC
*
32334367 -TAATTAATCATTACTTTCTTAAC
1 TTAATTAATCATGACTTTCTTAAC
32334390 TTAATTAA
1 TTAATTAA
32334398 CACATGCACC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 11 0.41
23 9 0.33
24 7 0.26
ACGTcount: A:0.37, C:0.11, G:0.02, T:0.50
Consensus pattern (24 bp):
TTAATTAATCATGACTTTCTTAAC
Found at i:32338609 original size:20 final size:19
Alignment explanation
Indices: 32338566--32338614 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
32338556 TCCAAAATTA
*
32338566 GTATCGATATAAATTTTTG
1 GTATCGATATAAATTTTAG
32338585 GTATCGATAT-AATTTTCAAG
1 GTATCGATATAAATTTT--AG
32338605 GTATCGATAT
1 GTATCGATAT
32338615 TTATTGTTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 6 0.22
19 10 0.37
20 11 0.41
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.43
Consensus pattern (19 bp):
GTATCGATATAAATTTTAG
Found at i:32346869 original size:47 final size:47
Alignment explanation
Indices: 32346800--32346892 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
32346790 GGTTCGGCCC
32346800 CAATTGCCTACTCCACTACCTTAGCTTTCCACAACTAAATATTTTCT
1 CAATTGCCTACTCCACTACCTTAGCTTTCCACAACTAAATATTTTCT
*
32346847 CAATTGCCTACTCCACTACCTTAGCTTTCCACAACTAGATATTTTC
1 CAATTGCCTACTCCACTACCTTAGCTTTCCACAACTAAATATTTTC
32346893 CCAAATTCAC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.27, C:0.32, G:0.05, T:0.35
Consensus pattern (47 bp):
CAATTGCCTACTCCACTACCTTAGCTTTCCACAACTAAATATTTTCT
Found at i:32355703 original size:21 final size:20
Alignment explanation
Indices: 32355679--32355720 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
32355669 ATTGTTATTT
32355679 TCTTAACAATAAAATTTAAAA
1 TCTTAA-AATAAAATTTAAAA
* *
32355700 TCTTAAAGTAAAATTTGAAA
1 TCTTAAAATAAAATTTAAAA
32355720 T
1 T
32355721 GTTTAGATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.36
Consensus pattern (20 bp):
TCTTAAAATAAAATTTAAAA
Found at i:32360463 original size:9 final size:9
Alignment explanation
Indices: 32360449--32360485 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
32360439 GTAGTGATTC
32360449 AATTCGGTT
1 AATTCGGTT
*
32360458 AATTCGGAT
1 AATTCGGTT
*
32360467 AATTCTGTT
1 AATTCGGTT
32360476 AATTCGGTT
1 AATTCGGTT
32360485 A
1 A
32360486 TTTTTTAACC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.27, C:0.11, G:0.19, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:32379236 original size:29 final size:28
Alignment explanation
Indices: 32379186--32379258 Score: 69
Period size: 29 Copynumber: 2.6 Consensus size: 28
32379176 TGGAGTCTCG
*
32379186 CCACAAAGG-TGTCCTTT-AAGAGGTTTA
1 CCACAAAGGTTGT-CTTTCTAGAGGTTTA
** * *
32379213 CCATGAAGGCTTGTCTTTCTAGAGTTTTG
1 CCACAAAGG-TTGTCTTTCTAGAGGTTTA
32379242 CCACAAAGGTTGTCTTT
1 CCACAAAGGTTGTCTTT
32379259 TTACAAGTGT
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
27 7 0.19
28 12 0.33
29 17 0.47
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (28 bp):
CCACAAAGGTTGTCTTTCTAGAGGTTTA
Found at i:32379511 original size:53 final size:53
Alignment explanation
Indices: 32379454--32379569 Score: 153
Period size: 53 Copynumber: 2.2 Consensus size: 53
32379444 CACAAATATG
* * *
32379454 GTCTTCTTTCCATATGATGCCATAACCCGCCAGTTAC-GATTTTACATGAAATA
1 GTCTTCTTTCCATATGATGCCATAACCCACCAGTTACAG-TCTTACACGAAATA
* * * *
32379507 GTCTTGTTTCCATATGATGCCATAACCCATCAGTTACAGTCTTACACGACATG
1 GTCTTCTTTCCATATGATGCCATAACCCACCAGTTACAGTCTTACACGAAATA
32379560 GTCTTCTTTC
1 GTCTTCTTTC
32379570 AGTGTCATGG
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
53 53 0.98
54 1 0.02
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.35
Consensus pattern (53 bp):
GTCTTCTTTCCATATGATGCCATAACCCACCAGTTACAGTCTTACACGAAATA
Found at i:32380948 original size:21 final size:20
Alignment explanation
Indices: 32380892--32380948 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
32380882 AGAATTACTT
*
32380892 AAAAAT-TAAAAAAACTAG-A
1 AAAAATATAAAAATA-TAGAA
* *
32380911 AAAATTATAAAATTATAGAA
1 AAAAATATAAAAATATAGAA
32380931 AAAAATATAACAAATATA
1 AAAAATATAA-AAATATA
32380949 AAATTTACTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
19 8 0.27
20 16 0.53
21 6 0.20
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.23
Consensus pattern (20 bp):
AAAAATATAAAAATATAGAA
Found at i:32381210 original size:15 final size:15
Alignment explanation
Indices: 32381173--32381210 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
32381163 ATTATTTTTT
32381173 ATTATTTAAATAATA
1 ATTATTTAAATAATA
32381188 ATTTATTTGAAATAA-A
1 A-TTATTT-AAATAATA
32381204 ATTATTT
1 ATTATTT
32381211 TTTATTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 7 0.33
16 8 0.38
17 6 0.29
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (15 bp):
ATTATTTAAATAATA
Found at i:32381378 original size:17 final size:17
Alignment explanation
Indices: 32381345--32381378 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
32381335 ATGTGATTTA
*
32381345 TAAAATTTTTAAAATAT
1 TAAAATTTCTAAAATAT
*
32381362 TAAAATTTCTAATATAT
1 TAAAATTTCTAAAATAT
32381379 ATATTTAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
TAAAATTTCTAAAATAT
Found at i:32381584 original size:87 final size:87
Alignment explanation
Indices: 32381493--32381822 Score: 357
Period size: 87 Copynumber: 3.7 Consensus size: 87
32381483 TTAAGGGTGT
* *
32381493 AAAAAGCCCTCAAACTTTTTCAAAAAAAGTAATTAAGCCACTGCTTTTTTTGCACTCAATTGGAT
1 AAAAAGCCCTCAAACTTTTTCAAAAAAAGAAATTAAGCCTCTGCTTTTTTTGCACTCAATTGGAT
32381558 ACTTAAACTTTCAAAATGCATC
66 ACTTAAACTTTCAAAATGCATC
* * * *
32381580 AAAAAG-GCTCTAAACTTTTTCAAAAATAGAAATTAAGCCTCTTCTTTTTTCGCACTCAATTGGA
1 AAAAAGCCCTC-AAACTTTTTCAAAAAAAGAAATTAAGCCTCTGCTTTTTTTGCACTCAATTGGA
32381644 TACTTAAACTTTCAAAATGCATC
65 TACTTAAACTTTCAAAATGCATC
* * *
32381667 AAAAAGACCCT-AAACTTTTTCAAAAATAGAAATTAAGCCTCTGCTCTCTTTTTTTTACACTTAA
1 AAAAAG-CCCTCAAACTTTTTCAAAAAAAGAAATTAAGCCTCTG----C-TTTTTTTGCACTCAA
* * *
32381731 TTAGG-TACTTGAA-TTGCCAAAATGCATAA
60 TT-GGATACTTAAACTT-TCAAAATGCAT-C
* * **
32381760 AAAAAACCCTCAAACTTTTTC-AAAAAAGCAATTAAGGCC-CTAATTTTTTTTTGCACTCAATTG
1 AAAAAGCCCTCAAACTTTTTCAAAAAAAGAAATTAA-GCCTCT--GCTTTTTTTGCACTCAATTG
32381823 CCAAAAATGC
Statistics
Matches: 207, Mismatches: 21, Indels: 29
0.81 0.08 0.11
Matches are distributed among these distances:
86 3 0.01
87 114 0.55
88 1 0.00
89 17 0.08
91 3 0.01
92 49 0.24
93 20 0.10
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.34
Consensus pattern (87 bp):
AAAAAGCCCTCAAACTTTTTCAAAAAAAGAAATTAAGCCTCTGCTTTTTTTGCACTCAATTGGAT
ACTTAAACTTTCAAAATGCATC
Found at i:32382021 original size:30 final size:30
Alignment explanation
Indices: 32381971--32382043 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
32381961 AAAGATCAAT
*
32381971 AAAAGTTATAAAAATTATTAAATTTTAATA
1 AAAAGTTATAAAAATAATTAAATTTTAATA
* *
32382001 AAAAG-TATAAGAAATAATTAATTTTTATTA
1 AAAAGTTATAA-AAATAATTAAATTTTAATA
*
32382031 AAAA-TTAGAAAAA
1 AAAAGTTATAAAAA
32382044 GATTATAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
29 8 0.22
30 29 0.78
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (30 bp):
AAAAGTTATAAAAATAATTAAATTTTAATA
Found at i:32382086 original size:20 final size:20
Alignment explanation
Indices: 32382057--32382099 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
32382047 TATAAAACAT
* * *
32382057 AAAAATGTAAAATTTTATAA
1 AAAAAGGTAAAAATATATAA
32382077 AAAAAGGTAAAAATATATAA
1 AAAAAGGTAAAAATATATAA
32382097 AAA
1 AAA
32382100 TATATAGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (20 bp):
AAAAAGGTAAAAATATATAA
Found at i:32382124 original size:12 final size:10
Alignment explanation
Indices: 32382084--32382126 Score: 59
Period size: 10 Copynumber: 4.3 Consensus size: 10
32382074 TAAAAAAAGG
32382084 TAAAAATATA
1 TAAAAATATA
32382094 TAAAAATATA
1 TAAAAATATA
*
32382104 TAGAAATATA
1 TAAAAATATA
* *
32382114 GAAATATATA
1 TAAAAATATA
32382124 TAA
1 TAA
32382127 TTTTATAAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (10 bp):
TAAAAATATA
Found at i:32382418 original size:29 final size:29
Alignment explanation
Indices: 32382386--32382526 Score: 102
Period size: 29 Copynumber: 5.0 Consensus size: 29
32382376 TTTTTGATGT
32382386 ATTTTATA-ATTTTTTATGATTTTTATAAA
1 ATTTTATATATTTTTTAT-ATTTTTATAAA
* * *
32382415 ATTTTAGA-ATTTTTTTATATATTT-TACA
1 ATTTTATATA-TTTTTTATATTTTTATAAA
32382443 A-TTTATATATTTTTCTA-ATTTTTAGT-AA
1 ATTTTATATATTTTT-TATATTTTTA-TAAA
* * *
32382471 ATTTTAAATATTCTTTTATATTTTTGTTAA
1 ATTTTATATATT-TTTTATATTTTTATAAA
*
32382501 AGTTTA-ATCA-TTTTTAT-TTTTTATAA
1 ATTTTATAT-ATTTTTTATATTTTTATAA
32382527 TTTTTGTCAC
Statistics
Matches: 91, Mismatches: 11, Indels: 22
0.73 0.09 0.18
Matches are distributed among these distances:
27 22 0.24
28 15 0.16
29 29 0.32
30 25 0.27
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.62
Consensus pattern (29 bp):
ATTTTATATATTTTTTATATTTTTATAAA
Found at i:32382438 original size:20 final size:21
Alignment explanation
Indices: 32382405--32382446 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
32382395 TTTTTTATGA
*
32382405 TTTTTATAAAATTTTAGAATT
1 TTTTTATAAAATTTTACAATT
*
32382426 TTTTTAT-ATATTTTACAATT
1 TTTTTATAAAATTTTACAATT
32382446 T
1 T
32382447 ATATATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (21 bp):
TTTTTATAAAATTTTACAATT
Found at i:32382474 original size:56 final size:55
Alignment explanation
Indices: 32382388--32382495 Score: 134
Period size: 56 Copynumber: 1.9 Consensus size: 55
32382378 TTTGATGTAT
32382388 TTTATAATTTTTTATGATTTTTATAAAATTTTAGAAT-TT-TTTTATATATTTTACAA
1 TTTATAATTTTTTA-GATTTTTATAAAATTTTA-AATATTCTTTTATAT-TTTTACAA
32382444 TTTATATATTTTTCTA-ATTTTTAGT-AAATTTTAAATATTCTTTTATATTTTT
1 TTTATA-ATTTTT-TAGATTTTTA-TAAAATTTTAAATATTCTTTTATATTTTT
32382496 GTTAAAGTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
55 3 0.06
56 27 0.57
57 15 0.32
58 2 0.04
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (55 bp):
TTTATAATTTTTTAGATTTTTATAAAATTTTAAATATTCTTTTATATTTTTACAA
Found at i:32382507 original size:30 final size:29
Alignment explanation
Indices: 32382444--32382515 Score: 69
Period size: 30 Copynumber: 2.4 Consensus size: 29
32382434 TATTTTACAA
* *
32382444 TTTATATATTTTTCTAATTTTTAGTAAAT
1 TTTAAATATTTTTCTAATTTTTAGTAAAG
32382473 TTTAAATATTCTTT-TATATTTTT-GTTAAAG
1 TTTAAATATT-TTTCTA-ATTTTTAG-TAAAG
32382503 TTT-AATCATTTTT
1 TTTAAAT-ATTTTT
32382516 ATTTTTTATA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
29 18 0.49
30 19 0.51
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.62
Consensus pattern (29 bp):
TTTAAATATTTTTCTAATTTTTAGTAAAG
Found at i:32382746 original size:89 final size:86
Alignment explanation
Indices: 32382653--32382893 Score: 268
Period size: 89 Copynumber: 2.7 Consensus size: 86
32382643 TACATTTTGG
* * *
32382653 CAATTGAGTGCAAAAAAGAGCAGGGACTTAATTGCTTGTTTTGAAAATTTTTGAGGGTATTTTTG
1 CAATTGAGTGCAAAAAA-AGCAGGGGCTTAATTGCTT-TTTTAAAAATGTTTGAGGGT-TTTTTG
* *
32382718 ATGCATTTTGACAGTTCAAGTACC
63 ATGCATTTTGAAACTTCAAGTACC
* ** **
32382742 CAATTGACTAAG-AAAAAAAGCAGGGGCTTAATTGCTTTTTTTTTAAATGTTTGAAGGCCTTTTT
1 CAATTGAGT--GCAAAAAAAGCAGGGGCTTAATTGC-TTTTTTAAAAATGTTTG-AGGGTTTTTT
32382806 GATGCATTTTGAAACTTCAAGTACC
62 GATGCATTTTGAAACTTCAAGTACC
* ** *
32382831 TAATTGAGTGCAAAAAAAAGGGGGGGCTTAATTGCTTTTTTAAAAAAAGTTTGAGGGTTTTTT
1 CAATTGAGTGC-AAAAAAAGCAGGGGCTTAATTGCTTTTTT-AAAAATGTTTGAGGGTTTTTT
32382894 ACACTCTTAA
Statistics
Matches: 127, Mismatches: 18, Indels: 15
0.79 0.11 0.09
Matches are distributed among these distances:
87 1 0.01
88 14 0.11
89 100 0.79
90 11 0.09
91 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.22, T:0.37
Consensus pattern (86 bp):
CAATTGAGTGCAAAAAAAGCAGGGGCTTAATTGCTTTTTTAAAAATGTTTGAGGGTTTTTTGATG
CATTTTGAAACTTCAAGTACC
Found at i:32382964 original size:19 final size:18
Alignment explanation
Indices: 32382918--32382964 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 18
32382908 TTTAAAATAA
*
32382918 TTTTTAGAATTTTTTATTT
1 TTTTTA-AATTTTTTATAT
32382937 TTTTGTAAATTTTATTATAT
1 TTTT-TAAATTTT-TTATAT
32382957 TTTTTAAA
1 TTTTTAAA
32382965 ATATTTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (18 bp):
TTTTTAAATTTTTTATAT
Found at i:32382966 original size:20 final size:18
Alignment explanation
Indices: 32382918--32382973 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 18
32382908 TTTAAAATAA
*
32382918 TTTTTAGAATTTTTTATT
1 TTTTTAAAATTTTTTATT
*
32382936 TTTTTGTAAATTTTATTATAT
1 TTTTT-AAAATTTT-TTAT-T
32382957 TTTTTAAAATATTTTTA
1 TTTTTAAAAT-TTTTTA
32382974 ATGGTTTTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 5 0.16
19 6 0.19
20 11 0.35
21 9 0.29
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.68
Consensus pattern (18 bp):
TTTTTAAAATTTTTTATT
Found at i:32384956 original size:46 final size:46
Alignment explanation
Indices: 32384849--32385105 Score: 274
Period size: 46 Copynumber: 5.6 Consensus size: 46
32384839 GATCAGAGGG
* * * * * *
32384849 TGCCATGGTGTCTTTCAA-TCATGGTCTTATTTATTCT-CGACTTGA
1 TGCCATAGTGTCTTTCAACT-ATGGTCTTATTCATTTTCCGTCGTGT
* * *
32384894 TGCCATAGTGTCTTTCAACCATGTTCTTATTCATTTTCCGTTGTGT
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCCGTCGTGT
* * *
32384940 TTCCATAGTGCCTTTCAACTATGGTCTTATTCATTTTCCGTCATGT
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCCGTCGTGT
* *
32384986 TGCCATAGTGTCTTTTAACTATGGTCTTATTCATTTTCCGCCGTGT
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCCGTCGTGT
* * *
32385032 TGCCATAGTGTCTTTCAACTATGG-CATTATTTA-TTT-C-TAGTAT
1 TGCCATAGTGTCTTTCAACTATGGTC-TTATTCATTTTCCGTCGTGT
*
32385075 AGTGTCATAGTGTCTTTCAACTATGGTCTTA
1 --TGCCATAGTGTCTTTCAACTATGGTCTTA
32385106 ATAATTTCCT
Statistics
Matches: 180, Mismatches: 26, Indels: 12
0.83 0.12 0.06
Matches are distributed among these distances:
43 3 0.02
44 1 0.01
45 61 0.34
46 115 0.64
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.46
Consensus pattern (46 bp):
TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCCGTCGTGT
Found at i:32400549 original size:18 final size:18
Alignment explanation
Indices: 32400526--32400580 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
32400516 TTGTTTCAAG
32400526 TTTTTTTTAATTAATAAT
1 TTTTTTTTAATTAATAAT
*
32400544 TTTTTTTTCAATT-TTAAT
1 TTTTTTTT-AATTAATAAT
*
32400562 TCATCTTTTTAATTAATAA
1 T--TTTTTTTAATTAATAA
32400581 ATATTTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 13 0.43
19 8 0.27
20 9 0.30
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTTTTTAATTAATAAT
Found at i:32400550 original size:19 final size:20
Alignment explanation
Indices: 32400526--32400580 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 20
32400516 TTGTTTCAAG
32400526 TTTTTTTTAATTAATAATT-
1 TTTTTTTTAATTAATAATTC
* *
32400545 TTTTTTTCAATT-TTAATTC
1 TTTTTTTTAATTAATAATTC
* *
32400564 ATCTTTTTAATTAATAA
1 TTTTTTTTAATTAATAA
32400581 ATATTTTATT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
18 5 0.18
19 20 0.71
20 3 0.11
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTTTTTAATTAATAATTC
Found at i:32400787 original size:17 final size:17
Alignment explanation
Indices: 32400756--32400789 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
32400746 TAATTAATTG
*
32400756 AAATATTTCACATATAA
1 AAATATTTCAAATATAA
*
32400773 AAATATTTGAAATATAA
1 AAATATTTCAAATATAA
32400790 TACTCACAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (17 bp):
AAATATTTCAAATATAA
Found at i:32415800 original size:174 final size:174
Alignment explanation
Indices: 32415510--32415852 Score: 677
Period size: 174 Copynumber: 2.0 Consensus size: 174
32415500 TTTTCACTTT
32415510 AATCCTTAATTTTTTTATTCCAATCAATAATTAAAAAATATATTTTTTGGGTGATCAAAATGAAA
1 AATCCTTAATTTTTTTATTCCAATCAATAATTAAAAAATATATTTTTTGGGTGATCAAAATGAAA
*
32415575 ATAACCTAAAAGTTAGGTGACTAAAAAGAAAATGCAAACATGATGTGGCATAAATAGTTAACCGT
66 ATAACCTAAAAATTAGGTGACTAAAAAGAAAATGCAAACATGATGTGGCATAAATAGTTAACCGT
32415640 TGTTAGAGATTTAACACTTGGGTGACTAAAATGAAAGCAGACTA
131 TGTTAGAGATTTAACACTTGGGTGACTAAAATGAAAGCAGACTA
32415684 AATCCTTAATTTTTTTATTCCAATCAATAATTAAAAAATATATTTTTTGGGTGATCAAAATGAAA
1 AATCCTTAATTTTTTTATTCCAATCAATAATTAAAAAATATATTTTTTGGGTGATCAAAATGAAA
32415749 ATAACCTAAAAATTAGGTGACTAAAAAGAAAATGCAAACATGATGTGGCATAAATAGTTAACCGT
66 ATAACCTAAAAATTAGGTGACTAAAAAGAAAATGCAAACATGATGTGGCATAAATAGTTAACCGT
32415814 TGTTAGAGATTTAACACTTGGGTGACTAAAATGAAAGCA
131 TGTTAGAGATTTAACACTTGGGTGACTAAAATGAAAGCA
32415853 CCCTAAAAAT
Statistics
Matches: 168, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
174 168 1.00
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (174 bp):
AATCCTTAATTTTTTTATTCCAATCAATAATTAAAAAATATATTTTTTGGGTGATCAAAATGAAA
ATAACCTAAAAATTAGGTGACTAAAAAGAAAATGCAAACATGATGTGGCATAAATAGTTAACCGT
TGTTAGAGATTTAACACTTGGGTGACTAAAATGAAAGCAGACTA
Found at i:32418695 original size:24 final size:24
Alignment explanation
Indices: 32418648--32418695 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
32418638 CCGTTCTGTG
**
32418648 GCAAAGGATGAATTGACGGTAAAT
1 GCAAAGGATGAATTGACGACAAAT
32418672 GCAAAGGATGAATTGACGACAAAT
1 GCAAAGGATGAATTGACGACAAAT
32418696 CACCCAAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.44, C:0.10, G:0.27, T:0.19
Consensus pattern (24 bp):
GCAAAGGATGAATTGACGACAAAT
Found at i:32418874 original size:19 final size:20
Alignment explanation
Indices: 32418823--32418875 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
32418813 ATTTCAACTT
* *
32418823 TTACGGGTTTCTGTTTAGCT
1 TTACGGGCTTCTGTTTAGCC
*
32418843 TTCACGAGCTTCTGTTTAGCC
1 TT-ACGGGCTTCTGTTTAGCC
32418864 TT-CGGGCTTCTG
1 TTACGGGCTTCTG
32418876 AAAACGATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 9 0.32
20 2 0.07
21 17 0.61
ACGTcount: A:0.09, C:0.23, G:0.25, T:0.43
Consensus pattern (20 bp):
TTACGGGCTTCTGTTTAGCC
Found at i:32421671 original size:12 final size:12
Alignment explanation
Indices: 32421656--32421681 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
32421646 AAAAATAAAC
32421656 CAAATAAAATAA
1 CAAATAAAATAA
32421668 CAAATAAAATAA
1 CAAATAAAATAA
32421680 CA
1 CA
32421682 GTCCGATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.73, C:0.12, G:0.00, T:0.15
Consensus pattern (12 bp):
CAAATAAAATAA
Found at i:32435566 original size:22 final size:22
Alignment explanation
Indices: 32435538--32435614 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
32435528 TTTCTTTTAA
32435538 TTAGGAGATTAGATGCTAAAGT
1 TTAGGAGATTAGATGCTAAAGT
** * *
32435560 TTAGGAGATAATATTTTGGTTTAA--
1 TTAGGAGAT--TA-GAT-GCTAAAGT
32435584 TTAGGAGATTAGATGCTAAAGT
1 TTAGGAGATTAGATGCTAAAGT
32435606 TTAGGAGAT
1 TTAGGAGAT
32435615 AATATTTTGG
Statistics
Matches: 41, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
20 4 0.10
21 1 0.02
22 20 0.49
24 11 0.27
25 1 0.02
26 4 0.10
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.36
Consensus pattern (22 bp):
TTAGGAGATTAGATGCTAAAGT
Found at i:32435587 original size:46 final size:46
Alignment explanation
Indices: 32435533--32435627 Score: 190
Period size: 46 Copynumber: 2.1 Consensus size: 46
32435523 TCTCTTTTCT
32435533 TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
1 TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
32435579 TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
1 TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
32435625 TTT
1 TTT
32435628 CTATATTTGT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.34, C:0.02, G:0.23, T:0.41
Consensus pattern (46 bp):
TTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAATATTTTGG
Found at i:32440145 original size:22 final size:22
Alignment explanation
Indices: 32440115--32440191 Score: 59
Period size: 22 Copynumber: 3.4 Consensus size: 22
32440105 TCTCTTTTAA
*
32440115 TTAGAAGATTAGATGCTAAAGT
1 TTAGGAGATTAGATGCTAAAGT
** * *
32440137 TTAGGAGATAATATTTTGGTTTAA-T
1 TTAGGAGAT--TA-GAT-GCTAAAGT
32440162 T-AGGAGATTAGATGCTAAAGT
1 TTAGGAGATTAGATGCTAAAGT
32440183 TTAGGAGAT
1 TTAGGAGAT
32440192 AATATTTTGG
Statistics
Matches: 40, Mismatches: 9, Indels: 12
0.66 0.15 0.20
Matches are distributed among these distances:
20 4 0.10
21 3 0.08
22 17 0.43
24 9 0.22
25 3 0.08
26 4 0.10
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.36
Consensus pattern (22 bp):
TTAGGAGATTAGATGCTAAAGT
Done.