Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 39 of 320
Found at i:11105922 original size:5 final size:6
Alignment explanation
Indices: 11105905--11105932 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
11105895 TAGAAAATTA
11105905 GAGGGG GAGGGG GAGGGG GAGGGG GAGG
1 GAGGGG GAGGGG GAGGGG GAGGGG GAGG
11105933 AAAGGAGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.82, T:0.00
Consensus pattern (6 bp):
GAGGGG
Found at i:11106042 original size:2 final size:2
Alignment explanation
Indices: 11106035--11106071 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
11106025 CAGTGCTCCT
11106035 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
11106072 GTTCACTTAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:11109052 original size:27 final size:26
Alignment explanation
Indices: 11109022--11109112 Score: 74
Period size: 27 Copynumber: 3.4 Consensus size: 26
11109012 TTTTAGTTAT
* *
11109022 TTTATATATTTATACTTTTTTTATAAA
1 TTTATATATTTTTA-TATTTTTATAAA
* ** **
11109049 TTTATAAATTTTTAGTCCTTTTATATG
1 TTTATATATTTTTA-TATTTTTATAAA
* *
11109076 CTTATATATTTTTATAATTTTTATTAA
1 TTTATATATTTTTAT-ATTTTTATAAA
11109103 TTTATATATT
1 TTTATATATT
11109113 ATAAAATTTT
Statistics
Matches: 48, Mismatches: 15, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
26 1 0.02
27 47 0.98
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTATATATTTTTATATTTTTATAAA
Found at i:11109060 original size:19 final size:19
Alignment explanation
Indices: 11109021--11109061 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
11109011 TTTTTAGTTA
* **
11109021 TTTTATATATTTATACTTT
1 TTTTATAAATTTATAAATT
11109040 TTTTATAAATTTATAAATT
1 TTTTATAAATTTATAAATT
11109059 TTT
1 TTT
11109062 AGTCCTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTTATAAATTTATAAATT
Found at i:11115111 original size:5 final size:5
Alignment explanation
Indices: 11115101--11115134 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
11115091 TTTGTGTGTT
11115101 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
11115135 TCACAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:11122130 original size:9 final size:10
Alignment explanation
Indices: 11122110--11122141 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
11122100 AGCTGATGAT
11122110 AAAT-AAGAA
1 AAATGAAGAA
11122119 AAATGAAGAA
1 AAATGAAGAA
11122129 AAATGAAGAA
1 AAATGAAGAA
11122139 AAA
1 AAA
11122142 CCTAGATACT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.75, C:0.00, G:0.16, T:0.09
Consensus pattern (10 bp):
AAATGAAGAA
Found at i:11131827 original size:39 final size:39
Alignment explanation
Indices: 11131780--11131919 Score: 190
Period size: 39 Copynumber: 3.6 Consensus size: 39
11131770 ATCGTGATCT
** * * *
11131780 AAAGCCCGAAGTTTAGCTGAAGTACATAAGTGCTAAAAG
1 AAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAAAG
* * *
11131819 GAAGCCCGAAGGCTAACTAAAGCACACAAGTGCTAAACG
1 AAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAAAG
*
11131858 AAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
1 AAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAAAG
*
11131897 AAATCCCGAAGGCTAACTGAAGC
1 AAAGCCCGAAGGCTAACTGAAGC
11131920 TCATCAGAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 90 1.00
ACGTcount: A:0.41, C:0.23, G:0.23, T:0.14
Consensus pattern (39 bp):
AAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAAAG
Found at i:11133506 original size:40 final size:40
Alignment explanation
Indices: 11133461--11133540 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
11133451 TCTATTTTCC
*
11133461 CACCATCTTTTATATTCTTAGATT-GTTCTATAAAGAATTA
1 CACCATCTTTTATATTCTTAGATTAG-TATATAAAGAATTA
11133501 CACCATCTTTTATATTCTTAGATTAGTATATAAAGAATTA
1 CACCATCTTTTATATTCTTAGATTAGTATATAAAGAATTA
11133541 TTGTAGAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
40 37 0.97
41 1 0.03
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (40 bp):
CACCATCTTTTATATTCTTAGATTAGTATATAAAGAATTA
Found at i:11134085 original size:23 final size:22
Alignment explanation
Indices: 11134050--11134102 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 22
11134040 GTTAACAATA
11134050 TTAACAATGTTAAA-ATAATTTAAT
1 TTAA-AATGTTAAACAT-A-TTAAT
*
11134074 TTAAAATTTTAAACATATTAAT
1 TTAAAATGTTAAACATATTAAT
*
11134096 TAAAAAT
1 TTAAAAT
11134103 ATTTTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 11 0.42
23 9 0.35
24 6 0.23
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (22 bp):
TTAAAATGTTAAACATATTAAT
Found at i:11135001 original size:19 final size:19
Alignment explanation
Indices: 11134977--11135020 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
11134967 TGAAAGCAAC
11134977 ACAACATCAACCCAAATAA
1 ACAACATCAACCCAAATAA
* **
11134996 ACAACATGATTCCAAATAA
1 ACAACATCAACCCAAATAA
11135015 ACAACA
1 ACAACA
11135021 AAAATAATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.57, C:0.27, G:0.02, T:0.14
Consensus pattern (19 bp):
ACAACATCAACCCAAATAA
Found at i:11137807 original size:95 final size:95
Alignment explanation
Indices: 11137642--11137941 Score: 418
Period size: 95 Copynumber: 3.2 Consensus size: 95
11137632 ATTAAATTAA
* ** *
11137642 AAATTAATTAATA-TA-ATAGTACAGCAGCATAAATTAAACAAAAAAAAGTATGTTAAACTACAT
1 AAATTAATAAATAGTACA-AGTACAATAGCATAAATTAAACAAAAAAAAGTATGTTAAACTACAG
11137705 TTTAAACTTTAAAGTTAGTTAATTGAAGCCT
65 TTTAAACTTTAAAGTTAGTTAATTGAAGCCT
* *
11137736 AAATTAATAGAATAGTACAAGTACAATAGCATAAATTAAAC-AAAAAAAGTATCTTAAACTATAG
1 AAATTAATA-AATAGTACAAGTACAATAGCATAAATTAAACAAAAAAAAGTATGTTAAACTACAG
11137800 TTTAAACTTTAAAGTTAGTTAATTGAAGCCT
65 TTTAAACTTTAAAGTTAGTTAATTGAAGCCT
* * * *
11137831 AAATTAAT--ATA--A-TAGTACAATAGCATAAAGTAAACAAAAAAAAAGTCTGTTAAACCACAG
1 AAATTAATAAATAGTACAAGTACAATAGCATAAATTAAAC-AAAAAAAAGTATGTTAAACTACAG
11137891 TTTAAACTTTAAAGTTAGTTAATTGAAGCCT
65 TTTAAACTTTAAAGTTAGTTAATTGAAGCCT
11137922 AAATTAATATAATAGTACAA
1 AAATTAATA-AATAGTACAA
11137942 CAACTTAAAT
Statistics
Matches: 182, Mismatches: 13, Indels: 19
0.85 0.06 0.09
Matches are distributed among these distances:
89 21 0.12
90 1 0.01
91 58 0.32
92 3 0.02
94 11 0.06
95 63 0.35
96 23 0.13
97 2 0.01
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (95 bp):
AAATTAATAAATAGTACAAGTACAATAGCATAAATTAAACAAAAAAAAGTATGTTAAACTACAGT
TTAAACTTTAAAGTTAGTTAATTGAAGCCT
Found at i:11137902 original size:91 final size:90
Alignment explanation
Indices: 11137647--11137941 Score: 439
Period size: 91 Copynumber: 3.2 Consensus size: 90
11137637 ATTAAAAATT
** *
11137647 AATTAATATAATAGTACAGCAGCATAAATTAAACAAAAAAAAGTATGTTAAACTACATTTTAAAC
1 AATTAATATAATAGTACAATAGCATAAATTAAACAAAAAAAAGTATGTTAAACTACAGTTTAAAC
11137712 TTTAAAGTTAGTTAATTGAAGCCTA
66 TTTAAAGTTAGTTAATTGAAGCCTA
* * *
11137737 AATTAATAGAATAGTACAAGTACAATAGCATAAATTAAAC-AAAAAAAGTATCTTAAACTATAGT
1 AATTAAT---ATA--A-TAGTACAATAGCATAAATTAAACAAAAAAAAGTATGTTAAACTACAGT
11137801 TTAAACTTTAAAGTTAGTTAATTGAAGCCTA
60 TTAAACTTTAAAGTTAGTTAATTGAAGCCTA
* * *
11137832 AATTAATATAATAGTACAATAGCATAAAGTAAACAAAAAAAAAGTCTGTTAAACCACAGTTTAAA
1 AATTAATATAATAGTACAATAGCATAAATTAAAC-AAAAAAAAGTATGTTAAACTACAGTTTAAA
11137897 CTTTAAAGTTAGTTAATTGAAGCCTA
65 CTTTAAAGTTAGTTAATTGAAGCCTA
11137923 AATTAATATAATAGTACAA
1 AATTAATATAATAGTACAA
11137942 CAACTTAAAT
Statistics
Matches: 185, Mismatches: 12, Indels: 15
0.87 0.06 0.07
Matches are distributed among these distances:
89 21 0.11
90 8 0.04
91 70 0.38
92 3 0.02
93 3 0.02
95 60 0.32
96 20 0.11
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (90 bp):
AATTAATATAATAGTACAATAGCATAAATTAAACAAAAAAAAGTATGTTAAACTACAGTTTAAAC
TTTAAAGTTAGTTAATTGAAGCCTA
Found at i:11142876 original size:21 final size:21
Alignment explanation
Indices: 11142851--11142892 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
11142841 ATACCATATA
11142851 AAAGGTATCAATACTTTTTGT
1 AAAGGTATCAATACTTTTTGT
*
11142872 AAAGGTATCGATACTTTTTGT
1 AAAGGTATCAATACTTTTTGT
11142893 GTAAATTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.43
Consensus pattern (21 bp):
AAAGGTATCAATACTTTTTGT
Found at i:11143093 original size:22 final size:24
Alignment explanation
Indices: 11143065--11143108 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
11143055 ATTTTGTTCA
11143065 ACTTTAACTT-TTAT-TCAAAAAC
1 ACTTTAACTTGTTATATCAAAAAC
*
11143087 ACTTTAATTTGTTATATCAAAA
1 ACTTTAACTTGTTATATCAAAA
11143109 CATATTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.41, C:0.14, G:0.02, T:0.43
Consensus pattern (24 bp):
ACTTTAACTTGTTATATCAAAAAC
Found at i:11143281 original size:39 final size:39
Alignment explanation
Indices: 11143209--11143298 Score: 112
Period size: 39 Copynumber: 2.3 Consensus size: 39
11143199 AATGAGATAT
* *
11143209 TGAAAGTATGTAAGACATGCCACTGAATTGAAATTGAAA
1 TGAAAGCATGTAAGACATGCCACTGAATAGAAATTGAAA
* *
11143248 TGGAAGCATGTGAAG-CATGCCACT-ATATAGAAATTGTAA
1 TGAAAGCATGT-AAGACATGCCACTGA-ATAGAAATTGAAA
11143287 TGAAAGCATGTA
1 TGAAAGCATGTA
11143299 CTTAAGGTCC
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
38 2 0.05
39 39 0.89
40 3 0.07
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.26
Consensus pattern (39 bp):
TGAAAGCATGTAAGACATGCCACTGAATAGAAATTGAAA
Found at i:11145615 original size:3 final size:3
Alignment explanation
Indices: 11145607--11145661 Score: 101
Period size: 3 Copynumber: 18.3 Consensus size: 3
11145597 TATTAACTTT
11145607 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
11145655 ATT ATA A
1 ATA ATA A
11145662 ATATCTTATT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:11146091 original size:16 final size:17
Alignment explanation
Indices: 11146066--11146104 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
11146056 CTATTTTAAG
11146066 TTTA-TTTTAATT-TTA
1 TTTATTTTTAATTATTA
11146081 TTTATTTTTAATTATTA
1 TTTATTTTTAATTATTA
11146098 -TTATTTT
1 TTTATTTT
11146105 AGATTTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.18
16 15 0.68
17 3 0.14
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTATTTTTAATTATTA
Found at i:11146115 original size:16 final size:15
Alignment explanation
Indices: 11146067--11146121 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 15
11146057 TATTTTAAGT
11146067 TTATTTTAATTT-TA
1 TTATTTTAATTTATA
11146081 TTTATTTTTAA-TTATTA
1 -TTA-TTTTAATTTA-TA
11146098 TTATTTTAGATTTATA
1 TTATTTTA-ATTTATA
11146114 TTAATTTT
1 TT-ATTTT
11146122 CTTAAGCTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
15 10 0.29
16 14 0.41
17 10 0.29
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (15 bp):
TTATTTTAATTTATA
Found at i:11153333 original size:22 final size:22
Alignment explanation
Indices: 11153308--11153356 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
11153298 TCTTCACACC
* * *
11153308 CGACCTTGCGCCGCGCCACCGT
1 CGACCTCGAGCCGCGCCACCGA
*
11153330 CGACCTCGATCCGCGCCACCGA
1 CGACCTCGAGCCGCGCCACCGA
11153352 CGACC
1 CGACC
11153357 GCGCGCCCAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.14, C:0.51, G:0.24, T:0.10
Consensus pattern (22 bp):
CGACCTCGAGCCGCGCCACCGA
Found at i:11156421 original size:16 final size:15
Alignment explanation
Indices: 11156396--11156443 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
11156386 CTATTTTAAG
11156396 TTTATTTTAATTTTA
1 TTTATTTTAATTTTA
11156411 TTTATTTTTAATTATTA
1 TTTA-TTTTAATT-TTA
11156428 -TTATTTTAGATTTTA
1 TTTATTTTA-ATTTTA
11156443 T
1 T
11156444 ATTAATTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 12 0.41
16 14 0.48
17 3 0.10
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (15 bp):
TTTATTTTAATTTTA
Found at i:11157674 original size:20 final size:21
Alignment explanation
Indices: 11157651--11157713 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 21
11157641 GTCTTTATTT
*
11157651 TAATTTAT-TTTTAATAATAA
1 TAATTTATAATTTAATAATAA
*
11157671 TAA-TCATAATTTAATAAT-A
1 TAATTTATAATTTAATAATAA
*
11157690 TAAATTATAATTTAATAA-AA
1 TAATTTATAATTTAATAATAA
11157710 TAAT
1 TAAT
11157714 AAATAATAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
19 7 0.19
20 29 0.81
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
TAATTTATAATTTAATAATAA
Found at i:11157722 original size:23 final size:21
Alignment explanation
Indices: 11157660--11157722 Score: 76
Period size: 20 Copynumber: 3.0 Consensus size: 21
11157650 TTAATTTATT
*
11157660 TTTAATAATAAT-AATCATAA
1 TTTAATAATAATAAATAATAA
*
11157680 TTTAATAAT-ATAAATTATAA
1 TTTAATAATAATAAATAATAA
11157700 TTTAATAAAATAATAAATAATAA
1 TTTAAT--AATAATAAATAATAA
11157723 ATATCTATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.05
20 22 0.59
22 3 0.08
23 10 0.27
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
TTTAATAATAATAAATAATAA
Found at i:11157770 original size:38 final size:37
Alignment explanation
Indices: 11157706--11157780 Score: 89
Period size: 38 Copynumber: 2.0 Consensus size: 37
11157696 ATAATTTAAT
*
11157706 AAAATAATAAATAATAAATATCTATATACTTAAATAA
1 AAAATAATAAATAATAAATATATATATACTTAAATAA
* * *
11157743 AAAAGTAATTAATAATTAAAT-TATATATATTTACATAA
1 AAAA-TAATAAATAA-TAAATATATATATACTTAAATAA
11157781 TTAAAATCTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
37 4 0.12
38 23 0.72
39 5 0.16
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (37 bp):
AAAATAATAAATAATAAATATATATATACTTAAATAA
Found at i:11159438 original size:60 final size:60
Alignment explanation
Indices: 11159373--11159490 Score: 200
Period size: 60 Copynumber: 2.0 Consensus size: 60
11159363 ACCTTAGGTT
* *
11159373 ACATTTTAGTTACTTATATTTGAAATGTTAAGTTTTAGTCACTAACGTTATCGTGTTATA
1 ACATTTTAGTCACTTATATTTGAAATGTTAAGTTTTAGTCACTAACATTATCGTGTTATA
* *
11159433 ACATTTTAGTCACTTATATTTGAAGTGTTACGTTTTAGTCACTAACATTATCGTGTTA
1 ACATTTTAGTCACTTATATTTGAAATGTTAAGTTTTAGTCACTAACATTATCGTGTTA
11159491 ACGTTATCGT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.46
Consensus pattern (60 bp):
ACATTTTAGTCACTTATATTTGAAATGTTAAGTTTTAGTCACTAACATTATCGTGTTATA
Found at i:11159475 original size:29 final size:29
Alignment explanation
Indices: 11159370--11159475 Score: 85
Period size: 29 Copynumber: 3.6 Consensus size: 29
11159360 TGAACCTTAG
* *
11159370 GTTACATTTTAGTTACTTATATTTGAAAT
1 GTTACATTTTAGTCACTTATATTTGAAGT
* *
11159399 GTTA-AGTTTTAGTCAC-TA-ACGTT-ATCGT
1 GTTACA-TTTTAGTCACTTATA-TTTGA-AGT
11159427 GTTATAACATTTTAGTCACTTATATTTGAAGT
1 G-T-T-ACATTTTAGTCACTTATATTTGAAGT
*
11159459 GTTACGTTTTAGTCACT
1 GTTACATTTTAGTCACT
11159476 AACATTATCG
Statistics
Matches: 60, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
27 2 0.03
28 7 0.12
29 27 0.45
30 2 0.03
31 12 0.20
32 8 0.13
33 2 0.03
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.47
Consensus pattern (29 bp):
GTTACATTTTAGTCACTTATATTTGAAGT
Found at i:11159494 original size:29 final size:29
Alignment explanation
Indices: 11159398--11159495 Score: 94
Period size: 29 Copynumber: 3.3 Consensus size: 29
11159388 ATATTTGAAA
*
11159398 TGTTAA-GTTTTAGTCACTAACGTTATCG
1 TGTTAACGTTTTAGTCACTAACATTATCG
* * * *
11159426 TGTTATAACATTTTAGTCACTTATATT-TGAAG
1 TG-T-TAACGTTTTAGTCACTAACATTAT--CG
11159458 TGTT-ACGTTTTAGTCACTAACATTATCG
1 TGTTAACGTTTTAGTCACTAACATTATCG
11159486 TGTTAACGTT
1 TGTTAACGTT
11159496 ATCGTGTTAT
Statistics
Matches: 54, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
28 7 0.13
29 23 0.43
30 6 0.11
31 15 0.28
32 3 0.06
ACGTcount: A:0.27, C:0.13, G:0.15, T:0.45
Consensus pattern (29 bp):
TGTTAACGTTTTAGTCACTAACATTATCG
Found at i:11159497 original size:14 final size:14
Alignment explanation
Indices: 11159475--11159504 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11159465 TTTTAGTCAC
11159475 TAACATTATCGTGT
1 TAACATTATCGTGT
*
11159489 TAACGTTATCGTGT
1 TAACATTATCGTGT
11159503 TA
1 TA
11159505 TAACATTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.43
Consensus pattern (14 bp):
TAACATTATCGTGT
Found at i:11159503 original size:74 final size:74
Alignment explanation
Indices: 11159415--11159563 Score: 271
Period size: 74 Copynumber: 2.0 Consensus size: 74
11159405 TTTTAGTCAC
*
11159415 TAACGTTATCGTGTTATAACATTTTAGTCACTTATATTTGAAGTGTTACGTTTTAGTCACTAACA
1 TAACGTTATCGTGTTATAACATTTTAGTCACTTATATTTGAAATGTTACGTTTTAGTCACTAACA
*
11159480 TTATCGTGT
66 TTAACGTGT
*
11159489 TAACGTTATCGTGTTATAACATTTTAGTCACTTATATTTGAAATGTTACGTTTTAGTCACTAATA
1 TAACGTTATCGTGTTATAACATTTTAGTCACTTATATTTGAAATGTTACGTTTTAGTCACTAACA
11159554 TTAACGTGT
66 TTAACGTGT
11159563 T
1 T
11159564 GTAACATTTT
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 72 1.00
ACGTcount: A:0.28, C:0.13, G:0.14, T:0.45
Consensus pattern (74 bp):
TAACGTTATCGTGTTATAACATTTTAGTCACTTATATTTGAAATGTTACGTTTTAGTCACTAACA
TTAACGTGT
Found at i:11159577 original size:31 final size:32
Alignment explanation
Indices: 11159498--11159579 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 32
11159488 TTAACGTTAT
*
11159498 CGTGTTATAACATTTTAGTCACTTATATTTGAA
1 CGTGTT-TAACATTTTAGTCACTAATATTTGAA
* *
11159531 -ATG-TT-ACGTTTTAGTCACTAATA-TT-AA
1 CGTGTTTAACATTTTAGTCACTAATATTTGAA
11159558 CGTGTTGTAACATTTTAGTCAC
1 CGTGTT-TAACATTTTAGTCAC
11159580 AAAGTCATTA
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
27 2 0.05
28 4 0.10
29 17 0.43
30 2 0.05
31 13 0.32
32 2 0.05
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.44
Consensus pattern (32 bp):
CGTGTTTAACATTTTAGTCACTAATATTTGAA
Found at i:11160458 original size:3 final size:3
Alignment explanation
Indices: 11160450--11160475 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
11160440 TAGTCGTTTC
11160450 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
11160476 ACTGTTGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:11165185 original size:2 final size:2
Alignment explanation
Indices: 11165178--11165224 Score: 76
Period size: 2 Copynumber: 23.0 Consensus size: 2
11165168 TGGGAACATG
*
11165178 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GG GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
11165220 TGA GA
1 -GA GA
11165225 CATGGTCTTG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 40 0.95
3 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.51, T:0.02
Consensus pattern (2 bp):
GA
Found at i:11170257 original size:20 final size:20
Alignment explanation
Indices: 11170232--11170274 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
11170222 TAGAAAATGA
11170232 TTTCTGAAAAATGATTTA-TT
1 TTTCTG-AAAATGATTTACTT
*
11170252 TTTCTGGAAATGATTTACTT
1 TTTCTGAAAATGATTTACTT
11170272 TTT
1 TTT
11170275 TGGTGTTTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.28, C:0.07, G:0.12, T:0.53
Consensus pattern (20 bp):
TTTCTGAAAATGATTTACTT
Found at i:11170717 original size:46 final size:46
Alignment explanation
Indices: 11170647--11170768 Score: 208
Period size: 46 Copynumber: 2.7 Consensus size: 46
11170637 AATAATATTA
* * *
11170647 TCCAAATGCATAATTAGTAGTACACCACATGATAACAACAACATTG
1 TCCAAATGCATAACTAATATTACACCACATGATAACAACAACATTG
*
11170693 TCCAAGTGCATAACTAATATTACACCACATGATAACAACAACATTG
1 TCCAAATGCATAACTAATATTACACCACATGATAACAACAACATTG
11170739 TCCAAATGCATAACTAATATTACACCACAT
1 TCCAAATGCATAACTAATATTACACCACAT
11170769 TAAAAGTATT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.43, C:0.24, G:0.08, T:0.25
Consensus pattern (46 bp):
TCCAAATGCATAACTAATATTACACCACATGATAACAACAACATTG
Found at i:11177547 original size:24 final size:24
Alignment explanation
Indices: 11177520--11177576 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
11177510 TTTCAAAACT
11177520 TAAGTACATAATTTATACAATACC
1 TAAGTACATAATTTATACAATACC
*
11177544 TAAGTACACAATTTATACAATACC
1 TAAGTACATAATTTATACAATACC
*
11177568 AAAGTACAT
1 TAAGTACAT
11177577 GCCACTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.47, C:0.18, G:0.05, T:0.30
Consensus pattern (24 bp):
TAAGTACATAATTTATACAATACC
Found at i:11178062 original size:23 final size:23
Alignment explanation
Indices: 11178036--11178096 Score: 113
Period size: 23 Copynumber: 2.7 Consensus size: 23
11178026 TGAATTCCAA
11178036 CCAAACACACCAGAATAAACCAC
1 CCAAACACACCAGAATAAACCAC
*
11178059 CCAAACACACCAAAATAAACCAC
1 CCAAACACACCAGAATAAACCAC
11178082 CCAAACACACCAGAA
1 CCAAACACACCAGAA
11178097 CGGCACTAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.54, C:0.39, G:0.03, T:0.03
Consensus pattern (23 bp):
CCAAACACACCAGAATAAACCAC
Found at i:11179111 original size:3 final size:3
Alignment explanation
Indices: 11179105--11179140 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
11179095 TTTATACTTT
11179105 ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA ATTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA
11179141 TAAATATCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 26 0.84
4 3 0.10
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:11179126 original size:17 final size:18
Alignment explanation
Indices: 11179104--11179143 Score: 73
Period size: 17 Copynumber: 2.3 Consensus size: 18
11179094 TTTTATACTT
11179104 TATAATAATAATAA-TAA
1 TATAATAATAATAATTAA
11179121 TATAATAATAATAATTAA
1 TATAATAATAATAATTAA
11179139 TATAA
1 TATAA
11179144 ATATCTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TATAATAATAATAATTAA
Found at i:11179127 original size:14 final size:14
Alignment explanation
Indices: 11179108--11179140 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
11179098 ATACTTTATA
11179108 ATAATAATAATAAT
1 ATAATAATAATAAT
11179122 ATAATAATAATAAT
1 ATAATAATAATAAT
11179136 -TAATA
1 ATAATA
11179141 TAAATATCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
ATAATAATAATAAT
Found at i:11182029 original size:11 final size:11
Alignment explanation
Indices: 11182013--11182043 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
11182003 TCTACATGTG
11182013 TAATAATTATA
1 TAATAATTATA
11182024 TAATAATTATA
1 TAATAATTATA
11182035 TAATAATTA
1 TAATAATTA
11182044 ATTAACATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
TAATAATTATA
Found at i:11190192 original size:6 final size:6
Alignment explanation
Indices: 11190163--11190217 Score: 67
Period size: 6 Copynumber: 9.3 Consensus size: 6
11190153 ATTAAAGTTC
* * *
11190163 AAAATA GAAA-A AAAATA AACATA AAAATA AAAATA AAAATA AACATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
*
11190210 AAGATA AA
1 AAAATA AA
11190218 TGGACTCAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
5 4 0.10
6 38 0.90
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:11190200 original size:24 final size:23
Alignment explanation
Indices: 11190163--11190217 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 23
11190153 ATTAAAGTTC
*
11190163 AAAATAGAAAAAAAATAAACATA
1 AAAATAAAAAAAAAATAAACATA
11190186 AAAATAAAAATAAAAATAAACATA
1 AAAATAAAAA-AAAAATAAACATA
*
11190210 AAGATAAA
1 AAAATAAA
11190218 TGGACTCAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 9 0.31
24 20 0.69
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.15
Consensus pattern (23 bp):
AAAATAAAAAAAAAATAAACATA
Found at i:11191896 original size:3 final size:3
Alignment explanation
Indices: 11191890--11191996 Score: 92
Period size: 3 Copynumber: 35.7 Consensus size: 3
11191880 ATATTAAAGA
* * * * *
11191890 AAT AAT AAG AAT AAT AAT AAA AAT AAT AAT AAG AAG AAT ACT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* ** **
11191938 ATT GACC AAT AAT AGAT AA- AAT AAT AAT AAT AAT AGG AA- AAT AAT
1 AAT -AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11191983 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
11191997 AGAAAAATAT
Statistics
Matches: 84, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
2 4 0.05
3 76 0.90
4 4 0.05
ACGTcount: A:0.64, C:0.03, G:0.07, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:11191980 original size:20 final size:21
Alignment explanation
Indices: 11191945--11191992 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
11191935 AATATTGACC
*
11191945 AATAATAGATAAAATAATAAT
1 AATAATAGAGAAAATAATAAT
11191966 AATAATAG-GAAAATAATAAT
1 AATAATAGAGAAAATAATAAT
11191986 AATAATA
1 AATAATA
11191993 ATAAAGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 18 0.69
21 8 0.31
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (21 bp):
AATAATAGAGAAAATAATAAT
Found at i:11192179 original size:23 final size:22
Alignment explanation
Indices: 11192133--11192182 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
11192123 ACGGAATGGT
11192133 AAGGG-GAAAGGAAAGAAGAAA
1 AAGGGAGAAAGGAAAGAAGAAA
*
11192154 AAGGGAGAAAGGGGAAGAA-AAGA
1 AAGGGAGAAA-GGAAAGAAGAA-A
11192177 AAGGGA
1 AAGGGA
11192183 AGAGAATGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 5 0.20
22 6 0.24
23 14 0.56
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (22 bp):
AAGGGAGAAAGGAAAGAAGAAA
Found at i:11192916 original size:17 final size:17
Alignment explanation
Indices: 11192890--11192931 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
11192880 CGTGTATCCT
11192890 GGCCGTGTGGGTTACAC
1 GGCCGTGTGGGTTACAC
*
11192907 GGCTGTGTGGGTTACAC
1 GGCCGTGTGGGTTACAC
11192924 GGCCGTGT
1 GGCCGTGT
11192932 CGCCTAGCCG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.10, C:0.21, G:0.43, T:0.26
Consensus pattern (17 bp):
GGCCGTGTGGGTTACAC
Found at i:11197098 original size:30 final size:30
Alignment explanation
Indices: 11197062--11197119 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
11197052 CACGGGCTAC
*
11197062 CACATGGGCGTGTGGCT-AGCTCGTGTGGCT
1 CACATGGGCGTGT-GCTCAGCCCGTGTGGCT
11197092 CACATGGGCGTGTGCTCAGCCCGTGTGG
1 CACATGGGCGTGTGCTCAGCCCGTGTGG
11197120 AAATGGTCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 3 0.12
30 23 0.88
ACGTcount: A:0.10, C:0.26, G:0.40, T:0.24
Consensus pattern (30 bp):
CACATGGGCGTGTGCTCAGCCCGTGTGGCT
Found at i:11197759 original size:115 final size:116
Alignment explanation
Indices: 11197557--11197769 Score: 383
Period size: 115 Copynumber: 1.8 Consensus size: 116
11197547 TAGGGTGTTA
*
11197557 TAGAAATCATTAACAAATGGACTTAATTGATTTTTAGTTAACAAACAAGAGCTAAATTGAGTGTG
1 TAGAAATCATTAACAAATGGACTTAATTAATTTTTAGTTAACAAACAAGAGCTAAATTGAGTGTG
11197622 AATTATATCAAGTAGCTTAATTGATTTT-TTTTAAAATTTCTCTCGAGAAT
66 AATTATATCAAGTAGCTTAATTGATTTTATTTTAAAATTTCTCTCGAGAAT
*
11197672 TAGAAATCATTAACGAATGGACTTAATTAATTTTTAGTTAACAAACAAGAGCTAAATTGAGTGTG
1 TAGAAATCATTAACAAATGGACTTAATTAATTTTTAGTTAACAAACAAGAGCTAAATTGAGTGTG
* *
11197737 AATTATATCAAGTGGGTTAATTGATTTTATTTT
66 AATTATATCAAGTAGCTTAATTGATTTTATTTT
11197770 TTTTTTAAAT
Statistics
Matches: 93, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
115 89 0.96
116 4 0.04
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (116 bp):
TAGAAATCATTAACAAATGGACTTAATTAATTTTTAGTTAACAAACAAGAGCTAAATTGAGTGTG
AATTATATCAAGTAGCTTAATTGATTTTATTTTAAAATTTCTCTCGAGAAT
Found at i:11213958 original size:12 final size:12
Alignment explanation
Indices: 11213941--11213974 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
11213931 CGACCCACTC
11213941 ATATTAATTTTT
1 ATATTAATTTTT
*
11213953 ATATTATTTTTT
1 ATATTAATTTTT
11213965 ATA-TAATTTT
1 ATATTAATTTT
11213975 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:11214055 original size:13 final size:13
Alignment explanation
Indices: 11214034--11214068 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
11214024 TCCTAACAAA
11214034 TTAAAAATAAATT
1 TTAAAAATAAATT
*
11214047 TTGAAAATAAATT
1 TTAAAAATAAATT
11214060 TTAAAAATA
1 TTAAAAATA
11214069 TATATACCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (13 bp):
TTAAAAATAAATT
Found at i:11214154 original size:30 final size:30
Alignment explanation
Indices: 11214110--11214172 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
11214100 ATTTAACAAG
*
11214110 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATATCTCTAAAATAATAACAAAATTAA
*
11214140 CAAATATCTTTAAAATAATAACAAAATTAA
1 CAAATATCTCTAAAATAATAACAAAATTAA
11214170 CAA
1 CAA
11214173 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.59, C:0.13, G:0.02, T:0.27
Consensus pattern (30 bp):
CAAATATCTCTAAAATAATAACAAAATTAA
Found at i:11214227 original size:22 final size:22
Alignment explanation
Indices: 11214202--11214244 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
11214192 TATCCAAACA
11214202 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
11214224 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
11214245 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:11214248 original size:11 final size:11
Alignment explanation
Indices: 11214209--11214249 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
11214199 ACAATAACAA
11214209 CAAAATAGTAG
1 CAAAATAGTAG
* *
11214220 CAACATAATAG
1 CAAAATAGTAG
*
11214231 TAAAATAGTAG
1 CAAAATAGTAG
11214242 CAAAATAG
1 CAAAATAG
11214250 GGAGAAAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:11219254 original size:24 final size:26
Alignment explanation
Indices: 11219200--11219251 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
11219190 TATCATTTAT
**
11219200 TTATT-TTAAAAA-ACTATACATATA
1 TTATTATTAAAAATACTATTTATATA
11219224 TTATTATTAAAAATACTATTTATATA
1 TTATTATTAAAAATACTATTTATATA
11219250 TT
1 TT
11219252 TATATAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 5 0.21
25 7 0.29
26 12 0.50
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (26 bp):
TTATTATTAAAAATACTATTTATATA
Found at i:11219261 original size:26 final size:25
Alignment explanation
Indices: 11219188--11219261 Score: 71
Period size: 25 Copynumber: 2.9 Consensus size: 25
11219178 ATTTTTTATA
* *
11219188 TATATCATTTATTTATTTTAAAAAAC
1 TATA-CATATATTTATATTAAAAAAC
11219214 TATACATATA-TTATTATTAAAAATAC
1 TATACATATATTTA-TATTAAAAA-AC
**
11219240 TATTTATATATTTATA-TAAAAA
1 TATACATATATTTATATTAAAAA
11219262 TTTTATTTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
24 3 0.07
25 19 0.46
26 16 0.39
27 3 0.07
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (25 bp):
TATACATATATTTATATTAAAAAAC
Found at i:11219432 original size:14 final size:13
Alignment explanation
Indices: 11219413--11219452 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
11219403 TTAAAATTTG
11219413 TAAATCATTATTAT
1 TAAATCA-TATTAT
*
11219427 TAAATCATATTTT
1 TAAATCATATTAT
*
11219440 TAACTCATATTAT
1 TAAATCATATTAT
11219453 ATACACATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 16 0.70
14 7 0.30
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (13 bp):
TAAATCATATTAT
Found at i:11219442 original size:13 final size:13
Alignment explanation
Indices: 11219408--11219450 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
11219398 TAATTTTAAA
*
11219408 ATTTGTAAATCATT
1 ATTTTTAAATCA-T
*
11219422 ATTATTAAATCAT
1 ATTTTTAAATCAT
*
11219435 ATTTTTAACTCAT
1 ATTTTTAAATCAT
11219448 ATT
1 ATT
11219451 ATATACACAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
13 15 0.60
14 10 0.40
ACGTcount: A:0.37, C:0.09, G:0.02, T:0.51
Consensus pattern (13 bp):
ATTTTTAAATCAT
Found at i:11219593 original size:20 final size:19
Alignment explanation
Indices: 11219570--11219623 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
11219560 TTTATTTTAT
11219570 ATATTATTATTTTTAAACCA
1 ATATTATTATTTTTAAA-CA
* * *
11219590 ATATATTTTATTTTTATATA
1 ATAT-TATTATTTTTAAACA
11219610 ATTATTATTATTTT
1 A-TATTATTATTTT
11219624 ATTATATATT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (19 bp):
ATATTATTATTTTTAAACA
Found at i:11219640 original size:25 final size:25
Alignment explanation
Indices: 11219593--11219641 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
11219583 TAAACCAATA
*
11219593 TATTTTATTTTTATATAATTATTAT
1 TATTTTATTTATATATAATTATTAT
*
11219618 TATTTTA-TTATATATTATATATTA
1 TATTTTATTTATATATAAT-TATTA
11219642 AATACTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (25 bp):
TATTTTATTTATATATAATTATTAT
Found at i:11219665 original size:25 final size:26
Alignment explanation
Indices: 11219631--11219679 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
11219621 TTTATTATAT
11219631 ATTATATATTAAATA-CTATTTTTAAA
1 ATTATATATTAAATATC-ATTTTTAAA
11219657 ATTAT-TATTAAATATCATTTTTA
1 ATTATATATTAAATATCATTTTTA
11219680 TTTGTATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (26 bp):
ATTATATATTAAATATCATTTTTAAA
Found at i:11219667 original size:12 final size:13
Alignment explanation
Indices: 11219605--11219671 Score: 59
Period size: 12 Copynumber: 5.3 Consensus size: 13
11219595 TTTTATTTTT
*
11219605 ATATAATTATT-A
1 ATATTATTATTAA
* *
11219617 TTATT-TTATTAT
1 ATATTATTATTAA
11219629 ATATTATATATTAA
1 ATATTAT-TATTAA
* *
11219643 ATACTATTTTTAA
1 ATATTATTATTAA
11219656 A-ATTATTATTAA
1 ATATTATTATTAA
11219668 ATAT
1 ATAT
11219672 CATTTTTATT
Statistics
Matches: 42, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
11 5 0.12
12 17 0.40
13 9 0.21
14 11 0.26
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (13 bp):
ATATTATTATTAA
Found at i:11222513 original size:46 final size:44
Alignment explanation
Indices: 11222454--11222568 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
11222444 ACAGGACAGA
* *
11222454 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
11222500 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
11222544 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
11222569 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:11222549 original size:44 final size:45
Alignment explanation
Indices: 11222454--11222587 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
11222444 ACAGGACAGA
* *
11222454 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
11222500 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
11222544 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
11222588 TAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:11234187 original size:205 final size:206
Alignment explanation
Indices: 11233526--11234451 Score: 1361
Period size: 206 Copynumber: 4.5 Consensus size: 206
11233516 GTAGATCTGG
* *
11233526 CTGAAGCAAGATCCAAGATGGTTTGGCATCTTTGTGCTTACAAGGAGCAAATCGAAGACATATCT
1 CTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCT
* * * *
11233591 GATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAAATAATTTGGCATCTCTGTATTGTCAG
65 GATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* * * * * * *
11233656 AGAACAAATTGAAGTTTGGTGTCTTCATATTCGACGAAGGGCAGACACATAGCATATCCAACCTT
130 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCCAGCCTT
11233721 CAGATGTTTATA
195 CAGATGTTTATA
* * *
11233733 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTACTTACAATGAGCAAATCAAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
* * *
11233798 ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATATCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
*
11233863 GAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCCAGCCTTC
131 GAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCCAGCCTTC
11233928 AGATGTTTATA
196 AGATGTTTATA
* * * *
11233939 CTGAAGCAGATCCAATATGGTTTGGTATCCTTGTACTTACAAGGAGCAAATTGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
* * *
11234004 ATTTGGCTTTCACGTGATTACGTTGAAGCAAATCTAAGATGATTTGACATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * * * * ** * *
11234069 GAACAAATCAAAGTCTGGCATCTCCA-CTTCGATGGAGAATAGATACATAGCAGATCCAGCCTTT
131 GAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCCAGCCTTC
11234133 AGATGTTTATA
196 AGATGTTTATA
* * *
11234144 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGAAAATCGAAGACATTGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
* *
11234209 ATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGGTGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * * *
11234274 GAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACTTTG
131 GAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCCAGCCTTC
* * *
11234339 AGACGATTAGA
196 AGATGTTTATA
* * *
11234350 CTGAAGTAGAT-CAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCAG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
*
11234414 ATTTGGCTTTCACGTGTTTACGCTGAAGCAAATCTAAG
66 ATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAG
11234452 CATCTCTATA
Statistics
Matches: 652, Mismatches: 66, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
205 271 0.42
206 374 0.57
207 7 0.01
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (206 bp):
CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
ATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCCAGCCTTC
AGATGTTTATA
Found at i:11234297 original size:411 final size:412
Alignment explanation
Indices: 11233526--11234451 Score: 1361
Period size: 411 Copynumber: 2.2 Consensus size: 412
11233516 GTAGATCTGG
* *
11233526 CTGAAGCAAGATCCAAGATGGTTTGGCATCTTTGTGCTTACAAGGAGCAAATCGAAGACATATCT
1 CTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCT
* * * * *
11233591 GATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAAATAATTTGGCATCTCTGTATTGTCAG
65 GATTTGGCTTTCACGTGATTACGCTGAAGCAAATCTAAGATAATTTGACATCTCTGTATTGTCAG
** * ** * ** *
11233656 AGAACAAATTGAAGTTTGGTGTCTTCATATTCGACGAAGGGCAGACACATAGCATATCCAACCTT
130 AGAACAAATCAAAGTCTGGCATCTCCATATTCGACGAAGAACAGACACATAGCAGATCCAACCTT
* *
11233721 CAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTACTTACAATGAGCAAATCA
195 CAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTACTTACAAGGAGAAAATCA
* *
11233786 AAGACATAGCTGATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATATC
260 AAGACATAGCTGATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATATC
*
11233851 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
325 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCA
* * * *
11233916 GATCCAGCCTTCAGATGTTTATA
390 GATCCAACCTTCAGACGATTAGA
* * * *
11233939 CTGAAGCAGATCCAATATGGTTTGGTATCCTTGTACTTACAAGGAGCAAATTGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
* *
11234004 ATTTGGCTTTCACGTGATTACGTTGAAGCAAATCTAAGATGATTTGACATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGATTACGCTGAAGCAAATCTAAGATAATTTGACATCTCTGTATTGTCAGA
* * * * * * *
11234069 GAACAAATCAAAGTCTGGCATCTCCA-CTTCGATGGAGAATAGATACATAGCAGATCCAGCCTTT
131 GAACAAATCAAAGTCTGGCATCTCCATATTCGACGAAGAACAGACACATAGCAGATCCAACCTTC
* * *
11234133 AGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGAAAATCGA
196 AGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTACTTACAAGGAGAAAATCAA
* * * *
11234198 AGACATTGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTAAGGTGATTTGGCATCTCT
261 AGACATAGCTGATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATATCT
11234263 GTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAG
326 GTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAG
* * *
11234328 ATCTAACTTTGAGACGATTAGA
391 ATCCAACCTTCAGACGATTAGA
* * *
11234350 CTGAAGTAGAT-CAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCAG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
*
11234414 ATTTGGCTTTCACGTGTTTACGCTGAAGCAAATCTAAG
66 ATTTGGCTTTCACGTGATTACGCTGAAGCAAATCTAAG
11234452 CATCTCTATA
Statistics
Matches: 456, Mismatches: 57, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
410 83 0.18
411 236 0.52
412 130 0.29
413 7 0.02
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (412 bp):
CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
ATTTGGCTTTCACGTGATTACGCTGAAGCAAATCTAAGATAATTTGACATCTCTGTATTGTCAGA
GAACAAATCAAAGTCTGGCATCTCCATATTCGACGAAGAACAGACACATAGCAGATCCAACCTTC
AGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTACTTACAAGGAGAAAATCAA
AGACATAGCTGATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATATCT
GTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAG
ATCCAACCTTCAGACGATTAGA
Found at i:11236210 original size:18 final size:18
Alignment explanation
Indices: 11236187--11236221 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
11236177 AATCTAACCC
11236187 TATAT-ATTTATTTATATA
1 TATATAATTT-TTTATATA
11236205 TATATAATTTTTTATAT
1 TATATAATTTTTTATAT
11236222 TGTTATTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TATATAATTTTTTATATA
Found at i:11236266 original size:11 final size:11
Alignment explanation
Indices: 11236252--11236459 Score: 55
Period size: 11 Copynumber: 18.4 Consensus size: 11
11236242 AACCCTATTT
11236252 TTATATTTATA
1 TTATATTTATA
11236263 TTATATATT-TA
1 TTATAT-TTATA
*
11236274 TTCTA-TTAT-
1 TTATATTTATA
*
11236283 GTATTATTTATA
1 TTA-TATTTATA
11236295 -T-TA-TTATA
1 TTATATTTATA
11236303 TTATTATTT-T-
1 TTA-TATTTATA
* *
11236313 TCACTAATTATTA
1 TTA-TATTTA-TA
*
11236326 TTAT-TTTACA
1 TTATATTTATA
11236336 TTATTATTTATA
1 TTA-TATTTATA
11236348 -TATTATTGTTATA
1 TTA-TA-T-TTATA
* * *
11236361 TTTTTACTTGTA
1 -TTATATTTATA
11236373 TTATATATT-TA
1 TTATAT-TTATA
11236384 TTAATTATTTATA
1 TT-A-TATTTATA
*
11236397 TGTAT-TATATA
1 T-TATATTTATA
* *
11236408 TTATATTCACA
1 TTATATTTATA
11236419 TATATACTTTCATA
1 T-TATA-TTT-ATA
11236433 TTATATATTATAA
1 TTATAT-TTAT-A
11236446 TTAT-TTTATA
1 TTATATTTATA
11236456 TTAT
1 TTAT
11236460 TATGTCATTT
Statistics
Matches: 147, Mismatches: 21, Indels: 59
0.65 0.09 0.26
Matches are distributed among these distances:
8 5 0.03
9 6 0.04
10 21 0.14
11 51 0.35
12 30 0.20
13 27 0.18
14 6 0.04
15 1 0.01
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (11 bp):
TTATATTTATA
Found at i:11236269 original size:13 final size:13
Alignment explanation
Indices: 11236253--11236459 Score: 56
Period size: 13 Copynumber: 15.1 Consensus size: 13
11236243 ACCCTATTTT
11236253 TATATTTATATTA
1 TATATTTATATTA
11236266 TATATTTAT-TCTA
1 TATATTTATAT-TA
*
11236279 T-TATGTATTATT-
1 TATATTTA-TATTA
11236291 TATATTATTATATTA
1 TATA-T-TTATATTA
*
11236306 TTATTTTTCACTAATTA
1 -TATATTT-A-T-ATTA
*
11236323 TTATTATTTTACATTA
1 -TA-TA-TTTATATTA
11236339 T-TATTTATA-TA
1 TATATTTATATTA
11236350 T-TATTGTTATATT-
1 TATA-T-TTATATTA
* * *
11236363 TTTACTTGTATTA
1 TATATTTATATTA
11236376 TATATTTATTAATTA
1 TATATTTA-T-ATTA
* * *
11236391 TTTATATGTATTA
1 TATATTTATATTA
*
11236404 TATATTATATTCACATA
1 TATATT-TA-T-A-TTA
11236421 TATACTTTCATATTA
1 TATA-TTT-ATATTA
*
11236436 TATA-TTATAAT-
1 TATATTTATATTA
11236447 TAT-TTTATATTA
1 TATATTTATATTA
11236459 T
1 T
11236460 TATGTCATTT
Statistics
Matches: 145, Mismatches: 21, Indels: 57
0.65 0.09 0.26
Matches are distributed among these distances:
11 14 0.10
12 24 0.17
13 39 0.27
14 14 0.10
15 21 0.14
16 10 0.07
17 15 0.10
18 5 0.03
19 3 0.02
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (13 bp):
TATATTTATATTA
Found at i:11236302 original size:40 final size:40
Alignment explanation
Indices: 11236247--11236351 Score: 116
Period size: 41 Copynumber: 2.7 Consensus size: 40
11236237 TTTTTAACCC
11236247 TATT-TTTATA-T-TTATATTATATATTTATT-CT-ATTAT
1 TATTATTTATATTATTATATTATATATTT-TTACTAATTAT
11236283 GTATTATTTATATTATTATATTAT-TATTTTTCACTAATTAT
1 -TATTATTTATATTATTATATTATATATTTTT-ACTAATTAT
*
11236324 TATTATTTTACATTATTAT-TTATATATT
1 TATTA-TTTATATTATTATATTATATATT
11236352 ATTGTTATAT
Statistics
Matches: 59, Mismatches: 1, Indels: 12
0.82 0.01 0.17
Matches are distributed among these distances:
37 4 0.07
38 8 0.14
39 6 0.10
40 20 0.34
41 21 0.36
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (40 bp):
TATTATTTATATTATTATATTATATATTTTTACTAATTAT
Found at i:11236306 original size:17 final size:17
Alignment explanation
Indices: 11236255--11236503 Score: 77
Period size: 16 Copynumber: 14.2 Consensus size: 17
11236245 CCTATTTTTA
11236255 TATTTATATTA-TATAT
1 TATTTATATTATTATAT
* *
11236271 T-TATTCTATTA-TGTAT
1 TAT-TTATATTATTATAT
11236287 TATTTATATTATTATAT
1 TATTTATATTATTATAT
11236304 TA-TTAT-TT-TTCACTAAT
1 TATTTATATTATT-A-T-AT
*
11236321 TA-TTATTATT-TTACAT
1 TATTTA-TATTATTATAT
11236337 TA-TTAT-TTA-TATAT
1 TATTTATATTATTATAT
*
11236351 TATTGTTATATTTTTACT-T
1 TA-T-TTATATTATTA-TAT
11236370 GTATTATATATTTATTA-AT
1 -TATT-TATA-TTATTATAT
11236389 TATTTATATGTATTATA-
1 TATTTATAT-TATTATAT
11236406 TA-TTATATTCACATATATACTT
1 TATTTATATT---AT-TATA--T
11236428 TCATATTATA-TATTATAAT
1 T-AT-TTATATTATTAT-AT
11236447 TATTTTATATTATTATGTCAT
1 TA-TTTATATTATTA--T-AT
* *
11236468 TTTTTATACTATTATAT
1 TATTTATATTATTATAT
11236485 T-TTT-TATCTA-TATAT
1 TATTTATAT-TATTATAT
11236500 TATT
1 TATT
11236504 ATCATTTAAA
Statistics
Matches: 183, Mismatches: 12, Indels: 76
0.68 0.04 0.28
Matches are distributed among these distances:
14 10 0.05
15 14 0.08
16 46 0.25
17 32 0.17
18 19 0.10
19 25 0.14
20 22 0.12
21 7 0.04
22 1 0.01
23 1 0.01
24 1 0.01
25 5 0.03
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (17 bp):
TATTTATATTATTATAT
Found at i:11236309 original size:20 final size:20
Alignment explanation
Indices: 11236247--11236505 Score: 102
Period size: 20 Copynumber: 12.9 Consensus size: 20
11236237 TTTTTAACCC
11236247 TATT-TTTATA-T-TTATAT
1 TATTATTTATATTATTATAT
*
11236264 TATATATTTAT-TCTATTAT-G
1 TAT-TATTTATAT-TATTATAT
11236284 TATTATTTATATTATTATAT
1 TATTATTTATATTATTATAT
* * *
11236304 TATTATTTTTCACTAAT-TAT
1 TATTATTTAT-ATTATTATAT
*
11236324 TATTATTTTACATTATTAT-T
1 TATTA-TTTATATTATTATAT
* *
11236344 TA-TATAT-TATTGTTATAT
1 TATTATTTATATTATTATAT
*
11236362 TTTTACTTGTATTATATATT-TAT
1 TATTA-TT-TA-TAT-TATTATAT
11236385 TAATTATTTATATGTATTATA-
1 T-ATTATTTATAT-TATTATAT
*
11236406 TATTATATTCACA-TA-TATACT
1 TATTAT-TT-ATATTATTATA-T
*
11236427 T-TCATATTATA-TATTATA-
1 TATTAT-TTATATTATTATAT
*
11236445 -ATTATTTTATATTATTATGT
1 TATTA-TTTATATTATTATAT
* * *
11236465 CATTTTTTATACTATTATATT
1 TATTATTTATATTATTATA-T
*
11236486 TTTTATCTATATATTATTAT
1 TATTAT-T-TATATTATTAT
11236506 CATTTAAATT
Statistics
Matches: 181, Mismatches: 29, Indels: 58
0.68 0.11 0.22
Matches are distributed among these distances:
17 10 0.06
18 12 0.07
19 37 0.20
20 59 0.33
21 31 0.17
22 7 0.04
23 19 0.10
24 6 0.03
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (20 bp):
TATTATTTATATTATTATAT
Found at i:11236424 original size:28 final size:28
Alignment explanation
Indices: 11236369--11236424 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
11236359 TATTTTTACT
* *
11236369 TGTATTATATATTTATTAATTATTTATA
1 TGTATTATATATTTATTAATCATATATA
*
11236397 TGTATTATATATTATATTCA-CATATATA
1 TGTATTATATATT-TATTAATCATATATA
11236425 CTTTCATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 19 0.79
29 5 0.21
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.55
Consensus pattern (28 bp):
TGTATTATATATTTATTAATCATATATA
Found at i:11236461 original size:13 final size:13
Alignment explanation
Indices: 11236321--11236462 Score: 59
Period size: 13 Copynumber: 10.7 Consensus size: 13
11236311 TTTCACTAAT
11236321 TATTATTATTTTA
1 TATTATTATTTTA
*
11236334 CATTATTA-TTTA
1 TATTATTATTTTA
11236346 TA-TATTATTGTTA
1 TATTATTATT-TTA
* * *
11236359 TATTTTTA-CTTG
1 TATTATTATTTTA
11236371 TATTA-TATATTTA
1 TATTATTAT-TTTA
*
11236384 T-TAATTA-TTTA
1 TATTATTATTTTA
11236395 TATGTATTATATATTA
1 TAT-TATTAT-T-TTA
11236411 TATTCACATATATACTTTCA
1 TATT---AT-TAT--TTT-A
*
11236431 TATTA-TATATTA
1 TATTATTATTTTA
11236443 TA--ATTATTTTA
1 TATTATTATTTTA
11236454 TATTATTAT
1 TATTATTAT
11236463 GTCATTTTTT
Statistics
Matches: 96, Mismatches: 13, Indels: 40
0.64 0.09 0.27
Matches are distributed among these distances:
10 1 0.01
11 20 0.21
12 18 0.19
13 28 0.29
14 4 0.04
15 5 0.05
16 6 0.06
17 1 0.01
18 2 0.02
19 5 0.05
20 6 0.06
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (13 bp):
TATTATTATTTTA
Found at i:11236784 original size:17 final size:16
Alignment explanation
Indices: 11236761--11236819 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 16
11236751 CCAATATATT
11236761 TTATATTTTTATATAA
1 TTATATTTTTATATAA
*
11236777 TTATTATTCTTATA-AA
1 TTA-TATTTTTATATAA
11236793 -TATACTTTTTATTATATA
1 TTATA-TTTTTA-TATA-A
11236811 TTATATTTT
1 TTATATTTT
11236820 AAATCTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 2 0.06
15 7 0.20
16 7 0.20
17 10 0.29
18 5 0.14
19 4 0.11
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (16 bp):
TTATATTTTTATATAA
Found at i:11238813 original size:15 final size:16
Alignment explanation
Indices: 11238783--11238827 Score: 65
Period size: 15 Copynumber: 2.8 Consensus size: 16
11238773 TAATAAAAAT
11238783 ATAATTTTATTATTTTA
1 ATAA-TTTATTATTTTA
11238800 ATAATTTA-TATTTTA
1 ATAATTTATTATTTTA
*
11238815 ATAATTTTTTATT
1 ATAATTTATTATT
11238828 ATTTTAGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 14 0.54
16 8 0.31
17 4 0.15
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATAATTTATTATTTTA
Found at i:11242196 original size:21 final size:21
Alignment explanation
Indices: 11242172--11242211 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
11242162 ACTTGAGGGA
*
11242172 AAAGTTTGAGTGAATACTTCC
1 AAAGTTTGAGTGAACACTTCC
11242193 AAAGTTTGAGTGAACACTT
1 AAAGTTTGAGTGAACACTT
11242212 GAGAGACCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (21 bp):
AAAGTTTGAGTGAACACTTCC
Found at i:11255484 original size:5 final size:5
Alignment explanation
Indices: 11255474--11255505 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
11255464 AAAGGTGTGA
11255474 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
11255506 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:11255499 original size:9 final size:9
Alignment explanation
Indices: 11255475--11255505 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
11255465 AAGGTGTGAA
11255475 AAATAAAAT
1 AAATAAAAT
11255484 AAAATAAAAT
1 -AAATAAAAT
11255494 AAATAAAAT
1 AAATAAAAT
11255503 AAA
1 AAA
11255506 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:11259158 original size:5 final size:5
Alignment explanation
Indices: 11259148--11259188 Score: 68
Period size: 5 Copynumber: 8.6 Consensus size: 5
11259138 CAATTTGTGA
11259148 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
11259189 GAACACACAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 8 0.24
5 26 0.76
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:11259173 original size:9 final size:9
Alignment explanation
Indices: 11259149--11259188 Score: 71
Period size: 9 Copynumber: 4.3 Consensus size: 9
11259139 AATTTGTGAA
11259149 AAATAAAAT
1 AAATAAAAT
11259158 AAAATAAAAT
1 -AAATAAAAT
11259168 AAATAAAAT
1 AAATAAAAT
11259177 AAATAAAAT
1 AAATAAAAT
11259186 AAA
1 AAA
11259189 GAACACACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
9 21 0.70
10 9 0.30
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (9 bp):
AAATAAAAT
Found at i:11259173 original size:14 final size:14
Alignment explanation
Indices: 11259149--11259188 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
11259139 AATTTGTGAA
11259149 AAATAAAATAAAAT
1 AAATAAAATAAAAT
11259163 AAA-ATAAATAAAAT
1 AAATA-AAATAAAAT
11259177 AAATAAAATAAA
1 AAATAAAATAAA
11259189 GAACACACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.04
14 22 0.92
15 1 0.04
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:11261472 original size:56 final size:56
Alignment explanation
Indices: 11261386--11261499 Score: 165
Period size: 56 Copynumber: 2.0 Consensus size: 56
11261376 ATAATTATGA
* *
11261386 TATTAAATTATATCTATAATTGGGTGTGAAATTTTACAAAAGCATTTTGAGTATAT
1 TATTAAATTATATCTATAATTGGGTATGAAATTGTACAAAAGCATTTTGAGTATAT
* * * * *
11261442 TATTGAATTATATTTGTCATTGGGTATGAAATTGTACAGAAGCATTTTGAGTATAT
1 TATTAAATTATATCTATAATTGGGTATGAAATTGTACAAAAGCATTTTGAGTATAT
11261498 TA
1 TA
11261500 GTCGACATTT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.35, C:0.05, G:0.17, T:0.43
Consensus pattern (56 bp):
TATTAAATTATATCTATAATTGGGTATGAAATTGTACAAAAGCATTTTGAGTATAT
Found at i:11265927 original size:41 final size:41
Alignment explanation
Indices: 11265855--11265934 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 41
11265845 GTTTACTGAT
* ** ** *
11265855 TAATGTATATCTGATACTGTTACTGTGATGGGCTCAGGCTC
1 TAATGCATATCTGATACTGAAACTGAAATGGGCTAAGGCTC
11265896 TAATGCATATCTGATACTGAAACTGAAATGGGCTAAGGC
1 TAATGCATATCTGATACTGAAACTGAAATGGGCTAAGGC
11265935 CCGAACTGCT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (41 bp):
TAATGCATATCTGATACTGAAACTGAAATGGGCTAAGGCTC
Found at i:11278598 original size:27 final size:27
Alignment explanation
Indices: 11278537--11278598 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 27
11278527 GTTCGACGGG
* * *
11278537 ACATTAAACACGGGATAGTCAGCCGAG
1 ACATTAAACAAGGGATAGTCAGCCCAA
* *
11278564 ACACTAAACATAGGG-TAGTCTGCCCAA
1 ACATTAAACA-AGGGATAGTCAGCCCAA
11278591 ACATTAAA
1 ACATTAAA
11278599 TATGTGAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
27 25 0.89
28 3 0.11
ACGTcount: A:0.40, C:0.23, G:0.19, T:0.18
Consensus pattern (27 bp):
ACATTAAACAAGGGATAGTCAGCCCAA
Found at i:11282715 original size:12 final size:12
Alignment explanation
Indices: 11282698--11282724 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
11282688 TGTGTTATAT
11282698 ACGGTCGGCCAC
1 ACGGTCGGCCAC
11282710 ACGGTCGGCCAC
1 ACGGTCGGCCAC
11282722 ACG
1 ACG
11282725 CCCATGTGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.19, C:0.41, G:0.33, T:0.07
Consensus pattern (12 bp):
ACGGTCGGCCAC
Found at i:11291509 original size:25 final size:25
Alignment explanation
Indices: 11291481--11291531 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
11291471 CGTACGAGGA
11291481 TTCAAACACAAGACCTCCAACAAGC
1 TTCAAACACAAGACCTCCAACAAGC
*
11291506 TTCAAACACAGGACCTCCAACAAGC
1 TTCAAACACAAGACCTCCAACAAGC
11291531 T
1 T
11291532 AAGTCCTTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.41, C:0.35, G:0.10, T:0.14
Consensus pattern (25 bp):
TTCAAACACAAGACCTCCAACAAGC
Found at i:11292722 original size:45 final size:45
Alignment explanation
Indices: 11292666--11292751 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
11292656 TCCTTGACCA
* *
11292666 AGTATAAATAATTAATAGA-AAATATTATGCAATTTAGTTAAATTT
1 AGTACAAATAATTAATA-ATAAATACTATGCAATTTAGTTAAATTT
* *
11292711 AGTACAAATAATTTATAATAAATACTATGTAATTTAGTTAA
1 AGTACAAATAATTAATAATAAATACTATGCAATTTAGTTAA
11292752 TTATTTAGCA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 1 0.03
45 35 0.97
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.40
Consensus pattern (45 bp):
AGTACAAATAATTAATAATAAATACTATGCAATTTAGTTAAATTT
Found at i:11294362 original size:30 final size:30
Alignment explanation
Indices: 11294327--11294387 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
11294317 ATGTTTCAAA
11294327 ATTTTCAGTCATATATCAGATATGTACCAT
1 ATTTTCAGTCATATATCAGATATGTACCAT
11294357 ATTTTCAGTCATATATCAGATATGTACCAT
1 ATTTTCAGTCATATATCAGATATGTACCAT
11294387 A
1 A
11294388 CACATGTAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.39
Consensus pattern (30 bp):
ATTTTCAGTCATATATCAGATATGTACCAT
Found at i:11304014 original size:40 final size:40
Alignment explanation
Indices: 11303802--11304007 Score: 333
Period size: 40 Copynumber: 5.2 Consensus size: 40
11303792 AACCCAAGTA
* * *
11303802 CCTTCGGGATTTAG-CCGGTTATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
11303841 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
11303881 CCTTCGGGACTTAGCGCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
11303921 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
11303961 CCTTCGAGACTTAGCCCGGATATGGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
11304001 CCTTCGG
1 CCTTCGG
11304008 ATCTTAGTCC
Statistics
Matches: 156, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 13 0.08
40 143 0.92
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:11309302 original size:49 final size:49
Alignment explanation
Indices: 11309224--11309469 Score: 285
Period size: 49 Copynumber: 5.0 Consensus size: 49
11309214 GTAGTCGAAG
* * *
11309224 CTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* * *
11309273 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AA
* * * *
11309323 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA
* * *** * *
11309373 GTTATCAGGTACGTATAGTAGCCCGCACTTAGTACTACACATGCGACCAA
1 -CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* * *
11309423 CAATCTGGTACACGTAGTAGCCTGCACTTAGTACTACATACGTGACC
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
11309470 TCACAATAGC
Statistics
Matches: 162, Mismatches: 32, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
49 78 0.48
50 48 0.30
51 36 0.22
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.25
Consensus pattern (49 bp):
CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
Found at i:11309460 original size:100 final size:99
Alignment explanation
Indices: 11309226--11309469 Score: 328
Period size: 100 Copynumber: 2.5 Consensus size: 99
11309216 AGTCGAAGCT
* * * * * *
11309226 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGT
* * *
11309291 AGCCTGCACTTAGTACTACACACGTGACCTAACC
66 AGCCCGCACTTAGTACTACACACGCGACCTAACA
* * **
11309325 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGTATA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGGTACACATA
*
11309390 GTAGCCCGCACTTAGTACTACACATGCGACC-AACA
64 GTAGCCCGCACTTAGTACTACACACGCGACCTAACA
*
11309425 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACATACGTGACC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
11309470 TCACAATAGC
Statistics
Matches: 126, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
99 39 0.31
100 47 0.37
101 40 0.32
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (99 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGT
AGCCCGCACTTAGTACTACACACGCGACCTAACA
Found at i:11310364 original size:99 final size:99
Alignment explanation
Indices: 11310193--11310392 Score: 391
Period size: 99 Copynumber: 2.0 Consensus size: 99
11310183 GGAATTAAAC
11310193 TTCATCCCTTATTCTTATGTTTTATAACATGCTGATCATTTTTCCCTTCTATGACAACATCAAAT
1 TTCATCCCTTATTCTTATGTTTTATAACATGCTGATCATTTTTCCCTTCTATGACAACATCAAAT
11310258 TCTCACTCTAACATGCACTTATGACTATTAGGTA
66 TCTCACTCTAACATGCACTTATGACTATTAGGTA
*
11310292 TTCATCCCTTATTCTTATGTTTTATGACATGCTGATCATTTTTCCCTTCTATGACAACATCAAAT
1 TTCATCCCTTATTCTTATGTTTTATAACATGCTGATCATTTTTCCCTTCTATGACAACATCAAAT
11310357 TCTCACTCTAACATGCACTTATGACTATTAGGTA
66 TCTCACTCTAACATGCACTTATGACTATTAGGTA
11310391 TT
1 TT
11310393 TTTACCAATT
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 100 1.00
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.42
Consensus pattern (99 bp):
TTCATCCCTTATTCTTATGTTTTATAACATGCTGATCATTTTTCCCTTCTATGACAACATCAAAT
TCTCACTCTAACATGCACTTATGACTATTAGGTA
Found at i:11313794 original size:23 final size:23
Alignment explanation
Indices: 11313766--11313813 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
11313756 ATCTTGCACA
*
11313766 CTCAGTTAACTTGTTAGTTCTTC
1 CTCAGTCAACTTGTTAGTTCTTC
11313789 CTCAGTCAACTTGTTAGTTCTTC
1 CTCAGTCAACTTGTTAGTTCTTC
11313812 CT
1 CT
11313814 TAGGCTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.17, C:0.25, G:0.12, T:0.46
Consensus pattern (23 bp):
CTCAGTCAACTTGTTAGTTCTTC
Found at i:11314930 original size:18 final size:17
Alignment explanation
Indices: 11314903--11314942 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
11314893 ATATTTTAAG
*
11314903 TATAAGATATTTATTATA
1 TATAATATA-TTATTATA
11314921 TATAATATATTATTATA
1 TATAATATATTATTATA
11314938 T-TAAT
1 TATAAT
11314943 TAATAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.19
17 9 0.43
18 8 0.38
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TATAATATATTATTATA
Found at i:11314972 original size:9 final size:9
Alignment explanation
Indices: 11314958--11314983 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
11314948 ATTAATTAAA
11314958 AAATAAAAG
1 AAATAAAAG
11314967 AAATAAAAG
1 AAATAAAAG
11314976 AAATAAAA
1 AAATAAAA
11314984 TAAAGAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.12
Consensus pattern (9 bp):
AAATAAAAG
Found at i:11314990 original size:13 final size:14
Alignment explanation
Indices: 11314967--11314996 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
11314957 AAAATAAAAG
11314967 AAATAAAAGAAATA
1 AAATAAAAGAAATA
11314981 AAAT-AAAGAAATA
1 AAATAAAAGAAATA
11314994 AAA
1 AAA
11314997 AAACAATTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (14 bp):
AAATAAAAGAAATA
Found at i:11316137 original size:22 final size:21
Alignment explanation
Indices: 11316102--11316177 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
11316092 AAAAGGTATC
* *
11316102 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
11316123 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
11316146 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
11316165 TGC-AATCATATCT
1 TACAAATCATATCT
11316178 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:11316162 original size:19 final size:19
Alignment explanation
Indices: 11316138--11316228 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
11316128 AATCATATCT
11316138 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
11316157 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
11316175 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
**
11316192 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
11316211 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
11316229 TGAAGATTAT
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
17 15 0.23
18 16 0.24
19 35 0.53
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:11316216 original size:36 final size:36
Alignment explanation
Indices: 11316115--11316228 Score: 131
Period size: 35 Copynumber: 3.0 Consensus size: 36
11316105 AAATTAAATC
11316115 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTAC--AATCATA---TCTAAGATTG-ATATCATA
*
11316157 TCTAAGATTGCAATCATATCTAAGATTG-TATCATA
1 TCTAAGATTACAATCATATCTAAGATTGATATCATA
*
11316192 TCTAAGATTATATATCATATCTAAGATTGCATATCAT
1 TCTAAGATTACA-ATCATATCTAAGATTG-ATATCAT
11316229 TGAAGATTAT
Statistics
Matches: 66, Mismatches: 3, Indels: 10
0.84 0.04 0.13
Matches are distributed among these distances:
35 17 0.26
36 16 0.24
37 10 0.15
38 6 0.09
40 7 0.11
42 10 0.15
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.38
Consensus pattern (36 bp):
TCTAAGATTACAATCATATCTAAGATTGATATCATA
Found at i:11316235 original size:36 final size:38
Alignment explanation
Indices: 11316138--11316240 Score: 144
Period size: 36 Copynumber: 2.8 Consensus size: 38
11316128 AATCATATCT
**
11316138 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
11316175 TCTAAGATTG--TATCATATCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
*
11316211 TCTAAGATTGCATATCAT-T-GAAGATTATAT
1 TCTAAGATTGCATATCATATCTAAGATTATAT
11316241 TTCCATATGA
Statistics
Matches: 60, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
35 17 0.28
36 26 0.43
37 11 0.18
38 6 0.10
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.39
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTATATATCATA
Found at i:11316386 original size:21 final size:21
Alignment explanation
Indices: 11316347--11316387 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11316337 TTGGACTTTG
*
11316347 TTTTTTTTTTGGAGTTTATTA
1 TTTTTTTTTTGGAGCTTATTA
11316368 TTTTTGTTTTTGGA-CTTATT
1 TTTTT-TTTTTGGAGCTTATT
11316388 TCTAGGCCCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.12, C:0.02, G:0.15, T:0.71
Consensus pattern (21 bp):
TTTTTTTTTTGGAGCTTATTA
Found at i:11316702 original size:44 final size:45
Alignment explanation
Indices: 11316593--11316779 Score: 214
Period size: 45 Copynumber: 4.2 Consensus size: 45
11316583 TGCTATATTT
*
11316593 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTT
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTC
* * **
11316638 GATCTGCTCCTCGTCTAATACAGAGACGCCCAATCTACT-TCTTC
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTC
* * * * *
11316682 AATCTGTTCCCCATCTAATACAGAGATGCCAAATCTGTTATCTCC
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTC
* * * * * * *
11316727 GATTTGTTCCCTGTCTAATACAGAGATGCCAAATCTGTCATATTG
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTC
11316772 GATCTGCT
1 GATCTGCT
11316780 TCGATGTAAA
Statistics
Matches: 117, Mismatches: 24, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
44 35 0.30
45 82 0.70
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.32
Consensus pattern (45 bp):
GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTC
Found at i:11316713 original size:89 final size:89
Alignment explanation
Indices: 11316594--11316762 Score: 241
Period size: 89 Copynumber: 1.9 Consensus size: 89
11316584 GCTATATTTG
* **
11316594 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTTGATCTGCT-CCTCGTCTAATA
1 ATCTGCTCCCCATCTAATACAGAGACGCCAAATCTGTTATCTCCGATCTGCTCCCT-GTCTAATA
*
11316658 CAGAGACGCCCAATCTACTTCTTCA
65 CAGAGACGCCAAATCTACTTCTTCA
* * * *
11316683 ATCTGTTCCCCATCTAATACAGAGATGCCAAATCTGTTATCTCCGATTTGTTCCCTGTCTAATAC
1 ATCTGCTCCCCATCTAATACAGAGACGCCAAATCTGTTATCTCCGATCTGCTCCCTGTCTAATAC
*
11316748 AGAGATGCCAAATCT
66 AGAGACGCCAAATCT
11316763 GTCATATTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
89 67 0.96
90 3 0.04
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (89 bp):
ATCTGCTCCCCATCTAATACAGAGACGCCAAATCTGTTATCTCCGATCTGCTCCCTGTCTAATAC
AGAGACGCCAAATCTACTTCTTCA
Found at i:11316922 original size:78 final size:78
Alignment explanation
Indices: 11316793--11317087 Score: 414
Period size: 78 Copynumber: 3.8 Consensus size: 78
11316783 ATGTAAACAC
* * *
11316793 ATGAAGGTCAGATCTGCTATGTCTTCGATCTACTTCCCGTCTAATACAGAGATGGCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
11316858 TGGATCTGCCTT-A
66 TGGATCTG-CTTCA
** *
11316871 ATGAAGGTCTA-ATCTATTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAGTCATC
1 ATGAAGGTC-AGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
11316935 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* * * *
11316949 ATGAAGGTCAGATCTGCTGTTTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAAACATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
11317014 TGGATCTACTTCA
66 TGGATCTGCTTCA
* * * **
11317027 ATGAAGGTCAGATCTGCTATGTATTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
11317088 TATTTCTTCG
Statistics
Matches: 191, Mismatches: 23, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
77 4 0.02
78 186 0.97
79 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.32
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:11318399 original size:51 final size:53
Alignment explanation
Indices: 11318281--11318411 Score: 205
Period size: 54 Copynumber: 2.5 Consensus size: 53
11318271 CCTTTGGTCA
11318281 CAAGGC-CCCTTTTGCGGGTTTTCACCTTGGCCTCTCCATTTTTTTTCGAAAACT
1 CAAGGCGCCC-TTTGCGGGTTTTCACCTTGGCCTCTCCATTTTTTTTC-AAAACT
*
11318335 TAAGGCGCCCTTTGCGGGTTTTCACCTTGGCCTCTCC-TTTTTTTT-AAAACT
1 CAAGGCGCCCTTTGCGGGTTTTCACCTTGGCCTCTCCATTTTTTTTCAAAACT
*
11318386 CAAGGCGCTCTTTGCGGGTTTTCACC
1 CAAGGCGCCCTTTGCGGGTTTTCACC
11318412 CTGAATTCTT
Statistics
Matches: 73, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
51 30 0.41
53 8 0.11
54 32 0.44
55 3 0.04
ACGTcount: A:0.14, C:0.29, G:0.19, T:0.38
Consensus pattern (53 bp):
CAAGGCGCCCTTTGCGGGTTTTCACCTTGGCCTCTCCATTTTTTTTCAAAACT
Found at i:11327729 original size:19 final size:20
Alignment explanation
Indices: 11327695--11327732 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
11327685 GATATGATAC
*
11327695 TAAAATTATTTAAAAAAAAT
1 TAAAATTATATAAAAAAAAT
11327715 TAAAA-TATATAAAAAAAA
1 TAAAATTATATAAAAAAAA
11327733 CAGGGAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (20 bp):
TAAAATTATATAAAAAAAAT
Found at i:11328028 original size:23 final size:22
Alignment explanation
Indices: 11327985--11328042 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
11327975 AAAATGTATC
* *
11327985 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
11328006 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
11328029 TGCATATCATATCT
1 TACAAATCATATCT
11328043 AAGATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:11328045 original size:19 final size:19
Alignment explanation
Indices: 11328021--11328092 Score: 105
Period size: 19 Copynumber: 3.9 Consensus size: 19
11328011 AATCATATCT
11328021 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
11328040 TCTAAGATTGCA-ATTATA
1 TCTAAGATTGCATATCATA
*
11328058 TCTAATATTG--TATCATA
1 TCTAAGATTGCATATCATA
11328075 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
11328093 TGAAGATTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
17 14 0.30
18 14 0.30
19 18 0.39
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:11329868 original size:39 final size:39
Alignment explanation
Indices: 11329824--11329997 Score: 303
Period size: 39 Copynumber: 4.5 Consensus size: 39
11329814 CGGGACTTTA
* * *
11329824 AGCCCGAATATAATACCAGCACAAATGCCTTCGGGGCTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
11329863 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
*
11329902 AGCCCGGATATAATACCAGCACGAATGCCTTCGGGGCTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
11329941 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
*
11329980 AGCCCAGATATAACACCA
1 AGCCCGGATATAACACCA
11329998 AATCATATAA
Statistics
Matches: 129, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 129 1.00
ACGTcount: A:0.29, C:0.30, G:0.23, T:0.18
Consensus pattern (39 bp):
AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
Found at i:11332005 original size:19 final size:19
Alignment explanation
Indices: 11331981--11332017 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
11331971 GTTATAATAT
*
11331981 TAATATTCCTTTAATATTA
1 TAATATTCATTTAATATTA
*
11332000 TAATATTCATTTGATATT
1 TAATATTCATTTAATATT
11332018 GTAAAACAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.08, G:0.03, T:0.54
Consensus pattern (19 bp):
TAATATTCATTTAATATTA
Found at i:11334085 original size:14 final size:15
Alignment explanation
Indices: 11334058--11334086 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
11334048 AATCTAATGA
11334058 ATTTCATGATGTATT
1 ATTTCATGATGTATT
11334073 ATTTCAT-ATGTATT
1 ATTTCATGATGTATT
11334087 GATGATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.28, C:0.07, G:0.10, T:0.55
Consensus pattern (15 bp):
ATTTCATGATGTATT
Found at i:11334269 original size:50 final size:51
Alignment explanation
Indices: 11334202--11334330 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
11334192 GACCATGGAA
11334202 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
11334253 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
11334303 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
11334331 CTGATCAGTG
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 45 0.62
51 27 0.38
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:11334349 original size:31 final size:31
Alignment explanation
Indices: 11334306--11334454 Score: 228
Period size: 31 Copynumber: 4.8 Consensus size: 31
11334296 ACAAATGACA
*
11334306 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
11334337 AGTGAAAGGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
11334368 AGTGAAAAGTGGTAG-TTCTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTC-GGCTACCTGATC
* *
11334399 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
11334430 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
11334455 AAGTGACAAA
Statistics
Matches: 107, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
30 3 0.03
31 102 0.95
32 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:11334550 original size:46 final size:43
Alignment explanation
Indices: 11334483--11334623 Score: 135
Period size: 42 Copynumber: 3.3 Consensus size: 43
11334473 GATTTCCGTA
* *
11334483 TAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGAT-TCGTG
1 TAAGACCATAGCTGGGATATGGCATCA--GAGATATG-AATAT-GTG
* * *
11334529 TAAGACCATAGCTAGGCTATGGCATC-GATATATGAATATGTG
1 TAAGACCATAGCTGGGATATGGCATCAGAGATATGAATATGTG
* ** * *
11334571 TAAGACCATAGCTGGGTTATGGCATCA-TTATGTGAAGATGTG
1 TAAGACCATAGCTGGGATATGGCATCAGAGATATGAATATGTG
11334613 TAAGACCATAG
1 TAAGACCATAG
11334624 TTGAACTATG
Statistics
Matches: 83, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
42 52 0.63
43 8 0.10
46 23 0.28
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.29
Consensus pattern (43 bp):
TAAGACCATAGCTGGGATATGGCATCAGAGATATGAATATGTG
Found at i:11334634 original size:42 final size:42
Alignment explanation
Indices: 11334526--11334640 Score: 144
Period size: 42 Copynumber: 2.7 Consensus size: 42
11334516 TATGTGATTC
*
11334526 GTGTAAGACCATAGCT-AGGCTATGGCATCGATATATGAATAT
1 GTGTAAGACCATAGCTGA-GCTATGGCATCGATATATGAAGAT
* * *
11334568 GTGTAAGACCATAGCTGGGTTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGAGCTATGGCATCGA-TATATGAAGAT
* *
11334610 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGAGCTATGGCATCGA
11334641 GAAAACGAAG
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
41 1 0.02
42 60 0.97
43 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGAGCTATGGCATCGATATATGAAGAT
Found at i:11335656 original size:19 final size:19
Alignment explanation
Indices: 11335621--11335657 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
11335611 ATGGACTTCG
**
11335621 TTTTTTTTTGGGTTTATTA
1 TTTTTTTTTGGACTTATTA
11335640 TTTTTTTTTGGACTTATT
1 TTTTTTTTTGGACTTATT
11335658 TCTGGGCCCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.11, C:0.03, G:0.14, T:0.73
Consensus pattern (19 bp):
TTTTTTTTTGGACTTATTA
Found at i:11337724 original size:17 final size:18
Alignment explanation
Indices: 11337702--11337736 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11337692 GATATGATAC
*
11337702 TAAAAT-TATTAAAAAAT
1 TAAAATATATAAAAAAAT
11337719 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
11337737 CAGGGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:11338033 original size:23 final size:22
Alignment explanation
Indices: 11338003--11338047 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
11337993 AAATTAAATC
11338003 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-AAATCATATCT
* *
11338026 TCTAAGATTGCATATCATATCT
1 TCTAAGATTACAAATCATATCT
11338048 AAGATTGCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.38
Consensus pattern (22 bp):
TCTAAGATTACAAATCATATCT
Found at i:11338082 original size:35 final size:37
Alignment explanation
Indices: 11338019--11338116 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
11338009 ATTACAAAAT
11338019 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
11338055 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
11338090 CATATCATATCTAAGATTGCATATCAT
1 CATATCATATCTAAGATTG-ATATCAT
11338117 TGAAGATTAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:11338124 original size:17 final size:19
Alignment explanation
Indices: 11338026--11338116 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
11338016 AATCATATCT
11338026 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
11338045 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
11338063 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
11338080 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
11338099 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
11338117 TGAAGATTAT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:11338273 original size:21 final size:20
Alignment explanation
Indices: 11338235--11338274 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
11338225 TTGGACTTTG
**
11338235 TTTTTTTTTTGGGTTTATTA
1 TTTTTTTTTTGGACTTATTA
11338255 TTTTTGTTTTTGGACTTATT
1 TTTTT-TTTTTGGACTTATT
11338275 TCTGGGCCCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTTGGACTTATTA
Done.