Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167993.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_25, 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: 17943224
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 94000 characters in sequence are not A, C, G, or T
File 55 of 100
Found at i:10120952 original size:41 final size:41
Alignment explanation
Indices: 10120857--10120960 Score: 131
Period size: 41 Copynumber: 2.6 Consensus size: 41
10120847 AGAAAGGTTC
* *
10120857 CCTC-TAAACAGAGGCTTTAAAATCTTGATTGAAATTGGTT
1 CCTCGTAAACAGAGGCTTTAAAATCTTGATTGAAATCGATT
* *
10120897 CCTCTTAAATAGAGGCTTTAAAATCTTGATTGAGAA-CGATT
1 CCTCGTAAACAGAGGCTTTAAAATCTTGATTGA-AATCGATT
**
10120938 TTTCGTAAACAGAGGCTTTAAAA
1 CCTCGTAAACAGAGGCTTTAAAA
10120961 CTTTAAAAAC
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
40 4 0.07
41 49 0.89
42 2 0.04
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (41 bp):
CCTCGTAAACAGAGGCTTTAAAATCTTGATTGAAATCGATT
Found at i:10122691 original size:16 final size:15
Alignment explanation
Indices: 10122660--10122715 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 15
10122650 GAATATGTCC
10122660 CTTTTGTTTATTTTTTT
1 CTTTT-TTT-TTTTTTT
*
10122677 CTCTTTTTTTTTTTTA
1 CT-TTTTTTTTTTTTT
*
10122693 CTTTTTTTTATTTTT
1 CTTTTTTTTTTTTTT
*
10122708 ATTTTTTT
1 CTTTTTTT
10122716 ATGCCACATC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
15 18 0.53
16 8 0.24
17 5 0.15
18 3 0.09
ACGTcount: A:0.07, C:0.07, G:0.02, T:0.84
Consensus pattern (15 bp):
CTTTTTTTTTTTTTT
Found at i:10122697 original size:24 final size:22
Alignment explanation
Indices: 10122661--10122717 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
10122651 AATATGTCCC
* *
10122661 TTTTGTTTATTTTTTTCTCTTTT
1 TTTTTTTTATTTTTTT-TATTTT
10122684 TTTTTTTTACTTTTTTTTATTTT
1 TTTTTTTTA-TTTTTTTTATTTT
10122707 TATTTTTTTAT
1 T-TTTTTTTAT
10122718 GCCACATCCT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 15 0.50
24 15 0.50
ACGTcount: A:0.09, C:0.05, G:0.02, T:0.84
Consensus pattern (22 bp):
TTTTTTTTATTTTTTTTATTTT
Found at i:10122716 original size:14 final size:15
Alignment explanation
Indices: 10122660--10122717 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 15
10122650 GAATATGTCC
*
10122660 CTTTTGTTTATTTTTTT
1 CTTTT-TTTA-TTTTTA
*
10122677 CTCTTTTTTTTTTTTA
1 CT-TTTTTTATTTTTA
10122693 CTTTTTTTTATTTTTA
1 C-TTTTTTTATTTTTA
10122709 -TTTTTTTAT
1 CTTTTTTTAT
10122718 GCCACATCCT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
14 9 0.25
16 18 0.50
17 6 0.17
18 3 0.08
ACGTcount: A:0.09, C:0.07, G:0.02, T:0.83
Consensus pattern (15 bp):
CTTTTTTTATTTTTA
Found at i:10127557 original size:5 final size:5
Alignment explanation
Indices: 10127547--10127571 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
10127537 GCACACAATC
10127547 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
10127572 GACTCAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:10129316 original size:16 final size:16
Alignment explanation
Indices: 10129295--10129325 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10129285 TTAGGGTTTT
10129295 GATTTTAGAGTTTGGA
1 GATTTTAGAGTTTGGA
*
10129311 GATTTTAGGGTTTGG
1 GATTTTAGAGTTTGG
10129326 GTTTTGAGGT
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:0.19, C:0.00, G:0.35, T:0.45
Consensus pattern (16 bp):
GATTTTAGAGTTTGGA
Found at i:10129390 original size:16 final size:16
Alignment explanation
Indices: 10129340--10129390 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
10129330 TGAGGTTTAA
*
10129340 GGTTTT-GA-TTTAAG
1 GGTTTTGGATTTTAGG
*
10129354 GG-TTTGGATTTTAGA
1 GGTTTTGGATTTTAGG
*
10129369 GATTTTGGATTTTAGG
1 GGTTTTGGATTTTAGG
10129385 GGTTTT
1 GGTTTT
10129391 AGAAACCTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
13 3 0.10
14 4 0.14
15 5 0.17
16 17 0.59
ACGTcount: A:0.18, C:0.00, G:0.31, T:0.51
Consensus pattern (16 bp):
GGTTTTGGATTTTAGG
Found at i:10130873 original size:29 final size:29
Alignment explanation
Indices: 10130833--10130889 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
10130823 CTACTTTCTG
*
10130833 TTTTTTTGT-TTTTTTATT-AATAATTAT
1 TTTTTTTTTATTTTTTATTAAATAATTAT
*
10130860 TTTTTTTTTATTTTTTATTAAATTATTAT
1 TTTTTTTTTATTTTTTATTAAATAATTAT
10130889 T
1 T
10130890 ATTATTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 8 0.31
28 9 0.35
29 9 0.35
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (29 bp):
TTTTTTTTTATTTTTTATTAAATAATTAT
Found at i:10133587 original size:10 final size:10
Alignment explanation
Indices: 10133563--10133592 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
10133553 TATTTTATCA
10133563 ATTAAAATA-
1 ATTAAAATAT
10133572 ATTAAAATAT
1 ATTAAAATAT
10133582 ATTAAAATAT
1 ATTAAAATAT
10133592 A
1 A
10133593 AAACTCGCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:10135669 original size:22 final size:23
Alignment explanation
Indices: 10135643--10135696 Score: 83
Period size: 22 Copynumber: 2.4 Consensus size: 23
10135633 ATTAAAAATC
*
10135643 GAATAATTTTAAATTGATTAAAA
1 GAATAATTTTAAATTAATTAAAA
*
10135666 -AATAAATTTAAATTAATTAAAA
1 GAATAATTTTAAATTAATTAAAA
10135688 GAATAATTT
1 GAATAATTT
10135697 GAACAAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 20 0.74
23 7 0.26
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (23 bp):
GAATAATTTTAAATTAATTAAAA
Found at i:10135939 original size:2 final size:2
Alignment explanation
Indices: 10135923--10135965 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
10135913 CTACTCATTG
*
10135923 AT AT AT GT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10135964 AT
1 AT
10135966 TCACGTTGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10136564 original size:21 final size:19
Alignment explanation
Indices: 10136540--10136602 Score: 58
Period size: 21 Copynumber: 3.2 Consensus size: 19
10136530 AATTGGTGTC
10136540 TTATAAAATAGTTAAAAAGTA
1 TTATAAAATA-TTAAAAA-TA
10136561 TTATAAAATA--AAAAATAA
1 TTATAAAATATTAAAAAT-A
*
10136579 TTATAAAAAAATTAAAAAATA
1 TTAT-AAAATATT-AAAAATA
10136600 TTA
1 TTA
10136603 ACATAAAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
17 1 0.03
18 10 0.28
19 5 0.14
21 14 0.39
22 6 0.17
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (19 bp):
TTATAAAATATTAAAAATA
Found at i:10136610 original size:21 final size:22
Alignment explanation
Indices: 10136563--10136612 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
10136553 AAAAAGTATT
10136563 ATAAAA-TAAAAAATAATTATA
1 ATAAAATTAAAAAATAATTATA
*
10136584 AAAAAATTAAAAAAT-ATTA-A
1 ATAAAATTAAAAAATAATTATA
10136604 CATAAAATT
1 -ATAAAATT
10136613 CTTTCAAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 1 0.04
21 16 0.64
22 8 0.32
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (22 bp):
ATAAAATTAAAAAATAATTATA
Found at i:10139704 original size:17 final size:17
Alignment explanation
Indices: 10139682--10139721 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
10139672 GGCAACATAA
* *
10139682 AAAAAATTATTATAAAT
1 AAAAAATAATTATAAAC
*
10139699 AAAAAATAATTCTAAAC
1 AAAAAATAATTATAAAC
10139716 AAAAAA
1 AAAAAA
10139722 AAAGTGTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (17 bp):
AAAAAATAATTATAAAC
Found at i:10140335 original size:216 final size:216
Alignment explanation
Indices: 10139799--10140347 Score: 531
Period size: 221 Copynumber: 2.5 Consensus size: 216
10139789 ATGTCGTAAG
* * * * * * * * *
10139799 ATAAAATGATAAGACTAATTATAAAATTAGTGTCATTTGACGTAAATTGGATTAAAAATGTCATA
1 ATAAAATAATGAGAATAATCATAAAATTAGTGTCATTTGATGTAAAATGG-TTAAAAGTATCATT
* * * ** * *
10139864 ACAGCTTGAT-AAAAAGTTGTAATAATTTTAAATATAATAAAAAGTAGGAACAAGTATAAAAAAA
65 ACACCTT-ATAAAAAAATTATAATAATTTTAAACGTAATGAAAAGTAAGAACAAGTATAAAAAAA
** *
10139928 TATTATTATAACATAAATAATATTTTTGGAAATATAAAAGAATTATTATTACAAATAAATAATAA
129 TATTATTATAACATAAATAATATAGTTGGAAATATAAAAAAATTATTATTACAAATAAATAATAA
*
10139993 TTTTAAACCAAAAAAAAAAGTGTTAAT
194 TTTT--A--AAAAAAAAAAGAGTTAAT
* * * * * * *
10140020 ATAAAA-AAGTGGGAGTAATCATAAAATT-GATATCATTTGGTATAAAATGGTTAGAAGTAT-TT
1 ATAAAATAA-TGAGAATAATCATAAAATTAG-TGTCATTTGATGTAAAATGGTTAAAAGTATCAT
* * * * *
10140082 TAACACCTT-TAAGAAAAAGTTATGATAATTCTAAACGTAATGAAAGGTAATAACAAGTGTAAAA
64 T-ACACCTTATAA-AAAAA-TTATAATAATTTTAAACGTAATGAAAAGTAAGAACAAGTATAAAA
** ** *
10140146 TGATATTATTATAATGTAAATAAT-TAAGTTGGCAATGCA-AAAAAAATTATTATTACAAATAAA
126 AAATATTATTATAACATAAATAATAT-AGTTGGAAAT--ATAAAAAAATTATTATTACAAATAAA
* *
10140209 -AATAATTTT-TAAAAAATAAGAGTTAAT
188 TAATAATTTTAAAAAAAAAAAGAGTTAAT
* *
10140236 ATAAAATAATGAGAATAATCATAAAATTAGTGTTATTTTATGTAAAATGGTTAAAAGTATCATTA
1 ATAAAATAATGAGAATAATCATAAAATTAGTGTCATTTGATGTAAAATGGTTAAAAGTATCATTA
10140301 CACCTTAATAAAAAAATTATAATAATTTTAAACGTAATGAAAAGTAA
66 CACCTT-ATAAAAAAATTATAATAATTTTAAACGTAATGAAAAGTAA
10140348 CAGCAAATGC
Statistics
Matches: 264, Mismatches: 50, Indels: 33
0.76 0.14 0.10
Matches are distributed among these distances:
216 97 0.37
217 10 0.04
218 4 0.02
219 2 0.01
220 20 0.08
221 107 0.41
222 23 0.09
223 1 0.00
ACGTcount: A:0.51, C:0.05, G:0.11, T:0.33
Consensus pattern (216 bp):
ATAAAATAATGAGAATAATCATAAAATTAGTGTCATTTGATGTAAAATGGTTAAAAGTATCATTA
CACCTTATAAAAAAATTATAATAATTTTAAACGTAATGAAAAGTAAGAACAAGTATAAAAAAATA
TTATTATAACATAAATAATATAGTTGGAAATATAAAAAAATTATTATTACAAATAAATAATAATT
TTAAAAAAAAAAAGAGTTAAT
Found at i:10141595 original size:27 final size:28
Alignment explanation
Indices: 10141544--10141615 Score: 112
Period size: 29 Copynumber: 2.6 Consensus size: 28
10141534 TATTTTTTTT
10141544 AAATAAATTTTTATATTTTTATTATATTC
1 AAATAAATTTTTAT-TTTTTATTATATTC
10141573 AAATAAATTTTTATTTTTT-TTATATTC
1 AAATAAATTTTTATTTTTTATTATATTC
*
10141600 ATAT-AATTTTTATTTT
1 AAATAAATTTTTATTTT
10141616 AAAATAAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
26 12 0.29
27 11 0.26
28 5 0.12
29 14 0.33
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (28 bp):
AAATAAATTTTTATTTTTTATTATATTC
Found at i:10141771 original size:29 final size:28
Alignment explanation
Indices: 10141686--10141779 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 28
10141676 ATTAGGACAT
* * *
10141686 AAATAAAAGTTTAAAAACTTATTTAGATGA
1 AAATAAAA-ATTAAAAACTTATCTAAAT-A
*
10141716 AAATTAAAAATTAAAAACTTATTTAAATA
1 AAA-TAAAAATTAAAAACTTATCTAAATA
* * *
10141745 CAATAAAAATATACAAATTTATCTAAATA
1 AAATAAAAAT-TAAAAACTTATCTAAATA
10141774 AAATAA
1 AAATAA
10141780 CAAAATTCAG
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
28 7 0.13
29 23 0.42
30 20 0.36
31 5 0.09
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.32
Consensus pattern (28 bp):
AAATAAAAATTAAAAACTTATCTAAATA
Found at i:10145280 original size:26 final size:25
Alignment explanation
Indices: 10145251--10145302 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
10145241 TGTTTTTTTT
10145251 TTTTTAACATTTTA-TATGTAATTTAA
1 TTTTTAAC-TTTTATTATG-AATTTAA
**
10145277 TTTTTTTCTTTTATTATGAATTTAA
1 TTTTTAACTTTTATTATGAATTTAA
10145302 T
1 T
10145303 ATATTAGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (25 bp):
TTTTTAACTTTTATTATGAATTTAA
Found at i:10145456 original size:33 final size:36
Alignment explanation
Indices: 10145406--10145471 Score: 86
Period size: 33 Copynumber: 1.9 Consensus size: 36
10145396 TAGTTTAATT
10145406 ATATTTTATTATAAAATAA-A-TAAAA-TATTACTA
1 ATATTTTATTATAAAATAATATTAAAATTATTACTA
*
10145439 ATATTTTATCT-TTAAATAATATTAAAATTATTA
1 ATATTTTAT-TATAAAATAATATTAAAATTATTA
10145472 ATTTATATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
33 16 0.57
34 2 0.07
35 5 0.18
36 5 0.18
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (36 bp):
ATATTTTATTATAAAATAATATTAAAATTATTACTA
Found at i:10155235 original size:16 final size:15
Alignment explanation
Indices: 10155193--10155238 Score: 60
Period size: 14 Copynumber: 3.1 Consensus size: 15
10155183 ATTATTATTT
*
10155193 TTATTTTTTC-TCTC
1 TTATTTTTTCTTTTC
10155207 TTATTTTTT-TTTTC
1 TTATTTTTTCTTTTC
10155221 TTATCTTTTTCTTTTC
1 TTAT-TTTTTCTTTTC
10155237 TT
1 TT
10155239 TCCTGACAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 16 0.57
15 5 0.18
16 7 0.25
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (15 bp):
TTATTTTTTCTTTTC
Found at i:10161836 original size:29 final size:32
Alignment explanation
Indices: 10161802--10161869 Score: 92
Period size: 30 Copynumber: 2.2 Consensus size: 32
10161792 AATTTCCAGA
10161802 TTCCGGCGGA-AA-TCCGGCG-ACTTTTGAA-T
1 TTCCGGCGGACAATTCCGGCGAAC-TTTGAAGT
10161831 TTCCGGC-GACAATTCCGGCGAACTTTGAAGT
1 TTCCGGCGGACAATTCCGGCGAACTTTGAAGT
10161862 TTCCGGCG
1 TTCCGGCG
10161870 ACAGACCCAG
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
28 2 0.06
29 9 0.26
30 13 0.38
31 10 0.29
ACGTcount: A:0.19, C:0.26, G:0.28, T:0.26
Consensus pattern (32 bp):
TTCCGGCGGACAATTCCGGCGAACTTTGAAGT
Found at i:10161850 original size:30 final size:30
Alignment explanation
Indices: 10161802--10161872 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 30
10161792 AATTTCCAGA
10161802 TTCCGGCGGA-AATCCGGCG-ACTTTTGAA-T
1 TTCCGGC-GACAATCCGGCGAAC-TTTGAAGT
10161831 TTCCGGCGACAATTCCGGCGAACTTTGAAGT
1 TTCCGGCGACAA-TCCGGCGAACTTTGAAGT
10161862 TTCCGGCGACA
1 TTCCGGCGACA
10161873 GACCCAGTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
28 2 0.05
29 9 0.24
30 13 0.34
31 14 0.37
ACGTcount: A:0.21, C:0.27, G:0.27, T:0.25
Consensus pattern (30 bp):
TTCCGGCGACAATCCGGCGAACTTTGAAGT
Found at i:10161958 original size:19 final size:19
Alignment explanation
Indices: 10161936--10161980 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
10161926 CCGGCCCAAT
10161936 TTCCGGCGAAATTCCCAGA
1 TTCCGGCGAAATTCCCAGA
*
10161955 TTCCGGCGAAATTTCCAGA
1 TTCCGGCGAAATTCCCAGA
*
10161974 ATCCGGC
1 TTCCGGC
10161981 ACCGGCGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.22
Consensus pattern (19 bp):
TTCCGGCGAAATTCCCAGA
Found at i:10162210 original size:5 final size:5
Alignment explanation
Indices: 10162200--10162232 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
10162190 TTCAGCCCCT
*
10162200 CCGAG CCGAG CCGAG CCGAG CCAAG CCGAG CCG
1 CCGAG CCGAG CCGAG CCGAG CCGAG CCGAG CCG
10162233 CGATCCGAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.21, C:0.42, G:0.36, T:0.00
Consensus pattern (5 bp):
CCGAG
Found at i:10162932 original size:156 final size:157
Alignment explanation
Indices: 10162317--10162918 Score: 1089
Period size: 157 Copynumber: 3.8 Consensus size: 157
10162307 TTTTTTTTTC
* *
10162317 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATAC
1 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGT-GAAACAGTAGTTTTTCTTGCATAC
10162382 TCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTC
65 TCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTC
* *
10162447 CGATAATTAATTACTTGGCTGATTTTGA
130 CGATAATTAATTAATTGGATGATTTTGA
10162475 TTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCAT
1 ---TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCAT
10162540 ACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATT
63 ACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATT
*
10162605 TCCGATAATTAATTAATTGGTTGATTTTGA
128 TCCGATAATTAATTAATTGGATGATTTTGA
10162635 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
1 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
*
10162700 CCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTC
66 CCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCC
10162765 GATAATTAATTAATTGGATGATTTTGA
131 GATAATTAATTAATTGGATGATTTTGA
*
10162792 -TTTTTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
1 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
*
10162856 CTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTT
66 CCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTT
10162919 TCAACAACTA
Statistics
Matches: 433, Mismatches: 8, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
156 125 0.29
157 155 0.36
160 114 0.26
161 39 0.09
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (157 bp):
TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
CCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCC
GATAATTAATTAATTGGATGATTTTGA
Found at i:10168224 original size:15 final size:14
Alignment explanation
Indices: 10168204--10168233 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
10168194 CAGAAATGCT
10168204 AGAGAAGGCTAGAAG
1 AGAGAAGGCTA-AAG
10168219 AGAGAAGGCTAAAG
1 AGAGAAGGCTAAAG
10168233 A
1 A
10168234 AGGAGAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.50, C:0.07, G:0.37, T:0.07
Consensus pattern (14 bp):
AGAGAAGGCTAAAG
Found at i:10173134 original size:8 final size:8
Alignment explanation
Indices: 10173121--10173217 Score: 54
Period size: 8 Copynumber: 11.6 Consensus size: 8
10173111 CTATGCTTGA
10173121 AAAAAAAT
1 AAAAAAAT
10173129 AAAAAAAT
1 AAAAAAAT
10173137 --AAAAAT
1 AAAAAAAT
10173143 GAGAAAAAAT
1 -A-AAAAAAT
10173153 GAAAAAAAT
1 -AAAAAAAT
**
10173162 GGAAAAAT
1 AAAAAAAT
*
10173170 GAAAAAAT
1 AAAAAAAT
*
10173178 GAAAAATGAT
1 -AAAAA-AAT
*
10173188 GAAAAAAT
1 AAAAAAAT
*
10173196 GAAAAAAT
1 AAAAAAAT
* *
10173204 GGAAAAAAG
1 -AAAAAAAT
10173213 AAAAA
1 AAAAA
10173218 GTGAATGAAA
Statistics
Matches: 73, Mismatches: 9, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
6 6 0.08
8 35 0.48
9 22 0.30
10 10 0.14
ACGTcount: A:0.75, C:0.00, G:0.13, T:0.11
Consensus pattern (8 bp):
AAAAAAAT
Found at i:10173168 original size:42 final size:43
Alignment explanation
Indices: 10173122--10173217 Score: 144
Period size: 43 Copynumber: 2.3 Consensus size: 43
10173112 TATGCTTGAA
10173122 AAAAAATAAAAAAAT-AAAAATGA-GAAAAAATGAAAAAAATGG
1 AAAAAATAAAAAAATGAAAAATGATGAAAAAATG-AAAAAATGG
*
10173164 -AAAAATGAAAAAATGAAAAATGATGAAAAAATGAAAAAATGG
1 AAAAAATAAAAAAATGAAAAATGATGAAAAAATGAAAAAATGG
*
10173206 AAAAAAGAAAAA
1 AAAAAATAAAAA
10173218 GTGAATGAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
41 13 0.27
42 17 0.35
43 18 0.38
ACGTcount: A:0.75, C:0.00, G:0.14, T:0.11
Consensus pattern (43 bp):
AAAAAATAAAAAAATGAAAAATGATGAAAAAATGAAAAAATGG
Found at i:10173183 original size:26 final size:24
Alignment explanation
Indices: 10173122--10173222 Score: 109
Period size: 25 Copynumber: 4.1 Consensus size: 24
10173112 TATGCTTGAA
10173122 AAAAAAT-AAAAAAAT-AAAAATGAG
1 AAAAAATGAAAAAAATGAAAAAT--G
10173146 AAAAAATGAAAAAAATGGAAAAATG
1 AAAAAATGAAAAAAAT-GAAAAATG
*
10173171 AAAAAATGAAAAATGATGAAAAAATG
1 AAAAAATGAAAAA-AATG-AAAAATG
*
10173197 AAAAAATGGAAAAAA-GAAAAAGTG
1 AAAAAATGAAAAAAATGAAAAA-TG
10173221 AA
1 AA
10173223 TGAAAAAGGA
Statistics
Matches: 68, Mismatches: 3, Indels: 12
0.82 0.04 0.14
Matches are distributed among these distances:
23 5 0.07
24 12 0.18
25 24 0.35
26 21 0.31
27 6 0.09
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (24 bp):
AAAAAATGAAAAAAATGAAAAATG
Found at i:10174333 original size:41 final size:41
Alignment explanation
Indices: 10174234--10174571 Score: 468
Period size: 42 Copynumber: 8.1 Consensus size: 41
10174224 ATGGTTGTCA
*
10174234 AGGAGCAATTTACTTTCTCAAAGTTCCGT--TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTC-CAAAG-T-CGTGGTGCCTCTGTTGAG
10174276 AGGAGCAATTTACTTTCCAAAGTCCGT-G-GCCTCTGTTGAG
1 AGGAGCAATTTACTTTCCAAAGT-CGTGGTGCCTCTGTTGAG
10174316 AGGAGCAATTTATCTTTCCAAAGTCGTGGTGCCTCTGTTGAG
1 AGGAGCAATTTA-CTTTCCAAAGTCGTGGTGCCTCTGTTGAG
*
10174358 AGGAGCAATTTATCTTTCTAAAGTCGTGGTGCCTCTGTTGAG
1 AGGAGCAATTTA-CTTTCCAAAGTCGTGGTGCCTCTGTTGAG
*
10174400 AGGAGCAATTTACTTTTCTAAAGTCGTGGTGCCTCTGTTGAG
1 AGGAGCAATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTGAG
10174442 AGGAGCAATTTATCTTTCCAAAGTCGTGGTGCCTCTGTTGAG
1 AGGAGCAATTTA-CTTTCCAAAGTCGTGGTGCCTCTGTTGAG
* * *
10174484 AGGAGCATTTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTGAG
* * * * **
10174525 AGGAGCAATTTATTTTTCAAAGTCGTAGAGCCTCTGTCAAG
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTGAG
10174566 AGGAGC
1 AGGAGC
10174572 TAAAAAAAAA
Statistics
Matches: 278, Mismatches: 12, Indels: 13
0.92 0.04 0.04
Matches are distributed among these distances:
40 31 0.11
41 86 0.31
42 160 0.58
43 1 0.00
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (41 bp):
AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTGAG
Found at i:10174579 original size:1 final size:1
Alignment explanation
Indices: 10174573--10174609 Score: 56
Period size: 1 Copynumber: 37.0 Consensus size: 1
10174563 AAGAGGAGCT
* *
10174573 AAAAAAAAAAAAAAAAAAAAACAAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
10174610 TGAAAATGTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.95, C:0.05, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:10174751 original size:20 final size:20
Alignment explanation
Indices: 10174722--10174761 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
10174712 TCCGGGCCCG
10174722 GATCAATTGGGCCTGACCCA
1 GATCAATTGGGCCTGACCCA
* *
10174742 GATCATTTGGGCCTGGCCCA
1 GATCAATTGGGCCTGACCCA
10174762 AATGGGCAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.20, C:0.30, G:0.28, T:0.23
Consensus pattern (20 bp):
GATCAATTGGGCCTGACCCA
Found at i:10175074 original size:11 final size:12
Alignment explanation
Indices: 10175053--10175086 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
10175043 AATTATCTAG
*
10175053 ATTTTTTTTTTA
1 ATTTTTATTTTA
10175065 A-TTTTATTTTA
1 ATTTTTATTTTA
10175076 ATTTTTATTTT
1 ATTTTTATTTT
10175087 GGAGGGCTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
ATTTTTATTTTA
Found at i:10175437 original size:31 final size:31
Alignment explanation
Indices: 10175402--10175470 Score: 97
Period size: 31 Copynumber: 2.2 Consensus size: 31
10175392 AATTTCCAGA
*
10175402 TTCCGGCGGA-AATTCCGGCG-ACTTTTGAATT
1 TTCCGGC-GACAATTCCGGCGAAC-TTTGAAGT
10175433 TTCCGGCGACAATTCCGGCGAACTTTGAAGT
1 TTCCGGCGACAATTCCGGCGAACTTTGAAGT
10175464 TTCCGGC
1 TTCCGGC
10175471 TACAGACCCA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
30 2 0.06
31 31 0.89
32 2 0.06
ACGTcount: A:0.19, C:0.26, G:0.26, T:0.29
Consensus pattern (31 bp):
TTCCGGCGACAATTCCGGCGAACTTTGAAGT
Found at i:10175560 original size:19 final size:19
Alignment explanation
Indices: 10175536--10175580 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
10175526 TCCGGCCAAT
10175536 TTCCGGCGAAATTCCCAGA
1 TTCCGGCGAAATTCCCAGA
*
10175555 TTCCGGCGAAATTTCCAGA
1 TTCCGGCGAAATTCCCAGA
*
10175574 ATCCGGC
1 TTCCGGC
10175581 ACCGGCGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.22
Consensus pattern (19 bp):
TTCCGGCGAAATTCCCAGA
Found at i:10175810 original size:5 final size:5
Alignment explanation
Indices: 10175800--10175854 Score: 74
Period size: 5 Copynumber: 10.6 Consensus size: 5
10175790 TTCAGCCCCT
* *
10175800 CCGAG CCGAG CCGAG CCGAG CCGAG CCGAG CCAAG CCGAG TCGCGAT CCGAG
1 CCGAG CCGAG CCGAG CCGAG CCGAG CCGAG CCGAG CCGAG -C-CGAG CCGAG
10175852 CCG
1 CCG
10175855 CTCCAGGTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
5 39 0.89
6 2 0.05
7 3 0.07
ACGTcount: A:0.20, C:0.40, G:0.36, T:0.04
Consensus pattern (5 bp):
CCGAG
Found at i:10175893 original size:15 final size:15
Alignment explanation
Indices: 10175862--10175903 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
10175852 CCGCTCCAGG
*
10175862 TTTTTTTTTTTT--T
1 TTTTTTTTTTTTGAA
10175875 TTTTTTTTTTTTGAA
1 TTTTTTTTTTTTGAA
*
10175890 TTTTTTTTATTTGA
1 TTTTTTTTTTTTGA
10175904 CTTTGATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 12 0.48
15 13 0.52
ACGTcount: A:0.10, C:0.00, G:0.05, T:0.86
Consensus pattern (15 bp):
TTTTTTTTTTTTGAA
Found at i:10175897 original size:1 final size:1
Alignment explanation
Indices: 10175862--10175886 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
10175852 CCGCTCCAGG
10175862 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
10175887 GAATTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:10176318 original size:152 final size:152
Alignment explanation
Indices: 10175933--10176524 Score: 986
Period size: 152 Copynumber: 3.8 Consensus size: 152
10175923 TTTTTTTTCT
* *
10175933 TTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATACT
1 TTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGT-GAAACAGTAGTTTTTCTTGCATACT
*
10175998 CCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCC
65 CTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCC
* *
10176063 GATAATTAATTACTTGGCTGATTTTGA
130 ---AA-TAATTAATTGGATGATTTTGA
10176090 TTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCAT
1 ----TTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCAT
* *
10176155 ACTCTTGAGGTGAGGAAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTTAATTGAGAATAATT
62 ACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATT
10176220 TCCAATAATTAATTGGATGATTTTGA
127 TCCAATAATTAATTGGATGATTTTGA
*
10176246 TTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAGGTGAAACAGTAGTTTTTCTTGCATACTC
1 TTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTC
*
10176311 TTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTTAATTGAGAATAATTTCCA
66 TTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCCA
* *
10176376 ATAATTAATTGGATGATTTCGT
131 ATAATTAATTGGATGATTTTGA
* *
10176398 TTTTTCTTTAATAAATCCGACGACGGAGCCCCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTC
1 TTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTC
10176463 TTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTT
66 TTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTT
10176525 TCAACAACTA
Statistics
Matches: 416, Mismatches: 15, Indels: 9
0.95 0.03 0.02
Matches are distributed among these distances:
152 271 0.65
156 19 0.05
157 2 0.00
160 86 0.21
161 38 0.09
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.38
Consensus pattern (152 bp):
TTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTC
TTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCCA
ATAATTAATTGGATGATTTTGA
Found at i:10180815 original size:59 final size:59
Alignment explanation
Indices: 10180685--10180976 Score: 344
Period size: 60 Copynumber: 4.9 Consensus size: 59
10180675 TTTTTTGTAG
* *
10180685 GGAAAATTGATACTTTCAACTTTTCC-CTAAAAA-TATTTTTTTGAAAATTTCGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAATTTTTTTTTTG-AAATTT--ATTTCT-AA
***
10180745 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAACCCTTTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAATTTTTTTTTTG-AAATTTATTTCTAA
* *
10180804 GGAAAATTGATACTTTCAACTTTTTCCT--AAAAATATTTTTTTTCGAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAAC-TTTTCCTCAAAAAAT-TTTTTTTTTGAAATTTATTTCTAA
* *
10180863 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTTGAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA-ATTTTTTTTTTGAAATTTATTTCTAA
* *
10180923 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTTTTGGAATTT
1 GGAAAATTGATACTTTCAACTTTT-CCTCAAAA-A-ATTTTTTTTTTGAAATTT
10180977 TTTATTTTTA
Statistics
Matches: 210, Mismatches: 12, Indels: 18
0.88 0.05 0.08
Matches are distributed among these distances:
58 6 0.03
59 64 0.30
60 97 0.46
61 24 0.11
62 19 0.09
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAAATTTTTTTTTTGAAATTTATTTCTAA
Found at i:10180838 original size:119 final size:118
Alignment explanation
Indices: 10180685--10180965 Score: 408
Period size: 119 Copynumber: 2.4 Consensus size: 118
10180675 TTTTTTGTAG
10180685 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTT-GAAAATTTCGATTT-TCAAGGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTCG-AAATTT--ATTTCT-AAGGA
*
10180748 AAATTGATACTTTCAACTTTTCCTC-AAAA-ACCCTTTTTTTGAAAATTTATTTCTAA
62 AAATTGATACTTTCAACTTTTCCCCAAAAATACCCTTTTTTTG-AAATTTATTTCTAA
* *
10180804 GGAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTTCGAAATTTATTTCTGAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTCGAAATTTATTTCTAAGGAAAA
*** *
10180869 TTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTTGAAATTTATTTCTGA
65 TTGATACTTTCAACTTTTCCCCAAAAATACCCTTTTTTTGAAATTTATTTCTAA
10180923 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT-TTTTTT
10180966 TTTTGGAATT
Statistics
Matches: 148, Mismatches: 8, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
118 33 0.22
119 92 0.62
120 22 0.15
121 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.08, T:0.45
Consensus pattern (118 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTCGAAATTTATTTCTAAGGAAAAT
TGATACTTTCAACTTTTCCCCAAAAATACCCTTTTTTTGAAATTTATTTCTAA
Found at i:10181090 original size:28 final size:26
Alignment explanation
Indices: 10181045--10181118 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 26
10181035 AACCTAATCT
*
10181045 AATAAATAAAAATTAAAATAAACAAAGA
1 AATAAATAAAAA--AAAAAAAACAAAGA
**
10181073 AATAAATAAAATAAAAAAATTCAAAGA
1 AATAAATAAAA-AAAAAAAAACAAAGA
10181100 AA-AAA-AAAAAAAAAAAAAC
1 AATAAATAAAAAAAAAAAAAC
10181119 CTGGAGCGGC
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
24 8 0.20
25 4 0.10
26 3 0.08
27 13 0.32
28 11 0.28
29 1 0.03
ACGTcount: A:0.80, C:0.04, G:0.03, T:0.14
Consensus pattern (26 bp):
AATAAATAAAAAAAAAAAAACAAAGA
Found at i:10181097 original size:27 final size:25
Alignment explanation
Indices: 10181045--10181118 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 25
10181035 AACCTAATCT
10181045 AATAAATAAAAATTAAAATAAACAAAGA
1 AATAAAT-AAAA-TAAAA-AAACAAAGA
10181073 AATAAATAAAATAAAAAAATTCAAAGA
1 AATAAATAAAATAAAAAAA--CAAAGA
* *
10181100 AA-AAAAAAAAAAAAAAAAC
1 AATAAATAAAATAAAAAAAC
10181119 CTGGAGCGGC
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
24 1 0.02
25 3 0.07
26 19 0.45
27 12 0.29
28 7 0.17
ACGTcount: A:0.80, C:0.04, G:0.03, T:0.14
Consensus pattern (25 bp):
AATAAATAAAATAAAAAAACAAAGA
Found at i:10181464 original size:20 final size:20
Alignment explanation
Indices: 10181439--10181476 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
10181429 GAACACCGGT
*
10181439 GCCGGATTCTGGAAATTTTC
1 GCCGGAATCTGGAAATTTTC
10181459 GCCGGAATCTGGAAATTT
1 GCCGGAATCTGGAAATTT
10181477 CACCAGAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (20 bp):
GCCGGAATCTGGAAATTTTC
Found at i:10181575 original size:31 final size:31
Alignment explanation
Indices: 10181537--10181600 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
10181527 ACTGGGCAGG
* ** *
10181537 TCACCGAAAACTTCAATGTTGGCCGGAATTT
1 TCACCGAAAAATTCAAACTTCGCCGGAATTT
10181568 TCACCGAAAAATTCAAACTTCGCCGGAATTT
1 TCACCGAAAAATTCAAACTTCGCCGGAATTT
10181599 TC
1 TC
10181601 GCCGGAATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (31 bp):
TCACCGAAAAATTCAAACTTCGCCGGAATTT
Found at i:10182395 original size:6 final size:7
Alignment explanation
Indices: 10182384--10182416 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
10182374 TCAACTCAAC
10182384 ATTTTT-
1 ATTTTTG
10182390 ATTTTTG
1 ATTTTTG
*
10182397 ATTTTTT
1 ATTTTTG
10182404 ATTTTTG
1 ATTTTTG
10182411 ATTTTT
1 ATTTTT
10182417 TTTGATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (7 bp):
ATTTTTG
Found at i:10182402 original size:1 final size:1
Alignment explanation
Indices: 10182398--10182481 Score: 51
Period size: 1 Copynumber: 84.0 Consensus size: 1
10182388 TTATTTTTGA
* ** ** ** ** * * *
10182398 TTTTTTATTTTTGATTTTTTTTGATTTTTTTGATTTTTTTGATTTTTTTGTTTTTGTTTTTTTGT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
10182463 TTTTTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTT
10182482 GGCCGAAGCT
Statistics
Matches: 61, Mismatches: 22, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 61 1.00
ACGTcount: A:0.06, C:0.00, G:0.10, T:0.85
Consensus pattern (1 bp):
T
Found at i:10182423 original size:24 final size:23
Alignment explanation
Indices: 10182391--10182481 Score: 87
Period size: 24 Copynumber: 3.7 Consensus size: 23
10182381 AACATTTTTA
10182391 TTTTTGATTTTTTATTTTTGATTT
1 TTTTTG-TTTTTTATTTTTGATTT
10182415 TTTTTGATTTTTTTGATTTTTTTGA-TT
1 TTTTTG--TTTTTT-A--TTTTTGATTT
* *
10182442 TTTTTGTTTTTGTTTTTTTGTTTT
1 TTTTTGTTTTT-TATTTTTGATTT
10182466 TTTTTGTTTTTT-TTTT
1 TTTTTGTTTTTTATTTT
10182482 GGCCGAAGCT
Statistics
Matches: 58, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
22 4 0.07
23 7 0.12
24 19 0.33
25 11 0.19
26 2 0.03
27 8 0.14
28 7 0.12
ACGTcount: A:0.07, C:0.00, G:0.10, T:0.84
Consensus pattern (23 bp):
TTTTTGTTTTTTATTTTTGATTT
Found at i:10182440 original size:42 final size:42
Alignment explanation
Indices: 10182391--10182479 Score: 119
Period size: 42 Copynumber: 2.1 Consensus size: 42
10182381 AACATTTTTA
10182391 TTTTTGA-TTTTTTATTTTTGATTTTTTT-TGATTTTTTTGATT
1 TTTTTGATTTTTTTATTTTTG-TTTTTTTGT-ATTTTTTTGATT
* * *
10182433 TTTTTGATTTTTTTGTTTTTGTTTTTTTGTTTTTTTTTGTTT
1 TTTTTGATTTTTTTATTTTTGTTTTTTTGTATTTTTTTGATT
10182475 TTTTT
1 TTTTT
10182480 TTGGCCGAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
42 29 0.69
43 13 0.31
ACGTcount: A:0.07, C:0.00, G:0.10, T:0.83
Consensus pattern (42 bp):
TTTTTGATTTTTTTATTTTTGTTTTTTTGTATTTTTTTGATT
Found at i:10182457 original size:14 final size:14
Alignment explanation
Indices: 10182385--10182482 Score: 74
Period size: 14 Copynumber: 6.9 Consensus size: 14
10182375 CAACTCAACA
* *
10182385 TTTTTATTTTTGAT
1 TTTTTGTTTTTGTT
*
10182399 TTTTTATTTTTGATTT
1 TTTTTGTTTTTG--TT
*
10182415 TTTTTGATTTT-TT
1 TTTTTGTTTTTGTT
**
10182428 TGATT-TTTTTGATT
1 TTTTTGTTTTTG-TT
10182442 TTTTTGTTTTTGTT
1 TTTTTGTTTTTGTT
*
10182456 TTTTTGTTTTTTTT
1 TTTTTGTTTTTGTT
*
10182470 TGTTTTTTTTTTG
1 T-TTTTGTTTTTG
10182483 GCCGAAGCTC
Statistics
Matches: 67, Mismatches: 11, Indels: 11
0.75 0.12 0.12
Matches are distributed among these distances:
12 4 0.06
13 5 0.07
14 33 0.49
15 15 0.22
16 10 0.15
ACGTcount: A:0.07, C:0.00, G:0.10, T:0.83
Consensus pattern (14 bp):
TTTTTGTTTTTGTT
Found at i:10182479 original size:9 final size:9
Alignment explanation
Indices: 10182405--10182478 Score: 86
Period size: 9 Copynumber: 8.6 Consensus size: 9
10182395 TGATTTTTTA
10182405 TTTTTGATTT
1 TTTTTGA-TT
10182415 TTTTTGATT
1 TTTTTGATT
10182424 TTTTTGATT
1 TTTTTGATT
10182433 TTTTTGATT
1 TTTTTGATT
10182442 TTTTTG---
1 TTTTTGATT
10182448 TTTTTG-TT
1 TTTTTGATT
*
10182456 TTTTTGTTTT
1 TTTTTG-ATT
10182466 TTTTTG-TT
1 TTTTTGATT
10182474 TTTTT
1 TTTTT
10182479 TTTGGCCGAA
Statistics
Matches: 60, Mismatches: 0, Indels: 10
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.10
8 13 0.22
9 26 0.43
10 15 0.25
ACGTcount: A:0.05, C:0.00, G:0.11, T:0.84
Consensus pattern (9 bp):
TTTTTGATT
Found at i:10182480 original size:10 final size:10
Alignment explanation
Indices: 10182400--10182480 Score: 76
Period size: 10 Copynumber: 7.9 Consensus size: 10
10182390 ATTTTTGATT
10182400 TTTTATTTTTG
1 TTTT-TTTTTG
*
10182411 ATTTTTTTTG
1 TTTTTTTTTG
*
10182421 -ATTTTTTTG
1 TTTTTTTTTG
*
10182430 -ATTTTTTTG
1 TTTTTTTTTG
*
10182439 ATTTTTTTGTTT
1 -TTTTTTT-TTG
10182451 TTGTTTTTTTG
1 TT-TTTTTTTG
10182462 TTTTTTTTTG
1 TTTTTTTTTG
10182472 TTTTTTTTT
1 TTTTTTTTT
10182481 TGGCCGAAGC
Statistics
Matches: 61, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
9 17 0.28
10 23 0.38
11 14 0.23
12 7 0.11
ACGTcount: A:0.06, C:0.00, G:0.10, T:0.84
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:10182534 original size:41 final size:41
Alignment explanation
Indices: 10182489--10183307 Score: 1232
Period size: 41 Copynumber: 20.0 Consensus size: 41
10182479 TTTGGCCGAA
* * * *
10182489 GCTCCTCTAAACAGAGACTCAACTACTTTTGAAAA-TAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATT
*
10182530 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
* *
10182571 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
*
10182613 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
10182654 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATT
*
10182694 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
10182735 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATT
*
10182775 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
10182816 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATT
10182856 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATT
*
10182896 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
10182937 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATT
*
10182977 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
* *
10183019 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
10183060 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
10183101 GCTCCTCTAAACAGAGGTACCACGACTTTGGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT--GAAAAGTAAATT
10183144 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
* * * *
10183185 GCTCCTCTCAACAGAGGTATCACGACTTTGGAAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-G-AAAAGTAAATT
10183228 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
10183269 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAATAAAT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAAT
10183308 ACTCCTAGAC
Statistics
Matches: 725, Mismatches: 33, Indels: 41
0.91 0.04 0.05
Matches are distributed among these distances:
39 15 0.02
40 201 0.28
41 338 0.47
42 95 0.13
43 76 0.10
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:10182736 original size:81 final size:80
Alignment explanation
Indices: 10182489--10183307 Score: 1166
Period size: 81 Copynumber: 10.0 Consensus size: 80
10182479 TTTGGCCGAA
* * *
10182489 GCTCCTCTAAACAGAGACTCAACTACTTTTGAAAA-TAAATTGCTCCTCTCAACAGAGGCACCAC
1 GCTCCTCTAAACAGAG--GCAACGAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
10182553 GACTTTGAAAAGTAAATT
63 GACTTTGAAAAGTAAATT
* * *
10182571 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCTCTCAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCA--ACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
10182636 GACTTTGAAAAGTAAATT
63 GACTTTGAAAAGTAAATT
* *
10182654 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAATAAATTGCTCCTCTCAACAGAGGCACCACGA
1 GCTCCTCTAAACAGAGGCAACG-ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
10182719 CTTTGAAAAGTAAATT
65 CTTTGAAAAGTAAATT
* *
10182735 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAATAAATTGCTCCTCTCAACAGAGGCACCACGA
1 GCTCCTCTAAACAGAGGCAACG-ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
10182800 CTTTGAAAAGTAAATT
65 CTTTGAAAAGTAAATT
10182816 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--ACGA
1 GCTCCTCTAAACAGAGGCAACG-ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG-
10182879 ACTTTGAAAAGTAAATT
64 ACTTTGAAAAGTAAATT
*
10182896 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--ACG
1 GCTCCTCTAAACAGAGG--CAACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
10182959 AACTTTGAAAAGTAAATT
64 -ACTTTGAAAAGTAAATT
* *
10182977 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCAC
1 GCTCCTCTAAACAGAGG--CAACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
*
10183042 GACTTTGGAAAGTAAATT
63 GACTTTGAAAAGTAAATT
*
10183060 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACG
1 GCTCCTCTAAACAGAGGCA--ACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
10183125 ACTTTGGGAAAAGTAAATT
64 ACTTT--GAAAAGTAAATT
* * *
10183144 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGTATCACG
1 GCTCCTCTAAACAGAGGCA--ACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
*
10183209 ACTTTGGAAAAAATAAATT
64 ACTTT-G-AAAAGTAAATT
10183228 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--ACG
1 GCTCCTCTAAACAGAGGCA--ACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
*
10183291 AACTTTGAAAAATAAAT
64 -ACTTTGAAAAGTAAAT
10183308 ACTCCTAGAC
Statistics
Matches: 704, Mismatches: 16, Indels: 35
0.93 0.02 0.05
Matches are distributed among these distances:
79 3 0.00
80 36 0.05
81 294 0.42
82 108 0.15
83 113 0.16
84 150 0.21
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (80 bp):
GCTCCTCTAAACAGAGGCAACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGAC
TTTGAAAAGTAAATT
Found at i:10184508 original size:9 final size:8
Alignment explanation
Indices: 10184494--10184559 Score: 61
Period size: 8 Copynumber: 8.6 Consensus size: 8
10184484 TTTGGATCTC
10184494 TTTTTTCA
1 TTTTTTCA
10184502 TTTTTTTCA
1 -TTTTTTCA
10184511 TTTTTTCA
1 TTTTTTCA
*
10184519 TTTTCTCA
1 TTTTTTCA
10184527 TTTTTT--
1 TTTTTTCA
10184533 TTTCTTT--
1 TTT-TTTCA
10184540 TTTTTTC-
1 TTTTTTCA
*
10184547 TTTTCTCA
1 TTTTTTCA
10184555 TTTTT
1 TTTTT
10184560 CATCCAGTGT
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
6 6 0.12
7 12 0.24
8 24 0.48
9 8 0.16
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTTCA
Found at i:10184514 original size:17 final size:16
Alignment explanation
Indices: 10184490--10184559 Score: 69
Period size: 15 Copynumber: 4.6 Consensus size: 16
10184480 TCAATTTGGA
10184490 TCTC-TTTTTTCATTTT
1 TCTCATTTTTTCA-TTT
*
10184506 TTTCATTTTTTCATTT
1 TCTCATTTTTTCATTT
10184522 TCTCA-TTTTT--TTT
1 TCTCATTTTTTCATTT
**
10184535 TCTTTTTTTTTC-TTT
1 TCTCATTTTTTCATTT
10184550 TCTCATTTTT
1 TCTCATTTTT
10184560 CATCCAGTGT
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
13 6 0.13
14 5 0.11
15 16 0.36
16 10 0.22
17 8 0.18
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (16 bp):
TCTCATTTTTTCATTT
Found at i:10184533 original size:28 final size:28
Alignment explanation
Indices: 10184502--10184559 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
10184492 TCTTTTTTCA
10184502 TTTTTT-TCATTTTTTCATTTTCTCATTT
1 TTTTTTCTCATTTTTTC-TTTTCTCATTT
**
10184530 TTTTTTCTTTTTTTTTCTTTTCTCATTT
1 TTTTTTCTCATTTTTTCTTTTCTCATTT
10184558 TT
1 TT
10184560 CATCCAGTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 19 0.70
29 8 0.30
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (28 bp):
TTTTTTCTCATTTTTTCTTTTCTCATTT
Found at i:10184534 original size:36 final size:35
Alignment explanation
Indices: 10184494--10184562 Score: 77
Period size: 36 Copynumber: 1.9 Consensus size: 35
10184484 TTTGGATCTC
** *
10184494 TTTTTTC-ATTTTTTTCATTTTTTCATTTTCTCATTT
1 TTTTTTCTA-TTTTTTTCTTTTCTCATTTT-TCATTT
*
10184530 TTTTTTCTTTTTTTTTCTTTTCTCATTTTTCAT
1 TTTTTTCTATTTTTTTCTTTTCTCATTTTTCAT
10184563 CCAGTGTTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
35 4 0.14
36 24 0.86
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (35 bp):
TTTTTTCTATTTTTTTCTTTTCTCATTTTTCATTT
Found at i:10188566 original size:119 final size:119
Alignment explanation
Indices: 10188385--10188713 Score: 481
Period size: 119 Copynumber: 2.8 Consensus size: 119
10188375 TTTTTTGTAG
* * *
10188385 GGAAAATTGATACTTTCAAC-TTTTCCCTAAAAATA-TTTTTTGGAAATTTCGATTTTCAAGGAA
1 GGAAAATTGATACTTTCAACTTTTTCCC-AAAAATATTTTTTTTGAAATTTTGATTTTTAAGGAA
*
10188448 AATTGATACTTTCAACTTTT-CCTCAAAAACCCTTTTTTT-GAAAATTTATTTCTAA
65 AATTGATACTTTCAACTTTTCCCT-AAAAACACTTTTTTTCG-AAATTTATTTCTAA
10188503 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTTGAAATTTTGATTTTTAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTTGAAATTTTGATTTTTAAGGAAA
* * * *
10188568 ATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTCGAATTTTATTTCTGA
66 ATTGATACTTTCAACTTTTCCCTAAAAACACTTTTTTTCGAAATTTATTTCTAA
* * *
10188622 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAA-TTT-ATTTCTGAGGAA
1 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATA-TTTTTTTTGAAATTTTGATTTTTAAGGAA
10188685 AATTGATACTTTCAACTTTTCCCTAAAAA
65 AATTGATACTTTCAACTTTTCCCTAAAAA
10188714 TATATATTTT
Statistics
Matches: 195, Mismatches: 11, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
118 66 0.34
119 113 0.58
120 16 0.08
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.44
Consensus pattern (119 bp):
GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTTGAAATTTTGATTTTTAAGGAAA
ATTGATACTTTCAACTTTTCCCTAAAAACACTTTTTTTCGAAATTTATTTCTAA
Found at i:10188686 original size:178 final size:181
Alignment explanation
Indices: 10188385--10188743 Score: 518
Period size: 178 Copynumber: 2.0 Consensus size: 181
10188375 TTTTTTGTAG
*
10188385 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTCGATTTTCAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTCGAAATTTCGATTTTCAAGGAAAA
* *
10188450 TTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAAGGAAAATTGATA
66 TTGATACTTTCAACTTTTCCCCAAAAAACCTTTTTTTGAAAATTTATTTCTAAGGAAAATTGATA
10188515 CTTTCAACTTTTTCCC-AAAA-ATAT-TTTTTTT-GAAATTTTGATTTTTAA
131 CTTTCAAC-TTTTCCCAAAAATATATATTTTTTTGGAAATTTTGATTTTTAA
* *
10188563 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTCG-AATTT-TA-TTTCTGAGGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTCGAAATTTCGATTTTC-AAGGA
** *
10188625 AAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTG-AAATTTATTTCTGAGGAAAATT
63 AAATTGATACTTTCAACTTTTCCCCAAAAA-ACCTTTTTTTGAAAATTTATTTCTAAGGAAAATT
* *
10188689 GATACTTTCAACTTTTCCCTAAAAATATATATTTTTTTGGAATTTTTTATTTTTA
127 GATACTTTCAACTTTTCCC-AAAAATATATATTTTTTTGGAAATTTTGATTTTTA
10188744 TTTAAAGAAA
Statistics
Matches: 162, Mismatches: 10, Indels: 14
0.87 0.05 0.08
Matches are distributed among these distances:
177 11 0.07
178 102 0.63
179 17 0.10
180 11 0.07
181 7 0.04
182 14 0.09
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (181 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTCGAAATTTCGATTTTCAAGGAAAA
TTGATACTTTCAACTTTTCCCCAAAAAACCTTTTTTTGAAAATTTATTTCTAAGGAAAATTGATA
CTTTCAACTTTTCCCAAAAATATATATTTTTTTGGAAATTTTGATTTTTAA
Found at i:10188715 original size:59 final size:59
Alignment explanation
Indices: 10188385--10188733 Score: 460
Period size: 59 Copynumber: 5.9 Consensus size: 59
10188375 TTTTTTGTAG
*
10188385 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTGGAAATTTCGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTT--ATTTCT-AA
***
10188444 GGAAAATTGATACTTTCAACTTTT-CCTCAAAAA-CCCTTTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTTTG-AAATTTATTTCTAA
*
10188503 GGAAAATTGATACTTTCAACTTTTTCCC-AAAAATA-TTTTTTTTGAAATTTTGATTTTTAA
1 GGAAAATTGATACTTTCAAC-TTTTCCCTAAAAATATTTTTTTTTGAAA-TTT-ATTTCTAA
* * *
10188563 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTCGAATTTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTAA
* *
10188622 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTAA
*
10188681 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATATTTTTTTGGAATTT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT-T-TTTTTTTGAAATTT
10188734 TTTATTTTTA
Statistics
Matches: 262, Mismatches: 14, Indels: 26
0.87 0.05 0.09
Matches are distributed among these distances:
58 6 0.02
59 175 0.67
60 50 0.19
61 31 0.12
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.45
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTAA
Found at i:10188854 original size:27 final size:25
Alignment explanation
Indices: 10188802--10188870 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 25
10188792 AACCTAATCT
10188802 AATAAATAAAAATTAAAATAAACAAAGA
1 AATAAAT-AAAA-TAAAA-AAACAAAGA
10188830 AATAAATAAAATAAAAAAATTCAAAGA
1 AATAAATAAAATAAAAAAA--CAAAGA
10188857 AA-AAA-AAAA-AAAAA
1 AATAAATAAAATAAAAA
10188871 CCTGGAGCGG
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
24 5 0.13
25 7 0.18
26 8 0.21
27 12 0.31
28 7 0.18
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.14
Consensus pattern (25 bp):
AATAAATAAAATAAAAAAACAAAGA
Found at i:10189238 original size:19 final size:20
Alignment explanation
Indices: 10189194--10189238 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
10189184 AACACCGGTG
* *
10189194 CCGGATTCTGGAAATTTTCG
1 CCGGAATCTGGAAATTTTCA
*
10189214 CTGGAATCTGGAAA-TTTCA
1 CCGGAATCTGGAAATTTTCA
10189233 CCGGAA
1 CCGGAA
10189239 GTTGGCCGGA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (20 bp):
CCGGAATCTGGAAATTTTCA
Found at i:10189337 original size:31 final size:32
Alignment explanation
Indices: 10189296--10189361 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 32
10189286 GCAGGTCGCC
** *
10189296 GAAAACTTCAATGTTGGCCGGAATTTTCACCG
1 GAAAACTTCAAACTTCGCCGGAATTTTCACCG
*
10189328 GAAAA-TTCAAACTTCGCCGGAATTTTCGCCG
1 GAAAACTTCAAACTTCGCCGGAATTTTCACCG
10189359 GAA
1 GAA
10189362 TCTGGAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 25 0.83
32 5 0.17
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (32 bp):
GAAAACTTCAAACTTCGCCGGAATTTTCACCG
Found at i:10190349 original size:48 final size:48
Alignment explanation
Indices: 10190109--10190486 Score: 334
Period size: 49 Copynumber: 7.8 Consensus size: 48
10190099 GTTTTGAGAA
* * * *
10190109 AAGATGAATTTTAAAATTGTAGAGCCTTTGCCTAGAGGAGCTTTTT-C
1 AAGATGAATTTTAAAGTTGTTGAGCCTTTGCTTAGAGAAGCTTTTTCC
* * * *
10190156 ACAGATGAATTTTAAAAGTTATAGAGCCTTTGCCTAGAGGAA-CCTTTTCC
1 A-AGATGAATTTT-AAAGTTGTTGAGCCTTTGCTTAGA-GAAGCTTTTTCC
*
10190206 AAGATGAATTTTTAAAGTTGTTGAGCCTTTGCTTAGATAAGCTTTTTCC
1 AAGATGAA-TTTTAAAGTTGTTGAGCCTTTGCTTAGAGAAGCTTTTTCC
* * *
10190255 CAGATAAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGAAGC-TTTTCC
1 AAGATGAA-TTTTAAAGTTGTTGAGCCTTTGCTTAGAGAAGCTTTTTCC
* * * *
10190303 AAGATGAATTTTCAATTTGTTGAGCCTCTACTTAGAGAAGCTTTTTCC
1 AAGATGAATTTTAAAGTTGTTGAGCCTTTGCTTAGAGAAGCTTTTTCC
* * * * ** * * * *
10190351 AAAATGGATTTTTAAAATTATCAAGCCTTTACTTAGAGGAGC-ATTTCT
1 AAGAT-GAATTTTAAAGTTGTTGAGCCTTTGCTTAGAGAAGCTTTTTCC
* * ** * *
10190399 AAGATGAATTTTTAAAAGTTATCGAGTTTTTACTTAGAGGAACCTTTTT-C
1 AAGATGAA-TTTT-AAAGTTGTTGAGCCTTTGCTTAGA-GAAGCTTTTTCC
*
10190449 AAGATGAACTTTTAAAGTTGTTGAGCATTTGCTTAGAG
1 AAGATGAA-TTTTAAAGTTGTTGAGCCTTTGCTTAGAG
10190487 GAGCCCTTTT
Statistics
Matches: 274, Mismatches: 45, Indels: 23
0.80 0.13 0.07
Matches are distributed among these distances:
47 33 0.12
48 48 0.18
49 167 0.61
50 23 0.08
51 3 0.01
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.38
Consensus pattern (48 bp):
AAGATGAATTTTAAAGTTGTTGAGCCTTTGCTTAGAGAAGCTTTTTCC
Found at i:10190464 original size:194 final size:194
Alignment explanation
Indices: 10190109--10190486 Score: 442
Period size: 194 Copynumber: 1.9 Consensus size: 194
10190099 GTTTTGAGAA
* * * *
10190109 AAGATGAATTTTAAAATTGTAGAGCCTTTGCCTAGAGGAGCTTTTTCACAGATGAATTTTAAAAG
1 AAGATGAATTTTAAAATTGTAGAGCCTCTACCTAGAGAAGCTTTTTCACAAATGAATTTTAAAAG
* * * * *
10190174 TTATAGAGCCTTTGCCTAGAGGAACCTTTTCCAAGATGAATTTTTAAAGTTGTTGAGCCTTTGCT
66 TTATAGAGCCTTTACCTAGAGGAACCATTTCCAAGATGAATTTTTAAAGTTATCGAGCCTTTACT
* * * * *
10190239 TAGATAAGCTTTTTCCCAGATAAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGAAGCTTTTCC
131 TAGAGAACCTTTTTCCAAGATAAACTTTTAAAGTTGTTGAGCATCTGCTTAGAGAAGCTTTTCC
* * * * *
10190303 AAGATGAATTTTCAATTTGTTGAGCCTCTACTTAGAGAAGCTTTTTC-CAAAATGGATTTTTAAA
1 AAGATGAATTTTAAAATTGTAGAGCCTCTACCTAGAGAAGCTTTTTCAC-AAAT-GAATTTTAAA
* * * **
10190367 A-TTATCA-AGCCTTTACTTAGAGG-AGCATTTCTAAGATGAATTTTTAAAAGTTATCGAGTTTT
64 AGTTAT-AGAGCCTTTACCTAGAGGAACCATTTCCAAGATGAATTTTT-AAAGTTATCGAGCCTT
* *
10190429 TACTTAGAGGAACCTTTTT-CAAGATGAACTTTTAAAGTTGTTGAGCATTTGCTTAGAG
127 TACTTAGA-GAACCTTTTTCCAAGATAAACTTTTAAAGTTGTTGAGCATCTGCTTAGAG
10190487 GAGCCCTTTT
Statistics
Matches: 153, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
193 20 0.13
194 114 0.75
195 19 0.12
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.38
Consensus pattern (194 bp):
AAGATGAATTTTAAAATTGTAGAGCCTCTACCTAGAGAAGCTTTTTCACAAATGAATTTTAAAAG
TTATAGAGCCTTTACCTAGAGGAACCATTTCCAAGATGAATTTTTAAAGTTATCGAGCCTTTACT
TAGAGAACCTTTTTCCAAGATAAACTTTTAAAGTTGTTGAGCATCTGCTTAGAGAAGCTTTTCC
Found at i:10190489 original size:98 final size:97
Alignment explanation
Indices: 10190109--10190490 Score: 385
Period size: 98 Copynumber: 3.9 Consensus size: 97
10190099 GTTTTGAGAA
* * * * * *
10190109 AAGATGAA-TTTTAAAATTGTAGAGCCTTTGCCTAGAGGAGCTTTTT-CACAGATGAATTTTAAA
1 AAGATGAATTTTTAAAGTTGTTGAGCCTTTACTTAGAGAAGCTTTTTCCA-AGATGAATTTTTAA
* * *
10190172 AGTTATAGAGCCTTTGCCTAGAGGAACCTTTTCC
65 AGTTATTGAGCCTTTGCTTAGAGG-AGCTTTTCC
* * * *
10190206 AAGATGAATTTTTAAAGTTGTTGAGCCTTTGCTTAGATAAGCTTTTTCCCAGATAAATTTTTAAA
1 AAGATGAATTTTTAAAGTTGTTGAGCCTTTACTTAGAGAAGCTTTTTCCAAGATGAATTTTTAAA
* * *
10190271 GTTGTTGAGCCTCTGCTTAGAGAAGCTTTTCC
66 GTTATTGAGCCTTTGCTTAGAGGAGCTTTTCC
* * * * *
10190303 AAGATGAA-TTTTCAATTTGTTGAGCCTCTACTTAGAGAAGCTTTTTCCAAAATGGATTTTTAAA
1 AAGATGAATTTTTAAAGTTGTTGAGCCTTTACTTAGAGAAGCTTTTTCCAAGATGAATTTTTAAA
* ** * * *
10190367 ATTATCAAGCCTTTACTTAGAGGAGCATTTCT
66 GTTATTGAGCCTTTGCTTAGAGGAGCTTTTCC
* * ** * *
10190399 AAGATGAATTTTTAAAAGTTATCGAGTTTTTACTTAGAGGAACCTTTTT-CAAGATGAACTTTTA
1 AAGATGAATTTTT-AAAGTTGTTGAGCCTTTACTTAGA-GAAGCTTTTTCCAAGATGAATTTTTA
* *
10190463 AAGTTGTTGAGCATTTGCTTAGAGGAGC
64 AAGTTATTGAGCCTTTGCTTAGAGGAGC
10190491 CCTTTTAAAA
Statistics
Matches: 231, Mismatches: 49, Indels: 9
0.80 0.17 0.03
Matches are distributed among these distances:
96 78 0.34
97 28 0.12
98 115 0.50
99 10 0.04
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.38
Consensus pattern (97 bp):
AAGATGAATTTTTAAAGTTGTTGAGCCTTTACTTAGAGAAGCTTTTTCCAAGATGAATTTTTAAA
GTTATTGAGCCTTTGCTTAGAGGAGCTTTTCC
Found at i:10191627 original size:21 final size:21
Alignment explanation
Indices: 10191588--10191647 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 21
10191578 CTGGTTTAAG
10191588 TAAAT-TT-TTTTTAAT-TTT
1 TAAATATTATTTTTAATATTT
* *
10191606 TTAATATTATTTTTATTATTT
1 TAAATATTATTTTTAATATTT
* * *
10191627 TAAATTTTATTATTAGTATTT
1 TAAATATTATTTTTAATATTT
10191648 ATGCATGTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
18 4 0.12
19 2 0.06
20 7 0.21
21 20 0.61
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (21 bp):
TAAATATTATTTTTAATATTT
Found at i:10191725 original size:9 final size:10
Alignment explanation
Indices: 10191695--10191744 Score: 50
Period size: 9 Copynumber: 4.9 Consensus size: 10
10191685 TTTGTATTTT
*
10191695 AATAATAATT
1 AATAATAATA
10191705 AATAA-AATA
1 AATAATAATA
10191714 AATAATAA-A
1 AATAATAATA
10191723 AATAAATAATGA
1 AAT-AATAAT-A
10191735 AATACATAAT
1 AATA-ATAAT
10191745 TAAAATTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
9 12 0.35
10 12 0.35
11 1 0.03
12 9 0.26
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (10 bp):
AATAATAATA
Found at i:10191726 original size:13 final size:12
Alignment explanation
Indices: 10191698--10191750 Score: 61
Period size: 12 Copynumber: 4.2 Consensus size: 12
10191688 GTATTTTAAT
*
10191698 AATAATTAATAA
1 AATAAATAATAA
10191710 AATAAATAATAAA
1 AATAAATAAT-AA
*
10191723 AATAAATAATGA
1 AATAAATAATAA
*
10191735 AATACATAATTAA
1 AATAAATAA-TAA
10191748 AAT
1 AAT
10191751 TTTTGATAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
12 18 0.51
13 17 0.49
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (12 bp):
AATAAATAATAA
Found at i:10191732 original size:25 final size:25
Alignment explanation
Indices: 10191698--10191750 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
10191688 GTATTTTAAT
*
10191698 AATAATTAATAAAATAAATAATAAA
1 AATAAATAATAAAATAAATAATAAA
* * *
10191723 AATAAATAATGAAATACATAATTAA
1 AATAAATAATAAAATAAATAATAAA
10191748 AAT
1 AAT
10191751 TTTTGATAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (25 bp):
AATAAATAATAAAATAAATAATAAA
Found at i:10193303 original size:2 final size:2
Alignment explanation
Indices: 10193298--10193323 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10193288 ATTCATTGTG
10193298 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
10193324 CTTTCTATAG
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:10197436 original size:8 final size:8
Alignment explanation
Indices: 10197423--10197447 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
10197413 ACCACAACTA
10197423 TAGCTTTC
1 TAGCTTTC
10197431 TAGCTTTC
1 TAGCTTTC
10197439 TAGCTTTC
1 TAGCTTTC
10197447 T
1 T
10197448 TATCTCGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.24, G:0.12, T:0.52
Consensus pattern (8 bp):
TAGCTTTC
Found at i:10208372 original size:17 final size:17
Alignment explanation
Indices: 10208331--10208372 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
10208321 CTTTTATTTT
*
10208331 TTATTATTATTTATCTAT
1 TTATT-TTATTTATCTAA
*
10208349 TTCTTTTATTTATCTAA
1 TTATTTTATTTATCTAA
10208366 TTATTTT
1 TTATTTT
10208373 GTTTTGTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (17 bp):
TTATTTTATTTATCTAA
Found at i:10208804 original size:6 final size:6
Alignment explanation
Indices: 10208793--10208855 Score: 67
Period size: 6 Copynumber: 10.5 Consensus size: 6
10208783 TTTAATATTC
* * *
10208793 TTTTAT TTTTAT CTTTA- TTTTAT TTTTAT TTTTAT TTTCAC TTTTA-
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
10208839 TTTTAT TATTTAAT TTT
1 TTTTAT T-TTT-AT TTT
10208856 CTTTAAATAA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
5 9 0.19
6 31 0.65
7 5 0.10
8 3 0.06
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTTAT
Found at i:10208813 original size:17 final size:16
Alignment explanation
Indices: 10208793--10208845 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 16
10208783 TTTAATATTC
10208793 TTTTATTTTTATCTTTA
1 TTTTATTTTTAT-TTTA
10208810 TTTTATTTTTATTTTTA
1 TTTTATTTTTA-TTTTA
*
10208827 TTTTCACTTTTATTTTA
1 TTTT-ATTTTTATTTTA
10208844 TT
1 TT
10208846 ATTTAATTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
17 26 0.79
18 7 0.21
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTATTTTTATTTTA
Found at i:10209005 original size:60 final size:58
Alignment explanation
Indices: 10208875--10209275 Score: 413
Period size: 60 Copynumber: 6.8 Consensus size: 58
10208865 AAATCCAAAG
*
10208875 AAAAAATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* ** *
10208932 AAAAAAGGT-TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTTC
1 AAAAAA--TATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTTC
*
10208992 TAAAAAATA-TTTTTG-GGGAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 -AAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* * * *
10209049 AAAAAGGTTTTTTTTTTAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAA--ATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* ** *
10209109 AAAAAAGGTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTC
1 AAAAAA--TATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTTC
* * * *
10209170 TAAAAAATA-TTTTTGGGGAAAAGTTGAAAGTTAAAAGTATCAATTTTCCTTGAAATTAAAGTTT
1 -AAAAAATATTTTTTGAGGAAAAGTT----G---AAAGTATCAATTTTCCTTAAAAATAAATTTT
10209234 C
58 C
* *
10209235 CAAAAATA---TTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
10209276 GCACAAAAGC
Statistics
Matches: 297, Mismatches: 26, Indels: 44
0.81 0.07 0.12
Matches are distributed among these distances:
55 18 0.06
56 5 0.02
57 11 0.04
58 40 0.13
59 61 0.21
60 93 0.31
61 11 0.04
62 20 0.07
63 1 0.00
64 7 0.02
65 4 0.01
66 26 0.09
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.38
Consensus pattern (58 bp):
AAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
Found at i:10209207 original size:66 final size:62
Alignment explanation
Indices: 10209130--10209262 Score: 203
Period size: 66 Copynumber: 2.1 Consensus size: 62
10209120 TTTTTGAGGA
*
10209130 AAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTCTAAAAAATATTTTTGGGGAAAAGTT
1 AAAGTTAAAAGTATCAATTTTCCTCGAAATTAAAG-TTTC-AAAAAATA--TTTGGGGAAAAGTT
10209195 G
62 G
* *
10209196 AAAGTTAAAAGTATCAATTTTCCTTGAAATTAAAGTTTCCAAAAATATTTGGGGAAAAGTTG
1 AAAGTTAAAAGTATCAATTTTCCTCGAAATTAAAGTTTCAAAAAATATTTGGGGAAAAGTTG
10209258 AAAGT
1 AAAGT
10209263 ATCAATTTTC
Statistics
Matches: 64, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
62 20 0.31
64 7 0.11
65 4 0.06
66 33 0.52
ACGTcount: A:0.41, C:0.08, G:0.17, T:0.35
Consensus pattern (62 bp):
AAAGTTAAAAGTATCAATTTTCCTCGAAATTAAAGTTTCAAAAAATATTTGGGGAAAAGTTG
Found at i:10211650 original size:3 final size:3
Alignment explanation
Indices: 10211637--10211672 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
10211627 ATTTATACAG
10211637 TTA TATA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
10211673 TTTTGTGTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:10212223 original size:31 final size:31
Alignment explanation
Indices: 10212154--10212224 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
10212144 AATTTCCAGA
* * ** *
10212154 TTCCGGCAAAAATTCCGGCGAAGTTTGAATT
1 TTCCGGCGAAAATTCCGGCCAACATTGAAGT
*
10212185 TTCCGGCGAAAATTCTGGCCAACATTGAAGT
1 TTCCGGCGAAAATTCCGGCCAACATTGAAGT
10212216 TTCCGGCGA
1 TTCCGGCGA
10212225 CCTGCCCAGT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.27
Consensus pattern (31 bp):
TTCCGGCGAAAATTCCGGCCAACATTGAAGT
Found at i:10212310 original size:20 final size:20
Alignment explanation
Indices: 10212285--10212322 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
10212275 ACTTCCGGTG
*
10212285 AAATTTCCAGATTCCGGCGA
1 AAATTTCCAGAATCCGGCGA
10212305 AAATTTCCAGAATCCGGC
1 AAATTTCCAGAATCCGGC
10212323 ACCGGTGTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (20 bp):
AAATTTCCAGAATCCGGCGA
Found at i:10212676 original size:1 final size:1
Alignment explanation
Indices: 10212635--10212659 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
10212625 CCGCTCCAGG
10212635 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
10212660 CCTTTGAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:10212689 original size:24 final size:25
Alignment explanation
Indices: 10212643--10212689 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
10212633 GGTTTTTTTT
* * *
10212643 TTTTTTTTTTTTTTTTTCCTTTGAA
1 TTTTTTTTTCTTTGTTTCATTTGAA
10212668 TTTTTTTTTCTTTGTTT-ATTTG
1 TTTTTTTTTCTTTGTTTCATTTG
10212690 TTTATTTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 4 0.21
25 15 0.79
ACGTcount: A:0.06, C:0.06, G:0.06, T:0.81
Consensus pattern (25 bp):
TTTTTTTTTCTTTGTTTCATTTGAA
Found at i:10212941 original size:59 final size:58
Alignment explanation
Indices: 10212789--10213187 Score: 506
Period size: 59 Copynumber: 6.7 Consensus size: 58
10212779 AAAAATTCCA
10212789 AAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
1 AAAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
* * *
10212848 -CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
*
10212905 AAAAAAAAACATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
1 -AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA-TTTC
***
10212965 AAAAAAAGGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCAAAATTTCC
1 AAAAAAAATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTT-C
*
10213026 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA-TTTC
**
10213085 AAAAAAAAGGGGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAATTTT
1 AAAAAAAA---TATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAA-TTT
10213148 C
58 C
10213149 --AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTT
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTT
10213188 TCCTACAAAA
Statistics
Matches: 304, Mismatches: 17, Indels: 38
0.85 0.05 0.11
Matches are distributed among these distances:
57 49 0.16
58 7 0.02
59 134 0.44
60 11 0.04
61 50 0.16
62 45 0.15
64 8 0.03
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.34
Consensus pattern (58 bp):
AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
Found at i:10213075 original size:120 final size:120
Alignment explanation
Indices: 10212779--10213187 Score: 618
Period size: 120 Copynumber: 3.4 Consensus size: 120
10212769 ATAAAAATAA
*
10212779 AAAAATTCCAAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA
1 AAAATTTCC-AAAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA
* * *
10212844 TTTCCAAAAAATA---TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC-TCAGAAAT-
64 TTTTCAAAAAA-AGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGA-AAATC
* *
10212898 -AAATTTCAAAAAAAAACATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATT
1 AAAATTTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATT
10212962 TTCAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATC
66 TTCAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATC
*
10213017 AAAATTTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATT
1 AAAATTTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATT
10213082 TTCAAAAAAAAGGGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATC
66 TTC-AAAAAAA--GGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATC
* *
10213140 GAAATTTTC--AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTT
1 AAAATTTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTT
10213188 TCCTACAAAA
Statistics
Matches: 269, Mismatches: 12, Indels: 16
0.91 0.04 0.05
Matches are distributed among these distances:
115 1 0.00
116 56 0.21
117 7 0.03
118 42 0.16
119 2 0.01
120 64 0.24
121 45 0.17
123 52 0.19
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.33
Consensus pattern (120 bp):
AAAATTTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATT
TTCAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATC
Found at i:10215450 original size:11 final size:11
Alignment explanation
Indices: 10215436--10215529 Score: 64
Period size: 11 Copynumber: 9.2 Consensus size: 11
10215426 ACAATGGATG
10215436 AAAAATGAG-A
1 AAAAATGAGAA
10215446 AAAAA-GA-AA
1 AAAAATGAGAA
10215455 AAAAATGATG-A
1 AAAAATGA-GAA
10215466 AAAAAT--G-A
1 AAAAATGAGAA
10215474 AAAAAT--GAA
1 AAAAATGAGAA
10215483 AAAAATG-GAA
1 AAAAATGAGAA
*
10215493 AAAAAAGAAAGAA
1 AAAAATG--AGAA
**
10215506 AAAAAAAAGAA
1 AAAAATGAGAA
10215517 AAAAATGAGAA
1 AAAAATGAGAA
10215528 AA
1 AA
10215530 TGAAAAAAAA
Statistics
Matches: 71, Mismatches: 4, Indels: 17
0.77 0.04 0.18
Matches are distributed among these distances:
8 9 0.13
9 15 0.21
10 16 0.23
11 22 0.31
13 9 0.13
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (11 bp):
AAAAATGAGAA
Found at i:10215456 original size:8 final size:8
Alignment explanation
Indices: 10215445--10215538 Score: 64
Period size: 8 Copynumber: 10.8 Consensus size: 8
10215435 GAAAAATGAG
10215445 AAAAAAGAA
1 AAAAAAG-A
10215454 AAAAAATGA
1 AAAAAA-GA
10215463 TGAAAAAATGA
1 --AAAAAA-GA
*
10215474 AAAAATGA
1 AAAAAAGA
10215482 AAAAAATGGAA
1 AAAAAA--G-A
10215493 AAAAAAGA
1 AAAAAAGA
*
10215501 AAGAAA-A
1 AAAAAAGA
10215508 AAAAAAGA
1 AAAAAAGA
10215516 AAAAAATGA
1 AAAAAA-GA
* *
10215525 GAAAATGA
1 AAAAAAGA
10215533 AAAAAA
1 AAAAAA
10215539 AAGATTCAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
7 6 0.09
8 26 0.38
9 19 0.28
10 2 0.03
11 16 0.23
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (8 bp):
AAAAAAGA
Found at i:10215467 original size:20 final size:20
Alignment explanation
Indices: 10215436--10215539 Score: 87
Period size: 19 Copynumber: 5.2 Consensus size: 20
10215426 ACAATGGATG
10215436 AAAAATGAGAAAAAA-GAAA
1 AAAAATGAGAAAAAATGAAA
10215455 AAAAATGATGAAAAAATG--A
1 AAAAATGA-GAAAAAATGAAA
10215474 AAAAATGA-AAAAAATGGAAA
1 AAAAATGAGAAAAAAT-GAAA
**
10215494 AAAAA-GAAAGAAAAAAAAAAGAA
1 AAAAATG--AG-AAAAAATGA-AA
10215517 AAAAATGAG--AAAATGAAA
1 AAAAATGAGAAAAAATGAAA
10215535 AAAAA
1 AAAAA
10215540 AGATTCAAAT
Statistics
Matches: 70, Mismatches: 4, Indels: 23
0.72 0.04 0.24
Matches are distributed among these distances:
17 7 0.10
18 8 0.11
19 23 0.33
20 13 0.19
21 2 0.03
22 3 0.04
23 13 0.19
24 1 0.01
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (20 bp):
AAAAATGAGAAAAAATGAAA
Found at i:10216717 original size:11 final size:11
Alignment explanation
Indices: 10216701--10216728 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
10216691 GGTGGTTAAG
10216701 TGATGATCAAT
1 TGATGATCAAT
10216712 TGATGATCAAT
1 TGATGATCAAT
10216723 TGATGA
1 TGATGA
10216729 AACTTATTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (11 bp):
TGATGATCAAT
Found at i:10216954 original size:385 final size:374
Alignment explanation
Indices: 10216255--10217016 Score: 1353
Period size: 385 Copynumber: 2.0 Consensus size: 374
10216245 CTATGAGTAA
*
10216255 TGACCCAGTGATGGTGGATGAAACTTGTTTTGAAATTTGTTAGTGCTGAGAAGTCCATGAATGGT
1 TGACCCAGTGATGGTGGATGAAACTTGTTCTGAAATTTGTTAGTGCTGAGAAGTCCATGAATGGT
10216320 GGTCAAGTGATGATCAATTGGTGAAACTTATTCCAAAGTATTGAGAAACTGAACAAGGAAGACAT
66 GGTCAAGTGATGATCAATTGGTGAAACTTATTCCAAAGTATTGAGAAACTGAACAAGGAAGACAT
*
10216385 GCGAAATGGTGGAGTTTTGAGAGCTATATTACCACAATTATTTAAAATTTTATGATATAGACGTC
131 GCGAAATGGTAGAGTTTTGAGAGCTATATTACCACAATTATTTAAAATTTTATGATATAGACGTC
*
10216450 TGTATTACATGCATAATGGAGGCATCATTGCTTGAATAATACATGCACATAATTCGATGAATTAA
196 TGTATTACATGCATAATGGAGGCATCATTGCTTGAATAATACATGCACATAATTCAATGAATTAA
10216515 ACTTTGTTTGGACATGCATGGCACTATGAGAATATAGGTTATCGCATTTGCATCATTAAGAAAGC
261 ACTTTGTTTGGACATGCATGGCACTATGAGAATATAGGTTATCGCATTTGCATCATTAAGAAAGC
10216580 ATTTGCATCTTTGGTCATAACATTCATTCATGCAAATTTTTGAGTCACT
326 ATTTGCATCTTTGGTCATAACATTCATTCATGCAAATTTTTGAGTCACT
10216629 TGACCCAGTGATGGTGGATGAAACTTGTTCTGAAATTTGTTAGTGCTGAGAAGTCCATGAATGGT
1 TGACCCAGTGATGGTGGATGAAACTTGTTCTGAAATTTGTTAGTGCTGAGAAGTCCATGAATGGT
*
10216694 GGTTAAGTGATGATCAATTGATGATCAATTGATGAAACTTATTCCAAAGTATTGAGAAACTGAAC
66 GGTCAAGTGATGATCAA-T--TG-------G-TGAAACTTATTCCAAAGTATTGAGAAACTGAAC
* * *
10216759 AAGGAAGACATGCGAAATGGTAGAGTTTTGAGAGTTATATTACCATAATTATTTAAAATTTTGTG
120 AAGGAAGACATGCGAAATGGTAGAGTTTTGAGAGCTATATTACCACAATTATTTAAAATTTTATG
*
10216824 ATATAGACGTCTGTATTACATGCATCATGGAGGCATCATTGCTTGAATAATACATGCACATAATT
185 ATATAGACGTCTGTATTACATGCATAATGGAGGCATCATTGCTTGAATAATACATGCACATAATT
10216889 CAATGAATTAAACTTTGTTTGGACATGCATGGCACTATGAGAATATAGGTTATCGCATTTGCATC
250 CAATGAATTAAACTTTGTTTGGACATGCATGGCACTATGAGAATATAGGTTATCGCATTTGCATC
10216954 ATTAAGAAAGCATTTGCATCTTTGGTCATAACATTCATTCATGCAAATTTTTGAGTCACT
315 ATTAAGAAAGCATTTGCATCTTTGGTCATAACATTCATTCATGCAAATTTTTGAGTCACT
10217014 TGA
1 TGA
10217017 AAAAAAATTG
Statistics
Matches: 369, Mismatches: 8, Indels: 11
0.95 0.02 0.03
Matches are distributed among these distances:
374 80 0.22
375 1 0.00
377 2 0.01
384 1 0.00
385 285 0.77
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (374 bp):
TGACCCAGTGATGGTGGATGAAACTTGTTCTGAAATTTGTTAGTGCTGAGAAGTCCATGAATGGT
GGTCAAGTGATGATCAATTGGTGAAACTTATTCCAAAGTATTGAGAAACTGAACAAGGAAGACAT
GCGAAATGGTAGAGTTTTGAGAGCTATATTACCACAATTATTTAAAATTTTATGATATAGACGTC
TGTATTACATGCATAATGGAGGCATCATTGCTTGAATAATACATGCACATAATTCAATGAATTAA
ACTTTGTTTGGACATGCATGGCACTATGAGAATATAGGTTATCGCATTTGCATCATTAAGAAAGC
ATTTGCATCTTTGGTCATAACATTCATTCATGCAAATTTTTGAGTCACT
Found at i:10217702 original size:41 final size:41
Alignment explanation
Indices: 10217615--10217905 Score: 293
Period size: 41 Copynumber: 7.0 Consensus size: 41
10217605 GTTAAAGAGT
* * * *
10217615 AATTTATTTTTCAAAGTCGTGATTACCTCTATTTAGAGGAGC
1 AATTTACTTTTCAAAGTCGTG-GTGCCTCTGTTTAGAGGAGC
*
10217657 AATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGT
1 AATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
* *
10217698 AATTTATTTTTCCAAAGTCGTGGTTGCCTCTATTTAGAGGAGC
1 AATTTACTTTT-CAAAGTCGTGG-TGCCTCTGTTTAGAGGAGC
*
10217741 AATTTA-TTTTCCAAAGTCGTGGTGCCTCTATTTAGAGGAGC
1 AATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
* * * *
10217782 AATTTACTTTTCAAAGTTGTGATGCTTCTGTTTA-AAGAGC
1 AATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
** * * *
10217822 -ATTTA-TTTTTGAAGTCATGGTGCCTCTGCTTATAGGAGC
1 AATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
** * *
10217861 TTTGTTTACTTTTCCCAAGTCGTGGTTGCCTTTGTTTAGAGGAGC
1 --AATTTACTTTT-CAAAGTCGTGG-TGCCTCTGTTTAGAGGAGC
10217906 TTTGTTTATG
Statistics
Matches: 211, Mismatches: 28, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
38 20 0.09
39 10 0.05
40 5 0.02
41 70 0.33
42 55 0.26
43 27 0.13
44 8 0.04
45 16 0.08
ACGTcount: A:0.23, C:0.15, G:0.21, T:0.41
Consensus pattern (41 bp):
AATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
Found at i:10217756 original size:84 final size:82
Alignment explanation
Indices: 10217611--10217905 Score: 326
Period size: 84 Copynumber: 3.6 Consensus size: 82
10217601 GATTGTTAAA
* * *
10217611 GAGTAATTTATTTTTCAAAGTCGTGATTACCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTCG
1 GAGTAATTTACTTTTCAAAGTCGTGGTTGCCTCTATTTAGAGGAGCAATTTA-TTTTCAAAGTCG
10217676 TGGTGCCTCTGTTTAGAG
65 TGGTGCCTCTGTTTAGAG
*
10217694 GAGTAATTTATTTTTCCAAAGTCGTGGTTGCCTCTATTTAGAGGAGCAATTTATTTTCCAAAGTC
1 GAGTAATTTACTTTT-CAAAGTCGTGGTTGCCTCTATTTAGAGGAGCAATTTATTTT-CAAAGTC
*
10217759 GTGGTGCCTCTATTTAGAG
64 GTGGTGCCTCTGTTTAGAG
* * * * * * ** *
10217778 GAGCAATTTACTTTTCAAAGTTGT-GATGCTTCTGTTTA-AAGAGC-ATTTATTTTTGAAGTCAT
1 GAGTAATTTACTTTTCAAAGTCGTGGTTGCCTCTATTTAGAGGAGCAATTTATTTTCAAAGTCGT
* *
10217840 GGTGCCTCTGCTTATAG
66 GGTGCCTCTGTTTAGAG
** * * *
10217857 GAGCTTTGTTTACTTTTCCCAAGTCGTGGTTGCCTTTGTTTAGAGGAGC
1 GAG--TAATTTACTTTT-CAAAGTCGTGGTTGCCTCTATTTAGAGGAGC
10217906 TTTGTTTATG
Statistics
Matches: 180, Mismatches: 25, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
79 23 0.13
80 9 0.05
81 14 0.08
82 18 0.10
83 38 0.21
84 78 0.43
ACGTcount: A:0.23, C:0.15, G:0.22, T:0.40
Consensus pattern (82 bp):
GAGTAATTTACTTTTCAAAGTCGTGGTTGCCTCTATTTAGAGGAGCAATTTATTTTCAAAGTCGT
GGTGCCTCTGTTTAGAG
Found at i:10217945 original size:45 final size:45
Alignment explanation
Indices: 10217659--10217954 Score: 166
Period size: 41 Copynumber: 7.0 Consensus size: 45
10217649 AGAGGAGCAA
* **
10217659 TTTACTTTT-CAAAGTCGTGGT-GCCTCTGTTTAGAGGAG--TAA
1 TTTACTTTTCCAAAGTCGTGGTAGCCTCTGCTTAGAGGAGCTTTG
* * ** **
10217700 TTTATTTTTCCAAAGTCGTGGTTGCCTCTATTTAGAGGAGC--AA
1 TTTACTTTTCCAAAGTCGTGGTAGCCTCTGCTTAGAGGAGCTTTG
** **
10217743 TTTA-TTTTCCAAAGTCGTGGT-GCCTCTATTTAGAGGAGC--AA
1 TTTACTTTTCCAAAGTCGTGGTAGCCTCTGCTTAGAGGAGCTTTG
* * * * * *
10217784 TTTACTTTT-CAAAGTTGTGAT-GCTTCTGTTTA-AAGAGC---A
1 TTTACTTTTCCAAAGTCGTGGTAGCCTCTGCTTAGAGGAGCTTTG
** * *
10217823 TTTA-TTTT-TGAAGTCATGGT-GCCTCTGCTTATAGGAGCTTTG
1 TTTACTTTTCCAAAGTCGTGGTAGCCTCTGCTTAGAGGAGCTTTG
* * * *
10217865 TTTACTTTTCCCAAGTCGTGGTTGCCTTTGTTTAGAGGAGCTTTG
1 TTTACTTTTCCAAAGTCGTGGTAGCCTCTGCTTAGAGGAGCTTTG
* *
10217910 TTTA-TGTTTCTCAAAGTCGTTG-AGCCTCTACTTAGAGGAGCTTTG
1 TTTACT-TTTC-CAAAGTCGTGGTAGCCTCTGCTTAGAGGAGCTTTG
10217955 ATCAAAATTA
Statistics
Matches: 214, Mismatches: 28, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
38 20 0.09
39 10 0.05
40 5 0.02
41 51 0.24
42 37 0.17
43 26 0.12
44 10 0.05
45 46 0.21
46 9 0.04
ACGTcount: A:0.21, C:0.16, G:0.22, T:0.41
Consensus pattern (45 bp):
TTTACTTTTCCAAAGTCGTGGTAGCCTCTGCTTAGAGGAGCTTTG
Found at i:10218020 original size:98 final size:97
Alignment explanation
Indices: 10217895--10218247 Score: 482
Period size: 98 Copynumber: 3.6 Consensus size: 97
10217885 GTTGCCTTTG
*
10217895 TTTAGAGGAGCTTTGTTTATGTTTCTCAAAGTCGTTGAGCCTCTACTTAGAGGAGCTTTGATCAA
1 TTTAGAGGAGCTTTGTTTATGTTTCTCAAAGTCATTGAGCCTCTACTTAGAGGAGCTTTGATCAA
10217960 AATTAAAAAAGAACAA-AAAAAAAATTACCTCTA
66 AATTAAAAAA-AA-AACAAAAAAAATTACCTCTA
* * *
10217993 TTTAGAGGAGCTTTGTTTATGTTTCTCAGAGTCATCGAGCCTCTATTTAGAGGAGCTTTGATCAA
1 TTTAGAGGAGCTTTGTTTATGTTTCTCAAAGTCATTGAGCCTCTACTTAGAGGAGCTTTGATCAA
*
10218058 AATTTTAAGAAAAAAAAAAAAACAAAAAAAATTACCTCTG
66 AA--TT------AAAAAAAAAACAAAAAAAATTACCTCTA
*
10218098 TTTAGAGGAGCTTTG-TTATGTTTCTCAAAGTCATTGAGCCTCTGCTTAGAGGAGCTTTGATCAA
1 TTTAGAGGAGCTTTGTTTATGTTTCTCAAAGTCATTGAGCCTCTACTTAGAGGAGCTTTGATCAA
*
10218162 AATTAAAAAAAAAACAAAAAAAATTACCTTTA
66 AATTAAAAAAAAAACAAAAAAAATTACCTCTA
* * *
10218194 TTTAGAGAAGCTTTGTTTA-CTTT-TCAAAGTTATTGAGCCTCTGA-TTAGAGGAGC
1 TTTAGAGGAGCTTTGTTTATGTTTCTCAAAGTCATTGAGCCTCT-ACTTAGAGGAGC
10218248 CATTTATTTT
Statistics
Matches: 229, Mismatches: 15, Indels: 25
0.85 0.06 0.09
Matches are distributed among these distances:
95 28 0.12
96 43 0.19
97 3 0.01
98 63 0.28
100 2 0.01
102 2 0.01
104 49 0.21
105 33 0.14
106 6 0.03
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.33
Consensus pattern (97 bp):
TTTAGAGGAGCTTTGTTTATGTTTCTCAAAGTCATTGAGCCTCTACTTAGAGGAGCTTTGATCAA
AATTAAAAAAAAAACAAAAAAAATTACCTCTA
Found at i:10218170 original size:96 final size:95
Alignment explanation
Indices: 10218070--10218247 Score: 277
Period size: 96 Copynumber: 1.9 Consensus size: 95
10218060 TTTTAAGAAA
* * *
10218070 AAAAAAAAAACAAAAAAAATTACCTCTGTTTAGAGGAGCTTTG-TTATGTTTCTCAAAGTCATTG
1 AAAAAAAAAACAAAAAAAATTACCTCTATTTAGAGAAGCTTTGTTTA-CTTT-TCAAAGTCATTG
*
10218134 AGCCTCTGCTTAGAGGAGCTTTGATCAAAATT
64 AGCCTCTGATTAGAGGAGCTTTGATCAAAATT
* *
10218166 AAAAAAAAAACAAAAAAAATTACCTTTATTTAGAGAAGCTTTGTTTACTTTTCAAAGTTATTGAG
1 AAAAAAAAAACAAAAAAAATTACCTCTATTTAGAGAAGCTTTGTTTACTTTTCAAAGTCATTGAG
10218231 CCTCTGATTAGAGGAGC
66 CCTCTGATTAGAGGAGC
10218248 CATTTATTTT
Statistics
Matches: 75, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
95 29 0.39
96 43 0.57
97 3 0.04
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.31
Consensus pattern (95 bp):
AAAAAAAAAACAAAAAAAATTACCTCTATTTAGAGAAGCTTTGTTTACTTTTCAAAGTCATTGAG
CCTCTGATTAGAGGAGCTTTGATCAAAATT
Found at i:10218184 original size:105 final size:105
Alignment explanation
Indices: 10217976--10218247 Score: 334
Period size: 104 Copynumber: 2.7 Consensus size: 105
10217966 AAAAGAACAA
* *
10217976 AAAAAAAATTACCTCTATTTAGAGGAGCTTTGTTTATGTTTCTCAGAGTCATCGAGCCTCTATTT
1 AAAAAAAATTACCTCTATTTAGAGGAGCTTTGTTTATGTTTCTCAAAGTCATCGAGCCTCTACTT
** *
10218041 AGAGGAGCTTTGATCAAAATTTTAAGAAAAAAAAAAAAAC
66 AGAGGAGCTTTGATCAAAATTAAAAAAAAAAAAAAAAAAC
* * *
10218081 AAAAAAAATTACCTCTGTTTAGAGGAGCTTTG-TTATGTTTCTCAAAGTCATTGAGCCTCTGCTT
1 AAAAAAAATTACCTCTATTTAGAGGAGCTTTGTTTATGTTTCTCAAAGTCATCGAGCCTCTACTT
10218145 AGAGGAGCTTTGATCAAAATT--------AAAAAAAAAAC
66 AGAGGAGCTTTGATCAAAATTAAAAAAAAAAAAAAAAAAC
* * * * *
10218177 AAAAAAAATTACCTTTATTTAGAGAAGCTTTGTTTA-CTTT-TCAAAGTTATTGAGCCTCTGA-T
1 AAAAAAAATTACCTCTATTTAGAGGAGCTTTGTTTATGTTTCTCAAAGTCATCGAGCCTCT-ACT
10218239 TAGAGGAGC
65 TAGAGGAGC
10218248 CATTTATTTT
Statistics
Matches: 154, Mismatches: 11, Indels: 14
0.86 0.06 0.08
Matches are distributed among these distances:
95 28 0.18
96 43 0.28
97 3 0.02
104 49 0.32
105 31 0.20
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.33
Consensus pattern (105 bp):
AAAAAAAATTACCTCTATTTAGAGGAGCTTTGTTTATGTTTCTCAAAGTCATCGAGCCTCTACTT
AGAGGAGCTTTGATCAAAATTAAAAAAAAAAAAAAAAAAC
Found at i:10218261 original size:42 final size:42
Alignment explanation
Indices: 10218214--10218375 Score: 193
Period size: 42 Copynumber: 3.8 Consensus size: 42
10218204 CTTTGTTTAC
** *
10218214 TTTTCAAAGTTATTGAGCCTCTGATTAGAGGAGCCATTTATT
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCGTTTATT
10218256 TTTTCAAAGTCGTTGAGCCTCTGATTAGA-GAGCCGTTTA-T
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCGTTTATT
* * *
10218296 TTTTCATAAGTCGTTGAGCCTCTTATTACAGGAGCTTTGTTTATGT
1 TTTTCA-AAGTCGTTGAGCCTCTGATTAGAGGAGC--CGTTTAT-T
* * *
10218342 TTCTCAAAGTCGTTAAGCCTCTGCTTAGAGGAGC
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGC
10218376 TTTGATCAAA
Statistics
Matches: 103, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
40 7 0.07
41 30 0.29
42 31 0.30
44 5 0.05
45 24 0.23
46 6 0.06
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.39
Consensus pattern (42 bp):
TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCGTTTATT
Found at i:10218361 original size:45 final size:43
Alignment explanation
Indices: 10218195--10218379 Score: 200
Period size: 41 Copynumber: 4.3 Consensus size: 43
10218185 TTACCTTTAT
* * **
10218195 TTAGAGAAGCTTTGTTTACTTTTCAAAGTTATTGAGCCTCTGA
1 TTAGAGGAGCTTTGTTTATTTTTCAAAGTCGTTGAGCCTCTGA
**
10218238 TTAGAGGAGC--CATTTATTTTTTCAAAGTCGTTGAGCCTCTGA
1 TTAGAGGAGCTTTGTTTA-TTTTTCAAAGTCGTTGAGCCTCTGA
* *
10218280 TTAGA-GAGC--CGTTTATTTTTCATAAGTCGTTGAGCCTCTTA
1 TTAGAGGAGCTTTGTTTATTTTTCA-AAGTCGTTGAGCCTCTGA
* * *
10218321 TTACAGGAGCTTTGTTTATGTTTCTCAAAGTCGTTAAGCCTCTGC
1 TTAGAGGAGCTTTGTTTAT-TTT-TCAAAGTCGTTGAGCCTCTGA
10218366 TTAGAGGAGCTTTG
1 TTAGAGGAGCTTTG
10218380 ATCAAAATTT
Statistics
Matches: 121, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
40 7 0.06
41 34 0.28
42 31 0.26
43 9 0.07
44 6 0.05
45 31 0.26
46 3 0.02
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.40
Consensus pattern (43 bp):
TTAGAGGAGCTTTGTTTATTTTTCAAAGTCGTTGAGCCTCTGA
Found at i:10218361 original size:86 final size:82
Alignment explanation
Indices: 10218208--10218371 Score: 202
Period size: 86 Copynumber: 2.0 Consensus size: 82
10218198 GAGAAGCTTT
* * * *
10218208 GTTTACTTTTCAAAGTTATTGAGCCTCTGATTAGAGGAGCCATTTATTTTTTCAAAGTCGTTGAG
1 GTTTACTTTTCAAAGTCATTGAGCCTCTGATTACAGGAGCCATTTATTTTCTCAAAGTCGTTAAG
10218273 CCTCTGATTAGAGAGCC
66 CCTCTGATTAGAGAGCC
* * * **
10218290 GTTTATTTTTCATAAGTCGTTGAGCCTCTTATTACAGGAGCTTTGTTTATGTTTCTCAAAGTCGT
1 GTTTACTTTTCA-AAGTCATTGAGCCTCTGATTACAGGAGC--CATTTAT-TTTCTCAAAGTCGT
*
10218355 TAAGCCTCTGCTTAGAG
62 TAAGCCTCTGATTAGAG
10218372 GAGCTTTGAT
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
82 11 0.16
83 24 0.35
85 5 0.07
86 28 0.41
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (82 bp):
GTTTACTTTTCAAAGTCATTGAGCCTCTGATTACAGGAGCCATTTATTTTCTCAAAGTCGTTAAG
CCTCTGATTAGAGAGCC
Found at i:10218424 original size:23 final size:24
Alignment explanation
Indices: 10218398--10218442 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
10218388 TTTAACAAAA
10218398 AAAAAAAC-AAAACAAAAAAAGAG
1 AAAAAAACAAAAACAAAAAAAGAG
*
10218421 AAAAATACAAAAACAAAAAAAG
1 AAAAAAACAAAAACAAAAAAAG
10218443 TGTCAAGTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.82, C:0.09, G:0.07, T:0.02
Consensus pattern (24 bp):
AAAAAAACAAAAACAAAAAAAGAG
Found at i:10218688 original size:22 final size:23
Alignment explanation
Indices: 10218635--10218727 Score: 82
Period size: 22 Copynumber: 3.9 Consensus size: 23
10218625 AATGGGTTTT
*
10218635 TATTTTTATTTTCAT-TATTTAA
1 TATTTTTATTTTTATCTATTTAA
* *
10218657 TATATATATTTTTATCTA-TTAA
1 TATTTTTATTTTTATCTATTTAA
* *
10218679 TATTTTTATTATTTATCTGCTTTTAT
1 TATTTTTATT-TTTATCT--ATTTAA
10218705 TATTTATTATTATTTATCTATTT
1 TATTT-TTATT-TTTATCTATTT
10218728 CTTTTATTTA
Statistics
Matches: 57, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
22 24 0.42
23 9 0.16
25 3 0.05
26 8 0.14
27 13 0.23
ACGTcount: A:0.27, C:0.05, G:0.01, T:0.67
Consensus pattern (23 bp):
TATTTTTATTTTTATCTATTTAA
Found at i:10218739 original size:17 final size:18
Alignment explanation
Indices: 10218663--10218783 Score: 73
Period size: 17 Copynumber: 7.1 Consensus size: 18
10218653 TTAATATATA
*
10218663 TATT-TTTATCTA-TTAA
1 TATTATTTATCTATTTAT
10218679 TATT-TTTAT-TATTTAT
1 TATTATTTATCTATTTAT
**
10218695 CTGCT-TTTAT-TATTTAT
1 -TATTATTTATCTATTTAT
*
10218712 TATTATTTATCTATTTCT
1 TATTATTTATCTATTTAT
*
10218730 T-TTATTTATCTAATTAT
1 TATTATTTATCTATTTAT
*
10218747 T-TT-TTT-TGCTATCTAT
1 TATTATTTAT-CTATTTAT
*
10218763 TAATATATTTATCTTTTTAT
1 T-AT-TATTTATCTATTTAT
10218783 T
1 T
10218784 TTGATTAATT
Statistics
Matches: 83, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
15 3 0.04
16 24 0.29
17 36 0.43
18 8 0.10
19 1 0.01
20 10 0.12
21 1 0.01
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (18 bp):
TATTATTTATCTATTTAT
Found at i:10219181 original size:13 final size:13
Alignment explanation
Indices: 10219147--10219195 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
10219137 ATATGTTTAA
*
10219147 TATTCTTTTATTT
1 TATTTTTTTATTT
* *
10219160 T-TATCTTTATTT
1 TATTTTTTTATTT
10219172 TATTTTTTTATTT
1 TATTTTTTTATTT
10219185 TATTTTCTTTA
1 TATTTT-TTTA
10219196 AATAAAATCC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
12 9 0.31
13 16 0.55
14 4 0.14
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (13 bp):
TATTTTTTTATTT
Found at i:10219286 original size:59 final size:58
Alignment explanation
Indices: 10219215--10219651 Score: 514
Period size: 59 Copynumber: 7.6 Consensus size: 58
10219205 CAAAAAATAT
*
10219215 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCCATAAAA
1 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAGTTTCCA-AAAA
* * *
10219274 ATATTTTTGGGGAAAAGTTGAAAGTATCAAATTTT-CTTAAAAATAAAGTTTTCTAAAAA
1 ATATTTTTGGGGAAAAGTTGAAAGTATC-AATTTTCCTTGAAATTAAAG-TTTCCAAAAA
* * * *
10219333 A-AGGTTTTGGGGAAAAGTTGAAAGTATCAATTTT-CTTAAAAATAAA-TTTTCAAAAA
1 ATA-TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAGTTTCCAAAAA
** * * **
10219389 A-GGTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTTTAAAAA
1 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAG-TTTCCAAAAA
* * * * *
10219447 ATA-TTTTGAGGGAAAAGTTGAAAGTGTCAATTTTCCTTAAAAATAAATTTTCAAAAAA
1 ATATTTTTG-GGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAGTTTCCAAAAA
** **
10219505 AGGTTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAGTTTCC-AAAA
1 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAGTTTCCAAAAA
* * * *
10219562 ATA-TTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAATTTCTAAAAA
1 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAGTTTCCAAAAA
10219619 ATA-TTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
10219652 TCCTGCACAA
Statistics
Matches: 328, Mismatches: 40, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
55 30 0.09
56 61 0.19
57 41 0.12
58 81 0.25
59 104 0.32
60 11 0.03
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.36
Consensus pattern (58 bp):
ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAGTTTCCAAAAA
Found at i:10219435 original size:114 final size:114
Alignment explanation
Indices: 10219219--10219651 Score: 543
Period size: 114 Copynumber: 3.8 Consensus size: 114
10219209 AAATATATAT
* * * *
10219219 TTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCCATAAAAATA-TTTTTG
1 TTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAA-TTTTCA-AAAAA-AGGTTTTG
* * *
10219283 GGGAAAAGTTGAAAGTATCAAATTTT-CTTAAAAATAAAGTTTTCTAAAAAAA
63 AGGAAAAGTTGAAAGTATC-AATTTTCCTTGAAATTAAAGTTTTCTAAAAAAA
*
10219335 GGTTTTGGGGAAAAGTTGAAAGTATCAATTTT-CTTAAAAATAAATTTTC-AAAAAAGGTTTTGA
1 --TTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAATTTTCAAAAAAAGGTTTTGA
* *
10219398 GGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTTTAAAAAATA
64 GGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAGTTTTCTAAAAAA-A
* * *
10219450 TTTTGAGGGAAAAGTTGAAAGTGTCAATTTTCCTTAAAAATAAATTTTCAAAAAAAGGTTTTTAA
1 TTTTG-GGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAATTTTCAAAAAAAGG-TTTTGA
* *
10219515 GGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAG-TTTCCAAAAATA
64 GGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAGTTTTCTAAAAAAA
* * * * * ** *
10219565 TTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAATTTCTAAAAAATATTTTGGGG
1 TTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAATTTTCAAAAAAAGGTTTTGAGG
10219630 AAAAGTTGAAAGTATCAATTTT
66 AAAAGTTGAAAGTATCAATTTT
10219652 TCCTGCACAA
Statistics
Matches: 281, Mismatches: 27, Indels: 19
0.86 0.08 0.06
Matches are distributed among these distances:
113 40 0.14
114 116 0.41
115 24 0.09
116 20 0.07
117 51 0.18
118 30 0.11
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.36
Consensus pattern (114 bp):
TTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAATTTTCAAAAAAAGGTTTTGAGG
AAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAGTTTTCTAAAAAAA
Found at i:10219579 original size:173 final size:169
Alignment explanation
Indices: 10219219--10219651 Score: 645
Period size: 173 Copynumber: 2.5 Consensus size: 169
10219209 AAATATATAT
*
10219219 TTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCCATAAAAATATTTTTGG
1 TTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCTA-AAAAATA-TTTTGG
**
10219284 GGAAAAGTTGAAAGTATCAAATTTTCTTAAAAATAAAGTTTTCTAAAAAAAGGTTTTGGGGAAAA
63 GGAAAAGTTGAAAGTATC-AATTTTCTTAAAAATAAAGTTTTCTAAAAAAAGGTTTTAAGGAAAA
* *
10219349 GTTGAAAGTATCAATTTTCTTAAAAATAAATTTTCAAAAAAGG
127 GTTGAAAGTATCAATTTTCTTAAAAATAAAGTTTCAAAAAAGA
*
10219392 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTTTAAAAAATATTTTGAG
1 TTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAG-TTTCTAAAAAATATTTTG-G
*
10219457 GGAAAAGTTGAAAGTGTCAATTTTCCTTAAAAATAAA-TTTTC-AAAAAAAGGTTTTTAAGGAAA
63 GGAAAAGTTGAAAGTATCAATTTT-CTTAAAAATAAAGTTTTCTAAAAAAAGG-TTTTAAGGAAA
* * * *
10219520 AGTTGAAAGTATCAATTTTCCTTGAAATTAAAGTTTCCAAAAATA
126 AGTTGAAAGTATCAATTTT-CTTAAAAATAAAGTTTCAAAAAAGA
*
10219565 TTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAATTTCTAAAAAATATTTTGGGG
1 TTTTGGG-AAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCTAAAAAATATTTTGGGG
10219630 AAAAGTTGAAAGTATCAATTTT
65 AAAAGTTGAAAGTATCAATTTT
10219652 TCCTGCACAA
Statistics
Matches: 239, Mismatches: 14, Indels: 16
0.89 0.05 0.06
Matches are distributed among these distances:
171 33 0.14
172 64 0.27
173 138 0.58
174 4 0.02
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.36
Consensus pattern (169 bp):
TTTTGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCTAAAAAATATTTTGGGGA
AAAGTTGAAAGTATCAATTTTCTTAAAAATAAAGTTTTCTAAAAAAAGGTTTTAAGGAAAAGTTG
AAAGTATCAATTTTCTTAAAAATAAAGTTTCAAAAAAGA
Found at i:10228190 original size:25 final size:25
Alignment explanation
Indices: 10228162--10228213 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
10228152 AAAAATAAAG
*
10228162 TTGTATTTATATAGTGCCTTAAAAT
1 TTGTATTTATATAGTACCTTAAAAT
10228187 TTGTATTTATATAGTACCTTAAAAT
1 TTGTATTTATATAGTACCTTAAAAT
10228212 TT
1 TT
10228214 AGCATGAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.50
Consensus pattern (25 bp):
TTGTATTTATATAGTACCTTAAAAT
Found at i:10241917 original size:44 final size:45
Alignment explanation
Indices: 10241836--10241925 Score: 146
Period size: 44 Copynumber: 2.0 Consensus size: 45
10241826 TGCTTCGCTA
*
10241836 TGAGTTAACTGCAATAAGTTTTCTACCACATAAATTACTCTAGAT
1 TGAGTTAACTACAATAAGTTTTCTACCACATAAATTACTCTAGAT
* *
10241881 TGAGTTAATTACAATAAG-TTTCTGCCACATAAATTACTCTAGAT
1 TGAGTTAACTACAATAAGTTTTCTACCACATAAATTACTCTAGAT
10241925 T
1 T
10241926 ATTCTATATT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 26 0.62
45 16 0.38
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.37
Consensus pattern (45 bp):
TGAGTTAACTACAATAAGTTTTCTACCACATAAATTACTCTAGAT
Found at i:10244138 original size:21 final size:21
Alignment explanation
Indices: 10244082--10244139 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
10244072 AAATACCCTA
* *
10244082 AAAAAATCAAAT-ACATAAAT
1 AAAAAACCAAATAAAATAAAT
* *
10244102 AAATAACTAAATAAAATAAAT
1 AAAAAACCAAATAAAATAAAT
*
10244123 AAAAATACCAAAAAAAA
1 AAAAA-ACCAAATAAAA
10244140 AAAGAAACGG
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
20 9 0.31
21 11 0.38
22 9 0.31
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.17
Consensus pattern (21 bp):
AAAAAACCAAATAAAATAAAT
Found at i:10244668 original size:20 final size:20
Alignment explanation
Indices: 10244645--10244684 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
10244635 CAGTCGATGC
10244645 AAAAAAATTCACCGAAATCT
1 AAAAAAATTCACCGAAATCT
** *
10244665 AAAAAGTTTTACCGAAATCT
1 AAAAAAATTCACCGAAATCT
10244685 GAGAATATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.17, G:0.07, T:0.25
Consensus pattern (20 bp):
AAAAAAATTCACCGAAATCT
Found at i:10257362 original size:2 final size:2
Alignment explanation
Indices: 10257355--10257379 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10257345 AATTGAACTT
10257355 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
10257380 TTTACCCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10261617 original size:21 final size:21
Alignment explanation
Indices: 10261573--10261618 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
10261563 TAATTAGTAA
* * *
10261573 AAAATATTAAATTTTAATTGT
1 AAAATATTAAAATATAATTAT
*
10261594 AAAATATTAAAATATGATTAT
1 AAAATATTAAAATATAATTAT
10261615 AAAA
1 AAAA
10261619 AGTAATTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (21 bp):
AAAATATTAAAATATAATTAT
Found at i:10262714 original size:17 final size:16
Alignment explanation
Indices: 10262675--10262717 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
10262665 TTGAATTAAA
*
10262675 AATAAAGTA-ATTTTT
1 AATAAATTATATTTTT
10262690 AATAAATTATATTTTT
1 AATAAATTATATTTTT
10262706 AATATAATTATA
1 AATA-AATTATA
10262718 AAAATACAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 8 0.32
16 10 0.40
17 7 0.28
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
AATAAATTATATTTTT
Found at i:10262762 original size:5 final size:6
Alignment explanation
Indices: 10262750--10262776 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
10262740 ATTAATTATA
10262750 TTATTT TTATTT TTATTT TTATTT TTA
1 TTATTT TTATTT TTATTT TTATTT TTA
10262777 ATCTTAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TTATTT
Found at i:10262807 original size:27 final size:27
Alignment explanation
Indices: 10262766--10262817 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
10262756 TTATTTTTAT
* *
10262766 TTTTATTTTTAATCTTAATATAATTAA
1 TTTTATTTTTAATCTAAATAGAATTAA
10262793 TTTTATTGTTT-ATCTAAATAGAATT
1 TTTTATT-TTTAATCTAAATAGAATT
10262818 TTAATCCACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 19 0.86
28 3 0.14
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (27 bp):
TTTTATTTTTAATCTAAATAGAATTAA
Found at i:10264346 original size:32 final size:32
Alignment explanation
Indices: 10264298--10264367 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 32
10264288 CACTGACCTT
* *
10264298 AGTTGAGGGCTCGCTTTCTCAGCTGTTGCTAC
1 AGTTAAGGGCTCGCTTTCTCAGCTGTTACTAC
* * *
10264330 AGTTAAGGGCTTGCTTTCTTAGCTGTTACTAT
1 AGTTAAGGGCTCGCTTTCTCAGCTGTTACTAC
10264362 AGTTAA
1 AGTTAA
10264368 TGTCTGCTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.39
Consensus pattern (32 bp):
AGTTAAGGGCTCGCTTTCTCAGCTGTTACTAC
Found at i:10266041 original size:30 final size:30
Alignment explanation
Indices: 10266016--10266072 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
10266006 TTTATTTATG
10266016 TATAAATTAAAAATTAAAAGTTTATTTGAA
1 TATAAATTAAAAATTAAAAGTTTATTTGAA
* *
10266046 TATAAATTAAAATTTAAAAATTTATTT
1 TATAAATTAAAAATTAAAAGTTTATTT
10266073 TGATGAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (30 bp):
TATAAATTAAAAATTAAAAGTTTATTTGAA
Found at i:10266111 original size:27 final size:27
Alignment explanation
Indices: 10266025--10266136 Score: 104
Period size: 27 Copynumber: 4.1 Consensus size: 27
10266015 GTATAAATTA
*
10266025 AAAAT-TAAAAGTTTATTTGAATATAAATT
1 AAAATATAAAAATTTATTT-AATA-AAA-T
* * *
10266054 AAAATTTAAAAATTTATTTTGATGAAA-
1 AAAATATAAAAATTTA-TTTAATAAAAT
*
10266081 AAAATA-AAAAATTTATTTAAGTACAAT
1 AAAATATAAAAATTTATTTAA-TAAAAT
*
10266108 AAAATATAAAACTTTATTTAATAAAAT
1 AAAATATAAAAATTTATTTAATAAAAT
10266135 AA
1 AA
10266137 TAAAATTCAA
Statistics
Matches: 69, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
25 4 0.06
26 12 0.17
27 18 0.26
28 13 0.19
29 8 0.12
30 11 0.16
31 3 0.04
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (27 bp):
AAAATATAAAAATTTATTTAATAAAAT
Found at i:10269411 original size:708 final size:706
Alignment explanation
Indices: 10267792--10269915 Score: 2794
Period size: 709 Copynumber: 3.0 Consensus size: 706
10267782 AGTGCACTTG
* * * *
10267792 GATATGTCATTTTTTACCACAATAATAACATTTTATATCACTGTAATCTCTATCTCTGGACTTGG
1 GATATGTCATTTTTCACCACAATAATAACATTCTATATCACTGTAATCTCTATCTCTTGACTTGA
** *
10267857 ATCTTTCTTTTGATCCATCAAT-TCTCTTTTGAACCCTCAT-TTGATCAAAACCCTTTACAGCTA
66 ATCTTTCTTTTGATCCATCAATCT-TCTTTTGAGTCCTC-TCTTGATCAAAACCCTCTACAGCTA
* * * * *
10267920 GTGTATTCCCTCAAAGTGATAAGTTTTATGTTCCCATAAATCTTTCGTTTTCACGTAACAGGACA
129 GTGTATTCCTTCAAAGTGATGAGTTTTGTGTTCCTATAAACCTTTCGTTTTCACGTAACAGGACA
*
10267985 GTCACATCATCCAACTTCAAAGTAGACCTACCCACCAACACAGTATGAACTAAAGGTCTATAAGA
194 GTCACATCATCCAACTTCAAAGTAGACCTACCCACCAACACAGTATGAACT-AATGTCTATAAGA
* * *
10268050 CTTGAGCAAAGATGATAGCAAAATTAAAGCCTTTTCTTCATCTTTTAACTCATTAATAGAAATTA
258 CTTGAGCAAAGATGATAGCAAAATTAAAGCCTTTTCTTCATCTTTTAACTCATTAACAAAAATGA
* * * *
10268115 CCAATAGTTGAGAAACCAATCTATTAATCTCATTCAGGTGATTATGAAGACTCGTACCTTCTTTC
323 TCAATAATTGAGAAACCAATCTATTAAACTCATTCAAGTGATTATGAAGACTCGTACCTTCTTTC
* * *
10268180 ATCTTTAGAGAATACAAA-TCTATTTTTAAATATAATCTGTTAATCAATGACTTTGAAGCATAAA
388 ATCTTTAGAGAATACAAATTC-ATCTTCAAATATAATCTGTT-ATTAATGACTTTGAAGCATAAA
* * * * *
10268244 TACCCTCAAGCTTATCCCATAAACTCTTCGAAGTACTCTCAATCAACATACTATACTTTACCTC-
451 TACCTTTAAGCTTATCCCATAAACTCTTCG-GGTACTCTCAGTCAACACACTATACTTTACCTCT
* ** * * * *
10268308 TAGGGCTGGCACCAATCTAATAGTACTAATAGCTTTCTTTTGAATTCTTTTCCAATTACCGTCAA
515 TA-GGCTAGTGCCAATCTAATAGTACTAACAGCTTTCTTTTGAATTCTATTCCAATTACTGTCAG
* * *
10268373 ACATTCTCTCAAG-TTTACTACTCTCTAATGCCTGATCCAACCCTTATTGTACTAATAGATCTTG
579 ACATTCTCTCAGGCTTT-CTACTCTCTAATGCATGATCCAACCCTTGTTGTACTAATAGATCTTG
*
10268437 AATCGTACTTTACCATAACATAAAATTACTCTTTTCATCAAATAACAAAATCTCAAACTTAGTG
643 AATCGTACTTTACCATAACATAAAATTACTCTTTTCATCAAATAACAAAATCTCAAACTTAGTA
* * *
10268501 GATATGTCTTTTTTCACCATAATAATAACATTCTATATTACTGTAATCTCTATCTCTTGACTTGA
1 GATATGTCATTTTTCACCACAATAATAACATTCTATATCACTGTAATCTCTATCTCTTGACTTGA
* * * * * ** *
10268566 ATCTTCCTTTTAATTCATCAATCTTCTTTTGAGTTCTCCCTCAATCAAAACCCTCTATAGCTAGT
66 ATCTTTCTTTTGATCCATCAATCTTCTTTTGAGTCCTCTCTTGATCAAAACCCTCTACAGCTAGT
* * *
10268631 GTATTCCCTT-TAAGTGATGAGTTTTGTGTT-CTCATAAACCTTTCGTTTTCACGTAATAGGGCA
131 GTATT-CCTTCAAAGTGATGAGTTTTGTGTTCCT-ATAAACCTTTCGTTTTCACGTAACAGGACA
* * * * * *
10268694 ATCACATCATCCAACTTTAAAATAGACCTATCCACCAACACAGTTTGAACTAATGATCTATAAAA
194 GTCACATCATCCAACTTCAAAGTAGACCTACCCACCAACACAGTATGAACTAATG-TCTATAAGA
* * * *
10268759 TTTGGGCAAAAATGATAGCAAAATTAAAGCCTTCTCTTCATCTTTTAACTCATTAACAAAAATGA
258 CTTGAGCAAAGATGATAGCAAAATTAAAGCCTTTTCTTCATCTTTTAACTCATTAACAAAAATGA
* * * * * *
10268824 TTAGTAATTGAGAAACCAATATATTAAACTCATTCAAGTGATTATAAAGACTTGCACCTTCTTTC
323 TCAATAATTGAGAAACCAATCTATTAAACTCATTCAAGTGATTATGAAGACTCGTACCTTCTTTC
* * *
10268889 ATTTTTAGAAAATACAAATTCATCTTCAAATATAATCCGTTAGTTAATGACTTTGAAGCATAAAT
388 ATCTTTAGAGAATACAAATTCATCTTCAAATATAATCTGTTA-TTAATGACTTTGAAGCATAAAT
* *
10268954 ACCTTTAAGCTTATCCCATAAACTCTTCAGGGTATTCTCAGTCAACACACTATACTTTACTTCTT
452 ACCTTTAAGCTTATCCCATAAACTCTTC-GGGTACTCTCAGTCAACACACTATACTTTACCTCTT
* * * * *
10269019 AGGTTAATGCCAATCTAATAATACTAACAGTTTTCTTTTGAATTCTATT-CAATTACTGTCAGAT
516 AGGCTAGTGCCAATCTAATAGTACTAACAGCTTTCTTTTGAATTCTATTCCAATTACTGTCAGAC
* * *
10269083 ATTCTCTCAGGCTTTTTACTCTCTAATGCTTGATCTAACCCTTGTTGTGA-TAATAGATCTTGAA
581 ATTCTCTCAGGCTTTCTACTCTCTAATGCATGATCCAACCCTTGTTGT-ACTAATAGATCTTGAA
10269147 TCGTACTTTACCATAACATAAAATTACTCTTTTCATCAAATAACAAAATCTCAAACTTAGTA
645 TCGTACTTTACCATAACATAAAATTACTCTTTTCATCAAATAACAAAATCTCAAACTTAGTA
** * * *
10269209 GATATGTCCCTTTTCACCACAATAATAACATTCAATGTCACTGTAATCTCTGTCTCTTGACTTGA
1 GATATGTCATTTTTCACCACAATAATAACATTCTATATCACTGTAATCTCTATCTCTTGACTTGA
* *
10269274 ATCTTTCTATTGATCCATCAATCTTCTTTTGAGTCCTCTCTTGATCAAAACTCTCTACAGCTAGT
66 ATCTTTCTTTTGATCCATCAATCTTCTTTTGAGTCCTCTCTTGATCAAAACCCTCTACAGCTAGT
* * * * * * *
10269339 ATATTCCTTCCAAGTGATGAGTTATGTGTTCCTATATACCTTTTGTTTTCACATAACAAGACAGT
131 GTATTCCTTCAAAGTGATGAGTTTTGTGTTCCTATAAACCTTTCGTTTTCACGTAACAGGACAGT
* * *
10269404 GACATCATCCAACTTCAAAGTAGACCTACCCACCAACACAGTCTGAGCTAAATGTCTATAAGACT
196 CACATCATCCAACTTCAAAGTAGACCTACCCACCAACACAGTATGAACT-AATGTCTATAAGACT
* ** * * * * *
10269469 TAAATAAAGATGATAGCAAAATTAAAACATTTTTTTCATCTTTTAACTCATCAACAGAAATTG-T
260 TGAGCAAAGATGATAGCAAAATTAAAGCCTTTTCTTCATCTTTTAACTCATTAACA-AAAATGAT
* * *
10269533 CACTAATTGAGAAACCAATCTATTAAACTCATTCATGTGATTATGAATACTCGTACCTTCTTTCA
324 CAATAATTGAGAAACCAATCTATTAAACTCATTCAAGTGATTATGAAGACTCGTACCTTCTTTCA
* * * **
10269598 TCTTTAGAGAATACAAATCCATCTTCAAATATAATATGTTATTCAACGACTTCAAAGCATAAATA
389 TCTTTAGAGAATACAAATTCATCTTCAAATATAATCTGTTATT-AATGACTTTGAAGCATAAATA
* * * * * *
10269663 CCTTTAAGCTTATCTCATAAACTCTTTGGAGTACTATCAGTCAATACACTATATTTTACCTCTAA
453 CCTTTAAGCTTATCCCATAAACTCTTCGG-GTACTCTCAGTCAACACACTATACTTTACCTCTTA
** *
10269728 TACTAGTGCCAATCTAATAGTACTAACAACTTTCTTTTGAATTCTATTCCAATTACTGTCAGACA
517 GGCTAGTGCCAATCTAATAGTACTAACAGCTTTCTTTTGAATTCTATTCCAATTACTGTCAGACA
* * * *
10269793 TT-TCTTTAGGCTTACTACTCTCTAATGCATGATCCAACTCTTGTTTTACTAATAGATCTTGAAT
582 TTCTC-TCAGGCTTTCTACTCTCTAATGCATGATCCAACCCTTGTTGTACTAATAGATCTTGAAT
* * ** * *
10269857 CATATTTTGTCATAACATAAAATTACTCTTTCCATCAAATAACGAAATCTCAAACTTAG
646 CGTACTTTACCATAACATAAAATTACTCTTTTCATCAAATAACAAAATCTCAAACTTAG
10269916 GCATAGGCAT
Statistics
Matches: 1223, Mismatches: 172, Indels: 40
0.85 0.12 0.03
Matches are distributed among these distances:
707 8 0.01
708 599 0.49
709 607 0.50
710 9 0.01
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (706 bp):
GATATGTCATTTTTCACCACAATAATAACATTCTATATCACTGTAATCTCTATCTCTTGACTTGA
ATCTTTCTTTTGATCCATCAATCTTCTTTTGAGTCCTCTCTTGATCAAAACCCTCTACAGCTAGT
GTATTCCTTCAAAGTGATGAGTTTTGTGTTCCTATAAACCTTTCGTTTTCACGTAACAGGACAGT
CACATCATCCAACTTCAAAGTAGACCTACCCACCAACACAGTATGAACTAATGTCTATAAGACTT
GAGCAAAGATGATAGCAAAATTAAAGCCTTTTCTTCATCTTTTAACTCATTAACAAAAATGATCA
ATAATTGAGAAACCAATCTATTAAACTCATTCAAGTGATTATGAAGACTCGTACCTTCTTTCATC
TTTAGAGAATACAAATTCATCTTCAAATATAATCTGTTATTAATGACTTTGAAGCATAAATACCT
TTAAGCTTATCCCATAAACTCTTCGGGTACTCTCAGTCAACACACTATACTTTACCTCTTAGGCT
AGTGCCAATCTAATAGTACTAACAGCTTTCTTTTGAATTCTATTCCAATTACTGTCAGACATTCT
CTCAGGCTTTCTACTCTCTAATGCATGATCCAACCCTTGTTGTACTAATAGATCTTGAATCGTAC
TTTACCATAACATAAAATTACTCTTTTCATCAAATAACAAAATCTCAAACTTAGTA
Found at i:10274140 original size:20 final size:18
Alignment explanation
Indices: 10274099--10274133 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
10274089 TCATTTAAAA
10274099 AAAATTTAA-TAAAATCTT
1 AAAA-TTAATTAAAATCTT
10274117 AAAATTAATTAAAATCT
1 AAAATTAATTAAAATCT
10274134 ATTAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAATTAATTAAAATCTT
Done.