Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, 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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 6 of 125
Found at i:810111 original size:25 final size:23
Alignment explanation
Indices: 810054--810099 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
810044 AAAGATTAAA
*
810054 AAATAACATAAAAATAACACAAAAT
1 AAATAAAATAAAAA-AACA-AAAAT
810079 AAATAAAATAAAAAAACAAAA
1 AAATAAAATAAAAAAACAAAA
810100 CAGTAAGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 3 0.15
24 4 0.20
25 13 0.65
ACGTcount: A:0.78, C:0.09, G:0.00, T:0.13
Consensus pattern (23 bp):
AAATAAAATAAAAAAACAAAAAT
Found at i:810647 original size:19 final size:17
Alignment explanation
Indices: 810618--810670 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 17
810608 CCCAAATTAA
810618 GAAAATTTTTTGTTTATG
1 GAAAATTTTTTGTTT-TG
* *
810636 GAATATTTTTTTACTTTTG
1 GAA-AATTTTTT-GTTTTG
810655 GAAAATTTTTTGTTTT
1 GAAAATTTTTTGTTTT
810671 TCTGGTTCCA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
17 4 0.14
18 10 0.34
19 12 0.41
20 3 0.10
ACGTcount: A:0.25, C:0.02, G:0.13, T:0.60
Consensus pattern (17 bp):
GAAAATTTTTTGTTTTG
Found at i:811527 original size:15 final size:16
Alignment explanation
Indices: 811502--811533 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
811492 AATCCAAAAT
811502 TTATATTTTTAGTTTA
1 TTATATTTTTAGTTTA
811518 TTAT-TTTTTAGTTTA
1 TTATATTTTTAGTTTA
811533 T
1 T
811534 CTTGTATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (16 bp):
TTATATTTTTAGTTTA
Found at i:811532 original size:28 final size:30
Alignment explanation
Indices: 811501--811556 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
811491 AAATCCAAAA
*
811501 TTTATATT-TTTAGTT-TATTATTTTTTAG
1 TTTATATTGTATAGTTATATTATTTTTTAG
* *
811529 TTTATCTTGTATATTTATATTATTTTTT
1 TTTATATTGTATAGTTATATTATTTTTT
811557 TATAAATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 7 0.30
29 5 0.22
30 11 0.48
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.71
Consensus pattern (30 bp):
TTTATATTGTATAGTTATATTATTTTTTAG
Found at i:811594 original size:27 final size:27
Alignment explanation
Indices: 811538--811600 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
811528 GTTTATCTTG
* *
811538 TATATTTATATTATTTTTTTATAAATA
1 TATATTAATATTATTTTTTAATAAATA
811565 TATATTAATA-TATTTTTTAAATTAAA-A
1 TATATTAATATTATTTTTT-AA-TAAATA
811592 TATATTAAT
1 TATATTAAT
811601 TTGAATTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 8 0.25
27 20 0.62
28 4 0.12
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (27 bp):
TATATTAATATTATTTTTTAATAAATA
Found at i:811609 original size:20 final size:19
Alignment explanation
Indices: 811571--811609 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
811561 AATATATATT
*
811571 AATATATTTTTTAAATTAA
1 AATATATTATTTAAATTAA
*
811590 AATATATTAATTTGAATTAA
1 AATATATT-ATTTAAATTAA
811610 TTTAAAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (19 bp):
AATATATTATTTAAATTAA
Found at i:815820 original size:18 final size:18
Alignment explanation
Indices: 815799--815854 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
815789 TGTAATTTTC
815799 ATATAAAATATAATATAT
1 ATATAAAATATAATATAT
*
815817 ATATAAATTATCAATAT-T
1 ATATAAAATAT-AATATAT
*
815835 TTA-AACAATATAA-ATAT
1 ATATAA-AATATAATATAT
815852 ATA
1 ATA
815855 AATTATGGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
16 2 0.06
17 7 0.23
18 17 0.55
19 5 0.16
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (18 bp):
ATATAAAATATAATATAT
Found at i:816349 original size:2 final size:2
Alignment explanation
Indices: 816342--816367 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
816332 GTAAGAGGAT
816342 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
816368 CACATAGTAG
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:819906 original size:16 final size:16
Alignment explanation
Indices: 819885--819923 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
819875 GAGTCATTGA
819885 ATCAAGCGGTTTGATC
1 ATCAAGCGGTTTGATC
819901 ATCAAGCGGTTTGATC
1 ATCAAGCGGTTTGATC
819917 ATCAAGC
1 ATCAAGC
819924 TGATTTGAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (16 bp):
ATCAAGCGGTTTGATC
Found at i:819917 original size:13 final size:14
Alignment explanation
Indices: 819881--819914 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 14
819871 AATTGAGTCA
819881 TTGAATCAAGCGGT
1 TTGAATCAAGCGGT
819895 TTGATCATCAAGCGGT
1 TTGA--ATCAAGCGGT
819911 TTGA
1 TTGA
819915 TCATCAAGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
16 14 0.78
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.32
Consensus pattern (14 bp):
TTGAATCAAGCGGT
Found at i:822553 original size:21 final size:20
Alignment explanation
Indices: 822500--822540 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
822490 CTTAACGATC
822500 CCTAATTGATCTCTAATGAT
1 CCTAATTGATCTCTAATGAT
* *
822520 CCTAAGCTAATCTCTAATGAT
1 CCTAA-TTGATCTCTAATGAT
822541 TTTAATATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.32, C:0.22, G:0.10, T:0.37
Consensus pattern (20 bp):
CCTAATTGATCTCTAATGAT
Found at i:822639 original size:98 final size:98
Alignment explanation
Indices: 822470--822659 Score: 344
Period size: 98 Copynumber: 1.9 Consensus size: 98
822460 ATAAAAAATT
* * *
822470 ATAAACATACAATCTTAATTCTTAACGATCCCTAATTGATCTCTAATGATCCTAAGCTAATCTCT
1 ATAAACATACAATCTTAATTATTAACGATCCCTAATTGAACTCTAATGATCCTAAACTAATCTCT
822535 AATGATTTTAATATGATCTTTATCCCATTTATC
66 AATGATTTTAATATGATCTTTATCCCATTTATC
*
822568 ATAAACATACAATCTTAATTATTAACGATCCCTAATTGAACTCTAATGGTCCTAAACTAATCTCT
1 ATAAACATACAATCTTAATTATTAACGATCCCTAATTGAACTCTAATGATCCTAAACTAATCTCT
822633 AATGATTTTAATATGATCTTTATCCCA
66 AATGATTTTAATATGATCTTTATCCCA
822660 AATTGATTTC
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 88 1.00
ACGTcount: A:0.35, C:0.20, G:0.06, T:0.38
Consensus pattern (98 bp):
ATAAACATACAATCTTAATTATTAACGATCCCTAATTGAACTCTAATGATCCTAAACTAATCTCT
AATGATTTTAATATGATCTTTATCCCATTTATC
Found at i:824314 original size:2 final size:2
Alignment explanation
Indices: 824309--824347 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
824299 GTGTGTGTAG
824309 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
824348 CTAGTTTTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:825456 original size:52 final size:52
Alignment explanation
Indices: 825377--825532 Score: 206
Period size: 52 Copynumber: 3.0 Consensus size: 52
825367 ATAACCATAT
* * *
825377 AAACTTGCCCATTAAGAATCCCCTTCCTCTTAGAATTCTTCTCCTGTAAGTC
1 AAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGCAAGTC
* * *
825429 AAACTTGGCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCTTGCAAGTC
1 AAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGCAAGTC
* * **
825481 AAACTTACCTATTAAGAATCCTCTTT-CTCTTGGAATTCTTCTTTTGCAAGTC
1 AAACTTGCCTATTAAGAATCC-CTTTCCTCTTAGAATTCTTCTCCTGCAAGTC
825533 TTCTTGTCCA
Statistics
Matches: 92, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
52 88 0.96
53 4 0.04
ACGTcount: A:0.25, C:0.26, G:0.10, T:0.39
Consensus pattern (52 bp):
AAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGCAAGTC
Found at i:832207 original size:17 final size:17
Alignment explanation
Indices: 832185--832234 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 17
832175 TAATTAATTG
832185 GATTCATGAATATTATA
1 GATTCATGAATATTATA
*
832202 GATTCATAAATAATTA-A
1 GATTCATGAAT-ATTATA
*
832219 -ATTCGTGAATAGTTAT
1 GATTCATGAATA-TTAT
832235 TCAATTTAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
15 1 0.04
16 11 0.41
17 11 0.41
18 4 0.15
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.40
Consensus pattern (17 bp):
GATTCATGAATATTATA
Found at i:832208 original size:33 final size:34
Alignment explanation
Indices: 832170--832234 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
832160 AAGTATATTA
* **
832170 ATTCATAATTAATTGGATTCATGAATA-TTATAG
1 ATTCATAAATAATTAAATTCATGAATAGTTATAG
*
832203 ATTCATAAATAATTAAATTCGTGAATAGTTAT
1 ATTCATAAATAATTAAATTCATGAATAGTTAT
832235 TCAATTTAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 23 0.85
34 4 0.15
ACGTcount: A:0.42, C:0.06, G:0.11, T:0.42
Consensus pattern (34 bp):
ATTCATAAATAATTAAATTCATGAATAGTTATAG
Found at i:832945 original size:19 final size:18
Alignment explanation
Indices: 832915--832950 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
832905 AAAACAATTT
832915 AAAGAAAAAAATAAAATA
1 AAAGAAAAAAATAAAATA
*
832933 AAAGAAGAAAAATCAAAT
1 AAAGAA-AAAAATAAAAT
832951 CACATGCCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.78, C:0.03, G:0.08, T:0.11
Consensus pattern (18 bp):
AAAGAAAAAAATAAAATA
Found at i:833492 original size:19 final size:18
Alignment explanation
Indices: 833450--833492 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
833440 TTTTAAGGGT
*
833450 AAAAATATAATTAAACTA
1 AAAAATATAATTAAAATA
833468 ATAAAATATATATTAAAATA
1 A-AAAATATA-ATTAAAATA
833488 AAAAA
1 AAAAA
833493 GCTTGAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 12 0.55
20 9 0.41
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (18 bp):
AAAAATATAATTAAAATA
Found at i:837718 original size:29 final size:27
Alignment explanation
Indices: 837662--837726 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
837652 TTAATAGTTT
* *
837662 TTTTCTTATTTTTTGGTTTTTCTTGCC
1 TTTTCTTATTTTTTAGTTTTTATTGCC
*
837689 TTTTCTTATTTTTTCATTTTTTATTAGCC
1 TTTTCTTATTTTTT-AGTTTTTATT-GCC
*
837718 TTGTCTTAT
1 TTTTCTTAT
837727 GTAAGAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 14 0.44
28 7 0.22
29 11 0.34
ACGTcount: A:0.09, C:0.14, G:0.08, T:0.69
Consensus pattern (27 bp):
TTTTCTTATTTTTTAGTTTTTATTGCC
Found at i:842687 original size:11 final size:11
Alignment explanation
Indices: 842673--842697 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
842663 AAAAGGCCTA
842673 AAAAAAAAAGG
1 AAAAAAAAAGG
842684 AAAAAAAAAGG
1 AAAAAAAAAGG
842695 AAA
1 AAA
842698 GTAGAGCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGG
Found at i:843358 original size:12 final size:13
Alignment explanation
Indices: 843318--843383 Score: 60
Period size: 13 Copynumber: 4.8 Consensus size: 13
843308 ATAAAAAACG
*
843318 AAAAGCAAATAGAA
1 AAAAGGAAA-AGAA
*
843332 AAAAGTAAAAGAA
1 AAAAGGAAAAGAA
*
843345 AAAAGGAAAAAAA
1 AAAAGGAAAAGAA
* *
843358 AAAAGCATAAATTAA
1 AAAAGGA-AAA-GAA
843373 AAAAGGAAAAG
1 AAAAGGAAAAG
843384 TAAATAAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
13 21 0.49
14 14 0.33
15 8 0.19
ACGTcount: A:0.74, C:0.03, G:0.15, T:0.08
Consensus pattern (13 bp):
AAAAGGAAAAGAA
Found at i:843368 original size:28 final size:26
Alignment explanation
Indices: 843330--843382 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 26
843320 AAGCAAATAG
843330 AAAAAAGTAAAAGAAAAAAGGAAAAA
1 AAAAAAGTAAAAGAAAAAAGGAAAAA
**
843356 AAAAAAGCATAAATTAAAAAAGGAAAA
1 AAAAAAG--TAAAAGAAAAAAGGAAAA
843383 GTAAATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 7 0.30
28 16 0.70
ACGTcount: A:0.77, C:0.02, G:0.13, T:0.08
Consensus pattern (26 bp):
AAAAAAGTAAAAGAAAAAAGGAAAAA
Found at i:844388 original size:10 final size:10
Alignment explanation
Indices: 844373--844397 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
844363 GCTAAAATCC
844373 ACTTTTATTG
1 ACTTTTATTG
844383 ACTTTTATTG
1 ACTTTTATTG
844393 ACTTT
1 ACTTT
844398 GTTTGCTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.12, G:0.08, T:0.60
Consensus pattern (10 bp):
ACTTTTATTG
Found at i:845483 original size:91 final size:92
Alignment explanation
Indices: 845388--845563 Score: 246
Period size: 91 Copynumber: 1.9 Consensus size: 92
845378 GTGGTCACCG
* * * * *
845388 GTAAGATTCGAACAAAGATGTGCACTATCTGACAATATAAGACAGGTGACTGCAAGTTGTATATT
1 GTAAGACTCAAACAAAGATGTGCACTACCTGACAACATAAGACAGGTGACTGCAAGTTATATATT
845453 CGAGACGATCC-AATAAGTGGCCACTA
66 CGAGACGATCCTAATAAGTGGCCACTA
* * * * *
845479 GTAAGACTCAAACAAATATGTGCACTACCTGACAACCTAAGATAGGTGGCTGCAAGTTATGTATT
1 GTAAGACTCAAACAAAGATGTGCACTACCTGACAACATAAGACAGGTGACTGCAAGTTATATATT
*
845544 CGAGATGATCCTAATAAGTG
66 CGAGACGATCCTAATAAGTG
845564 ATCAACAATA
Statistics
Matches: 73, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
91 65 0.89
92 8 0.11
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.25
Consensus pattern (92 bp):
GTAAGACTCAAACAAAGATGTGCACTACCTGACAACATAAGACAGGTGACTGCAAGTTATATATT
CGAGACGATCCTAATAAGTGGCCACTA
Found at i:845961 original size:16 final size:17
Alignment explanation
Indices: 845923--845962 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
845913 AACAAAGCCA
845923 ATTTCCTTTATTTTGTCG
1 ATTT-CTTTATTTTGTCG
845941 A-TTCTTTATTTTGTC-
1 ATTTCTTTATTTTGTCG
845956 ATTTCTT
1 ATTTCTT
845963 GATATGCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 1 0.05
16 17 0.81
17 2 0.10
18 1 0.05
ACGTcount: A:0.12, C:0.15, G:0.07, T:0.65
Consensus pattern (17 bp):
ATTTCTTTATTTTGTCG
Found at i:852390 original size:25 final size:25
Alignment explanation
Indices: 852362--852412 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
852352 TCTAGAAAGG
852362 TTTGCCATTCGCATAGGTCTCTATA
1 TTTGCCATTCGCATAGGTCTCTATA
*
852387 TTTGCCATTCGCATAGGTCTTTATA
1 TTTGCCATTCGCATAGGTCTCTATA
852412 T
1 T
852413 GGTCTTAAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.43
Consensus pattern (25 bp):
TTTGCCATTCGCATAGGTCTCTATA
Found at i:853691 original size:17 final size:18
Alignment explanation
Indices: 853671--853713 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
853661 AGCCTAAAAT
853671 TTTTAATTGTAA-TTTGA
1 TTTTAATTGTAATTTTGA
* * *
853688 TTTTGATTTTAATTTTGG
1 TTTTAATTGTAATTTTGA
853706 TTTTAATT
1 TTTTAATT
853714 TTTTTATTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.23, C:0.00, G:0.12, T:0.65
Consensus pattern (18 bp):
TTTTAATTGTAATTTTGA
Found at i:853704 original size:12 final size:12
Alignment explanation
Indices: 853687--853740 Score: 63
Period size: 12 Copynumber: 4.4 Consensus size: 12
853677 TTGTAATTTG
853687 ATTTTGATTTTA
1 ATTTTGATTTTA
*
853699 ATTTTGGTTTTA
1 ATTTTGATTTTA
**
853711 ATTTTTTTATTTA
1 ATTTTGAT-TTTA
*
853724 GTTTTGATTTTA
1 ATTTTGATTTTA
853736 ATTTT
1 ATTTT
853741 ATGATTTATT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
12 25 0.74
13 9 0.26
ACGTcount: A:0.20, C:0.00, G:0.09, T:0.70
Consensus pattern (12 bp):
ATTTTGATTTTA
Found at i:853723 original size:25 final size:25
Alignment explanation
Indices: 853695--853756 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
853685 TGATTTTGAT
* *
853695 TTTAATTTTGGTTTTAATTTTTTTA
1 TTTAATTTTGGTTTTAATTTTATGA
* *
853720 TTTAGTTTTGATTTTAATTTTATGA
1 TTTAATTTTGGTTTTAATTTTATGA
853745 TTT-ATTTTGGTT
1 TTTAATTTTGGTT
853757 AAAAAAAGGA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
24 7 0.23
25 24 0.77
ACGTcount: A:0.19, C:0.00, G:0.11, T:0.69
Consensus pattern (25 bp):
TTTAATTTTGGTTTTAATTTTATGA
Found at i:853949 original size:14 final size:14
Alignment explanation
Indices: 853932--853961 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
853922 AAAAAAAATC
853932 AAATTAAAAATCAT
1 AAATTAAAAATCAT
*
853946 AAATTACAAATCAT
1 AAATTAAAAATCAT
853960 AA
1 AA
853962 GAATATCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (14 bp):
AAATTAAAAATCAT
Found at i:856052 original size:14 final size:15
Alignment explanation
Indices: 856035--856076 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
856025 TGAAAAGTGC
856035 AAAAAAAAAAAAG-A
1 AAAAAAAAAAAAGCA
* *
856049 AAAAAAAAGAAGGCA
1 AAAAAAAAAAAAGCA
856064 AAAAAAAGAAAAA
1 AAAAAAA-AAAAA
856077 ATTAATTGGA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.50
15 8 0.36
16 3 0.14
ACGTcount: A:0.86, C:0.02, G:0.12, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAGCA
Found at i:856358 original size:15 final size:14
Alignment explanation
Indices: 856331--856393 Score: 58
Period size: 15 Copynumber: 4.5 Consensus size: 14
856321 GGAAAGGAAA
* *
856331 TAAAAATAAAAAAT
1 TAAAAAAAAAAAAG
856345 TAAAAAAAATAAAAG
1 TAAAAAAAA-AAAAG
*
856360 TAAAAGCAAAAAAAG
1 TAAAA-AAAAAAAAG
*
856375 -AAAAAAAAAAGAG
1 TAAAAAAAAAAAAG
856388 -AAAAAA
1 TAAAAAA
856394 GGAATACTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
13 13 0.31
14 12 0.29
15 14 0.33
16 3 0.07
ACGTcount: A:0.81, C:0.02, G:0.08, T:0.10
Consensus pattern (14 bp):
TAAAAAAAAAAAAG
Found at i:856384 original size:20 final size:19
Alignment explanation
Indices: 856347--856394 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
856337 TAAAAAATTA
* **
856347 AAAAAAATAAAAGTAAAAG
1 AAAAAAAGAAAAAAAAAAG
856366 CAAAAAAAGAAAAAAAAAAG
1 -AAAAAAAGAAAAAAAAAAG
856386 AGAAAAAAG
1 A-AAAAAAG
856395 GAATACTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 1 0.04
20 23 0.96
ACGTcount: A:0.81, C:0.02, G:0.12, T:0.04
Consensus pattern (19 bp):
AAAAAAAGAAAAAAAAAAG
Found at i:857169 original size:311 final size:311
Alignment explanation
Indices: 856601--857225 Score: 1054
Period size: 311 Copynumber: 2.0 Consensus size: 311
856591 ATCACGTTTA
* *
856601 AACAGTCATAGTATTTTGTTGCTGTTTATATATGATTTGTTCTTAACTAGACTTCCTTTCAATAC
1 AACAATCATAGTATTTTGTTGCTGTTTATATATGATTTGTTCTTAACTAAACTTCCTTTCAATAC
* *
856666 CCAATTTTCTTATTCTTTGCTAAATGTGTATCCCCTGAATGAATTAAGGAAATATATTATATTTG
66 CCAATTTTCTTATTCTTTACTAAATGTGTATCCCCTGAATGAATTAAGGAAATATATCATATTTG
* *
856731 TCATGAATTAGAATGATAATAATAAGTGAATGATAATGTCTACAAAAGAGTTTTCCATTCTTTTA
131 TCATGAATTAGAATGATAATAATAAGTGAATGACAATGCCTACAAAAGAGTTTTCCATTCTTTTA
* * * * * *
856796 AAAGAAATTCAAGATGAAACAAGTGAAAAAGCTTGAGAAAATTATTTGAAAATGGTAAATGAGGT
196 AAAGAAATCCAAGATGAAAAAAGTGAAAAAACGTGAGAAAATAATTTGAAAATGGCAAATGAGGT
856861 AACCCATTGGTGAATACAATGATGGATTGGTTAACATTACATGTGAGTTAT
261 AACCCATTGGTGAATACAATGATGGATTGGTTAACATTACATGTGAGTTAT
* * *
856912 AACAATCATAGTATTTTGTTGTTGTTTATATTTGATTTGTTCTTGA-TCAAACTTCCTTTCAATA
1 AACAATCATAGTATTTTGTTGCTGTTTATATATGATTTGTTCTTAACT-AAACTTCCTTTCAATA
856976 CCCAATTTTCTTATTCTTTACTAAATGTGTATCCCCTGAATGAATTAAGGAAATATATCATATTT
65 CCCAATTTTCTTATTCTTTACTAAATGTGTATCCCCTGAATGAATTAAGGAAATATATCATATTT
857041 GTCATGAATTAGAATGATAATAATAAGTGAATGACAATGCCTACAAAAGAGTTTTCCATTCTTTT
130 GTCATGAATTAGAATGATAATAATAAGTGAATGACAATGCCTACAAAAGAGTTTTCCATTCTTTT
* *
857106 GAAAGAAATCCAAGATGAAAAAAGTGAAAAAACGTGAGAAAATAATTTGAAAATTGCAAATGAGG
195 AAAAGAAATCCAAGATGAAAAAAGTGAAAAAACGTGAGAAAATAATTTGAAAATGGCAAATGAGG
* * *
857171 TAACTCGTTGGTGAATACAATGATGGATTGGTTAACATTACCTGTGAGTTAT
260 TAACCCATTGGTGAATACAATGATGGATTGGTTAACATTACATGTGAGTTAT
857223 AAC
1 AAC
857226 TAGAAGAAGA
Statistics
Matches: 293, Mismatches: 20, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
310 1 0.00
311 292 1.00
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.36
Consensus pattern (311 bp):
AACAATCATAGTATTTTGTTGCTGTTTATATATGATTTGTTCTTAACTAAACTTCCTTTCAATAC
CCAATTTTCTTATTCTTTACTAAATGTGTATCCCCTGAATGAATTAAGGAAATATATCATATTTG
TCATGAATTAGAATGATAATAATAAGTGAATGACAATGCCTACAAAAGAGTTTTCCATTCTTTTA
AAAGAAATCCAAGATGAAAAAAGTGAAAAAACGTGAGAAAATAATTTGAAAATGGCAAATGAGGT
AACCCATTGGTGAATACAATGATGGATTGGTTAACATTACATGTGAGTTAT
Found at i:857469 original size:25 final size:24
Alignment explanation
Indices: 857428--857483 Score: 94
Period size: 25 Copynumber: 2.3 Consensus size: 24
857418 CCTTGATAAT
*
857428 TGCATTTGCATCATGTTCAAGGCA
1 TGCATTTGAATCATGTTCAAGGCA
857452 TGCATTTGGAATCATGTTCAAGGCA
1 TGCATTT-GAATCATGTTCAAGGCA
857477 TGCATTT
1 TGCATTT
857484 ACATTATGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 7 0.23
25 23 0.77
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (24 bp):
TGCATTTGAATCATGTTCAAGGCA
Found at i:857966 original size:24 final size:24
Alignment explanation
Indices: 857903--857966 Score: 62
Period size: 22 Copynumber: 2.8 Consensus size: 24
857893 ATGCAAAACC
**
857903 CTAAAATTTTTCA-AATAAGAATCT
1 CTAAAATTTTT-AGAATGTGAATCT
*
857927 TTAAAA-TTTTAG-ATGTGAATCT
1 CTAAAATTTTTAGAATGTGAATCT
*
857949 CTAAAATTTTTTGAATGT
1 CTAAAATTTTTAGAATGT
857967 AAATATTTGA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
22 14 0.44
23 9 0.28
24 9 0.28
ACGTcount: A:0.39, C:0.08, G:0.09, T:0.44
Consensus pattern (24 bp):
CTAAAATTTTTAGAATGTGAATCT
Found at i:858255 original size:17 final size:18
Alignment explanation
Indices: 858214--858308 Score: 52
Period size: 17 Copynumber: 5.4 Consensus size: 18
858204 ATTTTGGATG
* *
858214 TTGAAATTTTTGCGAATC
1 TTGAAATTTTTGCAAAAC
*
858232 TTAAAATTTTTGCAAAAC
1 TTGAAATTTTTGCAAAAC
** * *
858250 -TGAAATGCTTAC-GAAC
1 TTGAAATTTTTGCAAAAC
**
858266 TTGAAATTTTTGTGAAAC
1 TTGAAATTTTTGCAAAAC
* * *
858284 TAG-AATTCTTGCAAATC
1 TTGAAATTTTTGCAAAAC
*
858301 TTTAAATT
1 TTGAAATT
858309 CTTACGAATC
Statistics
Matches: 54, Mismatches: 20, Indels: 6
0.68 0.25 0.08
Matches are distributed among these distances:
16 3 0.06
17 27 0.50
18 24 0.44
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.40
Consensus pattern (18 bp):
TTGAAATTTTTGCAAAAC
Found at i:858310 original size:18 final size:18
Alignment explanation
Indices: 858287--858352 Score: 53
Period size: 18 Copynumber: 3.7 Consensus size: 18
858277 GTGAAACTAG
858287 AATTCTTGCAAATCTTTA
1 AATTCTTGCAAATCTTTA
* * *
858305 AATTCTTACGAATC-TGA
1 AATTCTTGCAAATCTTTA
* ** * *
858322 AAGTCTTGTTACTATTTA
1 AATTCTTGCAAATCTTTA
858340 AATTCTTGCAAAT
1 AATTCTTGCAAAT
858353 TTGAAATATT
Statistics
Matches: 33, Mismatches: 14, Indels: 2
0.67 0.29 0.04
Matches are distributed among these distances:
17 10 0.30
18 23 0.70
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.42
Consensus pattern (18 bp):
AATTCTTGCAAATCTTTA
Found at i:858323 original size:52 final size:52
Alignment explanation
Indices: 858214--858316 Score: 127
Period size: 52 Copynumber: 2.0 Consensus size: 52
858204 ATTTTGGATG
* *
858214 TTGAAATTTTTGCGAATCTTAAAATTTTTGCAAAACTGAAATGCTTACGAAC
1 TTGAAATTTTTGCGAAACTTAAAATTCTTGCAAAACTGAAATGCTTACGAAC
* * * * *
858266 TTGAAATTTTTGTGAAAC-TAGAATTCTTGCAAATCTTTAAATTCTTACGAA
1 TTGAAATTTTTGCGAAACTTAAAATTCTTGCAAAAC-TGAAATGCTTACGAA
858317 TCTGAAAGTC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
51 14 0.33
52 29 0.67
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.39
Consensus pattern (52 bp):
TTGAAATTTTTGCGAAACTTAAAATTCTTGCAAAACTGAAATGCTTACGAAC
Found at i:858529 original size:37 final size:35
Alignment explanation
Indices: 858448--858531 Score: 96
Period size: 35 Copynumber: 2.3 Consensus size: 35
858438 ATCTGAAACT
* * **
858448 TTTGCTAATTGGAAACCTCTACGAAACTTGGAATC
1 TTTGCGAATTTGAAACCTCTACGAAACTTAAAATC
*
858483 TTTGCGAATTTGAAACCTCTGCGAAACTTCAAAAATC
1 TTTGCGAATTTGAAACCTCTACGAAACTT--AAAATC
*
858520 TTTGTGAATTTG
1 TTTGCGAATTTG
858532 GACATTTAAG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
35 26 0.63
37 15 0.37
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.35
Consensus pattern (35 bp):
TTTGCGAATTTGAAACCTCTACGAAACTTAAAATC
Found at i:858791 original size:43 final size:43
Alignment explanation
Indices: 858744--858866 Score: 133
Period size: 43 Copynumber: 2.9 Consensus size: 43
858734 ATTTGAAGTT
*
858744 TTTAAAATTGTTTAGCCTCTGTCTAGAGGAGCTTATTTCTTAA
1 TTTAAAATTGTTTAGCCTCTGTATAGAGGAGCTTATTTCTTAA
* * * * * **
858787 TTTAAAGTTGTTTAACCTTTGTATAAAAGAGCACATTTCTTAA
1 TTTAAAATTGTTTAGCCTCTGTATAGAGGAGCTTATTTCTTAA
* *
858830 TTTAAAATTGTTAAG-CTCTTGTTTAGAGGAG-TTATTT
1 TTTAAAATTGTTTAGCCTC-TGTATAGAGGAGCTTATTT
858867 GAAATTTTCT
Statistics
Matches: 62, Mismatches: 17, Indels: 3
0.76 0.21 0.04
Matches are distributed among these distances:
42 6 0.10
43 56 0.90
ACGTcount: A:0.29, C:0.11, G:0.15, T:0.45
Consensus pattern (43 bp):
TTTAAAATTGTTTAGCCTCTGTATAGAGGAGCTTATTTCTTAA
Found at i:859150 original size:24 final size:24
Alignment explanation
Indices: 859123--859175 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
859113 TGATTTTGAC
* * *
859123 TTTAATTTTTTATTTAGTTTGGAT
1 TTTAATTTGTGATTTACTTTGGAT
*
859147 TTTAATTTGTGATTTACTTTGGGT
1 TTTAATTTGTGATTTACTTTGGAT
859171 TTTAA
1 TTTAA
859176 AAAAAAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.21, C:0.02, G:0.15, T:0.62
Consensus pattern (24 bp):
TTTAATTTGTGATTTACTTTGGAT
Found at i:860270 original size:2 final size:2
Alignment explanation
Indices: 860263--860300 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
860253 TTATTGCATG
*
860263 AT AT AT AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
860301 TTCCTTTTGC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:860475 original size:21 final size:21
Alignment explanation
Indices: 860395--860478 Score: 59
Period size: 21 Copynumber: 4.0 Consensus size: 21
860385 CAATTGCAGG
* *
860395 ATTATATTTAATTGCATGATA-
1 ATTATA-TTATTTGAATGATAT
*
860416 ATTA-ATATATTTGCAT-A-AT
1 ATTATAT-TATTTGAATGATAT
* *
860435 ATAATATTATTATTACATGATAT
1 ATTATATTATT-TGA-ATGATAT
860458 ATTATATTATTTGAATGATAT
1 ATTATATTATTTGAATGATAT
860479 TATTTACATG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
18 1 0.02
19 9 0.18
20 12 0.24
21 13 0.26
22 3 0.06
23 12 0.24
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (21 bp):
ATTATATTATTTGAATGATAT
Found at i:860729 original size:17 final size:17
Alignment explanation
Indices: 860707--860762 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
860697 ACATATTAGA
860707 AAAATATTTTTAAAAAT
1 AAAATATTTTTAAAAAT
* *
860724 AAAATATTTTCATAAAT
1 AAAATATTTTTAAAAAT
* * *
860741 AAGAATTTTTTTTACAAT
1 AA-AATATTTTTAAAAAT
860759 AAAA
1 AAAA
860763 AATTAAATGA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
17 19 0.61
18 12 0.39
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.41
Consensus pattern (17 bp):
AAAATATTTTTAAAAAT
Found at i:864014 original size:31 final size:30
Alignment explanation
Indices: 863979--864048 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
863969 AAATTACTTC
* * * *
863979 TAAATTTTGAGATAAATATCATTTTGATTTT
1 TAAATTTTGA-AAAAATAACATATTAATTTT
864010 TAAATTTT-AAAAAATAACATATTAATTTT
1 TAAATTTTGAAAAAATAACATATTAATTTT
*
864039 TATATTTTGA
1 TAAATTTTGA
864049 TGGTCTTAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 23 0.70
30 2 0.06
31 8 0.24
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (30 bp):
TAAATTTTGAAAAAATAACATATTAATTTT
Found at i:865288 original size:138 final size:137
Alignment explanation
Indices: 865032--865298 Score: 349
Period size: 138 Copynumber: 1.9 Consensus size: 137
865022 CTAGTACTTT
* * * * * *
865032 TTCTTAACAAATATTTATTAATATTACAACAAGTAAAAAAGCTTTATTATTGCCCTTTTTTTTGT
1 TTCTTAACAAATATTTATTAATATAACAAAAAGAAAAAAAACTTTATTATTACCC-TTTTTATGT
*
865097 AATTTTATCTTTGATTTAACGATGAATTGACAGATATATTTTAACGACTATATTAACAATTTTGT
65 AATTTTATCTTTGATTTAACAATGAATTGACAGATATATTTTAACGACTATATTAACAATTTTGT
865162 ACTAATAC
130 ACTAATAC
* * *
865170 TTCTTAACAAATATTTATTATTATAACTGTAAAAAGAAAAAAAATTTTATTGTTACCC-TTTTAT
1 TTCTTAACAAATATTTATTAATATAAC---AAAAAGAAAAAAAACTTTATTATTACCCTTTTTAT
* * * **
865234 GTAATTTTATCTTTGATTTAATAATGAGTTGACAGAT-TTTTTTTTCGACTATATTAACAATTTT
63 GTAATTTTATCTTTGATTTAACAATGAATTGACAGATATATTTTAACGACTATATTAACAATTTT
865298 G
128 G
865299 CTGACGAGAA
Statistics
Matches: 111, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
138 50 0.45
139 39 0.35
141 22 0.20
ACGTcount: A:0.36, C:0.10, G:0.08, T:0.46
Consensus pattern (137 bp):
TTCTTAACAAATATTTATTAATATAACAAAAAGAAAAAAAACTTTATTATTACCCTTTTTATGTA
ATTTTATCTTTGATTTAACAATGAATTGACAGATATATTTTAACGACTATATTAACAATTTTGTA
CTAATAC
Found at i:866453 original size:2 final size:2
Alignment explanation
Indices: 866446--866471 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
866436 TAAAGACTTC
866446 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
866472 TTTAAATATT
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):
AT
Found at i:874995 original size:26 final size:27
Alignment explanation
Indices: 874963--875015 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
874953 ACTTCATTTG
*
874963 TTTATTAGAATTTCATT-TTTTTTGTT
1 TTTATTAAAATTTCATTATTTTTTGTT
*
874989 TTTATTAAAATTTTATTATTTTTTGTT
1 TTTATTAAAATTTCATTATTTTTTGTT
875016 ATTCCATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.70
Consensus pattern (27 bp):
TTTATTAAAATTTCATTATTTTTTGTT
Found at i:875712 original size:9 final size:9
Alignment explanation
Indices: 875698--875722 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
875688 TTAAAAATCA
875698 TTTTTTAAT
1 TTTTTTAAT
875707 TTTTTTAAT
1 TTTTTTAAT
875716 TTTTTTA
1 TTTTTTA
875723 TTAATTTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTTAAT
Found at i:876726 original size:24 final size:25
Alignment explanation
Indices: 876676--876731 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
876666 TCATTGGATA
* * *
876676 ATTTTTTTTTCTCATTTATATTATT
1 ATTTTTTTTTATAAATTATATTATT
*
876701 ATTTTTTTTTATAAATTA-ATTTTT
1 ATTTTTTTTTATAAATTATATTATT
876725 ATTTTTT
1 ATTTTTT
876732 ATTAACAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (25 bp):
ATTTTTTTTTATAAATTATATTATT
Found at i:878235 original size:50 final size:49
Alignment explanation
Indices: 878177--878527 Score: 224
Period size: 50 Copynumber: 7.2 Consensus size: 49
878167 ATCTAAGCAA
* *
878177 AGGCTTAACAACTTTAAAAAAATTATCTTAAAAAAAGCTATTCTCAGTAG
1 AGGCTCAACAACTTT-AAAAAATTATCTTAAAAAAAGCTCTTCTCAGTAG
* ** * *
878227 AGGCTTAACAACTTTAAAAAATCTATCTTAAAAAAATTTC-TCTAAGTAA
1 AGGCTCAACAACTTTAAAAAAT-TATCTTAAAAAAAGCTCTTCTCAGTAG
* * * *
878276 AGGCTCAACAA-TTT--TAAACT-TCTT-GAAAAAGCT-TATCTCAGTAA
1 AGGCTCAACAACTTTAAAAAATTATCTTAAAAAAAGCTCT-TCTCAGTAG
* * * * * * * **
878320 AAGCTTAACAA-TTTTAAAAATCTCATCTTCAAAAAAGTTCCTCTAAACAG
1 AGGCTCAACAACTTTAAAAAAT-T-ATCTTAAAAAAAGCTCTTCTCAGTAG
* * *
878370 AAGCTCAATAACTTT-AAAAATTCATCTT-AAAAAAGCTCTTC-CAAGTAA
1 AGGCTCAACAACTTTAAAAAATT-ATCTTAAAAAAAGCTCTTCTC-AGTAG
* * *
878418 AAGCTCAACAACTTTAAAAATCTTATCTTAAAAAAGGCTCCTT-TCAGTAG
1 AGGCTCAACAACTTTAAAAA-ATTATCTTAAAAAAAGCT-CTTCTCAGTAG
* ** * * * *
878468 AGACTCAACAACTTTAAAATCTCATTTTAAAAAAAGCTAC-TCTAAGCAG
1 AGGCTCAACAACTTTAAAAAATTATCTTAAAAAAAGCT-CTTCTCAGTAG
878517 AGGCTCAACAA
1 AGGCTCAACAA
878528 TTTTTCTTGA
Statistics
Matches: 238, Mismatches: 45, Indels: 37
0.74 0.14 0.12
Matches are distributed among these distances:
43 6 0.03
44 24 0.10
45 1 0.00
46 6 0.03
47 1 0.00
48 31 0.13
49 75 0.32
50 87 0.37
51 7 0.03
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (49 bp):
AGGCTCAACAACTTTAAAAAATTATCTTAAAAAAAGCTCTTCTCAGTAG
Found at i:878280 original size:49 final size:49
Alignment explanation
Indices: 878168--878527 Score: 194
Period size: 49 Copynumber: 7.4 Consensus size: 49
878158 AAAAGGCTTA
* *
878168 TCTAAGCAAAGGCTTAACAACTTTAAAAAAAT-TATCTTAAAAAAAGCTATTC
1 TCTAAGTAAAGGCTCAACAACTTT-AAAAAATCTATCTTAAAAAAA--T-TTC
* *
878220 TC--AGTAGAGGCTTAACAACTTTAAAAAATCTATCTTAAAAAAATTTC
1 TCTAAGTAAAGGCTCAACAACTTTAAAAAATCTATCTTAAAAAAATTTC
* * ** *
878267 TCTAAGTAAAGGCTCAACAA-TTT--TAAA-CT-TCTTGAAAAAGCTTA
1 TCTAAGTAAAGGCTCAACAACTTTAAAAAATCTATCTTAAAAAAATTTC
* * * * * *
878311 TCTCAGTAAAAGCTTAACAA-TTTTAAAAATCTCATCTTCAAAAAAGTTCC
1 TCTAAGTAAAGGCTCAACAACTTTAAAAAATCT-ATCTT-AAAAAAATTTC
** * * *
878361 TCTAAACAGAA-GCTCAATAACTTTAAAAATTC-ATCTTAAAAAAGCTCTTC
1 TCTAAGTA-AAGGCTCAACAACTTTAAAAAATCTATCTTAAAAAA-AT-TTC
* ** *
878411 -C-AAGTAAAAGCTCAACAACTTT-AAAAATCTTATCTTAAAAAAGGCTCC
1 TCTAAGTAAAGGCTCAACAACTTTAAAAAATC-TATCTTAAAAAA-ATTTC
* * * * * * *
878459 TTTCAGTAGAGACTCAACAACTTT--AAAATCTCATTTTAAAAAAAGCTAC
1 TCTAAGTAAAGGCTCAACAACTTTAAAAAATCT-ATCTTAAAAAAA-TTTC
* *
878508 TCTAAGCAGAGGCTCAACAA
1 TCTAAGTAAAGGCTCAACAA
878528 TTTTTCTTGA
Statistics
Matches: 243, Mismatches: 45, Indels: 43
0.73 0.14 0.13
Matches are distributed among these distances:
44 31 0.13
45 2 0.01
46 6 0.02
47 15 0.06
48 28 0.12
49 79 0.33
50 69 0.28
51 11 0.05
52 2 0.01
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (49 bp):
TCTAAGTAAAGGCTCAACAACTTTAAAAAATCTATCTTAAAAAAATTTC
Found at i:878305 original size:44 final size:44
Alignment explanation
Indices: 878252--878337 Score: 109
Period size: 44 Copynumber: 2.0 Consensus size: 44
878242 AAAAAATCTA
* * *
878252 TCTTAAAAAAATTTCTCTAAGTAAAGGCTCAACAATTTTAAACT
1 TCTTAAAAAAACTTATCTAAGTAAAAGCTCAACAATTTTAAACT
* * * *
878296 TCTTGAAAAAGCTTATCTCAGTAAAAGCTTAACAATTTTAAA
1 TCTTAAAAAAACTTATCTAAGTAAAAGCTCAACAATTTTAAA
878338 AATCTCATCT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.34
Consensus pattern (44 bp):
TCTTAAAAAAACTTATCTAAGTAAAAGCTCAACAATTTTAAACT
Found at i:878326 original size:93 final size:95
Alignment explanation
Indices: 878183--878967 Score: 266
Period size: 98 Copynumber: 8.2 Consensus size: 95
878173 GCAAAGGCTT
* * *
878183 AACAACTTTAAAAAAATTATCTTAAAAAAAGC-TATTCTCAGTAGAGGCTTAACAACTTTAAAAA
1 AACAACTTT--AAAAATCATCTT-AAAAAAGCTTA-TCTCAGTAAAAGCTTAACAACTTT-AAAA
* **
878247 ATCTATCTTAAAAAAATTTCTCTAAGTA-AAGGCTC
61 ATCTATCTTAAAAAAATTCCTCTAAACAGAA-GCTC
* * * *
878282 AACAA-TTT-TAAA-CTTCTTGAAAAAGCTTATCTCAGTAAAAGCTTAACAATTTTAAAAATCTC
1 AACAACTTTAAAAATCATCTTAAAAAAGCTTATCTCAGTAAAAGCTTAACAACTTTAAAAATCT-
*
878344 ATCTTCAAAAAAGTTCCTCTAAACAGAAGCTC
65 ATCTT-AAAAAAATTCCTCTAAACAGAAGCTC
* *
878376 AATAACTTTAAAAATTCATCTTAAAAAAGCTCT-TC-CAAGTAAAAGCTCAACAACTTTAAAAAT
1 AACAACTTTAAAAA-TCATCTTAAAAAAGCT-TATCTC-AGTAAAAGCTTAACAACTTTAAAAAT
** * * **
878439 CTTATCTTAAAAAAGGCTCCTTTCAGTAG-AGACTC
63 C-TATCTTAAAAAA-ATTCCTCTAAACAGAAG-CTC
* * * * * * *
878474 AACAACTTTAAAATCTCATTTTAAAAAAAGC-TACTCTAAGCAGAGGCTCAACAA--TT-----T
1 AACAACTTTAAAA-ATCATCTT-AAAAAAGCTTA-TCTCAGTAAAAGCTTAACAACTTTAAAAAT
* * * * ** *
878531 -T-TCTTGAAAAAGTTTCTTTAAGTAGAGGCTC
63 CTATCTTAAAAAAATTCCTCTAAACAGAAGCTC
* ** * ** * * * * * *
878562 AACAATTTTAAACTTCTCATATTGGAAAAGTTTCTCTAAGCAGAAGCTCAACAACTTT-AAAATC
1 AACAACTTTAAA--AATCATCTTAAAAAAGCTTATCTCAGTAAAAGCTTAACAACTTTAAAAATC
** *
878626 TAATCTTGAAAAAAGCTCATCTAAACA-AAGGCTC
64 T-ATCTT-AAAAAAATTCCTCTAAACAGAA-GCTC
* ** * * * * **
878660 AACAACTTTAAAAATCTATCTTAAAAAAAACTCCTCTCAATAGAGGCTCAACAACTTTAAACTTC
1 AACAACTTTAAAAATC-ATCTT-AAAAAAGCTTATCTCAGTAAAAGCTTAACAACTTTAAAAATC
** ** *
878725 TCATCTTGGAAAAGCTCCTCTAAGCAGAAGCTC
64 T-ATCTTAAAAAAATTCCTCTAAACAGAAGCTC
* * * ** * * * *
878758 AACAA-TTTTAAAATCTAATCTTGAAAAAAGCTTCTCTAAACAGAGGCTCAACAACTTTAAAAAC
1 AACAACTTTAAAAATC--ATCTT-AAAAAAGCTTATCTCAGTAAAAGCTTAACAACTTTAAAAAT
* ** * ** ** * * *
878822 CCATCTTAAAAAAGCTCATAGAAGTATAGGCTT
63 CTATCTTAAAAAAATTCCTCTAAACAGAAGCTC
** * * * * * *
878855 AACAACTTTAAACTTTTCATCTTAGAAAAGCTCATCTAAGT-AGAGGTTCAATAACTTT-AAAAT
1 AACAACTTTAAA--AATCATCTTAAAAAAGCTTATCTCAGTAAAAGCTT-AACAACTTTAAAAAT
** * *
878918 CTAATCTTGAAAAAAGCTCATCTAAACAGAGGCTC
63 CT-ATCTT-AAAAAAATTCCTCTAAACAGAAGCTC
878953 AACAACTTTAAAAAT
1 AACAACTTTAAAAAT
878968 TTTATCTATT
Statistics
Matches: 528, Mismatches: 114, Indels: 91
0.72 0.16 0.12
Matches are distributed among these distances:
88 49 0.09
89 18 0.03
90 3 0.01
92 9 0.02
93 33 0.06
94 30 0.06
95 9 0.02
96 13 0.02
97 83 0.16
98 237 0.45
99 42 0.08
100 2 0.00
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.29
Consensus pattern (95 bp):
AACAACTTTAAAAATCATCTTAAAAAAGCTTATCTCAGTAAAAGCTTAACAACTTTAAAAATCTA
TCTTAAAAAAATTCCTCTAAACAGAAGCTC
Found at i:878326 original size:143 final size:142
Alignment explanation
Indices: 878158--878966 Score: 386
Period size: 147 Copynumber: 5.6 Consensus size: 142
878148 TTGAAAATTT
* * * * *
878158 AAAAGGCTTATCTAAGCAAAGGCTTAACAACTTTAAAAAAATTATCTTAAAAAAAGCTATTCTCA
1 AAAAAGCTTATCTAAGCAAAAGCTTAACAACTTTAAAAAAATCATCTTAAAAAAAGCTACTCTAA
** * * *
878223 GTAGAGGCTTAACAACTTTAAAAAATCTATCTTAAAAAA-AT-TTCTCTAAGTAAAGGCTCAACA
66 ACAGAAGCTCAACAACTTTAAAAAATC-ATCTTAAAAAAGATCTTC-C-AAGTAAAAGCTCAACA
*
878286 ATTTTAAACTTCTTG
128 ACTTTAAACTTCTTG
* * * ** * * *
878301 AAAAAGCTTATCTCAGTAAAAGCTTAACAATTTTAAAAATCTCATCTTCAAAAAAGTTCCTCTAA
1 AAAAAGCTTATCTAAGCAAAAGCTTAACAACTTTAAAAAAATCATCTTAAAAAAAGCTACTCTAA
* * *
878366 ACAGAAGCTCAATAACTTTAAAAATTCATCTTAAAAAAGCTCTTCCAAGTAAAAGCTCAACAACT
66 ACAGAAGCTCAACAACTTTAAAAAATCATCTTAAAAAAGATCTTCCAAGTAAAAGCTCAACAACT
*
878431 TTAAAAATCTTATCTTA
131 TT--AAA-C-T-TCTTG
** * * * * * ** *
878448 AAAAAGGCTCCTTTCAG-TAGAGACTCAACAACTTT-AAAATCTCATTTTAAAAAAAGCTACTCT
1 AAAAA-GCTTATCTAAGCAAAAG-CTTAACAACTTTAAAAAAATCATCTTAAAAAAAGCTACTCT
* * * * * * *
878511 AAGCAGAGGCTCAACAA-TTT------T--TCTTGAAAAAGTTTCTT-TAAGTAGAGGCTCAACA
64 AAACAGAAGCTCAACAACTTTAAAAAATCATCTTAAAAAAG-ATCTTCCAAGTAAAAGCTCAACA
*
878566 ATTTTAAACTTCTCATATTG
128 ACTTTAAAC-T-TC---TTG
* * * * * ** * *
878586 GAAAAGTTTCTCTAAGCAGAAGCTCAACAACTTT-AAAATCTAATCTTGAAAAAAGCT-CATCTA
1 AAAAAGCTTATCTAAGCAAAAGCTTAACAACTTTAAAAAAATCATCTTAAAAAAAGCTAC-TCTA
* * * *
878649 AACA-AAGGCTCAACAACTTT-AAAAATCTATCTTAAAAAAAACTCCTCTCAA-TAGAGGCTCAA
65 AACAGAA-GCTCAACAACTTTAAAAAATC-ATCTTAAAAAAGA-TCTTC-CAAGTAAAAGCTCAA
878711 CAACTTTAAACTTCTCATCTTG
126 CAACTTTAAA---CT--TCTTG
* ** * * * ** * * *
878733 GAAAAGCTCCTCTAAGCAGAAGCTCAACAA-TTTTAAAATCTAATCTTGAAAAAAGCTTCTCTAA
1 AAAAAGCTTATCTAAGCAAAAGCTTAACAACTTTAAAAAAATCATCTTAAAAAAAGCTACTCTAA
* ** * * ** * * *
878797 ACAGAGGCTCAACAACTTTAAAAACCCATCTTAAAAAAGCTCATAGAAGTATAGGCTTAACAACT
66 ACAGAAGCTCAACAACTTTAAAAAATCATCTTAAAAAAGATCTTCCAAGTAAAAGCTCAACAACT
*
878862 TTAAACTTTTCATCTT
131 TTAAAC--TTC-T-TG
* * * * * ** * *
878878 AGAAAAGCTCATCTAAG-TAGAGGTTCAATAACTTT-AAAATCTAATCTTGAAAAAAGCT-CATC
1 A-AAAAGCTTATCTAAGCAAAAGCTT-AACAACTTTAAAAAAATCATCTTAAAAAAAGCTAC-TC
*
878940 TAAACAGAGGCTCAACAACTTTAAAAA
63 TAAACAGAAGCTCAACAACTTTAAAAA
878967 TTTTATCTAT
Statistics
Matches: 535, Mismatches: 86, Indels: 87
0.76 0.12 0.12
Matches are distributed among these distances:
135 5 0.01
136 5 0.01
137 55 0.10
138 39 0.07
139 4 0.01
140 1 0.00
142 30 0.06
143 79 0.15
144 7 0.01
145 9 0.02
146 111 0.21
147 159 0.30
148 27 0.05
149 1 0.00
150 3 0.01
ACGTcount: A:0.43, C:0.19, G:0.10, T:0.29
Consensus pattern (142 bp):
AAAAAGCTTATCTAAGCAAAAGCTTAACAACTTTAAAAAAATCATCTTAAAAAAAGCTACTCTAA
ACAGAAGCTCAACAACTTTAAAAAATCATCTTAAAAAAGATCTTCCAAGTAAAAGCTCAACAACT
TTAAACTTCTTG
Found at i:878640 original size:49 final size:48
Alignment explanation
Indices: 878532--878965 Score: 333
Period size: 49 Copynumber: 8.9 Consensus size: 48
878522 CAACAATTTT
* * * *
878532 TCTTG-AAAAAGTTTCTTTAAGTAGAGGCTCAACAATTTTAAACTTCTCA
1 TCTTGAAAAAAG-TTCTCTAAGCAGAGGCTCAACAACTTTAAA-ATCTCA
* * * *
878581 TATTG-GAAAAGTTTCTCTAAGCAGAAGCTCAACAACTTTAAAATCTAA
1 TCTTGAAAAAAG-TTCTCTAAGCAGAGGCTCAACAACTTTAAAATCTCA
* * *
878629 TCTTGAAAAAAGCTCATCTAAACAAAGGCTCAACAACTTTAAAAATCT-A
1 TCTTGAAAAAAGTTC-TCTAAGCAGAGGCTCAACAACTTT-AAAATCTCA
* * * * *
878678 TCTTAAAAAAAACTCCTCTCAA-TAGAGGCTCAACAACTTTAAACTTCTCA
1 TCTT-GAAAAAAGTTCTCT-AAGCAGAGGCTCAACAACTTTAAA-ATCTCA
* * * * *
878728 TCTTG-GAAAAGCTCCTCTAAGCAGAAGCTCAACAATTTTAAAATCTAA
1 TCTTGAAAAAAG-TTCTCTAAGCAGAGGCTCAACAACTTTAAAATCTCA
* * *
878776 TCTTGAAAAAAGCTTCTCTAAACAGAGGCTCAACAACTTTAAAAACCCA
1 TCTTGAAAAAAG-TTCTCTAAGCAGAGGCTCAACAACTTTAAAATCTCA
* ** * * * * *
878825 TCTT-AAAAAAGCTCATAGAAGTATAGGCTTAACAACTTTAAACTTTTCA
1 TCTTGAAAAAAGTTC-TCTAAGCAGAGGCTCAACAACTTTAAA-ATCTCA
* * * * * *
878874 TCTT-AGAAAAGCTCATCTAAGTAGAGGTTCAATAACTTTAAAATCTAA
1 TCTTGAAAAAAGTTC-TCTAAGCAGAGGCTCAACAACTTTAAAATCTCA
* *
878922 TCTTGAAAAAAGCTCATCTAAACAGAGGCTCAACAACTTTAAAA
1 TCTTGAAAAAAGTTC-TCTAAGCAGAGGCTCAACAACTTTAAAA
878966 ATTTTATCTA
Statistics
Matches: 309, Mismatches: 63, Indels: 26
0.78 0.16 0.07
Matches are distributed among these distances:
47 2 0.01
48 63 0.20
49 223 0.72
50 21 0.07
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (48 bp):
TCTTGAAAAAAGTTCTCTAAGCAGAGGCTCAACAACTTTAAAATCTCA
Found at i:878664 original size:98 final size:98
Alignment explanation
Indices: 878556--878964 Score: 400
Period size: 98 Copynumber: 4.2 Consensus size: 98
878546 CTTTAAGTAG
* * * ** * *
878556 AGGCTCAACAATTTTAAACTTCTCATATTGGAAAAGTTTCTCTAAGCAGAAGCTCAACAACTTTA
1 AGGCTCAACAACTTTAAACATCTCATCTTAAAAAAGCTTCTCTAAGCAGAGGCTCAACAACTTTA
878621 AAATCTAATCTTGAAAAAAGCTCATCTAAACAA
66 AAATCTAATCTTGAAAAAAGCTCATCTAAACAA
* * * *
878654 AGGCTCAACAACTTTAAAAATCT-ATCTTAAAAAAAACTCCTCTCAA-TAGAGGCTCAACAACTT
1 AGGCTCAACAACTTTAAACATCTCATCTT-AAAAAAGCTTCTCT-AAGCAGAGGCTCAACAACTT
* * * * *
878717 TAAACTTCTCATCTTG-GAAAAGCTCCTCTAAGCAGA
64 TAAA-ATCTAATCTTGAAAAAAGCTCATCTAAACA-A
* * *
878753 A-GCTCAACAATTTTAAA-ATCTAATCTTGAAAAAAGCTTCTCTAAACAGAGGCTCAACAACTTT
1 AGGCTCAACAACTTTAAACATCTCATCTT-AAAAAAGCTTCTCTAAGCAGAGGCTCAACAACTTT
* ** ** ** *
878816 AAAAACCCATCTT-AAAAAAGCTCATAGAAGTAT
65 AAAATCTAATCTTGAAAAAAGCTCATCTAAACAA
* * * * * * *
878849 AGGCTTAACAACTTTAAACTTTTCATCTTAGAAAAGC-TCATCTAAGTAGAGGTTCAATAACTTT
1 AGGCTCAACAACTTTAAACATCTCATCTTAAAAAAGCTTC-TCTAAGCAGAGGCTCAACAACTTT
*
878913 AAAATCTAATCTTGAAAAAAGCTCATCTAAACAG
65 AAAATCTAATCTTGAAAAAAGCTCATCTAAACAA
878947 AGGCTCAACAACTTTAAA
1 AGGCTCAACAACTTTAAA
878965 AATTTTATCT
Statistics
Matches: 251, Mismatches: 49, Indels: 22
0.78 0.15 0.07
Matches are distributed among these distances:
96 3 0.01
97 81 0.32
98 154 0.61
99 13 0.05
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (98 bp):
AGGCTCAACAACTTTAAACATCTCATCTTAAAAAAGCTTCTCTAAGCAGAGGCTCAACAACTTTA
AAATCTAATCTTGAAAAAAGCTCATCTAAACAA
Found at i:878720 original size:235 final size:235
Alignment explanation
Indices: 878158--878766 Score: 681
Period size: 235 Copynumber: 2.6 Consensus size: 235
878148 TTGAAAATTT
* * * **
878158 AAAAGGCTTATCTAAGCAAAGGCTTAACAACTTTAAAAAAAT-TATCTTAAAAAAAGCTATTCTC
1 AAAAAGCTCATCTAAGCAAAGGCTCAACAACTTT--AAAAATCTATCTTAAAAAAAGCTCCTCTC
* * * * *
878222 AGTAGAGGCTTAACAACTTTAAAAAATCT-ATCTTAAAAAAA-TTTCTCTAAGTAAAGGCTCAAC
64 AGTAGAGGCTCAACAACTTT--AAAATCTCATCTTAAAAAAAGCTACTCTAAGCAGAGGCTCAAC
* * *
878285 AATTTTAAACTTCTTGAAAAAGCTTATCTCAGTAAAAGCTTAACAATTTTAAAAATCTCATCTTC
127 AA-TTT----TTCTTGAAAAAGCTTATCTAAGTAAAAGCTCAACAATTTTAAAAATCTCATATTC
* *
878350 AAAAAAGTTCCTCTAAACAGAAGCTCAATAACTTTAAAAATTCATCTTA
187 AAAAAAGTTCCTCTAAACAGAAGCTCAACAACTTTAAAAATTAATCTTA
* * * * * *
878399 AAAAAGCTCTTCCAAGTAAAAGCTCAACAACTTTAAAAATCTTATCTTAAAAAAGGCTCCTTTCA
1 AAAAAGCTCATCTAAGCAAAGGCTCAACAACTTTAAAAATC-TATCTTAAAAAAAGCTCCTCTCA
* *
878464 GTAGAGACTCAACAACTTTAAAATCTCATTTTAAAAAAAGCTACTCTAAGCAGAGGCTCAACAAT
65 GTAGAGGCTCAACAACTTTAAAATCTCATCTTAAAAAAAGCTACTCTAAGCAGAGGCTCAACAAT
* * * * * ** **
878529 TTTTCTTGAAAAAGTTTCTTTAAGTAGAGGCTCAACAATTTTAAACTTCTCATATT-GGAAAAGT
130 TTTTCTTGAAAAAGCTTATCTAAGTAAAAGCTCAACAATTTTAAAAATCTCATATTCAAAAAAGT
* *
878593 TTCTCTAAGCAGAAGCTCAACAACTTT-AAAATCTAATCTTGA
195 TCCTCTAAACAGAAGCTCAACAACTTTAAAAAT-TAATCTT-A
* * *
878635 AAAAAGCTCATCTAAACAAAGGCTCAACAACTTTAAAAATCTATCTTAAAAAAAACTCCTCTCAA
1 AAAAAGCTCATCTAAGCAAAGGCTCAACAACTTTAAAAATCTATCTTAAAAAAAGCTCCTCTCAG
* ** * *
878700 TAGAGGCTCAACAACTTTAAACTTCTCATCTT-GGAAAAGCTCCTCTAAGCAGAAGCTCAACAAT
66 TAGAGGCTCAACAACTTTAAA-ATCTCATCTTAAAAAAAGCTACTCTAAGCAGAGGCTCAACAAT
878764 TTT
130 TTT
878767 AAAATCTAAT
Statistics
Matches: 311, Mismatches: 50, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
234 5 0.02
235 107 0.34
236 89 0.29
239 13 0.04
240 14 0.05
241 83 0.27
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.30
Consensus pattern (235 bp):
AAAAAGCTCATCTAAGCAAAGGCTCAACAACTTTAAAAATCTATCTTAAAAAAAGCTCCTCTCAG
TAGAGGCTCAACAACTTTAAAATCTCATCTTAAAAAAAGCTACTCTAAGCAGAGGCTCAACAATT
TTTCTTGAAAAAGCTTATCTAAGTAAAAGCTCAACAATTTTAAAAATCTCATATTCAAAAAAGTT
CCTCTAAACAGAAGCTCAACAACTTTAAAAATTAATCTTA
Found at i:878805 original size:147 final size:146
Alignment explanation
Indices: 878550--878967 Score: 606
Period size: 146 Copynumber: 2.9 Consensus size: 146
878540 AAGTTTCTTT
* * * *
878550 AAGTAGAGGCTCAACAATTTTAAACTTCTCATATTGGAAAAGTTTCTCTAAGCAGAAGCTCAACA
1 AAGTAGAGGCTCAACAACTTTAAACTTCTCATCTTGGAAAAGCTCCTCTAAGCAGAAGCTCAACA
* *
878615 ACTTTAAAATCTAATCTTGAAAAAAGCTCATCTAAACAAAGGCTCAACAACTTTAAAAATCTATC
66 ACTTTAAAATCTAATCTTGAAAAAAGCTCATCTAAACAGAGGCTCAACAACTTTAAAAATCCATC
* *
878680 TTAAAAAAAACTCCTCTC
131 TT-AAAAAAACTCAT-AC
878698 AA-TAGAGGCTCAACAACTTTAAACTTCTCATCTTGGAAAAGCTCCTCTAAGCAGAAGCTCAACA
1 AAGTAGAGGCTCAACAACTTTAAACTTCTCATCTTGGAAAAGCTCCTCTAAGCAGAAGCTCAACA
* *
878762 ATTTTAAAATCTAATCTTGAAAAAAGCTTC-TCTAAACAGAGGCTCAACAACTTTAAAAACCCAT
66 ACTTTAAAATCTAATCTTGAAAAAAGC-TCATCTAAACAGAGGCTCAACAACTTTAAAAATCCAT
* *
878826 CTTAAAAAAGCTCATAG
130 CTTAAAAAAACTCATAC
* * * * * * * * *
878843 AAGTATAGGCTTAACAACTTTAAACTTTTCATCTTAGAAAAGCTCATCTAAGTAGAGGTTCAATA
1 AAGTAGAGGCTCAACAACTTTAAACTTCTCATCTTGGAAAAGCTCCTCTAAGCAGAAGCTCAACA
878908 ACTTTAAAATCTAATCTTGAAAAAAGCTCATCTAAACAGAGGCTCAACAACTTTAAAAAT
66 ACTTTAAAATCTAATCTTGAAAAAAGCTCATCTAAACAGAGGCTCAACAACTTTAAAAAT
878968 TTTATCTATT
Statistics
Matches: 244, Mismatches: 23, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
145 4 0.02
146 118 0.48
147 118 0.48
148 4 0.02
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.28
Consensus pattern (146 bp):
AAGTAGAGGCTCAACAACTTTAAACTTCTCATCTTGGAAAAGCTCCTCTAAGCAGAAGCTCAACA
ACTTTAAAATCTAATCTTGAAAAAAGCTCATCTAAACAGAGGCTCAACAACTTTAAAAATCCATC
TTAAAAAAACTCATAC
Found at i:879793 original size:18 final size:17
Alignment explanation
Indices: 879766--879805 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
879756 TAAGTCATTA
879766 TTTTTCATTTTTTAACTT
1 TTTTTCATTTTTT-ACTT
* *
879784 TTTTTTATTTTTTTCTT
1 TTTTTCATTTTTTACTT
879801 TTTTT
1 TTTTT
879806 AAGTAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTCATTTTTTACTT
Found at i:891248 original size:12 final size:12
Alignment explanation
Indices: 891233--891259 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
891223 ATTATTAAGC
891233 TTATTTTTTATT
1 TTATTTTTTATT
891245 TTATTTTTTATT
1 TTATTTTTTATT
891257 TTA
1 TTA
891260 AAAATTAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (12 bp):
TTATTTTTTATT
Found at i:893683 original size:22 final size:21
Alignment explanation
Indices: 893658--893707 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
893648 TTTTTTAAAA
893658 AAAATTATTT-CAATCAAAATTT
1 AAAATTATTTGCAAT-AAAA-TT
*
893680 AAAATT-TTTGTAATAAAATT
1 AAAATTATTTGCAATAAAATT
893700 AAAATTAT
1 AAAATTAT
893708 CATATATCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 8 0.32
21 8 0.32
22 9 0.36
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (21 bp):
AAAATTATTTGCAATAAAATT
Found at i:893934 original size:28 final size:27
Alignment explanation
Indices: 893902--893976 Score: 80
Period size: 28 Copynumber: 2.7 Consensus size: 27
893892 TTAACTCATG
*
893902 TAATTATTAA-ATAATATTTAATAAATTT
1 TAATT-TTAATATAA-ATATAATAAATTT
*
893930 TAATTTTAATTTTAAATATAATAAATTT
1 TAATTTTAA-TATAAATATAATAAATTT
*
893958 TAATTTTAATTTTAAATAT
1 TAATTTTAA-TATAAATAT
893977 TAGTATATGC
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
27 4 0.09
28 36 0.84
29 3 0.07
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (27 bp):
TAATTTTAATATAAATATAATAAATTT
Found at i:893936 original size:6 final size:6
Alignment explanation
Indices: 893925--893972 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
893915 ATATTTAATA
* * *
893925 AATTTT AATTTT AATTTT AAATAT AA--TA AATTTT AATTTT AATTTT
1 AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT
893971 AA
1 AA
893973 ATATTAGTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
4 2 0.06
6 33 0.94
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (6 bp):
AATTTT
Found at i:896044 original size:35 final size:35
Alignment explanation
Indices: 896004--896272 Score: 177
Period size: 36 Copynumber: 7.7 Consensus size: 35
895994 CAAATAAAAT
* *
896004 AAATAATGGAATGTTTTCCTAAAAAATAAGACAAC
1 AAATAATGGAATGTTTTCCTAAAAAATAGGAGAAC
* *
896039 AAATAAAGGGAATGTTTTCCT------TA--A-AAA
1 AAAT-AATGGAATGTTTTCCTAAAAAATAGGAGAAC
* *
896066 AAATAATGGGA-GTGTTTCCTTAAAAAAATTGGAGAAC
1 AAATAATGGAATGT-TTTCC-T-AAAAAATAGGAGAAC
**
896103 AAATAATAAAAGTGTTTTCCTGAAAAAA-AGGAGAAC
1 AAATAATGGAA-TGTTTTCCT-AAAAAATAGGAGAAC
* * *
896139 AAATAATGGGAGTGTTTCCCTAAAAAATAGGAAAAC
1 AAATAAT-GGAATGTTTTCCTAAAAAATAGGAGAAC
* *
896175 AAGTAATAGGAATATTTTCCTAAAAAATAGGAGAAC
1 AAATAAT-GGAATGTTTTCCTAAAAAATAGGAGAAC
* *
896211 AAGTAATGTG-A-GTATTTCCTTAAAAATAGGAGAAC
1 AAATAATG-GAATGT-TTTCCTAAAAAATAGGAGAAC
* * * *
896246 AAGTAATGATAATGTTTACTTAAAAAA
1 AAATAATG-GAATGTTTTCCTAAAAAA
896273 AAAAAAAGAA
Statistics
Matches: 184, Mismatches: 29, Indels: 41
0.72 0.11 0.16
Matches are distributed among these distances:
25 2 0.01
26 10 0.05
27 7 0.04
28 1 0.01
30 2 0.01
34 2 0.01
35 40 0.22
36 93 0.51
37 20 0.11
38 5 0.03
39 2 0.01
ACGTcount: A:0.48, C:0.09, G:0.17, T:0.26
Consensus pattern (35 bp):
AAATAATGGAATGTTTTCCTAAAAAATAGGAGAAC
Found at i:896090 original size:26 final size:27
Alignment explanation
Indices: 896039--896093 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 27
896029 ATAAGACAAC
896039 AAATAAAGGGAATGTTTTCCTTAAAAA
1 AAATAAAGGGAATGTTTTCCTTAAAAA
* *
896066 AAATAATGGGAGTG-TTTCCTTAAAAA
1 AAATAAAGGGAATGTTTTCCTTAAAAA
896092 AA
1 AA
896094 TTGGAGAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.47, C:0.07, G:0.16, T:0.29
Consensus pattern (27 bp):
AAATAAAGGGAATGTTTTCCTTAAAAA
Found at i:896272 original size:72 final size:69
Alignment explanation
Indices: 896066--896273 Score: 236
Period size: 72 Copynumber: 2.9 Consensus size: 69
896056 TCCTTAAAAA
* *
896066 AAATAATGGGAGTGTTTCCTTAAAAAAATTGGAGAACAAATAATAAAAGTGTTTTCCTGAAAAAA
1 AAATAATGGGAGTGTTTCCTT--AAAAATAGGAGAACAAGTAATAAAA-TGTTTTCCT-AAAAAA
896131 AGGAGAAC
62 AGGAGAAC
* * * *
896139 AAATAATGGGAGTGTTTCCCTAAAAAATAGGAAAACAAGTAATAGGAATATTTTCCTAAAAAATA
1 AAATAATGGGAGTGTTT-CCTTAAAAATAGGAGAACAAGTAATA-AAATGTTTTCCTAAAAAA-A
896204 GGAGAAC
63 GGAGAAC
* * * * * *
896211 AAGTAATGTGAGTATTTCCTTAAAAATAGGAGAACAAGTAATGATAATGTTTACTTAAAAAAA
1 AAATAATGGGAGTGTTTCCTTAAAAATAGGAGAACAAGTAAT-AAAATGTTTTCCTAAAAAAA
896274 AAAAAAGAAT
Statistics
Matches: 116, Mismatches: 15, Indels: 11
0.82 0.11 0.08
Matches are distributed among these distances:
70 1 0.01
71 43 0.37
72 50 0.43
73 19 0.16
74 3 0.03
ACGTcount: A:0.48, C:0.08, G:0.18, T:0.26
Consensus pattern (69 bp):
AAATAATGGGAGTGTTTCCTTAAAAATAGGAGAACAAGTAATAAAATGTTTTCCTAAAAAAAGGA
GAAC
Found at i:896288 original size:38 final size:37
Alignment explanation
Indices: 896241--896385 Score: 98
Period size: 38 Copynumber: 3.9 Consensus size: 37
896231 TAAAAATAGG
*
896241 AGAACAAGTAATGATAATGTTTACTTAAAAAAAAAAAA
1 AGAACAAGTAATGATAATGTTTTC-TAAAAAAAAAAAA
* * * **
896279 AGAATAAGTAA-AATGAATGCTTTTCTAAAAAAATACTA
1 AGAACAAGTAATGAT-AATG-TTTTCTAAAAAAAAAAAA
* * *
896317 A-AACAAGTAATGAAAATATTTTCCT-AAAAAAATAAA
1 AGAACAAGTAATGATAATGTTTT-CTAAAAAAAAAAAA
* * * * *
896353 AGAATAAGTCATGAGAATACTTCTCTAAAAAAA
1 AGAACAAGTAATGATAAT-GTTTTCTAAAAAAA
896386 TAGAAAAACA
Statistics
Matches: 81, Mismatches: 19, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
36 12 0.15
37 30 0.37
38 35 0.43
39 4 0.05
ACGTcount: A:0.57, C:0.08, G:0.10, T:0.26
Consensus pattern (37 bp):
AGAACAAGTAATGATAATGTTTTCTAAAAAAAAAAAA
Found at i:896380 original size:74 final size:73
Alignment explanation
Indices: 896160--896395 Score: 210
Period size: 74 Copynumber: 3.2 Consensus size: 73
896150 GTGTTTCCCT
* ** * * *
896160 AAAAAATAGGAAAACAAGTAAT-AGGAATATTTTCCT-AAAAAATAGGAGAACAAGTAATGTGAG
1 AAAAAATAGGAAAACAAGTAATGA-AAATATTTTCCTAAAAAAATAAAAGAATAAGT-ATGAGAA
*
896223 TATTTC-CT-
64 TACTTCTCTA
* * * * * * * **
896231 TAAAAATAGGAGAACAAGTAATGATAATGTTTACTTAAAAAAAAAAAAAGAATAAGTAAAATGAA
1 AAAAAATAGGAAAACAAGTAATGAAAATATTTTCCT-AAAAAAATAAAAGAATAAGTATGA-GAA
* *
896296 TGCTTTTCTA
64 TACTTCTCTA
**
896306 AAAAAATACTAAAACAAGTAATGAAAATATTTTCCTAAAAAAATAAAAGAATAAGTCATGAGAAT
1 AAAAAATAGGAAAACAAGTAATGAAAATATTTTCCTAAAAAAATAAAAGAATAAGT-ATGAGAAT
896371 ACTTCTCTA
65 ACTTCTCTA
*
896380 AAAAAATAGAAAAACA
1 AAAAAATAGGAAAACA
896396 TATATTATAA
Statistics
Matches: 126, Mismatches: 32, Indels: 11
0.75 0.19 0.07
Matches are distributed among these distances:
71 28 0.22
72 2 0.02
73 20 0.16
74 46 0.37
75 30 0.24
ACGTcount: A:0.55, C:0.08, G:0.12, T:0.25
Consensus pattern (73 bp):
AAAAAATAGGAAAACAAGTAATGAAAATATTTTCCTAAAAAAATAAAAGAATAAGTATGAGAATA
CTTCTCTA
Found at i:896381 original size:37 final size:36
Alignment explanation
Indices: 896268--896387 Score: 109
Period size: 37 Copynumber: 3.2 Consensus size: 36
896258 TGTTTACTTA
* ** *
896268 AAAAAAAAAAAAGAATAAGTAAAATGAATGCTTTTCT
1 AAAAAAATAAAAGAATAAGTATGA-GAATACTTTTCT
* * *
896305 AAAAAAATACTAA-AACAAGTAATGAAAATA-TTTTCCT
1 AAAAAAATA-AAAGAATAAGT-ATGAGAATACTTTT-CT
*
896342 AAAAAAATAAAAGAATAAGTCATGAGAATACTTCTCT
1 AAAAAAATAAAAGAATAAGT-ATGAGAATACTTTTCT
896379 AAAAAAATA
1 AAAAAAATA
896388 GAAAAACATA
Statistics
Matches: 66, Mismatches: 12, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
36 6 0.09
37 53 0.80
38 7 0.11
ACGTcount: A:0.59, C:0.08, G:0.08, T:0.24
Consensus pattern (36 bp):
AAAAAAATAAAAGAATAAGTATGAGAATACTTTTCT
Found at i:902161 original size:24 final size:24
Alignment explanation
Indices: 902131--902191 Score: 88
Period size: 24 Copynumber: 2.5 Consensus size: 24
902121 AATATCATTC
*
902131 AAATATAATATTA-ATCATGCAAT
1 AAATATAATATCACATCATGCAAT
902154 AACATATAATATCACATCATGCAAT
1 AA-ATATAATATCACATCATGCAAT
*
902179 AAATATAAAATCA
1 AAATATAATATCA
902192 TGCAATAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
23 2 0.06
24 20 0.59
25 12 0.35
ACGTcount: A:0.54, C:0.13, G:0.03, T:0.30
Consensus pattern (24 bp):
AAATATAATATCACATCATGCAAT
Found at i:902314 original size:53 final size:54
Alignment explanation
Indices: 902245--902391 Score: 174
Period size: 53 Copynumber: 2.7 Consensus size: 54
902235 ATAAATAATC
*
902245 ATACAATCACACAAATAAATAAATTAATAATCATGCAATTA-ACAATG-TAAAAT
1 ATACAATCATACAAATAAATAAATTAATAATCATGCAATTACAC-ATGATAAAAT
* * * *
902298 ATGCAATTATACAAATAAATAAAATAATAATCATGCAATTACACATGCAATTAAAT
1 ATACAATCATACAAATAAATAAATTAATAATCATGCAATTACACATG--ATAAAAT
* *
902354 ATATAATCATGCAAAT-AATAATATTAATAATCATGCAA
1 ATACAATCATACAAATAAATAA-ATTAATAATCATGCAA
902392 AATAACATAC
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
53 40 0.51
54 2 0.03
55 5 0.06
56 32 0.41
ACGTcount: A:0.54, C:0.12, G:0.05, T:0.29
Consensus pattern (54 bp):
ATACAATCATACAAATAAATAAATTAATAATCATGCAATTACACATGATAAAAT
Found at i:902316 original size:21 final size:21
Alignment explanation
Indices: 902277--902316 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
902267 ATTAATAATC
*
902277 ATGCAATTAACAATGTAAAAT
1 ATGCAATTAACAATATAAAAT
902298 ATGCAATTATACAA-ATAAA
1 ATGCAATTA-ACAATATAAA
902317 TAAAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.28
Consensus pattern (21 bp):
ATGCAATTAACAATATAAAAT
Found at i:902360 original size:32 final size:28
Alignment explanation
Indices: 902319--902423 Score: 85
Period size: 32 Copynumber: 3.6 Consensus size: 28
902309 CAAATAAATA
902319 AAATAATAATCATGCAATTACACATGCAATT
1 AAATAATAATCATGCAA-TA-ACAT-CAATT
902350 AAATATATAATCATGCAA-ATA-AT-AA-T
1 AAATA-ATAATCATGCAATA-ACATCAATT
*
902376 -ATTAATAATCATGCAAAATAACATACAATT
1 AAATAATAATCATGC--AATAACAT-CAATT
902406 AAATATATAATCATGCAA
1 AAATA-ATAATCATGCAA
902424 ATAAAATTAT
Statistics
Matches: 61, Mismatches: 3, Indels: 21
0.72 0.04 0.25
Matches are distributed among these distances:
24 10 0.16
25 3 0.05
26 4 0.07
27 5 0.08
29 4 0.07
30 5 0.08
31 8 0.13
32 22 0.36
ACGTcount: A:0.53, C:0.12, G:0.05, T:0.30
Consensus pattern (28 bp):
AAATAATAATCATGCAATAACATCAATT
Found at i:902382 original size:56 final size:55
Alignment explanation
Indices: 902245--902505 Score: 227
Period size: 56 Copynumber: 4.8 Consensus size: 55
902235 ATAAATAATC
** * *
902245 ATACAATCACACAAATAAATAAATTAATAATCATGCAATTAACAATG---TAAAAT
1 ATACAATCATGCAAATAAATAAATTAATAATCATGCAAATAAC-ATGCAATTAAAT
* * * * *
902298 ATGCAATTATACAAATAAATAAAATAATAATCATGCAATTACACATGCAATTAAAT
1 ATACAATCATGCAAATAAATAAATTAATAATCATGCAAATA-ACATGCAATTAAAT
* *
902354 ATATAATCATGCAAAT-AATAATATTAATAATCATGCAAAATAACATACAATTAAAT
1 ATACAATCATGCAAATAAATAA-ATTAATAATCATGC-AAATAACATGCAATTAAAT
* * * *
902410 ATATAATCATGCAAAT--A-AAATTATATAAACCATGTAAATAAATATGCAATTAAAT
1 ATACAATCATGCAAATAAATAAATTA-AT-AATCATGCAAAT-AACATGCAATTAAAT
*
902465 ATACAATCATGCAAA-AAA-AAA-TACATAAACCATGCAAATAA
1 ATACAATCATGCAAATAAATAAATTA-AT-AATCATGCAAATAA
902506 ATATATTAAG
Statistics
Matches: 178, Mismatches: 19, Indels: 21
0.82 0.09 0.10
Matches are distributed among these distances:
53 44 0.25
54 12 0.07
55 55 0.31
56 63 0.35
57 4 0.02
ACGTcount: A:0.56, C:0.12, G:0.05, T:0.27
Consensus pattern (55 bp):
ATACAATCATGCAAATAAATAAATTAATAATCATGCAAATAACATGCAATTAAAT
Found at i:902452 original size:22 final size:21
Alignment explanation
Indices: 902405--902452 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 21
902395 AACATACAAT
*
902405 TAAA-TATATAATCATGCAAA
1 TAAATTATATAACCATGCAAA
*
902425 TAAAATTATATAAACCATGTAAA
1 T-AAATTATAT-AACCATGCAAA
902448 TAAAT
1 TAAAT
902453 ATGCAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 1 0.04
21 3 0.13
22 9 0.39
23 10 0.43
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.31
Consensus pattern (21 bp):
TAAATTATATAACCATGCAAA
Found at i:902493 original size:55 final size:54
Alignment explanation
Indices: 902342--902509 Score: 198
Period size: 55 Copynumber: 3.0 Consensus size: 54
902332 GCAATTACAC
*
902342 ATGCAATTAAATATATAATCATGCAAATAATAATATTAAT-AATCATGCAAAATAACAT
1 ATGCAATTAAATATATAATCATGCAAA-AA-AA-ATTAATAAACCATG-AAAATAA-AT
* *
902400 A--CAATTAAATATATAATCATGCAAATAAAATTATATAAACCATGTAAATAAAT
1 ATGCAATTAAATATATAATCATGCAAAAAAAATTA-ATAAACCATGAAAATAAAT
* * *
902453 ATGCAATTAAATATACAATCATGCAAAAAAAAATACATAAACCATGCAAATAAAT
1 ATGCAATTAAATATATAATCATGCAAAAAAAATTA-ATAAACCATGAAAATAAAT
902508 AT
1 AT
902510 ATTAAGCAAA
Statistics
Matches: 98, Mismatches: 8, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
53 7 0.07
54 10 0.10
55 56 0.57
56 24 0.24
58 1 0.01
ACGTcount: A:0.56, C:0.11, G:0.05, T:0.28
Consensus pattern (54 bp):
ATGCAATTAAATATATAATCATGCAAAAAAAATTAATAAACCATGAAAATAAAT
Found at i:902532 original size:56 final size:55
Alignment explanation
Indices: 902350--902535 Score: 155
Period size: 55 Copynumber: 3.3 Consensus size: 55
902340 ACATGCAATT
* * **
902350 AAATATATAATCATGCAAATAATAATATTA-AT-AATCATGCAAAATAACATA--CAATT
1 AAATATATAATCATGCAAA-AA-AA-AATACATAAACCATGC-AAATAA-ATATGCAAGC
* * * * **
902406 AAATATATAATCATGCAAATAAAATTATATAAACCATGTAAATAAATATGCAATT
1 AAATATATAATCATGCAAAAAAAAATACATAAACCATGCAAATAAATATGCAAGC
* **
902461 AAATATACAATCATGCAAAAAAAAATACATAAACCATGCAAATAAATATATTAAGC
1 AAATATATAATCATGCAAAAAAAAATACATAAACCATGCAAATAAATAT-GCAAGC
* *
902517 AAATAAATTATCATGCAAA
1 AAATATATAATCATGCAAA
902536 TATAATATTA
Statistics
Matches: 110, Mismatches: 15, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
53 7 0.06
54 10 0.09
55 56 0.51
56 37 0.34
ACGTcount: A:0.56, C:0.11, G:0.05, T:0.27
Consensus pattern (55 bp):
AAATATATAATCATGCAAAAAAAAATACATAAACCATGCAAATAAATATGCAAGC
Found at i:902536 original size:16 final size:17
Alignment explanation
Indices: 902495--902543 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
902485 ATACATAAAC
902495 CATGCAAATAAATATAT
1 CATGCAAATAAATATAT
* *
902512 TAAGCAAATAAAT-TAT
1 CATGCAAATAAATATAT
902528 CATGCAAATATAATAT
1 CATGCAAATA-AATAT
902544 TAATAATGCA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 11 0.42
17 14 0.54
18 1 0.04
ACGTcount: A:0.53, C:0.10, G:0.06, T:0.31
Consensus pattern (17 bp):
CATGCAAATAAATATAT
Found at i:903113 original size:10 final size:9
Alignment explanation
Indices: 903094--903126 Score: 50
Period size: 10 Copynumber: 3.7 Consensus size: 9
903084 AAATCCCACA
903094 TTTTTTTTC
1 TTTTTTTTC
903103 TTTTTTATTC
1 TTTTTT-TTC
903113 TTTTTTTT-
1 TTTTTTTTC
903121 TTTTTT
1 TTTTTT
903127 ACCAATTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 6 0.26
9 8 0.35
10 9 0.39
ACGTcount: A:0.03, C:0.06, G:0.00, T:0.91
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:903182 original size:13 final size:13
Alignment explanation
Indices: 903153--903189 Score: 67
Period size: 12 Copynumber: 2.9 Consensus size: 13
903143 TCTTTTGACT
903153 TAAAAAATTAAAC
1 TAAAAAATTAAAC
903166 -AAAAAATTAAAC
1 TAAAAAATTAAAC
903178 TAAAAAATTAAA
1 TAAAAAATTAAA
903190 ATACAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 12 0.52
13 11 0.48
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (13 bp):
TAAAAAATTAAAC
Found at i:907346 original size:10 final size:10
Alignment explanation
Indices: 907328--907369 Score: 75
Period size: 10 Copynumber: 4.2 Consensus size: 10
907318 TATTAAAGTA
907328 ATTAAGTTCT
1 ATTAAGTTCT
*
907338 ATTATGTTCT
1 ATTAAGTTCT
907348 ATTAAGTTCT
1 ATTAAGTTCT
907358 ATTAAGTTCT
1 ATTAAGTTCT
907368 AT
1 AT
907370 CAAAGTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
10 30 1.00
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.52
Consensus pattern (10 bp):
ATTAAGTTCT
Found at i:909367 original size:11 final size:11
Alignment explanation
Indices: 909351--909380 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
909341 AGAGAGAATC
909351 GATCGAAGAGA
1 GATCGAAGAGA
909362 GATCGAAGAGA
1 GATCGAAGAGA
909373 GATCGAAG
1 GATCGAAG
909381 GTATATTAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.43, C:0.10, G:0.37, T:0.10
Consensus pattern (11 bp):
GATCGAAGAGA
Found at i:909551 original size:34 final size:34
Alignment explanation
Indices: 909511--909591 Score: 110
Period size: 34 Copynumber: 2.4 Consensus size: 34
909501 ATTTCCAAAA
*
909511 AAAAAAAAATAAAGTGAAACTATA-AAATAAGATTT
1 AAAAAAAAA-AAAGTGAAAATA-AGAAATAAGATTT
* *
909546 TAAAAAAAAAAAGTGAAAATAAGAAATGAGATTT
1 AAAAAAAAAAAAGTGAAAATAAGAAATAAGATTT
909580 AAAAAAAAAAAA
1 AAAAAAAAAAAA
909592 AAAGAAAGTT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
33 1 0.02
34 32 0.78
35 8 0.20
ACGTcount: A:0.70, C:0.01, G:0.10, T:0.19
Consensus pattern (34 bp):
AAAAAAAAAAAAGTGAAAATAAGAAATAAGATTT
Found at i:913826 original size:18 final size:19
Alignment explanation
Indices: 913814--913861 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
913804 TATAATTTTA
913814 AATATAAAAATAATGATAC
1 AATATAAAAATAATGATAC
*
913833 AATAT-AAAATACAT-A-AA
1 AATATAAAAATA-ATGATAC
913850 AATATAAAAATA
1 AATATAAAAATA
913862 GTATAATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 6 0.23
18 13 0.50
19 7 0.27
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (19 bp):
AATATAAAAATAATGATAC
Found at i:920827 original size:2 final size:2
Alignment explanation
Indices: 920822--920849 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
920812 ACACACACAG
920822 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
920850 GATGTTGTGC
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:922573 original size:11 final size:11
Alignment explanation
Indices: 922557--922588 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
922547 ACAGAACAGG
*
922557 AAGAAAAAGAA
1 AAGAAAAAAAA
922568 AAGAAAAAAAA
1 AAGAAAAAAAA
922579 AAGAAAAAAA
1 AAGAAAAAAA
922589 CTAAAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
AAGAAAAAAAA
Found at i:935958 original size:18 final size:17
Alignment explanation
Indices: 935937--936047 Score: 100
Period size: 18 Copynumber: 6.1 Consensus size: 17
935927 ACTACGCTTG
935937 AAAAAAATGAAAAATTAA
1 AAAAAAATGAAAAA-TAA
*
935955 AAAAAAAAGAGAAAATGAAAA
1 AAAAAAATGA-AAAAT---AA
*
935976 ATAAAAAATGAAGAAATGA
1 A-AAAAAATGAA-AAATAA
935995 AAAAAAATGAAGAAAT-A
1 AAAAAAATGAA-AAATAA
*
936012 AAAAAAATGAAAAAATGA
1 AAAAAAATG-AAAAATAA
936030 AAAAAAATGAAAAA-AA
1 AAAAAAATGAAAAATAA
936046 AA
1 AA
936048 GTGAATGAAA
Statistics
Matches: 81, Mismatches: 4, Indels: 18
0.79 0.04 0.17
Matches are distributed among these distances:
16 3 0.04
17 19 0.23
18 37 0.46
19 6 0.07
21 4 0.05
22 12 0.15
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (17 bp):
AAAAAAATGAAAAATAA
Found at i:935962 original size:20 final size:20
Alignment explanation
Indices: 935937--936036 Score: 83
Period size: 19 Copynumber: 5.2 Consensus size: 20
935927 ACTACGCTTG
*
935937 AAAAAAATGAAAAAT-TAAA
1 AAAAAAATGAAAAATGAAAA
935956 AAAAAAA-GAGAAAATGAAAA
1 AAAAAAATGA-AAAATGAAAA
935976 ATAAAAAATGAAGAAATG---A
1 A-AAAAAATGAA-AAATGAAAA
935995 AAAAAAATG---AA-GAAATA
1 AAAAAAATGAAAAATGAAA-A
936012 AAAAAAATGAAAAAATGAAAA
1 AAAAAAATG-AAAAATGAAAA
936033 AAAA
1 AAAA
936037 TGAAAAAAAA
Statistics
Matches: 66, Mismatches: 1, Indels: 26
0.71 0.01 0.28
Matches are distributed among these distances:
13 1 0.02
14 2 0.03
17 10 0.15
18 10 0.15
19 14 0.21
20 4 0.06
21 14 0.21
22 11 0.17
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (20 bp):
AAAAAAATGAAAAATGAAAA
Found at i:935981 original size:22 final size:22
Alignment explanation
Indices: 935956--935998 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
935946 AAAAATTAAA
935956 AAAAAAAG-AGAAAATGAAAAAT
1 AAAAAAAGAAG-AAATGAAAAAT
*
935978 AAAAAATGAAGAAATGAAAAA
1 AAAAAAAGAAGAAATGAAAAA
935999 AAATGAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (22 bp):
AAAAAAAGAAGAAATGAAAAAT
Found at i:935983 original size:8 final size:8
Alignment explanation
Indices: 935937--936045 Score: 51
Period size: 8 Copynumber: 12.9 Consensus size: 8
935927 ACTACGCTTG
935937 AAAAAAAT
1 AAAAAAAT
* *
935945 GAAAAATT
1 AAAAAAAT
*
935953 AAAAAAAA
1 AAAAAAAT
935961 AAGAGAAAAT
1 AA-A-AAAAT
*
935971 -GAAAAAT
1 AAAAAAAT
935978 -AAAAAAT
1 AAAAAAAT
* *
935985 GAAGAAAT
1 AAAAAAAT
935993 GAAAAAAAAT
1 --AAAAAAAT
* *
936003 GAAGAAAT
1 AAAAAAAT
936011 AAAAAAAAT
1 -AAAAAAAT
*
936020 GAAAAAAT
1 AAAAAAAT
936028 GAAAAAAAAT
1 --AAAAAAAT
936038 GAAAAAAA
1 -AAAAAAA
936046 AAGTGAATGA
Statistics
Matches: 75, Mismatches: 18, Indels: 15
0.69 0.17 0.14
Matches are distributed among these distances:
7 11 0.15
8 33 0.44
9 14 0.19
10 17 0.23
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (8 bp):
AAAAAAAT
Found at i:935983 original size:33 final size:32
Alignment explanation
Indices: 935939--936047 Score: 98
Period size: 35 Copynumber: 3.3 Consensus size: 32
935929 TACGCTTGAA
* *
935939 AAAAATGAAAAATTAA-AAAAAAAAGAGAAAATG
1 AAAAATAAAAAATGAAGAAAAAAAA-A-AAAATG
**
935972 AAAAATAAAAAATGAAGAAATGAAAAAAAATG
1 AAAAATAAAAAATGAAGAAAAAAAAAAAAATG
*
936004 AAGAAATAAAAAAAATGAA-AAAATGAAAAAAAATG
1 AA-AAAT--AAAAAATGAAGAAAA-AAAAAAAAATG
936039 AAAAA-AAAA
1 AAAAATAAAA
936048 GTGAATGAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
31 4 0.06
32 8 0.12
33 19 0.29
34 12 0.18
35 23 0.35
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (32 bp):
AAAAATAAAAAATGAAGAAAAAAAAAAAAATG
Found at i:936004 original size:10 final size:10
Alignment explanation
Indices: 935989--936046 Score: 72
Period size: 10 Copynumber: 6.3 Consensus size: 10
935979 AAAAATGAAG
935989 AAATGAAAAA
1 AAATGAAAAA
*
935999 AAATG--AAG
1 AAATGAAAAA
936007 AAAT-AAAAA
1 AAATGAAAAA
936016 AAATG--AAA
1 AAATGAAAAA
936024 AAATGAAAAA
1 AAATGAAAAA
936034 AAATGAAAAA
1 AAATGAAAAA
936044 AAA
1 AAA
936047 AGTGAATGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
8 14 0.34
9 6 0.15
10 21 0.51
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.10
Consensus pattern (10 bp):
AAATGAAAAA
Found at i:936014 original size:14 final size:15
Alignment explanation
Indices: 935938--936016 Score: 69
Period size: 14 Copynumber: 5.4 Consensus size: 15
935928 CTACGCTTGA
935938 AAAAAATGAA-AAAT
1 AAAAAATGAAGAAAT
* *
935952 TAAAAA--AA-AAAG
1 AAAAAATGAAGAAAT
*
935964 AGAAAATGAA-AAAT
1 AAAAAATGAAGAAAT
935978 AAAAAATGAAGAAAT
1 AAAAAATGAAGAAAT
935993 GAAAAAAAATGAAGAAAT
1 ---AAAAAATGAAGAAAT
936011 AAAAAA
1 AAAAAA
936017 AATGAAAAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
12 9 0.17
14 19 0.36
15 10 0.19
18 15 0.28
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (15 bp):
AAAAAATGAAGAAAT
Found at i:936028 original size:35 final size:34
Alignment explanation
Indices: 935966--936047 Score: 125
Period size: 35 Copynumber: 2.5 Consensus size: 34
935956 AAAAAAAGAG
*
935966 AAAATGAAAAAT--AAAAAATGAAGAAATGAAAA
1 AAAATGAAAAATAAAAAAAATGAAAAAATGAAAA
935998 AAAATGAAGAAATAAAAAAAATGAAAAAATGAAAA
1 AAAATGAA-AAATAAAAAAAATGAAAAAATGAAAA
936033 AAAATGAAAAA-AAAA
1 AAAATGAAAAATAAAA
936048 GTGAATGAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
32 8 0.17
33 8 0.17
34 3 0.07
35 27 0.59
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (34 bp):
AAAATGAAAAATAAAAAAAATGAAAAAATGAAAA
Found at i:936043 original size:7 final size:7
Alignment explanation
Indices: 935939--935998 Score: 63
Period size: 7 Copynumber: 8.7 Consensus size: 7
935929 TACGCTTGAA
935939 AAAAATG
1 AAAAATG
*
935946 AAAAATT
1 AAAAATG
935953 AAAAA--
1 AAAAATG
935958 AAAAA-G
1 AAAAATG
935964 AGAAAATG
1 A-AAAATG
*
935972 AAAAATA
1 AAAAATG
935979 AAAAATG
1 AAAAATG
935986 AAGAAATG
1 AA-AAATG
935994 AAAAA
1 AAAAA
935999 AAATGAAGAA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
5 5 0.11
6 1 0.02
7 31 0.67
8 9 0.20
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:936060 original size:12 final size:12
Alignment explanation
Indices: 935982--936059 Score: 51
Period size: 10 Copynumber: 6.8 Consensus size: 12
935972 AAAAATAAAA
*
935982 AATGAAGAAATG
1 AATGAAAAAATG
935994 AA--AAAAAATG
1 AATGAAAAAATG
**
936004 AA-GAAATAAAAAA
1 AATG-AA-AAAATG
936017 AATGAAAAAATG
1 AATGAAAAAATG
936029 AA--AAAAAATG
1 AATGAAAAAATG
*
936039 AA-AAAAAAAGTG
1 AATGAAAAAA-TG
936051 AATGAAAAA
1 AATGAAAAA
936060 GGAGGACTCA
Statistics
Matches: 53, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
10 19 0.36
11 6 0.11
12 14 0.26
13 13 0.25
14 1 0.02
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.12
Consensus pattern (12 bp):
AATGAAAAAATG
Found at i:937129 original size:41 final size:41
Alignment explanation
Indices: 937054--937382 Score: 397
Period size: 41 Copynumber: 8.1 Consensus size: 41
937044 ATGAGTGTCA
*
937054 AGGAGCAATTTACTTTCCAAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAG
937096 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
937137 AGGAGCAATTTACTTTTCAAAGTCGTGATGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * *
937178 AGGACCAATTTAC-TTTCAAA-------AG-CTCTATTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
937210 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * *
937251 AGGAGTAATTTATTTTTGAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * * *
937292 AGGAGCAATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAG
1 AGGAGCAATTTA-CTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * * *
937334 AGGAGCCATTTATGTTTCTCAAAGTCGTTGAGCCTCTGTTTAG
1 AGGAGCAATTTA-CTTT-TCAAAGTCGTGGTGCCTCTGTTTAG
*
937377 AAGAGC
1 AGGAGC
937383 TTTGATCAAA
Statistics
Matches: 256, Mismatches: 20, Indels: 21
0.86 0.07 0.07
Matches are distributed among these distances:
32 20 0.08
33 8 0.03
40 8 0.03
41 134 0.52
42 57 0.22
43 29 0.11
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (41 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:937219 original size:32 final size:33
Alignment explanation
Indices: 937168--937230 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
937158 GTCGTGATGC
*
937168 CTCTGTTTAGAGGACCAATTTA-CTTTCAAAAG
1 CTCTATTTAGAGGACCAATTTATCTTTCAAAAG
* *
937200 CTCTATTTAGAGGAGCAATTTATTTTTCAAA
1 CTCTATTTAGAGGACCAATTTATCTTTCAAA
937231 GTCGTGGTGC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 20 0.74
33 7 0.26
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (33 bp):
CTCTATTTAGAGGACCAATTTATCTTTCAAAAG
Found at i:937291 original size:114 final size:114
Alignment explanation
Indices: 937086--937303 Score: 373
Period size: 114 Copynumber: 1.9 Consensus size: 114
937076 GTCGTGGTGC
*
937086 CTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACT
1 CTCTATTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACT
937151 TTTCAAAGTCGTGATGCCTCTGTTTAGAGGACCAATTTACTTTCAAAAG
66 TTTCAAAGTCGTGATGCCTCTGTTTAGAGGACCAATTTACTTTCAAAAG
* * *
937200 CTCTATTTAGAGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGTAATTTATT
1 CTCTATTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACT
* * *
937265 TTTGAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA
66 TTTCAAAGTCGTGATGCCTCTGTTTAGAGGACCAATTTA
937304 TTTTTTCAAA
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 97 1.00
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.38
Consensus pattern (114 bp):
CTCTATTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACT
TTTCAAAGTCGTGATGCCTCTGTTTAGAGGACCAATTTACTTTCAAAAG
Found at i:937345 original size:83 final size:84
Alignment explanation
Indices: 937200--937382 Score: 253
Period size: 83 Copynumber: 2.2 Consensus size: 84
937190 CTTTCAAAAG
* * * *
937200 CTCTATTTAGAGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGTAATTTAT-
1 CTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCGTGGAGCCTCTGATTAGAGGAGCAATTTATG
* *
937264 TTT-TGAAAGTCGTGGTGC
66 TTTCTCAAAGTCGTGGAGC
* *
937282 CTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTAT
1 CTCTGTTTAGAGGAGCAATTTA-TTTTTCAAAGTCGTGGAGCCTCTGATTAGAGGAGCAATTTAT
*
937347 GTTTCTCAAAGTCGTTGAGC
65 GTTTCTCAAAGTCGTGGAGC
*
937367 CTCTGTTTAGAAGAGC
1 CTCTGTTTAGAGGAGC
937383 TTTGATCAAA
Statistics
Matches: 88, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
82 21 0.24
83 37 0.42
84 3 0.03
85 27 0.31
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (84 bp):
CTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCGTGGAGCCTCTGATTAGAGGAGCAATTTATG
TTTCTCAAAGTCGTGGAGC
Found at i:937604 original size:6 final size:6
Alignment explanation
Indices: 937595--937666 Score: 62
Period size: 6 Copynumber: 12.2 Consensus size: 6
937585 TTTCTCTTCA
* *
937595 TTTTAT TTTTAT TTTT-T AATTTAT TTTTAT TTTGTAT TTTGCAT TTTTA-
1 TTTTAT TTTTAT TTTTAT -TTTTAT TTTTAT TTT-TAT TTT-TAT TTTTAT
*
937644 TTTTA- TTTTA- TTTTAT TATTAT T
1 TTTTAT TTTTAT TTTTAT TTTTAT T
937667 ATTTTATATA
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
5 16 0.28
6 28 0.49
7 13 0.23
ACGTcount: A:0.19, C:0.01, G:0.03, T:0.76
Consensus pattern (6 bp):
TTTTAT
Found at i:937633 original size:31 final size:31
Alignment explanation
Indices: 937598--937671 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
937588 CTCTTCATTT
937598 TATTTTTATTTTTTAATTTATTTTTATTTT-G
1 TATTTTTATTTTTTAATTTA-TTTTATTTTAG
* * *
937629 TATTTTGCA-TTTTTATTTTATTTTATTTTAT
1 TATTTT-TATTTTTTAATTTATTTTATTTTAG
*
937660 TATTATTATTTT
1 TATTTTTATTTT
937672 ATATATGTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
30 10 0.29
31 24 0.69
32 1 0.03
ACGTcount: A:0.20, C:0.01, G:0.03, T:0.76
Consensus pattern (31 bp):
TATTTTTATTTTTTAATTTATTTTATTTTAG
Found at i:937673 original size:5 final size:5
Alignment explanation
Indices: 937594--937666 Score: 51
Period size: 5 Copynumber: 13.6 Consensus size: 5
937584 TTTTCTCTTC
* *
937594 ATTTT ATTTT -TATT -TTTT AATTT ATTTTT ATTTTGT ATTTT GCATTTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT A-TTTT A-TTT-T ATTTT --A-TTTT
937643 ATTTT ATTTT ATTTT ATTATT ATT
1 ATTTT ATTTT ATTTT ATT-TT ATT
937667 ATTTTATATA
Statistics
Matches: 57, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
4 6 0.11
5 27 0.47
6 17 0.30
7 3 0.05
8 4 0.07
ACGTcount: A:0.21, C:0.01, G:0.03, T:0.75
Consensus pattern (5 bp):
ATTTT
Found at i:937765 original size:3 final size:3
Alignment explanation
Indices: 937757--937799 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
937747 GTATATATCT
937757 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
937800 TTTTTTCTTC
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:938765 original size:4 final size:4
Alignment explanation
Indices: 938751--938793 Score: 59
Period size: 4 Copynumber: 10.8 Consensus size: 4
938741 TTTAATTATT
* * *
938751 TTTA ATTA TTTA TTTA TTTA TTTG TTTT TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
938794 TATTAGATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:938766 original size:12 final size:12
Alignment explanation
Indices: 938741--938790 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
938731 AGGTTTTTTT
938741 TTTAATTA-TT-
1 TTTAATTATTTA
938751 TTTAATTATTTA
1 TTTAATTATTTA
* *
938763 TTTATTTATTTG
1 TTTAATTATTTA
**
938775 TTTTTTTATTTA
1 TTTAATTATTTA
938787 TTTA
1 TTTA
938791 TTTTATTAGA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
10 8 0.24
11 2 0.06
12 23 0.70
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (12 bp):
TTTAATTATTTA
Found at i:938836 original size:27 final size:27
Alignment explanation
Indices: 938806--938872 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 27
938796 TTAGATTAGG
938806 TTTATTTAATATTCTTT-TTAT-CTTTAT
1 TTTATTT-ATATT-TTTGTTATACTTTAT
* *
938833 TTTATTTTTATTTTTGTTTTACTTTAT
1 TTTATTTATATTTTTGTTATACTTTAT
938860 TTTATTT-TATTTT
1 TTTATTTATATTTT
938873 ATTTTAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
25 3 0.08
26 13 0.36
27 20 0.56
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.76
Consensus pattern (27 bp):
TTTATTTATATTTTTGTTATACTTTAT
Found at i:938838 original size:5 final size:5
Alignment explanation
Indices: 938821--938891 Score: 79
Period size: 5 Copynumber: 13.4 Consensus size: 5
938811 TTAATATTCT
* *
938821 TTTTA TCTTTA TTTTA TTTTTA TTTTTG TTTTA CTTTA TTTTA TTTTA
1 TTTTA T-TTTA TTTTA -TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA
*
938869 TTTTA TTTTAA TTTTG TTTTA TT
1 TTTTA TTTT-A TTTTA TTTTA TT
938892 ATTCTATTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
5 37 0.65
6 20 0.35
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:939129 original size:58 final size:57
Alignment explanation
Indices: 938919--939364 Score: 464
Period size: 58 Copynumber: 7.7 Consensus size: 57
938909 TAAAAATAAA
938919 AAAAAATATTTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATGAAA-TTTC
1 AAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTTC
* * **
938976 AAAAAAAAGGTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTCCC
1 --AAAAAA---TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTTC
* *
939040 AAAAAATATTTTTGAGAAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* * * * * *
939097 -AAAAATGGGTTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTCGAAAATTAAAGTTTCC
1 AAAAAAT--ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT-TAAAAATAAA-TTTTC
* *
939157 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAGTTTCC
1 -AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTTC
939217 AAAAAATA-TTTT-AGGAAAAAGTTGAAAGTATCAATTTT-CTTAAAAATAAATTTTC
1 AAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* ** *
939272 AAAAAATAAATTTTTGAGGAAAAGTTAAAAGTA-CAATTTTCC-TCGAAATAAAGTTTC
1 AAAAAAT--ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* *
939329 AAAGAAT-TTTTT--GGAAAAGCTGAAAGTATCAATTTT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
939365 GACAAAAAAC
Statistics
Matches: 335, Mismatches: 32, Indels: 46
0.81 0.08 0.11
Matches are distributed among these distances:
52 14 0.04
53 7 0.02
54 5 0.01
55 11 0.03
56 9 0.03
57 40 0.12
58 79 0.24
59 68 0.20
60 45 0.13
61 6 0.02
62 49 0.15
64 2 0.01
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.35
Consensus pattern (57 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
Found at i:940057 original size:61 final size:59
Alignment explanation
Indices: 939927--940058 Score: 169
Period size: 59 Copynumber: 2.2 Consensus size: 59
939917 AGGTATTTTT
* * *
939927 ATAATTATGGTAGGATGGATATAATAGTAATTTATCAATTATGAAAGGAAAGTATTTTC
1 ATAATTATGGTAGGATGGACATAATAGTAATTTATCAATTATGAAAAGAAAGTATTTCC
* *
939986 ATAATTATGGTAGGAT-GACATTATAGTAATTTTGATCAATTAT-AAAAGAAGGGATATTTCC
1 ATAATTATGGTAGGATGGACATAATAGTAA-TTT-ATCAATTATGAAAAGAA-AG-TATTTCC
940047 ATAATTATGGTA
1 ATAATTATGGTA
940059 TCAGGGTATT
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
58 11 0.17
59 25 0.39
60 10 0.16
61 18 0.28
ACGTcount: A:0.40, C:0.05, G:0.18, T:0.37
Consensus pattern (59 bp):
ATAATTATGGTAGGATGGACATAATAGTAATTTATCAATTATGAAAAGAAAGTATTTCC
Found at i:940070 original size:61 final size:58
Alignment explanation
Indices: 939927--940075 Score: 165
Period size: 61 Copynumber: 2.5 Consensus size: 58
939917 AGGTATTTTT
* * *
939927 ATAATTATGGTAGGATGGATATAATAGTAATTTATCAATTATGAAAGGAAAGTATTTTC
1 ATAATTATGGTAGGA-GGATATTATAGTAATTTATCAATTATGAAAAGAAAGTATTTCC
* * *
939986 ATAATTATGGTAGGATGACATTATAGTAATTTTGATCAATTAT-AAAAGAAGGGATATTTCC
1 ATAATTATGGTAGGAGGATATTATAGTAA-TTT-ATCAATTATGAAAAGAA-AG-TATTTCC
** *
940047 ATAATTATGGTATCAGGGTATTATAGTAA
1 ATAATTATGGTAGGAGGATATTATAGTAA
940076 ATAATTATAA
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
58 11 0.15
59 24 0.32
60 10 0.13
61 30 0.40
ACGTcount: A:0.40, C:0.05, G:0.19, T:0.37
Consensus pattern (58 bp):
ATAATTATGGTAGGAGGATATTATAGTAATTTATCAATTATGAAAAGAAAGTATTTCC
Found at i:940718 original size:130 final size:129
Alignment explanation
Indices: 940323--940720 Score: 448
Period size: 129 Copynumber: 3.1 Consensus size: 129
940313 TAGAAATGGT
* * * * *
940323 ATTATTATGGTAAATAATTATAAGAAAAAATGGTGTTTTCAAAATTATGATATGATGGCATAATA
1 ATTATT-TAGTAAATAATTATAAG-AGAAATGGTATTTTCATAATTATGATATGAAGGCATAATA
* * * * * *
940388 GTCAATCTAGTCACGTATCAATTTCTTATCAAATAATGAAAATGACATTTTGATAAATTT-TTAA
64 GTCAATTTAGTCATGTGTCAATTTCTTATC-ATTAATGAAAAAGGCATTTTGAT-AATTTCTTAA
*
940452 GAG
127 GAA
* * ** *
940455 ATTATTTAATAAATAATTATAAGAGGAGGGGTATTTT-GTAATTATGATATGAAGGCATAATAGT
1 ATTATTTAGTAAATAATTATAAGAGAAATGGTATTTTCATAATTATGATATGAAGGCATAATAGT
* *
940519 CAATTTAGTCATGTGTCAATTTCTTATCATATAATTGAAAGA-GCATTTTGATAAATTCTTAA-A
66 CAATTTAGTCATGTGTCAATTTCTTATCAT-TAA-TGAAAAAGGCATTTTGATAATTTCTTAAGA
940582 A
129 A
* *
940583 GATTATTTAGTAAATAATTATAAGAGAATTGGTATTTTCATAATTATGGTAT-AAGGACATAATA
1 -ATTATTTAGTAAATAATTATAAGAGAAATGGTATTTTCATAATTATGATATGAAGG-CATAATA
* * *
940647 GTCAATTTA-TCAATGTGTCATTTTCTTATCAGTTAATGAAAAAGGCATTTTGATTATTTCGTAA
64 GTCAATTTAGTC-ATGTGTCAATTTCTTATCA-TTAATGAAAAAGGCATTTTGATAATTTCTTAA
940711 GAA
127 GAA
940714 ATTATTT
1 ATTATTT
940721 TCATGAATTG
Statistics
Matches: 226, Mismatches: 30, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
128 6 0.03
129 110 0.49
130 86 0.38
131 18 0.08
132 6 0.03
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (129 bp):
ATTATTTAGTAAATAATTATAAGAGAAATGGTATTTTCATAATTATGATATGAAGGCATAATAGT
CAATTTAGTCATGTGTCAATTTCTTATCATTAATGAAAAAGGCATTTTGATAATTTCTTAAGAA
Found at i:944497 original size:18 final size:19
Alignment explanation
Indices: 944470--944507 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
944460 TTGATAAAAA
944470 TAAAAATAAAA-TTAGGTT
1 TAAAAATAAAATTTAGGTT
*
944488 TAAAATTAAAATTTAGGTT
1 TAAAAATAAAATTTAGGTT
944507 T
1 T
944508 CATTTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (19 bp):
TAAAAATAAAATTTAGGTT
Found at i:944542 original size:28 final size:28
Alignment explanation
Indices: 944510--944566 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
944500 TTAGGTTTCA
*
944510 TTTATTTTCAGGCTTTTAAGATAGATTC
1 TTTATTTTCAGGCCTTTAAGATAGATTC
* *
944538 TTTATTTTTAGGCCTTTAAGATGGATTC
1 TTTATTTTCAGGCCTTTAAGATAGATTC
944566 T
1 T
944567 AGGTCTTGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.23, C:0.11, G:0.16, T:0.51
Consensus pattern (28 bp):
TTTATTTTCAGGCCTTTAAGATAGATTC
Found at i:944923 original size:18 final size:18
Alignment explanation
Indices: 944878--944923 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
944868 GGTTTTTCAA
* *
944878 ATTTTTTTTT-GTTTTTT
1 ATTTTTTTTTAGGTTTTG
*
944895 ATTATTTTTTAGGTTTTG
1 ATTTTTTTTTAGGTTTTG
944913 ATTTTTTTTTA
1 ATTTTTTTTTA
944924 ATAAATTTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.13, C:0.00, G:0.09, T:0.78
Consensus pattern (18 bp):
ATTTTTTTTTAGGTTTTG
Found at i:945019 original size:46 final size:45
Alignment explanation
Indices: 944923--945158 Score: 307
Period size: 45 Copynumber: 5.2 Consensus size: 45
944913 ATTTTTTTTT
* * *
944923 AATAAATTTGAAAACTTC-TTTAGGAAAAGGCTCAATAATTTTCAA
1 AATAAATTT-AAAAGTTCATTTAGGTAAAGGCTCAATAATTTTGAA
* *
944968 AATAAATTTAAAAGTTGC-TTTAGGTAAAAGCTCAACAACTTTTGAA
1 AATAAATTTAAAAGTT-CATTTAGGTAAAGGCTCAATAA-TTTTGAA
*
945014 AATAAATTTAAAAGTTCATTTAGGTAAAGGCTCAATAATTTTAAA
1 AATAAATTTAAAAGTTCATTTAGGTAAAGGCTCAATAATTTTGAA
* *
945059 AATAAATTTAAAAGCTCATTTAGGTAAAGGTTCAATAATTTTTGAA
1 AATAAATTTAAAAGTTCATTTAGGTAAAGGCTCAATAA-TTTTGAA
* * *
945105 AATAAATTTAAAAGTTCATTTAGGTGAAGGC-AAACAACTTTTGAA
1 AATAAATTTAAAAGTTCATTTAGGTAAAGGCTCAATAA-TTTTGAA
945150 AATAAATTT
1 AATAAATTT
945159 CATCTTGGAT
Statistics
Matches: 170, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
44 6 0.04
45 90 0.53
46 74 0.44
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.34
Consensus pattern (45 bp):
AATAAATTTAAAAGTTCATTTAGGTAAAGGCTCAATAATTTTGAA
Found at i:945043 original size:91 final size:91
Alignment explanation
Indices: 944923--945158 Score: 316
Period size: 91 Copynumber: 2.6 Consensus size: 91
944913 ATTTTTTTTT
* * * *
944923 AATAAATTTGAAAACTTC-TTTAGGAAAAGGCTCAATAATTTTCAAAATAAATTTAAAAGTTGC-
1 AATAAATTT-AAAAGTTCATTTAGGTAAAGGCTCAATAATTTTAAAAATAAATTTAAAAGCT-CA
944986 TTTAGGTAAAAGCTCAACAACTTTTGAA
64 TTTAGGTAAAAGCTCAACAACTTTTGAA
945014 AATAAATTTAAAAGTTCATTTAGGTAAAGGCTCAATAATTTTAAAAATAAATTTAAAAGCTCATT
1 AATAAATTTAAAAGTTCATTTAGGTAAAGGCTCAATAATTTTAAAAATAAATTTAAAAGCTCATT
* * * *
945079 TAGGTAAAGGTTCAATAATTTTTGAA
66 TAGGTAAAAGCTCAACAACTTTTGAA
* * * *
945105 AATAAATTTAAAAGTTCATTTAGGTGAAGGC-AAACAACTTTTGAAAATAAATTT
1 AATAAATTTAAAAGTTCATTTAGGTAAAGGCTCAATAA-TTTTAAAAATAAATTT
945159 CATCTTGGAT
Statistics
Matches: 130, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
90 12 0.09
91 118 0.91
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.34
Consensus pattern (91 bp):
AATAAATTTAAAAGTTCATTTAGGTAAAGGCTCAATAATTTTAAAAATAAATTTAAAAGCTCATT
TAGGTAAAAGCTCAACAACTTTTGAA
Found at i:945373 original size:96 final size:97
Alignment explanation
Indices: 945270--945474 Score: 220
Period size: 96 Copynumber: 2.1 Consensus size: 97
945260 CTAAATTGGG
* * *
945270 TTAAATCTCATTGA-TTCTAACTAAACTAGGGTTACAATCTTATATAGGTACCAACTAAACTGAA
1 TTAAATCTCATTCAGTACTAACTAAACTAGGCTTACAATCTTATATAGGTACCAACTAAACTGAA
* *
945334 CTTAAATCTTATC-GATGCTAGCTAAACT-GAGC
66 CTTAAATCTTATCAG-TACCAGCTAAACTGGA-C
* ** * * * ** * *
945366 TTAAATCTTA-TCAGTACTAGTTAAATTAGGCTTATAATCTTATTTAGGTGTCAACTAAATTGGA
1 TTAAATCTCATTCAGTACTAACTAAACTAGGCTTACAATCTTATATAGGTACCAACTAAACTGAA
945430 CTTAAATCTTATCAGTACCAGCTAAACTGGAC
66 CTTAAATCTTATCAGTACCAGCTAAACTGGAC
945462 TTAAAATCTCATT
1 TT-AAATCTCATT
945475 TGTTCGGGTT
Statistics
Matches: 88, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
95 2 0.02
96 75 0.85
97 10 0.11
98 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (97 bp):
TTAAATCTCATTCAGTACTAACTAAACTAGGCTTACAATCTTATATAGGTACCAACTAAACTGAA
CTTAAATCTTATCAGTACCAGCTAAACTGGAC
Done.