Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, whole genome shotgun sequence
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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 134 of 160
Found at i:25098515 original size:9 final size:9
Alignment explanation
Indices: 25098503--25098536 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
25098493 TTTAATATTT
25098503 TTAAAAAAA
1 TTAAAAAAA
*
25098512 TTAAAAGAA
1 TTAAAAAAA
25098521 TTAAAAAAA
1 TTAAAAAAA
25098530 TTTAAAA
1 -TTAAAA
25098537 TATTTTTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 16 0.73
10 6 0.27
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (9 bp):
TTAAAAAAA
Found at i:25100573 original size:19 final size:19
Alignment explanation
Indices: 25100536--25100571 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
25100526 TATACATAAT
*
25100536 ATATGTAATTATATATTTA
1 ATATATAATTATATATTTA
25100555 ATATATAATTAT-TATTT
1 ATATATAATTATATATTT
25100572 TATAATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (19 bp):
ATATATAATTATATATTTA
Found at i:25100577 original size:21 final size:21
Alignment explanation
Indices: 25100531--25100578 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
25100521 TTATTTATAC
25100531 ATAATATATGTAATTATATATT
1 ATAATATA-GTAATTATATATT
*
25100553 -TAATATA-TAATTATTATTTT
1 ATAATATAGTAATTA-TATATT
25100573 ATAATA
1 ATAATA
25100579 AAAAAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 6 0.26
20 5 0.22
21 12 0.52
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
ATAATATAGTAATTATATATT
Found at i:25100666 original size:2 final size:2
Alignment explanation
Indices: 25100621--25100649 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
25100611 ACAAAAATTA
25100621 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
25100650 AAGATTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25101236 original size:323 final size:319
Alignment explanation
Indices: 25100737--25101366 Score: 776
Period size: 323 Copynumber: 2.0 Consensus size: 319
25100727 GCCACGTCTG
* * *
25100737 AGCTTGGAAATTTAGGTTTGGGTTTTCTCTCAATTAATTATCCAATACACACCCAACTTCTAATG
1 AGCTTGAAAATTTAGGTTTAGGTTTTCTCTC-ATTAATTATCCAATACACACCAAACTTCTAATG
* *
25100802 ATAATTACCTTCGAAAAAAAAAAAATTTTTTTTTTACTTTTTTAAAGTTACAATTATAATAAAAA
65 ATAATTACCTTCGAAAAAAAAAAAATTTATTTTTTACTTTTTTAAAGTTACAATCATAATAAAAA
* * * *
25100867 TATTATATTATATAATTAATTAAATAATCAATTATTAAATCATAATTAAATTACAATTACTGAAT
130 TAGTATATCATATAATCAATTAAATAATCAACTATTAAATCATAATTAAATTACAATTACTGAAT
* * * * *
25100932 AATTAACTAACAAACTAAAATATAACT-ATATAATCAAAT-T-TATACATAGTAAAATTTAAACC
195 AATTAACTAACAAACTAAAACACAACTGA-ACAATCAAATCTACATACA-A-TAAAACTTAAACC
*
25100994 T-AGAAACTTTTTGATGAAGTTGAAAGAATTTAAAAATGCAATAAGATATGTTATAGTTTGTT
257 TAAGAAACTATTTGATGAAGTTGAAAGAATTTAAAAATGCAATAAGATATGTTATAGTTTGTT
* *
25101056 AGCTTGAAAATTTAGGTTTAGGTTCTTTTCTC-TTAATTATCCAATACCCACCAAACCTT-TAAT
1 AGCTTGAAAATTTAGGTTTAGGTT-TTCTCTCATTAATTATCCAATACACACCAAA-CTTCTAAT
*
25101119 GATAATTACCTTC-AAAAAATCAATTAAAATCTTCAATTTTTT-CTTTTTTTAAGTTA-AGATCA
64 GATAATTACCTTCGAAAAAA--AA--AAAAT-TT--ATTTTTTACTTTTTTAAAGTTACA-ATCA
** * * * * *
25101181 TAAT-CTAATAGTATATGCATATAATCATTTGAATAATCAACTATTACATCATAATTAAGTTATA
121 TAATAAAAATAGTATAT-CATATAATCAATTAAATAATCAACTATTAAATCATAATTAAATTACA
*
25101245 ATTACTGAATAATTAACTAACAAACTAAAACACAATTGAACAATCAAATCTACATACAATAAAAC
185 ATTACTGAATAATTAACTAACAAACTAAAACACAACTGAACAATCAAATCTACATACAATAAAAC
* * ** *
25101310 TTGAACTTAAGATCCTATTTGATGAATTTGAAAGAATTTAAAAATGCAATAAGATAT
250 TTAAACCTAAGAAACTATTTGATGAAGTTGAAAGAATTTAAAAATGCAATAAGATAT
25101367 AAAGATAATG
Statistics
Matches: 265, Mismatches: 31, Indels: 25
0.83 0.10 0.08
Matches are distributed among these distances:
317 6 0.02
318 38 0.14
319 27 0.10
320 6 0.02
321 5 0.02
322 12 0.05
323 113 0.43
324 53 0.20
325 5 0.02
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.37
Consensus pattern (319 bp):
AGCTTGAAAATTTAGGTTTAGGTTTTCTCTCATTAATTATCCAATACACACCAAACTTCTAATGA
TAATTACCTTCGAAAAAAAAAAAATTTATTTTTTACTTTTTTAAAGTTACAATCATAATAAAAAT
AGTATATCATATAATCAATTAAATAATCAACTATTAAATCATAATTAAATTACAATTACTGAATA
ATTAACTAACAAACTAAAACACAACTGAACAATCAAATCTACATACAATAAAACTTAAACCTAAG
AAACTATTTGATGAAGTTGAAAGAATTTAAAAATGCAATAAGATATGTTATAGTTTGTT
Found at i:25101780 original size:8 final size:7
Alignment explanation
Indices: 25101761--25101815 Score: 65
Period size: 7 Copynumber: 7.7 Consensus size: 7
25101751 ACACGAGCAA
25101761 TAAAAAT
1 TAAAAAT
25101768 TAAAAAT
1 TAAAAAT
25101775 TAAAAAT
1 TAAAAAT
25101782 TAAAAAT
1 TAAAAAT
*
25101789 AGAAAAAT
1 -TAAAAAT
*
25101797 AAAAAAT
1 TAAAAAT
*
25101804 GAAAAAT
1 TAAAAAT
*
25101811 GAAAA
1 TAAAA
25101816 GGGAAAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
7 38 0.86
8 6 0.14
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (7 bp):
TAAAAAT
Found at i:25101780 original size:14 final size:14
Alignment explanation
Indices: 25101762--25101815 Score: 72
Period size: 14 Copynumber: 3.8 Consensus size: 14
25101752 CACGAGCAAT
*
25101762 AAAAATTAAAAATT
1 AAAAATTAAAAATG
25101776 AAAAATTAAAAATAG
1 AAAAATTAAAAAT-G
*
25101791 AAAAATAAAAAATG
1 AAAAATTAAAAATG
*
25101805 AAAAATGAAAA
1 AAAAATTAAAA
25101816 GGGAAAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
14 24 0.67
15 12 0.33
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.19
Consensus pattern (14 bp):
AAAAATTAAAAATG
Found at i:25101787 original size:21 final size:21
Alignment explanation
Indices: 25101761--25101815 Score: 74
Period size: 22 Copynumber: 2.6 Consensus size: 21
25101751 ACACGAGCAA
* *
25101761 TAAAAATTAAAAATTAAAAAT
1 TAAAAATGAAAAATAAAAAAT
25101782 TAAAAATAGAAAAATAAAAAAT
1 TAAAAAT-GAAAAATAAAAAAT
*
25101804 GAAAAATGAAAA
1 TAAAAATGAAAA
25101816 GGGAAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 12 0.40
22 18 0.60
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (21 bp):
TAAAAATGAAAAATAAAAAAT
Found at i:25101857 original size:15 final size:14
Alignment explanation
Indices: 25101837--25101870 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
25101827 ATAGAGATAC
*
25101837 AAAAAAGGGAGGAAA
1 AAAAAAGAGA-GAAA
25101852 AAAAAAGAGAGAAA
1 AAAAAAGAGAGAAA
25101866 AAAAA
1 AAAAA
25101871 GTGAAGAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (14 bp):
AAAAAAGAGAGAAA
Found at i:25104919 original size:19 final size:19
Alignment explanation
Indices: 25104881--25104919 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
25104871 TTACAAACTC
*
25104881 TCCTCATTAAAGTTTAACG
1 TCCTCATTAAAGCTTAACG
* *
25104900 TCCTCGTTAAAGCTTGACG
1 TCCTCATTAAAGCTTAACG
25104919 T
1 T
25104920 TCACGTCAAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (19 bp):
TCCTCATTAAAGCTTAACG
Found at i:25107499 original size:22 final size:22
Alignment explanation
Indices: 25107465--25107508 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
25107455 AATTATAGTA
*
25107465 ATTGCATGAATTCTCATTTTCC
1 ATTGCATGAATTCTCATCTTCC
* *
25107487 ATTGCTTGTATTCTCATCTTCC
1 ATTGCATGAATTCTCATCTTCC
25107509 TTGAAATACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.18, C:0.25, G:0.09, T:0.48
Consensus pattern (22 bp):
ATTGCATGAATTCTCATCTTCC
Found at i:25107933 original size:2 final size:2
Alignment explanation
Indices: 25107922--25107954 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
25107912 ACCCTTTTAG
25107922 AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25107955 GTAAATCTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:25108460 original size:13 final size:13
Alignment explanation
Indices: 25108442--25108467 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25108432 GTTATTCAAC
25108442 AAATTTAATATTT
1 AAATTTAATATTT
25108455 AAATTTAATATTT
1 AAATTTAATATTT
25108468 GTAATTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
AAATTTAATATTT
Found at i:25111791 original size:9 final size:9
Alignment explanation
Indices: 25111774--25111805 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
25111764 CCAATGAGCT
*
25111774 GGTCTTCAG
1 GGTCATCAG
25111783 GGTCATCAG
1 GGTCATCAG
25111792 GGTCATCAG
1 GGTCATCAG
25111801 GGTCA
1 GGTCA
25111806 GAGAACATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.19, C:0.22, G:0.34, T:0.25
Consensus pattern (9 bp):
GGTCATCAG
Found at i:25113703 original size:30 final size:30
Alignment explanation
Indices: 25113667--25113732 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
25113657 TTTTTCACCC
*
25113667 AAATAAGTTTTTAACA-TTTACTTTATATCT
1 AAATAAGTTTTTAA-ATTTTAATTTATATCT
* *
25113697 AAATAAGTTTTTAAATTTTAATTTGTATTT
1 AAATAAGTTTTTAAATTTTAATTTATATCT
25113727 AAATAA
1 AAATAA
25113733 ACCATTAGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 1 0.03
30 31 0.97
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.50
Consensus pattern (30 bp):
AAATAAGTTTTTAAATTTTAATTTATATCT
Found at i:25117782 original size:22 final size:22
Alignment explanation
Indices: 25117756--25117801 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
25117746 TATCATCATG
*
25117756 ATTATATAAATAATTTA-TAATT
1 ATTATAT-AATAATTAATTAATT
*
25117778 ATTATATTATAATTAATTAATT
1 ATTATATAATAATTAATTAATT
25117800 AT
1 AT
25117802 AATTTAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTATATAATAATTAATTAATT
Found at i:25117789 original size:14 final size:14
Alignment explanation
Indices: 25117770--25117805 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
25117760 TATAAATAAT
25117770 TTATAATT-ATTATA
1 TTATAATTAATTA-A
25117784 TTATAATTAATTAA
1 TTATAATTAATTAA
25117798 TTATAATT
1 TTATAATT
25117806 TAAAATTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 17 0.81
15 4 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTATAATTAATTAA
Found at i:25117831 original size:22 final size:24
Alignment explanation
Indices: 25117796--25117839 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
25117786 ATAATTAATT
*
25117796 AATTATAATTTAAAATT-ATATAA
1 AATTATAATATAAAATTCATATAA
25117819 AATT-TAATATAAAATTCATAT
1 AATTATAATATAAAATTCATAT
25117840 TTATAAATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
AATTATAATATAAAATTCATATAA
Found at i:25119672 original size:24 final size:25
Alignment explanation
Indices: 25119620--25119672 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 25
25119610 TTTAGATTTA
* *
25119620 AATTTTATTATATATAGGTTTGATT
1 AATTTAATTATATATAGATTTGATT
25119645 -ATTTAATTATATTATA-ATTT-ATT
1 AATTTAATTATA-TATAGATTTGATT
25119668 AATTT
1 AATTT
25119673 TTTAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
23 3 0.12
24 17 0.71
25 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (25 bp):
AATTTAATTATATATAGATTTGATT
Found at i:25119930 original size:19 final size:18
Alignment explanation
Indices: 25119902--25119937 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
25119892 ATTCATTATA
25119902 TATGAATGTAATATTTAAT
1 TATGAATGTAAT-TTTAAT
*
25119921 TATGATTGTAATTTTAA
1 TATGAATGTAATTTTAA
25119938 AAATTAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (18 bp):
TATGAATGTAATTTTAAT
Found at i:25120627 original size:65 final size:65
Alignment explanation
Indices: 25120538--25120667 Score: 161
Period size: 65 Copynumber: 2.0 Consensus size: 65
25120528 CGTGTAATGA
* * * *
25120538 TGCATGAAAATTTAAATAAATTAAGTATGCAAAAATAAAAATGAAAGTATGAAGAATACAAACTT
1 TGCATGAAAATTCAAATAAATTAAGTATGCAAAAACAAAAACGAAAATATGAAGAATACAAACTT
* ** * * * *
25120603 TGCATGGAAATTCAAATTGATTAAGTTTGCAAAAGCAAAAACGAAAATATGTAGGATACAAACTT
1 TGCATGAAAATTCAAATAAATTAAGTATGCAAAAACAAAAACGAAAATATGAAGAATACAAACTT
25120668 AGCAACATTT
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
65 54 1.00
ACGTcount: A:0.51, C:0.08, G:0.15, T:0.26
Consensus pattern (65 bp):
TGCATGAAAATTCAAATAAATTAAGTATGCAAAAACAAAAACGAAAATATGAAGAATACAAACTT
Found at i:25124770 original size:2 final size:2
Alignment explanation
Indices: 25124763--25124794 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
25124753 CTGAATGCTG
25124763 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25124795 TCCTATATCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25128466 original size:15 final size:15
Alignment explanation
Indices: 25128448--25128546 Score: 84
Period size: 15 Copynumber: 6.9 Consensus size: 15
25128438 AATTTTGTTT
25128448 ATAAATAATATAATA
1 ATAAATAATATAATA
*
25128463 ATAAATATTATAATA
1 ATAAATAATATAATA
* *
25128478 AGATATAATA-AATA
1 ATAAATAATATAATA
*
25128492 AT--AT-AT-TATTA
1 ATAAATAATATAATA
*
25128503 ATAAATAATATACTA
1 ATAAATAATATAATA
*
25128518 TTAATATAATA-AATTA
1 ATAA-ATAATATAA-TA
25128534 ATAAATAATATAA
1 ATAAATAATATAA
25128547 AGAATAATAA
Statistics
Matches: 66, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
11 7 0.11
12 2 0.03
13 2 0.03
14 7 0.11
15 35 0.53
16 13 0.20
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (15 bp):
ATAAATAATATAATA
Found at i:25128504 original size:18 final size:17
Alignment explanation
Indices: 25128448--25128545 Score: 82
Period size: 18 Copynumber: 5.7 Consensus size: 17
25128438 AATTTTGTTT
25128448 ATAAATAATATA-A-TA
1 ATAAATAATATATATTA
*
25128463 ATAAATATTATAATAAGATATA
1 ATAAATA--AT-AT-ATAT-TA
25128485 ATAAATAATATATTATTA
1 ATAAATAATATA-TATTA
25128503 ATAAATAATATACTATTA
1 ATAAATAATATA-TATTA
25128521 AT--ATAATA-A-ATTA
1 ATAAATAATATATATTA
25128534 ATAAATAATATA
1 ATAAATAATATA
25128546 AAGAATAATA
Statistics
Matches: 70, Mismatches: 2, Indels: 21
0.75 0.02 0.23
Matches are distributed among these distances:
13 6 0.09
15 14 0.20
16 7 0.10
17 2 0.03
18 24 0.34
19 5 0.07
20 3 0.04
22 9 0.13
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (17 bp):
ATAAATAATATATATTA
Found at i:25128602 original size:19 final size:18
Alignment explanation
Indices: 25128574--25128659 Score: 67
Period size: 19 Copynumber: 5.0 Consensus size: 18
25128564 TATTTTAAGA
*
25128574 ATTTTTATATTAACATAAT
1 ATTTTAATATTAA-ATAAT
*
25128593 ATTTTAATATTAAATATT
1 ATTTTAATATTAAATAAT
*
25128611 ATTATTAA-A--ATATAAT
1 ATT-TTAATATTAAATAAT
*
25128627 TTTTTAATATT-AAT-A-
1 ATTTTAATATTAAATAAT
*
25128642 ATTTTAATAATAAATAAT
1 ATTTTAATATTAAATAAT
25128660 TTCAATATAT
Statistics
Matches: 52, Mismatches: 8, Indels: 15
0.69 0.11 0.20
Matches are distributed among these distances:
15 13 0.25
16 12 0.23
17 3 0.06
18 8 0.15
19 16 0.31
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTTAATATTAAATAAT
Found at i:25128610 original size:15 final size:15
Alignment explanation
Indices: 25128590--25128667 Score: 50
Period size: 16 Copynumber: 4.9 Consensus size: 15
25128580 ATATTAACAT
25128590 AATATTTTAATATTA
1 AATATTTTAATATTA
* *
25128605 AATATTATTATTAAAATA
1 AATATT-TTA--ATATTA
*
25128623 TAATTTTTTAATATT-
1 -AATATTTTAATATTA
*
25128638 AATAATTTTAATAATA
1 AAT-ATTTTAATATTA
*
25128654 AATAATTTCAATAT
1 AAT-ATTTTAATAT
25128668 ATTTGAATAA
Statistics
Matches: 48, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
14 3 0.06
15 15 0.31
16 18 0.38
18 7 0.15
19 5 0.10
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (15 bp):
AATATTTTAATATTA
Found at i:25128666 original size:25 final size:26
Alignment explanation
Indices: 25128638--25128703 Score: 82
Period size: 25 Copynumber: 2.6 Consensus size: 26
25128628 TTTTAATATT
25128638 AATAATTTTAATAATAAAT-AATTTC
1 AATAATTTTAATAATAAATCAATTTC
* * *
25128663 AATATATTTGAATAATAAATCATTTTG
1 AATA-ATTTTAATAATAAATCAATTTC
25128690 AAT-ATTTTAATAAT
1 AATAATTTTAATAAT
25128704 TATATTAACA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
25 14 0.40
26 14 0.40
27 7 0.20
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (26 bp):
AATAATTTTAATAATAAATCAATTTC
Found at i:25128671 original size:26 final size:26
Alignment explanation
Indices: 25128638--25128703 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 26
25128628 TTTTAATATT
25128638 AATA-ATTTTAATAATAAATAATTTC
1 AATATATTTTAATAATAAATAATTTC
* * *
25128663 AATATATTTGAATAATAAATCATTTT
1 AATATATTTTAATAATAAATAATTTC
*
25128689 GA-ATATTTTAATAAT
1 AATATATTTTAATAAT
25128704 TATATTAACA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
25 16 0.46
26 19 0.54
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (26 bp):
AATATATTTTAATAATAAATAATTTC
Found at i:25130361 original size:29 final size:30
Alignment explanation
Indices: 25130327--25130393 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 30
25130317 AAAATTTAGA
* *
25130327 TTTTAGGGTTTTGGTTCA-AGTTTTAAGGG
1 TTTTAGGGTTTAGGTTCAGAGTTTAAAGGG
* * *
25130356 TTTTAGGGTTTAGTTTTAGGGTTTAAAGGG
1 TTTTAGGGTTTAGGTTCAGAGTTTAAAGGG
25130386 TTTTAGGG
1 TTTTAGGG
25130394 CTTGAATTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.18, C:0.01, G:0.33, T:0.48
Consensus pattern (30 bp):
TTTTAGGGTTTAGGTTCAGAGTTTAAAGGG
Found at i:25130373 original size:13 final size:13
Alignment explanation
Indices: 25130355--25130380 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25130345 AGTTTTAAGG
25130355 GTTTTAGGGTTTA
1 GTTTTAGGGTTTA
25130368 GTTTTAGGGTTTA
1 GTTTTAGGGTTTA
25130381 AAGGGTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.31, T:0.54
Consensus pattern (13 bp):
GTTTTAGGGTTTA
Found at i:25130376 original size:21 final size:21
Alignment explanation
Indices: 25130321--25130388 Score: 68
Period size: 21 Copynumber: 3.1 Consensus size: 21
25130311 ATTTTGAAAA
25130321 TTTAGATTTTAGGGTTTT--GG
1 TTTAG-TTTTAGGGTTTTAGGG
*
25130341 TTCAAGTTTTAAGGGTTTTAGGG
1 TT-TAGTTTT-AGGGTTTTAGGG
*
25130364 TTTAGTTTTAGGGTTTAAAGGG
1 TTTAGTTTTAGGGTTT-TAGGG
25130386 TTT
1 TTT
25130389 TAGGGCTTGA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
20 6 0.15
21 17 0.43
22 13 0.32
23 4 0.10
ACGTcount: A:0.19, C:0.01, G:0.29, T:0.50
Consensus pattern (21 bp):
TTTAGTTTTAGGGTTTTAGGG
Found at i:25130387 original size:30 final size:31
Alignment explanation
Indices: 25130346--25130410 Score: 96
Period size: 30 Copynumber: 2.1 Consensus size: 31
25130336 TTTGGTTCAA
* * *
25130346 GTTTTAAGGGTTTTAGGG-TTTAGTTTTAGG
1 GTTTAAAGGGTTTTAGGGCTTGAATTTTAGG
25130376 GTTTAAAGGGTTTTAGGGCTTGAATTTTAGG
1 GTTTAAAGGGTTTTAGGGCTTGAATTTTAGG
25130407 GTTT
1 GTTT
25130411 GGAAGGTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
30 17 0.55
31 14 0.45
ACGTcount: A:0.18, C:0.02, G:0.32, T:0.48
Consensus pattern (31 bp):
GTTTAAAGGGTTTTAGGGCTTGAATTTTAGG
Found at i:25130419 original size:31 final size:31
Alignment explanation
Indices: 25130354--25130501 Score: 101
Period size: 30 Copynumber: 4.9 Consensus size: 31
25130344 AAGTTTTAAG
* *
25130354 GGTTTTAGGG-TTTAGTTTTAGGGTTT-AAA
1 GGTTTTAGGGCTTGAATTTTAGGGTTTGAAA
*
25130383 GGGTTTTAGGGCTTGAATTTTAGGGTTTGGAA
1 -GGTTTTAGGGCTTGAATTTTAGGGTTTGAAA
** * **
25130415 GG-TTTAGGATTTTG-ATTTTAAGGTTTG-GG
1 GGTTTTAGG-GCTTGAATTTTAGGGTTTGAAA
* * *
25130444 GGTCTTAGGGCTTAAATTTTAAGGTTTGAAA
1 GGTTTTAGGGCTTGAATTTTAGGGTTTGAAA
* **
25130475 GG-TTTAGGGTTTTGAGGTTTAGGGTTT
1 GGTTTTAGGG-CTTGAATTTTAGGGTTT
25130502 TGATTTTAAA
Statistics
Matches: 91, Mismatches: 20, Indels: 13
0.73 0.16 0.10
Matches are distributed among these distances:
29 4 0.04
30 52 0.57
31 33 0.36
32 2 0.02
ACGTcount: A:0.20, C:0.02, G:0.34, T:0.45
Consensus pattern (31 bp):
GGTTTTAGGGCTTGAATTTTAGGGTTTGAAA
Found at i:25130494 original size:15 final size:15
Alignment explanation
Indices: 25130474--25130504 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
25130464 AAGGTTTGAA
25130474 AGGTTTAGGGTTTTG
1 AGGTTTAGGGTTTTG
25130489 AGGTTTAGGGTTTTG
1 AGGTTTAGGGTTTTG
25130504 A
1 A
25130505 TTTTAAAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.39, T:0.45
Consensus pattern (15 bp):
AGGTTTAGGGTTTTG
Found at i:25130543 original size:28 final size:28
Alignment explanation
Indices: 25130477--25130545 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
25130467 GTTTGAAAGG
* *
25130477 TTTAGGGTTTTGAGGTTTAGGGTTTTGAT
1 TTTAGGG-TTTAAGGTTTAGGATTTTGAT
**
25130506 TTTAAAGTTTAAGGTTT-GAGATTTTGAT
1 TTTAGGGTTTAAGGTTTAG-GATTTTGAT
25130534 TTTAGGGTTTAA
1 TTTAGGGTTTAA
25130546 AATTTAGGTT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
27 1 0.03
28 27 0.82
29 5 0.15
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.51
Consensus pattern (28 bp):
TTTAGGGTTTAAGGTTTAGGATTTTGAT
Found at i:25130773 original size:3 final size:3
Alignment explanation
Indices: 25130767--25130803 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
25130757 ATTATAATAA
*
25130767 TAT TAT TAA T-T TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
25130804 CCTTTCAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 1 0.03
3 30 0.97
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:25131090 original size:12 final size:11
Alignment explanation
Indices: 25131073--25131112 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
25131063 ATGACTATTA
25131073 AAAAATAATACT
1 AAAAATAATA-T
*
25131085 AAAAATAATAA
1 AAAAATAATAT
25131096 AAATAATAATAT
1 AAA-AATAATAT
25131108 AAAAA
1 AAAAA
25131113 AATTAGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 5 0.20
12 20 0.80
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAAATAATAT
Found at i:25132313 original size:29 final size:31
Alignment explanation
Indices: 25132265--25132323 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 31
25132255 AAAATCGATC
*
25132265 AATTCAATTAATTTCGAATTAAATTATTTAA
1 AATTAAATTAATTTCGAATTAAATTATTTAA
*
25132296 AATTAAATTAA-TT-GAATTATATTATTTA
1 AATTAAATTAATTTCGAATTAAATTATTTA
25132324 TTTTTATCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 14 0.54
30 2 0.08
31 10 0.38
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (31 bp):
AATTAAATTAATTTCGAATTAAATTATTTAA
Found at i:25132493 original size:22 final size:22
Alignment explanation
Indices: 25132468--25132513 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
25132458 AATAATATTT
25132468 AAATACTAAAATA-TTAAATTAA
1 AAATACTAAAA-ACTTAAATTAA
**
25132490 AAATTTTAAAAACTTAAATTAA
1 AAATACTAAAAACTTAAATTAA
25132512 AA
1 AA
25132514 TGATTAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 20 0.95
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (22 bp):
AAATACTAAAAACTTAAATTAA
Found at i:25132664 original size:13 final size:13
Alignment explanation
Indices: 25132644--25132668 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25132634 AATCAAATTA
25132644 AATTAATTCAATC
1 AATTAATTCAATC
25132657 AATTAATTCAAT
1 AATTAATTCAAT
25132669 TAAAATTAAA
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:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (13 bp):
AATTAATTCAATC
Found at i:25135731 original size:27 final size:29
Alignment explanation
Indices: 25135689--25135744 Score: 98
Period size: 27 Copynumber: 2.0 Consensus size: 29
25135679 TTTATATATT
25135689 TATTAAATAAATATTTTTATCATTAAATA
1 TATTAAATAAATATTTTTATCATTAAATA
25135718 TATT-AATAAA-ATTTTTATCATTAAATA
1 TATTAAATAAATATTTTTATCATTAAATA
25135745 AATATAGACT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 17 0.63
28 6 0.22
29 4 0.15
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (29 bp):
TATTAAATAAATATTTTTATCATTAAATA
Found at i:25135749 original size:29 final size:29
Alignment explanation
Indices: 25135689--25135793 Score: 94
Period size: 29 Copynumber: 3.6 Consensus size: 29
25135679 TTTATATATT
25135689 TATTAAATAAATATTTTTATCATTAAAT--A
1 TATT-AATAAA-ATTTTTATCATTAAATAAA
25135718 TATTAATAAAATTTTTATCATTAAATAAA
1 TATTAATAAAATTTTTATCATTAAATAAA
* *
25135747 TA-TAGACT-AAATTTTAATTA-TAAATAATA
1 TATTA-A-TAAAATTTTTATCATTAAATAA-A
*
25135776 TTTTTAATAAAATTTTTA
1 -TATTAATAAAATTTTTA
25135794 CATATTATTA
Statistics
Matches: 64, Mismatches: 4, Indels: 15
0.77 0.05 0.18
Matches are distributed among these distances:
27 16 0.25
28 15 0.23
29 20 0.31
30 11 0.17
31 2 0.03
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.48
Consensus pattern (29 bp):
TATTAATAAAATTTTTATCATTAAATAAA
Found at i:25136218 original size:2 final size:2
Alignment explanation
Indices: 25136211--25136235 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
25136201 ACATATGCAC
25136211 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
25136236 GCCTTTCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25137831 original size:23 final size:23
Alignment explanation
Indices: 25137799--25137842 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
25137789 AAAAATATAT
*
25137799 TACTTAAAGTAGTTTTTTAAATG
1 TACTTAAAGTAGTCTTTTAAATG
*
25137822 TACTTTAAGTAGTCTTTTAAA
1 TACTTAAAGTAGTCTTTTAAA
25137843 AAAGCTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.34, C:0.07, G:0.11, T:0.48
Consensus pattern (23 bp):
TACTTAAAGTAGTCTTTTAAATG
Found at i:25142487 original size:19 final size:20
Alignment explanation
Indices: 25142444--25142495 Score: 58
Period size: 19 Copynumber: 2.7 Consensus size: 20
25142434 ATTATATTTT
25142444 TTATA-ATTAAATATTTTAA
1 TTATATATTAAATATTTTAA
25142463 TT-TATATT-AAT-TTTTATA
1 TTATATATTAAATATTTTA-A
25142481 TTATATATATAAATA
1 TTATATAT-TAAATA
25142496 AAAATAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
17 5 0.19
18 8 0.30
19 10 0.37
20 1 0.04
21 3 0.11
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTATATATTAAATATTTTAA
Found at i:25145116 original size:18 final size:17
Alignment explanation
Indices: 25145093--25145127 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
25145083 CCAGCGATTG
25145093 TTATTATTATAATAATAA
1 TTATTATTAT-ATAATAA
25145111 TTATTATTATATAATAA
1 TTATTATTATATAATAA
25145128 GTGGGACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTATTATTATATAATAA
Found at i:25148253 original size:22 final size:20
Alignment explanation
Indices: 25148220--25148265 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 20
25148210 TATATTATTA
25148220 TATTTAATTTATTAATTG-AT
1 TATTTAATTTA-TAATTGAAT
25148240 TATTTAATAATTATAATTGAAT
1 TATTTAAT--TTATAATTGAAT
25148262 TATT
1 TATT
25148266 ATATACTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 8 0.35
21 6 0.26
22 9 0.39
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (20 bp):
TATTTAATTTATAATTGAAT
Found at i:25151000 original size:5 final size:5
Alignment explanation
Indices: 25150987--25151055 Score: 95
Period size: 5 Copynumber: 13.8 Consensus size: 5
25150977 TTAAAGAATA
* *
25150987 CTAAC CTAAT CTAAT CTAAT CTAAT CTAAT CTAAT CTAAT CTAAT ATAAT
1 CTAAT CTAAT CTAAT CTAAT CTAAT CTAAT CTAAT CTAAT CTAAT CTAAT
*
25151037 C-AAA CTAAAT CTAAT CTAA
1 CTAAT CT-AAT CTAAT CTAA
25151056 AAATCCTAGG
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
4 3 0.05
5 50 0.88
6 4 0.07
ACGTcount: A:0.45, C:0.20, G:0.00, T:0.35
Consensus pattern (5 bp):
CTAAT
Found at i:25152566 original size:14 final size:14
Alignment explanation
Indices: 25152549--25152579 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
25152539 TTTTTATTTT
25152549 TATTTTTTTAAAAA
1 TATTTTTTTAAAAA
25152563 TATTTTTTTAAAAA
1 TATTTTTTTAAAAA
25152577 TAT
1 TAT
25152580 ATTTGATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TATTTTTTTAAAAA
Found at i:25175365 original size:8 final size:8
Alignment explanation
Indices: 25175352--25175419 Score: 97
Period size: 8 Copynumber: 8.8 Consensus size: 8
25175342 CTATGCTTGA
25175352 AAAAAATG
1 AAAAAATG
25175360 AAAAAATG
1 AAAAAATG
25175368 -AAAAATG
1 AAAAAATG
25175375 -AAAAATG
1 AAAAAATG
25175382 AAAAAATG
1 AAAAAATG
25175390 -AAAAATG
1 AAAAAATG
25175397 AAAAAATG
1 AAAAAATG
*
25175405 AAAATGATG
1 AAAA-AATG
25175414 AAAAAA
1 AAAAAA
25175420 GGTGAACAAG
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
7 21 0.38
8 27 0.49
9 7 0.13
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (8 bp):
AAAAAATG
Found at i:25175371 original size:7 final size:7
Alignment explanation
Indices: 25175353--25175418 Score: 87
Period size: 7 Copynumber: 8.7 Consensus size: 7
25175343 TATGCTTGAA
25175353 AAAAATG
1 AAAAATG
25175360 AAAAAATG
1 -AAAAATG
25175368 AAAAATG
1 AAAAATG
25175375 AAAAATG
1 AAAAATG
25175382 AAAAAATG
1 -AAAAATG
25175390 AAAAATG
1 AAAAATG
25175397 AAAAAATG
1 -AAAAATG
25175405 AAAATGATG
1 AAAA--ATG
25175414 AAAAA
1 AAAAA
25175419 AGGTGAACAA
Statistics
Matches: 54, Mismatches: 0, Indels: 9
0.86 0.00 0.14
Matches are distributed among these distances:
7 26 0.48
8 21 0.39
9 7 0.13
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:25175373 original size:15 final size:15
Alignment explanation
Indices: 25175352--25175419 Score: 102
Period size: 15 Copynumber: 4.4 Consensus size: 15
25175342 CTATGCTTGA
25175352 AAAAAATGAAAAAATG
1 AAAAAATG-AAAAATG
25175368 -AAAAATGAAAAATG
1 AAAAAATGAAAAATG
25175382 AAAAAATGAAAAATG
1 AAAAAATGAAAAATG
25175397 AAAAAATGAAAATGATG
1 AAAAAATGAAAA--ATG
25175414 AAAAAA
1 AAAAAA
25175420 GGTGAACAAG
Statistics
Matches: 49, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
14 7 0.14
15 33 0.67
17 9 0.18
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (15 bp):
AAAAAATGAAAAATG
Found at i:25176508 original size:42 final size:41
Alignment explanation
Indices: 25176435--25176762 Score: 474
Period size: 42 Copynumber: 8.0 Consensus size: 41
25176425 GTCTAGGAGT
25176435 ATTTACTTTTCC-AAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTAC-TTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
* *
25176475 ATTTACTTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
25176517 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
*
25176557 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
25176599 ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
25176641 ATTTACTTTTCC-AAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTAC-TTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
*
25176681 ATTTACTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
25176722 ATTTACTTTCCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
1 ATTTACTTTCC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGC
25176763 TTTGGTAAAA
Statistics
Matches: 268, Mismatches: 8, Indels: 22
0.90 0.03 0.07
Matches are distributed among these distances:
39 9 0.03
40 73 0.27
41 53 0.20
42 133 0.50
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (41 bp):
ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
Found at i:25176534 original size:82 final size:81
Alignment explanation
Indices: 25176435--25176762 Score: 477
Period size: 82 Copynumber: 4.0 Consensus size: 81
25176425 GTCTAGGAGT
* *
25176435 ATTTACTTTTCCAAGTTCGT-TGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCGTGGTA
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCAATTTAC-TTTCCAAAGTCGTGGTA
25176499 CCTCTGTTTAGAGGAGCA
64 CCTCTGTTTAGAGGAGCA
25176517 ATTTACTTTTCAAAGTTCGT-TGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTA
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCAATTTAC-TTTCCAAAGTCGTGGTA
25176581 CCTCTGTTTAGAGGAGCA
64 CCTCTGTTTAGAGGAGCA
25176599 ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCC-AAGTTCGT--
1 ATTTACTTTT-CAAAGTCGT-GTGCCTCTGTTTAGAGGAGCAATTTAC-TTTCCAAAG-TCGTGG
*
25176661 TGCCTCTGTTTAGAGGAGCA
62 TACCTCTGTTTAGAGGAGCA
* * *
25176681 ATTTACTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTCCAAAAGTCGTGGTG
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCAATTTACTTTCC-AAAGTCGTGGTA
25176746 CCTCTGTTTAGAGGAGC
64 CCTCTGTTTAGAGGAGC
25176763 TTTGGTAAAA
Statistics
Matches: 233, Mismatches: 5, Indels: 15
0.92 0.02 0.06
Matches are distributed among these distances:
80 5 0.02
81 40 0.17
82 125 0.54
83 27 0.12
84 36 0.15
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (81 bp):
ATTTACTTTTCAAAGTCGTGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTACC
TCTGTTTAGAGGAGCA
Found at i:25176620 original size:124 final size:124
Alignment explanation
Indices: 25176435--25176762 Score: 567
Period size: 124 Copynumber: 2.7 Consensus size: 124
25176425 GTCTAGGAGT
* *
25176435 ATTTACTTTTCC-AAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCGTGG
1 ATTTACTTTTCCAAAG-TCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGG
*
25176497 TACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
65 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
25176557 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGT
1 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGT
*
25176622 GCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCA
66 GCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
25176681 ATTTAC-TTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTAC-TTTCCAAAAGTCGTGG
1 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCC-AAAGTCGTGG
25176744 TGCCTCTGTTTAGAGGAGC
65 TGCCTCTGTTTAGAGGAGC
25176763 TTTGGTAAAA
Statistics
Matches: 198, Mismatches: 4, Indels: 7
0.95 0.02 0.03
Matches are distributed among these distances:
122 21 0.11
123 73 0.37
124 104 0.53
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (124 bp):
ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGT
GCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
Found at i:25176796 original size:20 final size:20
Alignment explanation
Indices: 25176771--25176809 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
25176761 GCTTTGGTAA
25176771 AAAAAAAAAAACAAAAAAAC
1 AAAAAAAAAAACAAAAAAAC
*
25176791 AAAAAAAAAAATAAAAAAA
1 AAAAAAAAAAACAAAAAAA
25176810 AAACCAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.92, C:0.05, G:0.00, T:0.03
Consensus pattern (20 bp):
AAAAAAAAAAACAAAAAAAC
Found at i:25176799 original size:23 final size:23
Alignment explanation
Indices: 25176769--25176820 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
25176759 GAGCTTTGGT
*
25176769 AAAAAAAAAAA-AACAAAAAAAC
1 AAAAAAAAAAATAAAAAAAAAAC
25176791 AAAAAAAAAAATAAAAAAAAAAC
1 AAAAAAAAAAATAAAAAAAAAAC
*
25176814 CAAAAAA
1 AAAAAAA
25176821 TGTTGAGTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 11 0.41
23 16 0.59
ACGTcount: A:0.90, C:0.08, G:0.00, T:0.02
Consensus pattern (23 bp):
AAAAAAAAAAATAAAAAAAAAAC
Found at i:25176818 original size:8 final size:8
Alignment explanation
Indices: 25176769--25176820 Score: 65
Period size: 8 Copynumber: 6.6 Consensus size: 8
25176759 GAGCTTTGGT
25176769 AAAAAA-A
1 AAAAAACA
25176776 AAAAAACA
1 AAAAAACA
25176784 AAAAAACA
1 AAAAAACA
25176792 AAAAAA-A
1 AAAAAACA
25176799 AAATAAA-A
1 AAA-AAACA
25176807 AAAAAACCA
1 AAAAAA-CA
25176816 AAAAA
1 AAAAA
25176821 TGTTGAGTTG
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
7 13 0.32
8 22 0.54
9 6 0.15
ACGTcount: A:0.90, C:0.08, G:0.00, T:0.02
Consensus pattern (8 bp):
AAAAAACA
Found at i:25176820 original size:1 final size:1
Alignment explanation
Indices: 25176769--25176812 Score: 61
Period size: 1 Copynumber: 44.0 Consensus size: 1
25176759 GAGCTTTGGT
* * *
25176769 AAAAAAAAAAAAACAAAAAAACAAAAAAAAAAATAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
25176813 CCAAAAAATG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.93, C:0.05, G:0.00, T:0.02
Consensus pattern (1 bp):
A
Found at i:25177066 original size:35 final size:36
Alignment explanation
Indices: 25177050--25177135 Score: 70
Period size: 35 Copynumber: 2.4 Consensus size: 36
25177040 ATATATGTAT
* * * *
25177050 ATATT-TATTTATTTATTTTTTGTTAATATTTATGT
1 ATATTATATTTATTTATGTATTATTAATAATTATGT
* * *
25177085 GTATTTTA-TTATTTATGTATTATTACTAA-TATGT
1 ATATTATATTTATTTATGTATTATTAATAATTATGT
*
25177119 ATATATATATTTTTTTA
1 ATAT-TATATTTATTTA
25177136 ATCTTTTTTA
Statistics
Matches: 39, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
34 8 0.21
35 23 0.59
36 8 0.21
ACGTcount: A:0.29, C:0.01, G:0.06, T:0.64
Consensus pattern (36 bp):
ATATTATATTTATTTATGTATTATTAATAATTATGT
Found at i:25177105 original size:16 final size:16
Alignment explanation
Indices: 25177001--25177105 Score: 60
Period size: 16 Copynumber: 6.6 Consensus size: 16
25176991 TCTTTTGTAT
*
25177001 TTTATGTATTGTATTA
1 TTTATGTATTTTATTA
25177017 TTTAT-TA--TTATTA
1 TTTATGTATTTTATTA
*
25177030 -TTATGTA-TTAATATA
1 TTTATGTATTTTAT-TA
* *
25177045 TGTATATA-TTTATTTA
1 TTTATGTATTTTA-TTA
* * *
25177061 TTTATTTTTTGTTAATA
1 TTTATGTATT-TTATTA
25177078 TTTATGTGTATTTTATTA
1 TTTA--TGTATTTTATTA
25177096 TTTATGTATT
1 TTTATGTATT
25177106 ATTACTAATA
Statistics
Matches: 68, Mismatches: 12, Indels: 18
0.69 0.12 0.18
Matches are distributed among these distances:
12 4 0.06
13 7 0.10
14 3 0.04
15 4 0.06
16 26 0.38
17 8 0.12
18 12 0.18
19 4 0.06
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.65
Consensus pattern (16 bp):
TTTATGTATTTTATTA
Found at i:25178170 original size:10 final size:10
Alignment explanation
Indices: 25178155--25178192 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
25178145 TGTAATATTC
25178155 TTTTTATTTA
1 TTTTTATTTA
25178165 TTTTTATTTA
1 TTTTTATTTA
25178175 TTATTTA-TTA
1 TT-TTTATTTA
25178185 -TTTTATTT
1 TTTTTATTT
25178193 TCTTTAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 4 0.15
9 3 0.12
10 15 0.58
11 4 0.15
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:25178280 original size:57 final size:56
Alignment explanation
Indices: 25178219--25178664 Score: 583
Period size: 59 Copynumber: 7.6 Consensus size: 56
25178209 AAAAATATAT
*
25178219 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCTTTAGAAATAAATTTCCAAAAA
1 ATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAA
* * *
25178276 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAGATAAATTTCAAAAAAAA
1 ATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC--CAAAAA
25178335 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAA
1 ATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAA
* *
25178392 ATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCAAAAAAAA
1 ATATTTTTGG-GAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC--CAAAAA
*
25178451 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCAAAATTTCAAAAAAA
1 ATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTC-CAAAAA
* *
25178511 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAATAAATTTTCAAAAA
1 ATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAA
25178568 A-AGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAATTTCCAAAAA
1 ATA---TTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTCCAAAAA
*
25178629 ATATTTTTGGAAAAAAGTTGAAAGTATCAATTTTCC
1 ATATTTTTGG-GAAAAGTTGAAAGTATCAATTTTCC
25178665 CTACAAAAAA
Statistics
Matches: 351, Mismatches: 19, Indels: 36
0.86 0.05 0.09
Matches are distributed among these distances:
56 3 0.01
57 105 0.30
58 10 0.03
59 162 0.46
60 49 0.14
61 21 0.06
62 1 0.00
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.35
Consensus pattern (56 bp):
ATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAA
Found at i:25178365 original size:116 final size:117
Alignment explanation
Indices: 25178219--25178664 Score: 688
Period size: 116 Copynumber: 3.8 Consensus size: 117
25178209 AAAAATATAT
*
25178219 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTT-CTTTAGAAAT-AAATTTCCAAAAAATATTT
1 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGA-AAATCAAATTTCCAAAAAATATTT
* *
25178282 TTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAGATAAATTTCAAAAAAAA
65 TTGGAGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCAAAAAAAA
25178335 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAAT-AAATTTCCAAAAAATATTT
1 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGA-AAATCAAATTTCCAAAAAATATTT
25178398 TTGGAGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCAAAAAAAA
65 TTGGAGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCAAAAAAAA
*
25178451 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCAAAAAAAATATT
1 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATC-AAATTTC-CAAAAAATATT
* * *
25178516 TTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAATAAATTTTC-AAAAAAA
64 TTTGGAGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAA-TTTCAAAAAAAA
***
25178570 GGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCGAAATTTCCAAAAAATATT
1 ATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATC-AAATTTCCAAAAAATATT
*
25178634 TTTGGAAAAAAGTTGAAAGTATCAATTTTCC
64 TTTGGAGAAAAGTTGAAAGTATCAATTTTCC
25178665 CTACAAAAAA
Statistics
Matches: 309, Mismatches: 14, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
116 152 0.49
117 4 0.01
118 46 0.15
119 103 0.33
120 4 0.01
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.35
Consensus pattern (117 bp):
ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAATTTCCAAAAAATATTTT
TGGAGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCAAAAAAAA
Found at i:25185622 original size:59 final size:60
Alignment explanation
Indices: 25185459--25186049 Score: 717
Period size: 59 Copynumber: 9.8 Consensus size: 60
25185449 TTTTGTTAAG
* * * *
25185459 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTCTTGAAATTTTAATTTC-GA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTGATTTCTAA
*
25185517 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTTTTTTTTGAAAATTT-ATTTCT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA--TA-----TTTTTTTTGAAAATTTGATTTCT
25185581 AA
59 AA
*
25185583 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTT-ATTTCCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTGATTTCTAA
* *
25185642 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTGGAAATTTGGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTT-GATTTCT-AA
* *** *
25185701 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA-CCCTTTTTTG-AAATTT-ATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTGATTTCTAA
* * *
25185758 GGAAAATTGATACTTTCGACTTTTCCCCAAAAATATTTTTTTGGAAATTTTGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTGATTTCT-AA
* * *
25185818 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTGAAATTTTGATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTTTGAAAATTTGATTTCTAA
* * * *
25185880 AGAAAATTGATACTCTCAACTTTTCCCTAAAAATATTTTTTTTGAAAATTTTAATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAA-TTTGATTTCT-AA
*
25185941 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGGAAATTT-ATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTGATTTCTAA
*
25185998 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAAATTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTTGAAAATTT
25186050 TTATTTTTAT
Statistics
Matches: 473, Mismatches: 32, Indels: 54
0.85 0.06 0.10
Matches are distributed among these distances:
57 90 0.19
58 43 0.09
59 116 0.25
60 74 0.16
61 41 0.09
62 55 0.12
63 1 0.00
64 2 0.00
65 5 0.01
66 46 0.10
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (60 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTGATTTCTAA
Found at i:25186001 original size:240 final size:233
Alignment explanation
Indices: 25185459--25186049 Score: 808
Period size: 240 Copynumber: 2.5 Consensus size: 233
25185449 TTTTGTTAAG
*
25185459 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTCTTGAAATTTTAATTTC-GAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTT-TTGAAA-TTT-ATTTCTAAGGAAAA
* *
25185523 TTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTTTTTTTTGAAAATTTATTTCTAAGGAAA
63 TTGATACTTTCAACTTTTCCCCAAAAA--TA-----TTTTTTTGGAAAATTTATTTCTAAGGAAA
*
25185588 ATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTCCAAGGAAAATTGAT
121 ATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTCCAAAGAAAATTGAT
* * *
25185653 ACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTGGATTTTCAA
186 ACTCTCAACTTTTCCCTAAAAATATTTTTTGAAAATTTGAATTTTCAA
* ** *
25185701 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTGAAATTTATTTTTAAGGAAAATT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTGAAATTTATTTCTAAGGAAAATT
* *
25185766 GATACTTTCGACTTTTCCCCAAAAATATTTTTTTGGAAATTTTGATTT-TCAAGGAAAATTGATA
65 GATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAAATTT-ATTTCT-AAGGAAAATTGATA
* * **
25185830 CTTTCAACTTTTCCCTAAAAATATTTTTTTTTTGAAATTTTGATTTTTAAAGAAAATTGATACTC
128 CTTTCAACTTTTCCCCAAAAATA--TTTTTTTTGAAAATTT-ATTTCCAAAGAAAATTGATACTC
*
25185895 TCAACTTTTCCCTAAAAATATTTTTTTTGAAAATTTTAATTTTCAA
190 TCAACTTTTCCCTAAAAATA--TTTTTTGAAAATTTGAATTTTCAA
25185941 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGGAAAATT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT-GAAATTTATTTCTAAGGAAAATT
* *
25186006 GATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAAATTT
65 GATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGGAAAATTT
25186050 TTATTTTTAT
Statistics
Matches: 312, Mismatches: 26, Indels: 23
0.86 0.07 0.06
Matches are distributed among these distances:
234 15 0.05
235 40 0.13
237 15 0.05
238 39 0.12
239 8 0.03
240 104 0.33
241 49 0.16
242 38 0.12
243 4 0.01
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (233 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAATTTATTTCTAAGGAAAATTG
ATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAAATTTATTTCTAAGGAAAATTGATACTT
TCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTCCAAAGAAAATTGATACTCTCAACT
TTTCCCTAAAAATATTTTTTGAAAATTTGAATTTTCAA
Found at i:25186045 original size:299 final size:296
Alignment explanation
Indices: 25185454--25186030 Score: 896
Period size: 299 Copynumber: 1.9 Consensus size: 296
25185444 TTTTTTTTTG
*
25185454 TTAAGGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTCTTGAAATTTTAATTTCGAGG
1 TTAAGGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTCTTGAAATTTTAATTTCAAGG
*
25185519 AAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTTTTTTTTGAAAATTTATTTCTAAG
66 AAAATTGATACTTTCAACTTTTCCTCAAAAA-TTA--TTTTTTTTTTTGAAAATTTATTTCTAAA
*
25185584 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTCCAAGGAAAAT
128 GAAAATTGATACTCTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTCCAAGGAAAAT
*
25185649 TGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTGGATTTTCAAGGAAAATTGATAC
193 TGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTT-GATTTTCAAGGAAAATTGATAC
*
25185714 TTTCAACTTTTCCTCAAAAACCCTTTTTTGAAATTTATTT
257 TTTCAACTTTTCCTAAAAAACCCTTTTTTGAAATTTATTT
* * *
25185754 TTAA-GGAAAATTGATACTTTCGACTTTTCCCCAAAAATATTTTTTTGGAAATTTTGATTTTCAA
1 TTAAGGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTCTT-GAAATTTT-AATTTCAA
* *
25185818 GGAAAATTGATACTTTCAACTTTTCC-CTAAAAA-TA-TTTTTTTTTTGAAATTTTGATTTTTAA
64 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAATTATTTTTTTTTTTGAAAATTT-ATTTCTAA
* *
25185880 AGAAAATTGATACTCTCAACTTTTCCCTAAAAATATTTTTTTTGAAAATTTTAATTTTCAAGGAA
127 AGAAAATTGATACTCTCAACTTTTCCCCAAAAATATTTTTTTTGAAAA-TTT-ATTTCCAAGGAA
25185945 AATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTT-A-TTTCTAAGGAAAATTGA
190 AATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTGATTTTC-AAGGAAAATTGA
25186008 TACTTTCAACTTTTCCCTAAAAA
254 TACTTTCAACTTTT-CCTAAAAA
25186031 TATTTTTTTT
Statistics
Matches: 257, Mismatches: 12, Indels: 18
0.90 0.04 0.06
Matches are distributed among these distances:
296 21 0.08
297 79 0.31
298 10 0.04
299 97 0.38
300 13 0.05
301 37 0.14
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.44
Consensus pattern (296 bp):
TTAAGGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTCTTGAAATTTTAATTTCAAGG
AAAATTGATACTTTCAACTTTTCCTCAAAAATTATTTTTTTTTTTGAAAATTTATTTCTAAAGAA
AATTGATACTCTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTCCAAGGAAAATTGA
TACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTGATTTTCAAGGAAAATTGATACTTTC
AACTTTTCCTAAAAAACCCTTTTTTGAAATTTATTT
Found at i:25186544 original size:20 final size:19
Alignment explanation
Indices: 25186494--25186545 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
25186484 CACCGATGGG
*
25186494 ATTTCGCCGGATTCTGGAA
1 ATTTCGCCGGAATCTGGAA
25186513 ATTCTCGCCGGAATCTGGAAA
1 ATT-TCGCCGGAATCTGG-AA
*
25186534 ATTTCGTCGGAA
1 ATTTCGCCGGAA
25186546 GTTCGCCGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 3 0.10
20 21 0.72
21 5 0.17
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (19 bp):
ATTTCGCCGGAATCTGGAA
Found at i:25186733 original size:25 final size:25
Alignment explanation
Indices: 25186686--25186739 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
25186676 AATCTGGAAA
*
25186686 TTTCCCAGAAATTTCCAGAAAATTT
1 TTTCCCAAAAATTTCCAGAAAATTT
*
25186711 TTTCGCCAAAAATTTCTAG-AAATTT
1 TTTC-CCAAAAATTTCCAGAAAATTT
25186736 TTTC
1 TTTC
25186740 TCACTCCCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 14 0.54
26 12 0.46
ACGTcount: A:0.33, C:0.19, G:0.07, T:0.41
Consensus pattern (25 bp):
TTTCCCAAAAATTTCCAGAAAATTT
Found at i:25187102 original size:3 final size:3
Alignment explanation
Indices: 25187094--25187130 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
25187084 GATAATTAAA
25187094 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
25187131 GATAAACCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:25187108 original size:42 final size:39
Alignment explanation
Indices: 25186993--25187108 Score: 103
Period size: 44 Copynumber: 2.9 Consensus size: 39
25186983 TTAGCCCTCC
*
25186993 AAAATCAAAA-ATAA--AAAAATACTAGATAATAATCAGA
1 AAAATCAAAAGATAATTAAAAATAATA-ATAATAATCAGA
* * * * *
25187030 TAAATCAAAAGATATTTAAAAAAAAAAATCTGATAATCAGGA
1 AAAATCAAAAGATAATTAAAAATAATAA--TAATAATCA-GA
25187072 AAAATCAGAACAGATAATTAAAAATAATAATAATAAT
1 AAAATCA-AA-AGATAATTAAAAATAATAATAATAAT
25187109 AATAATAATA
Statistics
Matches: 60, Mismatches: 11, Indels: 11
0.73 0.13 0.13
Matches are distributed among these distances:
37 9 0.15
38 3 0.05
39 1 0.02
40 7 0.12
41 8 0.13
42 14 0.23
43 2 0.03
44 16 0.27
ACGTcount: A:0.64, C:0.07, G:0.07, T:0.22
Consensus pattern (39 bp):
AAAATCAAAAGATAATTAAAAATAATAATAATAATCAGA
Found at i:25187264 original size:40 final size:41
Alignment explanation
Indices: 25187163--25187264 Score: 113
Period size: 40 Copynumber: 2.5 Consensus size: 41
25187153 AAAAAAAAAA
* *
25187163 AATAATAATAATAATAAATATATAACTATATACATATAAATCT
1 AATAATAATAA-AATAAATAAATAAATATATACATATAAA-CT
*
25187206 AAT-CTAATAAAA-AAATAAATAAATATATACATA-ATAA-T
1 AATAATAATAAAATAAATAAATAAATATATACATATA-AACT
*
25187244 AATAATAATAAAATACATAAA
1 AATAATAATAAAATAAATAAA
25187265 ATACAAAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
38 4 0.08
39 9 0.18
40 27 0.53
41 2 0.04
42 6 0.12
43 3 0.06
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (41 bp):
AATAATAATAAAATAAATAAATAAATATATACATATAAACT
Found at i:25187845 original size:19 final size:19
Alignment explanation
Indices: 25187821--25187859 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
25187811 TTACTTTTTC
25187821 TTTTTTATTTAT-TATGAAT
1 TTTTTTATTT-TGTATGAAT
25187840 TTTTTTATTTTGTATGAAT
1 TTTTTTATTTTGTATGAAT
25187859 T
1 T
25187860 GAATTTTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 1 0.05
19 18 0.95
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (19 bp):
TTTTTTATTTTGTATGAAT
Found at i:25192975 original size:121 final size:120
Alignment explanation
Indices: 25192838--25193081 Score: 307
Period size: 121 Copynumber: 2.0 Consensus size: 120
25192828 TAAAATTTTA
* * *
25192838 ATTGTCTATGGAATATATATAG-CACATTAAAAGTACATTACATACACTAATTAATCTAGTTATG
1 ATTGTCTATGGAATATATATAGTCA-ATTAAAAATACACTACATACACTAATTAATCTAG-GATG
* * *
25192902 AAATATATAT-TTGT-AA-TTGAATATAAAATGTATAAATTAATAACTCATACCATCTTG
64 AAATAGATATCTT-TCAACAT-AATATAAAATGTATAAATTAATAACT-ACACCATCTTG
* * *
25192959 ATTGTGTATGGAATATATATAGTGAATTAAAAATACACTACATACACTAATTAATCTAGGATGTA
1 ATTGTCTATGGAATATATATAGTCAATTAAAAATACACTACATACACTAATTAATCTAGGATGAA
* *
25193024 ATAGATATCCTTTCAACATAATATATAGTGTATAAATTAATAACTACACCATCTTG
66 ATAGATAT-CTTTCAACATAATATAAAATGTATAAATTAATAACTACACCATCTTG
25193080 AT
1 AT
25193082 ACTTTTAACG
Statistics
Matches: 107, Mismatches: 11, Indels: 10
0.84 0.09 0.08
Matches are distributed among these distances:
120 11 0.10
121 66 0.62
122 29 0.27
123 1 0.01
ACGTcount: A:0.43, C:0.11, G:0.10, T:0.36
Consensus pattern (120 bp):
ATTGTCTATGGAATATATATAGTCAATTAAAAATACACTACATACACTAATTAATCTAGGATGAA
ATAGATATCTTTCAACATAATATAAAATGTATAAATTAATAACTACACCATCTTG
Found at i:25195182 original size:158 final size:158
Alignment explanation
Indices: 25194955--25195273 Score: 387
Period size: 158 Copynumber: 2.0 Consensus size: 158
25194945 ATTTTTAACA
* * * * * * * *
25194955 AACCAACCTAATCATTCCATGCAATAATCAGTTTTAGTTCGATTAATCTTCAAACATTGAATGAA
1 AACCAACCCAATCATTCCATACAATAATCAATCTTAGTTAGATTAATCTTCAAACACTAAATCAA
*
25195020 AAAAA-ATATAGAGAAT-TAACTAAAATCAT-TTAAAAATTACCAATAAAAATAAAAAGAAAACA
66 AAAAACATA-A-AGAATAT-ACTAAAATCATCTTAAAAATCACCAATAAAAATAAAAAGAAAACA
25195082 ATTATAAAGAT-AAAATCAAACAATTATCAAG
128 ATTATAAAG-TCAAAATCAAACAATTATCAAG
* *
25195113 AACCAACCCAATCATTCCATACAATGATCAATCTTAGTTAGATTAA-CTTTCAAACCCTAAATCA
1 AACCAACCCAATCATTCCATACAATAATCAATCTTAGTTAGATTAATC-TTCAAACACTAAATCA
* * * ** *
25195177 CAAAAACATAAAGAATATGCTAAAGTCATCTTAAAAATCACCAATAAAAATATGAAGAAAAGAAT
65 AAAAAACATAAAGAATATACTAAAATCATCTTAAAAATCACCAATAAAAATAAAAAGAAAACAAT
* *
25195242 TATAAAGTCAAAATTAAACAATTGTCAAG
130 TATAAAGTCAAAATCAAACAATTATCAAG
25195271 AAC
1 AAC
25195274 AACAAAGAAA
Statistics
Matches: 137, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
157 16 0.12
158 118 0.86
159 3 0.02
ACGTcount: A:0.52, C:0.16, G:0.07, T:0.25
Consensus pattern (158 bp):
AACCAACCCAATCATTCCATACAATAATCAATCTTAGTTAGATTAATCTTCAAACACTAAATCAA
AAAAACATAAAGAATATACTAAAATCATCTTAAAAATCACCAATAAAAATAAAAAGAAAACAATT
ATAAAGTCAAAATCAAACAATTATCAAG
Found at i:25197050 original size:20 final size:20
Alignment explanation
Indices: 25197003--25197054 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
25196993 ATTTAAAATT
* *
25197003 ATAATATTTTTTATATTTTC
1 ATAATATTTTTAATATTTTA
25197023 AT-ATATTTTTAATATTTTA
1 ATAATATTTTTAATATTTTA
*
25197042 ATAAAATTTTTAA
1 ATAATATTTTTAA
25197055 AAATTCAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
ATAATATTTTTAATATTTTA
Found at i:25200888 original size:71 final size:71
Alignment explanation
Indices: 25200670--25200869 Score: 391
Period size: 71 Copynumber: 2.8 Consensus size: 71
25200660 AGTCAATAAC
*
25200670 AAATTTAATTTATAATTGAAAACGTTGTGATAAATCAAAACATTTCATTTTCAATCTTAGAAGTC
1 AAATTTAATTTACAATTGAAAACGTTGTGATAAATCAAAACATTTCATTTTCAATCTTAGAAGTC
25200735 AACATT
66 AACATT
25200741 AAATTTAATTTACAATTGAAAACGTTGTGATAAATCAAAACATTTCATTTTCAATCTTAGAAGTC
1 AAATTTAATTTACAATTGAAAACGTTGTGATAAATCAAAACATTTCATTTTCAATCTTAGAAGTC
25200806 AACATT
66 AACATT
25200812 AAATTTAATTTACAATTGAAAACGTTGTGATAAATCAAAACATTTCATTTTCAATCTT
1 AAATTTAATTTACAATTGAAAACGTTGTGATAAATCAAAACATTTCATTTTCAATCTT
25200870 TTTTGTTTGA
Statistics
Matches: 128, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 128 1.00
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.38
Consensus pattern (71 bp):
AAATTTAATTTACAATTGAAAACGTTGTGATAAATCAAAACATTTCATTTTCAATCTTAGAAGTC
AACATT
Found at i:25201922 original size:19 final size:19
Alignment explanation
Indices: 25201886--25201925 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
25201876 AAATAATTTT
25201886 TTTATTATTAATGTATAAA
1 TTTATTATTAATGTATAAA
*
25201905 TTTATATATTATTG-ATAAA
1 TTTAT-TATTAATGTATAAA
25201924 TT
1 TT
25201926 AGATAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (19 bp):
TTTATTATTAATGTATAAA
Found at i:25202402 original size:15 final size:13
Alignment explanation
Indices: 25202368--25202401 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
25202358 GAATCTTTCA
25202368 TATATATATAAAT
1 TATATATATAAAT
25202381 TATATATATAAA-
1 TATATATATAAAT
25202393 TATA-ATATA
1 TATATATATA
25202402 TGAGCATGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 5 0.24
12 4 0.19
13 12 0.57
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TATATATATAAAT
Found at i:25203187 original size:2 final size:2
Alignment explanation
Indices: 25203180--25203211 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
25203170 TATTGTTTCT
25203180 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25203212 AGTATACGTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:25205045 original size:5 final size:5
Alignment explanation
Indices: 25205035--25205062 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
25205025 CCAGCCCCCT
25205035 CCGAG CCGAG CCGAG CCGAG CCGAG CCG
1 CCGAG CCGAG CCGAG CCGAG CCGAG CCG
25205063 CGATCCGAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.43, G:0.39, T:0.00
Consensus pattern (5 bp):
CCGAG
Found at i:25205139 original size:28 final size:27
Alignment explanation
Indices: 25205082--25205153 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 27
25205072 CCACTCCAGG
*
25205082 TTTTTTT-TTTT-TTTTTTTCTTTGAA
1 TTTTTTTATTTTATTTATTTCTTTGAA
25205107 TTTTTTTATTTTATTTATTTCTTTG--
1 TTTTTTTATTTTATTTATTTCTTTGAA
25205132 TTTATTTTAATTTTTATTTATT
1 TTT-TTTT-A-TTTTATTTATT
25205154 AGATTAGGTT
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
25 10 0.24
26 8 0.20
27 12 0.29
28 11 0.27
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.81
Consensus pattern (27 bp):
TTTTTTTATTTTATTTATTTCTTTGAA
Found at i:25205294 original size:59 final size:56
Alignment explanation
Indices: 25205232--25205683 Score: 595
Period size: 59 Copynumber: 7.7 Consensus size: 56
25205222 AAATTCCAAA
*
25205232 AAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCTTTAGAAATAAATTTCC
1 AAAAA-ATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
* *
25205290 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCAAAA
1 AAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC---C
25205350 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
1 AAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
* *
25205407 AAAAACTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
1 AAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
*
25205464 AAAAAA-AGGGTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAATTTCC
1 AAAAAATA---TTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTCC
*
25205525 AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCA
1 AAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA-TTTCC
* *
25205583 AAAAAAGAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTT-GAAAATCGAAATTTCC
1 AAAAAATA-TTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTCC
25205643 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCC
25205684 CTACAAAAAA
Statistics
Matches: 354, Mismatches: 20, Indels: 39
0.86 0.05 0.09
Matches are distributed among these distances:
56 1 0.00
57 110 0.31
58 20 0.06
59 137 0.39
60 69 0.19
61 16 0.05
62 1 0.00
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.35
Consensus pattern (56 bp):
AAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
Found at i:25205555 original size:118 final size:117
Alignment explanation
Indices: 25205248--25205683 Score: 684
Period size: 118 Copynumber: 3.7 Consensus size: 117
25205238 ATATTTTTAG
*
25205248 GGAAAAGTTGAAAGTATCAATTTT-CTTTAGAAATAAATTTCCAAAAAATATTTTTGGGGAAAAG
1 GGAAAAGTTGAAAGTATCAATTTTCCTTGAGAAATAAATTTCCAAAAAATATTTTTGGGGAAAAG
* * * *
25205312 TTGAAAGTATCAATTTTCCTCAGAAATAAA-TTTCAAAAAAAAAATATTTTTA
66 TTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAAAGAGT-TTTTGA
*
25205364 GGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAATAAATTTCCAAAAACTATTTTTGGGGAAAA
1 -GGAAAAGTTGAAAGTATCAATTTTCCTTGAGAAATAAATTTCCAAAAAATATTTTTGGGGAAAA
*
25205428 GTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAAAGGGTTTTTGA
65 GTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAAAGAGTTTTTGA
* *
25205481 GAAAAAGTTGAAAGTATCAATTTTCCTTGA-AAATCGAAATTTCCAAAAAATATTTTTGGGAAAA
1 GGAAAAGTTGAAAGTATCAATTTTCCTTGAGAAAT--AAATTTCCAAAAAATATTTTTGGGGAAA
25205545 AGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAAAGAGTTTTTGA
64 AGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAAAGAGTTTTTGA
* *
25205599 GGAAAAGTTGAAAGTATCAATTTTTCTTGA-AAATCGAAATTTCCAAAAAATATTTTTAGGGAAA
1 GGAAAAGTTGAAAGTATCAATTTTCCTTGAGAAAT--AAATTTCCAAAAAATATTTTTGGGGAAA
25205663 AGTTGAAAGTATCAATTTTCC
64 AGTTGAAAGTATCAATTTTCC
25205684 CTACAAAAAA
Statistics
Matches: 300, Mismatches: 14, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
116 31 0.10
117 94 0.31
118 175 0.58
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.34
Consensus pattern (117 bp):
GGAAAAGTTGAAAGTATCAATTTTCCTTGAGAAATAAATTTCCAAAAAATATTTTTGGGGAAAAG
TTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAAAGAGTTTTTGA
Found at i:25209436 original size:9 final size:10
Alignment explanation
Indices: 25209424--25209477 Score: 53
Period size: 9 Copynumber: 5.5 Consensus size: 10
25209414 TTTTTTCTTT
25209424 TGTATT-TTA
1 TGTATTATTA
25209433 TGTATT-TTA
1 TGTATTATTA
25209442 T-TATTTATTA
1 TGTA-TTATTA
25209452 T-TATTATTA
1 TGTATTATTA
25209461 TGTATTAATATA
1 TGTATT-AT-TA
25209473 TGTAT
1 TGTAT
25209478 ATCTTTATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
8 2 0.05
9 19 0.47
10 10 0.25
11 2 0.05
12 7 0.17
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (10 bp):
TGTATTATTA
Found at i:25209448 original size:16 final size:16
Alignment explanation
Indices: 25209429--25209562 Score: 68
Period size: 16 Copynumber: 8.2 Consensus size: 16
25209419 TCTTTTGTAT
25209429 TTTATGTATT-TTATTA
1 TTTAT-TATTATTATTA
25209445 TTTATTATTATTATTA
1 TTTATTATTATTATTA
*
25209461 TGTATTAATATATGTA-TA
1 TTTATT-AT-TAT-TATTA
*
25209479 TCT-TTATTTATTTATTTA
1 TTTATTA-TTA-TTA-TTA
* * *
25209497 TTTATTCTTTTGTTAATA
1 TTTA-T-TATTATTATTA
25209515 TTTA-TATGTATT-TTA
1 TTTATTAT-TATTATTA
25209530 TTTA-TA-TAGTTA-TA
1 TTTATTATTA-TTATTA
25209544 TTTATTATTATTATTA
1 TTTATTATTATTATTA
25209560 TTT
1 TTT
25209563 TATCTTGTAA
Statistics
Matches: 92, Mismatches: 9, Indels: 34
0.68 0.07 0.25
Matches are distributed among these distances:
13 2 0.02
14 8 0.09
15 19 0.21
16 31 0.34
17 6 0.07
18 17 0.18
19 5 0.05
20 3 0.03
21 1 0.01
ACGTcount: A:0.28, C:0.01, G:0.04, T:0.66
Consensus pattern (16 bp):
TTTATTATTATTATTA
Found at i:25209649 original size:19 final size:19
Alignment explanation
Indices: 25209627--25209671 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
25209617 TGTTAATTTT
*
25209627 ATTTTTATTCATTTATCTG
1 ATTTTTATTCAATTATCTG
*
25209646 ATTTTT-TTTAATTATCTG
1 ATTTTTATTCAATTATCTG
*
25209664 ATTATTAT
1 ATTTTTAT
25209672 GATTTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.24, C:0.07, G:0.04, T:0.64
Consensus pattern (19 bp):
ATTTTTATTCAATTATCTG
Found at i:25215185 original size:13 final size:13
Alignment explanation
Indices: 25215167--25215193 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
25215157 AGATGGCAAG
25215167 ACATGTCTAAAGC
1 ACATGTCTAAAGC
25215180 ACATGTCTAAAGC
1 ACATGTCTAAAGC
25215193 A
1 A
25215194 TGACACATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (13 bp):
ACATGTCTAAAGC
Found at i:25215996 original size:3 final size:3
Alignment explanation
Indices: 25215988--25216024 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
25215978 ATTGTTAATA
25215988 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
25216025 GATGTTGTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:25216910 original size:134 final size:133
Alignment explanation
Indices: 25216665--25216930 Score: 424
Period size: 134 Copynumber: 2.0 Consensus size: 133
25216655 TTCCTGGTTA
* * * * *
25216665 GGGTTGACGCCAAAGTCAAGATGTATCTCCTCTCTAGACAATGCTATATCTTCTGTTATAGTTGA
1 GGGTTGACGCAAAAGTCAAGATATATCTCCTCTCTAAACAATGCAATATCTTATGTTATAGTTGA
* * *
25216730 CGCATGGACCGGTTTGGTTTCCACCATCAGAGTTTCTGCGTGCTTTCCATCAAGAATTTTGTTGG
66 CGCATGGACCAGTTTGGTTTCCACCATCAGAGTTACTGCGTACTTTCCA-CAAGAATTTTGTTGG
25216795 ATGC
130 ATGC
*
25216799 GGGTTGACGCAAAAGTCAAGATATATCTCCTCTCTAAATAATGCAATATCTTATGTTATAGTTGA
1 GGGTTGACGCAAAAGTCAAGATATATCTCCTCTCTAAACAATGCAATATCTTATGTTATAGTTGA
* *
25216864 CGCATGTACCAGTTTGGTTTCTACCATCAGAGTTACTGCGTACTTTCCACAAGAATTTTGTTGGA
66 CGCATGGACCAGTTTGGTTTCCACCATCAGAGTTACTGCGTACTTTCCACAAGAATTTTGTTGGA
25216929 TG
131 TG
25216931 AGGGGGCCAT
Statistics
Matches: 121, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
133 18 0.15
134 103 0.85
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.35
Consensus pattern (133 bp):
GGGTTGACGCAAAAGTCAAGATATATCTCCTCTCTAAACAATGCAATATCTTATGTTATAGTTGA
CGCATGGACCAGTTTGGTTTCCACCATCAGAGTTACTGCGTACTTTCCACAAGAATTTTGTTGGA
TGC
Found at i:25221696 original size:30 final size:28
Alignment explanation
Indices: 25221654--25221738 Score: 98
Period size: 28 Copynumber: 3.0 Consensus size: 28
25221644 AGGGTGTGGA
* *
25221654 AGGTTTATGGTTTTGATTTTAAGGTTTAG
1 AGGTTTAGGGTTTTGATTTTAAAGTTT-G
* *
25221683 AGATTTTAGGGTTTTGGTTTTAAAGTTTG
1 AG-GTTTAGGGTTTTGATTTTAAAGTTTG
* *
25221712 AGGTTTGGGGTTTTGATTTTAGAGTTT
1 AGGTTTAGGGTTTTGATTTTAAAGTTT
25221739 AAAAATTTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
28 21 0.45
29 5 0.11
30 21 0.45
ACGTcount: A:0.19, C:0.00, G:0.29, T:0.52
Consensus pattern (28 bp):
AGGTTTAGGGTTTTGATTTTAAAGTTTG
Found at i:25221758 original size:21 final size:22
Alignment explanation
Indices: 25221729--25221769 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
25221719 GGGTTTTGAT
*
25221729 TTTAGAGTTTAAAAATTTTTTG
1 TTTAGAGTTTAAAAAGTTTTTG
*
25221751 TTTA-AGTTTCAAAAGTTTT
1 TTTAGAGTTTAAAAAGTTTT
25221770 GGGGTCTAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.54
Consensus pattern (22 bp):
TTTAGAGTTTAAAAAGTTTTTG
Found at i:25221828 original size:15 final size:14
Alignment explanation
Indices: 25221778--25221846 Score: 66
Period size: 15 Copynumber: 4.7 Consensus size: 14
25221768 TTGGGGTCTA
25221778 GATTTTAGGGTTTTG
1 GATTTTAGGG-TTTG
* * *
25221793 AATTTAAAGAGTTTG
1 GATTT-TAGGGTTTG
*
25221808 GATTTAAGGGTTTG
1 GATTTTAGGGTTTG
25221822 GATTTTAGGGTTTTG
1 GATTTTAGGG-TTTG
*
25221837 AATTTTAGGG
1 GATTTTAGGG
25221847 ATTTAAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
14 17 0.38
15 25 0.56
16 3 0.07
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.46
Consensus pattern (14 bp):
GATTTTAGGGTTTG
Found at i:25223283 original size:19 final size:20
Alignment explanation
Indices: 25223261--25223298 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
25223251 AAATACAATA
*
25223261 ATAAAAATTA-AACAAAAAT
1 ATAAAAAATAGAACAAAAAT
25223280 ATAAAAAATAGAACAAAAA
1 ATAAAAAATAGAACAAAAA
25223299 AAAAAGGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.76, C:0.05, G:0.03, T:0.16
Consensus pattern (20 bp):
ATAAAAAATAGAACAAAAAT
Found at i:25223567 original size:26 final size:26
Alignment explanation
Indices: 25223523--25223572 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
25223513 AAACAACAAT
*
25223523 TAATAAATAATAAAAAAAATAATTTC
1 TAATAAATAATAAAAAAAAAAATTTC
*
25223549 TAATAAATAA-AAATCAAAAAAATT
1 TAATAAATAATAAA-AAAAAAAATT
25223573 ATTTTTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 3 0.14
26 18 0.86
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (26 bp):
TAATAAATAATAAAAAAAAAAATTTC
Found at i:25225650 original size:21 final size:21
Alignment explanation
Indices: 25225625--25225677 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
25225615 AAATCTTTTG
*
25225625 TGATTTTGGTAA-TTTTATATA
1 TGATTTTGATAACTTTTA-ATA
*
25225646 TGATTATGATAACTTTTAATA
1 TGATTTTGATAACTTTTAATA
*
25225667 TAATTTTGATA
1 TGATTTTGATA
25225678 GGATTCAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 22 0.81
22 5 0.19
ACGTcount: A:0.34, C:0.02, G:0.11, T:0.53
Consensus pattern (21 bp):
TGATTTTGATAACTTTTAATA
Found at i:25229064 original size:22 final size:20
Alignment explanation
Indices: 25229028--25229086 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
25229018 ATTTTAATTT
25229028 TAAAATATATTTTAAAATAA
1 TAAAATATATTTTAAAATAA
*
25229048 TAAAATATTAATTTTAAAATAT
1 TAAAATA-T-ATTTTAAAATAA
**
25229070 TTTAATATATTTTAAAA
1 TAAAATATATTTTAAAA
25229087 AATTATAAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 16 0.47
21 2 0.06
22 16 0.47
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TAAAATATATTTTAAAATAA
Found at i:25232448 original size:10 final size:10
Alignment explanation
Indices: 25232433--25232458 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
25232423 TAATAAAATC
25232433 TTAAAATTTA
1 TTAAAATTTA
25232443 TTAAAATTTA
1 TTAAAATTTA
25232453 TTAAAA
1 TTAAAA
25232459 AATAATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
TTAAAATTTA
Found at i:25233162 original size:15 final size:15
Alignment explanation
Indices: 25233142--25233170 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
25233132 ATTTTTTTTC
25233142 ATTATTTTATTATTT
1 ATTATTTTATTATTT
25233157 ATTATTTTATTATT
1 ATTATTTTATTATT
25233171 ATTTTATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
ATTATTTTATTATTT
Found at i:25233169 original size:18 final size:18
Alignment explanation
Indices: 25233148--25233183 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
25233138 TTTCATTATT
25233148 TTATTA-TTTATTATTTTA
1 TTATTATTTTA-TATTTTA
25233166 TTATTATTTTATATTTTA
1 TTATTATTTTATATTTTA
25233184 AGCAAATAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TTATTATTTTATATTTTA
Found at i:25233177 original size:8 final size:8
Alignment explanation
Indices: 25233137--25233170 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
25233127 AAAATATTTT
25233137 TTTTCATTA
1 TTTT-ATTA
25233146 TTTTATTA
1 TTTTATTA
25233154 -TTTATTA
1 TTTTATTA
25233161 TTTTATTA
1 TTTTATTA
25233169 TT
1 TT
25233171 ATTTTATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 7 0.29
8 13 0.54
9 4 0.17
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTTATTA
Found at i:25233401 original size:28 final size:28
Alignment explanation
Indices: 25233371--25233441 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
25233361 ATTTCTCTAA
* *
25233371 TTTATATATAAGTTTACCATTTAGTACAT
1 TTTATATA-AAATTTACCATTTAATACAT
* *
25233400 TTTCTCTAAAATTTACCATTTAATACAT
1 TTTATATAAAATTTACCATTTAATACAT
* *
25233428 TTTCTCTAAAATTT
1 TTTATATAAAATTT
25233442 CAGCTTTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
28 32 0.84
29 6 0.16
ACGTcount: A:0.34, C:0.14, G:0.03, T:0.49
Consensus pattern (28 bp):
TTTATATAAAATTTACCATTTAATACAT
Found at i:25233450 original size:28 final size:28
Alignment explanation
Indices: 25233383--25233441 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
25233373 TATATATAAG
*
25233383 TTTACCATTTAGTACATTTTCTCTAAAA
1 TTTACCATTTAATACATTTTCTCTAAAA
25233411 TTTACCATTTAATACATTTTCTCTAAAA
1 TTTACCATTTAATACATTTTCTCTAAAA
25233439 TTT
1 TTT
25233442 CAGCTTTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.32, C:0.17, G:0.02, T:0.49
Consensus pattern (28 bp):
TTTACCATTTAATACATTTTCTCTAAAA
Found at i:25241138 original size:13 final size:13
Alignment explanation
Indices: 25241120--25241144 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25241110 GATGGCAAGA
25241120 CATGTCTAAAGCG
1 CATGTCTAAAGCG
25241133 CATGTCTAAAGC
1 CATGTCTAAAGC
25241145 ATGACACATT
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:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (13 bp):
CATGTCTAAAGCG
Found at i:25241937 original size:3 final size:3
Alignment explanation
Indices: 25241929--25241972 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
25241919 TATTGTTGAT
25241929 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
25241973 GTTGTTGTTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:25243708 original size:21 final size:21
Alignment explanation
Indices: 25243670--25243721 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 21
25243660 TTCAAAATTA
25243670 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTT-AAAT
25243692 ATAAAATATTA-TTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
25243712 ATAAATATAT
1 ATAAA-ATAT
25243722 AAATATATCT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.31
21 9 0.31
22 11 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATAAAATATTATTTTTTAAAT
Found at i:25243717 original size:19 final size:21
Alignment explanation
Indices: 25243669--25243719 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 21
25243659 ATTCAAAATT
25243669 AATA-AAATATTATTTTTTAA
1 AATATAAATATTATTTTTTAA
25243689 AATATAAAATATTA-TTTTT-A
1 AATAT-AAATATTATTTTTTAA
25243709 AATATAAATAT
1 AATATAAATAT
25243720 ATAAATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.21
20 10 0.34
21 5 0.17
22 8 0.28
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
AATATAAATATTATTTTTTAA
Found at i:25243844 original size:32 final size:31
Alignment explanation
Indices: 25243808--25243872 Score: 103
Period size: 32 Copynumber: 2.1 Consensus size: 31
25243798 TTCGATCTCA
25243808 ATTTTCACTTAATAATACCCGATTCAATCCTG
1 ATTTTCACTTAATAATACCCGATTCAAT-CTG
* *
25243840 ATTTTTACTTAATAATACCCGATTTAATCTG
1 ATTTTCACTTAATAATACCCGATTCAATCTG
25243871 AT
1 AT
25243873 CTGAAACTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 5 0.16
32 26 0.84
ACGTcount: A:0.32, C:0.20, G:0.06, T:0.42
Consensus pattern (31 bp):
ATTTTCACTTAATAATACCCGATTCAATCTG
Found at i:25245198 original size:58 final size:57
Alignment explanation
Indices: 25245133--25245641 Score: 517
Period size: 58 Copynumber: 8.7 Consensus size: 57
25245123 TTTGTGCAGA
* * * *
25245133 GAAAATTGATACTTTCAACTTTTTCCATAAAATATTCTTTTGAAACTTTAATTTCGAG
1 GAAAATTGATACTTTCAACTTTTTCCA-AAAATATTTTTTTGAAAATTTATTTTCAAG
* * * *
25245191 AAAAATTGATACTTTTAACTTTTCCTCCAAAATTTATTCTTTTGAAAATTTA--TT-AAG
1 GAAAATTGATACTTTCAACTTTT--TCCAAAA-ATATTTTTTTGAAAATTTATTTTCAAG
* * * *
25245248 GAAAATTGATACTTTCAACTTTTCCTCAAAAGTTGATTTATTTGAAAATTTATTTTTAAG
1 GAAAATTGATACTTTCAACTTTTTC-CAAAA-AT-ATTTTTTTGAAAATTTATTTTCAAG
* * *
25245308 GAAAATTGATATTTTCAACTTTTCTCCAAAAATATTTTTTGGAAACTTTGATTTTCAAG
1 GAAAATTGATACTTTCAACTTTT-TCCAAAAATATTTTTTTGAAAATTT-ATTTTCAAG
* * * *
25245367 GAAAATTGATACTTTCAACTTTTCCTCAAAATCTTTTTTTTTTGAAAATTTATTTTTAAG
1 GAAAATTGATACTTTCAACTTTTTC-CAAAA--ATATTTTTTTGAAAATTTATTTTCAAG
* * * *
25245427 AAAAATTGATACTTTCAACTTTTCCTCAAAAACATTTTTTTGAAAACTTTAATTTCGAA-
1 GAAAATTGATACTTTCAACTTTTTC-CAAAAATATTTTTTTGAAAA-TTTATTTTC-AAG
* * * * *
25245486 AAAAATTGATACTTTCAAC-TTTTCCTCAAAA-ATTGTTTTAAAAATTTATTTTTAAG
1 GAAAATTGATACTTTCAACTTTTTCC-AAAAATATTTTTTTGAAAATTTATTTTCAAG
* * *
25245542 GAAAATTGATACTTTCAACTTTTCTCTAAAAATATTTTTTTAAAAACTTATTTTCAAG
1 GAAAATTGATACTTTCAACTTTT-TCCAAAAATATTTTTTTGAAAATTTATTTTCAAG
*
25245600 GAAAATTGATATTTTCAACTTTTTCCCAAAAATATATTTTTT
1 GAAAATTGATACTTTCAACTTTTT-CCAAAAATAT-TTTTTT
25245642 CCTTGAAATT
Statistics
Matches: 384, Mismatches: 45, Indels: 43
0.81 0.10 0.09
Matches are distributed among these distances:
55 3 0.01
56 32 0.08
57 58 0.15
58 112 0.29
59 73 0.19
60 91 0.24
61 15 0.04
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (57 bp):
GAAAATTGATACTTTCAACTTTTTCCAAAAATATTTTTTTGAAAATTTATTTTCAAG
Found at i:25245393 original size:119 final size:117
Alignment explanation
Indices: 25245133--25245630 Score: 585
Period size: 119 Copynumber: 4.3 Consensus size: 117
25245123 TTTGTGCAGA
* * **
25245133 GAAAATTGATACTTTCAACTTTTTCCAT-AAAA-T-ATTCTTTTGAAACTTTAATTTCGAGAAAA
1 GAAAATTGATACTTTCAAC-TTTTCC-TCAAAATTGATT-TTTTGAAAATTTATTTTTAAGAAAA
* * *
25245195 ATTGATACTTTTAACTTTTCCTCCAAAATTTATTCTTTTGAAAA-TTTA--TT-AAG
63 ATTGATACTTTCAACTTTT-CTCCAAAA-ATATTTTTTTGAAAACTTTATTTTCAAG
*
25245248 GAAAATTGATACTTTCAACTTTTCCTCAAAAGTTGATTTATTTGAAAATTTATTTTTAAGGAAAA
1 GAAAATTGATACTTTCAACTTTTCCTCAAAA-TTGATTT-TTTGAAAATTTATTTTTAAGAAAAA
* *
25245313 TTGATATTTTCAACTTTTCTCCAAAAATA-TTTTTTGGAAACTTTGATTTTCAAG
64 TTGATACTTTCAACTTTTCTCCAAAAATATTTTTTTGAAAACTTT-ATTTTCAAG
**
25245367 GAAAATTGATACTTTCAACTTTTCCTCAAAATCTTTTTTTTTTGAAAATTTATTTTTAAGAAAAA
1 GAAAATTGATACTTTCAACTTTTCCTCAAAA--TTGATTTTTTGAAAATTTATTTTTAAGAAAAA
* *
25245432 TTGATACTTTCAACTTTTC-CTCAAAAACATTTTTTTGAAAACTTTAATTTCGAA-
64 TTGATACTTTCAACTTTTCTC-CAAAAATATTTTTTTGAAAACTTTATTTTC-AAG
* * *
25245486 AAAAATTGATACTTTCAACTTTTCCTCAAAA---ATTGTTTTAAAAATTTATTTTTAAGGAAAAT
1 GAAAATTGATACTTTCAACTTTTCCTCAAAATTGATT-TTTTGAAAATTTATTTTTAAGAAAAAT
* *
25245548 TGATACTTTCAACTTTTCTCTAAAAATATTTTTTTAAAAAC-TTATTTTCAAG
65 TGATACTTTCAACTTTTCTCCAAAAATATTTTTTTGAAAACTTTATTTTCAAG
*
25245600 GAAAATTGATATTTTCAACTTTTTCC-CAAAA
1 GAAAATTGATACTTTCAAC-TTTTCCTCAAAA
25245631 ATATATTTTT
Statistics
Matches: 337, Mismatches: 28, Indels: 37
0.84 0.07 0.09
Matches are distributed among these distances:
113 3 0.01
114 50 0.15
115 91 0.27
116 12 0.04
117 39 0.12
118 3 0.01
119 118 0.35
120 21 0.06
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.44
Consensus pattern (117 bp):
GAAAATTGATACTTTCAACTTTTCCTCAAAATTGATTTTTTGAAAATTTATTTTTAAGAAAAATT
GATACTTTCAACTTTTCTCCAAAAATATTTTTTTGAAAACTTTATTTTCAAG
Found at i:25247156 original size:19 final size:19
Alignment explanation
Indices: 25247132--25247169 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
25247122 ACGATGGCCT
25247132 CCGACTCTGAACCTTGGTG
1 CCGACTCTGAACCTTGGTG
25247151 CCGACTCTGAACCTTGGTG
1 CCGACTCTGAACCTTGGTG
25247170 AGATGATAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.32, G:0.26, T:0.26
Consensus pattern (19 bp):
CCGACTCTGAACCTTGGTG
Found at i:25247814 original size:29 final size:30
Alignment explanation
Indices: 25247767--25247833 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
25247757 ATCAGATAAT
*
25247767 AATAAAAAAAAAAAAAATAAATCAT-AAA-A
1 AATAAAAATAAAAAAAATAAAT-ATGAAATA
**
25247796 AATAAAAATAAAATTAATAAATATGAAATA
1 AATAAAAATAAAAAAAATAAATATGAAATA
25247826 AA-AAAAAT
1 AATAAAAAT
25247834 CTAAAACAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 2 0.06
29 28 0.85
30 3 0.09
ACGTcount: A:0.78, C:0.01, G:0.01, T:0.19
Consensus pattern (30 bp):
AATAAAAATAAAAAAAATAAATATGAAATA
Found at i:25247815 original size:22 final size:22
Alignment explanation
Indices: 25247764--25247816 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
25247754 TTTATCAGAT
25247764 AATAATAAAAAAAAAAAAAATA
1 AATAATAAAAAAAAAAAAAATA
* *
25247786 AATCATAAAAAATAAAAATAA-A
1 AATAATAAAAAA-AAAAAAAATA
*
25247808 ATTAATAAA
1 AATAATAAA
25247817 TATGAAATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 19 0.73
23 7 0.27
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (22 bp):
AATAATAAAAAAAAAAAAAATA
Found at i:25249086 original size:32 final size:32
Alignment explanation
Indices: 25249010--25249094 Score: 91
Period size: 32 Copynumber: 2.7 Consensus size: 32
25249000 AGTTTCTACA
* * *
25249010 TTTATTTAATAATTTATATATTTATGTCATAT
1 TTTATATAAAAATTTATATATTTATATCATAT
*** * *
25249042 AAAATATTAAAATTTATATATTTATATTATAT
1 TTTATATAAAAATTTATATATTTATATCATAT
25249074 TTTATATAAAAA-TTATATATT
1 TTTATATAAAAATTTATATATT
25249095 ATAATTTATG
Statistics
Matches: 41, Mismatches: 12, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
31 9 0.22
32 32 0.78
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (32 bp):
TTTATATAAAAATTTATATATTTATATCATAT
Found at i:25250010 original size:19 final size:20
Alignment explanation
Indices: 25249978--25250015 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
25249968 TATATGCTTT
*
25249978 AAAAAAGAATAATTTTATTC
1 AAAAAAGAATAATTATATTC
*
25249998 AAAAAATAA-AATTATATT
1 AAAAAAGAATAATTATATT
25250016 ATTCTAATCC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAAAAGAATAATTATATTC
Found at i:25250830 original size:3 final size:3
Alignment explanation
Indices: 25250824--25250856 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
25250814 TTCTTTTCAA
25250824 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
25250857 TTGCTTCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:25254924 original size:14 final size:16
Alignment explanation
Indices: 25254895--25254930 Score: 58
Period size: 14 Copynumber: 2.4 Consensus size: 16
25254885 ATAAAAGAGA
25254895 AAATTTTAACAAATTT
1 AAATTTTAACAAATTT
25254911 AAATTTT-A-AAATTT
1 AAATTTTAACAAATTT
25254925 AAATTT
1 AAATTT
25254931 ATTAAATATC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 12 0.60
15 1 0.05
16 7 0.35
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
AAATTTTAACAAATTT
Found at i:25260742 original size:35 final size:35
Alignment explanation
Indices: 25260688--25260754 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
25260678 AGTTGTAAAG
* * *
25260688 ATTTATTTATTAGTAGATTGGGTTTGGAGTAGGCC
1 ATTTATTTACTAGTAGATTGAGTTTGAAGTAGGCC
* *
25260723 ATTTATTTGCTAGTGGATTGAGTTTGAAGTAG
1 ATTTATTTACTAGTAGATTGAGTTTGAAGTAG
25260755 ATCATTTTGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.24, C:0.04, G:0.28, T:0.43
Consensus pattern (35 bp):
ATTTATTTACTAGTAGATTGAGTTTGAAGTAGGCC
Found at i:25265134 original size:2 final size:2
Alignment explanation
Indices: 25265127--25265155 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
25265117 TAATACTAGC
25265127 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
25265156 AAACTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25266042 original size:2 final size:2
Alignment explanation
Indices: 25266029--25266064 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
25266019 TGTTTCATAC
*
25266029 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25266065 GGTGTTCTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Done.