Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 3 of 185
Found at i:705196 original size:29 final size:27
Alignment explanation
Indices: 705139--705202 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 27
705129 ATTTGGCATT
* *
705139 ATTTGATTTTTAATAGTATAAGGATTA
1 ATTTGATTTTTAATAGTAGAAGGACTA
705166 ATTTGATCTATTTAATAGTAG-AGAGACTA
1 ATTTGAT-T-TTTAATAGTAGAAG-GACTA
705195 ATTTGATT
1 ATTTGATT
705203 AGATCCCTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 7 0.22
28 4 0.12
29 21 0.66
ACGTcount: A:0.36, C:0.03, G:0.16, T:0.45
Consensus pattern (27 bp):
ATTTGATTTTTAATAGTAGAAGGACTA
Found at i:705464 original size:14 final size:14
Alignment explanation
Indices: 705441--705477 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
705431 AAAATTATCG
705441 ATTAAA-ATTTAAT
1 ATTAAATATTTAAT
705454 ATTAAATATTTAAT
1 ATTAAATATTTAAT
*
705468 A-CAAATATTT
1 ATTAAATATTT
705478 GTTAAGAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 14 0.64
14 8 0.36
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (14 bp):
ATTAAATATTTAAT
Found at i:717084 original size:33 final size:34
Alignment explanation
Indices: 717047--717112 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
717037 AGCTTCAAGA
*
717047 TTTTCA-TTAATGACTTGTTCCTTTATTCAACCT
1 TTTTCATTTAATGACTTGTTACTTTATTCAACCT
* *
717080 TTTTCATTTAATGCCTTGTTATTTTATTCAACC
1 TTTTCATTTAATGACTTGTTACTTTATTCAACC
717113 ATAAGTAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 6 0.21
34 23 0.79
ACGTcount: A:0.21, C:0.20, G:0.06, T:0.53
Consensus pattern (34 bp):
TTTTCATTTAATGACTTGTTACTTTATTCAACCT
Found at i:718377 original size:13 final size:13
Alignment explanation
Indices: 718359--718385 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
718349 TTGTTAATAA
718359 TCTATAGGGTAAG
1 TCTATAGGGTAAG
718372 TCTATAGGGTAAG
1 TCTATAGGGTAAG
718385 T
1 T
718386 AGTAATGCCC
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:0.30, C:0.07, G:0.30, T:0.33
Consensus pattern (13 bp):
TCTATAGGGTAAG
Found at i:720779 original size:22 final size:23
Alignment explanation
Indices: 720751--720796 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
720741 TTTACATGGG
720751 TAAAAAAAT-GATAATAA-AATAA
1 TAAAAAAATAG-TAATAAGAATAA
*
720773 TAAAAAAGTAGTAATAAGAATAA
1 TAAAAAAATAGTAATAAGAATAA
720796 T
1 T
720797 TTTTAATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (23 bp):
TAAAAAAATAGTAATAAGAATAA
Found at i:724557 original size:14 final size:14
Alignment explanation
Indices: 724538--724573 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
724528 ATTAATTTTG
724538 ATAAAATAAAATAA
1 ATAAAATAAAATAA
*
724552 ATAAAATAAAATTA
1 ATAAAATAAAATAA
*
724566 ATATAATA
1 ATAAAATA
724574 TTTTCGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
ATAAAATAAAATAA
Found at i:733565 original size:29 final size:29
Alignment explanation
Indices: 733524--733579 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
733514 TATATAATTA
733524 ATTTTAATGTTTATAATA-TAAAAATAAAT
1 ATTTTAATGTTTA-AATAGTAAAAATAAAT
*
733553 ATTTTATAT-TTTAAATAGTGAAAATAA
1 ATTTTA-ATGTTTAAATAGTAAAAATAA
733580 TTTAAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 4 0.17
29 18 0.75
30 2 0.08
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (29 bp):
ATTTTAATGTTTAAATAGTAAAAATAAAT
Found at i:734895 original size:17 final size:18
Alignment explanation
Indices: 734870--734903 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
734860 AGTAAAGTTG
734870 ATAACTTTTAT-TTTTTA
1 ATAACTTTTATATTTTTA
*
734887 ATAATTTTTATATTTTT
1 ATAACTTTTATATTTTT
734904 TGAATTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (18 bp):
ATAACTTTTATATTTTTA
Found at i:748700 original size:20 final size:18
Alignment explanation
Indices: 748675--748730 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 18
748665 ATTGAATTTG
748675 TTTTAATTATTTACGTAAAA
1 TTTTAATT-TTTAC-TAAAA
748695 TTTTAATTTTTACT-AAA
1 TTTTAATTTTTACTAAAA
748712 TTATTAAATTTTTA-TAAAA
1 TT-TT-AATTTTTACTAAAA
748731 ATAAATTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
17 5 0.15
18 4 0.12
19 16 0.48
20 8 0.24
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.54
Consensus pattern (18 bp):
TTTTAATTTTTACTAAAA
Found at i:753032 original size:15 final size:15
Alignment explanation
Indices: 753012--753040 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
753002 TAAACCCAAC
753012 AGAAGCAGCAGCAGA
1 AGAAGCAGCAGCAGA
753027 AGAAGCAGCAGCAG
1 AGAAGCAGCAGCAG
753041 CGTTGAAGAA
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:0.45, C:0.21, G:0.34, T:0.00
Consensus pattern (15 bp):
AGAAGCAGCAGCAGA
Found at i:753921 original size:29 final size:31
Alignment explanation
Indices: 753864--753922 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
753854 ATTTTTAAAA
**
753864 TTTTAACTTTTTTTGATATATTTCTAAATTT
1 TTTTAACTTTTTTTGATATATTTAAAAATTT
*
753895 TTTTAA-TTTTTTTTATA-ATTTAAAAATT
1 TTTTAACTTTTTTTGATATATTTAAAAATT
753923 GGAATTTCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.36
30 10 0.40
31 6 0.24
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (31 bp):
TTTTAACTTTTTTTGATATATTTAAAAATTT
Found at i:754562 original size:24 final size:25
Alignment explanation
Indices: 754535--754582 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
754525 AGAGAAAAGT
754535 TTAAAGAACATAAAA-GAAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAAA
** *
754559 TTAAATTACTTAAAACGAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAA
754583 TATGGGGATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.19
Consensus pattern (25 bp):
TTAAAGAACATAAAACGAAAAAAAA
Found at i:755506 original size:16 final size:16
Alignment explanation
Indices: 755485--755537 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
755475 TAGTTAACAA
*
755485 TATTTTATATCATTCT
1 TATTTTAGATCATTCT
* *
755501 TATTTT-GATCACTCA
1 TATTTTAGATCATTCT
* *
755516 TATTTTAGATCGTTTT
1 TATTTTAGATCATTCT
755532 TATTTT
1 TATTTT
755538 GGTCACTTCC
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
15 12 0.41
16 17 0.59
ACGTcount: A:0.23, C:0.11, G:0.06, T:0.60
Consensus pattern (16 bp):
TATTTTAGATCATTCT
Found at i:755522 original size:31 final size:31
Alignment explanation
Indices: 755484--755544 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
755474 TTAGTTAACA
*
755484 ATATTTTATATCATTCTTATTTTGATCACTC
1 ATATTTTAGATCATTCTTATTTTGATCACTC
* * *
755515 ATATTTTAGATCGTTTTTATTTTGGTCACT
1 ATATTTTAGATCATTCTTATTTTGATCACT
755545 TCCTATTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.23, C:0.13, G:0.08, T:0.56
Consensus pattern (31 bp):
ATATTTTAGATCATTCTTATTTTGATCACTC
Found at i:769133 original size:87 final size:89
Alignment explanation
Indices: 769033--769202 Score: 263
Period size: 89 Copynumber: 1.9 Consensus size: 89
769023 GATCTAATAC
* * ** * *
769033 CTCTATCATATCGATCTACAATATTATCTATA-TAA-ATATATATTTAATGACTAAATTCTTTTT
1 CTCTATCAGATCGATCTAAAATATTATCTATATTAATATATATACCTAACGACTAAATTATTTTT
769096 ATATAAAACAAATAGTTAAGATAT
66 ATATAAAACAAATAGTTAAGATAT
*
769120 CTCTATCAGATCGATCTAAAATATTATCTATATTAATATATATACCTAACGATTAAATTATTTTT
1 CTCTATCAGATCGATCTAAAATATTATCTATATTAATATATATACCTAACGACTAAATTATTTTT
769185 ATATAAAACAAATAGTTA
66 ATATAAAACAAATAGTTA
769203 TAAATTTATC
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
87 30 0.41
88 3 0.04
89 41 0.55
ACGTcount: A:0.43, C:0.12, G:0.05, T:0.41
Consensus pattern (89 bp):
CTCTATCAGATCGATCTAAAATATTATCTATATTAATATATATACCTAACGACTAAATTATTTTT
ATATAAAACAAATAGTTAAGATAT
Found at i:769596 original size:23 final size:24
Alignment explanation
Indices: 769555--769599 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
769545 CATAATTTAT
769555 TTATAAAAAAATAACTTTATAAAG
1 TTATAAAAAAATAACTTTATAAAG
*
769579 TTATAAAAAAATTA-TTTATAA
1 TTATAAAAAAATAACTTTATAA
769600 GAAAAGTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (24 bp):
TTATAAAAAAATAACTTTATAAAG
Found at i:769679 original size:12 final size:14
Alignment explanation
Indices: 769652--769686 Score: 56
Period size: 12 Copynumber: 2.6 Consensus size: 14
769642 ATAGAAGTTA
769652 TATATTATAGTTTT
1 TATATTATAGTTTT
769666 TATATTA-A-TTTT
1 TATATTATAGTTTT
769678 TATATTATA
1 TATATTATA
769687 AATAGGGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 11 0.55
13 2 0.10
14 7 0.35
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (14 bp):
TATATTATAGTTTT
Found at i:772097 original size:16 final size:16
Alignment explanation
Indices: 772064--772098 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
772054 AACATTAAAG
**
772064 AAAGAAAAAGGAGGAA
1 AAAGAAAAAGGAAAAA
772080 AAAGAAAAAGGAAAAA
1 AAAGAAAAAGGAAAAA
772096 AAA
1 AAA
772099 TTCCCTACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (16 bp):
AAAGAAAAAGGAAAAA
Found at i:773716 original size:77 final size:77
Alignment explanation
Indices: 773617--773841 Score: 324
Period size: 77 Copynumber: 2.9 Consensus size: 77
773607 CTTTGGAAAT
* * * * * *
773617 TTAAATACCTAAATTATACATCATATTAGGACCAAATCCTTTTAAGGTAAACTTCAATCTACATG
1 TTAAATACCTATAGTATTCATCATATTAGGGCCAAATCCTTTTAAAGTAAACTCCAATCTACATG
* *
773682 ATAGAAGAAAAT
66 ATAGAAAAAAAA
** *
773694 TTAAATATTTATAGTATTCATCATATTAGGGCCAAACCCTTTTAAAGTAAACTCCAATCTACATG
1 TTAAATACCTATAGTATTCATCATATTAGGGCCAAATCCTTTTAAAGTAAACTCCAATCTACATG
773759 ATAGAAAAAAAA
66 ATAGAAAAAAAA
* * *
773771 TTAAATACCTATATTATTCATCATATTAGGGCCATATCCTTTTAAAGTGAACTCCAATCTACATG
1 TTAAATACCTATAGTATTCATCATATTAGGGCCAAATCCTTTTAAAGTAAACTCCAATCTACATG
773836 ATAGAA
66 ATAGAA
773842 CAGAATAAAA
Statistics
Matches: 131, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
77 131 1.00
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.32
Consensus pattern (77 bp):
TTAAATACCTATAGTATTCATCATATTAGGGCCAAATCCTTTTAAAGTAAACTCCAATCTACATG
ATAGAAAAAAAA
Found at i:775524 original size:25 final size:23
Alignment explanation
Indices: 775476--775526 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 23
775466 TTTATTTGCA
775476 ATTTTTTAAAATTTAAATACTTTT
1 ATTTTTTAAAATTTAAATA-TTTT
775500 ATTTTTATAAAATTCTACAAT-TTTT
1 ATTTTT-TAAAATT-TA-AATATTTT
775525 AT
1 AT
775527 ATCTTATGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
24 6 0.25
25 13 0.54
26 2 0.08
27 3 0.12
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (23 bp):
ATTTTTTAAAATTTAAATATTTT
Found at i:775562 original size:24 final size:22
Alignment explanation
Indices: 775522--775603 Score: 58
Period size: 24 Copynumber: 3.5 Consensus size: 22
775512 TTCTACAATT
*
775522 TTTATATCTTATGATTTTTTAAAA
1 TTTATAT-TTATTATTTTTT-AAA
* *
775546 TTTATATTTATATATTTTATAAT
1 TTTATATTTAT-TATTTTTTAAA
* *
775569 TTTATAATTTTTTTATTTTTTGAA
1 TTTAT-A-TTTATTATTTTTTAAA
*
775593 -TTATTTTTATT
1 TTTATATTTATT
775604 GTATATATGA
Statistics
Matches: 46, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
21 5 0.11
23 15 0.33
24 22 0.48
25 4 0.09
ACGTcount: A:0.29, C:0.01, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTATATTTATTATTTTTTAAA
Found at i:775569 original size:22 final size:24
Alignment explanation
Indices: 775522--775570 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
775512 TTCTACAATT
*
775522 TTTATATCTTATGATTTTTTAAAA
1 TTTATATCTTATGATATTTTAAAA
*
775546 TTTATAT-TTAT-ATATTTTATAA
1 TTTATATCTTATGATATTTTAAAA
775568 TTT
1 TTT
775571 TATAATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 12 0.52
23 4 0.17
24 7 0.30
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (24 bp):
TTTATATCTTATGATATTTTAAAA
Found at i:775571 original size:32 final size:35
Alignment explanation
Indices: 775500--775575 Score: 88
Period size: 32 Copynumber: 2.3 Consensus size: 35
775490 AAATACTTTT
* *
775500 ATTTTTATAAAATTCTACAATTTTTATATCTTATG
1 ATTTTTATAAAATTCTACAATTTATATATCTTATA
* *
775535 ATTTTT-TAAAATT-TA-TATTTATATATTTTATA
1 ATTTTTATAAAATTCTACAATTTATATATCTTATA
775567 A-TTTTATAA
1 ATTTTTATAA
775576 TTTTTTTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
31 4 0.11
32 17 0.47
33 2 0.06
34 7 0.19
35 6 0.17
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.58
Consensus pattern (35 bp):
ATTTTTATAAAATTCTACAATTTATATATCTTATA
Found at i:777491 original size:32 final size:32
Alignment explanation
Indices: 777446--777509 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
777436 TCATCCAAAA
*
777446 TGAATCTATACAACCATT-TGTACAAATTCATT
1 TGAATCTAGACAACC-TTGTGTACAAATTCATT
* * *
777478 TGAATCTGGACAACCTTGTGTCCAGATTCATT
1 TGAATCTAGACAACCTTGTGTACAAATTCATT
777510 CTATATGCAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 2 0.07
32 25 0.93
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.36
Consensus pattern (32 bp):
TGAATCTAGACAACCTTGTGTACAAATTCATT
Found at i:784308 original size:20 final size:20
Alignment explanation
Indices: 784233--784311 Score: 77
Period size: 20 Copynumber: 3.9 Consensus size: 20
784223 TCCCACTTTT
* *
784233 TCAATTCACTCTCTACTCTC
1 TCAATTCACTCTCAATTCTC
*
784253 TCAATTCATTCTCAATCCTCTC
1 TCAATTCACTCTCAAT--TCTC
* * *
784275 TTAATTCTCACTCAATTCTC
1 TCAATTCACTCTCAATTCTC
*
784295 TCAGTTCACTCTCAATT
1 TCAATTCACTCTCAATT
784312 TTTATTAAAA
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
20 30 0.65
22 16 0.35
ACGTcount: A:0.23, C:0.34, G:0.01, T:0.42
Consensus pattern (20 bp):
TCAATTCACTCTCAATTCTC
Found at i:786596 original size:18 final size:19
Alignment explanation
Indices: 786573--786608 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
786563 TGCATATTTT
*
786573 ATTTTAT-TTTTTAAAAAG
1 ATTTTATATTTTCAAAAAG
786591 ATTTTATATTTTCAAAAA
1 ATTTTATATTTTCAAAAA
786609 ATAATTATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (19 bp):
ATTTTATATTTTCAAAAAG
Found at i:789697 original size:18 final size:18
Alignment explanation
Indices: 789676--789762 Score: 95
Period size: 18 Copynumber: 4.8 Consensus size: 18
789666 CGTTTACGGT
789676 ACTATTCACGTATACGAC
1 ACTATTCACGTATACGAC
* *
789694 ACTATTCATGTATAC-AGT
1 ACTATTCACGTATACGA-C
* *
789712 ACTGTTCACGTATACGGC
1 ACTATTCACGTATACGAC
**
789730 ACTATTCACGTATACGGT
1 ACTATTCACGTATACGAC
*
789748 ACTGTTCACGTATAC
1 ACTATTCACGTATAC
789763 AGTAGTTGGG
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
17 1 0.02
18 57 0.98
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (18 bp):
ACTATTCACGTATACGAC
Found at i:789721 original size:36 final size:36
Alignment explanation
Indices: 789674--789762 Score: 142
Period size: 36 Copynumber: 2.5 Consensus size: 36
789664 ACCGTTTACG
* *
789674 GTACTATTCACGTATACGACACTATTCATGTATACA
1 GTACTGTTCACGTATACGACACTATTCACGTATACA
* *
789710 GTACTGTTCACGTATACGGCACTATTCACGTATACG
1 GTACTGTTCACGTATACGACACTATTCACGTATACA
789746 GTACTGTTCACGTATAC
1 GTACTGTTCACGTATAC
789763 AGTAGTTGGG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.33
Consensus pattern (36 bp):
GTACTGTTCACGTATACGACACTATTCACGTATACA
Found at i:795965 original size:12 final size:12
Alignment explanation
Indices: 795948--795995 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
795938 ATAAATACCA
795948 AAAAATTATTTT
1 AAAAATTATTTT
*
795960 AAAAATTA---A
1 AAAAATTATTTT
*
795969 AAAAAGTATTTT
1 AAAAATTATTTT
795981 AAAAA-TATTTT
1 AAAAATTATTTT
795992 AAAA
1 AAAA
795996 TTAAAAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
9 7 0.23
11 10 0.33
12 13 0.43
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (12 bp):
AAAAATTATTTT
Found at i:795973 original size:21 final size:21
Alignment explanation
Indices: 795947--795986 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
795937 AATAAATACC
*
795947 AAAAAATTATTTTAAAAATTA
1 AAAAAAGTATTTTAAAAATTA
795968 AAAAAAGTATTTTAAAAAT
1 AAAAAAGTATTTTAAAAAT
795987 ATTTTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (21 bp):
AAAAAAGTATTTTAAAAATTA
Found at i:796036 original size:27 final size:25
Alignment explanation
Indices: 795978--796038 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 25
795968 AAAAAAGTAT
795978 TTTAAAAATATTTTAAAATTAAAAA
1 TTTAAAAATATTTTAAAATTAAAAA
*
796003 TAATAAAAAGTATTTTAAAATTAAAAAA
1 T-TTAAAAA-TATTTTAAAATT-AAAAA
796031 TTTAAAAA
1 TTTAAAAA
796039 ATAAATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 1 0.03
26 6 0.19
27 18 0.58
28 6 0.19
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (25 bp):
TTTAAAAATATTTTAAAATTAAAAA
Found at i:801106 original size:17 final size:17
Alignment explanation
Indices: 801084--801119 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
801074 GTCATGCAAA
*
801084 AACAATTTAAAGTAAAT
1 AACAATTTAAAATAAAT
801101 AACAATTTAAAATAAAT
1 AACAATTTAAAATAAAT
801118 AA
1 AA
801120 TTTACAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.28
Consensus pattern (17 bp):
AACAATTTAAAATAAAT
Found at i:803085 original size:17 final size:17
Alignment explanation
Indices: 803063--803096 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
803053 CACACGGGCA
*
803063 ATCCACATGGCCATGTG
1 ATCCACACGGCCATGTG
*
803080 ATCCACACGGCCGTGTG
1 ATCCACACGGCCATGTG
803097 TACAGGGCGT
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:0.21, C:0.32, G:0.26, T:0.21
Consensus pattern (17 bp):
ATCCACACGGCCATGTG
Found at i:805500 original size:13 final size:13
Alignment explanation
Indices: 805478--805515 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
805468 TTTGACAAAA
*
805478 CAACCGCCACCTT
1 CAACCACCACCTT
*
805491 TAACCACCACCTT
1 CAACCACCACCTT
805504 CAACCACCACCT
1 CAACCACCACCT
805516 AAAATTCCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.29, C:0.53, G:0.03, T:0.16
Consensus pattern (13 bp):
CAACCACCACCTT
Found at i:807882 original size:17 final size:17
Alignment explanation
Indices: 807862--807894 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
807852 CAATTCAATC
807862 CAAAATT-CATATTTTGA
1 CAAAATTAC-TATTTTGA
807879 CAAAATTACTATTTTG
1 CAAAATTACTATTTTG
807895 TCCCTATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 14 0.93
18 1 0.07
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.42
Consensus pattern (17 bp):
CAAAATTACTATTTTGA
Found at i:812286 original size:47 final size:48
Alignment explanation
Indices: 812232--812322 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
812222 TCATCTGCGA
* * * *
812232 TTATGTGGTTGTTT-TCGGCAATT-ATGTGGTGGCTTGTCCACAATGTG
1 TTATGTGGCTATTTATCGGC-ATTAATGTGATGGCTTCTCCACAATGTG
812279 TTATGTGGCTATTTATCGGCATTAATGTGATGGCTTCTCCACAA
1 TTATGTGGCTATTTATCGGCATTAATGTGATGGCTTCTCCACAA
812323 ATAGTGTGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
47 15 0.39
48 23 0.61
ACGTcount: A:0.19, C:0.15, G:0.25, T:0.41
Consensus pattern (48 bp):
TTATGTGGCTATTTATCGGCATTAATGTGATGGCTTCTCCACAATGTG
Found at i:812410 original size:21 final size:21
Alignment explanation
Indices: 812384--812426 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
812374 GCAGATATGG
812384 GTAGGAAATTCTTCAAAATGT
1 GTAGGAAATTCTTCAAAATGT
812405 GTAGGAAATTCTTCAAAATGT
1 GTAGGAAATTCTTCAAAATGT
812426 G
1 G
812427 CATTGTTGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.33
Consensus pattern (21 bp):
GTAGGAAATTCTTCAAAATGT
Found at i:819341 original size:30 final size:28
Alignment explanation
Indices: 819307--819372 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
819297 AATTTAGGTG
819307 CCAAATTAAACCTAAAAAAAAGTTTAGGAA
1 CCAAATTAAACC--AAAAAAAGTTTAGGAA
** * *
819337 CCAAATTGGACCCAAAAAAGTTTAGGTA
1 CCAAATTAAACCAAAAAAAGTTTAGGAA
819365 CCAAATTA
1 CCAAATTA
819373 GAAAAAAGTG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 21 0.68
30 10 0.32
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (28 bp):
CCAAATTAAACCAAAAAAAGTTTAGGAA
Found at i:819462 original size:61 final size:59
Alignment explanation
Indices: 819338--819462 Score: 162
Period size: 60 Copynumber: 2.1 Consensus size: 59
819328 GTTTAGGAAC
* * * * *
819338 CAAATTGGACCCAAAAAAGTTTAGGTACCAAATTAGAAAAAAGTGTCAAATTCAAGTAT
1 CAAATTGGACCAAAAAAAATTTAAGTACCAAATTAAAAAAAAATGTCAAATTCAAGTAT
*
819397 CAAATTGGACCAAAAAAATATTTAAGTACCAAATTAAAAAAAAAT-TACCAAATTCAGGTAT
1 CAAATTGGACCAAAAAAA-ATTTAAGTACCAAATTAAAAAAAAATGT--CAAATTCAAGTAT
819458 CAAAT
1 CAAAT
819463 GTTATAAAGT
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
59 18 0.32
60 22 0.39
61 17 0.30
ACGTcount: A:0.51, C:0.14, G:0.11, T:0.24
Consensus pattern (59 bp):
CAAATTGGACCAAAAAAAATTTAAGTACCAAATTAAAAAAAAATGTCAAATTCAAGTAT
Found at i:823162 original size:14 final size:14
Alignment explanation
Indices: 823143--823173 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
823133 TGTTGCGTTC
823143 TTAGTTAAATTAGA
1 TTAGTTAAATTAGA
*
823157 TTAGTTAATTTAGA
1 TTAGTTAAATTAGA
823171 TTA
1 TTA
823174 AAAACAATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (14 bp):
TTAGTTAAATTAGA
Found at i:827591 original size:120 final size:120
Alignment explanation
Indices: 827465--827754 Score: 485
Period size: 120 Copynumber: 2.4 Consensus size: 120
827455 AATTATTTTA
* *
827465 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTT-TCTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTTATATTT
* *
827529 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGACTATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
827585 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATT-ATTATTTTAATTTATATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAAT-ATTAATTATTTAAATTTATATTT
827649 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
827705 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTAT
827755 GTTTAAATAT
Statistics
Matches: 159, Mismatches: 8, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
119 7 0.04
120 149 0.94
121 3 0.02
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:827647 original size:15 final size:14
Alignment explanation
Indices: 827595--827650 Score: 55
Period size: 15 Copynumber: 4.1 Consensus size: 14
827585 AATTTTATTA
827595 AATTATA-TATTTT
1 AATTATATTATTTT
*
827608 AATTATAATATATTT
1 AATTATATTAT-TTT
*
827623 AATAATTATTATTTT
1 AATTA-TATTATTTT
827638 AATT-TA-TATTTT
1 AATTATATTATTTT
827650 A
1 A
827651 CAGTATCATA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
12 7 0.19
13 9 0.24
14 3 0.08
15 13 0.35
16 5 0.14
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
AATTATATTATTTT
Found at i:827711 original size:61 final size:61
Alignment explanation
Indices: 827526--827712 Score: 183
Period size: 61 Copynumber: 3.1 Consensus size: 61
827516 TCAAATTTTC
*
827526 TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGACTATTAATTATTAAGAA
1 TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAA
* * * * * * *
827587 TTTTATTA-AATTATATATT-TTAATT-A-T-AATAT-ATTTAATAATTATT-ATT-TTAATTTA
1 TTTTA-TAGTATCATATATTATGATTTGAGTAAAT-TCATATAAGAA-TATTAATTATTAA--GA
827644 TA
61 -A
*
827646 TTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAA
1 TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAA
827707 TTTTAT
1 TTTTAT
827713 TAAATTATAT
Statistics
Matches: 95, Mismatches: 17, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
56 4 0.04
57 12 0.13
58 8 0.08
59 16 0.17
60 8 0.08
61 21 0.22
62 9 0.09
63 13 0.14
64 4 0.04
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (61 bp):
TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAA
Found at i:827734 original size:18 final size:17
Alignment explanation
Indices: 827706--827740 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
827696 ATTATTAAGA
*
827706 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
827723 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
827741 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:827854 original size:147 final size:149
Alignment explanation
Indices: 827694--827968 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
827684 ATAAGAATAT
*
827694 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
827759 AAATATGATTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
827822 TACCAAAACAAATTTCTGC
131 TACCAAAACAAATTTCTGC
827841 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
827906 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
827969 CAATAATCAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 91 0.74
148 27 0.22
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
TACCAAAACAAATTTCTGC
Found at i:827881 original size:18 final size:17
Alignment explanation
Indices: 827853--827887 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
827843 ATTATTAAGA
*
827853 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
827870 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
827888 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:828098 original size:44 final size:45
Alignment explanation
Indices: 828049--828143 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 45
828039 TTACACCTCT
* * *
828049 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
** *
828093 ATTACATTCAACCAAACAGTTGATTTGCTATTACACATCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
828138 ATTACA
1 ATTACA
828144 CCTCTAATCC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 18 0.41
45 26 0.59
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
Found at i:828831 original size:8 final size:9
Alignment explanation
Indices: 828748--828831 Score: 61
Period size: 9 Copynumber: 9.4 Consensus size: 9
828738 TTTTTTTTGA
828748 AAAATATAT
1 AAAATATAT
*
828757 -AAATATTT
1 AAAATATAT
828765 AAAATATAT
1 AAAATATAT
*
828774 AATATATAACT
1 AAAATAT-A-T
828785 AAAA-AT-T
1 AAAATATAT
*
828792 AAAAT-TTT
1 AAAATATAT
*
828800 ATAAATTTAT
1 A-AAATATAT
828810 AAAAATATAT
1 -AAAATATAT
828820 AAAA-ATAT
1 AAAATATAT
828828 AAAA
1 AAAA
828832 GAACTAAAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
7 6 0.10
8 17 0.28
9 21 0.34
10 12 0.20
11 5 0.08
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (9 bp):
AAAATATAT
Found at i:828990 original size:17 final size:17
Alignment explanation
Indices: 828940--828991 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
828930 CTTTTTTATA
828940 TATATATTTTTATCAA-TT
1 TATATATTTTT-T-AATTT
**
828958 TATATATTTTAAAATTT
1 TATATATTTTTTAATTT
828975 TATATATTTTTTAATTT
1 TATATATTTTTTAATTT
828992 CAAAATAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 2 0.07
17 17 0.59
18 10 0.34
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (17 bp):
TATATATTTTTTAATTT
Found at i:831528 original size:12 final size:12
Alignment explanation
Indices: 831511--831535 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
831501 AAAGTTGTGG
831511 GGGGACGCGGGT
1 GGGGACGCGGGT
831523 GGGGACGCGGGT
1 GGGGACGCGGGT
831535 G
1 G
831536 TTGTGCTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.68, T:0.08
Consensus pattern (12 bp):
GGGGACGCGGGT
Found at i:832653 original size:46 final size:46
Alignment explanation
Indices: 832560--832656 Score: 117
Period size: 46 Copynumber: 2.1 Consensus size: 46
832550 TGAGATTCTT
* *
832560 ATTC-TTTGAGCTTCAACGTGCCACAGGGAATACTTTAGATGTAAG
1 ATTCTTTTGAGCTTCAACGTGCCACAGGGAATACTTCAGAAGTAAG
* * * *
832605 ATTCTTTTGAGCTTCAACGTGCCATAGTGAGTACTTCA-AAGCTCAG
1 ATTCTTTTGAGCTTCAACGTGCCACAGGGAATACTTCAGAAG-TAAG
832651 ATTCTT
1 ATTCTT
832657 ATTCTTTTCT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
45 6 0.14
46 38 0.86
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (46 bp):
ATTCTTTTGAGCTTCAACGTGCCACAGGGAATACTTCAGAAGTAAG
Found at i:839671 original size:23 final size:23
Alignment explanation
Indices: 839639--839682 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
839629 ACTATCATTT
839639 TCTAAATAAAATAATAATAAATA
1 TCTAAATAAAATAATAATAAATA
* *
839662 TCTAAGTAAAATATTAATAAA
1 TCTAAATAAAATAATAATAAA
839683 ATAATATTTA
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:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (23 bp):
TCTAAATAAAATAATAATAAATA
Found at i:839675 original size:13 final size:11
Alignment explanation
Indices: 839643--839685 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
839633 TCATTTTCTA
*
839643 AATAAAATAAT
1 AATAAAATATT
839654 AAT-AAATATCT
1 AATAAAATAT-T
839665 AAGTAAAATATT
1 AA-TAAAATATT
839677 AATAAAATA
1 AATAAAATA
839686 ATATTTAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 5 0.18
11 13 0.46
12 4 0.14
13 6 0.21
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (11 bp):
AATAAAATATT
Found at i:840464 original size:23 final size:22
Alignment explanation
Indices: 840438--840481 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
840428 CGAAATTATA
840438 GCAAAACAACCAAAAAAATAGTG
1 GCAAAAC-ACCAAAAAAATAGTG
**
840461 GCAAAACAGTAAAAAAATAGT
1 GCAAAACACCAAAAAAATAGT
840482 AACTTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.61, C:0.14, G:0.14, T:0.11
Consensus pattern (22 bp):
GCAAAACACCAAAAAAATAGTG
Found at i:847895 original size:15 final size:15
Alignment explanation
Indices: 847871--847906 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
847861 GGCATTTGTT
847871 TTTAAATTTCAAAAC
1 TTTAAATTTCAAAAC
* *
847886 TTTAATTTTCAAAAT
1 TTTAAATTTCAAAAC
847901 TTTAAA
1 TTTAAA
847907 AACAATTACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (15 bp):
TTTAAATTTCAAAAC
Found at i:856517 original size:23 final size:23
Alignment explanation
Indices: 856491--856534 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
856481 ATGTTATAAC
856491 TTTTTTTATTTACCAAAATATGT
1 TTTTTTTATTTACCAAAATATGT
856514 TTTTTTTATTTACCAAAATAT
1 TTTTTTTATTTACCAAAATAT
856535 ATAAAAAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.32, C:0.09, G:0.02, T:0.57
Consensus pattern (23 bp):
TTTTTTTATTTACCAAAATATGT
Found at i:856633 original size:27 final size:27
Alignment explanation
Indices: 856595--856670 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
856585 TCCCTGGTGG
*
856595 AGGGAACACTGTTGGCGGCACCAAACA
1 AGGGAACCCTGTTGGCGGCACCAAACA
*
856622 AGGGAACCCTGTTGGCGACACCAAACA
1 AGGGAACCCTGTTGGCGGCACCAAACA
** *
856649 AGGGTTCCCTGTTGGCTGCACC
1 AGGGAACCCTGTTGGCGGCACC
856671 CCGTTTTTAG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.16
Consensus pattern (27 bp):
AGGGAACCCTGTTGGCGGCACCAAACA
Found at i:856739 original size:19 final size:19
Alignment explanation
Indices: 856715--856756 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
856705 AAAATATATA
* *
856715 TAATATTTTGGTATTTTTT
1 TAATATTTTAGTATTTTTG
*
856734 TAATATTTTATTATTTTTG
1 TAATATTTTAGTATTTTTG
856753 TAAT
1 TAAT
856757 GCTTTATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (19 bp):
TAATATTTTAGTATTTTTG
Found at i:856762 original size:19 final size:19
Alignment explanation
Indices: 856726--856766 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
856716 AATATTTTGG
* *
856726 TATTTTTTTAATATTTTAT
1 TATTTTTGTAATACTTTAT
*
856745 TATTTTTGTAATGCTTTAT
1 TATTTTTGTAATACTTTAT
856764 TAT
1 TAT
856767 GGGTTTTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (19 bp):
TATTTTTGTAATACTTTAT
Found at i:856791 original size:13 final size:13
Alignment explanation
Indices: 856773--856798 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
856763 TTATGGGTTT
856773 TATAAAAAAATAA
1 TATAAAAAAATAA
856786 TATAAAAAAATAA
1 TATAAAAAAATAA
856799 AAAATTACCA
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:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
TATAAAAAAATAA
Found at i:856855 original size:28 final size:28
Alignment explanation
Indices: 856803--856871 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
856793 AAATAAAAAA
*
856803 TTACCAAAATAT-TATAACTTTTTTTAT
1 TTACCAAAATATATATAAATTTTTTTAT
*
856830 TTATCAAAATATATATAAATTTTTTTAT
1 TTACCAAAATATATATAAATTTTTTTAT
856858 TTACCAAAATATAT
1 TTACCAAAATATAT
856872 CAAAAAAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 11 0.29
28 27 0.71
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (28 bp):
TTACCAAAATATATATAAATTTTTTTAT
Found at i:857585 original size:26 final size:26
Alignment explanation
Indices: 857556--857607 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
857546 TTTCGGTTTT
857556 TTTTTTGATATATTTTGGTAAATAAA
1 TTTTTTGATATATTTTGGTAAATAAA
*
857582 TTTTTTTATATATTTTGGTAAATAAA
1 TTTTTTGATATATTTTGGTAAATAAA
857608 AAAAAGTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.56
Consensus pattern (26 bp):
TTTTTTGATATATTTTGGTAAATAAA
Found at i:857871 original size:27 final size:29
Alignment explanation
Indices: 857841--857910 Score: 110
Period size: 28 Copynumber: 2.5 Consensus size: 29
857831 TTTGTTTTTT
857841 TATATATTTTGGTAAAT-AAAAAAA-TTA
1 TATATATTTTGGTAAATAAAAAAAAGTTA
857868 TATATATTTTGGTAAATAAAAAAAAGTTA
1 TATATATTTTGGTAAATAAAAAAAAGTTA
*
857897 TA-ACATTTTGGTAA
1 TATATATTTTGGTAA
857911 TTTTTTATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 17 0.43
28 18 0.45
29 5 0.12
ACGTcount: A:0.49, C:0.01, G:0.10, T:0.40
Consensus pattern (29 bp):
TATATATTTTGGTAAATAAAAAAAAGTTA
Found at i:860767 original size:69 final size:69
Alignment explanation
Indices: 860650--860785 Score: 209
Period size: 69 Copynumber: 2.0 Consensus size: 69
860640 CTACAACTCT
* * *
860650 ATCATTATTCATATCTATAAGATAAGATAAGATTACACCAACCCATAACACGTGAACACATGTAA
1 ATCATTATCCATATCTATAAGATAAGATAAGATCACACCAACCAATAACACGTGAACACATGTAA
860715 CATA
66 CATA
* * * *
860719 ATCATTATCCATATTTATAAGATAAGATAAGATCATACTAACCAATAACATGTGAACACATGTAA
1 ATCATTATCCATATCTATAAGATAAGATAAGATCACACCAACCAATAACACGTGAACACATGTAA
860784 CA
66 CA
860786 GTTTGATGAG
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 60 1.00
ACGTcount: A:0.46, C:0.18, G:0.09, T:0.27
Consensus pattern (69 bp):
ATCATTATCCATATCTATAAGATAAGATAAGATCACACCAACCAATAACACGTGAACACATGTAA
CATA
Found at i:866957 original size:19 final size:19
Alignment explanation
Indices: 866929--866966 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
866919 GAGTTGATAG
* *
866929 AATTTTATTTTATTATTTT
1 AATTTAATTTAATTATTTT
866948 AATTTAATTTAATTATTTT
1 AATTTAATTTAATTATTTT
866967 TAATAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
AATTTAATTTAATTATTTT
Found at i:867303 original size:19 final size:19
Alignment explanation
Indices: 867256--867304 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
867246 TTTTTAAAAA
* *
867256 ATATAAATTTGTAATTTTT
1 ATATAATTTTGAAATTTTT
*
867275 ATAAATATTTTGAAATTTTT
1 ATATA-ATTTTGAAATTTTT
*
867295 TTATAATTTT
1 ATATAATTTT
867305 TGCTGAGAGA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (19 bp):
ATATAATTTTGAAATTTTT
Found at i:868649 original size:14 final size:14
Alignment explanation
Indices: 868630--868656 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
868620 ATCGAGTCGA
868630 ATCGAGTTAAATTG
1 ATCGAGTTAAATTG
868644 ATCGAGTTAAATT
1 ATCGAGTTAAATT
868657 AAAATATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.37
Consensus pattern (14 bp):
ATCGAGTTAAATTG
Found at i:874966 original size:21 final size:20
Alignment explanation
Indices: 874942--874980 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
874932 TATAGTTTTT
874942 AATTAATTTAAAATTTAAATA
1 AATTAA-TTAAAATTTAAATA
*
874963 AATTTATTAAAATTTAAA
1 AATTAATTAAAATTTAAA
874981 ATTATTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AATTAATTAAAATTTAAATA
Found at i:874992 original size:27 final size:28
Alignment explanation
Indices: 874946--875002 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
874936 GTTTTTAATT
*
874946 AATTTAAAATTTAAATAAATTTAT-TAA
1 AATTTAAAATTTAAATAAATATATATAA
*
874973 AATTTAAAATTATTAA-AAATATATATAA
1 AATTTAAAATT-TAAATAAATATATATAA
875001 AA
1 AA
875003 ATAATTCTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 18 0.69
28 8 0.31
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (28 bp):
AATTTAAAATTTAAATAAATATATATAA
Found at i:891626 original size:20 final size:21
Alignment explanation
Indices: 891603--891644 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
891593 ATAAATATTT
891603 AATTAGATAA-AAAAATTAAA
1 AATTAGATAATAAAAATTAAA
*
891623 AATTAGATAATAGAAATTAAA
1 AATTAGATAATAAAAATTAAA
891644 A
1 A
891645 TAACATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (21 bp):
AATTAGATAATAAAAATTAAA
Found at i:891680 original size:26 final size:26
Alignment explanation
Indices: 891664--891713 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
891654 TAATTTAATT
891664 TTTATTTTTTGA-ATTTTAATAATTTA
1 TTTATTTTTT-ATATTTTAATAATTTA
*
891690 TTTATTTTTTATATTTTAAAAATT
1 TTTATTTTTTATATTTTAATAATT
891714 GTTTTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 1 0.05
26 21 0.95
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (26 bp):
TTTATTTTTTATATTTTAATAATTTA
Found at i:891683 original size:21 final size:20
Alignment explanation
Indices: 891650--891692 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
891640 TAAAATAACA
*
891650 TTTTTAATTTAAT-TTTTAT
1 TTTTTAATTTAATAATTTAT
891669 TTTTTGAATTTTAATAATTTAT
1 TTTTT-AA-TTTAATAATTTAT
891691 TT
1 TT
891693 ATTTTTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 5 0.25
20 2 0.10
21 6 0.30
22 7 0.35
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTTTAATTTAATAATTTAT
Found at i:891725 original size:26 final size:26
Alignment explanation
Indices: 891655--891732 Score: 72
Period size: 26 Copynumber: 2.9 Consensus size: 26
891645 TAACATTTTT
* *
891655 AATTTAATTTTTATTTTTTGAATTTTAAT
1 AATTT-ATTTTTATTTTAT--ATTTTAAA
891684 AATTTATTTATT-TTTTATATTTTAAA
1 AATTTATTT-TTATTTTATATTTTAAA
891710 AATTGT-TTTTTATTTTAT-TTTTA
1 AATT-TATTTTTATTTTATATTTTA
891733 TTTTAAAAGT
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
25 7 0.16
26 20 0.45
27 1 0.02
28 9 0.20
29 7 0.16
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (26 bp):
AATTTATTTTTATTTTATATTTTAAA
Found at i:903048 original size:21 final size:20
Alignment explanation
Indices: 903022--903065 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
903012 TCCGCTGATG
903022 ATTGTATGC-ACCTCTTCGAAC
1 ATTGTA-GCTACC-CTTCGAAC
*
903043 ATTGTAGCTGCCCTTCGAAC
1 ATTGTAGCTACCCTTCGAAC
903063 ATT
1 ATT
903066 TGACTAGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (20 bp):
ATTGTAGCTACCCTTCGAAC
Found at i:904841 original size:16 final size:16
Alignment explanation
Indices: 904820--904850 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
904810 CATGTTAGAG
904820 CATATAAATTTGAAAC
1 CATATAAATTTGAAAC
*
904836 CATATATATTTGAAA
1 CATATAAATTTGAAA
904851 AAAATTTCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (16 bp):
CATATAAATTTGAAAC
Found at i:905029 original size:19 final size:20
Alignment explanation
Indices: 904992--905029 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
904982 TTTTTTTAAA
904992 ATAAAAATTTTGAAATTTTT
1 ATAAAAATTTTGAAATTTTT
*
905012 ATAAATATTTTG-AATTTT
1 ATAAAAATTTTGAAATTTT
905030 GAAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (20 bp):
ATAAAAATTTTGAAATTTTT
Found at i:905035 original size:18 final size:18
Alignment explanation
Indices: 904994--905065 Score: 56
Period size: 18 Copynumber: 3.9 Consensus size: 18
904984 TTTTTAAAAT
* *
904994 AAAAATTTTGAAATTTTT
1 AAAATTTTTGAAATTTTG
905012 ATAAATATTTTG-AATTTTG
1 A-AAAT-TTTTGAAATTTTG
* **
905031 AAAATTATTGAGTTTTTG
1 AAAATTTTTGAAATTTTG
* *
905049 AATATTTTTGTAATTTT
1 AAAATTTTTGAAATTTT
905066 TGTTGAGAGA
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
17 4 0.10
18 22 0.54
19 10 0.24
20 5 0.12
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (18 bp):
AAAATTTTTGAAATTTTG
Found at i:905039 original size:19 final size:20
Alignment explanation
Indices: 904992--905035 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
904982 TTTTTTTAAA
* *
904992 ATAAAAATTTTGAAATTTTT
1 ATAAATATTTTGAAATTTTG
905012 ATAAATATTTTG-AATTTTG
1 ATAAATATTTTGAAATTTTG
905031 A-AAAT
1 ATAAAT
905036 TATTGAGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 4 0.18
19 7 0.32
20 11 0.50
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (20 bp):
ATAAATATTTTGAAATTTTG
Found at i:908361 original size:14 final size:14
Alignment explanation
Indices: 908342--908377 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
908332 TTGTTTCACT
*
908342 GAAAATGGTTTCCG
1 GAAAATGATTTCCG
*
908356 GAAAATGATTTCTG
1 GAAAATGATTTCCG
908370 GAAAATGA
1 GAAAATGA
908378 CTTATTTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.28
Consensus pattern (14 bp):
GAAAATGATTTCCG
Found at i:908407 original size:19 final size:20
Alignment explanation
Indices: 908364--908409 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
908354 CGGAAAATGA
*
908364 TTTCTGGAAAATGACTTATT
1 TTTCTGGAAAATGACTAATT
908384 TTTCTGGAAAA-G-CTAATAT
1 TTTCTGGAAAATGACTAAT-T
908403 TTTCTGG
1 TTTCTGG
908410 TGTTTGGATG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 4 0.17
19 9 0.38
20 11 0.46
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.43
Consensus pattern (20 bp):
TTTCTGGAAAATGACTAATT
Found at i:915241 original size:12 final size:12
Alignment explanation
Indices: 915226--915256 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
915216 ATAAAAATAG
915226 TAATTAGTTAGT
1 TAATTAGTTAGT
915238 TAATTAGTTAGT
1 TAATTAGTTAGT
*
915250 TAGTTAG
1 TAATTAG
915257 ATTAAGAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.48
Consensus pattern (12 bp):
TAATTAGTTAGT
Found at i:916038 original size:18 final size:19
Alignment explanation
Indices: 916012--916049 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
916002 GTCTTTTACA
*
916012 AAAATAATA-CAAAAAAAT
1 AAAACAATACCAAAAAAAT
*
916030 AAAACAATACCAAAATAAT
1 AAAACAATACCAAAAAAAT
916049 A
1 A
916050 TAATTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.16
Consensus pattern (19 bp):
AAAACAATACCAAAAAAAT
Found at i:916467 original size:151 final size:151
Alignment explanation
Indices: 916172--916529 Score: 528
Period size: 151 Copynumber: 2.4 Consensus size: 151
916162 CAATTGTTCG
* * * *
916172 TATTTTGGCCATTTGTTCGTATTTTTTTCCCGGATTTTATTACTTT-TA-AAAAATATACTATTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTCAATAAAAATATACTATTT
916235 TCTAATTTTTTATTTTACATTATTTTAGTACATTATGTTTGAAATGTAGTAATTTAGTGTTTTTT
66 TCTAATTTTTTATTTTACATTATTTTAGTACATTATGTTTGAAATGTAGTAATTTAGTGTTTTTT
916300 AAATAAATTTAAAAAAATCC-T
131 AAATAAATTTAAAAAAA-CCTT
* * *
916321 TATTTCGGCCCTTTATTCGTATTTTTTT-CCGAATTTTTTTACTTTCAATAAAAATATATTATTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTCAATAAAAATATACTATTT
* * *
916385 TCGT-ATTTTATTATTTTATATTATTTTAGTACGTTATGTTTGAAATGTATTAATTTACTGTGTT
66 TC-TAATTTT-TTATTTTACATTATTTTAGTACATTATGTTTGAAATGTAGTAATTTA--GTGTT
916449 TTTTAAATAAATTTAAAAAAAACCTT
127 TTTTAAATAAATTT-AAAAAAACCTT
*
916475 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAAATTTATTACTTTCAATAAAAA
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTCAATAAAAA
916530 AACACACTAA
Statistics
Matches: 187, Mismatches: 13, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
148 15 0.08
149 26 0.14
150 21 0.11
151 45 0.24
153 21 0.11
154 35 0.19
155 24 0.13
ACGTcount: A:0.29, C:0.10, G:0.08, T:0.52
Consensus pattern (151 bp):
TATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTCAATAAAAATATACTATTT
TCTAATTTTTTATTTTACATTATTTTAGTACATTATGTTTGAAATGTAGTAATTTAGTGTTTTTT
AAATAAATTTAAAAAAACCTT
Found at i:919192 original size:31 final size:31
Alignment explanation
Indices: 919157--919286 Score: 126
Period size: 31 Copynumber: 4.3 Consensus size: 31
919147 TTAATATACT
* * * *
919157 ATTTGGTACTTAAATTTAATATTTTTTCTTA
1 ATTTGGTACCTAAACTTGATACTTTTTCTTA
*
919188 ATTTGGTACCTAAACTT--T--TTTTGGTC-CA
1 ATTTGGTACCTAAACTTGATACTTTT--TCTTA
* * *
919216 ATTTGATACCCAAACTTGACACTTTTTCTTA
1 ATTTGGTACCTAAACTTGATACTTTTTCTTA
919247 ATTTGGTACCTAAACTTGATACTTTTTCTTA
1 ATTTGGTACCTAAACTTGATACTTTTTCTTA
*
919278 AGTTGGTAC
1 ATTTGGTAC
919287 TTAAGCTTTT
Statistics
Matches: 81, Mismatches: 11, Indels: 14
0.76 0.10 0.13
Matches are distributed among these distances:
27 4 0.05
28 16 0.20
29 3 0.04
30 2 0.02
31 52 0.64
32 4 0.05
ACGTcount: A:0.26, C:0.15, G:0.11, T:0.48
Consensus pattern (31 bp):
ATTTGGTACCTAAACTTGATACTTTTTCTTA
Found at i:919323 original size:60 final size:60
Alignment explanation
Indices: 919246--919358 Score: 147
Period size: 60 Copynumber: 1.9 Consensus size: 60
919236 ACTTTTTCTT
* * * * *
919246 AATTTGGTACCTAAACTTGA-TACTTTTTCTTAAGTTGGTACTTAAGCTTTTTTGGGATCC
1 AATTTGATACCTAAACTTAACT-CTTTTTCCTAACTTGGTACCTAAGCTTTTTTGGGATCC
* *
919306 AATTTGATACCTGAACTTAACTCTTTTTCCTAACTTGGTACCTAATCTTTTTT
1 AATTTGATACCTAAACTTAACTCTTTTTCCTAACTTGGTACCTAAGCTTTTTT
919359 TTTGTTTGAT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
60 44 0.98
61 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.46
Consensus pattern (60 bp):
AATTTGATACCTAAACTTAACTCTTTTTCCTAACTTGGTACCTAAGCTTTTTTGGGATCC
Found at i:919332 original size:91 final size:90
Alignment explanation
Indices: 919157--919350 Score: 253
Period size: 90 Copynumber: 2.1 Consensus size: 90
919147 TTAATATACT
* * * * *
919157 ATTTGGTACTTAAATTTAATATTTTTTCTTAATTTGGTACCTAAACTTTTTTTGGTCCAATTTGA
1 ATTTGGTACCTAAACTTAATACTTTTTCTTAAGTTGGTACCTAAACTTTTTTGGGTCCAATTTGA
* *
919222 TACCCAAACTTGACACTTTTTCTTA
66 TACCCAAACTTAACACTTTTTCCTA
* * *
919247 ATTTGGTACCTAAACTTGATACTTTTTCTTAAGTTGGTACTTAAGCTTTTTTGGGATCCAATTTG
1 ATTTGGTACCTAAACTTAATACTTTTTCTTAAGTTGGTACCTAAACTTTTTTGGG-TCCAATTTG
** *
919312 ATACCTGAACTTAACTCTTTTTCCTA
65 ATACCCAAACTTAACACTTTTTCCTA
*
919338 ACTTGGTACCTAA
1 ATTTGGTACCTAA
919351 TCTTTTTTTT
Statistics
Matches: 89, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
90 47 0.53
91 42 0.47
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.46
Consensus pattern (90 bp):
ATTTGGTACCTAAACTTAATACTTTTTCTTAAGTTGGTACCTAAACTTTTTTGGGTCCAATTTGA
TACCCAAACTTAACACTTTTTCCTA
Found at i:927631 original size:50 final size:50
Alignment explanation
Indices: 927572--927675 Score: 208
Period size: 50 Copynumber: 2.1 Consensus size: 50
927562 GACACAAAGG
927572 ACATGACTCATACATAAAGGACATAAGCAGATAAGGAGGAATCTGCTTTT
1 ACATGACTCATACATAAAGGACATAAGCAGATAAGGAGGAATCTGCTTTT
927622 ACATGACTCATACATAAAGGACATAAGCAGATAAGGAGGAATCTGCTTTT
1 ACATGACTCATACATAAAGGACATAAGCAGATAAGGAGGAATCTGCTTTT
927672 ACAT
1 ACAT
927676 TAACCTATCT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.24
Consensus pattern (50 bp):
ACATGACTCATACATAAAGGACATAAGCAGATAAGGAGGAATCTGCTTTT
Found at i:935897 original size:50 final size:50
Alignment explanation
Indices: 935822--935925 Score: 199
Period size: 50 Copynumber: 2.1 Consensus size: 50
935812 AGATAGGTTA
935822 ATGTAAAAGCAGATTCCTCCTTATCTGCTTATGTCATTTATGTATGAGTC
1 ATGTAAAAGCAGATTCCTCCTTATCTGCTTATGTCATTTATGTATGAGTC
*
935872 ATGTAAAAGCAGATTCCTCCTTATCTGCTTATGTCCTTTATGTATGAGTC
1 ATGTAAAAGCAGATTCCTCCTTATCTGCTTATGTCATTTATGTATGAGTC
935922 ATGT
1 ATGT
935926 CCTTTGTGTC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.40
Consensus pattern (50 bp):
ATGTAAAAGCAGATTCCTCCTTATCTGCTTATGTCATTTATGTATGAGTC
Found at i:936486 original size:50 final size:50
Alignment explanation
Indices: 936411--936514 Score: 199
Period size: 50 Copynumber: 2.1 Consensus size: 50
936401 AGATAGGTTA
936411 ATGTAAAAGCAGATTCCTCCTTATCTGCTTATGTCCTTTATGTATGAGTC
1 ATGTAAAAGCAGATTCCTCCTTATCTGCTTATGTCCTTTATGTATGAGTC
*
936461 ATGTAAAAGTAGATTCCTCCTTATCTGCTTATGTCCTTTATGTATGAGTC
1 ATGTAAAAGCAGATTCCTCCTTATCTGCTTATGTCCTTTATGTATGAGTC
936511 ATGT
1 ATGT
936515 CATTTGTGTC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.41
Consensus pattern (50 bp):
ATGTAAAAGCAGATTCCTCCTTATCTGCTTATGTCCTTTATGTATGAGTC
Found at i:943725 original size:50 final size:50
Alignment explanation
Indices: 943650--943748 Score: 198
Period size: 50 Copynumber: 2.0 Consensus size: 50
943640 GATAGGTTAA
943650 TGTAAAAGCAGATTCCTCCTTATCTGCTTATGTCCTTTATGTATGAGTCT
1 TGTAAAAGCAGATTCCTCCTTATCTGCTTATGTCCTTTATGTATGAGTCT
943700 TGTAAAAGCAGATTCCTCCTTATCTGCTTATGTCCTTTATGTATGAGTC
1 TGTAAAAGCAGATTCCTCCTTATCTGCTTATGTCCTTTATGTATGAGTC
943749 ATGTCCTTTG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.41
Consensus pattern (50 bp):
TGTAAAAGCAGATTCCTCCTTATCTGCTTATGTCCTTTATGTATGAGTCT
Found at i:945978 original size:18 final size:18
Alignment explanation
Indices: 945955--946001 Score: 51
Period size: 20 Copynumber: 2.6 Consensus size: 18
945945 GTTATAAAAA
945955 ATATTATATTAATTATAT
1 ATATTATATTAATTATAT
*
945973 ATATTAAATAATAATTATAT
1 ATATT--ATATTAATTATAT
*
945993 GT-TTATATT
1 ATATTATATT
946002 TATATTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
17 4 0.17
18 5 0.21
19 2 0.08
20 13 0.54
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
ATATTATATTAATTATAT
Found at i:946277 original size:17 final size:17
Alignment explanation
Indices: 946257--946289 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
946247 ATATTTTTTT
*
946257 TAAAAATTATTTTTAAC
1 TAAAAATTAATTTTAAC
946274 TAAAAATTAATTTTAA
1 TAAAAATTAATTTTAA
946290 AAAATCAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAAAATTAATTTTAAC
Found at i:951541 original size:67 final size:68
Alignment explanation
Indices: 951450--951577 Score: 204
Period size: 67 Copynumber: 1.9 Consensus size: 68
951440 CTTTTGGGAC
* *
951450 AAAAGCATTCCTAAACAAGATGCTTTTTGAGAGAAAGAGTAC-TCTCTCAAGCCAAAAATTAGCC
1 AAAAGCATTCCTAAACAAGATGCTTTTTGAGAGAAAAAATACTTCTCTCAAGCCAAAAATTAGCC
951514 AAT
66 AAT
* * *
951517 AAAAGCATTCCTAAATAAGCTGCTTTTTGAGAGAAAAAATACTTCTCTCAAGCTAAAAATT
1 AAAAGCATTCCTAAACAAGATGCTTTTTGAGAGAAAAAATACTTCTCTCAAGCCAAAAATT
951578 GACCCAAAAG
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
67 38 0.69
68 17 0.31
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.27
Consensus pattern (68 bp):
AAAAGCATTCCTAAACAAGATGCTTTTTGAGAGAAAAAATACTTCTCTCAAGCCAAAAATTAGCC
AAT
Found at i:964652 original size:23 final size:22
Alignment explanation
Indices: 964626--964685 Score: 79
Period size: 21 Copynumber: 2.7 Consensus size: 22
964616 TAGTTTCGTA
*
964626 ACAAATATATATTACATTTACAT
1 ACAAATATATATT-CAATTACAT
964649 ACAAATATATA-TCAATTACAT
1 ACAAATATATATTCAATTACAT
964670 A-AATATATATATTCAA
1 ACAA-ATATATATTCAA
964686 ATATAAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
20 2 0.06
21 16 0.47
22 5 0.15
23 11 0.32
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
ACAAATATATATTCAATTACAT
Found at i:966209 original size:40 final size:40
Alignment explanation
Indices: 966154--966230 Score: 154
Period size: 40 Copynumber: 1.9 Consensus size: 40
966144 TAGGAAGTAA
966154 GAGAAAAAAAAATGATAGCTGGACACAACAATCAATTAGT
1 GAGAAAAAAAAATGATAGCTGGACACAACAATCAATTAGT
966194 GAGAAAAAAAAATGATAGCTGGACACAACAATCAATT
1 GAGAAAAAAAAATGATAGCTGGACACAACAATCAATT
966231 GGTGCATCTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.53, C:0.13, G:0.17, T:0.17
Consensus pattern (40 bp):
GAGAAAAAAAAATGATAGCTGGACACAACAATCAATTAGT
Found at i:971562 original size:23 final size:23
Alignment explanation
Indices: 971536--971582 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
971526 TATTGAAAAG
971536 ATAAAATGATTGAAGACTCATCA
1 ATAAAATGATTGAAGACTCATCA
971559 ATAAAATGATTGAAGACTCATCA
1 ATAAAATGATTGAAGACTCATCA
971582 A
1 A
971583 GTTGCATAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.49, C:0.13, G:0.13, T:0.26
Consensus pattern (23 bp):
ATAAAATGATTGAAGACTCATCA
Found at i:976723 original size:44 final size:44
Alignment explanation
Indices: 976668--976771 Score: 208
Period size: 44 Copynumber: 2.4 Consensus size: 44
976658 TAACAAAATG
976668 TTAGTAACAATTAATAATTAATAATTTGATATAATTTGATAATT
1 TTAGTAACAATTAATAATTAATAATTTGATATAATTTGATAATT
976712 TTAGTAACAATTAATAATTAATAATTTGATATAATTTGATAATT
1 TTAGTAACAATTAATAATTAATAATTTGATATAATTTGATAATT
976756 TTAGTAACAATTAATA
1 TTAGTAACAATTAATA
976772 CAATTAACAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 60 1.00
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (44 bp):
TTAGTAACAATTAATAATTAATAATTTGATATAATTTGATAATT
Found at i:976874 original size:16 final size:16
Alignment explanation
Indices: 976855--976911 Score: 96
Period size: 16 Copynumber: 3.6 Consensus size: 16
976845 AATTTGATAC
976855 AATTTTAATAACAATT
1 AATTTTAATAACAATT
*
976871 AATTTTGATAACAATT
1 AATTTTAATAACAATT
976887 AATTTTAATAACAATT
1 AATTTTAATAACAATT
*
976903 AGTTTTAAT
1 AATTTTAAT
976912 TTTAATAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.46
Consensus pattern (16 bp):
AATTTTAATAACAATT
Found at i:976894 original size:22 final size:23
Alignment explanation
Indices: 976885--976946 Score: 90
Period size: 22 Copynumber: 2.7 Consensus size: 23
976875 TTGATAACAA
* *
976885 TTAATTTTAATAACAAT-TAGTT
1 TTAATTTTAATAAAAATATAATT
976907 TTAATTTTAATAAAAATATAATT
1 TTAATTTTAATAAAAATATAATT
976930 TTAATTTTAATTAAAAA
1 TTAATTTTAA-TAAAAA
976947 AAGGGCCGGG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 16 0.44
23 14 0.39
24 6 0.17
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTAATTTTAATAAAAATATAATT
Found at i:977525 original size:61 final size:61
Alignment explanation
Indices: 977401--977526 Score: 148
Period size: 61 Copynumber: 2.1 Consensus size: 61
977391 TTTCCTTTTC
* * * * ** *
977401 AAAACTTCTAAATTTAAAATTAAAATGGCAAATTTTATAAATATTTAAAGCTAAGTTTTTT
1 AAAACTACTAAAATTAAAATTAAAATGACAAATTTTATAAACATTTAAAGCTAAACTTATT
*
977462 AAAACTACTTAAAATTAAAATT-AAATGACAAATTTTATAAACA-TTATAGGCTAAACTTATT
1 AAAACTAC-TAAAATTAAAATTAAAATGACAAATTTTATAAACATTTA-AAGCTAAACTTATT
977523 AAAA
1 AAAA
977527 TTTTAAATTT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
60 3 0.05
61 40 0.73
62 12 0.22
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.37
Consensus pattern (61 bp):
AAAACTACTAAAATTAAAATTAAAATGACAAATTTTATAAACATTTAAAGCTAAACTTATT
Found at i:982032 original size:20 final size:20
Alignment explanation
Indices: 981978--982032 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 20
981968 ATCACTGCGT
* *
981978 AATACAGAAGTTGAAAAATGAG
1 AATA-AGAA-TTGAAAAAAGAA
982000 AATAA-AATATGAAAAAAGAA
1 AATAAGAAT-TGAAAAAAGAA
982020 AATAAGAATTGAA
1 AATAAGAATTGAA
982033 TGACAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
19 1 0.03
20 20 0.69
21 4 0.14
22 4 0.14
ACGTcount: A:0.64, C:0.02, G:0.16, T:0.18
Consensus pattern (20 bp):
AATAAGAATTGAAAAAAGAA
Found at i:984426 original size:18 final size:19
Alignment explanation
Indices: 984403--984440 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
984393 TTTTTTAAAA
984403 TATAAAT-TTTAAAATTTT
1 TATAAATATTTAAAATTTT
*
984421 TATAAATATTTAGAATTTT
1 TATAAATATTTAAAATTTT
984440 T
1 T
984441 GAAATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (19 bp):
TATAAATATTTAAAATTTT
Found at i:988579 original size:2 final size:2
Alignment explanation
Indices: 988530--988571 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
988520 ACAGATGGAT
*
988530 AG AG CG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
988572 CTGAGAGAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.02, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:996825 original size:21 final size:21
Alignment explanation
Indices: 996772--996825 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
996762 TCTTCTTCAC
** *
996772 TTTTTC-TTCTTTTTCTTTTT
1 TTTTTCTTTCTTCATCTTTCT
**
996792 TTTTTCTGGCTTCATCTTTCT
1 TTTTTCTTTCTTCATCTTTCT
996813 TTTTTCTTTCTTC
1 TTTTTCTTTCTTC
996826 TATCAATAAC
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 6 0.23
21 20 0.77
ACGTcount: A:0.02, C:0.20, G:0.04, T:0.74
Consensus pattern (21 bp):
TTTTTCTTTCTTCATCTTTCT
Found at i:997828 original size:20 final size:21
Alignment explanation
Indices: 997797--997838 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
997787 TGAAGCCAGA
*
997797 AAAAGAAAAAGAAAAAATAGG
1 AAAAGAAAAAGAAAAAAAAGG
997818 AAAAG-AAAAGAAAAAAAAGG
1 AAAAGAAAAAGAAAAAAAAGG
997838 A
1 A
997839 GGAAAATGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (21 bp):
AAAAGAAAAAGAAAAAAAAGG
Found at i:1006564 original size:51 final size:52
Alignment explanation
Indices: 1006497--1006596 Score: 141
Period size: 51 Copynumber: 1.9 Consensus size: 52
1006487 TGTGAAATAG
* * *
1006497 AGAAATATGAAACATTTGGAAATG-ATTATGGTTTTCTCTAAAATGAAAATGA
1 AGAAATATGAAACATTTGGAAATGAATT-TGATTTTCTCGAAAAAGAAAATGA
*
1006549 AGAAAT-TGAATCATTTGGAAATGAATTTGATTTTCTCGAAAAAGAAAA
1 AGAAATATGAAACATTTGGAAATGAATTTGATTTTCTCGAAAAAGAAAA
1006597 AAGAAAAAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
51 34 0.79
52 9 0.21
ACGTcount: A:0.45, C:0.06, G:0.17, T:0.32
Consensus pattern (52 bp):
AGAAATATGAAACATTTGGAAATGAATTTGATTTTCTCGAAAAAGAAAATGA
Found at i:1011721 original size:15 final size:15
Alignment explanation
Indices: 1011672--1011722 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
1011662 TTACCTTAGG
1011672 TTACGTTTTAGTCAT
1 TTACGTTTTAGTCAT
* **
1011687 TTATG-TTT-GAAAT
1 TTACGTTTTAGTCAT
1011700 GTTACGTTTTAGTCAT
1 -TTACGTTTTAGTCAT
1011716 TTACGTT
1 TTACGTT
1011723 ATCATGCTGT
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
13 3 0.11
14 7 0.26
15 14 0.52
16 3 0.11
ACGTcount: A:0.22, C:0.10, G:0.16, T:0.53
Consensus pattern (15 bp):
TTACGTTTTAGTCAT
Found at i:1011898 original size:25 final size:26
Alignment explanation
Indices: 1011851--1011899 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
1011841 GATCCCCATA
*
1011851 TTTTTTTCATTTTAAGTAGTTTAATT
1 TTTTTTTCATTTTAAGTACTTTAATT
* *
1011877 TTTTTTTC-TTTTATGTTCTTTAA
1 TTTTTTTCATTTTAAGTACTTTAA
1011900 ACTTTCTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 12 0.60
26 8 0.40
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.69
Consensus pattern (26 bp):
TTTTTTTCATTTTAAGTACTTTAATT
Found at i:1012045 original size:14 final size:14
Alignment explanation
Indices: 1012028--1012061 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
1012018 TCATCATTTG
1012028 CCTATAACCAAAAC
1 CCTATAACCAAAAC
1012042 CCTATAACCAAAAC
1 CCTATAACCAAAAC
1012056 CC-ATAA
1 CCTATAA
1012062 ACTCATACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (14 bp):
CCTATAACCAAAAC
Found at i:1013263 original size:15 final size:16
Alignment explanation
Indices: 1013238--1013267 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1013228 AAATTCTTTT
1013238 TTTGAATTTTATTATC
1 TTTGAATTTTATTATC
1013254 TTTG-ATTTTATTAT
1 TTTGAATTTTATTAT
1013268 TTTCGTTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.23, C:0.03, G:0.07, T:0.67
Consensus pattern (16 bp):
TTTGAATTTTATTATC
Found at i:1027814 original size:27 final size:27
Alignment explanation
Indices: 1027775--1027858 Score: 64
Period size: 27 Copynumber: 3.0 Consensus size: 27
1027765 AAATAAAAAT
1027775 AATTAAATT-AAAATTTTAAAATATATA
1 AATT-AATTAAAAATTTTAAAATATATA
* *
1027802 AATTAATTAAAAAAATATTAAATATAGATA
1 AATTAATT--AAAAATTTTAAA-ATATATA
* *
1027832 AATTTA-TAATAATATTTAAAATGATAT
1 AATTAATTAAAAAT-TTTAAAAT-ATAT
1027859 TGGTGACCAT
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
26 4 0.09
27 11 0.24
28 8 0.18
29 11 0.24
30 11 0.24
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.39
Consensus pattern (27 bp):
AATTAATTAAAAATTTTAAAATATATA
Found at i:1027835 original size:30 final size:30
Alignment explanation
Indices: 1027774--1027835 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 30
1027764 AAAATAAAAA
* *
1027774 TAATTAAATTAAAATTTTAAAATATATAAAT
1 TAATTAAA-TAAAATATTAAAATAGATAAAT
1027805 TAATTAAA-AAAATATTAAATATAGATAAAT
1 TAATTAAATAAAATATTAAA-ATAGATAAAT
1027835 T
1 T
1027836 TATAATAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 10 0.36
30 10 0.36
31 8 0.29
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (30 bp):
TAATTAAATAAAATATTAAAATAGATAAAT
Found at i:1032396 original size:8 final size:8
Alignment explanation
Indices: 1032341--1032397 Score: 50
Period size: 8 Copynumber: 7.2 Consensus size: 8
1032331 TGCATAAGTG
1032341 TATATATAT
1 TATA-ATAT
1032350 TATAAATAT
1 TAT-AATAT
*
1032359 T-TAA-AG
1 TATAATAT
1032365 T-TAATA-
1 TATAATAT
1032371 TATATATAT
1 TATA-ATAT
1032380 TATAATAT
1 TATAATAT
1032388 TATAATAT
1 TATAATAT
1032396 TA
1 TA
1032398 AAACTTAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
6 6 0.14
7 5 0.12
8 18 0.43
9 12 0.29
10 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (8 bp):
TATAATAT
Found at i:1032494 original size:17 final size:17
Alignment explanation
Indices: 1032472--1032520 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
1032462 AAAAAGAAGG
*
1032472 AGAGAAAGAAACGAAAC
1 AGAGAAGGAAACGAAAC
*
1032489 AGAGAAGGAAACGAAAT
1 AGAGAAGGAAACGAAAC
1032506 AGAGAAGGAAA-GAAA
1 AGAGAAGGAAACGAAA
1032521 GAAAAGAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 4 0.13
17 26 0.87
ACGTcount: A:0.63, C:0.06, G:0.29, T:0.02
Consensus pattern (17 bp):
AGAGAAGGAAACGAAAC
Found at i:1033401 original size:41 final size:40
Alignment explanation
Indices: 1033355--1033489 Score: 134
Period size: 40 Copynumber: 3.4 Consensus size: 40
1033345 GACGTCGAGT
* *
1033355 CGATGAGACACTGGGTATCAATTTATTACTTC-GTATTAATT
1 CGATGAGACACTGGGTGTCAATTTATTACTTCAGT-TTAA-C
* * *
1033396 TGATGAGGCACTGGGTGCCAA--T-TTACTTCAGTTTAAC
1 CGATGAGACACTGGGTGTCAATTTATTACTTCAGTTTAAC
* ** *
1033433 CGATGAGAAACTGGGTGTCAATTTATTACTTCAAATTATC
1 CGATGAGACACTGGGTGTCAATTTATTACTTCAGTTTAAC
*
1033473 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
1033490 CCAAACTGGT
Statistics
Matches: 76, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
37 17 0.22
38 11 0.14
39 4 0.05
40 27 0.36
41 17 0.22
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.33
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAATTTATTACTTCAGTTTAAC
Found at i:1033658 original size:20 final size:20
Alignment explanation
Indices: 1033633--1033672 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
1033623 TTGAATATGG
1033633 TATGGATAAAGCAATTGCAT
1 TATGGATAAAGCAATTGCAT
1033653 TATGGATAAAGCAATTGCAT
1 TATGGATAAAGCAATTGCAT
1033673 AAATGAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (20 bp):
TATGGATAAAGCAATTGCAT
Found at i:1037493 original size:24 final size:24
Alignment explanation
Indices: 1037459--1037511 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
1037449 GAGGAGTTAA
1037459 TTTTTAAATTTTTATTAGTTAA-TT
1 TTTTTAAATTTTT-TTAGTTAAGTT
* *
1037483 TTTTTATATTTTTTTATTTAAGTT
1 TTTTTAAATTTTTTTAGTTAAGTT
1037507 TTTTT
1 TTTTT
1037512 TCTTTGATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.74
Consensus pattern (24 bp):
TTTTTAAATTTTTTTAGTTAAGTT
Found at i:1049178 original size:68 final size:68
Alignment explanation
Indices: 1049013--1049181 Score: 223
Period size: 68 Copynumber: 2.5 Consensus size: 68
1049003 CTTGCATTGC
* **
1049013 TGCTGATTTATGTTGTCCAAAGCTAGACATATTAGTGGTGTAATAACTATTTAATGCTTTGTTTT
1 TGCTGATTTATGTTGTCCAAAGCTAGACATATTAATGGTGTAATAACTATTTAATGCCCTGTTTT
*
1049078 GTT
66 ATT
* * * *** *
1049081 TGTTGATTTATGTTGTCCAAAGCCAGACATATTAATGGTGTTATTGTTGTTTAATGCCCTGTTTT
1 TGCTGATTTATGTTGTCCAAAGCTAGACATATTAATGGTGTAATAACTATTTAATGCCCTGTTTT
1049146 ATT
66 ATT
1049149 TGCTGATTTATGTTGTCCAAAG-TAGGACATATT
1 TGCTGATTTATGTTGTCCAAAGCTA-GACATATT
1049182 GATTTCGTTT
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
67 1 0.01
68 86 0.99
ACGTcount: A:0.24, C:0.11, G:0.20, T:0.45
Consensus pattern (68 bp):
TGCTGATTTATGTTGTCCAAAGCTAGACATATTAATGGTGTAATAACTATTTAATGCCCTGTTTT
ATT
Found at i:1049554 original size:72 final size:70
Alignment explanation
Indices: 1049406--1049543 Score: 195
Period size: 72 Copynumber: 1.9 Consensus size: 70
1049396 GGACTGATAG
*
1049406 AGGGAAGATAATTTAAGAAATGGAAAATGGCTTTGCAGAGGTTCAGAAGTGTTGATCAAAGTTTA
1 AGGGAAGATAATTTAAGAAATGGAAAATGGCTTTGCAGAGGTTCAGAAGGGTTGATCAAAGTTTA
1049471 AACAA
66 AACAA
* * * * **
1049476 AGGGAAGATATTTTGAAGAAGTGGAAAAATGGCTTTGCGGAGGTTCGGAAGGGTTGATCGGAGTT
1 AGGGAAGATAATTT-AAGAAATGG-AAAATGGCTTTGCAGAGGTTCAGAAGGGTTGATCAAAGTT
1049541 TAA
64 TAA
1049544 GAATGAGGAA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
70 13 0.22
71 8 0.14
72 38 0.64
ACGTcount: A:0.36, C:0.07, G:0.31, T:0.26
Consensus pattern (70 bp):
AGGGAAGATAATTTAAGAAATGGAAAATGGCTTTGCAGAGGTTCAGAAGGGTTGATCAAAGTTTA
AACAA
Found at i:1059380 original size:17 final size:16
Alignment explanation
Indices: 1059355--1059393 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
1059345 CTAATACTAA
*
1059355 AATAAATAAATTAAAG
1 AATAAATAAACTAAAG
*
1059371 AATAACATAAACTAAAT
1 AATAA-ATAAACTAAAG
1059388 AATAAA
1 AATAAA
1059394 CAACTAACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.69, C:0.05, G:0.03, T:0.23
Consensus pattern (16 bp):
AATAAATAAACTAAAG
Done.