Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167938.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_20, 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: 19866354
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 74000 characters in sequence are not A, C, G, or T
File 4 of 100
Found at i:618467 original size:12 final size:12
Alignment explanation
Indices: 618450--618488 Score: 55
Period size: 11 Copynumber: 3.4 Consensus size: 12
618440 ATATATTAAT
618450 TTAAATTTTTTA
1 TTAAATTTTTTA
618462 TTAAA-TTTTTA
1 TTAAATTTTTTA
*
618473 TTAAATTATTT-
1 TTAAATTTTTTA
618484 TTAAA
1 TTAAA
618489 AAAACTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 16 0.64
12 9 0.36
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTAAATTTTTTA
Found at i:622550 original size:14 final size:14
Alignment explanation
Indices: 622528--622561 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
622518 GATAATAAAA
*
622528 CCATTGGTTGAAAC
1 CCATCGGTTGAAAC
622542 CCATCGGTTGAAAC
1 CCATCGGTTGAAAC
622556 CCATCG
1 CCATCG
622562 TAGTCCGGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (14 bp):
CCATCGGTTGAAAC
Found at i:630218 original size:11 final size:11
Alignment explanation
Indices: 630202--630228 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
630192 AAACACGAAT
630202 ATTTTGATTTA
1 ATTTTGATTTA
630213 ATTTTGATTTA
1 ATTTTGATTTA
630224 ATTTT
1 ATTTT
630229 CATTGGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (11 bp):
ATTTTGATTTA
Found at i:631025 original size:19 final size:18
Alignment explanation
Indices: 630982--631025 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
630972 TCTAAGATTG
* *
630982 TTTTATGGGCATTTTTGT
1 TTTTATGGCCATCTTTGT
631000 TTATTATGGCCATCTTTGT
1 TT-TTATGGCCATCTTTGT
631019 TGTTTAT
1 T-TTTAT
631026 CCATATGTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 19 0.86
20 1 0.05
ACGTcount: A:0.14, C:0.09, G:0.18, T:0.59
Consensus pattern (18 bp):
TTTTATGGCCATCTTTGT
Found at i:632653 original size:55 final size:55
Alignment explanation
Indices: 632565--632673 Score: 137
Period size: 55 Copynumber: 2.0 Consensus size: 55
632555 GGACCCAGGC
* *
632565 ATCCACTCGTCCGGTGTCCCAAATCAGCCTACCTATCACGATTCACACCCTTGTA
1 ATCCACTCATCCGGCGTCCCAAATCAGCCTACCTATCACGATTCACACCCTTGTA
* * ** * * *
632620 ATCCACTCATCCGGCGTCTCAGATCAGTTTACCTGTCGCGGTTCACACCCTTGT
1 ATCCACTCATCCGGCGTCCCAAATCAGCCTACCTATCACGATTCACACCCTTGT
632674 GAGGTATTAT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
55 45 1.00
ACGTcount: A:0.20, C:0.37, G:0.16, T:0.28
Consensus pattern (55 bp):
ATCCACTCATCCGGCGTCCCAAATCAGCCTACCTATCACGATTCACACCCTTGTA
Found at i:640933 original size:19 final size:19
Alignment explanation
Indices: 640911--640976 Score: 57
Period size: 19 Copynumber: 3.6 Consensus size: 19
640901 TATATATAAA
640911 TATAAATATAATATTTAAT
1 TATAAATATAATATTTAAT
*
640930 TATAATTATAAT-TTATAA-
1 TATAAATATAATATT-TAAT
* *
640948 -GTAAATGTAATATTTAAT
1 TATAAATATAATATTTAAT
* *
640966 TTTAACTATAA
1 TATAAATATAA
640977 CTTTAATTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
17 11 0.31
18 4 0.11
19 21 0.58
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (19 bp):
TATAAATATAATATTTAAT
Found at i:640945 original size:42 final size:42
Alignment explanation
Indices: 640899--640985 Score: 99
Period size: 42 Copynumber: 2.1 Consensus size: 42
640889 ATTTAATATT
*
640899 TTTATATA-TAAATATAA-ATATAATATTTAATTATAA-TTATAA
1 TTTATA-AGTAAATATAATATATAAT-TTTAACTATAACTT-TAA
* *
640941 TTTATAAGTAAATGTAATATTTAATTTTAACTATAACTTTAA
1 TTTATAAGTAAATATAATATATAATTTTAACTATAACTTTAA
640983 TTT
1 TTT
640986 TAATGTCAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
41 1 0.03
42 30 0.77
43 8 0.21
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (42 bp):
TTTATAAGTAAATATAATATATAATTTTAACTATAACTTTAA
Found at i:644799 original size:12 final size:12
Alignment explanation
Indices: 644782--644809 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
644772 CTAATATATG
644782 TATATATGTATA
1 TATATATGTATA
644794 TATATATGTATA
1 TATATATGTATA
644806 TATA
1 TATA
644810 ACAACCCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (12 bp):
TATATATGTATA
Found at i:646811 original size:2 final size:2
Alignment explanation
Indices: 646804--646836 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
646794 AGTTGGGTTT
646804 GA GA GA GA GA GA GA GA GA GA GA GA GA TGA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA -GA GA GA
646837 AGCGGCGTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.48, T:0.03
Consensus pattern (2 bp):
GA
Found at i:647654 original size:2 final size:2
Alignment explanation
Indices: 647647--647673 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
647637 CAATTAGTTG
647647 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 A
647674 AAAGCACGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:656020 original size:21 final size:20
Alignment explanation
Indices: 655982--656021 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
655972 TTTATCAAAT
*
655982 AATATTAATATATCTATTAA
1 AATATTAAAATATCTATTAA
*
656002 AATATTAAAAATATGTATTA
1 AATATT-AAAATATCTATTA
656022 TTAAAATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (20 bp):
AATATTAAAATATCTATTAA
Found at i:656060 original size:15 final size:15
Alignment explanation
Indices: 656029--656067 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
656019 TTATTAAAAT
656029 ATATTGAAATTATTTA
1 ATATT-AAATTATTTA
656045 ATATTAAATT-TATTA
1 ATATTAAATTAT-TTA
656060 ATATTAAA
1 ATATTAAA
656068 AAATAATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 1 0.05
15 16 0.73
16 5 0.23
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (15 bp):
ATATTAAATTATTTA
Found at i:656178 original size:5 final size:5
Alignment explanation
Indices: 656154--656248 Score: 70
Period size: 5 Copynumber: 18.8 Consensus size: 5
656144 TTATTATTCT
* * *
656154 TTATA TTAT- TTATTA ATATA TTATA ATATTA TTATTA ATATA TTATA
1 TTATA TTATA TTA-TA TTATA TTATA TTA-TA TTA-TA TTATA TTATA
* * * *
656201 TTATA GTATA TTTTA TTAATA ATATA TTAT- TTAT- TTATA TAATA TTAT
1 TTATA TTATA TTATA TT-ATA TTATA TTATA TTATA TTATA TTATA TTAT
656249 TTAGAAGTAA
Statistics
Matches: 71, Mismatches: 14, Indels: 10
0.75 0.15 0.11
Matches are distributed among these distances:
4 11 0.15
5 46 0.65
6 14 0.20
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (5 bp):
TTATA
Found at i:656197 original size:8 final size:7
Alignment explanation
Indices: 656155--656248 Score: 55
Period size: 7 Copynumber: 14.1 Consensus size: 7
656145 TATTATTCTT
656155 TATATTA
1 TATATTA
*
656162 TTTATTAA
1 TATATT-A
656170 TATATTA
1 TATATTA
656177 TAATATTA
1 T-ATATTA
656185 T-TATTAA
1 TATATT-A
656192 TATATTA
1 TATATTA
656199 TAT-TATA
1 TATAT-TA
656206 GTATATT-
1 -TATATTA
656213 T-TATTA
1 TATATTA
656219 -ATA--A
1 TATATTA
656223 TATATTA
1 TATATTA
*
656230 TTTATT-
1 TATATTA
656236 TATA-TA
1 TATATTA
656242 -ATATTA
1 TATATTA
656248 T
1 T
656249 TTAGAAGTAA
Statistics
Matches: 68, Mismatches: 4, Indels: 30
0.67 0.04 0.29
Matches are distributed among these distances:
4 1 0.01
5 11 0.16
6 13 0.19
7 21 0.31
8 21 0.31
9 1 0.01
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (7 bp):
TATATTA
Found at i:656246 original size:34 final size:33
Alignment explanation
Indices: 656155--656246 Score: 91
Period size: 31 Copynumber: 2.7 Consensus size: 33
656145 TATTATTCTT
* *
656155 TATATTATTTATTAATATATTATAATATTATTATTAA
1 TATATTATTTATT--TATA-TAT-ATTTTATTAATAA
656192 TATATTA--TA-TTATAGTATATTTTATTAATAA
1 TATATTATTTATTTATA-TATATTTTATTAATAA
656223 TATATTATTTATTTATATAATATT
1 TATATTATTTATTTATAT-ATATT
656247 ATTTAGAAGT
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
31 18 0.38
32 7 0.15
33 3 0.06
34 11 0.23
35 2 0.04
37 7 0.15
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (33 bp):
TATATTATTTATTTATATATATTTTATTAATAA
Found at i:656390 original size:22 final size:23
Alignment explanation
Indices: 656356--656403 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
656346 TTTTTTAAAA
*
656356 AATAATATCATTTTTTATTAATC
1 AATAATATCATTTTTCATTAATC
* *
656379 AATAA-ATTATTTTTCATTGATC
1 AATAATATCATTTTTCATTAATC
656401 AAT
1 AAT
656404 TAATCTAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.50
Consensus pattern (23 bp):
AATAATATCATTTTTCATTAATC
Found at i:656585 original size:27 final size:27
Alignment explanation
Indices: 656545--656611 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
656535 TTATTTAATA
*
656545 AATTATTTAGATTTAATATGTTTGGAT
1 AATTATTTAAATTTAATATGTTTGGAT
* *
656572 AATTATGTAAATTTAATATGTTTTGAT
1 AATTATTTAAATTTAATATGTTTGGAT
656599 AATTATTTAAATT
1 AATTATTTAAATT
656612 CAAATAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.52
Consensus pattern (27 bp):
AATTATTTAAATTTAATATGTTTGGAT
Found at i:656637 original size:18 final size:20
Alignment explanation
Indices: 656616--656657 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
656606 TAAATTCAAA
656616 TAAAAA-TTTATA-AAATAT
1 TAAAAATTTTATATAAATAT
*
656634 TAAAAATTTTATATAAATTT
1 TAAAAATTTTATATAAATAT
656654 TAAA
1 TAAA
656658 TTCAAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 6 0.29
20 9 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TAAAAATTTTATATAAATAT
Found at i:658427 original size:2 final size:2
Alignment explanation
Indices: 658420--658446 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
658410 AAATCGGTTC
658420 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 A
658447 GTTAAACTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:658649 original size:3 final size:3
Alignment explanation
Indices: 658641--658665 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
658631 TTCAATCATA
658641 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
658666 TGATGTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:660274 original size:16 final size:17
Alignment explanation
Indices: 660248--660279 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
660238 ATATCTATAT
660248 AAAATTTTATTTTAAAC
1 AAAATTTTATTTTAAAC
660265 AAAA-TTTATTTTAAA
1 AAAATTTTATTTTAAA
660280 TTATACAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
AAAATTTTATTTTAAAC
Found at i:660349 original size:30 final size:29
Alignment explanation
Indices: 660315--660399 Score: 84
Period size: 30 Copynumber: 2.9 Consensus size: 29
660305 TAATTAGATA
*
660315 TAAATAAGAAATTAAATATTTATTTATGTG
1 TAAATAA-AAATTAAATATTTATTTAGGTG
*
660345 TAAATTAAAAGTT-AATCATTTATTTAGGTG
1 TAAA-TAAAAATTAAAT-ATTTATTTAGGTG
* *
660375 T-AATAATAATATAAAGATTTATTTA
1 TAAATAAAAAT-TAAATATTTATTTA
660400 AGTAAAGTGA
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
28 5 0.11
29 15 0.33
30 23 0.50
31 3 0.07
ACGTcount: A:0.46, C:0.01, G:0.09, T:0.44
Consensus pattern (29 bp):
TAAATAAAAATTAAATATTTATTTAGGTG
Found at i:663535 original size:188 final size:188
Alignment explanation
Indices: 663218--663592 Score: 696
Period size: 188 Copynumber: 2.0 Consensus size: 188
663208 CCCCTCTCTA
* * *
663218 TCTCTCTTATTTACCAAAACGACGAGCTTCTTCTCACTCATCACGAATCGTAATTTCATTTAATC
1 TCTCTCTTATTTACCAAAACGACGAGCTTCTTCTCACTCATCACGAACCCTAATTTCATTCAATC
663283 TTATTCATTTTTACAAAACCCCAATTCCCCAAACTCGACATTCCTCTTATTCTTCTTCAACTTCA
66 TTATTCATTTTTACAAAACCCCAATTCCCCAAACTCGACATTCCTCTTATTCTTCTTCAACTTCA
* *
663348 ACAGGCTTTGATTGCTTGAATCAGTTTTCCCCATTTTGTAACTCTAATAAAGCAGCTC
131 ACAGACTTTCATTGCTTGAATCAGTTTTCCCCATTTTGTAACTCTAATAAAGCAGCTC
*
663406 TCTCTCTTATTTACCGAAACGACGAGCTTCTTCTCACTCATCACGAACCCTAATTTCATTCAATC
1 TCTCTCTTATTTACCAAAACGACGAGCTTCTTCTCACTCATCACGAACCCTAATTTCATTCAATC
663471 TTATTCATTTTTACAAAACCCCAATTCCCCAAACTCGACATTCCTCTTATTCTTCTTCAACTTCA
66 TTATTCATTTTTACAAAACCCCAATTCCCCAAACTCGACATTCCTCTTATTCTTCTTCAACTTCA
663536 ACAGACTTTCATTGCTTGAATCAGTTTTCCCCATTTTGTAACTCTAATAAAGCAGCT
131 ACAGACTTTCATTGCTTGAATCAGTTTTCCCCATTTTGTAACTCTAATAAAGCAGCT
663593 GCCACTGATT
Statistics
Matches: 181, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
188 181 1.00
ACGTcount: A:0.27, C:0.29, G:0.07, T:0.37
Consensus pattern (188 bp):
TCTCTCTTATTTACCAAAACGACGAGCTTCTTCTCACTCATCACGAACCCTAATTTCATTCAATC
TTATTCATTTTTACAAAACCCCAATTCCCCAAACTCGACATTCCTCTTATTCTTCTTCAACTTCA
ACAGACTTTCATTGCTTGAATCAGTTTTCCCCATTTTGTAACTCTAATAAAGCAGCTC
Found at i:665957 original size:50 final size:50
Alignment explanation
Indices: 665895--665992 Score: 151
Period size: 50 Copynumber: 2.0 Consensus size: 50
665885 AGAAGAAGAT
* **
665895 AGGAGATATAAAGAAAAGAGTTATGGAAGCTGTAAGGGAAGATATGGTAA
1 AGGAGATATAAAGAAAAGAGGTATGGAAGCTACAAGGGAAGATATGGTAA
* *
665945 AGGAGATATAAAGAAGAGAGGTATGGAAGCTACGAGGGAAGATATGGT
1 AGGAGATATAAAGAAAAGAGGTATGGAAGCTACAAGGGAAGATATGGT
665993 GTACCCTACA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.44, C:0.03, G:0.35, T:0.18
Consensus pattern (50 bp):
AGGAGATATAAAGAAAAGAGGTATGGAAGCTACAAGGGAAGATATGGTAA
Found at i:668842 original size:2 final size:2
Alignment explanation
Indices: 668835--668862 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
668825 GTTACCCAAT
668835 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
668863 CCTTCCTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:672513 original size:84 final size:84
Alignment explanation
Indices: 672374--672540 Score: 307
Period size: 84 Copynumber: 2.0 Consensus size: 84
672364 AGCTTTAACT
672374 TCATCAGCAACTGCTGCTGTTTTGTCACAATCTACCAGGGAATTACCAACAATTAATATTGCTTC
1 TCATCAGCAACTGCTGCTGTTTTGTCACAATCTACCAGGGAATTACCAACAATTAATATTGCTTC
*
672439 ACCTTCTTCCTTTGAACCA
66 ACCTTCTTCCTTAGAACCA
* *
672458 TCATCAGCAACTGCTGTTGTTTTGTCACAATCTACCAGGGAATTACCAACAATTAATGTTGCTTC
1 TCATCAGCAACTGCTGCTGTTTTGTCACAATCTACCAGGGAATTACCAACAATTAATATTGCTTC
672523 ACCTTCTTCCTTAGAACC
66 ACCTTCTTCCTTAGAACC
672541 GAAGATAGAG
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 80 1.00
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.34
Consensus pattern (84 bp):
TCATCAGCAACTGCTGCTGTTTTGTCACAATCTACCAGGGAATTACCAACAATTAATATTGCTTC
ACCTTCTTCCTTAGAACCA
Found at i:676004 original size:22 final size:22
Alignment explanation
Indices: 675976--676019 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
675966 CTAAATCTTC
*
675976 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
675998 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
676020 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:679487 original size:18 final size:18
Alignment explanation
Indices: 679456--679490 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
679446 TAATCCATGA
* *
679456 GAACTGGAAGCTTTACCT
1 GAACTAGAAACTTTACCT
679474 GAACTAGAAACTTTACC
1 GAACTAGAAACTTTACC
679491 CAAAGAACAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (18 bp):
GAACTAGAAACTTTACCT
Found at i:679744 original size:23 final size:23
Alignment explanation
Indices: 679690--679746 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
679680 ACAGGATTCG
* **
679690 GCAATGAAAGCCTAAAAAAGTGG
1 GCAATGAAGGCCTAAAAAAGTCA
679713 GCAATGAAGGCCTAAAAAAGTCA
1 GCAATGAAGGCCTAAAAAAGTCA
679736 GCAATGAAGGC
1 GCAATGAAGGC
679747 GGAAAAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.46, C:0.16, G:0.26, T:0.12
Consensus pattern (23 bp):
GCAATGAAGGCCTAAAAAAGTCA
Found at i:679752 original size:23 final size:23
Alignment explanation
Indices: 679690--679753 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 23
679680 ACAGGATTCG
* * **
679690 GCAATGAAAGCCTAAAAAAGTGG
1 GCAATGAAGGCCGAAAAAAGTCA
*
679713 GCAATGAAGGCCTAAAAAAGTCA
1 GCAATGAAGGCCGAAAAAAGTCA
*
679736 GCAATGAAGGCGGAAAAA
1 GCAATGAAGGCCGAAAAA
679754 TTTTTCTTCC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.48, C:0.14, G:0.27, T:0.11
Consensus pattern (23 bp):
GCAATGAAGGCCGAAAAAAGTCA
Found at i:679924 original size:22 final size:22
Alignment explanation
Indices: 679896--679939 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
679886 TAAATCTTTC
*
679896 TTAATTCTAGGGATACAAATAT
1 TTAATTCTAGAGATACAAATAT
679918 TTAATTCTAGAGATACAAATAT
1 TTAATTCTAGAGATACAAATAT
679940 AAATATACAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.36
Consensus pattern (22 bp):
TTAATTCTAGAGATACAAATAT
Found at i:689268 original size:27 final size:29
Alignment explanation
Indices: 689223--689282 Score: 81
Period size: 27 Copynumber: 2.1 Consensus size: 29
689213 ATTTAAAGTT
689223 ATATCTAAAATTTAAAAATTT-TTAATATA
1 ATATCTAAAATTTAAAAATTTATTAAT-TA
*
689252 ATAT-TAAAA-TTATAAATTTATTAATTA
1 ATATCTAAAATTTAAAAATTTATTAATTA
689279 ATAT
1 ATAT
689283 GACACTCACT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 15 0.52
28 10 0.34
29 4 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (29 bp):
ATATCTAAAATTTAAAAATTTATTAATTA
Found at i:693167 original size:32 final size:32
Alignment explanation
Indices: 693131--693193 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
693121 ACATACAAAT
*
693131 TCATACAATGCATCAAATTTTCAAACTTACAA
1 TCATACAATGCATCAAAATTTCAAACTTACAA
693163 TCATACAATGCATCAAAATTTCAAACTTACA
1 TCATACAATGCATCAAAATTTCAAACTTACA
693194 CAAGTATATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.44, C:0.22, G:0.03, T:0.30
Consensus pattern (32 bp):
TCATACAATGCATCAAAATTTCAAACTTACAA
Found at i:701018 original size:16 final size:17
Alignment explanation
Indices: 700993--701041 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 17
700983 TTTTTAATGT
*
700993 ATAAACATAAAAT-TAA
1 ATAAATATAAAATATAA
701009 ATAAATATAAATATATAA
1 ATAAATATAAA-ATATAA
* *
701027 TTAAATAAAAAATAT
1 ATAAATATAAAATAT
701042 TATATATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 10 0.36
17 6 0.21
18 12 0.43
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (17 bp):
ATAAATATAAAATATAA
Found at i:701047 original size:22 final size:22
Alignment explanation
Indices: 700992--701035 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
700982 ATTTTTAATG
* *
700992 TATAAACATAAAATTAAATAAA
1 TATAAATATATAATTAAATAAA
701014 TATAAATATATAATTAAATAAA
1 TATAAATATATAATTAAATAAA
701036 AAATATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (22 bp):
TATAAATATATAATTAAATAAA
Found at i:705530 original size:2 final size:2
Alignment explanation
Indices: 705523--705556 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
705513 AGGTAATTTG
705523 AT 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 AT
705557 TTGCATTAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:712057 original size:31 final size:32
Alignment explanation
Indices: 711999--712059 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
711989 TTTCTGGCTG
* *
711999 TGGGAGGTCGTAACCCTTCGGAACTCTAGCTT
1 TGGGAGGTCATAACCCTTCAGAACTCTAGCTT
*
712031 TGGGAGTTCATAACCCTT-AGAACTCTAGC
1 TGGGAGGTCATAACCCTTCAGAACTCTAGC
712060 AAGAGTATGC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 10 0.38
32 16 0.62
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.28
Consensus pattern (32 bp):
TGGGAGGTCATAACCCTTCAGAACTCTAGCTT
Found at i:712350 original size:195 final size:194
Alignment explanation
Indices: 712019--712391 Score: 575
Period size: 195 Copynumber: 1.9 Consensus size: 194
712009 TAACCCTTCG
*
712019 GAACTCTAGCTTTGGGAGTTCATAACCCTTAGAACTCTAGCAAGAGTATGCAAGGTATGAGGATG
1 GAACTCTAGCTTTGGGAGTTCATAACCCTTAGAACTCTAGCAAGAGTATGCAAGCTATGAGGATG
* * * *
712084 TGGAGAACTTAATAGAAAAACTTAGATATTACGTACGGAATATATTTTCATATGGTAACATGTTA
66 TGGAGAAATAAATAGAAAAACTTAGATATTACATACGGAATATATTTTCATATAGTAACATGTTA
* * *
712149 GCCTTAAGAAACATGCACATTAGAGTGCCTTTGTTAGTGTGATTTTCTTACTAATTTGTATTCA
131 GCCTTAAGAAACATGCACATCAGAGTGCCCTTGTTACTGTGATTTTCTTACTAATTTGTATTCA
* * *
712213 GAACTCTAGCTTTGGGAGTTCATAACCCTTCAGAACTCTAGCAAGTGTCTGCAAGCTTTGAGGAT
1 GAACTCTAGCTTTGGGAGTTCATAACCCTT-AGAACTCTAGCAAGAGTATGCAAGCTATGAGGAT
* * * *
712278 GTGGAGAAATAAATAGAAAAACTTAGCTATTACATACGGAATATATTTTCATGTAGTAATATTTT
65 GTGGAGAAATAAATAGAAAAACTTAGATATTACATACGGAATATATTTTCATATAGTAACATGTT
* **
712343 GGCCTTAAGAAACATGCATGTCAGAGTGCCCTTGTTACTGTGATTTTCT
130 AGCCTTAAGAAACATGCACATCAGAGTGCCCTTGTTACTGTGATTTTCT
712392 AATTTGTATG
Statistics
Matches: 160, Mismatches: 18, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
194 30 0.19
195 130 0.81
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (194 bp):
GAACTCTAGCTTTGGGAGTTCATAACCCTTAGAACTCTAGCAAGAGTATGCAAGCTATGAGGATG
TGGAGAAATAAATAGAAAAACTTAGATATTACATACGGAATATATTTTCATATAGTAACATGTTA
GCCTTAAGAAACATGCACATCAGAGTGCCCTTGTTACTGTGATTTTCTTACTAATTTGTATTCA
Found at i:717436 original size:3 final size:3
Alignment explanation
Indices: 717428--717463 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
717418 ACTAGGATAA
717428 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
717464 AACAATTGTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:718251 original size:6 final size:6
Alignment explanation
Indices: 718236--718271 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
718226 GCTTTTAATT
* *
718236 TCTCTG TCTCTC TCTCTG TCTCTG TCTCTC TCTCTG
1 TCTCTG TCTCTG TCTCTG TCTCTG TCTCTG TCTCTG
718272 CTTTAGAGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.39, G:0.11, T:0.50
Consensus pattern (6 bp):
TCTCTG
Found at i:718259 original size:18 final size:18
Alignment explanation
Indices: 718236--718271 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
718226 GCTTTTAATT
718236 TCTCTGTCTCTCTCTCTG
1 TCTCTGTCTCTCTCTCTG
718254 TCTCTGTCTCTCTCTCTG
1 TCTCTGTCTCTCTCTCTG
718272 CTTTAGAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.39, G:0.11, T:0.50
Consensus pattern (18 bp):
TCTCTGTCTCTCTCTCTG
Found at i:720628 original size:25 final size:25
Alignment explanation
Indices: 720600--720647 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
720590 TATCACCTAA
720600 AAATTTTATAGAA-ATTTAA-CATTTG
1 AAATTTT-TA-AATATTTAATCATTTG
720625 AAATTTTTAAATATTTAATCATT
1 AAATTTTTAAATATTTAATCATT
720648 AGATAATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 2 0.10
24 8 0.38
25 11 0.52
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (25 bp):
AAATTTTTAAATATTTAATCATTTG
Found at i:726777 original size:2 final size:2
Alignment explanation
Indices: 726770--726801 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
726760 TGATAATCTC
726770 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
726802 GATCTGTCCT
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:746631 original size:2 final size:2
Alignment explanation
Indices: 746624--746652 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
746614 CTATCAAGTT
746624 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
746653 CTCAATTCAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:763293 original size:2 final size:2
Alignment explanation
Indices: 763286--763322 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
763276 TTCACCTTTA
763286 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
763323 TATATATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:763328 original size:2 final size:2
Alignment explanation
Indices: 763323--763363 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
763313 CTCTCTCTCT
763323 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
763364 CTACCTGAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:785680 original size:6 final size:6
Alignment explanation
Indices: 785666--785705 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
785656 CAACTTATTT
*
785666 TATATA TATACA TATACA TATACA TATACA TATACA TATA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATA
785706 TGATACATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (6 bp):
TATACA
Found at i:786720 original size:20 final size:20
Alignment explanation
Indices: 786667--786728 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 20
786657 GCGGTAATTT
*
786667 TTTAT-ATAATTTTGAATGTA
1 TTTATGATAATTTTG-ATATA
*
786687 CTT-TG-TAATCTTTGATATA
1 TTTATGATAAT-TTTGATATA
*
786706 TTTATGATAATTTTGAAATA
1 TTTATGATAATTTTGATATA
786726 TTT
1 TTT
786729 TTAATCACAT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
19 11 0.32
20 19 0.56
21 4 0.12
ACGTcount: A:0.32, C:0.03, G:0.10, T:0.55
Consensus pattern (20 bp):
TTTATGATAATTTTGATATA
Found at i:787006 original size:21 final size:21
Alignment explanation
Indices: 786981--787031 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
786971 TGAAATATAG
*
786981 ATTTTATTTTTTTAATAAATA
1 ATTTTATTTGTTTAATAAATA
* *
787002 ATTTTAGTTGTTTACTAAATA
1 ATTTTATTTGTTTAATAAATA
*
787023 ACTTTATTT
1 ATTTTATTT
787032 AAATTTTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (21 bp):
ATTTTATTTGTTTAATAAATA
Found at i:788086 original size:10 final size:9
Alignment explanation
Indices: 788073--788157 Score: 53
Period size: 10 Copynumber: 8.4 Consensus size: 9
788063 TTTAGTAATT
788073 TTTTGTATAA
1 TTTTG-ATAA
788083 TTTTGATAA
1 TTTTGATAA
788092 TATTTGATAAA
1 T-TTTGAT-AA
788103 CTTTTGATAA
1 -TTTTGATAA
* *
788113 GTTTTTATTTGA
1 -TTTTGA--TAA
*
788125 TTTTGGAAAA
1 TTTT-GATAA
*
788135 TTTTATATAA
1 TTTT-GATAA
788145 TTTTGATAA
1 TTTTGATAA
788154 TTTT
1 TTTT
788158 TTATATAACT
Statistics
Matches: 59, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
9 13 0.22
10 30 0.51
11 12 0.20
12 4 0.07
ACGTcount: A:0.32, C:0.01, G:0.11, T:0.56
Consensus pattern (9 bp):
TTTTGATAA
Found at i:788195 original size:9 final size:10
Alignment explanation
Indices: 788133--788250 Score: 57
Period size: 11 Copynumber: 11.3 Consensus size: 10
788123 GATTTTGGAA
788133 AATTTTATAT
1 AATTTTATAT
788143 AATTTTGATA-
1 AATTTT-ATAT
*
788153 ATTTTTTATAT
1 A-ATTTTATAT
**
788164 AACTTTGCTA-
1 AA-TTTTATAT
*
788174 ACTTTTAGTAT
1 AATTTTA-TAT
788185 AATTTTA-AT
1 AATTTTATAT
*
788194 AATACTTGATAT
1 AAT--TTTATAT
788206 AATTTTA-AT
1 AATTTTATAT
788215 AATCATTTATAT
1 AAT--TTTATAT
788227 AATTTTGATA-
1 AATTTT-ATAT
*
788237 ACATTTAATAT
1 A-ATTTTATAT
788248 AAT
1 AAT
788251 AACCGTAACT
Statistics
Matches: 82, Mismatches: 11, Indels: 30
0.67 0.09 0.24
Matches are distributed among these distances:
9 13 0.16
10 25 0.30
11 34 0.41
12 10 0.12
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.52
Consensus pattern (10 bp):
AATTTTATAT
Found at i:788371 original size:40 final size:40
Alignment explanation
Indices: 788255--788372 Score: 148
Period size: 41 Copynumber: 2.9 Consensus size: 40
788245 TATAATAACC
* **
788255 GTAACTTTGGATTTATTTTTGGTAACATTTTATATAAATG
1 GTAACTTTTGATGAATTTTTGGTAACATTTTATATAAATG
* * * *
788295 GTAAATTTTGATGTATTTTTTTGTAACATTCTATATAAATG
1 GTAACTTTTGATG-AATTTTTGGTAACATTTTATATAAATG
788336 GTAACTTTTGATGAATTTTTGGTAAC-TTTTGATATAA
1 GTAACTTTTGATGAATTTTTGGTAACATTTT-ATATAA
788373 TTTTGATAAT
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
39 3 0.05
40 27 0.42
41 35 0.54
ACGTcount: A:0.31, C:0.05, G:0.14, T:0.50
Consensus pattern (40 bp):
GTAACTTTTGATGAATTTTTGGTAACATTTTATATAAATG
Found at i:788376 original size:21 final size:21
Alignment explanation
Indices: 788052--788485 Score: 137
Period size: 21 Copynumber: 20.8 Consensus size: 21
788042 CTTGATAACC
* *
788052 TTGATATAAATTTTAGTAATTTT
1 TTGATAT-AATTTTGGTAA-CTT
*
788075 TTG-TATAATTTTGATAA-TAT
1 TTGATATAATTTTGGTAACT-T
* *
788095 TTGATA-AACTTTTGATAAGTT
1 TTGATATAA-TTTTGGTAACTT
* * * * *
788116 TTTATTTGATTTTGGAAAATT
1 TTGATATAATTTTGGTAACTT
* *
788137 TT-ATATAATTTTGATAATTT
1 TTGATATAATTTTGGTAACTT
* * *
788157 TTTATATAACTTTGCTAACTT
1 TTGATATAATTTTGGTAACTT
** *
788178 TT-AGTATAATTTTAATAA-TAC
1 TTGA-TATAATTTTGGTAACT-T
** *
788199 TTGATATAATTTTAATAATCAT
1 TTGATATAATTTTGGTAA-CTT
* *
788221 TT-ATATAATTTTGATAACAT
1 TTGATATAATTTTGGTAACTT
* ****
788241 TTAATATAATAACCGTAACTT
1 TTGATATAATTTTGGTAACTT
* * *
788262 TGGATTTATTTTTGGTAACATT
1 TTGATATAATTTTGGTAAC-TT
* *
788284 TT-ATATAA--ATGGTAAATT
1 TTGATATAATTTTGGTAACTT
* * *
788302 TTGATGTATTTTTTTGTAACATT
1 TTGATATA-ATTTTGGTAAC-TT
* *
788325 CT-ATATAA--ATGGTAACTT
1 TTGATATAATTTTGGTAACTT
*
788343 TTGATGA-ATTTTTGGTAACTT
1 TTGAT-ATAATTTTGGTAACTT
* *
788364 TTGATATAATTTTGATAATTT
1 TTGATATAATTTTGGTAACTT
* *
788385 TTAATAT-ATTGTTGTTAA-TAT
1 TTGATATAATT-TTGGTAACT-T
* * **
788406 TTAATGTAATTTTGGTAACAC
1 TTGATATAATTTTGGTAACTT
** *
788427 TCAATATATTTTTGGTAACTT
1 TTGATATAATTTTGGTAACTT
* * *
788448 TTAATGTAATTTTGATAA-TT
1 TTGATATAATTTTGGTAACTT
*
788468 TTGAATGTAATTTTGGTA
1 TTG-ATATAATTTTGGTA
788486 TAATTGGATA
Statistics
Matches: 308, Mismatches: 75, Indels: 58
0.70 0.17 0.13
Matches are distributed among these distances:
18 7 0.02
19 20 0.06
20 38 0.12
21 214 0.69
22 23 0.07
23 6 0.02
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.52
Consensus pattern (21 bp):
TTGATATAATTTTGGTAACTT
Found at i:788419 original size:63 final size:63
Alignment explanation
Indices: 788352--788532 Score: 181
Period size: 63 Copynumber: 2.9 Consensus size: 63
788342 TTTGATGAAT
* * *
788352 TTTTGGTAACTTTTGATATAATTTTGATAATTTTTAATAT-ATTGTTGTTAATATTT-AATGTAA
1 TTTTGGTAACATTCGATATAATTTTGATAATTTTTAATATAATT-TTGATAAT-TTTGAATGTAA
* * * * * *
788415 TTTTGGTAACACTCAATATATTTTTGGTAACTTTTAATGTAATTTTGATAATTTTGAATGTAA
1 TTTTGGTAACATTCGATATAATTTTGATAATTTTTAATATAATTTTGATAATTTTGAATGTAA
* * * *
788478 TTTTGGTATA-ATTGGATATAAATTTGATCATTTTT-ATGTAATTTTGATTAATTTT
1 TTTTGGTA-ACATTCGATATAATTTTGATAATTTTTAATATAATTTTGA-TAATTTT
788533 TATACAATTT
Statistics
Matches: 97, Mismatches: 17, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
62 15 0.15
63 78 0.80
64 4 0.04
ACGTcount: A:0.31, C:0.03, G:0.12, T:0.54
Consensus pattern (63 bp):
TTTTGGTAACATTCGATATAATTTTGATAATTTTTAATATAATTTTGATAATTTTGAATGTAA
Found at i:788533 original size:21 final size:20
Alignment explanation
Indices: 788436--788553 Score: 85
Period size: 21 Copynumber: 5.7 Consensus size: 20
788426 CTCAATATAT
* *
788436 TTTTGGTAACTTTTAATGTAA
1 TTTTGATAA-TTTTTATGTAA
*
788457 TTTTGATAATTTTGAATGTAA
1 TTTTGATAATTTT-TATGTAA
** *
788478 TTTTGGTATAA-TTGGATATAA
1 TTTT-G-ATAATTTTTATGTAA
* *
788499 ATTTGATCATTTTTATGTAA
1 TTTTGATAATTTTTATGTAA
**
788519 TTTTGATTAATTTTTATACAA
1 TTTTGA-TAATTTTTATGTAA
*
788540 TTTTGAAAATTTTT
1 TTTTGATAATTTTT
788554 GATTCAATTA
Statistics
Matches: 78, Mismatches: 14, Indels: 11
0.76 0.14 0.11
Matches are distributed among these distances:
19 3 0.04
20 24 0.31
21 44 0.56
22 3 0.04
23 4 0.05
ACGTcount: A:0.31, C:0.03, G:0.12, T:0.54
Consensus pattern (20 bp):
TTTTGATAATTTTTATGTAA
Found at i:788553 original size:41 final size:42
Alignment explanation
Indices: 788455--788553 Score: 105
Period size: 41 Copynumber: 2.4 Consensus size: 42
788445 CTTTTAATGT
* *
788455 AATTTTGATAATTTTGAATGTAATTTTGGTATAATTGGATATA
1 AATTTTGATAATTTT-TATGTAATTTTGATATAATTGGATATA
* **
788498 AA-TTTGATCATTTTTATGTAATTTTGAT-TAATT-TTTATA
1 AATTTTGATAATTTTTATGTAATTTTGATATAATTGGATATA
*
788537 CAATTTTGAAAATTTTT
1 -AATTTTGATAATTTTT
788554 GATTCAATTA
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
39 4 0.09
40 7 0.15
41 23 0.49
42 11 0.23
43 2 0.04
ACGTcount: A:0.33, C:0.02, G:0.11, T:0.54
Consensus pattern (42 bp):
AATTTTGATAATTTTTATGTAATTTTGATATAATTGGATATA
Found at i:788561 original size:21 final size:21
Alignment explanation
Indices: 788507--788569 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
788497 AAATTTGATC
** *
788507 ATTTTTATGTAATTTTGATTA
1 ATTTTTATACAATTTTGATAA
788528 ATTTTTATACAATTTTGA-AA
1 ATTTTTATACAATTTTGATAA
* *
788548 ATTTTTGATTCAATTATGATAA
1 ATTTTT-ATACAATTTTGATAA
788570 CTGTTAGTGT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
20 7 0.20
21 26 0.74
22 2 0.06
ACGTcount: A:0.35, C:0.03, G:0.08, T:0.54
Consensus pattern (21 bp):
ATTTTTATACAATTTTGATAA
Found at i:788711 original size:27 final size:27
Alignment explanation
Indices: 788661--788712 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
788651 TAGTAAGTTT
* *
788661 TGATATAATTTTAATTTAACCAAAGGA
1 TGATATAATATTAATTAAACCAAAGGA
* *
788688 TGATATAATATTAGTTAAATCAAAG
1 TGATATAATATTAATTAAACCAAAG
788713 CTCCAATATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.37
Consensus pattern (27 bp):
TGATATAATATTAATTAAACCAAAGGA
Found at i:794425 original size:19 final size:19
Alignment explanation
Indices: 794394--794443 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
794384 TTTCAATTTA
794394 AAATAAGAAATAATA-AAAAT
1 AAATAA-AAATAA-ACAAAAT
794414 AAATAAAAATAAACAAAAT
1 AAATAAAAATAAACAAAAT
794433 AAGA-AAAAATA
1 AA-ATAAAAATA
794444 GAATCAAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 1 0.04
19 20 0.71
20 7 0.25
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.16
Consensus pattern (19 bp):
AAATAAAAATAAACAAAAT
Found at i:794441 original size:10 final size:9
Alignment explanation
Indices: 794401--794443 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 9
794391 TTAAAATAAG
*
794401 AAATAATAA
1 AAATAAAAA
794410 AAATAAATAA
1 AAATAAA-AA
*
794420 AAATAAACA
1 AAATAAAAA
794429 AAATAAGAAA
1 AAATAA-AAA
794439 AAATA
1 AAATA
794444 GAATCAAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
9 13 0.45
10 16 0.55
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.16
Consensus pattern (9 bp):
AAATAAAAA
Found at i:795576 original size:118 final size:116
Alignment explanation
Indices: 795338--795868 Score: 429
Period size: 118 Copynumber: 4.6 Consensus size: 116
795328 GAGTCATAAG
* * * * * * *
795338 AAATGATCT-AGACTAAGCCAAGATTAGGTGATTGAGATGAAACCACGAGTCAAAAATGAAGCGA
1 AAATGATCTGA-ACTGAGCCAAGATCAGATAATCGAGATGAAAACACGAGTCAAAAATGAAGTGA
* * *
795402 CTAAGATCGAGTCGAGGTCGAGAATAACT--T-GGACAAAACCACGAATCATA
65 CTAAGATCGAGTCGAAGTC-AAAATAAATGATCGGACAAAACCACGAATCATA
* * * *
795452 AAATGATCTAAACTGAACCAAGATCAGATAATC-AGGATGAAAACATGAGTCAGAAAATTAAGTG
1 AAATGATCTGAACTGAGCCAAGATCAGATAATCGA-GATGAAAACACGAGTCA-AAAATGAAGTG
* *
795516 ACTAAGATCGAGTCGAAGTCAAAATAAATGATCAAGACAAAACCATGAATCATA
64 ACTAAGATCGAGTCGAAGTCAAAATAAATGATC-GGACAAAACCACGAATCATA
* * *
795570 AAATGATCTGAACTGAGCCAAGATCAGGTGATCGAGATGAAATCACGAGTCAAAAAATGAAGTGA
1 AAATGATCTGAACTGAGCCAAGATCAGATAATCGAGATGAAAACACGAGTC-AAAAATGAAGTGA
* * ** *
795635 CTAGGATCGAGTC-AAGGTCACAATAAATGATCGGGATGAAACCACAAATCATA
65 CTAAGATCGAGTCGAA-GTCAAAATAAATGATC-GGACAAAACCACGAATCATA
* * * * * * *
795688 AAATGATTTGGACTGAGCCAAGATCAGGTGA-CTGGGAT-AAAACCACGACTC-AAAATGAAATG
1 AAATGATCTGAACTGAGCCAAGATCAGATAATC-GAGATGAAAA-CACGAGTCAAAAATGAAGTG
* * * * * * * * *
795750 ACCAAGATCAAGTTGAGGTAAAAAATAAATGA-CTGAAATGAAATCATGAATCATA
64 ACTAAGATCGAGTCGAAGT-CAAAATAAATGATCGGACA--AAACCACGAATCATA
* * * * * * *
795805 AAATGATCTGGACTGAGTCAAGATTAGGTAA-CTGGGATGAAACCACGAGTC-AAAATAAAGTGA
1 AAATGATCTGAACTGAGCCAAGATCAGATAATC-GAGATGAAAACACGAGTCAAAAATGAAGTGA
795868 C
65 C
795869 AAAAACCAAG
Statistics
Matches: 343, Mismatches: 57, Indels: 31
0.80 0.13 0.07
Matches are distributed among these distances:
113 1 0.00
114 47 0.14
115 31 0.09
116 24 0.07
117 81 0.24
118 157 0.46
119 2 0.01
ACGTcount: A:0.44, C:0.15, G:0.21, T:0.19
Consensus pattern (116 bp):
AAATGATCTGAACTGAGCCAAGATCAGATAATCGAGATGAAAACACGAGTCAAAAATGAAGTGAC
TAAGATCGAGTCGAAGTCAAAATAAATGATCGGACAAAACCACGAATCATA
Found at i:795817 original size:117 final size:117
Alignment explanation
Indices: 795555--796139 Score: 528
Period size: 119 Copynumber: 4.9 Consensus size: 117
795545 GATCAAGACA
* * * * *
795555 AAACCATGAATCATAAAATGATCTGAACTGAGCCAAGATCAGGTGA-TCGAGATGAAATCACGAG
1 AAACCACGAATCATAAAATGATTTGGACTGAGCCAAGATCAGGTGACT-GGGATGAAACCACGAG
* * * * ** * * *
795619 TCAAAA-AATGAAGTGACTAGGATCGAGTCAAGGT-CACAATAAATGATCGGGATG
65 TCAAAATAA--AA-TGACCAAGACCAAGTTGAGGTAAAAAATAAATGACCGGGATG
* * *
795673 AAACCACAAATCATAAAATGATTTGGACTGAGCCAAGATCAGGTGACTGGGATAAAACCACGACT
1 AAACCACGAATCATAAAATGATTTGGACTGAGCCAAGATCAGGTGACTGGGATGAAACCACGAGT
* * * **
795738 CAAAATGAAATGACCAAGATCAAGTTGAGGTAAAAAATAAATGACTGAAATG
66 CAAAATAAAATGACCAAGACCAAGTTGAGGTAAAAAATAAATGACCGGGATG
* * * * * *
795790 AAATCATGAATCATAAAATGATCTGGACTGAGTCAAGATTAGGTAACTGGGATGAAACCACGAGT
1 AAACCACGAATCATAAAATGATTTGGACTGAGCCAAGATCAGGTGACTGGGATGAAACCACGAGT
* * * * *
795855 CAAAATAAAGTGACAAAAACCAAGTTGAGATAAAAAATAAATGTCCGGGATG
66 CAAAATAAAATGACCAAGACCAAGTTGAGGTAAAAAATAAATGACCGGGATG
* * * * * ** **
795907 AAACCACGAGTCATAAGAAATGATTTAGACTGAGCCAAGATAAAGTGACCGAAATGAAACCATAA
1 AAACCACGAATCAT-A-AAATGATTTGGACTGAGCCAAGATCAGGTGACTGGGATGAAACCACGA
* * * *
795972 GTCAAAATAAAATGACTAAGACTAAGTTGAGGTTAAAAATAAATGACCGGGACG
64 GTCAAAATAAAATGACCAAGACCAAGTTGAGGTAAAAAATAAATGACCGGGATG
* * * * * * * * *
796026 AAATCACGAGTCATAAGAAATGATTTGAACTGAGCCAAAATTAAGTGATTGGGATGAAACTACAA
1 AAACCACGAATCAT-A-AAATGATTTGGACTGAGCCAAGATCAGGTGACTGGGATGAAACCACGA
* * ** *
796091 GTCAAAATAAAAGTGACCAAAACCGAGTCAAGGTCAAAAATAAATGACC
64 GTCAAAATAAAA-TGACCAAGACCAAGTTGAGGTAAAAAATAAATGACC
796140 AAGACGAAAC
Statistics
Matches: 382, Mismatches: 79, Indels: 10
0.81 0.17 0.02
Matches are distributed among these distances:
116 16 0.04
117 125 0.33
118 61 0.16
119 151 0.40
120 29 0.08
ACGTcount: A:0.45, C:0.15, G:0.21, T:0.19
Consensus pattern (117 bp):
AAACCACGAATCATAAAATGATTTGGACTGAGCCAAGATCAGGTGACTGGGATGAAACCACGAGT
CAAAATAAAATGACCAAGACCAAGTTGAGGTAAAAAATAAATGACCGGGATG
Found at i:796012 original size:236 final size:232
Alignment explanation
Indices: 795536--796137 Score: 607
Period size: 236 Copynumber: 2.5 Consensus size: 232
795526 AGTCGAAGTC
* * * *
795536 AAAATAAATGATC-AAGACAAAACCATGAATCATAAAATGATCTGAACTGAGCCAAGATCAGGTG
1 AAAATAAATGACCGAA-ACGAAATCATGAATCATAAAATGATCTGAACTGAGCCAAGATTAGGTG
* * * * ** * * * * *
795600 ATCGAGATGAAATCACGAGTCAAAAAATGAAGTGACTAGGATCGAGTCAAGGTCACAATAAATGA
65 AT-GGGATGAAACCACGAGTC--AAAATAAAGTGACAAAAACCAAGTCAAGATAAAAATAAATGA
* * * * **
795665 TCGGGATGAAACCACAAATCATAAAATGATTTGGACTGAGCCAAGATCAGGTGACTGGGATAAAA
127 TCGGGATGAAACCACAAATCATAAAATGATTTAGACTGAGCCAAGATAAAGTGACCGAAATAAAA
* *
795730 CCACGACTCAAAATGAAATGACCAAGATCAAGTTGAGGTAA
192 CCACAACTCAAAATAAAATGACCAAGATCAAGTTGAGGTAA
* * * * *
795771 AAAATAAATGACTGAAATGAAATCATGAATCATAAAATGATCTGGACTGAGTCAAGATTAGGTAA
1 AAAATAAATGACCGAAACGAAATCATGAATCATAAAATGATCTGAACTGAGCCAAGATTAGGTGA
**
795836 CTGGGATGAAACCACGAGTCAAAATAAAGTGACAAAAACCAAGTTGAGATAAAAAATAAATG-TC
66 -TGGGATGAAACCACGAGTCAAAATAAAGTGACAAAAACCAAGTCAAGAT-AAAAATAAATGAT-
* * *
795900 CGGGATGAAACCACGAGTCATAAGAAATGATTTAGACTGAGCCAAGATAAAGTGACCGAAATGAA
128 CGGGATGAAACCACAAATCAT-A-AAATGATTTAGACTGAGCCAAGATAAAGTGACCGAAATAAA
* * * *
795965 ACCATAAGTCAAAATAAAATGACTAAGA-CTAAGTTGAGGTTA
191 ACCACAACTCAAAATAAAATGACCAAGATC-AAGTTGAGGTAA
** * * * * *
796007 AAAATAAATGACCGGGACGAAATCACGAGTCATAAGAAATGATTTGAACTGAGCCAAAATTAAGT
1 AAAATAAATGACCGAAACGAAATCATGAATCAT-A-AAATGATCTGAACTGAGCCAAGATTAGGT
* * * * *
796072 GATTGGGATGAAACTACAAGTCAAAATAAAAGTGACCAAAACCGAGTCAAGGTCAAAAATAAATG
64 GA-TGGGATGAAACCACGAGTCAAAAT-AAAGTGACAAAAACCAAGTCAAGAT-AAAAATAAATG
796137 A
126 A
796138 CCAAGACGAA
Statistics
Matches: 298, Mismatches: 58, Indels: 17
0.80 0.16 0.05
Matches are distributed among these distances:
233 22 0.07
234 28 0.09
235 71 0.24
236 98 0.33
237 1 0.00
238 47 0.16
239 31 0.10
ACGTcount: A:0.46, C:0.14, G:0.20, T:0.19
Consensus pattern (232 bp):
AAAATAAATGACCGAAACGAAATCATGAATCATAAAATGATCTGAACTGAGCCAAGATTAGGTGA
TGGGATGAAACCACGAGTCAAAATAAAGTGACAAAAACCAAGTCAAGATAAAAATAAATGATCGG
GATGAAACCACAAATCATAAAATGATTTAGACTGAGCCAAGATAAAGTGACCGAAATAAAACCAC
AACTCAAAATAAAATGACCAAGATCAAGTTGAGGTAA
Found at i:801925 original size:69 final size:69
Alignment explanation
Indices: 801713--802071 Score: 307
Period size: 69 Copynumber: 5.2 Consensus size: 69
801703 TTGAAAAATA
* * ** * *
801713 TGCAAGATTCATAAGGACTTTCAGATTTACCA-AAA-AAA-ATTCATAAGATTTCAAGTTTCACA
1 TGCAAGATTCACAAGAACTTTCAGATTCGCAAGAAAGAAAGATTCATAAGATTTCAAGTTTCGCA
801775 AAGG
66 AAGG
* * * * *** * ** *
801779 TTCTAGATTCGCAAAAACTTTCAGATTTATAAAAAAGAAAGATTTGTAAGA-TTCTAAATTTCGC
1 TGCAAGATTCACAAGAACTTTCAGATTCGCAAGAAAGAAAGATTCATAAGATTTC-AAGTTTCGC
*
801843 AAAAG
65 AAAGG
*** ** *
801848 TTTTAGATTCGTAAGAACTTTCAGATTCGCAAGAAAGAAAGATTTATAAGATTTCAAGTTTCGCA
1 TGCAAGATTCACAAGAACTTTCAGATTCGCAAGAAAGAAAGATTCATAAGATTTCAAGTTTCGCA
801913 AAGG
66 AAGG
* * * *
801917 TGCAAGATTCACAA-AGATTTTCATATTCGCAAGAAAGAAAGATTCACAACAAAATTTCAAGTTT
1 TGCAAGATTCACAAGA-ACTTTCAGATTCGCAAGAAAGAAAGATT--C-ATAAGATTTCAAGTTT
801981 CGCAAAGG
62 CGCAAAGG
* * * * *
801989 TGCAAGTTTCACAAGAACTTTCAAATTCGTAAGAAA-AGAAGATTCACAAGATTTCAAGTTTCGT
1 TGCAAGATTCACAAGAACTTTCAGATTCGCAAGAAAGA-AAGATTCATAAGATTTCAAGTTTCGC
*
802053 AAAAG
65 AAAGG
*
802058 TGCAAGTTTCACAA
1 TGCAAGATTCACAA
802072 TGATGCAAGG
Statistics
Matches: 242, Mismatches: 40, Indels: 19
0.80 0.13 0.06
Matches are distributed among these distances:
66 24 0.10
67 3 0.01
68 7 0.03
69 144 0.60
70 4 0.02
71 1 0.00
72 58 0.24
73 1 0.00
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (69 bp):
TGCAAGATTCACAAGAACTTTCAGATTCGCAAGAAAGAAAGATTCATAAGATTTCAAGTTTCGCA
AAGG
Found at i:802069 original size:34 final size:34
Alignment explanation
Indices: 801965--802071 Score: 110
Period size: 34 Copynumber: 3.1 Consensus size: 34
801955 AAGATTCACA
* * *
801965 ACAAAATTTCAAGTTTCGCAAAGGTGCAAGTTTC
1 ACAAGATTTCAAGTTTCGTAAAAGTGCAAGTTTC
* ** *
801999 ACAAGAACTTTCAA-ATTCGTAAGAAAAG-AAGATTC
1 ACAAG-A-TTTCAAGTTTCGTAA-AAGTGCAAGTTTC
802034 ACAAGATTTCAAGTTTCGTAAAAGTGCAAGTTTC
1 ACAAGATTTCAAGTTTCGTAAAAGTGCAAGTTTC
802068 ACAA
1 ACAA
802072 TGATGCAAGG
Statistics
Matches: 57, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
33 9 0.16
34 22 0.39
35 18 0.32
36 8 0.14
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (34 bp):
ACAAGATTTCAAGTTTCGTAAAAGTGCAAGTTTC
Found at i:803087 original size:24 final size:24
Alignment explanation
Indices: 803045--803091 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
803035 ATTTGTCTCT
* * *
803045 TTTTTTTTTTGTTTTCTTGTTTTC
1 TTTTTTTTTTCTCTCCTTGTTTTC
803069 TTTTTTTTTTCTCTCCTTGTTTT
1 TTTTTTTTTTCTCTCCTTGTTTT
803092 TTCCTTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.00, C:0.13, G:0.06, T:0.81
Consensus pattern (24 bp):
TTTTTTTTTTCTCTCCTTGTTTTC
Found at i:805720 original size:64 final size:64
Alignment explanation
Indices: 805610--805743 Score: 216
Period size: 64 Copynumber: 2.1 Consensus size: 64
805600 GATTGGTATA
*
805610 GCTCTGAACATTCCATTGATTGAAATTTAGGAACGTGATCCGTTGTTGATGAAAGCTTGGAGTG
1 GCTCTGAACATTCCATTGATTGAAATTTAGGAACGTGATCCATTGTTGATGAAAGCTTGGAGTG
* * * *
805674 GCTCTGAACATTCCCTTGATTGAAATTTGGGAACGTGGTCTATTGTTGATGAAAGCTTGGAGTG
1 GCTCTGAACATTCCATTGATTGAAATTTAGGAACGTGATCCATTGTTGATGAAAGCTTGGAGTG
805738 G-TCTGA
1 GCTCTGA
805744 GTCTGATGTG
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
63 5 0.08
64 60 0.92
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.34
Consensus pattern (64 bp):
GCTCTGAACATTCCATTGATTGAAATTTAGGAACGTGATCCATTGTTGATGAAAGCTTGGAGTG
Found at i:808512 original size:3 final size:3
Alignment explanation
Indices: 808506--808550 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
808496 AAAAAAAAAC
** *
808506 TAA TAA TAA TAA GGA TAA TAA TAA TAA TAA TATA TAA CAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TA
808551 CTATAATATA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:811315 original size:20 final size:20
Alignment explanation
Indices: 811278--811315 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
811268 TTTCAATTTA
*
811278 AAATAAGAAATAAGAAAAGT
1 AAATAAGAAATAACAAAAGT
811298 AAATAA-AAATAAACAAAA
1 AAATAAGAAAT-AACAAAA
811316 TAAGAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.76, C:0.03, G:0.08, T:0.13
Consensus pattern (20 bp):
AAATAAGAAATAACAAAAGT
Found at i:819407 original size:14 final size:14
Alignment explanation
Indices: 819380--819418 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
819370 AAAGCCAAAA
* *
819380 TTATTTTCTATTAT
1 TTATTTTTTCTTAT
*
819394 TTCTTTTTTCTTAT
1 TTATTTTTTCTTAT
819408 TTATTTTTTCT
1 TTATTTTTTCT
819419 AATAATTTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (14 bp):
TTATTTTTTCTTAT
Found at i:823259 original size:18 final size:17
Alignment explanation
Indices: 823236--823276 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
823226 TGAGACTATT
*
823236 TTTTTTGTATTCTGACCC
1 TTTTTTGTAAT-TGACCC
*
823254 TTTTTTTTAATTGACCC
1 TTTTTTGTAATTGACCC
823271 TTTTTT
1 TTTTTT
823277 TTTCTTCTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.12, C:0.17, G:0.07, T:0.63
Consensus pattern (17 bp):
TTTTTTGTAATTGACCC
Found at i:823656 original size:14 final size:14
Alignment explanation
Indices: 823637--823688 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
823627 GATTTTTTTA
*
823637 TTTTTTGTTCTATT
1 TTTTTTGTTATATT
* *
823651 TTTTTTTTTGTATT
1 TTTTTTGTTATATT
*
823665 TTTTTGTTTTATATT
1 TTTTT-TGTTATATT
823680 TTGTTTTGT
1 TT-TTTTGT
823689 ATTTTGTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
14 17 0.53
15 12 0.38
16 3 0.09
ACGTcount: A:0.08, C:0.02, G:0.10, T:0.81
Consensus pattern (14 bp):
TTTTTTGTTATATT
Found at i:823666 original size:12 final size:12
Alignment explanation
Indices: 823629--823722 Score: 52
Period size: 12 Copynumber: 8.0 Consensus size: 12
823619 CCATCCTCGA
823629 TTTTTT-TATTT
1 TTTTTTGTATTT
* *
823640 TTTGTTCTATTT
1 TTTTTTGTATTT
* * *
823652 TTTTTTTTGTAT
1 TTTTTTGTATTT
823664 TTTTTTGT-TTT
1 TTTTTTGTATTT
*
823675 ATATTTTGT-TTT
1 -TTTTTTGTATTT
* *
823687 GTATTTTGTATTA
1 -TTTTTTGTATTT
*
823700 TTTTTGGTA-TT
1 TTTTTTGTATTT
*
823711 ATTTTTGTATTT
1 TTTTTTGTATTT
823723 CATATTTTAT
Statistics
Matches: 64, Mismatches: 15, Indels: 7
0.74 0.17 0.08
Matches are distributed among these distances:
11 15 0.23
12 47 0.73
13 2 0.03
ACGTcount: A:0.12, C:0.01, G:0.10, T:0.78
Consensus pattern (12 bp):
TTTTTTGTATTT
Found at i:823667 original size:27 final size:27
Alignment explanation
Indices: 823629--823693 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
823619 CCATCCTCGA
*
823629 TTTTTT-TA-TTTTTTGTTCTATTTTT
1 TTTTTTGTATTTTTTTGTTCTATATTT
*
823654 TTTTTTGTATTTTTTTGTTTTATATTT
1 TTTTTTGTATTTTTTTGTTCTATATTT
*
823681 TGTTTTGTATTTT
1 TTTTTTGTATTTT
823694 GTATTATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
25 6 0.17
26 2 0.06
27 27 0.77
ACGTcount: A:0.09, C:0.02, G:0.08, T:0.82
Consensus pattern (27 bp):
TTTTTTGTATTTTTTTGTTCTATATTT
Found at i:824025 original size:49 final size:48
Alignment explanation
Indices: 823924--824598 Score: 739
Period size: 49 Copynumber: 14.0 Consensus size: 48
823914 TAAAATCTGA
* * *
823924 AAAAGACTCCTCTCAGCAAAGGCTCAACAACTTTAAAAATTTCATCTTG
1 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTG
* * * *
823973 AAAAGGGTTCCTCTCAGCAGAAGCTCCACAACTTTAAAATCTC-TTTTGG
1 AAAA-GGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTT-G
* **
824022 AAAA-GCTCCTCTTAATAGAGGCTCAACAACTTTAAAATC-CATCTTG
1 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
* * * *
824068 AAAAGGGCTCTTCTCAACAGAGGCTCAACGATTTTACAAAT-TCAT-TTG
1 AAAA-GGCTCCTCTCAGCAGAGGCTCAACAACTTTA-AAATCTCATCTTG
* * * *
824116 AATAAGGCTCCTTTTAGTAGAGGCTCAACAACTTTAAAATCTCATTTTG
1 AA-AAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
* *
824165 AAAA-GCTCCTCTCAGTAGAGGTTCAACAACTTTAAAATCTCATCTTG
1 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
* * * *
824212 AAAAAGGCTCCTCTCAACAGAGGCTTAACGACTTAAAAAAT-TCATCTTG
1 -AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTT-TAAAATCTCATCTTG
* * *
824261 AAAAAAGTTCCTCTCAGCAGAGGCTCAACGACTTTAAAAAT-TCATCTTG
1 -AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTG
* *
824310 AAAAGGGCTCCTCTCAGCAGAAGCTCAACAAGTTTAAAAAAT-TCATCTTG
1 AAAA-GGCTCCTCTCAGCAGAGGCTCAACAACTTT--AAAATCTCATCTTG
* *
824360 AAAAAGGCTTCTCTCAACAGAGGCTCAACAACTTTAAAATCTCAT-TTCG
1 -AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTT-G
** *
824409 AAAA-GCTCCTCTCAGCAGAGGCTCAATGACTTTAAAA-ATCATCTTG
1 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
824455 AAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGG
1 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTT-G
* * * *
824504 AAAA-GCTCCTTTTAGCAAAGGCTCAACAACTTTAAAATTTCATCTTGG
1 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTT-G
*
824552 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTT
1 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTT
824599 TTCTCAAAAC
Statistics
Matches: 536, Mismatches: 66, Indels: 48
0.82 0.10 0.07
Matches are distributed among these distances:
46 42 0.08
47 110 0.21
48 107 0.20
49 203 0.38
50 70 0.13
51 4 0.01
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.28
Consensus pattern (48 bp):
AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
Found at i:824483 original size:290 final size:290
Alignment explanation
Indices: 823921--824598 Score: 881
Period size: 290 Copynumber: 2.3 Consensus size: 290
823911 ATTTAAAATC
* **
823921 TGAAAAAGACTCCTCTCAGCAAAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAGGGTTCCTC
1 TGAAAAAGGCTCCTCTCAGCAAAGGCTCAACAAC-TTAAAAATTTCATCTTGAAAAAAGTTCCTC
* * * * * *
823986 TCAGCAGAAGCTCCACAACTTTAAAATCTC-TTTTGGAAAAGCTCCTCTTAATAGAGGCTCAACA
65 TCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGGAAAAGCTCCTCTCAACAGAAGCTCAACA
* * *
824050 ACTTTAAAATCCATCTTGAAAAGGGCTCTTCTCAACAGAGGCTCAACGATTTTACAAATTCATTT
130 ACTTTAAAATCCATCTTGAAAAAGGCTCTTCTCAACAGAGGCTCAACAACTTTACAAATTCATTT
* * * * *
824115 GAATAAGGCTCCTTTTAGTAGAGGCTCAACAACTTTAAAATCTCATTTTGAAAAGCTCCTCTCAG
195 GAATAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATATCATCTTGAAAAGCTCCTCTCAG
* *
824180 TAGAGGTTCAACAACTTT-AAAATCTCATCT
260 CAGAGGCTCAACAACTTTAAAAATCTCATCT
* * * * *
824210 TGAAAAAGGCTCCTCTCAACAGAGGCTTAACGACTTAAAAAATTCATCTTGAAAAAAGTTCCTCT
1 TGAAAAAGGCTCCTCTCAGCAAAGGCTCAACAACTTAAAAATTTCATCTTGAAAAAAGTTCCTCT
* *
824275 CAGCAGAGGCTCAACGACTTTAAAAAT-TCATCTT-GAAAAGGGCTCCTCTCAGCAGAAGCTCAA
66 CAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTGGAAAA--GCTCCTCTCAACAGAAGCTCAA
* *
824338 CAAGTTTAAAAAATTCATCTTGAAAAAGGCT-TCTCTCAACAGAGGCTCAACAACTTTA-AAATC
128 CAACTTT--AAAATCCATCTTGAAAAAGGCTCT-TCTCAACAGAGGCTCAACAACTTTACAAAT-
**
824401 TCATTTCGAA-AA-GCTCCTCTCAGCAGAGGCTCAATGACTTTAAAA-ATCATCTTGAAAAGCTC
189 TCATTT-GAATAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATATCATCTTGAAAAGCTC
824463 CTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCT
253 CTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCT
* * * * * *
824501 TGGAAAA-GCTCCTTTTAGCAAAGGCTCAACAACTTTAAAATTTCATCTTGGAAAAAGCTCCTCT
1 TGAAAAAGGCTCCTCTCAGCAAAGGCTCAACAACTTAAAAATTTCATCTTGAAAAAAGTTCCTCT
824565 CAGCAGAGGCTCAACAACTTTAAAATCTCATCTT
66 CAGCAGAGGCTCAACAACTTTAAAATCTCATCTT
824599 TTCTCAAAAC
Statistics
Matches: 336, Mismatches: 42, Indels: 21
0.84 0.11 0.05
Matches are distributed among these distances:
288 53 0.16
289 42 0.12
290 136 0.40
291 51 0.15
292 51 0.15
293 3 0.01
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.28
Consensus pattern (290 bp):
TGAAAAAGGCTCCTCTCAGCAAAGGCTCAACAACTTAAAAATTTCATCTTGAAAAAAGTTCCTCT
CAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGGAAAAGCTCCTCTCAACAGAAGCTCAACAA
CTTTAAAATCCATCTTGAAAAAGGCTCTTCTCAACAGAGGCTCAACAACTTTACAAATTCATTTG
AATAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATATCATCTTGAAAAGCTCCTCTCAGC
AGAGGCTCAACAACTTTAAAAATCTCATCT
Found at i:824565 original size:241 final size:239
Alignment explanation
Indices: 823924--824589 Score: 847
Period size: 241 Copynumber: 2.8 Consensus size: 239
823914 TAAAATCTGA
* *
823924 AAAAGACTCCTCTCAGCAAAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAGGGTTCCTCTCA
1 AAAAG-CTCCTCTCAGCAGAGGCTCAACAACTTTAAAAA--TCATCTTGAAAA-GGCTCCTCTCA
* * * **
823989 GCAGAAGCTCCACAACTTT-AAAATCTC-TTTTGGAAAAGCTCCTCTTAATAGAGGCTCAACAAC
62 GCAGAGGCTCAACAACTTTAAAAATCTCATCTTGGAAAAGCTCCTCTTAGCAGAGGCTCAACAAC
* * * * * *
824052 TTTAAAATCCATCTTGAAAAGGGCTCTTCTCAACAGAGGCTCAACGATTTTACAAATTCATTTGA
127 TTTAAAATTCATCTTGAAAAGGGCTCCTCTCAGCAGAGGCTCAACAATTTAAAAAATTCATTTGA
* * * ** *
824117 ATAAGGCTCCTTTTAGTAGAGGCTCAACAACTTTAAAATCTCATTTTG
192 AAAAGGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATCTCATTTCG
* * * *
824165 AAAAGCTCCTCTCAGTAGAGGTTCAACAACTTTAAAATCTCATCTTGAAAAAGGCTCCTCTCAAC
1 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA-ATCATCTTG-AAAAGGCTCCTCTCAGC
* * * * * * *
824230 AGAGGCTTAACGACTTAAAAAAT-TCATCTTGAAAAAAGTTCCTCTCAGCAGAGGCTCAACGACT
64 AGAGGCTCAACAACTTTAAAAATCTCATCTTG-GAAAAGCTCCTCTTAGCAGAGGCTCAACAACT
*
824294 TTAAAAATTCATCTTGAAAAGGGCTCCTCTCAGCAGAAGCTCAACAAGTTTAAAAAATTCATCTT
128 TT-AAAATTCATCTTGAAAAGGGCTCCTCTCAGCAGAGGCTCAACAA-TTTAAAAAATTCAT-TT
*
824359 GAAAAAGGCTTCTCTCAACAGAGGCTCAACAACTTTAAAATCTCATTTCG
190 GAAAAAGGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATCTCATTTCG
**
824409 AAAAGCTCCTCTCAGCAGAGGCTCAATGACTTTAAAAATCATCTTGAAAA-GCTCCTCTCAGCAG
1 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCATCTTGAAAAGGCTCCTCTCAGCAG
* *
824473 AGGCTCAACAACTTTAAAAATCTCATCTTGGAAAAGCTCCTTTTAGCAAAGGCTCAACAACTTTA
66 AGGCTCAACAACTTTAAAAATCTCATCTTGGAAAAGCTCCTCTTAGCAGAGGCTCAACAACTTTA
*
824538 AAATTTCATCTTGGAAAA-AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA
131 AAA-TTCATCTT-GAAAAGGGCTCCTCTCAGCAGAGGCTCAACAA-TTTAAAA
824590 TCTCATCTTT
Statistics
Matches: 364, Mismatches: 50, Indels: 22
0.83 0.11 0.05
Matches are distributed among these distances:
239 33 0.09
240 46 0.13
241 131 0.36
242 56 0.15
243 20 0.05
244 78 0.21
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (239 bp):
AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCATCTTGAAAAGGCTCCTCTCAGCAG
AGGCTCAACAACTTTAAAAATCTCATCTTGGAAAAGCTCCTCTTAGCAGAGGCTCAACAACTTTA
AAATTCATCTTGAAAAGGGCTCCTCTCAGCAGAGGCTCAACAATTTAAAAAATTCATTTGAAAAA
GGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATCTCATTTCG
Found at i:825355 original size:18 final size:17
Alignment explanation
Indices: 825315--825354 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
825305 TGAGTCATTA
825315 TTTTTTATTTTTTACTT
1 TTTTTTATTTTTTACTT
*
825332 TTTTTTATTTTTTTCTT
1 TTTTTTATTTTTTACTT
825349 TTTTTT
1 TTTTTT
825355 TTCAAGCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.07, C:0.05, G:0.00, T:0.88
Consensus pattern (17 bp):
TTTTTTATTTTTTACTT
Found at i:836791 original size:22 final size:21
Alignment explanation
Indices: 836756--836796 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
836746 GCCATCCTCA
*
836756 ATTTTTTTTGTTTTCTGTTCT
1 ATTTTTTTTATTTTCTGTTCT
*
836777 ATTTTTTTGTATTTTTTGTT
1 ATTTTTTT-TATTTTCTGTT
836797 TTGTATTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.07, C:0.05, G:0.10, T:0.78
Consensus pattern (21 bp):
ATTTTTTTTATTTTCTGTTCT
Found at i:836798 original size:14 final size:14
Alignment explanation
Indices: 836759--836805 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
836749 ATCCTCAATT
* *
836759 TTTTTTGTTTTCTG
1 TTTTTTGTTTTGTA
836773 TTCTATTT-TTTTGTA
1 TT-T-TTTGTTTTGTA
836788 TTTTTTGTTTTGTA
1 TTTTTTGTTTTGTA
836802 TTTT
1 TTTT
836806 ATATTATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
13 3 0.11
14 14 0.50
15 8 0.29
16 3 0.11
ACGTcount: A:0.06, C:0.04, G:0.11, T:0.79
Consensus pattern (14 bp):
TTTTTTGTTTTGTA
Found at i:836814 original size:34 final size:36
Alignment explanation
Indices: 836776--836846 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
836766 TTTTCTGTTC
*
836776 TATT-TTTTT-GTA-TTTTTTGT-TTT-GTATTTTA
1 TATTATTTTTGGTATTTTTTTGTATTTCATATTTTA
836807 TATTATTTTTGGTATTTTTTTGTATTTCATATTTTA
1 TATTATTTTTGGTATTTTTTTGTATTTCATATTTTA
836843 TATT
1 TATT
836847 TAATAATATT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
31 4 0.12
32 5 0.15
33 3 0.09
34 8 0.24
35 3 0.09
36 11 0.32
ACGTcount: A:0.17, C:0.01, G:0.08, T:0.73
Consensus pattern (36 bp):
TATTATTTTTGGTATTTTTTTGTATTTCATATTTTA
Found at i:836847 original size:43 final size:45
Alignment explanation
Indices: 836776--836872 Score: 117
Period size: 43 Copynumber: 2.2 Consensus size: 45
836766 TTTTCTGTTC
** * *
836776 TATTTTTTTGTATTTTTTGTTTTGTATTT-T-ATATTATTTTTGG
1 TATTTTTTTGTATTTCATATTTTATATTTATAATATTATTTTTGG
**
836819 TATTTTTTTGTATTTCATATTTTATATTTAATAATATTATTTTTTT
1 TATTTTTTTGTATTTCATATTTTATATTT-ATAATATTATTTTTGG
836865 TATTTTTT
1 TATTTTTT
836873 GGGACAAATT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
43 25 0.56
45 1 0.02
46 19 0.42
ACGTcount: A:0.20, C:0.01, G:0.06, T:0.73
Consensus pattern (45 bp):
TATTTTTTTGTATTTCATATTTTATATTTATAATATTATTTTTGG
Found at i:846334 original size:59 final size:59
Alignment explanation
Indices: 846146--846364 Score: 288
Period size: 58 Copynumber: 3.8 Consensus size: 59
846136 TGCTTTTGTA
* *
846146 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAAT-TCATTTTT-GAAAACTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATAT-TTTTTTAGAAAGCTTATTTT
* * *
846204 -TAGAAAAAATTGATACTTTTAACTTTTTCCCAAAAATA-TTTTTTAGAAAGCTTATTTT
1 CAAG-AAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAGAAAGCTTATTTT
*
846262 CAA-AGAAAATTGATACTTTCAACTTTTTCTAAAAAATATTTTTTTAGAAAGCTTATTTT
1 CAAGA-AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAGAAAGCTTATTTT
* * *
846321 CAAGGAAAATTGATACTTTCAA-TTTTCCTTAAAAATATTTTTTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTT
846365 GAATTTTATT
Statistics
Matches: 142, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
57 8 0.06
58 93 0.65
59 41 0.29
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.44
Consensus pattern (59 bp):
CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAGAAAGCTTATTTT
Found at i:846428 original size:3 final size:3
Alignment explanation
Indices: 846420--846452 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
846410 AATTCTAATC
846420 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
846453 ATAAATAAAT
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:846939 original size:31 final size:31
Alignment explanation
Indices: 846901--846961 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
846891 CTGAGGAAGC
* *
846901 TAGTCGAAAAATTCAAATTTGATCGAAAAAA
1 TAGTCGAAAAATTCAAACTTCATCGAAAAAA
846932 TAGTCGAAAAATTCAAACTTCATCGAAAAA
1 TAGTCGAAAAATTCAAACTTCATCGAAAAA
846962 TTCAATCGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.51, C:0.13, G:0.11, T:0.25
Consensus pattern (31 bp):
TAGTCGAAAAATTCAAACTTCATCGAAAAAA
Found at i:847349 original size:32 final size:32
Alignment explanation
Indices: 847307--847385 Score: 81
Period size: 32 Copynumber: 2.5 Consensus size: 32
847297 AAATATATAT
* *
847307 TAATAGATAAATGATA-ATATGTAAATAGATAAA
1 TAATA-ATAAAT-ATATATATATAAACAGATAAA
* * *
847340 TAATTATAAATATATATATATTAACATATAAA
1 TAATAATAAATATATATATATAAACAGATAAA
847372 TAATAATAAA-ATAT
1 TAATAATAAATATAT
847386 GTTAATAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
31 7 0.18
32 28 0.72
33 4 0.10
ACGTcount: A:0.58, C:0.01, G:0.05, T:0.35
Consensus pattern (32 bp):
TAATAATAAATATATATATATAAACAGATAAA
Found at i:847395 original size:63 final size:61
Alignment explanation
Indices: 847328--847445 Score: 148
Period size: 61 Copynumber: 1.9 Consensus size: 61
847318 TGATAATATG
* *
847328 TAAATAGATAAATAATTATAAATATATATATATTAACATATAAATAATAATAA-AATATGTTAA
1 TAAATAAAT-AATAATTATAAATAT-TATATATTAACACAT-AATAATAATAATAATATGTTAA
* * * *
847391 TAAATAAATAATTATTATTATTATTATATATTAATACATAATAATAATAATAATA
1 TAAATAAATAATAATTATAAATATTATATATTAACACATAATAATAATAATAATA
847446 AATAAGTAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
60 11 0.23
61 17 0.35
62 12 0.25
63 8 0.17
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (61 bp):
TAAATAAATAATAATTATAAATATTATATATTAACACATAATAATAATAATAATATGTTAA
Found at i:847457 original size:8 final size:7
Alignment explanation
Indices: 847422--847471 Score: 52
Period size: 6 Copynumber: 7.4 Consensus size: 7
847412 TATTATATAT
*
847422 TAATACA
1 TAATAAA
847429 TAAT-AA
1 TAATAAA
847435 TAAT-AA
1 TAATAAA
847441 TAATAAA
1 TAATAAA
847448 TAAGTAAA
1 TAA-TAAA
847456 TAA-AAA
1 TAATAAA
*
847462 TAAAAAA
1 TAATAAA
847469 TAA
1 TAA
847472 AAGTGGACTT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
6 17 0.44
7 15 0.38
8 7 0.18
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (7 bp):
TAATAAA
Found at i:847463 original size:63 final size:58
Alignment explanation
Indices: 847322--847464 Score: 155
Period size: 59 Copynumber: 2.3 Consensus size: 58
847312 GATAAATGAT
847322 AATATGTAAATAGATAAATAATTATAAATATATATATATTAACATATAAATAATAATAA
1 AATATGTAAATA-ATAAATAATTATAAATATATATATATTAACATATAAATAATAATAA
* * *
847381 AATATGTTAATAAATAAATAATTATTATTATTATTATATATTAATACATA-ATAATAATAATAAT
1 AATATGTAAAT-AATAAATAATTATAAATA-TA-TATATATT-A-ACATATA-AATAATAAT-A-
847445 A
58 A
*
847446 AATAAGTAAATAA-AAATAA
1 AATATGTAAATAATAAATAA
847465 AAAATAAAAG
Statistics
Matches: 71, Mismatches: 5, Indels: 12
0.81 0.06 0.14
Matches are distributed among these distances:
59 25 0.35
60 3 0.04
61 8 0.11
62 2 0.03
63 20 0.28
64 3 0.04
65 10 0.14
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (58 bp):
AATATGTAAATAATAAATAATTATAAATATATATATATTAACATATAAATAATAATAA
Found at i:847756 original size:42 final size:41
Alignment explanation
Indices: 847654--847862 Score: 210
Period size: 42 Copynumber: 5.0 Consensus size: 41
847644 TTGATCAAAA
* * *
847654 CTCCTCTAAGCAGAGGCTCAATGAC-TTTGAAAAACATAAGCAAAG
1 CTCCTCTAATCAGAGGCTCAACGACTTTTG-AAAA-AT-A--AAGG
847699 CTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAACGG
1 CTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAA-GG
**
847741 CTCCTCTAATCAGAGGCTTTACGACTTTTG-AAAATAAATGG
1 CTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAA-GG
* * *
847782 CTCATCTAATCAAAGGCTCAATGAC-TTTGAAAATAAATAAA-G
1 CTCCTCTAATCAGAGGCTCAACGACTTTTG--AA-AAATAAAGG
* *
847824 CTCCTCTAAACAGAGGCTCAACGACTTTTAAAAAATAAA
1 CTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAA
847863 TTGGTCCTCT
Statistics
Matches: 141, Mismatches: 16, Indels: 19
0.80 0.09 0.11
Matches are distributed among these distances:
40 11 0.08
41 34 0.24
42 51 0.36
43 5 0.04
44 9 0.06
45 27 0.19
46 4 0.03
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.25
Consensus pattern (41 bp):
CTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAAGG
Found at i:847827 original size:83 final size:82
Alignment explanation
Indices: 847698--847946 Score: 241
Period size: 83 Copynumber: 3.1 Consensus size: 82
847688 CATAAGCAAA
*
847698 GCTCCTCTAATCAGAGGCTCAACGACTTTTG--AA-AAATAAACGGCTCCTCTAATCAGAGGCTT
1 GCTCCTCTAATCAAAGGCTCAA-GAC-TTTGAAAATAAATAAA--GCTCCTCTAATCAGAGGCTT
*
847760 TACGACTTTTGAAAATAAATG
62 AACGACTTTTGAAAATAAATG
* * *
847781 GCTCATCTAATCAAAGGCTCAATGACTTTGAAAATAAATAAAGCTCCTCTAAACAGAGGCTCAAC
1 GCTCCTCTAATCAAAGGCTCAA-GACTTTGAAAATAAATAAAGCTCCTCTAATCAGAGGCTTAAC
*
847846 GACTTTTAAAAAATAAATTG
65 GACTTTT-GAAAATAAA-TG
** * *
847866 G-TCCTCT-A--AATTG-T--A-ACTTTGAAAAATAAACAAAGCTCCTCTAATTAGAGGCTTAAC
1 GCTCCTCTAATCAAAGGCTCAAGACTTTG-AAAATAAATAAAGCTCCTCTAATCAGAGGCTTAAC
* *
847923 AACTTTTGAAAATAAATT
65 GACTTTTGAAAATAAATG
847941 GCTCCT
1 GCTCCT
847947 TGACGATTAA
Statistics
Matches: 142, Mismatches: 17, Indels: 21
0.79 0.09 0.12
Matches are distributed among these distances:
75 2 0.01
76 18 0.13
77 37 0.26
78 1 0.01
80 1 0.01
81 3 0.02
82 4 0.03
83 51 0.36
84 15 0.11
85 10 0.07
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.29
Consensus pattern (82 bp):
GCTCCTCTAATCAAAGGCTCAAGACTTTGAAAATAAATAAAGCTCCTCTAATCAGAGGCTTAACG
ACTTTTGAAAATAAATG
Found at i:847916 original size:77 final size:75
Alignment explanation
Indices: 847805--847946 Score: 203
Period size: 77 Copynumber: 1.9 Consensus size: 75
847795 AGGCTCAATG
* * *
847805 ACTTTGAAAATAAATAAAGCTCCTCTAAACAGAGGCTCAACGACTTTTAAAAAATAAATTGGTCC
1 ACTTTGAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAACAACTTTT-AAAAATAAATTGCTCC
847870 TCTAAATTGTA
65 TCTAAATTGTA
** * *
847881 ACTTTGAAAAATAAACAAAGCTCCTCTAATTAGAGGCTTAACAACTTTTGAAAATAAATTGCTCC
1 ACTTTG-AAAATAAACAAAGCTCCTCTAAACAGAGGCTCAACAACTTTTAAAAATAAATTGCTCC
847946 T
65 T
847947 TGACGATTAA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
76 21 0.36
77 37 0.64
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.30
Consensus pattern (75 bp):
ACTTTGAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAACAACTTTTAAAAATAAATTGCTCCT
CTAAATTGTA
Found at i:848971 original size:21 final size:19
Alignment explanation
Indices: 848947--848986 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
848937 TCCTTTTTCA
*
848947 TTCACTTTTTTTTTATTTTTT
1 TTCA-TTTTATTTT-TTTTTT
848968 TTCATTTTATTTTTTTTTT
1 TTCATTTTATTTTTTTTTT
848987 CAAGCATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 8 0.44
21 4 0.22
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.82
Consensus pattern (19 bp):
TTCATTTTATTTTTTTTTT
Found at i:859432 original size:58 final size:57
Alignment explanation
Indices: 859370--859689 Score: 371
Period size: 58 Copynumber: 5.7 Consensus size: 57
859360 TTTTGTGCAT
* *
859370 GAAAAATTGATACTTTCAACTTTTCCCCAAAATATTTTTTAGAAA-CTTTAATTTT-GA
1 GAAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTAGAAAGC-TT-ATTTTCAA
* * *
859427 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAT-TCATTTTT-GAAAACTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCC-CAAAAATAT--TTTTTAGAAAGCTTATTTTCAA
* *
859485 GAAAAATTG--A-TTT---C----CCTAAAAATATTTTTTAGAAAGCTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTAGAAAGCTTATTTTCAA
*
859532 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATACTTTTTAGAAAGCTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTAGAAAGCTTATTTTCAA
*
859590 GAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAGAAAGCTTATTTTCAA
1 GAAAAATTGATACTTTCAAC-TTTTCCCAAAAATA-TTTTTTAGAAAGCTTATTTTCAA
*
859649 GAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTT
1 GAAAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTT
859690 TGAATTTTAT
Statistics
Matches: 229, Mismatches: 13, Indels: 41
0.81 0.05 0.14
Matches are distributed among these distances:
46 5 0.02
47 30 0.13
48 3 0.01
49 1 0.00
50 3 0.01
52 1 0.00
53 1 0.00
55 3 0.01
56 1 0.00
57 33 0.14
58 88 0.38
59 60 0.26
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.43
Consensus pattern (57 bp):
GAAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTAGAAAGCTTATTTTCAA
Found at i:859508 original size:105 final size:105
Alignment explanation
Indices: 859398--859689 Score: 356
Period size: 105 Copynumber: 2.7 Consensus size: 105
859388 ACTTTTCCCC
* * *
859398 AAAATATTTTTTAGAAA-CTTTAATTTTGAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATT
1 AAAATATTTTTTAGAAAGC-TTAATTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATA
*
859462 CATTTTT-GAAAACTTATTTTTAAGAAAAATTGATTTCCCTA
65 C-TTTTTAGAAAACTTATTTTCAAGAAAAATTGATTTCCCTA
*
859503 AAAATATTTTTTAGAAAGCTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATAC
1 AAAATATTTTTTAGAAAGCTTAATTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATAC
*
859568 TTTTTAGAAAGCTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCTCA
66 TTTTTAGAAAACTTATTTTCAAGAAAAATTG--A-TTTC--C-----CT-A
*
859619 AAAATATTTTTTTAGAAAGCTT-ATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAAT
1 AAAATA-TTTTTTAGAAAGCTTAATTTT-AAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAT
*
859683 ATTTTTT
64 ACTTTTT
859690 TGAATTTTAT
Statistics
Matches: 163, Mismatches: 9, Indels: 18
0.86 0.05 0.09
Matches are distributed among these distances:
104 5 0.03
105 82 0.50
106 1 0.01
107 1 0.01
108 4 0.02
110 1 0.01
115 2 0.01
116 11 0.07
117 56 0.34
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (105 bp):
AAAATATTTTTTAGAAAGCTTAATTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATAC
TTTTTAGAAAACTTATTTTCAAGAAAAATTGATTTCCCTA
Found at i:859749 original size:22 final size:22
Alignment explanation
Indices: 859713--859771 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
859703 AAGAAAATAA
**
859713 AATAA-AATAATTAAACAATTTT
1 AATAATAATAA-TAAACAATACT
*
859735 AAT-ATAATCAATAAATAATACT
1 AATAATAAT-AATAAACAATACT
859757 AATAATAATAATAAA
1 AATAATAATAATAAA
859772 TAAATAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
21 1 0.03
22 23 0.74
23 7 0.23
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (22 bp):
AATAATAATAATAAACAATACT
Found at i:860749 original size:8 final size:7
Alignment explanation
Indices: 860648--860767 Score: 53
Period size: 6 Copynumber: 17.7 Consensus size: 7
860638 TGATAATATG
860648 TAAATAA
1 TAAATAA
860655 GTAAATAA
1 -TAAATAA
*
860663 T-TATAA
1 TAAATAA
*
860669 -ATATATA
1 TAAATA-A
*
860676 TTAATAGA
1 TAAATA-A
860684 TAAATAA
1 TAAATAA
860691 T-AATAA
1 TAAATAA
860697 -AAA-AA
1 TAAATAA
**
860702 TTTATATA
1 TAAATA-A
*
860710 TTAATACA
1 TAAATA-A
860718 T-AATAA
1 TAAATAA
860724 T-AATAA
1 TAAATAA
860730 T-AATAA
1 TAAATAA
860736 TAAATAA
1 TAAATAA
860743 GTAAATAA
1 -TAAATAA
860751 -AAATAA
1 TAAATAA
*
860757 AAAATAA
1 TAAATAA
860764 -AAAT
1 TAAAT
860768 GAACTTATCC
Statistics
Matches: 93, Mismatches: 9, Indels: 22
0.75 0.07 0.18
Matches are distributed among these distances:
5 2 0.02
6 40 0.43
7 20 0.22
8 31 0.33
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.32
Consensus pattern (7 bp):
TAAATAA
Found at i:863423 original size:23 final size:23
Alignment explanation
Indices: 863395--863439 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
863385 TACTCAAAAG
863395 AGAATTGATGGATAAAGAGGGAA
1 AGAATTGATGGATAAAGAGGGAA
*
863418 AGAATTGATGGATCAAGAGGGA
1 AGAATTGATGGATAAAGAGGGA
863440 GATACAAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.44, C:0.02, G:0.36, T:0.18
Consensus pattern (23 bp):
AGAATTGATGGATAAAGAGGGAA
Found at i:864752 original size:38 final size:38
Alignment explanation
Indices: 864710--864787 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
864700 ACAAATATAT
*
864710 TTATGTATTCTTATTTTTAATTTGAGCTTGCTATTTTG
1 TTATGTATTCTTATTTTTAATTTGAGCTTACTATTTTG
*
864748 TTATGTATTCTTATTTTTAATTTGAGCTTATTATTTTG
1 TTATGTATTCTTATTTTTAATTTGAGCTTACTATTTTG
864786 TT
1 TT
864788 CGTGGTTGCT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.63
Consensus pattern (38 bp):
TTATGTATTCTTATTTTTAATTTGAGCTTACTATTTTG
Found at i:864783 original size:20 final size:20
Alignment explanation
Indices: 864720--864784 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 20
864710 TTATGTATTC
*
864720 TTATTTTTAATTTGAGCTTG
1 TTATTTTTAATTTGAGCTTA
* * * *
864740 CTATTTTGTTATGT-A--TTC
1 TTATTTT-TAATTTGAGCTTA
864758 TTATTTTTAATTTGAGCTTA
1 TTATTTTTAATTTGAGCTTA
864778 TTATTTT
1 TTATTTT
864785 GTTCGTGGTT
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
17 4 0.12
18 9 0.27
20 16 0.48
21 4 0.12
ACGTcount: A:0.20, C:0.06, G:0.11, T:0.63
Consensus pattern (20 bp):
TTATTTTTAATTTGAGCTTA
Found at i:868610 original size:25 final size:25
Alignment explanation
Indices: 868576--868625 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
868566 TGATATTGAA
868576 TGTGATTATCAATATGTTATGGGGT
1 TGTGATTATCAATATGTTATGGGGT
868601 TGTGATTATCAATATGTTATGGGGT
1 TGTGATTATCAATATGTTATGGGGT
868626 GGCACGTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.04, G:0.28, T:0.44
Consensus pattern (25 bp):
TGTGATTATCAATATGTTATGGGGT
Found at i:868777 original size:80 final size:80
Alignment explanation
Indices: 868644--868815 Score: 299
Period size: 80 Copynumber: 2.1 Consensus size: 80
868634 GAGAGGGATG
*
868644 GCCTTGGCACCAAGTTCAGGTACGTCATCTCAGAAATAATAGAGACTTTGGGTCTGCCCAATATT
1 GCCTTGGCACCAAGTTCAGGCACGTCATCTCAGAAATAATAGAGACTTTGGGTCTGCCCAATATT
868709 TCTGATTTTCTCCCA
66 TCTGATTTTCTCCCA
* *
868724 GCCTTGGCACCAAGTTCAGGCATGTCATCTCATAAATAATAGAGACTTTGGGTCTGCCCAATATT
1 GCCTTGGCACCAAGTTCAGGCACGTCATCTCAGAAATAATAGAGACTTTGGGTCTGCCCAATATT
*
868789 TCTGATTTTCTCCTA
66 TCTGATTTTCTCCCA
*
868804 GCCCTGGCACCA
1 GCCTTGGCACCA
868816 CAATGCCACG
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 87 1.00
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (80 bp):
GCCTTGGCACCAAGTTCAGGCACGTCATCTCAGAAATAATAGAGACTTTGGGTCTGCCCAATATT
TCTGATTTTCTCCCA
Found at i:870588 original size:14 final size:14
Alignment explanation
Indices: 870569--870595 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
870559 AAAAAAAGTT
870569 TTTTTTTTTTTAAC
1 TTTTTTTTTTTAAC
870583 TTTTTTTTTTTAA
1 TTTTTTTTTTTAA
870596 GAAAAATTAA
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:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTTTTTTTAAC
Found at i:870723 original size:58 final size:56
Alignment explanation
Indices: 870588--870852 Score: 306
Period size: 58 Copynumber: 4.6 Consensus size: 56
870578 TTAACTTTTT
* * *
870588 TTTTTTAAGAAAAATTAAAAGTATCAATTTTTCTTAAAATAAATTTTCAAAAAA-GA
1 TTTTTGAAGAAAAATTAAAAGTATCAATTTTTCTTAAAATAAGTTTT-AAAAAATAA
* *
870644 TTTTTGAAAAAAAATTGAAAGTATCAATTTTAT-TTGAAAATAAGCTTTCTAAAAAAT-A
1 TTTTTGAAGAAAAATTAAAAGTATCAATTTT-TCTT-AAAATAAG-TTT-TAAAAAATAA
*
870702 TTTTTGAAGAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAAGTTTTAAAAAATAGA
1 TTTTTGAAGAAAAATTAAAAGTATCAATTTTTCTT-AAAATAAGTTTTAAAAAATA-A
* * * *
870760 TTTTTG-AGAAAAAATTAAAAATATCAATTTTTCTTAGAAACAAGTTTTTAAAAGTGAA
1 TTTTTGAAG-AAAAATTAAAAGTATCAATTTTTCTTA-AAATAAGTTTTAAAAAAT-AA
870818 TTTTTG-AGAAAAAGTTAAAAGTATCAATTTTTCTT
1 TTTTTGAAGAAAAA-TTAAAAGTATCAATTTTTCTT
870853 GCACAAAAGT
Statistics
Matches: 183, Mismatches: 14, Indels: 22
0.84 0.06 0.10
Matches are distributed among these distances:
56 38 0.21
57 20 0.11
58 123 0.67
59 2 0.01
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.39
Consensus pattern (56 bp):
TTTTTGAAGAAAAATTAAAAGTATCAATTTTTCTTAAAATAAGTTTTAAAAAATAA
Found at i:870789 original size:27 final size:27
Alignment explanation
Indices: 870759--870849 Score: 67
Period size: 29 Copynumber: 3.2 Consensus size: 27
870749 TAAAAAATAG
870759 ATTTTTGAGAAAAAATTAAAAATATCA
1 ATTTTTGAGAAAAAATTAAAAATATCA
* * * * *
870786 ATTTTTCTTAGAAACAAGTTTTTAAAA-GTGA
1 A-TTTT-TGAGAAA-AA--ATTAAAAATATCA
* *
870817 ATTTTTGAGAAAAAGTTAAAAGTATCA
1 ATTTTTGAGAAAAAATTAAAAATATCA
870844 ATTTTT
1 ATTTTT
870850 CTTGCACAAA
Statistics
Matches: 47, Mismatches: 11, Indels: 12
0.67 0.16 0.17
Matches are distributed among these distances:
26 5 0.11
27 9 0.19
28 6 0.13
29 12 0.26
30 6 0.13
31 3 0.06
32 6 0.13
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.40
Consensus pattern (27 bp):
ATTTTTGAGAAAAAATTAAAAATATCA
Found at i:870821 original size:116 final size:114
Alignment explanation
Indices: 870588--870852 Score: 342
Period size: 116 Copynumber: 2.3 Consensus size: 114
870578 TTAACTTTTT
* * *
870588 TTTTTTAAGAAAAATTAAAAGTATCAATTTTTCTTAAAATAAATTTTCAAAAAAGATTTTTGAAA
1 TTTTTGAAGAAAAGTTAAAAGTATCAATTTTTCTTAAAATAAATTTTAAAAAAAGATTTTTGAAA
* * *
870653 AAAAATTGAAAGTATCAATTTTATTTGAAAATAAGCTTTCTAAAAAATA
66 AAAAATTAAAAATATCAATTTTATTTGAAAACAAGCTTTCTAAAAAATA
*
870702 TTTTTGAAGAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAAGTTTTAAAAAATAGATTTTTGA
1 TTTTTGAAGAAAAGTTAAAAGTATCAATTTTTCTT-AAAATAAATTTTAAAAAA-AGATTTTTGA
* * *
870767 GAAAAAATTAAAAATATCAATTTT-TCTT-AGAAACAAG-TTT-TTAAAAGTGAA
64 AAAAAAATTAAAAATATCAATTTTAT-TTGA-AAACAAGCTTTCTAAAAAAT--A
870818 TTTTTG-AGAAAAAGTTAAAAGTATCAATTTTTCTT
1 TTTTTGAAG-AAAAGTTAAAAGTATCAATTTTTCTT
870853 GCACAAAAGT
Statistics
Matches: 134, Mismatches: 10, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
114 39 0.29
115 23 0.17
116 72 0.54
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.39
Consensus pattern (114 bp):
TTTTTGAAGAAAAGTTAAAAGTATCAATTTTTCTTAAAATAAATTTTAAAAAAAGATTTTTGAAA
AAAAATTAAAAATATCAATTTTATTTGAAAACAAGCTTTCTAAAAAATA
Found at i:872054 original size:2 final size:2
Alignment explanation
Indices: 872047--872073 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
872037 TTTAAATTCA
872047 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 A
872074 GGGTTATCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:873098 original size:6 final size:6
Alignment explanation
Indices: 873092--873134 Score: 77
Period size: 6 Copynumber: 7.2 Consensus size: 6
873082 TCTCTTTTTC
*
873092 TTCTTC TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT T
1 TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT T
873135 ATAGAAGATG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
TTCTTT
Found at i:888674 original size:26 final size:25
Alignment explanation
Indices: 888636--888699 Score: 80
Period size: 24 Copynumber: 2.6 Consensus size: 25
888626 AATTTTAATT
*
888636 TAAATAAATTTATTATTTGATT--AA
1 TAAATAAATTAATTA-TTGATTGAAA
888660 TAAA-AAATTAATTATTGATTGAAA
1 TAAATAAATTAATTATTGATTGAAA
888684 TAAATTAAATTAATTA
1 TAAA-TAAATTAATTA
888700 ATTTTTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
22 6 0.17
23 9 0.26
24 10 0.29
26 10 0.29
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.44
Consensus pattern (25 bp):
TAAATAAATTAATTATTGATTGAAA
Found at i:888695 original size:22 final size:22
Alignment explanation
Indices: 888637--888691 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
888627 ATTTTAATTT
*
888637 AAATAAATTTATTATTTGATTA
1 AAATAAATTAATTATTTGATTA
* *
888659 ATAAAAAATTAATTA-TTGATTG
1 A-AATAAATTAATTATTTGATTA
888681 AAATAAATTAA
1 AAATAAATTAA
888692 ATTAATTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 9 0.32
22 8 0.29
23 11 0.39
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (22 bp):
AAATAAATTAATTATTTGATTA
Found at i:888710 original size:26 final size:25
Alignment explanation
Indices: 888636--888741 Score: 82
Period size: 26 Copynumber: 4.3 Consensus size: 25
888626 AATTTTAATT
*
888636 TAAATAAATTTATTATTTGATT--AA
1 TAAATAAATTAATTA-TTGATTAAAA
*
888660 TAAA-AAATTAATTATTGATTGAAA
1 TAAATAAATTAATTATTGATTAAAA
*
888684 TAAATTAAATTAATTAATT-TTTAAAA
1 TAAA-TAAATTAATT-ATTGATTAAAA
*
888710 TTAATAAATTTAA-T-TTGATTAATAA
1 TAAATAAA-TTAATTATTGATTAA-AA
888735 -AAATAAA
1 TAAATAAA
888742 AATTAATTTA
Statistics
Matches: 68, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
22 6 0.09
23 11 0.16
24 20 0.29
25 7 0.10
26 21 0.31
27 3 0.04
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (25 bp):
TAAATAAATTAATTATTGATTAAAA
Found at i:888757 original size:26 final size:27
Alignment explanation
Indices: 888689--888758 Score: 76
Period size: 26 Copynumber: 2.7 Consensus size: 27
888679 TGAAATAAAT
* *
888689 TAAATTAA-TTAATTT-TTAAAATTAA
1 TAAATTAATTTAATTTAATAAAAATAA
*
888714 TAAATTTAATTTGA-TTAATAAAAATAA
1 TAAA-TTAATTTAATTTAATAAAAATAA
888741 -AAATTAATTTAATTTAAT
1 TAAATTAATTTAATTTAAT
888759 TAATTTAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
25 12 0.32
26 14 0.38
27 11 0.30
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (27 bp):
TAAATTAATTTAATTTAATAAAAATAA
Found at i:888761 original size:14 final size:14
Alignment explanation
Indices: 888742--888769 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
888732 TAAAAATAAA
888742 AATTAATTTAATTT
1 AATTAATTTAATTT
888756 AATTAATTTAATTT
1 AATTAATTTAATTT
888770 TTAAGAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
AATTAATTTAATTT
Found at i:907723 original size:160 final size:160
Alignment explanation
Indices: 907459--907782 Score: 621
Period size: 160 Copynumber: 2.0 Consensus size: 160
907449 AGGCATAGAT
**
907459 TATGTGACCATCGCTTAATCTGCCAGCCAGGGCTGCAAGAACTAAGACATTTAGTTGTCACTTGT
1 TATGTGACCATCAATTAATCTGCCAGCCAGGGCTGCAAGAACTAAGACATTTAGTTGTCACTTGT
907524 CAAAACAGCATCCACAGATAAAGTTCATCTTATTTTCCAGATACTTCTAGGGTGCTAACTTTCTG
66 CAAAACAGCATCCACAGATAAAGTTCATCTTATTTTCCAGATACTTCTAGGGTGCTAACTTTCTG
907589 TTTCAGCGAAAGATTCACTTACCTGCATCA
131 TTTCAGCGAAAGATTCACTTACCTGCATCA
907619 TATGTGACCATCAATTAATCTGCCAGCCAGGGCTGCAAGAACTAAGACATTTAGTTGTCACTTGT
1 TATGTGACCATCAATTAATCTGCCAGCCAGGGCTGCAAGAACTAAGACATTTAGTTGTCACTTGT
*
907684 CAGAACAGCATCCACAGATAAAGTTCATCTTATTTTCCAGATACTTCTAGGGTGCTAACTTTCTG
66 CAAAACAGCATCCACAGATAAAGTTCATCTTATTTTCCAGATACTTCTAGGGTGCTAACTTTCTG
907749 TTTCAGCGAAAGATTCACTTACCTGCATCA
131 TTTCAGCGAAAGATTCACTTACCTGCATCA
907779 TATG
1 TATG
907783 CCATTCTTCA
Statistics
Matches: 161, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
160 161 1.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (160 bp):
TATGTGACCATCAATTAATCTGCCAGCCAGGGCTGCAAGAACTAAGACATTTAGTTGTCACTTGT
CAAAACAGCATCCACAGATAAAGTTCATCTTATTTTCCAGATACTTCTAGGGTGCTAACTTTCTG
TTTCAGCGAAAGATTCACTTACCTGCATCA
Found at i:916164 original size:4 final size:4
Alignment explanation
Indices: 916148--916184 Score: 65
Period size: 4 Copynumber: 9.2 Consensus size: 4
916138 AATATCAGCT
*
916148 TCTA TCTA ACTA TCTA TCTA TCTA TCTA TCTA TCTA T
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA T
916185 ATATATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.27, C:0.24, G:0.00, T:0.49
Consensus pattern (4 bp):
TCTA
Found at i:916189 original size:2 final size:2
Alignment explanation
Indices: 916182--916207 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
916172 TCTATCTATC
916182 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
916208 AGATCTGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:921287 original size:19 final size:20
Alignment explanation
Indices: 921263--921306 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
921253 AATTTTTATT
921263 TAAAAAT-TATGTA-ATATAA
1 TAAAAATATAT-TATATATAA
921282 TAAAAATATATTATTATATAA
1 TAAAAATATATTA-TATATAA
921303 TAAA
1 TAAA
921307 TTAATAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.41
20 3 0.14
21 10 0.45
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (20 bp):
TAAAAATATATTATATATAA
Found at i:927960 original size:21 final size:21
Alignment explanation
Indices: 927936--927982 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
927926 ATTTTATTAT
*
927936 TATTATTTTTTTATTAAAGCA
1 TATTATTTTATTATTAAAGCA
*
927957 TATTATTTTATTGTTAAAGCA
1 TATTATTTTATTATTAAAGCA
*
927978 AATTA
1 TATTA
927983 ATGACTTATG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.04, G:0.06, T:0.53
Consensus pattern (21 bp):
TATTATTTTATTATTAAAGCA
Found at i:931319 original size:14 final size:13
Alignment explanation
Indices: 931300--931339 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
931290 GTTTAGAGGG
931300 TTTTAGGGTTTGAA
1 TTTTAGGGTTTG-A
*
931314 TTTTAGGATTTTGA
1 TTTTAGG-GTTTGA
931328 TTTTAGGGTTTG
1 TTTTAGGGTTTG
931340 GGGATCAGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 4 0.17
14 15 0.65
15 4 0.17
ACGTcount: A:0.17, C:0.00, G:0.28, T:0.55
Consensus pattern (13 bp):
TTTTAGGGTTTGA
Found at i:931468 original size:58 final size:57
Alignment explanation
Indices: 931366--931556 Score: 215
Period size: 58 Copynumber: 3.3 Consensus size: 57
931356 TTTAGGGTTT
* * * *
931366 AGGTTTAA-GGTTTAAGGTTTTAGTTTTACGGTTTGGAGGATTTAGGGTTTTAATTTTA
1 AGGTTTAAGGGTTT-AGGGTTTAATTTTAAGGTTTGGAGG-TTTAGGGTTTTGATTTTA
*
931424 AGGTTTAAGGGGTTTAGGGTTTAATTTTAAGGTTTGGAGGTTTAGGGGTTTGATTTTA
1 AGGTTTAA-GGGTTTAGGGTTTAATTTTAAGGTTTGGAGGTTTAGGGTTTTGATTTTA
* * * * *
931482 GGGTTTTAAGGGTTTAAGGTTTAATTTTAGGGTTTGAAGGTTT-GGGATTTTGATTTCA
1 AGG-TTTAAGGGTTTAGGGTTTAATTTTAAGGTTTGGAGGTTTAGGG-TTTTGATTTTA
*
931540 GGGTTTGAAGGGTTTAG
1 AGGTTT-AAGGGTTTAG
931557 ACTTTTGATT
Statistics
Matches: 116, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
57 6 0.05
58 78 0.67
59 27 0.23
60 5 0.04
ACGTcount: A:0.21, C:0.01, G:0.32, T:0.46
Consensus pattern (57 bp):
AGGTTTAAGGGTTTAGGGTTTAATTTTAAGGTTTGGAGGTTTAGGGTTTTGATTTTA
Done.