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 75 of 125
Found at i:15067654 original size:64 final size:61
Alignment explanation
Indices: 15067180--15067656 Score: 258
Period size: 64 Copynumber: 7.9 Consensus size: 61
15067170 TCTTTATTTT
* * *
15067180 TTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATAT-ATCCTTTGTTTGAAAA
1 TTATTTTCAAGGAAAATTGATACTTTTAACTTTTCCT-AAAAA-A-ATGAT--TTT-TTTAAAAA
*
15067244 TT
60 TA
* * ** * * ** *
15067246 TTATTTTCAAAGAATATTGATACTTCCAACTTTTTCTCAAAAGAAT--TTTTTTT-TTAATT
1 TTATTTTCAAGGAAAATTGATACTTTTAACTTTTCCT-AAAAAAATGATTTTTTTAAAAATA
** * * * * *
15067305 TTATTTTTCAAGGAAAATTGGCA-TTCTCAACTTTTCCT-TAAAAA-CA--TTTTTGACAAT-
1 TTA-TTTTCAAGGAAAATTGATACTT-TTAACTTTTCCTAAAAAAATGATTTTTTTAAAAATA
* * * * *
15067362 TTAATTTTCAAGAAAAATT-A-ACATTTTCAACTTTTTCT-TAAAAAT-ATTTTTTAAAAAATT
1 TT-ATTTTCAAGGAAAATTGATAC-TTTT-AACTTTTCCTAAAAAAATGATTTTTTTAAAAATA
* * * * * *** *
15067422 TTACTTCCAAGGAAAATTGATACTTTCAATTTTTCTTTGCAAAATG-TTTTTTT-----TT
1 TTATTTTCAAGGAAAATTGATACTTTTAACTTTTCCTAAAAAAATGATTTTTTTAAAAATA
* * * *
15067477 TTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAAAAAT-ATTTTTTTGAAATTT
1 TTATTTTCAAGGAAAATTGATACTTTTAACTTTTCC-T-AAAAAAATGATTTTTTTAAAAATA
* * * *
15067539 TTATTTTCAAGAAAAATTGATACTTTTAACTTTTCCTTAAAAATTGCTTTTTTCTAAAAAAATA
1 TTATTTTCAAGGAAAATTGATACTTTTAACTTTTCCTAAAAAAATGATTTTTT-T--AAAAATA
* *
15067603 TTATTTTCAAGGAAAATTGATACTTTTAACTTTTCCTCAAAAAATGGTTTTTTT
1 TTATTTTCAAGGAAAATTGATACTTTTAACTTTTCCTAAAAAAATGATTTTTTT
15067657 TTTAATTTTA
Statistics
Matches: 328, Mismatches: 54, Indels: 61
0.74 0.12 0.14
Matches are distributed among these distances:
55 35 0.11
56 2 0.01
57 51 0.16
58 8 0.02
59 37 0.11
60 51 0.16
61 12 0.04
62 37 0.11
63 2 0.01
64 55 0.17
65 1 0.00
66 37 0.11
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (61 bp):
TTATTTTCAAGGAAAATTGATACTTTTAACTTTTCCTAAAAAAATGATTTTTTTAAAAATA
Found at i:15067717 original size:23 final size:22
Alignment explanation
Indices: 15067691--15067739 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
15067681 CATTGAAAAT
*
15067691 TAAAGAATGTTTAATTAAATAAA
1 TAAAGAAT-TTCAATTAAATAAA
** *
15067714 TAAATTATTTCAATTTAATAAA
1 TAAAGAATTTCAATTAAATAAA
15067736 TAAA
1 TAAA
15067740 TAAGTAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (22 bp):
TAAAGAATTTCAATTAAATAAA
Found at i:15085414 original size:34 final size:34
Alignment explanation
Indices: 15085376--15085454 Score: 97
Period size: 34 Copynumber: 2.3 Consensus size: 34
15085366 TCAATACCAC
* * *
15085376 TCATTTAATTTTTTCACTTGTAGTTTAG-TCTCAG
1 TCATTTTATTTTTTCACTTATAGTTTAGCCCT-AG
* *
15085410 TCATTTTATTTTTTGATTTATAGTTTAGCCCTAG
1 TCATTTTATTTTTTCACTTATAGTTTAGCCCTAG
15085444 TCATTTTATTT
1 TCATTTTATTT
15085455 CCTAACTTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
34 37 0.95
35 2 0.05
ACGTcount: A:0.20, C:0.13, G:0.10, T:0.57
Consensus pattern (34 bp):
TCATTTTATTTTTTCACTTATAGTTTAGCCCTAG
Found at i:15096350 original size:8 final size:8
Alignment explanation
Indices: 15096333--15096368 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
15096323 ATGGGAATTG
15096333 AAAAAA-A
1 AAAAAAGA
15096340 AAAAAAGA
1 AAAAAAGA
15096348 AAAAAAGA
1 AAAAAAGA
*
15096356 AAGAAAGA
1 AAAAAAGA
15096364 AAAAA
1 AAAAA
15096369 GTCAAGCTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:15096437 original size:13 final size:12
Alignment explanation
Indices: 15096404--15096437 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
15096394 AAAAGGTGTG
15096404 AAAAAAAAAAGA
1 AAAAAAAAAAGA
15096416 AGAAAAAAAAAGA
1 A-AAAAAAAAAGA
*
15096429 AAAACAAAA
1 AAAAAAAAA
15096438 GCAATAAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAGA
Found at i:15100049 original size:21 final size:19
Alignment explanation
Indices: 15100025--15100063 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
15100015 TTTTCTTTAC
15100025 TTTGATTTTAGTTTATTCAAA
1 TTTGATTTTA-TTT-TTCAAA
15100046 TTTGATTTTATTTTTCAA
1 TTTGATTTTATTTTTCAA
15100064 GATGGTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 3 0.17
21 10 0.56
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.62
Consensus pattern (19 bp):
TTTGATTTTATTTTTCAAA
Found at i:15100533 original size:21 final size:21
Alignment explanation
Indices: 15100499--15100538 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
15100489 GATTATGTTA
*
15100499 TTGCACGTTGTTAAGTTTAAT
1 TTGCACGTTCTTAAGTTTAAT
*
15100520 TTGCATGTTCTTAAGTTTA
1 TTGCACGTTCTTAAGTTTA
15100539 TTAGGTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.10, G:0.17, T:0.50
Consensus pattern (21 bp):
TTGCACGTTCTTAAGTTTAAT
Found at i:15100889 original size:34 final size:34
Alignment explanation
Indices: 15100851--15100984 Score: 112
Period size: 34 Copynumber: 4.0 Consensus size: 34
15100841 TCATTTTCCC
* *
15100851 ACTTGTGGTTTAGTCTTGATCATTTCATTTTTTG
1 ACTTGTGGTTCAGTCTTGGTCATTTCATTTTTTG
* * * *
15100885 ACTTGTGATTCAGT-TTGGGCCATTCCATTTCTT-
1 ACTTGTGGTTCAGTCTT-GGTCATTTCATTTTTTG
* *
15100918 ACTTGTAGTTCAGTCTTGGTCACTTT-ATTTTTCG
1 ACTTGTGGTTCAGTCTTGGTCA-TTTCATTTTTTG
* * * * *
15100952 ACTTATGGTTTATTCTCGGTCATTTTATTTTTT
1 ACTTGTGGTTCAGTCTTGGTCATTTCATTTTTT
15100985 AATTTATAGT
Statistics
Matches: 77, Mismatches: 18, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
33 26 0.34
34 51 0.66
ACGTcount: A:0.15, C:0.16, G:0.16, T:0.53
Consensus pattern (34 bp):
ACTTGTGGTTCAGTCTTGGTCATTTCATTTTTTG
Found at i:15101728 original size:9 final size:8
Alignment explanation
Indices: 15101693--15101741 Score: 55
Period size: 8 Copynumber: 6.0 Consensus size: 8
15101683 AAAACATTGG
15101693 AAAATAAA
1 AAAATAAA
*
15101701 AGAAATTAA
1 A-AAATAAA
*
15101710 AAAATCAA
1 AAAATAAA
15101718 AAAAT-AA
1 AAAATAAA
15101725 AAAATAAA
1 AAAATAAA
15101733 AATAATAAA
1 AA-AATAAA
15101742 CTTAATTTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
7 7 0.19
8 16 0.44
9 13 0.36
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (8 bp):
AAAATAAA
Found at i:15101739 original size:16 final size:15
Alignment explanation
Indices: 15101693--15101741 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 15
15101683 AAAACATTGG
15101693 AAAATAAAAGAAATTAA
1 AAAATAAAA-AAA-TAA
*
15101710 AAAATCAAAAAATAA
1 AAAATAAAAAAATAA
15101725 AAAATAAAAATAATAA
1 AAAATAAAAA-AATAA
15101741 A
1 A
15101742 CTTAATTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 12 0.41
16 9 0.31
17 8 0.28
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (15 bp):
AAAATAAAAAAATAA
Found at i:15102255 original size:22 final size:22
Alignment explanation
Indices: 15102230--15102275 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
15102220 AACCTTTTTT
*
15102230 AAAATATTTTAGAA-ATTTCAAA
1 AAAAAATTTT-GAATATTTCAAA
*
15102252 AAAAAATTTTGAATTTTTCAAA
1 AAAAAATTTTGAATATTTCAAA
15102274 AA
1 AA
15102276 TTTTTAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.14
22 18 0.86
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.37
Consensus pattern (22 bp):
AAAAAATTTTGAATATTTCAAA
Found at i:15103335 original size:188 final size:184
Alignment explanation
Indices: 15103124--15103487 Score: 434
Period size: 188 Copynumber: 2.0 Consensus size: 184
15103114 AGCAGATGAA
* * *
15103124 AATTTTTCCAAAGATGAAATTCTAACGATTTGCAAACGAATAATTTCTTAGAAATTTCTAAGTAA
1 AATTATTCCAAAGATGAAATTCTAACGAATTGCAAACGAATAATTTCTTAAAAATTT-TAAGTAA
* *
15103189 GAAA-ATTTCTAAAAGTATCTCC-AATGGTGAAAATTTTA-GAAAATTTTCAA-AAACAATAATT
65 GAAATATTTCTAAAAGTA-CCCCAAATGGTGAAAATTTTAGGAAAA-TTTCAATAAA-AACAA-T
* * *
15103250 GACAT-TTTATTTTCAAACAAACAATAAATAAAATGTAAATTTAATAAAATTTTTTAAATTGT
126 -AAATATTAATTTTCAAACAAAAAATAAATAAAA--T-AATTTAATAAAATTTTTTAAATTGT
* * * * ** *
15103312 AATTATTCC-AAGAATGAAATTCTAAGGAATTGCAAATGATTACTTTCTTAAAAATTTTACTTTA
1 AATTATTCCAAAG-ATGAAATTCTAACGAATTGCAAACGAATAATTTCTTAAAAATTTTAAGTAA
* *
15103376 GAAATTTTTTTAAAAGTACCCCAAATGGTGAAAATTTTAGGAAAATTTCAATAAAAACAATAAAT
65 GAAATATTTCTAAAAGTACCCCAAATGGTGAAAATTTTAGGAAAATTTCAATAAAAACAATAAAT
*
15103441 ATTAATTTTCAAACAAAAAATAAATAAAATAATTTTATAAAATTTTT
130 ATTAATTTTCAAACAAAAAATAAATAAAATAATTTAATAAAATTTTT
15103488 CAAACAACTG
Statistics
Matches: 152, Mismatches: 18, Indels: 16
0.82 0.10 0.09
Matches are distributed among these distances:
184 16 0.11
185 1 0.01
186 3 0.02
187 41 0.27
188 83 0.55
189 8 0.05
ACGTcount: A:0.47, C:0.09, G:0.08, T:0.36
Consensus pattern (184 bp):
AATTATTCCAAAGATGAAATTCTAACGAATTGCAAACGAATAATTTCTTAAAAATTTTAAGTAAG
AAATATTTCTAAAAGTACCCCAAATGGTGAAAATTTTAGGAAAATTTCAATAAAAACAATAAATA
TTAATTTTCAAACAAAAAATAAATAAAATAATTTAATAAAATTTTTTAAATTGT
Found at i:15106863 original size:23 final size:24
Alignment explanation
Indices: 15106828--15106873 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
15106818 TTAAAATAAA
* *
15106828 AATAATTACAAAATTC-TGGAAAT
1 AATAATTAAAAAAATCATGGAAAT
*
15106851 AATACTTAAAAAAATCATGGAAA
1 AATAATTAAAAAAATCATGGAAA
15106874 CAAAGATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.57, C:0.09, G:0.09, T:0.26
Consensus pattern (24 bp):
AATAATTAAAAAAATCATGGAAAT
Found at i:15107777 original size:2 final size:2
Alignment explanation
Indices: 15107770--15107807 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
15107760 TCACTTCCTT
15107770 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15107808 ATGAATGTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15107969 original size:220 final size:220
Alignment explanation
Indices: 15107587--15108011 Score: 724
Period size: 220 Copynumber: 1.9 Consensus size: 220
15107577 AGTTACATCA
* *
15107587 AATGAATGTAAAAACCGTTTTTCTAAATGAGAATTTAGATTAAGAAGTTTACATGGATCAATACG
1 AATGAATGTAAAAACCGCTTTTCTAAATGAGAATTTAGATGAAGAAGTTTACATGGATCAATACG
* *
15107652 AAGGTTTTTCAATTAAAGGAAAGGAACACATAATGTGTAAAATTAAAAAGTCAATGTACGAACTT
66 AAGGTTTTTCAATTAAAAGAAAGGAACACATAATGTGTAAAATTAAAAAGTCAATATACGAACTT
* * * *
15107717 AAACAAGCTTCCCGACATTAGTATCTTAAGTTCAATGATATTATCACTTCCTTTATATATATATA
131 AAACAAGCTTCCCAACAATAGTATCTTAAGTTCAATGATACTATCACTTACTTTATATATATATA
15107782 TATATATATATATATATATATATAT
196 TATATATATATATATATATATATAT
* *
15107807 AATGAATGTAAAAACTGCTTTTCTGAATGAGAATTTAGATGAAGAAGTTTACATGGATCAATACG
1 AATGAATGTAAAAACCGCTTTTCTAAATGAGAATTTAGATGAAGAAGTTTACATGGATCAATACG
* * *
15107872 AAGGTTTTTCAATTAAAAGAAAGGAACACATAGTGTGTAAAATTAGAATGTCAATATACGAACTT
66 AAGGTTTTTCAATTAAAAGAAAGGAACACATAATGTGTAAAATTAAAAAGTCAATATACGAACTT
*
15107937 AAACAAGCTTCCCAATAATAGTATCTTAAGTTCAATGATACTATCACTTACTTTATATATATATA
131 AAACAAGCTTCCCAACAATAGTATCTTAAGTTCAATGATACTATCACTTACTTTATATATATATA
15108002 TATATATATA
196 TATATATATA
15108012 AAGGTCAACT
Statistics
Matches: 191, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
220 191 1.00
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (220 bp):
AATGAATGTAAAAACCGCTTTTCTAAATGAGAATTTAGATGAAGAAGTTTACATGGATCAATACG
AAGGTTTTTCAATTAAAAGAAAGGAACACATAATGTGTAAAATTAAAAAGTCAATATACGAACTT
AAACAAGCTTCCCAACAATAGTATCTTAAGTTCAATGATACTATCACTTACTTTATATATATATA
TATATATATATATATATATATATAT
Found at i:15124438 original size:16 final size:16
Alignment explanation
Indices: 15124414--15124444 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15124404 TCAAACTTTA
15124414 TTAAACAAAATCAATC
1 TTAAACAAAATCAATC
*
15124430 TTAATCAAAATCAAT
1 TTAAACAAAATCAAT
15124445 TAAATTTAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (16 bp):
TTAAACAAAATCAATC
Found at i:15126424 original size:3 final size:3
Alignment explanation
Indices: 15126416--15126476 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
15126406 TTGTGATGCA
15126416 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
15126464 TAT TAT TAT TAT T
1 TAT TAT TAT TAT T
15126477 CTTGTAGACA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:15126566 original size:21 final size:21
Alignment explanation
Indices: 15126542--15126581 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
15126532 AGTATTTTTG
*
15126542 TTATAGTATAGCATGTTATTA
1 TTATAGTATAACATGTTATTA
*
15126563 TTATAGTATAATATGTTAT
1 TTATAGTATAACATGTTAT
15126582 AATATAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.12, T:0.50
Consensus pattern (21 bp):
TTATAGTATAACATGTTATTA
Found at i:15126610 original size:3 final size:3
Alignment explanation
Indices: 15126602--15126752 Score: 86
Period size: 3 Copynumber: 51.7 Consensus size: 3
15126592 TATCATATAG
* *
15126602 TAT TAT TAT T-T GTAT TAT TA- TAGT AAT TA- TAT TAT ACAT TA- TAT
1 TAT TAT TAT TAT -TAT TAT TAT TA-T TAT TAT TAT TAT -TAT TAT TAT
* * * * * *
15126646 TAT TAT TAT TAT T-G TAG TCT GA- TAT TAT TAT TAT CAT TA- TAC TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
15126690 TATT TAT TA- TAC TAT AAT ATAT CAG TAT TAT TAT TAT TAT TAT TAT
1 TA-T TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
15126736 TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
15126753 GTTTTAATTT
Statistics
Matches: 115, Mismatches: 19, Indels: 28
0.71 0.12 0.17
Matches are distributed among these distances:
2 15 0.13
3 92 0.80
4 8 0.07
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:15126630 original size:12 final size:11
Alignment explanation
Indices: 15126558--15126747 Score: 54
Period size: 12 Copynumber: 16.8 Consensus size: 11
15126548 TATAGCATGT
15126558 TATTATTATAG
1 TATTATTATAG
*
15126569 TA-TAATAT-G
1 TATTATTATAG
* *
15126578 T-TATAATATAA
1 TAT-TATTATAG
15126589 TATTATCATATAG
1 TATTAT--TATAG
*
15126602 TATTATTATTTG
1 TATTATTA-TAG
15126614 TATTATTATAG
1 TATTATTATAG
15126625 TAATTATATTATA-
1 T-A-T-TATTATAG
* *
15126638 CATTA-TATTAT
1 TATTATTA-TAG
*
15126649 TATTATTATTG
1 TATTATTATAG
* * * *
15126660 TAGTCTGATAT
1 TATTATTATAG
*
15126671 TATTATTATCAT
1 TATTATTAT-AG
*
15126683 TA-TACTATA-
1 TATTATTATAG
*
15126692 T-TTATTATAC
1 TATTATTATAG
*
15126702 TATAATATATCAG
1 TATTAT-TAT-AG
*
15126715 TATTATTATTAT
1 TATTATTA-TAG
*
15126727 TATTATTATTAT
1 TATTATTA-TAG
15126739 TATTATTAT
1 TATTATTAT
15126748 TATTAGTTTT
Statistics
Matches: 135, Mismatches: 24, Indels: 40
0.68 0.12 0.20
Matches are distributed among these distances:
9 11 0.08
10 17 0.13
11 37 0.27
12 45 0.33
13 18 0.13
14 7 0.05
ACGTcount: A:0.37, C:0.04, G:0.05, T:0.55
Consensus pattern (11 bp):
TATTATTATAG
Found at i:15127607 original size:5 final size:5
Alignment explanation
Indices: 15127585--15127660 Score: 52
Period size: 5 Copynumber: 15.4 Consensus size: 5
15127575 AATCGCAAGG
* * **
15127585 TTTTC TTTT- TTTTCA TTTTA TTTTA TTTATC TTATTA TTTTA AGTT-
1 TTTTA TTTTA TTTT-A TTTTA TTTTA TTT-TA TT-TTA TTTTA TTTTA
*
15127631 TTTTA TTTTA TTTT- TATT- TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
15127661 GGTTTTTATT
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
4 12 0.21
5 34 0.60
6 10 0.18
7 1 0.02
ACGTcount: A:0.17, C:0.04, G:0.01, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:15127624 original size:22 final size:22
Alignment explanation
Indices: 15127599--15127656 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
15127589 CTTTTTTTTC
15127599 ATTTTATTTTATTTATCTTATT
1 ATTTTATTTTATTTATCTTATT
* *
15127621 ATTTTAAGTTT-TTTATTTTATT
1 ATTTT-ATTTTATTTATCTTATT
*
15127643 -TTTATTTTTTATTT
1 ATTT-TATTTTATTT
15127657 TATTGGTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
21 6 0.21
22 19 0.66
23 4 0.14
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.76
Consensus pattern (22 bp):
ATTTTATTTTATTTATCTTATT
Found at i:15134510 original size:115 final size:114
Alignment explanation
Indices: 15134304--15134543 Score: 252
Period size: 115 Copynumber: 2.1 Consensus size: 114
15134294 ATCATTCCAA
* * * * *
15134304 TCATTCATCTTTGACCTCAACTCGATCTTAGTCACTTTTATACTTATGACACTATCTCAGTCATC
1 TCATTCATCTATGACCTCAACTCAATCTTAGTCACTTTCAAACTTAAGACACTATCTCAGTCATC
* *
15134369 TGATCTTGGCTTAAACCAAATCATTTTTCTAACTCATGGTATCATCTTAG
66 TGATCTTGGCTCAAACCAAATCA-TTTTCGAACTCATGGTATCATCTTAG
* *
15134419 TCATTCATCTATGACCTCGACTCAATCTTGGTCACTTTCAAACTTACAG-CA-TCAT-TCTAGTC
1 TCATTCATCTATGACCTCAACTCAATCTTAGTCACTTTCAAACTTA-AGACACT-ATCTC-AGTC
*** * * * * * *
15134481 ATCTGATCTTGGCTCAATTTAGATTATTTTCGGACTCGTGGTATCATTTTGG
63 ATCTGATCTTGGCTCAAACCAAATCATTTTCGAACTCATGGTATCATCTTAG
*
15134533 TCAATCATCTA
1 TCATTCATCTA
15134544 CAACCTTAAC
Statistics
Matches: 103, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
114 34 0.33
115 68 0.66
116 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.12, T:0.40
Consensus pattern (114 bp):
TCATTCATCTATGACCTCAACTCAATCTTAGTCACTTTCAAACTTAAGACACTATCTCAGTCATC
TGATCTTGGCTCAAACCAAATCATTTTCGAACTCATGGTATCATCTTAG
Found at i:15135113 original size:21 final size:20
Alignment explanation
Indices: 15135089--15135138 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
15135079 AGTATTTTTG
*
15135089 TTATAATATAGCATGTTATTA
1 TTATAATATAACATGTTA-TA
*
15135110 TTATAATATAATATGTTATA
1 TTATAATATAACATGTTATA
*
15135130 ATATAATAT
1 TTATAATAT
15135139 TATAATATAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 10 0.38
21 16 0.62
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (20 bp):
TTATAATATAACATGTTATA
Found at i:15135143 original size:13 final size:13
Alignment explanation
Indices: 15135108--15135154 Score: 67
Period size: 13 Copynumber: 3.5 Consensus size: 13
15135098 AGCATGTTAT
15135108 TATTATAATATAA
1 TATTATAATATAA
15135121 TATGTTATAATATAA
1 TA--TTATAATATAA
*
15135136 TATTATAATATAG
1 TATTATAATATAA
15135149 TATTAT
1 TATTAT
15135155 TATTAGTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 18 0.58
15 13 0.42
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (13 bp):
TATTATAATATAA
Found at i:15135157 original size:3 final size:3
Alignment explanation
Indices: 15135149--15135308 Score: 57
Period size: 3 Copynumber: 54.7 Consensus size: 3
15135139 TATAATATAG
* * * * *
15135149 TAT TAT TAT TAG TAT TAT TA- TAGT AAT TA- TAT TGT ATAA TGT TA-
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT -TAT TAT TAT
* * * *
15135193 TAT TAT TAT TAT T-G TAG TAT GA- TAT TAT TAT TAT TAT TCT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
** * * * * * * *
15135239 TAT CGT TA- TAC TA- TAT T-T TCT ATAC TAT AAT ATAT CAA TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT TAT TAT TAT
*
15135283 TAT TAT TAT TAT TAT TAG TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
15135309 ATTTTGTCTT
Statistics
Matches: 113, Mismatches: 32, Indels: 24
0.67 0.19 0.14
Matches are distributed among these distances:
2 14 0.12
3 94 0.83
4 5 0.04
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.56
Consensus pattern (3 bp):
TAT
Found at i:15136169 original size:5 final size:5
Alignment explanation
Indices: 15136156--15136251 Score: 63
Period size: 5 Copynumber: 18.4 Consensus size: 5
15136146 CCTTTTTCTT
*
15136156 TTTTCA TTTTA TTTTCCA ATTTTA TTTTA TTTTA -TTTA TTTTA TTTATC
1 TTTT-A TTTTA TTTT--A -TTTTA TTTTA TTTTA TTTTA TTTTA TTT-TA
** * *
15136205 TTATTA TTTTA CGTT- TTTTA TTTTA TTCTCA GTTT- TTTTA TTTTA TT
1 TT-TTA TTTTA TTTTA TTTTA TTTTA TT-TTA TTTTA TTTTA TTTTA TT
15136252 GGTTTTTATT
Statistics
Matches: 71, Mismatches: 10, Indels: 19
0.71 0.10 0.19
Matches are distributed among these distances:
4 9 0.13
5 42 0.59
6 14 0.20
7 2 0.03
8 4 0.06
ACGTcount: A:0.19, C:0.07, G:0.02, T:0.72
Consensus pattern (5 bp):
TTTTA
Found at i:15136195 original size:9 final size:9
Alignment explanation
Indices: 15136174--15136215 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
15136164 TTATTTTCCA
15136174 ATTTTATTTT
1 ATTTTA-TTT
15136184 ATTTTATTT
1 ATTTTATTT
15136193 ATTTTATTT
1 ATTTTATTT
*
15136202 ATCTTA-TT
1 ATTTTATTT
15136210 ATTTTA
1 ATTTTA
15136216 CGTTTTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 7 0.23
9 17 0.57
10 6 0.20
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (9 bp):
ATTTTATTT
Found at i:15136195 original size:14 final size:14
Alignment explanation
Indices: 15136176--15136266 Score: 59
Period size: 14 Copynumber: 6.5 Consensus size: 14
15136166 ATTTTCCAAT
15136176 TTTATTTTATTTTA
1 TTTATTTTATTTTA
15136190 TTTATTTTA-TTTA
1 TTTATTTTATTTTA
15136203 TCTTA--TTATTTTA
1 T-TTATTTTATTTTA
*
15136216 CGTT-TTTTATTTTA
1 -TTTATTTTATTTTA
*
15136230 TTCTCAGTTT-TTTTA
1 TT-T-ATTTTATTTTA
*
15136245 TTTTATTGGT-TTTTA
1 -TTTATT-TTATTTTA
15136260 TTTATTT
1 TTTATTT
15136267 AGTAATTCAA
Statistics
Matches: 61, Mismatches: 6, Indels: 21
0.69 0.07 0.24
Matches are distributed among these distances:
12 3 0.05
13 12 0.20
14 29 0.48
15 12 0.20
16 5 0.08
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.74
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:15138691 original size:17 final size:17
Alignment explanation
Indices: 15138669--15138755 Score: 57
Period size: 17 Copynumber: 5.6 Consensus size: 17
15138659 AAAGACTGGA
15138669 TTTAATTTTGATT-TATG
1 TTTAATTTT-ATTATATG
*
15138686 TTTAATTTTTTTATATG
1 TTTAATTTTATTATATG
*
15138703 TTTAAGTTTA--AT-T-
1 TTTAATTTTATTATATG
*
15138716 CTTAA---T-TTATATG
1 TTTAATTTTATTATATG
*
15138729 TTTAATTTTTTTATATG
1 TTTAATTTTATTATATG
*
15138746 TTTAAGTTTA
1 TTTAATTTTA
15138756 ATTCTTGATT
Statistics
Matches: 54, Mismatches: 7, Indels: 18
0.68 0.09 0.23
Matches are distributed among these distances:
10 1 0.02
11 2 0.04
12 1 0.02
13 8 0.15
14 1 0.02
15 2 0.04
16 3 0.06
17 36 0.67
ACGTcount: A:0.26, C:0.01, G:0.08, T:0.64
Consensus pattern (17 bp):
TTTAATTTTATTATATG
Found at i:15138737 original size:43 final size:43
Alignment explanation
Indices: 15138682--15138776 Score: 181
Period size: 43 Copynumber: 2.2 Consensus size: 43
15138672 AATTTTGATT
15138682 TATGTTTAATTTTTTTATATGTTTAAGTTTAATTCTTAATTTA
1 TATGTTTAATTTTTTTATATGTTTAAGTTTAATTCTTAATTTA
*
15138725 TATGTTTAATTTTTTTATATGTTTAAGTTTAATTCTTGATTTA
1 TATGTTTAATTTTTTTATATGTTTAAGTTTAATTCTTAATTTA
15138768 TATGTTTAA
1 TATGTTTAA
15138777 GTTCTTGCGT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.62
Consensus pattern (43 bp):
TATGTTTAATTTTTTTATATGTTTAAGTTTAATTCTTAATTTA
Found at i:15139396 original size:22 final size:22
Alignment explanation
Indices: 15139370--15139413 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
15139360 TGTATATTTA
*
15139370 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
15139392 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
15139414 GAAGATTTAG
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:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:15139649 original size:25 final size:24
Alignment explanation
Indices: 15139604--15139657 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
15139594 TTGCTAACTT
* *
15139604 TTTTAGGCCTTCATTGCCGAATCC
1 TTTTAGGCCTTCATTACCGAACCC
*
15139628 TGTTTAGGCCTTCATTATCGAACCC
1 T-TTTAGGCCTTCATTACCGAACCC
15139653 TTTTA
1 TTTTA
15139658 AAGAAAGATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.19, C:0.26, G:0.15, T:0.41
Consensus pattern (24 bp):
TTTTAGGCCTTCATTACCGAACCC
Found at i:15143323 original size:22 final size:22
Alignment explanation
Indices: 15143297--15143339 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
15143287 TGTATATTTA
*
15143297 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
15143319 TATTTGTATCCCTAGAATTAA
1 TATTTGTATCCCTAGAATTAA
15143340 AGAAGATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:15162087 original size:13 final size:13
Alignment explanation
Indices: 15162067--15162099 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
15162057 TACTTTATAT
15162067 TTTTAATTACA-A
1 TTTTAATTACATA
15162079 TTCTTAATTACATA
1 TT-TTAATTACATA
15162093 TTTTAAT
1 TTTTAAT
15162100 ATAATCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.11
13 14 0.74
14 3 0.16
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (13 bp):
TTTTAATTACATA
Found at i:15162808 original size:16 final size:16
Alignment explanation
Indices: 15162762--15162798 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
15162752 TAGGTTAATT
*
15162762 TTTCAAGCTATTTCAA
1 TTTCAAGCCATTTCAA
15162778 TTTCAAGCCATTTCAA
1 TTTCAAGCCATTTCAA
15162794 TTTCA
1 TTTCA
15162799 TCTCATTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.30, C:0.22, G:0.05, T:0.43
Consensus pattern (16 bp):
TTTCAAGCCATTTCAA
Found at i:15172938 original size:115 final size:115
Alignment explanation
Indices: 15172733--15172962 Score: 442
Period size: 115 Copynumber: 2.0 Consensus size: 115
15172723 ATGAAGCACC
15172733 TAGAAGAAAACATATGAAAATAGATACCCATATTTCTTTCAAGTTACAGAAAGAATCAAGAAAAT
1 TAGAAGAAAACATATGAAAATAGATACCCATATTTCTTTCAAGTTACAGAAAGAATCAAGAAAAT
15172798 TTACCTATCAGCAACCAATCACAGCAAAGAGAAATTCATAACAATCTAGT
66 TTACCTATCAGCAACCAATCACAGCAAAGAGAAATTCATAACAATCTAGT
*
15172848 TAGAAGAAAACATATGAAAATAGATACCCATATTTCTTTGAAGTTACAGAAAGAATCAAGAAAAT
1 TAGAAGAAAACATATGAAAATAGATACCCATATTTCTTTCAAGTTACAGAAAGAATCAAGAAAAT
*
15172913 TTACCTATCAGCAACCAATCGCAGCAAAGAGAAATTCATAACAATCTAGT
66 TTACCTATCAGCAACCAATCACAGCAAAGAGAAATTCATAACAATCTAGT
15172963 ACAATACCCT
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
115 113 1.00
ACGTcount: A:0.47, C:0.17, G:0.12, T:0.23
Consensus pattern (115 bp):
TAGAAGAAAACATATGAAAATAGATACCCATATTTCTTTCAAGTTACAGAAAGAATCAAGAAAAT
TTACCTATCAGCAACCAATCACAGCAAAGAGAAATTCATAACAATCTAGT
Found at i:15201429 original size:7 final size:7
Alignment explanation
Indices: 15201419--15201590 Score: 74
Period size: 7 Copynumber: 27.1 Consensus size: 7
15201409 TTTGGGTTCA
15201419 TTTAGGG
1 TTTAGGG
15201426 TTTAGGG
1 TTTAGGG
15201433 TTT--GG
1 TTTAGGG
*
15201438 TTTGGGG
1 TTTAGGG
*
15201445 TTTAAGG
1 TTTAGGG
15201452 TTT--GG
1 TTTAGGG
*
15201457 TTTAGGA
1 TTTAGGG
*
15201464 TTT--GT
1 TTTAGGG
15201469 TTTAGGG
1 TTTAGGG
15201476 TTTA--G
1 TTTAGGG
15201481 TTTAGGG
1 TTTAGGG
15201488 TTTAGGG
1 TTTAGGG
* *
15201495 CTT--GA
1 TTTAGGG
15201500 TTTAGGG
1 TTTAGGG
*
15201507 TTTAAGG
1 TTTAGGG
*
15201514 TTTAGAG
1 TTTAGGG
**
15201521 TTT-GTA
1 TTTAGGG
15201527 TTTAGGG
1 TTTAGGG
* *
15201534 TCTAAGG
1 TTTAGGG
*
15201541 TTT-GTG
1 TTTAGGG
*
15201547 TTTGGGG
1 TTTAGGG
*
15201554 TTTAAGG
1 TTTAGGG
*
15201561 TTCA---
1 TTTAGGG
15201565 TTTAGGG
1 TTTAGGG
15201572 TTT--GG
1 TTTAGGG
15201577 TTTAGGG
1 TTTAGGG
15201584 TTT-GGG
1 TTTAGGG
15201590 T
1 T
15201591 GAGACAAAAT
Statistics
Matches: 122, Mismatches: 26, Indels: 35
0.67 0.14 0.19
Matches are distributed among these distances:
4 3 0.02
5 27 0.22
6 12 0.10
7 80 0.66
ACGTcount: A:0.15, C:0.02, G:0.36, T:0.48
Consensus pattern (7 bp):
TTTAGGG
Found at i:15201445 original size:12 final size:12
Alignment explanation
Indices: 15201424--15201588 Score: 66
Period size: 12 Copynumber: 14.2 Consensus size: 12
15201414 GTTCATTTAG
15201424 GGTTTAGGGTTT
1 GGTTTAGGGTTT
15201436 GGTTT--GG---
1 GGTTTAGGGTTT
*
15201443 GGTTTAAGGTTT
1 GGTTTAGGGTTT
*
15201455 GGTTTAGGATTT
1 GGTTTAGGGTTT
*
15201467 GTTTTAGGGTTT
1 GGTTTAGGGTTT
*
15201479 AGTTTA--G---
1 GGTTTAGGGTTT
*
15201486 GGTTTAGGGCTT
1 GGTTTAGGGTTT
*
15201498 GATTTAGGGTTT
1 GGTTTAGGGTTT
*
15201510 AAGGTTTAGAGTTT
1 --GGTTTAGGGTTT
* *
15201524 GTATTTAGGGTCTAA
1 G-GTTTAGGGT-T-T
*
15201539 GGTTT-GTGTTT
1 GGTTTAGGGTTT
*
15201550 GGGGTTTAAGG-TT
1 --GGTTTAGGGTTT
**
15201563 CATTTAGGGTTT
1 GGTTTAGGGTTT
15201575 GGTTTAGGGTTT
1 GGTTTAGGGTTT
15201587 GG
1 GG
15201589 GTGAGACAAA
Statistics
Matches: 110, Mismatches: 24, Indels: 38
0.64 0.14 0.22
Matches are distributed among these distances:
7 10 0.09
9 3 0.03
10 3 0.03
11 6 0.05
12 55 0.50
13 17 0.15
14 15 0.14
15 1 0.01
ACGTcount: A:0.15, C:0.02, G:0.36, T:0.47
Consensus pattern (12 bp):
GGTTTAGGGTTT
Found at i:15201447 original size:19 final size:19
Alignment explanation
Indices: 15201419--15201516 Score: 97
Period size: 19 Copynumber: 4.9 Consensus size: 19
15201409 TTTGGGTTCA
15201419 TTTAGGGTTTAGGGTTTGG
1 TTTAGGGTTTAGGGTTTGG
* *
15201438 TTTGGGGTTTAAGGTTTGG
1 TTTAGGGTTTAGGGTTTGG
*
15201457 TTTAGGATTTGTTTTAGGGTTTAG
1 TTTAGG----G-TTTAGGGTTTGG
* *
15201481 TTTAGGGTTTAGGGCTTGA
1 TTTAGGGTTTAGGGTTTGG
*
15201500 TTTAGGGTTTAAGGTTT
1 TTTAGGGTTTAGGGTTT
15201517 AGAGTTTGTA
Statistics
Matches: 64, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
19 46 0.72
20 1 0.02
23 1 0.02
24 16 0.25
ACGTcount: A:0.14, C:0.01, G:0.36, T:0.49
Consensus pattern (19 bp):
TTTAGGGTTTAGGGTTTGG
Found at i:15201462 original size:31 final size:32
Alignment explanation
Indices: 15201419--15201523 Score: 117
Period size: 31 Copynumber: 3.3 Consensus size: 32
15201409 TTTGGGTTCA
* *
15201419 TTTAGGGTTTAGGGTTTGGTTTGGGGTTTAAGG
1 TTTA-GGTTTAGGGTTTGATTTAGGGTTTAAGG
* *
15201452 TTT-GGTTTAGGATTTGTTTTAGGGTTT-A-G
1 TTTAGGTTTAGGGTTTGATTTAGGGTTTAAGG
*
15201481 TTTAGGGTTTAGGGCTTGATTTAGGGTTTAAGG
1 TTTA-GGTTTAGGGTTTGATTTAGGGTTTAAGG
15201514 TTTAGAGTTT
1 TTTAG-GTTT
15201524 GTATTTAGGG
Statistics
Matches: 61, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
29 4 0.07
30 1 0.02
31 42 0.69
32 2 0.03
33 12 0.20
ACGTcount: A:0.15, C:0.01, G:0.35, T:0.49
Consensus pattern (32 bp):
TTTAGGTTTAGGGTTTGATTTAGGGTTTAAGG
Found at i:15201539 original size:27 final size:26
Alignment explanation
Indices: 15201486--15201543 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 26
15201476 TTTAGTTTAG
* *
15201486 GGTTTAGGGCTTGATTTAGGGTTTAA
1 GGTTTAGAGCTTGATTTAGGGTCTAA
*
15201512 GGTTTAGAGTTTGTATTTAGGGTCTAA
1 GGTTTAGAGCTTG-ATTTAGGGTCTAA
15201539 GGTTT
1 GGTTT
15201544 GTGTTTGGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 11 0.39
27 17 0.61
ACGTcount: A:0.19, C:0.03, G:0.33, T:0.45
Consensus pattern (26 bp):
GGTTTAGAGCTTGATTTAGGGTCTAA
Found at i:15201543 original size:20 final size:20
Alignment explanation
Indices: 15201520--15201562 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
15201510 AAGGTTTAGA
15201520 GTTTGTATTTAGGGTCTAAG
1 GTTTGTATTTAGGGTCTAAG
* * *
15201540 GTTTGTGTTTGGGGTTTAAG
1 GTTTGTATTTAGGGTCTAAG
15201560 GTT
1 GTT
15201563 CATTTAGGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.14, C:0.02, G:0.35, T:0.49
Consensus pattern (20 bp):
GTTTGTATTTAGGGTCTAAG
Found at i:15211016 original size:24 final size:24
Alignment explanation
Indices: 15210989--15211037 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
15210979 CATTGAAATG
15210989 AATCAAAAAATTT-TCATTTATACA
1 AATC-AAAAATTTATCATTTATACA
* *
15211013 AATCCACAATTTATCATTTATACA
1 AATCAAAAATTTATCATTTATACA
15211037 A
1 A
15211038 GATAAACTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (24 bp):
AATCAAAAATTTATCATTTATACA
Found at i:15231881 original size:10 final size:10
Alignment explanation
Indices: 15231844--15231887 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
15231834 TCAACCTAAA
*
15231844 TAACTAATTT
1 TAACTAACTT
*
15231854 TAACTATCTT
1 TAACTAACTT
*
15231864 TGACTAACTT
1 TAACTAACTT
15231874 TAACTAACTCT
1 TAACTAACT-T
15231885 TAA
1 TAA
15231888 ATTCCAACTA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
10 24 0.86
11 4 0.14
ACGTcount: A:0.36, C:0.18, G:0.02, T:0.43
Consensus pattern (10 bp):
TAACTAACTT
Found at i:15234600 original size:14 final size:15
Alignment explanation
Indices: 15234577--15234611 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
15234567 TTTTTGCCCA
*
15234577 TTTTTCTTTCTTTTC
1 TTTTTCTTTCTTTGC
15234592 TTTTT-TTTCTTTGC
1 TTTTTCTTTCTTTGC
15234606 TTTTTC
1 TTTTTC
15234612 ACCACTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.80
Consensus pattern (15 bp):
TTTTTCTTTCTTTGC
Found at i:15248558 original size:112 final size:113
Alignment explanation
Indices: 15248358--15248584 Score: 393
Period size: 112 Copynumber: 2.0 Consensus size: 113
15248348 CTTAGATTTA
15248358 GCTTTTGGAGGCACAATTATGAGCAAGACTACTAAGGAAGCAAATGAGCTTATAAAAGAGATGGC
1 GCTTTTGGAGGCACAATTA-GAGCAAGACTACTAAGGAAGCAAATGAGCTTATAAAAGAGATGGC
*
15248423 TATTAATAATTACTAGTGAGGCATGGAAAGAAAGGTTAGTAAAAAGTTT
65 TATTAATAATTACTAATGAGGCATGGAAAGAAAGGTTAGTAAAAAGTTT
* *
15248472 GCTTTTGGAGGCACAATTA-AGCAAGACTCCTAAGGAAGCAAATGAGCTTATTAAAGAGATGGCT
1 GCTTTTGGAGGCACAATTAGAGCAAGACTACTAAGGAAGCAAATGAGCTTATAAAAGAGATGGCT
* *
15248536 ATTAATAATTACTAATGGGGCATGGAAAGAAAGGTTAGTACAAAGTTT
66 ATTAATAATTACTAATGAGGCATGGAAAGAAAGGTTAGTAAAAAGTTT
15248584 G
1 G
15248585 TTGGTTTATT
Statistics
Matches: 108, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
112 89 0.82
114 19 0.18
ACGTcount: A:0.39, C:0.11, G:0.25, T:0.26
Consensus pattern (113 bp):
GCTTTTGGAGGCACAATTAGAGCAAGACTACTAAGGAAGCAAATGAGCTTATAAAAGAGATGGCT
ATTAATAATTACTAATGAGGCATGGAAAGAAAGGTTAGTAAAAAGTTT
Found at i:15258086 original size:59 final size:59
Alignment explanation
Indices: 15258016--15258471 Score: 632
Period size: 59 Copynumber: 7.7 Consensus size: 59
15258006 GTTTTTGTGC
*
15258016 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTTATTTTCA
1 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAACTTTTATTTTCA
* * * *
15258075 AGAAAAATTGATACTTTCAACTTTTCCTCAAAAATTGATTTTTTTGAAA-ATTTATTTTTA
1 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAA-T-ATTTTTTTGAAACTTTTATTTTCA
* * *
15258135 AGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAA-TTTTATTTTTA
1 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAACTTTTATTTTCA
* * *
15258193 AGGAAAATTGATACTTTCAACTTTTCCCAAAAAATGTTTTTTTTGAAACTTTGATTTTCA
1 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAAT-ATTTTTTTGAAACTTTTATTTTCA
* * *** * *
15258253 AGAAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTGAAA-ATTTATTTTTA
1 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAACTTTTATTTTCA
* * *
15258311 AGGAAAATTGATACTTTCAACTTTTCCCAAAAAATGTTTTTTTGAAACTTTGATTTTCA
1 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAACTTTTATTTTCA
* * *
15258370 AGGAAAATTGATACTTTCAACTTTTCTCCAAAAATA-TTCTTTGAAAACTTTGATTTTCA
1 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTG-AAACTTTTATTTTCA
15258429 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
1 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
15258472 TATTTTTATT
Statistics
Matches: 354, Mismatches: 36, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
58 109 0.31
59 145 0.41
60 89 0.25
61 11 0.03
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.44
Consensus pattern (59 bp):
AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAACTTTTATTTTCA
Found at i:15258124 original size:17 final size:17
Alignment explanation
Indices: 15258104--15258146 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
15258094 ACTTTTCCTC
**
15258104 AAAAATTGATTTTTTTG
1 AAAAATTGATTTTTAAG
*
15258121 -AAAATTTATTTTTAAG
1 AAAAATTGATTTTTAAG
15258137 AAAAATTGAT
1 AAAAATTGAT
15258147 ACTTTCAACT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (17 bp):
AAAAATTGATTTTTAAG
Found at i:15258392 original size:32 final size:32
Alignment explanation
Indices: 15258356--15258452 Score: 91
Period size: 32 Copynumber: 3.2 Consensus size: 32
15258346 GTTTTTTTGA
15258356 AACTTTGATTTTCAAGGAAAATTGATACTTTC
1 AACTTTGATTTTCAAGGAAAATTGATACTTTC
* * * *
15258388 AAC-TT--TTCTCCA--AAAA-T-ATTCTTTGAA
1 AACTTTGATTTTCAAGGAAAATTGATACTTT--C
15258415 AACTTTGATTTTCAAGGAAAATTGATACTTTC
1 AACTTTGATTTTCAAGGAAAATTGATACTTTC
15258447 AACTTT
1 AACTTT
15258453 TCCCCAAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 18
0.65 0.11 0.24
Matches are distributed among these distances:
25 6 0.12
26 1 0.02
27 7 0.15
28 2 0.04
29 5 0.10
30 5 0.10
31 2 0.04
32 13 0.27
33 1 0.02
34 6 0.12
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.41
Consensus pattern (32 bp):
AACTTTGATTTTCAAGGAAAATTGATACTTTC
Found at i:15258547 original size:5 final size:5
Alignment explanation
Indices: 15258497--15258556 Score: 50
Period size: 5 Copynumber: 11.4 Consensus size: 5
15258487 AAAATAGAAT
* * *
15258497 AATAA AACAA AATAA AA-AA AAGAA AAGTAA AACAGA AATAAA AATAA
1 AATAA AATAA AATAA AATAA AATAA AA-TAA AATA-A AAT-AA AATAA
15258544 AATAA AGATAA AA
1 AATAA A-ATAA AA
15258557 AGAATATTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
4 4 0.09
5 24 0.53
6 16 0.36
7 1 0.02
ACGTcount: A:0.78, C:0.03, G:0.07, T:0.12
Consensus pattern (5 bp):
AATAA
Found at i:15258587 original size:4 final size:4
Alignment explanation
Indices: 15258580--15258619 Score: 53
Period size: 4 Copynumber: 9.8 Consensus size: 4
15258570 AACCTAATCT
* *
15258580 AATA AATAA AAAA AATA AACA AATA AATA AATA AATA AAT
1 AATA AAT-A AATA AATA AATA AATA AATA AATA AATA AAT
15258620 TCAAAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
4 28 0.90
5 3 0.10
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.20
Consensus pattern (4 bp):
AATA
Found at i:15259156 original size:9 final size:10
Alignment explanation
Indices: 15259133--15259157 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
15259123 TTCCCAGAAA
15259133 AAAAATCTCC
1 AAAAATCTCC
15259143 AAAAATCTCC
1 AAAAATCTCC
15259153 AAAAA
1 AAAAA
15259158 ATTTCTGCTA
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:0.60, C:0.24, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAAATCTCC
Found at i:15259578 original size:6 final size:5
Alignment explanation
Indices: 15259565--15259688 Score: 63
Period size: 6 Copynumber: 22.0 Consensus size: 5
15259555 CTCAAGATAA
* *
15259565 AAAAT AATAAT AATAAT AAAAG AAAAG AAAAT ATATACAT ACATAA- AAAAT
1 AAAAT AA-AAT AA-AAT AAAAT AAAAT AAAAT A-A-A-AT A-A-AAT AAAAT
*
15259616 AATAAT AATAA- AAAAT AAAAT AAAAAT AAAAT AAAAATGT AAAAT ACAAAA
1 AA-AAT AA-AAT AAAAT AAAAT -AAAAT AAAAT -AAAA--T AAAAT A-AAAT
15259667 AAAAT AAAAAT AAAAAT AAAAT
1 AAAAT -AAAAT -AAAAT AAAAT
15259689 GAAGAAAAAA
Statistics
Matches: 101, Mismatches: 5, Indels: 26
0.77 0.04 0.20
Matches are distributed among these distances:
4 4 0.04
5 39 0.39
6 45 0.45
7 6 0.06
8 7 0.07
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:15259696 original size:29 final size:27
Alignment explanation
Indices: 15259609--15259701 Score: 100
Period size: 29 Copynumber: 3.3 Consensus size: 27
15259599 ATACATACAT
* *
15259609 AAAAAATAATAATAATAA-AAAATAAA
1 AAAAAATAAAAATAAAAATAAAATAAA
15259635 ATAAAAAT-AAAATAAAAATGTAAAATACAA
1 A-AAAAATAAAAATAAAAA--TAAAATA-AA
15259665 AAAAAATAAAAATAAAAATAAAATGAAGA
1 AAAAAATAAAAATAAAAATAAAAT-AA-A
15259694 AAAAAATA
1 AAAAAATA
15259702 TATATATATA
Statistics
Matches: 57, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
26 9 0.16
27 6 0.11
28 7 0.12
29 22 0.39
30 13 0.23
ACGTcount: A:0.78, C:0.01, G:0.03, T:0.17
Consensus pattern (27 bp):
AAAAAATAAAAATAAAAATAAAATAAA
Found at i:15259699 original size:12 final size:10
Alignment explanation
Indices: 15259619--15259701 Score: 60
Period size: 11 Copynumber: 7.4 Consensus size: 10
15259609 AAAAAATAAT
*
15259619 AATAATAAAA
1 AATAAAAAAA
15259629 AATAAAATAAA
1 AATAAAA-AAA
15259640 AATAAAATAAA
1 AATAAAA-AAA
15259651 AATGTAAAATACAA
1 AA--TAAAA-A-AA
15259665 AA-AAAATAAA
1 AATAAAA-AAA
15259675 AATAAAAATAA
1 AATAAAAA-AA
15259686 AATGAAGAAAAA
1 AAT-AA-AAAAA
15259698 AATA
1 AATA
15259702 TATATATATA
Statistics
Matches: 64, Mismatches: 1, Indels: 15
0.80 0.01 0.19
Matches are distributed among these distances:
10 11 0.17
11 32 0.50
12 7 0.11
13 10 0.16
14 4 0.06
ACGTcount: A:0.78, C:0.01, G:0.04, T:0.17
Consensus pattern (10 bp):
AATAAAAAAA
Found at i:15259896 original size:12 final size:12
Alignment explanation
Indices: 15259876--15259901 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
15259866 TTTTTTTATA
15259876 TTTTTTTTGTTT
1 TTTTTTTTGTTT
15259888 TTTTTTTTGTTT
1 TTTTTTTTGTTT
15259900 TT
1 TT
15259902 GATCAAAGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (12 bp):
TTTTTTTTGTTT
Found at i:15260045 original size:42 final size:42
Alignment explanation
Indices: 15259909--15260323 Score: 521
Period size: 42 Copynumber: 9.8 Consensus size: 42
15259899 TTTGATCAAA
** * * * * * *
15259909 GCTCCTCTAGGCAGAGGCTCAATGACTTTGAGAAACATGAATG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGGAAA-ATAAATT
* * * * **
15259952 GCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG--GGAAAATAAATT
15259996 GCTCCTCTAAACAGAGGCACCACGACTTTGGGAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGGAAAATAAATT
*
15260038 GCTCCTCTAAACAGAGGCACCACAACTTT-GGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGGAAAA-TAAATT
* *
15260080 GCTCCTCTAAACAGAGGCACCACGACTTCGGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGGAAAATAAATT
* * *
15260122 GCTCCTCTAAACAGAGGCACCACAACTTTTGGAAATTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGGAAAATAAATT
* *
15260164 GCTCCTCTAAACAGAGGCACCATGAC-TTCGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGGAAAA-TAAATT
*
15260206 GCTCCTCTAAACAGAGGCACCACGACTTT-GGAAATTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGGAAAATAAATT
* * *
15260247 GCTCCTCTAAATAGAGGCACCATGACTTTGGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGGAAAATAAATT
*
15260289 GCTCCTCTAAACAGAGGCACCATGACTTTGGGAAA
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGGAAA
15260324 GTGGACAGAG
Statistics
Matches: 334, Mismatches: 31, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
41 46 0.14
42 220 0.66
43 33 0.10
44 31 0.09
45 4 0.01
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (42 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGGGAAAATAAATT
Found at i:15260324 original size:42 final size:42
Alignment explanation
Indices: 15259990--15260325 Score: 539
Period size: 42 Copynumber: 8.0 Consensus size: 42
15259980 TGAAAAAAAA
*
15259990 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGGAAAA
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGGAAAG
* *
15260032 TAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGGAAAAG
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGGAAAG
*
15260074 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTCGGGAAAG
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGGAAAG
* * *
15260116 TAAATTGCTCCTCTAAACAGAGGCACCACAACTTTTGGAAAT
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGGAAAG
* * *
15260158 TAAATTGCTCCTCTAAACAGAGGCACCATGACTTCGGAAAAG
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGGAAAG
*
15260200 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTT-GGAAAT
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGGAAAG
* *
15260241 TAAATTGCTCCTCTAAATAGAGGCACCATGACTTTGGGAAAG
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGGAAAG
*
15260283 TAAATTGCTCCTCTAAACAGAGGCACCATGACTTTGGGAAAG
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGGAAAG
15260325 T
1 T
15260326 GGACAGAGGC
Statistics
Matches: 269, Mismatches: 24, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
41 37 0.14
42 232 0.86
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (42 bp):
TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGGAAAG
Found at i:15260376 original size:70 final size:71
Alignment explanation
Indices: 15260259--15260395 Score: 222
Period size: 70 Copynumber: 1.9 Consensus size: 71
15260249 TCCTCTAAAT
* * *
15260259 AGAGGCACCATGACTTTGGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCATGACTTTGGGAAA
1 AGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGGAAA
15260324 GTGGAC
66 GTGGAC
* *
15260330 AGAGGCACCACGACTTT-GAAAATTAAATTGCTCCTCTAAACGGAGGCACCACGACTTTGGGAAA
1 AGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGGAAA
15260394 GT
66 GT
15260396 AAATTGCTCT
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
70 45 0.74
71 16 0.26
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (71 bp):
AGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGGAAA
GTGGAC
Found at i:15260388 original size:41 final size:42
Alignment explanation
Indices: 15260328--15260487 Score: 245
Period size: 41 Copynumber: 3.9 Consensus size: 42
15260318 GGGAAAGTGG
15260328 ACAGAGGCACCACGACTTT-GAAAATTAAATTGCTCCTCTAA
1 ACAGAGGCACCACGACTTTGGAAAATTAAATTGCTCCTCTAA
* * * *
15260369 ACGGAGGCACCACGACTTTGGGAAAGTAAATTGCTCTTCTAA
1 ACAGAGGCACCACGACTTTGGAAAATTAAATTGCTCCTCTAA
*
15260411 ACAAAGGCACCACGACTTT-GAAAATTAAATTGCTCCTCTAA
1 ACAGAGGCACCACGACTTTGGAAAATTAAATTGCTCCTCTAA
15260452 ACAGAGGCACCACGACTTTGGGAAAA-TAAATTGCTC
1 ACAGAGGCACCACGACTTT-GGAAAATTAAATTGCTC
15260488 TTTAACCTTC
Statistics
Matches: 106, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
41 55 0.52
42 46 0.43
43 5 0.05
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (42 bp):
ACAGAGGCACCACGACTTTGGAAAATTAAATTGCTCCTCTAA
Found at i:15260413 original size:112 final size:112
Alignment explanation
Indices: 15260216--15260430 Score: 367
Period size: 112 Copynumber: 1.9 Consensus size: 112
15260206 GCTCCTCTAA
* * *
15260216 ACAGAGGCACCACGACTTTGGAAATTAAATTGCTCCTCTAAATAGAGGCACCATGACTTTGGGAA
1 ACAGAGGCACCACGACTTTGAAAATTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGGAA
* *
15260281 AGTAAATTGCTCCTCTAAACAGAGGCACCATGACTTTGGGAAAGTGG
66 AGTAAATTGCTCCTCTAAACAAAGGCACCACGACTTTGGGAAAGTGG
*
15260328 ACAGAGGCACCACGACTTTGAAAATTAAATTGCTCCTCTAAACGGAGGCACCACGACTTTGGGAA
1 ACAGAGGCACCACGACTTTGAAAATTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGGAA
*
15260393 AGTAAATTGCTCTTCTAAACAAAGGCACCACGACTTTG
66 AGTAAATTGCTCCTCTAAACAAAGGCACCACGACTTTG
15260431 AAAATTAAAT
Statistics
Matches: 96, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
112 96 1.00
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.23
Consensus pattern (112 bp):
ACAGAGGCACCACGACTTTGAAAATTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGGAA
AGTAAATTGCTCCTCTAAACAAAGGCACCACGACTTTGGGAAAGTGG
Found at i:15260471 original size:83 final size:83
Alignment explanation
Indices: 15260332--15260489 Score: 298
Period size: 83 Copynumber: 1.9 Consensus size: 83
15260322 AAGTGGACAG
* *
15260332 AGGCACCACGACTTTGAAAATTAAATTGCTCCTCTAAACGGAGGCACCACGACTTTGGGAAAGTA
1 AGGCACCACGACTTTGAAAATTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGGAAAATA
15260397 AATTGCTCTTCTAAACAA
66 AATTGCTCTTCTAAACAA
15260415 AGGCACCACGACTTTGAAAATTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGGAAAATA
1 AGGCACCACGACTTTGAAAATTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGGAAAATA
15260480 AATTGCTCTT
66 AATTGCTCTT
15260490 TAACCTTCGC
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
83 73 1.00
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.25
Consensus pattern (83 bp):
AGGCACCACGACTTTGAAAATTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGGAAAATA
AATTGCTCTTCTAAACAA
Found at i:15260486 original size:195 final size:196
Alignment explanation
Indices: 15260132--15260487 Score: 597
Period size: 195 Copynumber: 1.8 Consensus size: 196
15260122 GCTCCTCTAA
* *
15260132 ACAGAGGCACCACAACTTTTGGAAATTAAATTGCTCCTCTAAACAGAGGCACCATGACTTCGGAA
1 ACAGAGGCACCACAACTTTTGAAAATTAAATTGCTCCTCTAAACAGAGGCACCACGACTTCGGAA
* * *
15260197 AAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAATTAAATTGCTCCTCTAAATAGA
66 AAGTAAATTGCTCCTCTAAACAAAGGCACCACGACTTTGAAAATTAAATTGCTCCTCTAAACAGA
* *
15260262 GGCACCATGACTTTGGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCATGACTTTGGGAAAGTG
131 GGCACCACGACTTTGGGAAAATAAATTGCTCCTCTAAACAGAGGCACCATGACTTTGGGAAAGTG
15260327 G
196 G
* * * *
15260328 ACAGAGGCACCACGAC-TTTGAAAATTAAATTGCTCCTCTAAACGGAGGCACCACGACTTTGGGA
1 ACAGAGGCACCACAACTTTTGAAAATTAAATTGCTCCTCTAAACAGAGGCACCACGACTTCGGAA
*
15260392 AAGTAAATTGCTCTTCTAAACAAAGGCACCACGACTTTGAAAATTAAATTGCTCCTCTAAACAGA
66 AAGTAAATTGCTCCTCTAAACAAAGGCACCACGACTTTGAAAATTAAATTGCTCCTCTAAACAGA
15260457 GGCACCACGACTTTGGGAAAATAAATTGCTC
131 GGCACCACGACTTTGGGAAAATAAATTGCTC
15260488 TTTAACCTTC
Statistics
Matches: 148, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
195 133 0.90
196 15 0.10
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.23
Consensus pattern (196 bp):
ACAGAGGCACCACAACTTTTGAAAATTAAATTGCTCCTCTAAACAGAGGCACCACGACTTCGGAA
AAGTAAATTGCTCCTCTAAACAAAGGCACCACGACTTTGAAAATTAAATTGCTCCTCTAAACAGA
GGCACCACGACTTTGGGAAAATAAATTGCTCCTCTAAACAGAGGCACCATGACTTTGGGAAAGTG
G
Found at i:15264392 original size:59 final size:58
Alignment explanation
Indices: 15264329--15264954 Score: 780
Period size: 59 Copynumber: 10.7 Consensus size: 58
15264319 TTTGTGCAGA
* * * * **
15264329 AAAATTGATACTTTCAACTTTTTCCAAAAAAATATTCTTTTGAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAAC-TTTTCCCAAAAAATATTTTTTTGAAAATTTATTTTTAAGG
** *
15264388 AAAATTGATACTTTCAACTTTTCCTCAAAAGTTTATTTTTTTGAAAATTTATTTTGAAGG
1 AAAATTGATACTTTCAACTTTTCC-CAAAA-AATATTTTTTTGAAAATTTATTTTTAAGG
* *
15264448 AAAATTGATACTTTCAACTTTTCCTCAAAAATTGATTTTTTTGAAATTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCC-CAAAAAAT-ATTTTTTTGAAAATTTATTTTTAAGG
* * *
15264508 AAAATTGATACTTTCATCTTTTCCCAAAAAATGTTTTTTT-AAAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTTGAAAA-TTT-ATTTTTAAGG
***
15264567 AAAATTGATACTTTCAACTTTTCCTC-AAAAA-CCCTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCC-CAAAAAATATTTTTTTGAAAATTTATTTTTAAGG
*
15264624 AAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTTGAAATTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCC-CAAAAAATA-TTTTTTTGAAAATTTATTTTTAAGG
* * * *
15264683 AAAATTGATACTTTCAACTTTTTCCAAAAAATGTTTTTTTGAAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTTGAAAATTT-ATTTTTAAGG
* **
15264742 -AAATTGATACTTTCAAGTTTTCCTC-AAAAACCTTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCC-CAAAAAATATTTTTTTGAAAATTTATTTTTAAGG
* * * * * *
15264799 AAAATTGATACTTTCAACTTTTCCCCAAAAATGTTCTTTGGAAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTTGAAAATTT-ATTTTTAAGG
* *
15264858 AAAATTGATACTTTCAACCTTTCCCAAAAAAT-CTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTTGAAAATTTATTTTTAAGG
*
15264915 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
1 AAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTT
15264955 TTATTTTCAT
Statistics
Matches: 499, Mismatches: 52, Indels: 33
0.85 0.09 0.06
Matches are distributed among these distances:
57 92 0.18
58 135 0.27
59 172 0.34
60 100 0.20
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.44
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTTGAAAATTTATTTTTAAGG
Found at i:15264645 original size:116 final size:113
Alignment explanation
Indices: 15264329--15264953 Score: 770
Period size: 116 Copynumber: 5.3 Consensus size: 113
15264319 TTTGTGCAGA
** * *
15264329 AAAATTGATACTTTCAACTTTTTCCAAAAAAATATTCTTTTGAAACTTTAATTTCGAGGAAAATT
1 AAAATTGATACTTTCAAC-TTTTCCCCAAAAAT-TT-TTTTGAAACTTTATTTTCAAGGAAAATT
* * *
15264394 GATACTTTCAACTTTTCCTCAAAAGTTTATTTTTTTGAAAATTTATTTTGAAGG
63 GATACTTTCAACTTTTCCTCAAAA---AATTTTTTTTAAAATTTATTTTTAAGG
* * *
15264448 AAAATTGATACTTTCAACTTTTCCTCAAAAATTGATTTTTTTGAAATTTTATTTTTAAGGAAAAT
1 AAAATTGATACTTTCAACTTTTCC-CCAAAA---ATTTTTTTGAAACTTTATTTTCAAGGAAAAT
* *
15264513 TGATACTTTCATCTTTTCC-CAAAAAATGTTTTTTTAAAACTTTGATTTTCAAGG
62 TGATACTTTCAACTTTTCCTCAAAAAAT-TTTTTTTAAAA-TTT-ATTTTTAAGG
* ** * *
15264567 AAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTGAAAATTTATTTTTAAGGAAAATTGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAA-TTTTTTTGAAACTTTATTTTCAAGGAAAATTGA
*
15264632 TACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAATTTTATTTTTAAGG
65 TACTTTCAACTTTTCCTCAAAAA-ATTTTTTTT-AAAATTTATTTTTAAGG
* *
15264683 AAAATTGATACTTTCAACTTTTTCCAAAAAATGTTTTTTTGAAACTTTGATTTTCAAGG-AAATT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAA--TTTTTTTGAAACTTT-ATTTTCAAGGAAAATT
* * *
15264747 GATACTTTCAAGTTTTCCTCAAAAACCTTTTTTTGAAAATTTATTTTTAAGG
63 GATACTTTCAACTTTTCCTCAAAAA-ATTTTTTTTAAAATTTATTTTTAAGG
*
15264799 AAAATTGATACTTTCAACTTTTCCCCAAAAATGTTCTTTGGAAACTTTGATTTTCAAGGAAAATT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAAT-TT-TTTTGAAACTTT-ATTTTCAAGGAAAATT
* *
15264864 GATACTTTCAACCTTTCC-CAAAAAATCTTTTTTGAAAATTTATTTTTAAGG
63 GATACTTTCAACTTTTCCTCAAAAAAT-TTTTTTTAAAATTTATTTTTAAGG
15264915 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAAT-TTTTTT
15264954 TTTATTTTCA
Statistics
Matches: 451, Mismatches: 38, Indels: 38
0.86 0.07 0.07
Matches are distributed among these distances:
114 1 0.00
115 7 0.02
116 215 0.48
117 95 0.21
118 27 0.06
119 61 0.14
120 41 0.09
121 2 0.00
122 2 0.00
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.44
Consensus pattern (113 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATTTTTTTGAAACTTTATTTTCAAGGAAAATTGAT
ACTTTCAACTTTTCCTCAAAAAATTTTTTTTAAAATTTATTTTTAAGG
Found at i:15264718 original size:175 final size:173
Alignment explanation
Indices: 15264329--15264945 Score: 889
Period size: 175 Copynumber: 3.5 Consensus size: 173
15264319 TTTGTGCAGA
* * * * * *
15264329 AAAATTGATACTTTCAACTTTTTCCAAAAAAATATTCTTTTGAAACTTTAATTTCGAGGAAAATT
1 AAAATTGATACTTTCAAC-TTTTCCCAAAAAATGTTTTTTTAAAACTTTATTTTCAAGGAAAATT
* *
15264394 GATACTTTCAACTTTTCCTCAAAAGTTTA-TTTTTTTGAAAATTTATTTTGAAGGAAAATTGATA
65 GATACTTTCAACTTTTCCTCAAAA----ACCTTTTTTGAAAATTTATTTTTAAGGAAAATTGATA
15264458 CTTTCAACTTTTCCTCAAAAATTGATTTTTTTGAAATTTTATTTTTAAGG
126 CTTTCAACTTTTCCTCAAAAATT--TTTTTTTGAAATTTTATTTTTAAGG
*
15264508 AAAATTGATACTTTCATCTTTTCCCAAAAAATGTTTTTTTAAAACTTTGATTTTCAAGGAAAATT
1 AAAATTGATACTTTCAACTTTTCCCAAAAAATGTTTTTTTAAAACTTT-ATTTTCAAGGAAAATT
*
15264573 GATACTTTCAACTTTTCCTCAAAAACCCTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTT
65 GATACTTTCAACTTTTCCTCAAAAACCTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTT
15264638 CAACTTTTCCTCAAAAATATTTTTTTTGAAATTTTATTTTTAAGG
130 CAACTTTTCCTCAAAAAT-TTTTTTTTGAAATTTTATTTTTAAGG
* *
15264683 AAAATTGATACTTTCAACTTTTTCCAAAAAATGTTTTTTTGAAACTTTGATTTTCAAGG-AAATT
1 AAAATTGATACTTTCAACTTTTCCCAAAAAATGTTTTTTTAAAACTTT-ATTTTCAAGGAAAATT
*
15264747 GATACTTTCAAGTTTTCCTCAAAAACCTTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTT
65 GATACTTTCAACTTTTCCTCAAAAACC-TTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTT
* * * * * *
15264812 TCAACTTTTCCCCAAAAATGTTCTTTGGAAACTTTGATTTTCAAGG
129 TCAACTTTTCCTCAAAAATTTTTTTTTGAAA-TTTTATTTTTAAGG
* * * *
15264858 AAAATTGATACTTTCAACCTTTCCCAAAAAATCTTTTTTGAAAA-TTTATTTTTAAGGAAAATTG
1 AAAATTGATACTTTCAACTTTTCCCAAAAAATGTTTTTTTAAAACTTTATTTTCAAGGAAAATTG
*
15264922 ATACTTTCAACTTTTCCCCAAAAA
66 ATACTTTCAACTTTTCCTCAAAAA
15264946 TATTTTTTTT
Statistics
Matches: 403, Mismatches: 29, Indels: 17
0.90 0.06 0.04
Matches are distributed among these distances:
173 9 0.02
174 71 0.18
175 187 0.46
176 54 0.13
177 1 0.00
178 26 0.06
179 55 0.14
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (173 bp):
AAAATTGATACTTTCAACTTTTCCCAAAAAATGTTTTTTTAAAACTTTATTTTCAAGGAAAATTG
ATACTTTCAACTTTTCCTCAAAAACCTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTC
AACTTTTCCTCAAAAATTTTTTTTTGAAATTTTATTTTTAAGG
Found at i:15265003 original size:24 final size:26
Alignment explanation
Indices: 15264971--15265031 Score: 76
Period size: 24 Copynumber: 2.5 Consensus size: 26
15264961 TCATTTAAAG
*
15264971 AAAATAGAATAA-TAAAAC-AAAATA
1 AAAAAAGAATAAGTAAAACAAAAATA
15264995 AAAAAAGAA-AAGTAAAACAAAAATA
1 AAAAAAGAATAAGTAAAACAAAAATA
15265020 AAAATAA-AATAA
1 AAAA-AAGAATAA
15265032 AGATAAAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
23 2 0.06
24 14 0.44
25 12 0.38
26 4 0.12
ACGTcount: A:0.79, C:0.03, G:0.05, T:0.13
Consensus pattern (26 bp):
AAAAAAGAATAAGTAAAACAAAAATA
Found at i:15265022 original size:17 final size:17
Alignment explanation
Indices: 15264996--15265040 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
15264986 AACAAAATAA
* *
15264996 AAAAAGAAAAGTAAAAC
1 AAAAATAAAAATAAAAC
*
15265013 AAAAATAAAAATAAAAT
1 AAAAATAAAAATAAAAC
*
15265030 AAAGATAAAAA
1 AAAAATAAAAA
15265041 GAATATTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.80, C:0.02, G:0.07, T:0.11
Consensus pattern (17 bp):
AAAAATAAAAATAAAAC
Found at i:15266166 original size:11 final size:11
Alignment explanation
Indices: 15266140--15266214 Score: 78
Period size: 11 Copynumber: 6.5 Consensus size: 11
15266130 ATATACATAA
*
15266140 AAAATAATAAT
1 AAAATAAAAAT
15266151 AAAAATAAAAAT
1 -AAAATAAAAAT
*
15266163 AAAATAGAAAT
1 AAAATAAAAAT
*
15266174 AAAATGAAAATGT
1 AAAAT-AAAA-AT
*
15266187 AAAATACAAAAA
1 AAAATA-AAAAT
15266199 AAAATAAAAAT
1 AAAATAAAAAT
15266210 AAAAT
1 AAAAT
15266215 GAAGAGAAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
11 24 0.45
12 20 0.38
13 9 0.17
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.19
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:15266173 original size:6 final size:5
Alignment explanation
Indices: 15266140--15266214 Score: 51
Period size: 6 Copynumber: 13.0 Consensus size: 5
15266130 ATATACATAA
15266140 AAAAT AATAAT AAAAAT AAAAAT AAAAT AGAAAT AAAAT GAAAATGT AAAAT
1 AAAAT AA-AAT -AAAAT -AAAAT AAAAT A-AAAT AAAAT -AAAA--T AAAAT
*
15266192 ACAAAAA AAAAT AAAAAT AAAAT
1 --AAAAT AAAAT -AAAAT AAAAT
15266215 GAAGAGAAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 18
0.75 0.03 0.23
Matches are distributed among these distances:
5 22 0.37
6 26 0.44
7 10 0.17
8 1 0.02
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:15266174 original size:23 final size:23
Alignment explanation
Indices: 15266140--15266227 Score: 83
Period size: 23 Copynumber: 3.8 Consensus size: 23
15266130 ATATACATAA
15266140 AAAATA-ATAATAAAAATAAAAAT
1 AAAATAGA-AATAAAAATAAAAAT
*
15266163 AAAATAGAAAT-AAAATGAAAATGT
1 AAAATAGAAATAAAAAT-AAAA-AT
* *
15266187 AAAATACAAAAAAAAATAAAAAT
1 AAAATAGAAATAAAAATAAAAAT
*
15266210 AAAAT-GAAGAGAAAAATA
1 AAAATAGAA-ATAAAAATA
15266228 TATATATATA
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
22 7 0.13
23 27 0.50
24 15 0.28
25 5 0.09
ACGTcount: A:0.75, C:0.01, G:0.07, T:0.17
Consensus pattern (23 bp):
AAAATAGAAATAAAAATAAAAAT
Found at i:15269359 original size:197 final size:197
Alignment explanation
Indices: 15269024--15269417 Score: 761
Period size: 197 Copynumber: 2.0 Consensus size: 197
15269014 CTCTAATCCA
15269024 GCCAATGTGGAGAGTTTATTTACTCAACAAATTAAAGTCAGGGATAGACTTTCCTTTGCTTTTGG
1 GCCAATGTGGAGAGTTTATTTACTCAACAAATTAAAGTCAGGGATAGACTTTCCTTTGCTTTTGG
*
15269089 ACATCAATTTATTGGTGGGACCACTCTGGTGTCCATCTCCCCTAGTTGAAAAAAAAACTTGTCCT
66 ACATCAATTTATTGGTGGGACCACTCCGGTGTCCATCTCCCCTAGTTGAAAAAAAAACTTGTCCT
*
15269154 CAAGTCTAAGTTTATTTTTTTGCCATAATATGGTGATAATTGATTAGGTCTAACTGCAAGTGCAC
131 CAAGTCTAAGTCTATTTTTTTGCCATAATATGGTGATAATTGATTAGGTCTAACTGCAAGTGCAC
15269219 AG
196 AG
*
15269221 GCCAATGTGGAGAGTTTATTTAGTCAACAAATTAAAGTCAGGGATAGACTTTCCTTTGCTTTTGG
1 GCCAATGTGGAGAGTTTATTTACTCAACAAATTAAAGTCAGGGATAGACTTTCCTTTGCTTTTGG
15269286 ACATCAATTTATTGGTGGGACCACTCCGGTGTCCATCTCCCCTAGTTGAAAAAAAAACTTGTCCT
66 ACATCAATTTATTGGTGGGACCACTCCGGTGTCCATCTCCCCTAGTTGAAAAAAAAACTTGTCCT
15269351 CAAGTCTAAGTCTATTTTTTTGCCATAATATGGTGATAATTGATTAGGTCTAACTGCAAGTGCAC
131 CAAGTCTAAGTCTATTTTTTTGCCATAATATGGTGATAATTGATTAGGTCTAACTGCAAGTGCAC
15269416 AG
196 AG
15269418 ACCATATATG
Statistics
Matches: 194, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
197 194 1.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (197 bp):
GCCAATGTGGAGAGTTTATTTACTCAACAAATTAAAGTCAGGGATAGACTTTCCTTTGCTTTTGG
ACATCAATTTATTGGTGGGACCACTCCGGTGTCCATCTCCCCTAGTTGAAAAAAAAACTTGTCCT
CAAGTCTAAGTCTATTTTTTTGCCATAATATGGTGATAATTGATTAGGTCTAACTGCAAGTGCAC
AG
Found at i:15276617 original size:14 final size:14
Alignment explanation
Indices: 15276600--15276627 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
15276590 GTTAAGATTT
15276600 AAAGTGCAAGAAAG
1 AAAGTGCAAGAAAG
15276614 AAAGTGCAAGAAAG
1 AAAGTGCAAGAAAG
15276628 TAAAAACTAA
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:0.57, C:0.07, G:0.29, T:0.07
Consensus pattern (14 bp):
AAAGTGCAAGAAAG
Found at i:15279903 original size:20 final size:21
Alignment explanation
Indices: 15279857--15279909 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
15279847 TTTAAGAGGA
*
15279857 GATCGATCCCTTACCTTAGGT
1 GATCGATCCCTTACCTAAGGT
**
15279878 GATCGATCCCTTATGTAAGG-
1 GATCGATCCCTTACCTAAGGT
15279898 GATCGATCCCTT
1 GATCGATCCCTT
15279910 TTTTGGAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.41
21 17 0.59
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (21 bp):
GATCGATCCCTTACCTAAGGT
Found at i:15280520 original size:11 final size:11
Alignment explanation
Indices: 15280506--15280544 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
15280496 TATCAAAGCA
15280506 TCATCAAATTT
1 TCATCAAATTT
*
15280517 TCATACCAATATT
1 TCAT-CAAAT-TT
15280530 TCATCAAATTT
1 TCATCAAATTT
15280541 TCAT
1 TCAT
15280545 ACCAATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 10 0.42
12 8 0.33
13 6 0.25
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (11 bp):
TCATCAAATTT
Found at i:15280533 original size:13 final size:13
Alignment explanation
Indices: 15280515--15280555 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
15280505 ATCATCAAAT
15280515 TTTCATACCAATA
1 TTTCATACCAATA
*
15280528 TTTCAT-CAAAT-
1 TTTCATACCAATA
15280539 TTTCATACCAATA
1 TTTCATACCAATA
15280552 TTTC
1 TTTC
15280556 TCCCCCTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 6 0.25
12 8 0.33
13 10 0.42
ACGTcount: A:0.34, C:0.22, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTCATACCAATA
Found at i:15280565 original size:24 final size:24
Alignment explanation
Indices: 15280506--15280555 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
15280496 TATCAAAGCA
15280506 TCATCAAATTTTCATACCAATATT
1 TCATCAAATTTTCATACCAATATT
15280530 TCATCAAATTTTCATACCAATATT
1 TCATCAAATTTTCATACCAATATT
15280554 TC
1 TC
15280556 TCCCCCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.36, C:0.22, G:0.00, T:0.42
Consensus pattern (24 bp):
TCATCAAATTTTCATACCAATATT
Found at i:15280672 original size:15 final size:15
Alignment explanation
Indices: 15280654--15280688 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
15280644 AAACCACACA
*
15280654 ACAATGCCACAAGCC
1 ACAAAGCCACAAGCC
*
15280669 ACAAAGTCACAAGCC
1 ACAAAGCCACAAGCC
15280684 ACAAA
1 ACAAA
15280689 AAAATAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.49, C:0.34, G:0.11, T:0.06
Consensus pattern (15 bp):
ACAAAGCCACAAGCC
Found at i:15294229 original size:7 final size:7
Alignment explanation
Indices: 15294176--15294301 Score: 55
Period size: 7 Copynumber: 18.6 Consensus size: 7
15294166 AGGATTCAAT
*
15294176 TTTAGGG
1 TTTAAGG
15294183 TTTAAGG
1 TTTAAGG
* *
15294190 CTTAAAG
1 TTTAAGG
15294197 -TT-AGG
1 TTTAAGG
* *
15294202 GTTAAAG
1 TTTAAGG
*
15294209 TTTAGGG
1 TTTAAGG
*
15294216 ATTAAGG
1 TTTAAGG
15294223 TTTAAGG
1 TTTAAGG
15294230 -TT-AGG
1 TTTAAGG
***
15294235 GGCAAGGG
1 TTTAA-GG
*
15294243 TTAAAGG
1 TTTAAGG
*
15294250 TTTAGGG
1 TTTAAGG
*
15294257 TTTAAGA
1 TTTAAGG
*
15294264 TTTAAAG
1 TTTAAGG
*
15294271 TTT-GGG
1 TTTAAGG
*
15294277 TTTAGGG
1 TTTAAGG
*
15294284 TTTAAAG
1 TTTAAGG
15294291 TTTAAGG
1 TTTAAGG
15294298 TTTA
1 TTTA
15294302 GAATTAGCAT
Statistics
Matches: 86, Mismatches: 27, Indels: 12
0.69 0.22 0.10
Matches are distributed among these distances:
5 5 0.06
6 10 0.12
7 67 0.78
8 4 0.05
ACGTcount: A:0.29, C:0.02, G:0.32, T:0.38
Consensus pattern (7 bp):
TTTAAGG
Found at i:15294235 original size:33 final size:33
Alignment explanation
Indices: 15294162--15294235 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 33
15294152 GGTTTTAAGG
* * * *
15294162 GGTTAGGATTCAATTTTAGGGTTTAAGGCTTAA
1 GGTTAGGGTTAAAGTTTAGGGATTAAGGCTTAA
* *
15294195 AGTTAGGGTTAAAGTTTAGGGATTAAGGTTTAA
1 GGTTAGGGTTAAAGTTTAGGGATTAAGGCTTAA
15294228 GGTTAGGG
1 GGTTAGGG
15294236 GCAAGGGTTA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.28, C:0.03, G:0.32, T:0.36
Consensus pattern (33 bp):
GGTTAGGGTTAAAGTTTAGGGATTAAGGCTTAA
Found at i:15294279 original size:20 final size:21
Alignment explanation
Indices: 15294203--15294301 Score: 78
Period size: 20 Copynumber: 4.8 Consensus size: 21
15294193 AAAGTTAGGG
* *
15294203 TTAAAGTTTAGGGATTAAGGT
1 TTAAAGTTTAGGGTTTAAGAT
* ** **
15294224 TT-AAGGTTAGGG-GCAAGGG
1 TTAAAGTTTAGGGTTTAAGAT
15294243 TTAAAGGTTTAGGGTTTAAGAT
1 TTAAA-GTTTAGGGTTTAAGAT
* *
15294265 TTAAAGTTT-GGGTTTAGGGT
1 TTAAAGTTTAGGGTTTAAGAT
*
15294285 TTAAAGTTTAAGGTTTA
1 TTAAAGTTTAGGGTTTA
15294302 GAATTAGCAT
Statistics
Matches: 62, Mismatches: 12, Indels: 8
0.76 0.15 0.10
Matches are distributed among these distances:
19 6 0.10
20 29 0.47
21 19 0.31
22 8 0.13
ACGTcount: A:0.29, C:0.01, G:0.31, T:0.38
Consensus pattern (21 bp):
TTAAAGTTTAGGGTTTAAGAT
Found at i:15294308 original size:27 final size:27
Alignment explanation
Indices: 15294250--15294346 Score: 90
Period size: 27 Copynumber: 3.6 Consensus size: 27
15294240 GGGTTAAAGG
* * *
15294250 TTTAGGGTTT-AAGATTTAAAGTTTGGG
1 TTTAGGGTTTAAAG-TTTAAGGTTTAGA
15294277 TTTAGGGTTTAAAGTTTAAGGTTTAGA
1 TTTAGGGTTTAAAGTTTAAGGTTTAGA
* ** * *
15294304 ATTAGCATTTAGA-TTTTAGGTTTAGA
1 TTTAGGGTTTAAAGTTTAAGGTTTAGA
*
15294330 TTTAGGGTTTAAGGTTT
1 TTTAGGGTTTAAAGTTT
15294347 GCATAGGGAA
Statistics
Matches: 55, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
26 20 0.36
27 32 0.58
28 3 0.05
ACGTcount: A:0.27, C:0.01, G:0.26, T:0.46
Consensus pattern (27 bp):
TTTAGGGTTTAAAGTTTAAGGTTTAGA
Found at i:15294338 original size:13 final size:13
Alignment explanation
Indices: 15294250--15294340 Score: 67
Period size: 13 Copynumber: 6.8 Consensus size: 13
15294240 GGGTTAAAGG
15294250 TTTAGGGTTTAAGA
1 TTTAGGGTTT-AGA
** * *
15294264 TTTAAAGTTTGGG
1 TTTAGGGTTTAGA
*
15294277 TTTAGGGTTTAAA
1 TTTAGGGTTTAGA
*
15294290 GTTTAAGGTTTAGA
1 -TTTAGGGTTTAGA
* **
15294304 ATTAGCATTTAGA
1 TTTAGGGTTTAGA
15294317 TTTTA-GGTTTAGA
1 -TTTAGGGTTTAGA
15294330 TTTAGGGTTTA
1 TTTAGGGTTTA
15294341 AGGTTTGCAT
Statistics
Matches: 56, Mismatches: 18, Indels: 7
0.69 0.22 0.09
Matches are distributed among these distances:
12 4 0.07
13 30 0.54
14 22 0.39
ACGTcount: A:0.27, C:0.01, G:0.25, T:0.46
Consensus pattern (13 bp):
TTTAGGGTTTAGA
Found at i:15296598 original size:51 final size:51
Alignment explanation
Indices: 15296542--15296720 Score: 193
Period size: 51 Copynumber: 3.5 Consensus size: 51
15296532 TAGGGGCTTC
*
15296542 GAAACTTTAAAAATCTCAACTTTAAAAAGGTTCCTCCTAAACAAAGGCTTT
1 GAAACTTTAAAAATCTCAACTTTAAAAAGGTTCCTCCTAAACAAAGACTTT
* * * *
15296593 GAAACTTCAAAAATCTTAACTTTGAAAAGGCTT-CTCCTAAACAAAGATTTT
1 GAAACTTTAAAAATCTCAACTTTAAAAAGG-TTCCTCCTAAACAAAGACTTT
* * * * * *
15296644 AAAACTTTAAAAATATCCATTTTGAAAA--TCCCTTCCTAAACAAAGACTTT
1 GAAACTTTAAAAATCTCAACTTTAAAAAGGTTCC-TCCTAAACAAAGACTTT
* * *
15296694 GAAACTTTTAAAATCTTATCTTTAAAA
1 GAAACTTTAAAAATCTCAACTTTAAAA
15296721 TTCTCATCTT
Statistics
Matches: 104, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
48 1 0.01
49 1 0.01
50 35 0.34
51 65 0.62
52 2 0.02
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.32
Consensus pattern (51 bp):
GAAACTTTAAAAATCTCAACTTTAAAAAGGTTCCTCCTAAACAAAGACTTT
Found at i:15296729 original size:15 final size:15
Alignment explanation
Indices: 15296700--15296741 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
15296690 CTTTGAAACT
*
15296700 TTTAAAA-TCTTATC
1 TTTAAAATTCTCATC
15296714 TTTAAAATTCTCATC
1 TTTAAAATTCTCATC
15296729 TTTGAAAAGTTCT
1 TTT-AAAA-TTCT
15296742 TCCTCAGCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 7 0.29
15 9 0.38
16 4 0.17
17 4 0.17
ACGTcount: A:0.33, C:0.14, G:0.05, T:0.48
Consensus pattern (15 bp):
TTTAAAATTCTCATC
Found at i:15296933 original size:19 final size:19
Alignment explanation
Indices: 15296909--15296952 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
15296899 TTTTCTTTGG
*
15296909 GTTTTCTTAAAATGTATTT
1 GTTTTCTGAAAATGTATTT
**
15296928 GTTTTCTGATGATGTATTT
1 GTTTTCTGAAAATGTATTT
15296947 GTTTTC
1 GTTTTC
15296953 CCAAAATCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.18, C:0.07, G:0.16, T:0.59
Consensus pattern (19 bp):
GTTTTCTGAAAATGTATTT
Found at i:15297479 original size:83 final size:84
Alignment explanation
Indices: 15297369--15297534 Score: 212
Period size: 83 Copynumber: 2.0 Consensus size: 84
15297359 TTGTCTTCAT
* *
15297369 TTTCATTTCATTCAATCATTTCTCAATCACCTATCATTCCCATGTCCATTCATTTCCTTATCT-T
1 TTTCATTTCATTCAATCATTTCTCAATCACCCATCATTCCCATGTCCATTCATTTCC-CAT-TAT
*
15297433 TTCATTTATC-ATTTTTTTTA
64 TTCATTCATCAATTTTTTTTA
* * * ** *
15297453 TTTCA-TTCATTCATTCATTTTTCAATCACCCGTCATTCTTATTTCCATTCATTTCCCATTATTT
1 TTTCATTTCATTCAATCATTTCTCAATCACCCATCATTCCCATGTCCATTCATTTCCCATTATTT
15297517 CATTCATCAATTTTTTTT
66 CATTCATCAATTTTTTTT
15297535 TCATTTTTTT
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
81 1 0.01
82 12 0.17
83 53 0.75
84 5 0.07
ACGTcount: A:0.21, C:0.25, G:0.01, T:0.53
Consensus pattern (84 bp):
TTTCATTTCATTCAATCATTTCTCAATCACCCATCATTCCCATGTCCATTCATTTCCCATTATTT
CATTCATCAATTTTTTTTA
Found at i:15299328 original size:37 final size:38
Alignment explanation
Indices: 15299264--15299341 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 38
15299254 TTCCCTTATG
*
15299264 TACTTTTACAAGTATCTTCTTTGCTTTTGTGGTATTCA
1 TACTTTTACAAGTATCTTCTTTGCTTTTGCGGTATTCA
* *
15299302 TACTTTTTCAAGT-TTTTCTTTGCTTTTGCGGTATTCA
1 TACTTTTACAAGTATCTTCTTTGCTTTTGCGGTATTCA
15299339 TAC
1 TAC
15299342 ATCTTAGTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
37 25 0.68
38 12 0.32
ACGTcount: A:0.17, C:0.17, G:0.13, T:0.54
Consensus pattern (38 bp):
TACTTTTACAAGTATCTTCTTTGCTTTTGCGGTATTCA
Found at i:15308181 original size:19 final size:19
Alignment explanation
Indices: 15308159--15308213 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
15308149 TAGGATCTCA
15308159 AGTTTTACTTAGAGTTTAG
1 AGTTTTACTTAGAGTTTAG
* *
15308178 AGTTTTACTAAAAGTCTTAG
1 AGTTTTACTTAGAGT-TTAG
*
15308198 -GTTTTACTTAGGGTTT
1 AGTTTTACTTAGAGTTT
15308214 TTAGGTTTCA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 2 0.07
19 24 0.80
20 4 0.13
ACGTcount: A:0.25, C:0.07, G:0.20, T:0.47
Consensus pattern (19 bp):
AGTTTTACTTAGAGTTTAG
Found at i:15308472 original size:50 final size:51
Alignment explanation
Indices: 15308350--15308486 Score: 179
Period size: 50 Copynumber: 2.7 Consensus size: 51
15308340 AGCAAACTTG
* *
15308350 TTTTTTATAATTTCTCTAAAATTAATTTTTTATACTTACTCGGAAGAAGTTCAT
1 TTTTTTATAATTTCT-AAAAATTAA-TTTTTATA-TTACTCGGAACAAGTTCAT
* * * *
15308404 TTTTTCATAATTTTTAAAAATTAATTTTTATATTATTTGGAACAAGTTC-T
1 TTTTTTATAATTTCTAAAAATTAATTTTTATATTACTCGGAACAAGTTCAT
15308454 TTTTTTATAATTTCTAAAAATTAA-TTTTATATT
1 TTTTTTATAATTTCTAAAAATTAATTTTTATATT
15308487 TTTACCTATT
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
49 9 0.12
50 23 0.31
51 14 0.19
52 8 0.11
53 8 0.11
54 13 0.17
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.54
Consensus pattern (51 bp):
TTTTTTATAATTTCTAAAAATTAATTTTTATATTACTCGGAACAAGTTCAT
Found at i:15308481 original size:25 final size:25
Alignment explanation
Indices: 15308350--15308481 Score: 79
Period size: 25 Copynumber: 5.1 Consensus size: 25
15308340 AGCAAACTTG
*
15308350 TTTTTTATAATTTCTCTAAAATTAA-
1 TTTTTTATAATTTCT-AAAAATTAAT
* * * *
15308375 TTTTTTATACTTACTCGGAAGAAGTTCAT
1 TTTTTTATAATT--TC-TAA-AAATTAAT
* *
15308404 TTTTTCATAATTTTTAAAAATTAAT
1 TTTTTTATAATTTCTAAAAATTAAT
* * ** * *
15308429 TTTTATATTATTTGGAACAAGTT-CT
1 TTTTTTATAATTTCTAA-AAATTAAT
15308454 TTTTTTATAATTTCTAAAAATTAAT
1 TTTTTTATAATTTCTAAAAATTAAT
15308479 TTT
1 TTT
15308482 ATATTTTTAC
Statistics
Matches: 76, Mismatches: 24, Indels: 14
0.67 0.21 0.12
Matches are distributed among these distances:
24 4 0.05
25 47 0.62
26 6 0.08
27 4 0.05
28 5 0.07
29 10 0.13
ACGTcount: A:0.33, C:0.08, G:0.05, T:0.54
Consensus pattern (25 bp):
TTTTTTATAATTTCTAAAAATTAAT
Found at i:15309111 original size:99 final size:99
Alignment explanation
Indices: 15308940--15309138 Score: 353
Period size: 99 Copynumber: 2.0 Consensus size: 99
15308930 ATAACAATGA
** * *
15308940 AAATGCAATTAGCCATTCAAACACTCATATAATTTAGGTATATTTTTTAATTTTTTATTTATATT
1 AAATGCAAAGAGCCATTCAAACACTCATATAATTTAGGTATATCTTTTAATTTTTTATTAATATT
15309005 TCTATGTTTATTATTTATTGTTTTATTTATTTAT
66 TCTATGTTTATTATTTATTGTTTTATTTATTTAT
*
15309039 AAATGCAAAGAGCCATTCAAACACTCATATAATTTAGGTATATCTTTTATTTTTTTATTAATATT
1 AAATGCAAAGAGCCATTCAAACACTCATATAATTTAGGTATATCTTTTAATTTTTTATTAATATT
15309104 TCTATGTTTATTATTTATTGTTTTATTTATTTAT
66 TCTATGTTTATTATTTATTGTTTTATTTATTTAT
15309138 A
1 A
15309139 TTCTAAAAAA
Statistics
Matches: 95, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
99 95 1.00
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.54
Consensus pattern (99 bp):
AAATGCAAAGAGCCATTCAAACACTCATATAATTTAGGTATATCTTTTAATTTTTTATTAATATT
TCTATGTTTATTATTTATTGTTTTATTTATTTAT
Found at i:15310646 original size:8 final size:8
Alignment explanation
Indices: 15310633--15310680 Score: 57
Period size: 8 Copynumber: 6.4 Consensus size: 8
15310623 TTTTACTTAA
15310633 TTTTATAT
1 TTTTATAT
15310641 TTTTATA-
1 TTTTATAT
*
15310648 TTAT-TAT
1 TTTTATAT
*
15310655 TTTTATAA
1 TTTTATAT
15310663 TTTTAT-T
1 TTTTATAT
15310670 TTTTATAT
1 TTTTATAT
15310678 TTT
1 TTT
15310681 ATTTAATGAC
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
6 2 0.06
7 12 0.36
8 19 0.58
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTATAT
Found at i:15310657 original size:14 final size:13
Alignment explanation
Indices: 15310638--15310684 Score: 67
Period size: 14 Copynumber: 3.4 Consensus size: 13
15310628 CTTAATTTTA
15310638 TATTTTTATATTAT
1 TATTTTTATATT-T
15310652 TATTTTTATAATTT
1 TATTTTTAT-ATTT
15310666 TATTTTTTATATTT
1 TA-TTTTTATATTT
15310680 TATTT
1 TATTT
15310685 AATGACCAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
13 3 0.10
14 18 0.58
15 10 0.32
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
TATTTTTATATTT
Found at i:15310659 original size:22 final size:22
Alignment explanation
Indices: 15310624--15310682 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
15310614 TTTCCTTTCT
*
15310624 TTTACTTA-ATTTTATATTTTTA
1 TTTA-TTATATTTTATAATTTTA
15310646 TATTATTAT-TTTTATAATTTTA
1 T-TTATTATATTTTATAATTTTA
*
15310668 TTTTTTATATTTTAT
1 TTTATTATATTTTAT
15310683 TTAATGACCA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 6 0.19
22 23 0.72
23 3 0.09
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTATTATATTTTATAATTTTA
Found at i:15310877 original size:18 final size:19
Alignment explanation
Indices: 15310849--15310889 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
15310839 AATGGATGAT
15310849 CAAAGCCCAA-TTACAAAAA
1 CAAAGCCCAATTTA-AAAAA
15310868 CAAA-CCCAATTTAAAAAA
1 CAAAGCCCAATTTAAAAAA
15310886 CAAA
1 CAAA
15310890 ATATCCTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.61, C:0.24, G:0.02, T:0.12
Consensus pattern (19 bp):
CAAAGCCCAATTTAAAAAA
Found at i:15311792 original size:13 final size:13
Alignment explanation
Indices: 15311774--15311801 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
15311764 AAGAGTCACC
15311774 CTCTATTTGATGT
1 CTCTATTTGATGT
15311787 CTCTATTTGATGT
1 CTCTATTTGATGT
15311800 CT
1 CT
15311802 ACTTTCCGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.18, G:0.14, T:0.54
Consensus pattern (13 bp):
CTCTATTTGATGT
Found at i:15312066 original size:13 final size:12
Alignment explanation
Indices: 15312050--15312088 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
15312040 TTTCAAGCAA
15312050 TTTTTTCTTCTTT
1 TTTTTTCTT-TTT
15312063 TTTTTTCTTTTT
1 TTTTTTCTTTTT
*
15312075 TTTTTCCTTTTT
1 TTTTTTCTTTTT
15312087 TT
1 TT
15312089 CCTTTTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 16 0.64
13 9 0.36
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (12 bp):
TTTTTTCTTTTT
Found at i:15312076 original size:10 final size:10
Alignment explanation
Indices: 15312050--15312097 Score: 60
Period size: 10 Copynumber: 4.7 Consensus size: 10
15312040 TTTCAAGCAA
*
15312050 TTTTTTCTTC
1 TTTTTTTTTC
15312060 TTTTTTTTTC
1 TTTTTTTTTC
15312070 TTTTTTTTTTC
1 -TTTTTTTTTC
* *
15312081 CTTTTTTTCC
1 TTTTTTTTTC
15312091 TTTTTTT
1 TTTTTTT
15312098 AAAACAAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
10 23 0.70
11 10 0.30
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:15312076 original size:21 final size:21
Alignment explanation
Indices: 15312050--15312097 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
15312040 TTTCAAGCAA
* *
15312050 TTTTTTCTTCTTTTTTTTTCT
1 TTTTTTCTTCCTTTTTTTCCT
*
15312071 TTTTTTTTTCCTTTTTTTCCT
1 TTTTTTCTTCCTTTTTTTCCT
15312092 TTTTTT
1 TTTTTT
15312098 AAAACAAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (21 bp):
TTTTTTCTTCCTTTTTTTCCT
Found at i:15312751 original size:10 final size:10
Alignment explanation
Indices: 15312736--15312779 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
15312726 AATCAAAACC
15312736 TTTTTCATTT
1 TTTTTCATTT
*
15312746 TTTTTCAATT
1 TTTTTCATTT
**
15312756 TTTTGGATTT
1 TTTTTCATTT
*
15312766 TTTTTAATTT
1 TTTTTCATTT
15312776 TTTT
1 TTTT
15312780 ACTTTTTAAG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.77
Consensus pattern (10 bp):
TTTTTCATTT
Found at i:15312786 original size:19 final size:20
Alignment explanation
Indices: 15312742--15312778 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
15312732 AACCTTTTTC
15312742 ATTTTTTTTCAATTTTTTGG
1 ATTTTTTTTCAATTTTTTGG
15312762 ATTTTTTTT-AATTTTTT
1 ATTTTTTTTCAATTTTTT
15312779 TACTTTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.16, C:0.03, G:0.05, T:0.76
Consensus pattern (20 bp):
ATTTTTTTTCAATTTTTTGG
Found at i:15313766 original size:20 final size:20
Alignment explanation
Indices: 15313743--15313786 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
15313733 GAGTTTATGA
*
15313743 TTTACAGTTTGGGTTTAAAG
1 TTTACAGTTTAGGTTTAAAG
**
15313763 TTTATGGTTTAGGTTTAAAG
1 TTTACAGTTTAGGTTTAAAG
15313783 TTTA
1 TTTA
15313787 GGGCTTAGGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.25, C:0.02, G:0.23, T:0.50
Consensus pattern (20 bp):
TTTACAGTTTAGGTTTAAAG
Found at i:15313771 original size:14 final size:14
Alignment explanation
Indices: 15313727--15313773 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
15313717 TAGGGTATAG
*
15313727 GGTTTAGAGTTTAT
1 GGTTTAAAGTTTAT
* * *
15313741 GATTTACAGTTT-G
1 GGTTTAAAGTTTAT
15313754 GGTTTAAAGTTTAT
1 GGTTTAAAGTTTAT
15313768 GGTTTA
1 GGTTTA
15313774 GGTTTAAAGT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
13 10 0.38
14 16 0.62
ACGTcount: A:0.23, C:0.02, G:0.26, T:0.49
Consensus pattern (14 bp):
GGTTTAAAGTTTAT
Found at i:15313794 original size:20 final size:20
Alignment explanation
Indices: 15313754--15313795 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
15313744 TTACAGTTTG
* *
15313754 GGTTTAAAGTTTATGGTTTA
1 GGTTTAAAGTTTAGGGCTTA
15313774 GGTTTAAAGTTTAGGGCTTA
1 GGTTTAAAGTTTAGGGCTTA
15313794 GG
1 GG
15313796 GTTTGATTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.02, G:0.31, T:0.43
Consensus pattern (20 bp):
GGTTTAAAGTTTAGGGCTTA
Found at i:15321847 original size:12 final size:11
Alignment explanation
Indices: 15321811--15321848 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
15321801 TTTCTTTTGC
15321811 TTAATTAAGC-
1 TTAATTAAGCT
*
15321821 TTAATTAAACT
1 TTAATTAAGCT
15321832 TTAATTCAAGCT
1 TTAATT-AAGCT
15321844 TTAAT
1 TTAAT
15321849 CTTCATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 9 0.38
11 6 0.25
12 9 0.38
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (11 bp):
TTAATTAAGCT
Found at i:15321973 original size:23 final size:23
Alignment explanation
Indices: 15321946--15321990 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
15321936 GTCATTTGCA
*
15321946 TTGGTGATTTTTAAAAGCTACAT
1 TTGGTGAGTTTTAAAAGCTACAT
*
15321969 TTGGTGAGTTTTAGAAGCTACA
1 TTGGTGAGTTTTAAAAGCTACA
15321991 AGTAAAGCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (23 bp):
TTGGTGAGTTTTAAAAGCTACAT
Found at i:15322468 original size:19 final size:20
Alignment explanation
Indices: 15322444--15322489 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
15322434 GGATAGCTAG
*
15322444 CCATTTATGGA-GTTTTTTT
1 CCATTTAGGGAGGTTTTTTT
*
15322463 CCATTTGGGGAGTGTTTTTTT
1 CCATTTAGGGAG-GTTTTTTT
15322484 CCATTT
1 CCATTT
15322490 TTCTAGTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 9 0.39
21 14 0.61
ACGTcount: A:0.13, C:0.13, G:0.20, T:0.54
Consensus pattern (20 bp):
CCATTTAGGGAGGTTTTTTT
Found at i:15326108 original size:17 final size:17
Alignment explanation
Indices: 15326086--15326119 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15326076 TATTTTGATG
15326086 TTTGTTGATTTACTTAT
1 TTTGTTGATTTACTTAT
* *
15326103 TTTGTTGTTTTTCTTAT
1 TTTGTTGATTTACTTAT
15326120 GTTCCTTTGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.06, G:0.12, T:0.71
Consensus pattern (17 bp):
TTTGTTGATTTACTTAT
Found at i:15326347 original size:10 final size:10
Alignment explanation
Indices: 15326329--15326363 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
15326319 GGAAACTTGC
15326329 TTAAAATTTT
1 TTAAAATTTT
*
15326339 TTAAGATTTT
1 TTAAAATTTT
15326349 TTAAAATTTT
1 TTAAAATTTT
15326359 CTTAA
1 -TTAA
15326364 GTTTTACCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 18 0.82
11 4 0.18
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (10 bp):
TTAAAATTTT
Found at i:15326354 original size:20 final size:20
Alignment explanation
Indices: 15326329--15326368 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
15326319 GGAAACTTGC
15326329 TTAAAATTTT-TTAAGATTTT
1 TTAAAATTTTCTTAAG-TTTT
15326349 TTAAAATTTTCTTAAGTTTT
1 TTAAAATTTTCTTAAGTTTT
15326369 ACCTTGAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (20 bp):
TTAAAATTTTCTTAAGTTTT
Found at i:15333256 original size:17 final size:17
Alignment explanation
Indices: 15333234--15333266 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15333224 TCACGAGTGA
*
15333234 TAAGATCACCTTGGTAC
1 TAAGATCACCTCGGTAC
15333251 TAAGATCACCTCGGTA
1 TAAGATCACCTCGGTA
15333267 ATTATATTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.27
Consensus pattern (17 bp):
TAAGATCACCTCGGTAC
Found at i:15341431 original size:16 final size:16
Alignment explanation
Indices: 15341410--15341440 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
15341400 CATGTACTTT
15341410 ATTTATTTGTAGTTTG
1 ATTTATTTGTAGTTTG
15341426 ATTTATTTGTAGTTT
1 ATTTATTTGTAGTTT
15341441 TGGGAGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.16, T:0.65
Consensus pattern (16 bp):
ATTTATTTGTAGTTTG
Found at i:15345102 original size:139 final size:138
Alignment explanation
Indices: 15344853--15345126 Score: 476
Period size: 139 Copynumber: 2.0 Consensus size: 138
15344843 TCCTAGAAAA
* * *
15344853 AGACATTAGAATCAATTTATAGAGCTGTAGATTAAGACTCTAGTAATCGTATTCTAGGGTTTTAT
1 AGACATTAGAATCAATTTATAGAGATGTAGATTAAGACTCTAGTAACCATATTCTAGGGTTTTAT
* * *
15344918 GTTCTGACATAAGTCAGCTTAAGGTGCATGCTACTTGTTGAGAATGAATGTAGTTAGAAATGAGA
66 GTTCTAACATAAGTCAGCTTAAGGTGCATGCTACATGTAGAGAATGAATGTAGTTAGAAATGAGA
15344983 GTCATGTT
131 GTCATGTT
15344991 AGACATTAGAATCAATTTATAGAGATGTAGATTAAGACTCTAGTAACCATATTACTAGGGTTTTA
1 AGACATTAGAATCAATTTATAGAGATGTAGATTAAGACTCTAGTAACCATATT-CTAGGGTTTTA
*
15345056 TGTTCTAACATAAGTCAGCTTAAGGTGCATGCTACATGTAGAGAATGAATGTAGTTAGAGATGAG
65 TGTTCTAACATAAGTCAGCTTAAGGTGCATGCTACATGTAGAGAATGAATGTAGTTAGAAATGAG
15345121 AGTCAT
130 AGTCAT
15345127 TTTTGGTTTA
Statistics
Matches: 128, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
138 50 0.39
139 78 0.61
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.33
Consensus pattern (138 bp):
AGACATTAGAATCAATTTATAGAGATGTAGATTAAGACTCTAGTAACCATATTCTAGGGTTTTAT
GTTCTAACATAAGTCAGCTTAAGGTGCATGCTACATGTAGAGAATGAATGTAGTTAGAAATGAGA
GTCATGTT
Found at i:15347762 original size:24 final size:24
Alignment explanation
Indices: 15347730--15347810 Score: 94
Period size: 24 Copynumber: 3.4 Consensus size: 24
15347720 TCATATAATC
15347730 ATTTATTTAACATTTTCATAATAT
1 ATTTATTTAACATTTTCATAATAT
* * *
15347754 ATTTATTTAAC-TTATGA-ATATCT
1 ATTTATTTAACATTTTCATA-ATAT
15347777 GATTTATTTAACATTTTCATAATAT
1 -ATTTATTTAACATTTTCATAATAT
*
15347802 ATCTATTTA
1 ATTTATTTA
15347811 TTTAACTTGC
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
22 1 0.02
23 7 0.15
24 30 0.65
25 7 0.15
26 1 0.02
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.53
Consensus pattern (24 bp):
ATTTATTTAACATTTTCATAATAT
Found at i:15358118 original size:16 final size:17
Alignment explanation
Indices: 15358093--15358193 Score: 81
Period size: 16 Copynumber: 6.2 Consensus size: 17
15358083 CATTCTATCC
15358093 TTTC-TTTTCC-TTCCA
1 TTTCTTTTTCCTTTCCA
*
15358108 TTTCTTTTTCCTTTCCC
1 TTTCTTTTTCCTTTCCA
*
15358125 TTTC-ATTTCCTTTCTC-
1 TTTCTTTTTCCTTTC-CA
*
15358141 TTTCTTTTCCCTTT-CA
1 TTTCTTTTTCCTTTCCA
* *
15358157 TTTC-CTTTCTATTTCC-
1 TTTCTTTTTC-CTTTCCA
15358173 TTTCCTTTTTCCTTTCCA
1 TTT-CTTTTTCCTTTCCA
15358191 TTT
1 TTT
15358194 GATTTTAGAA
Statistics
Matches: 67, Mismatches: 9, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
15 8 0.12
16 29 0.43
17 23 0.34
18 7 0.10
ACGTcount: A:0.05, C:0.32, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTCTTTTTCCTTTCCA
Found at i:15358128 original size:11 final size:11
Alignment explanation
Indices: 15358114--15358193 Score: 67
Period size: 11 Copynumber: 7.3 Consensus size: 11
15358104 TCCATTTCTT
*
15358114 TTTCCTTTCCC
1 TTTCCTTTCCA
*
15358125 TTTCATTTCC-
1 TTTCCTTTCCA
*
15358135 TTTCTCTTT-CT
1 TTTC-CTTTCCA
15358146 TTTCCCTTT-CA
1 TTT-CCTTTCCA
*
15358157 TTTCCTTTCTA
1 TTTCCTTTCCA
*
15358168 TTTCCTTTCCTT
1 TTTCCTTTCC-A
15358180 TTTCCTTTCCA
1 TTTCCTTTCCA
15358191 TTT
1 TTT
15358194 GATTTTAGAA
Statistics
Matches: 57, Mismatches: 7, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
10 10 0.18
11 36 0.63
12 11 0.19
ACGTcount: A:0.05, C:0.33, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTCCTTTCCA
Found at i:15358138 original size:27 final size:27
Alignment explanation
Indices: 15358103--15358177 Score: 114
Period size: 27 Copynumber: 2.7 Consensus size: 27
15358093 TTTCTTTTCC
*
15358103 TTCCATTTCTTTTTCCTTTCCCTTTCAT
1 TTCC-TTTCTATTTCCTTTCCCTTTCAT
* *
15358131 TTCCTTTCTCTTTCTTTTCCCTTTCAT
1 TTCCTTTCTATTTCCTTTCCCTTTCAT
15358158 TTCCTTTCTATTTCCTTTCC
1 TTCCTTTCTATTTCCTTTCC
15358178 TTTTTCCTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 39 0.91
28 4 0.09
ACGTcount: A:0.05, C:0.33, G:0.00, T:0.61
Consensus pattern (27 bp):
TTCCTTTCTATTTCCTTTCCCTTTCAT
Found at i:15365664 original size:15 final size:13
Alignment explanation
Indices: 15365640--15365693 Score: 58
Period size: 14 Copynumber: 4.1 Consensus size: 13
15365630 GTGGTGAAGT
15365640 AAATTATAATGAAA
1 AAATTATAAT-AAA
15365654 AAATTATTAATAAA
1 AAATTA-TAATAAA
*
15365668 AATATTA-AATTAA
1 AA-ATTATAATAAA
15365681 AAATTAT-ATAAA
1 AAATTATAATAAA
15365693 A
1 A
15365694 CAAAATACTA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
12 9 0.26
13 7 0.20
14 11 0.31
15 8 0.23
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (13 bp):
AAATTATAATAAA
Done.