Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 45 of 444
Found at i:11053058 original size:22 final size:22
Alignment explanation
Indices: 11053004--11053055 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
11052994 TATAGTTAAG
11053004 GGTTTAAGGTTTATGAATTACT
1 GGTTTAAGGTTTATGAATTACT
** *
11053026 ATTTTAAGGTTTATGTATTA-T
1 GGTTTAAGGTTTATGAATTACT
11053047 GGTTTAAGG
1 GGTTTAAGG
11053056 GTTGGGGTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.27, C:0.02, G:0.23, T:0.48
Consensus pattern (22 bp):
GGTTTAAGGTTTATGAATTACT
Found at i:11053085 original size:7 final size:7
Alignment explanation
Indices: 11053075--11053107 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
11053065 TAAGGTTTAA
11053075 GGGTTAT
1 GGGTTAT
11053082 GGGTTAT
1 GGGTTAT
11053089 GGGTTAT
1 GGGTTAT
11053096 GGGTTAT
1 GGGTTAT
11053103 GGGTT
1 GGGTT
11053108 CAGGGTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.12, C:0.00, G:0.45, T:0.42
Consensus pattern (7 bp):
GGGTTAT
Found at i:11053099 original size:21 final size:21
Alignment explanation
Indices: 11053075--11053115 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
11053065 TAAGGTTTAA
11053075 GGGTTATGGGTT-ATGGGTTAT
1 GGGTTATGGGTTCA-GGGTTAT
11053096 GGGTTATGGGTTCAGGGTTA
1 GGGTTATGGGTTCAGGGTTA
11053116 ATGATTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.15, C:0.02, G:0.44, T:0.39
Consensus pattern (21 bp):
GGGTTATGGGTTCAGGGTTAT
Found at i:11053269 original size:19 final size:19
Alignment explanation
Indices: 11053234--11053296 Score: 99
Period size: 19 Copynumber: 3.3 Consensus size: 19
11053224 ATTAGATTTA
*
11053234 AAAAAAATTGATAAATAAAT
1 AAAAACATTGAT-AATAAAT
11053254 AAAAACATTGATAATAAAT
1 AAAAACATTGATAATAAAT
*
11053273 AAAAACATTGATAACAAAT
1 AAAAACATTGATAATAAAT
11053292 AAAAA
1 AAAAA
11053297 TGAAATACAA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
19 30 0.73
20 11 0.27
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.22
Consensus pattern (19 bp):
AAAAACATTGATAATAAAT
Found at i:11053341 original size:15 final size:15
Alignment explanation
Indices: 11053321--11053372 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
11053311 AAAAATGAAA
11053321 TATGGGTTTATGGAT
1 TATGGGTTTATGGAT
*
11053336 TATGGGTTTAGGGAT
1 TATGGGTTTATGGAT
* *
11053351 TAT-GATTTATGGTT
1 TATGGGTTTATGGAT
*
11053365 TAAGGGTT
1 TATGGGTT
11053373 GGGGTTTAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
14 10 0.33
15 20 0.67
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.46
Consensus pattern (15 bp):
TATGGGTTTATGGAT
Found at i:11054075 original size:35 final size:35
Alignment explanation
Indices: 11054008--11054078 Score: 92
Period size: 35 Copynumber: 2.0 Consensus size: 35
11053998 AAGAAAACGG
* *
11054008 TGCCTAAAGTAATATCTTTTTTCTTGTATGTTCTA
1 TGCCTAAAGTAATATCTTTTTGCCTGTATGTTCTA
11054043 TGCCTAAAGTAATATCTAATTTTGCCT-T-TGTTCTA
1 TGCCTAAAGTAATATCT--TTTTGCCTGTATGTTCTA
11054078 T
1 T
11054079 CTTTCCTGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 25 0.78
36 1 0.03
37 6 0.19
ACGTcount: A:0.24, C:0.15, G:0.11, T:0.49
Consensus pattern (35 bp):
TGCCTAAAGTAATATCTTTTTGCCTGTATGTTCTA
Found at i:11055189 original size:18 final size:18
Alignment explanation
Indices: 11055166--11055201 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
11055156 GGCACACTAA
11055166 TATTTTGTTAAGAGGACC
1 TATTTTGTTAAGAGGACC
11055184 TATTTTGTTAAGAGGACC
1 TATTTTGTTAAGAGGACC
11055202 AATCTTACTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (18 bp):
TATTTTGTTAAGAGGACC
Found at i:11057123 original size:23 final size:23
Alignment explanation
Indices: 11057093--11057194 Score: 143
Period size: 23 Copynumber: 4.4 Consensus size: 23
11057083 TGGTTGCTGC
11057093 TGTTTAAATGCTGTAAA-TAGAAG
1 TGTTTAAATGCTGTAAACTA-AAG
* *
11057116 TGTTTAAATGCTGTAAATTGAAG
1 TGTTTAAATGCTGTAAACTAAAG
*
11057139 TGTTTAAATGTTGTAAACTAAAG
1 TGTTTAAATGCTGTAAACTAAAG
* *
11057162 TATTTAAATGCTGTAAATTAAAG
1 TGTTTAAATGCTGTAAACTAAAG
11057185 TGTTTAAATG
1 TGTTTAAATG
11057195 TTCTTTGTGT
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
23 69 0.99
24 1 0.01
ACGTcount: A:0.38, C:0.04, G:0.19, T:0.39
Consensus pattern (23 bp):
TGTTTAAATGCTGTAAACTAAAG
Found at i:11057195 original size:46 final size:46
Alignment explanation
Indices: 11057093--11057196 Score: 165
Period size: 46 Copynumber: 2.3 Consensus size: 46
11057083 TGGTTGCTGC
* * *
11057093 TGTTTAAATGCTGTAAATAGAAGTGTTTAAATGCTGTAAATTGAAG
1 TGTTTAAATGTTGTAAATAGAAGTATTTAAATGCTGTAAATTAAAG
11057139 TGTTTAAATGTTGTAAACTA-AAGTATTTAAATGCTGTAAATTAAAG
1 TGTTTAAATGTTGTAAA-TAGAAGTATTTAAATGCTGTAAATTAAAG
11057185 TGTTTAAATGTT
1 TGTTTAAATGTT
11057197 CTTTGTGTAG
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
46 52 0.96
47 2 0.04
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (46 bp):
TGTTTAAATGTTGTAAATAGAAGTATTTAAATGCTGTAAATTAAAG
Found at i:11057721 original size:42 final size:42
Alignment explanation
Indices: 11057675--11057817 Score: 169
Period size: 42 Copynumber: 3.4 Consensus size: 42
11057665 ATATATGGTC
** * *
11057675 TTTAGCGGCGTTTTTGGGGAAAGCGTTGATAAAGGTTATATT
1 TTTAGCGGCGTTTTTGGGGAAAGCGCCGATAAAGGTCACATT
* * * *
11057717 TTTAGCGGCGTTCTTGGGGAAAGTGCCGTTAAAGGTCACGTT
1 TTTAGCGGCGTTTTTGGGGAAAGCGCCGATAAAGGTCACATT
* * *
11057759 TTTAGCAGCGTTTTTGGGGAAAGCGCCGCTAAAGGTCACAATC
1 TTTAGCGGCGTTTTTGGGGAAAGCGCCGATAAAGGTCAC-ATT
*
11057802 TCTAGCGGCGTTTTTG
1 TTTAGCGGCGTTTTTG
11057818 AAAAAAATCC
Statistics
Matches: 84, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
42 69 0.82
43 15 0.18
ACGTcount: A:0.21, C:0.15, G:0.31, T:0.33
Consensus pattern (42 bp):
TTTAGCGGCGTTTTTGGGGAAAGCGCCGATAAAGGTCACATT
Found at i:11073593 original size:20 final size:21
Alignment explanation
Indices: 11073570--11073630 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 21
11073560 AATACTACAT
*
11073570 AAATATGTACATAT-ATATTA
1 AAATATATACATATAATATTA
*
11073590 AAATAAATACATAATAATATTA
1 AAATATATACAT-ATAATATTA
*
11073612 AAAGTATATACATAAAATA
1 AAA-TATATACATATAATA
11073631 GTGTTAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
20 10 0.29
21 2 0.06
22 14 0.41
23 8 0.24
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (21 bp):
AAATATATACATATAATATTA
Found at i:11073595 original size:24 final size:22
Alignment explanation
Indices: 11073577--11073653 Score: 70
Period size: 22 Copynumber: 3.4 Consensus size: 22
11073567 CATAAATATG
11073577 TACAT-AT-ATATTAAAATAAA
1 TACATAATAATATTAAAATAAA
*
11073597 TACATAATAATATTAAAAGTATA
1 TACATAATAATATTAAAA-TAAA
*
11073620 TACATAA-AATAGTGTTAAAAATACA
1 TACATAATAATA---TT-AAAATAAA
11073645 TACATAATA
1 TACATAATA
11073654 TAGTTATTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
20 5 0.11
21 2 0.04
22 13 0.28
23 10 0.21
25 12 0.26
26 5 0.11
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.32
Consensus pattern (22 bp):
TACATAATAATATTAAAATAAA
Found at i:11073659 original size:23 final size:22
Alignment explanation
Indices: 11073577--11073655 Score: 72
Period size: 25 Copynumber: 3.5 Consensus size: 22
11073567 CATAAATATG
11073577 TACAT-ATATATT-AAAATAAA
1 TACATAATATATTAAAAATAAA
* *
11073597 TACATAATAATATTAAAAGTATA
1 TACATAAT-ATATTAAAAATAAA
* *
11073620 TACATAAAATAGTGTTAAAAATACA
1 TACAT--AATA-TATTAAAAATAAA
11073645 TACATAATATA
1 TACATAATATA
11073656 GTTATTAATA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
20 5 0.11
21 2 0.04
22 6 0.13
23 15 0.32
24 1 0.02
25 18 0.38
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.33
Consensus pattern (22 bp):
TACATAATATATTAAAAATAAA
Found at i:11073670 original size:2 final size:2
Alignment explanation
Indices: 11073663--11073687 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11073653 ATAGTTATTA
11073663 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
11073688 CATACATATT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11073787 original size:21 final size:22
Alignment explanation
Indices: 11073747--11073793 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
11073737 CTGCATAAAC
* *
11073747 ATATACATATATATGTTAAAGAT
1 ATATACATATATA-GATAAACAT
11073770 ATATACATATATA-ATAAACAT
1 ATATACATATATAGATAAACAT
11073791 ATA
1 ATA
11073794 CTACTACTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 9 0.41
23 13 0.59
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.36
Consensus pattern (22 bp):
ATATACATATATAGATAAACAT
Found at i:11073798 original size:3 final size:3
Alignment explanation
Indices: 11073792--11073826 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
11073782 AATAAACATA
11073792 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
11073827 ATAATAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
TAC
Found at i:11073831 original size:3 final size:3
Alignment explanation
Indices: 11073825--11073875 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
11073815 CTACTACTAC
11073825 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
11073873 TAA
1 TAA
11073876 GATGTATGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:11074098 original size:2 final size:2
Alignment explanation
Indices: 11074065--11074122 Score: 61
Period size: 2 Copynumber: 30.5 Consensus size: 2
11074055 GATAAAATAG
* *
11074065 AT AT A- AT A- AT AT AT AC AT A- AT AT GGT AT -T 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
11074104 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
11074123 ACATAGTATT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
1 4 0.09
2 42 0.89
3 1 0.02
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:11074223 original size:9 final size:9
Alignment explanation
Indices: 11074209--11074252 Score: 54
Period size: 9 Copynumber: 4.8 Consensus size: 9
11074199 TAACATTAAA
11074209 AATATATAT
1 AATATATAT
11074218 AATATATAT
1 AATATATAT
*
11074227 AAAATATAT
1 AATATATAT
11074236 ACA-ATATAT
1 A-ATATATAT
11074245 ACATATAT
1 A-ATATAT
11074253 TTAGAAATGA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
9 27 0.84
10 5 0.16
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (9 bp):
AATATATAT
Found at i:11074387 original size:23 final size:25
Alignment explanation
Indices: 11074353--11074416 Score: 64
Period size: 23 Copynumber: 2.7 Consensus size: 25
11074343 TACAATATAG
* *
11074353 TATTAGAA-ATATACATAC-AATAG
1 TATTAAAAGATATACATACTAATAA
*
11074376 TA-TAAAAGATATATA-ACTAATAA
1 TATTAAAAGATATACATACTAATAA
*
11074399 TATTAAAATATATACATA
1 TATTAAAAGATATACATA
11074417 ATATATGCAT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
22 6 0.19
23 14 0.44
24 11 0.34
25 1 0.03
ACGTcount: A:0.56, C:0.06, G:0.05, T:0.33
Consensus pattern (25 bp):
TATTAAAAGATATACATACTAATAA
Found at i:11074502 original size:3 final size:3
Alignment explanation
Indices: 11074473--11074540 Score: 93
Period size: 3 Copynumber: 22.3 Consensus size: 3
11074463 GAATATATAC
* *
11074473 ATA ATA TATA ATA A-A ACA TATA CTA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA -ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
11074519 ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
11074541 AAGTAATTAA
Statistics
Matches: 59, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
2 2 0.03
3 52 0.88
4 5 0.08
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:11075196 original size:18 final size:18
Alignment explanation
Indices: 11075164--11075198 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
11075154 AAAACAGAAA
11075164 AGAAAAAAATAAATAAAG
1 AGAAAAAAATAAATAAAG
11075182 AGAAAGAAAAT-AATAAA
1 AGAAA-AAAATAAATAAA
11075199 AATGTAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (18 bp):
AGAAAAAAATAAATAAAG
Found at i:11076243 original size:14 final size:13
Alignment explanation
Indices: 11076226--11076260 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
11076216 TGAAACACAT
11076226 AAGCAGAAATTGAA
1 AAGCAGAAATT-AA
11076240 AAGCAGAAATTAA
1 AAGCAGAAATTAA
*
11076253 AAACAGAA
1 AAGCAGAA
11076261 TTTGGAGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.63, C:0.09, G:0.17, T:0.11
Consensus pattern (13 bp):
AAGCAGAAATTAA
Found at i:11076517 original size:74 final size:74
Alignment explanation
Indices: 11076286--11076560 Score: 321
Period size: 75 Copynumber: 3.7 Consensus size: 74
11076276 GCATGTGGCC
* * *
11076286 TGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-ACGAATAGAAATTGAAAATACCTC
1 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAGAACAGAAATTGAAAATACCTC
*
11076350 -A-GCGTAT
66 AACGCGTCT
* ** *
11076357 GAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTATGAACAGAAATT-AAAAT
1 -TG---AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAGAACAGAAATTGAAAA-
* * *
11076421 TACCTCAGCGTGTCC
60 TACCTCAACGCGTCT
* *
11076436 TGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTGAAAG-ATAGAAATTGAAAATACCT
1 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAGAACAGAAATTGAAAATACCT
11076500 CAACGCGTCT
65 CAACGCGTCT
11076510 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AA-AACAGAAAT
1 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAGAACAGAAAT
11076561 AAGAACATCA
Statistics
Matches: 173, Mismatches: 20, Indels: 20
0.81 0.09 0.09
Matches are distributed among these distances:
72 10 0.06
73 6 0.03
74 53 0.31
75 74 0.43
76 9 0.05
77 17 0.10
78 1 0.01
79 3 0.02
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.30
Consensus pattern (74 bp):
TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAGAACAGAAATTGAAAATACCTC
AACGCGTCT
Found at i:11078353 original size:28 final size:27
Alignment explanation
Indices: 11078301--11078413 Score: 77
Period size: 28 Copynumber: 3.9 Consensus size: 27
11078291 CTATTTAGAA
* *
11078301 ATCAGTGTTAA-CTAGGCCTTAGCCCAT
1 ATCAGTATTAATCTGGGCC-TAGCCCAT
*
11078328 ATCAGTATTAATCTGGGCCATAGCCCCT
1 ATCAGTATTAATCTGGGCC-TAGCCCAT
**
11078356 -TACAGTAACAGAGTATACTGGGCCTAGCCCAT
1 AT-CAGT-A-TTA--AT-CTGGGCCTAGCCCAT
*
11078388 ATCAGTATCAATCTGGGCCGTAGCCC
1 ATCAGTATTAATCTGGGCC-TAGCCC
11078414 TATTACAAGT
Statistics
Matches: 68, Mismatches: 9, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
27 18 0.26
28 25 0.37
29 1 0.01
30 2 0.03
31 1 0.01
32 13 0.19
33 8 0.12
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (27 bp):
ATCAGTATTAATCTGGGCCTAGCCCAT
Found at i:11078438 original size:60 final size:59
Alignment explanation
Indices: 11078315--11078449 Score: 166
Period size: 60 Copynumber: 2.2 Consensus size: 59
11078305 GTGTTAACTA
* *
11078315 GGCCTTAGCCCATATCAGTATTAATCTGGGCCATAGCCCCTTACAGTAACAGAGTATACTG
1 GGCC-TAGCCCATATCAGTATCAATCTGGGCCATAGCCCATTACAGT-ACAGAGTATACTG
* *
11078376 GGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGT-C-GAGATATATTG
1 GGCCTAGCCCATATCAGTATCAATCTGGGCCATAGCCC-ATTAC-AGTACAGAG-TATACTG
*
11078436 GGCCTTGCCCATAT
1 GGCCTAGCCCATAT
11078450 TAACATAGTT
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
59 3 0.05
60 52 0.79
61 8 0.12
62 3 0.05
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (59 bp):
GGCCTAGCCCATATCAGTATCAATCTGGGCCATAGCCCATTACAGTACAGAGTATACTG
Found at i:11079105 original size:8 final size:8
Alignment explanation
Indices: 11079092--11079116 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
11079082 TTCATAAATG
11079092 TCGGCTTT
1 TCGGCTTT
11079100 TCGGCTTT
1 TCGGCTTT
11079108 TCGGCTTT
1 TCGGCTTT
11079116 T
1 T
11079117 ACCGATCTAG
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:0.00, C:0.24, G:0.24, T:0.52
Consensus pattern (8 bp):
TCGGCTTT
Found at i:11080661 original size:19 final size:18
Alignment explanation
Indices: 11080624--11080667 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
11080614 ATACATACAG
11080624 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
11080641 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
11080660 TACTAATT
1 TAATAATT
11080668 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:11082634 original size:28 final size:27
Alignment explanation
Indices: 11082582--11082694 Score: 77
Period size: 28 Copynumber: 3.9 Consensus size: 27
11082572 CTATTTAGAA
* *
11082582 ATCAGTGTTAA-CTAGGCCTTAGCCCAT
1 ATCAGTATTAATCTGGGCC-TAGCCCAT
*
11082609 ATCAGTATTAATCTGGGCCATAGCCCCT
1 ATCAGTATTAATCTGGGCC-TAGCCCAT
**
11082637 -TACAGTAACAGAGTATACTGGGCCTAGCCCAT
1 AT-CAGT-A-TTA--AT-CTGGGCCTAGCCCAT
*
11082669 ATCAGTATCAATCTGGGCCGTAGCCC
1 ATCAGTATTAATCTGGGCC-TAGCCC
11082695 TATTACAAGT
Statistics
Matches: 68, Mismatches: 9, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
27 18 0.26
28 25 0.37
29 1 0.01
30 2 0.03
31 1 0.01
32 13 0.19
33 8 0.12
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (27 bp):
ATCAGTATTAATCTGGGCCTAGCCCAT
Found at i:11082719 original size:60 final size:59
Alignment explanation
Indices: 11082596--11082730 Score: 166
Period size: 60 Copynumber: 2.2 Consensus size: 59
11082586 GTGTTAACTA
* *
11082596 GGCCTTAGCCCATATCAGTATTAATCTGGGCCATAGCCCCTTACAGTAACAGAGTATACTG
1 GGCC-TAGCCCATATCAGTATCAATCTGGGCCATAGCCCATTACAGT-ACAGAGTATACTG
* *
11082657 GGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGT-C-GAGATATATTG
1 GGCCTAGCCCATATCAGTATCAATCTGGGCCATAGCCC-ATTAC-AGTACAGAG-TATACTG
*
11082717 GGCCTTGCCCATAT
1 GGCCTAGCCCATAT
11082731 TAACATAGTT
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
59 3 0.05
60 52 0.79
61 8 0.12
62 3 0.05
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (59 bp):
GGCCTAGCCCATATCAGTATCAATCTGGGCCATAGCCCATTACAGTACAGAGTATACTG
Found at i:11084943 original size:19 final size:18
Alignment explanation
Indices: 11084906--11084949 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
11084896 ATACATACAG
11084906 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
11084923 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
11084942 TACTAATT
1 TAATAATT
11084950 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:11091454 original size:26 final size:26
Alignment explanation
Indices: 11091395--11091554 Score: 270
Period size: 26 Copynumber: 6.2 Consensus size: 26
11091385 TGATACAAAT
11091395 TGATAATAGGTTAGGTAAATGTT-CA
1 TGATAATAGGTTAGGTAAATGTTCCA
11091420 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
11091446 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
11091472 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
11091498 TGATAATGGGTTAGGTAAATGTT-CA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
11091523 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
11091549 TGATAA
1 TGATAA
11091555 GTAAATTTCA
Statistics
Matches: 132, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
25 48 0.36
26 84 0.64
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:11091455 original size:51 final size:51
Alignment explanation
Indices: 11091395--11091554 Score: 284
Period size: 51 Copynumber: 3.1 Consensus size: 51
11091385 TGATACAAAT
*
11091395 TGATAATAGGTTAGGTAAATGTTCATGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCATGATAATGGGTTAGGTAAATGTTCCA
11091446 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTT-CATGATAATGGGTTAGGTAAATGTTCCA
* *
11091498 TGATAATGGGTTAGGTAAATGTTCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCATGATAATGGGTTAGGTAAATGTTCCA
11091549 TGATAA
1 TGATAA
11091555 GTAAATTTCA
Statistics
Matches: 105, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
51 56 0.53
52 49 0.47
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.36
Consensus pattern (51 bp):
TGATAATAGGTTAGGTAAATGTTCATGATAATGGGTTAGGTAAATGTTCCA
Found at i:11093083 original size:26 final size:26
Alignment explanation
Indices: 11093054--11093106 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
11093044 TTTACAGTTT
11093054 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
11093080 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
11093106 T
1 T
11093107 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:11095292 original size:26 final size:26
Alignment explanation
Indices: 11095256--11095439 Score: 278
Period size: 26 Copynumber: 7.0 Consensus size: 26
11095246 TGATACAAAT
*
11095256 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
11095282 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
11095308 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
11095334 TGATAATGGGTTTTTAGGTAAATGTTTCA
1 TGATAATAGG---TTAGGTAAATGTTCCA
11095363 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
11095389 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
11095415 TGATAATGGGTTAGGTAAAAGTTCC
1 TGATAATAGGTTAGGTAAATGTTCC
11095440 CCAGATATTA
Statistics
Matches: 146, Mismatches: 9, Indels: 6
0.91 0.06 0.04
Matches are distributed among these distances:
26 122 0.84
29 24 0.16
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:11095353 original size:81 final size:81
Alignment explanation
Indices: 11095266--11095426 Score: 304
Period size: 81 Copynumber: 2.0 Consensus size: 81
11095256 TGATAATAGG
11095266 TTAGGTAAATGTTTCATGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTT
1 TTAGGTAAATGTTTCATGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTT
11095331 CCATGATAATGGGTTT
66 CCATGATAATGGGTTT
*
11095347 TTAGGTAAATGTTTCATGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTT
1 TTAGGTAAATGTTTCATGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTT
*
11095412 TCATGATAATGGGTT
66 CCATGATAATGGGTT
11095427 AGGTAAAAGT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
81 78 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.39
Consensus pattern (81 bp):
TTAGGTAAATGTTTCATGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTT
CCATGATAATGGGTTT
Found at i:11096638 original size:22 final size:22
Alignment explanation
Indices: 11096608--11096652 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
11096598 AATGGATGAA
*
11096608 TGAACAAATGACAAATGAATGT
1 TGAACAAATGACAAATAAATGT
* *
11096630 TGAATAAATGACGAATAAATGT
1 TGAACAAATGACAAATAAATGT
11096652 T
1 T
11096653 AGTCATGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.07, G:0.18, T:0.27
Consensus pattern (22 bp):
TGAACAAATGACAAATAAATGT
Found at i:11100278 original size:23 final size:23
Alignment explanation
Indices: 11100251--11100317 Score: 125
Period size: 23 Copynumber: 2.9 Consensus size: 23
11100241 TTAGAAATAC
11100251 ATCGAAGCAAATAATAAATATAA
1 ATCGAAGCAAATAATAAATATAA
*
11100274 ATCGAAGCAAATAATAAATATAC
1 ATCGAAGCAAATAATAAATATAA
11100297 ATCGAAGCAAATAATAAATAT
1 ATCGAAGCAAATAATAAATAT
11100318 GACAATAATA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.58, C:0.10, G:0.09, T:0.22
Consensus pattern (23 bp):
ATCGAAGCAAATAATAAATATAA
Found at i:11100538 original size:14 final size:14
Alignment explanation
Indices: 11100519--11100567 Score: 71
Period size: 14 Copynumber: 3.3 Consensus size: 14
11100509 TGTATACATA
11100519 ATAATACTAAATAT
1 ATAATACTAAATAT
11100533 ATAATACTAAATAT
1 ATAATACTAAATAT
11100547 ATATATACATAATATAT
1 ATA-ATAC-TAA-ATAT
11100564 ATAA
1 ATAA
11100568 AATGAACATA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
14 17 0.53
15 4 0.12
16 4 0.12
17 7 0.22
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (14 bp):
ATAATACTAAATAT
Found at i:11100683 original size:22 final size:22
Alignment explanation
Indices: 11100637--11100683 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
11100627 ATGTACATAT
*
11100637 ATATTAAAATAAATACATAATA
1 ATATTAAAATAAACACATAATA
*
11100659 ATATTAAAAGTATACACATAA-A
1 ATATTAAAA-TAAACACATAATA
11100681 ATA
1 ATA
11100684 GTGTTAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.30
Consensus pattern (22 bp):
ATATTAAAATAAACACATAATA
Found at i:11100828 original size:21 final size:20
Alignment explanation
Indices: 11100821--11100868 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
11100811 ATATACATAT
11100821 ATAATAAACATATACTAATA
1 ATAATAAACATATACTAATA
*
11100841 ATAATAATA-ATAATAATAATA
1 ATAATAA-ACAT-ATACTAATA
11100862 ATAATAA
1 ATAATAA
11100869 TAATAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (20 bp):
ATAATAAACATATACTAATA
Found at i:11100842 original size:3 final size:3
Alignment explanation
Indices: 11100836--11100880 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
11100826 AAACATATAC
11100836 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
11100881 GATGTATGTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:11101110 original size:2 final size:2
Alignment explanation
Indices: 11101103--11101133 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
11101093 GGTATTAGAA
11101103 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11101134 ACATAGTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11101234 original size:9 final size:9
Alignment explanation
Indices: 11101220--11101263 Score: 54
Period size: 9 Copynumber: 4.8 Consensus size: 9
11101210 TAACATTAAA
11101220 AATATATAT
1 AATATATAT
11101229 AATATATAT
1 AATATATAT
*
11101238 AAAATATAT
1 AATATATAT
11101247 ACA-ATATAT
1 A-ATATATAT
11101256 ACATATAT
1 A-ATATAT
11101264 TTAGAAATGA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
9 27 0.84
10 5 0.16
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (9 bp):
AATATATAT
Found at i:11101371 original size:21 final size:23
Alignment explanation
Indices: 11101328--11101390 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 23
11101318 ACATATATAT
* * *
11101328 ATATAAATAATAATGGTGTTAGAA
1 ATATACAT-ATAATAGTATTAGAA
11101352 ATATACA-AT-ATAGTATTAGAA
1 ATATACATATAATAGTATTAGAA
11101373 ATATACATATAATAGTAT
1 ATATACATATAATAGTAT
11101391 AAAAGATATA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 17 0.50
22 4 0.12
23 7 0.21
24 6 0.18
ACGTcount: A:0.51, C:0.03, G:0.11, T:0.35
Consensus pattern (23 bp):
ATATACATATAATAGTATTAGAA
Found at i:11101399 original size:23 final size:22
Alignment explanation
Indices: 11101336--11101431 Score: 81
Period size: 23 Copynumber: 4.3 Consensus size: 22
11101326 ATATATAAAT
* * *
11101336 AATAATGGTGTTAGAAATATAC
1 AATAATAGTATTAAAAATATAC
*
11101358 AAT-ATAGTATTAGAAATATAC
1 AATAATAGTATTAAAAATATAC
*
11101379 ATATAATAGTA-TAAAAGATATAT
1 A-ATAATAGTATTAAAA-ATATAC
*
11101402 AACTAATAATATTAAAATATATAC
1 AA-TAATAGTATTAAAA-ATATAC
11101426 -ATAATA
1 AATAATA
11101432 TATGCATATT
Statistics
Matches: 62, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
21 17 0.27
22 15 0.24
23 20 0.32
24 10 0.16
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.33
Consensus pattern (22 bp):
AATAATAGTATTAAAAATATAC
Found at i:11101511 original size:21 final size:21
Alignment explanation
Indices: 11101476--11101544 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 21
11101466 ATACTTCATG
*
11101476 AATATATACATATATATATTAA
1 AATATATACA-ATATATAATAA
11101498 AGATATATAC-ATATATAATAA
1 A-ATATATACAATATATAATAA
*
11101519 AACATATACTAATA-ATAATAA
1 AATATATAC-AATATATAATAA
11101540 TAATA
1 -AATA
11101545 ATATTAAAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
20 7 0.17
21 18 0.45
22 7 0.17
23 8 0.20
ACGTcount: A:0.58, C:0.06, G:0.01, T:0.35
Consensus pattern (21 bp):
AATATATACAATATATAATAA
Found at i:11102146 original size:10 final size:10
Alignment explanation
Indices: 11102131--11102159 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
11102121 ACTCCAAAGG
11102131 TATATTTTTT
1 TATATTTTTT
11102141 TATATTTTTT
1 TATATTTTTT
11102151 TATATTTTT
1 TATATTTTT
11102160 ATGTGCTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (10 bp):
TATATTTTTT
Found at i:11104053 original size:30 final size:30
Alignment explanation
Indices: 11104019--11104081 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
11104009 ACTTAACAAG
11104019 CAAATG-CTTCTAAAATAATAAAAAAATTAA
1 CAAATGCCTT-TAAAATAATAAAAAAATTAA
*
11104049 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGCCTTTAAAATAATAAAAAAATTAA
11104079 CAA
1 CAA
11104082 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.90
31 3 0.10
ACGTcount: A:0.59, C:0.11, G:0.05, T:0.25
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAAAAAAATTAA
Found at i:11109458 original size:22 final size:22
Alignment explanation
Indices: 11109433--11109496 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 22
11109423 ATATTAATAT
11109433 ATTTTTTATTTTATTTTTAACC
1 ATTTTTTATTTTATTTTTAACC
** * *
11109455 ATTTTAAATTTT-TAATATAACC
1 ATTTTTTATTTTAT-TTTTAACC
* *
11109477 ATTTTTTATTATATTGTTAA
1 ATTTTTTATTTTATTTTTAA
11109497 TTTGTGTATT
Statistics
Matches: 30, Mismatches: 10, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
21 1 0.03
22 28 0.93
23 1 0.03
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (22 bp):
ATTTTTTATTTTATTTTTAACC
Found at i:11109590 original size:26 final size:24
Alignment explanation
Indices: 11109546--11109595 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
11109536 ATTTGTTTTA
*
11109546 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
11109570 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
11109596 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:11110929 original size:50 final size:49
Alignment explanation
Indices: 11110866--11111013 Score: 201
Period size: 47 Copynumber: 3.0 Consensus size: 49
11110856 TTGTCCATCC
11110866 GAAACACCATTTGTGGACAAGCCACCACTGATTTGCAGATAAACTGCCACT
1 GAAACA-C-TTTGTGGACAAGCCACCACTGATTTGCAGATAAACTGCCACT
* * * *
11110917 GATAACACTTTGTGGACTAGCCACCAC--ATATGCAGATATACTGCCATT
1 GA-AACACTTTGTGGACAAGCCACCACTGATTTGCAGATAAACTGCCACT
* *
11110965 GAAACACTTTATGGACAAGCCACCACTGATTTGTAGATAAACTGCCACT
1 GAAACACTTTGTGGACAAGCCACCACTGATTTGCAGATAAACTGCCACT
11111014 ACTTCCACCT
Statistics
Matches: 84, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
47 22 0.26
48 20 0.24
49 17 0.20
50 18 0.21
51 3 0.04
52 4 0.05
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (49 bp):
GAAACACTTTGTGGACAAGCCACCACTGATTTGCAGATAAACTGCCACT
Found at i:11113433 original size:50 final size:50
Alignment explanation
Indices: 11113374--11113550 Score: 264
Period size: 50 Copynumber: 3.5 Consensus size: 50
11113364 ACCATGCAAC
* *
11113374 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGATAAGTGA
1 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA
11113424 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA
1 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA
* * * *
11113474 AAGTGATAAGTAATAGCTTCGGTTACACTTATTTGATCAAGGACAAATGA
1 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA
* **
11113524 CAAGTGAAAAGTGGTAGCTTCGGCTAC
1 -AAGTGATAAGTAATAGCTTCGGCTAC
11113551 CTGATCAATG
Statistics
Matches: 116, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 94 0.81
51 22 0.19
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (50 bp):
AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA
Found at i:11113566 original size:31 final size:31
Alignment explanation
Indices: 11113528--11113736 Score: 271
Period size: 31 Copynumber: 6.7 Consensus size: 31
11113518 AAATGACAAG
11113528 TGAAAAGTGGTAGCTTCGGCTACCTGATCAA
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAA
* *
11113559 TGAAAAGTGGTAGCTTCGGCCACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAA
*
11113590 TGAAAAGTGGTAGCTTCTGCTACCTGAT-AA
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAA
* *
11113620 GTGAAAAGTGGTAGC-TCTTGCTACCTGATCAG
1 -TGAAAAGTGGTAGCTTC-GGCTACCTGATCAA
* * *
11113652 TGAAAAATGGTAGCTCCGACTACCTGATCAA
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAA
* *
11113683 TGAAAAATGGTAGC-TCTGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTC-GGCTACCTGATCAA
*
11113714 TGAATAGTGGTAGCTTCGGCTAC
1 TGAAAAGTGGTAGCTTCGGCTAC
11113737 AAGTGACAAG
Statistics
Matches: 156, Mismatches: 16, Indels: 12
0.85 0.09 0.07
Matches are distributed among these distances:
30 4 0.03
31 148 0.95
32 4 0.03
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCGGCTACCTGATCAA
Found at i:11113625 original size:62 final size:62
Alignment explanation
Indices: 11113526--11113736 Score: 318
Period size: 62 Copynumber: 3.4 Consensus size: 62
11113516 ACAAATGACA
*
11113526 AGTGAAAAGTGGTAGCTTCGGCTACCTGATCAATGAAAAGTGGTAGCT-TCGGCCACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATCAATGAAAAGTGGTAGCTCT-GGCTACCTGATC
* *
11113588 AGTGAAAAGTGGTAGCTTCTGCTACCTGAT-AAGTGAAAAGTGGTAGCTCTTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATCAA-TGAAAAGTGGTAGCTCTGGCTACCTGATC
* * * *
11113650 AGTGAAAAATGGTAGCTCCGACTACCTGATCAATGAAAAATGGTAGCTCTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATCAATGAAAAGTGGTAGCTCTGGCTACCTGATC
*
11113712 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
11113737 AAGTGACAAG
Statistics
Matches: 133, Mismatches: 13, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
61 2 0.02
62 128 0.96
63 3 0.02
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (62 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATCAATGAAAAGTGGTAGCTCTGGCTACCTGATC
Found at i:11113630 original size:93 final size:93
Alignment explanation
Indices: 11113525--11113736 Score: 302
Period size: 93 Copynumber: 2.3 Consensus size: 93
11113515 GACAAATGAC
* * * *
11113525 AAGTGAAAAGTGGTAGCTTCGGCTACCTGATCAATGAAAAGTGGTAGCTTCGGCCACCTGATCAG
1 AAGTGAAAAGTGGTAGCTTCGGCTACCTGATCAATGAAAAATGGTAGCTCCGACCACCTGATCAA
*
11113590 TGAAAAGTGGTAGCTTCT-GCTACCTGAT
66 TGAAAAATGGTAGC-TCTGGCTACCTGAT
* * *
11113618 AAGTGAAAAGTGGTAGC-TCTTGCTACCTGATCAGTGAAAAATGGTAGCTCCGACTACCTGATCA
1 AAGTGAAAAGTGGTAGCTTC-GGCTACCTGATCAATGAAAAATGGTAGCTCCGACCACCTGATCA
11113682 ATGAAAAATGGTAGCTCTGGCTACCTGAT
65 ATGAAAAATGGTAGCTCTGGCTACCTGAT
* *
11113711 CAGTGAATAGTGGTAGCTTCGGCTAC
1 AAGTGAAAAGTGGTAGCTTCGGCTAC
11113737 AAGTGACAAG
Statistics
Matches: 105, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
92 5 0.05
93 98 0.93
94 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (93 bp):
AAGTGAAAAGTGGTAGCTTCGGCTACCTGATCAATGAAAAATGGTAGCTCCGACCACCTGATCAA
TGAAAAATGGTAGCTCTGGCTACCTGAT
Found at i:11113930 original size:49 final size:48
Alignment explanation
Indices: 11113758--11113927 Score: 195
Period size: 47 Copynumber: 3.6 Consensus size: 48
11113748 GATTTCCGTA
* * * * *
11113758 TAAGACCATATCTGGGATATGGCATCG-GTGTGATATATG-CTACTGTA
1 TAAGACCATAGCTGGGATATGGCATCGAATGTGATATGTGATTAC-GTG
* * *
11113805 TAAGACCATATCTGGGATATGGCATC-AGTGAGATATGTGATT-CGTG
1 TAAGACCATAGCTGGGATATGGCATCGAATGTGATATGTGATTACGTG
*
11113851 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGATATGGCATCGA-ATGTGATATGTGATTACGTG
* *
11113900 TAAGACCATAGCTGGGCTATGACATCGA
1 TAAGACCATAGCTGGGATATGGCATCGA
11113928 TATATGAAGA
Statistics
Matches: 109, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
46 26 0.24
47 38 0.35
48 14 0.13
49 31 0.28
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.29
Consensus pattern (48 bp):
TAAGACCATAGCTGGGATATGGCATCGAATGTGATATGTGATTACGTG
Found at i:11117923 original size:21 final size:22
Alignment explanation
Indices: 11117897--11117938 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
11117887 TAAAAAATAA
11117897 ATTACAAACCAAAAT-AAAAAT
1 ATTACAAACCAAAATGAAAAAT
* *
11117918 ATTACAAGCCCAAATGAAAAA
1 ATTACAAACCAAAATGAAAAA
11117939 AGAGGTCTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.62, C:0.17, G:0.05, T:0.17
Consensus pattern (22 bp):
ATTACAAACCAAAATGAAAAAT
Found at i:11119323 original size:73 final size:70
Alignment explanation
Indices: 11119170--11119304 Score: 180
Period size: 73 Copynumber: 1.9 Consensus size: 70
11119160 TTATGAGTTG
* * *
11119170 TTTTATCTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATATGATATTATTTAAG
1 TTTTATTTATTTATTCATTTATTATTCTTTTACTTTTTAAATATTTAAATATGATATTATTT-AG
** *
11119235 TTTATT
65 TAAAAT
*
11119241 TTATCTATTTATTTATTCATTTATTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATTT
1 TT-T-TATTTATTTATTCATTTATTATTCTTTTACTTTTTAAATATTTAAATATGATATTATTT
11119305 GTCGAAACCA
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
71 2 0.03
72 1 0.02
73 55 0.95
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (70 bp):
TTTTATTTATTTATTCATTTATTATTCTTTTACTTTTTAAATATTTAAATATGATATTATTTAGT
AAAAT
Found at i:11121442 original size:20 final size:19
Alignment explanation
Indices: 11121417--11121472 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
11121407 GTTGGGTCTT
*
11121417 GCCCATATTAACACAGTTGG
1 GCCCATATCAACACAGTT-G
* *
11121437 GCCCATCTCAATACAGTTG
1 GCCCATATCAACACAGTTG
* *
11121456 GCCCATAACAAAACAGT
1 GCCCATATCAACACAGT
11121473 CTCATATGAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (19 bp):
GCCCATATCAACACAGTTG
Found at i:11121791 original size:27 final size:26
Alignment explanation
Indices: 11121761--11121826 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
11121751 GTCAAAATTA
*
11121761 ACCTTAGGGGTATAACGGTCATTTTGC
1 ACCTTAGGGGTATAACGGTAATTTT-C
* *
11121788 ACC-TAGGGGTAAAATGGTAATTTTC
1 ACCTTAGGGGTATAACGGTAATTTTC
*
11121813 ATACTTAGGGGTAT
1 A-CCTTAGGGGTAT
11121827 TTTAGTAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
25 2 0.06
26 19 0.59
27 11 0.34
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (26 bp):
ACCTTAGGGGTATAACGGTAATTTTC
Found at i:11122776 original size:21 final size:21
Alignment explanation
Indices: 11122750--11122792 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
11122740 CTATGAGGGA
11122750 AAAAGAAAAGATGAAAGAAAG
1 AAAAGAAAAGATGAAAGAAAG
* *
11122771 AAAAGAAAATATGAATGAAAG
1 AAAAGAAAAGATGAAAGAAAG
11122792 A
1 A
11122793 GAGAGGAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.21, T:0.09
Consensus pattern (21 bp):
AAAAGAAAAGATGAAAGAAAG
Found at i:11123513 original size:2 final size:2
Alignment explanation
Indices: 11123501--11123533 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
11123491 CCAATACTTT
*
11123501 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11123534 TGCTATCTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:11125526 original size:16 final size:16
Alignment explanation
Indices: 11125501--11125542 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
11125491 TTTATTCGGC
11125501 TTTTTATTTTAATTTA
1 TTTTTATTTTAATTTA
* * *
11125517 TTTTTGTTTTCATTTT
1 TTTTTATTTTAATTTA
11125533 TTTTTATTTT
1 TTTTTATTTT
11125543 TGGGTTTTCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.14, C:0.02, G:0.02, T:0.81
Consensus pattern (16 bp):
TTTTTATTTTAATTTA
Found at i:11125526 original size:22 final size:22
Alignment explanation
Indices: 11125501--11125544 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
11125491 TTTATTCGGC
*
11125501 TTTTTATTTTAATTTATTTTTG
1 TTTTCATTTTAATTTATTTTTG
**
11125523 TTTTCATTTTTTTTTATTTTTG
1 TTTTCATTTTAATTTATTTTTG
11125545 GGTTTTCTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.80
Consensus pattern (22 bp):
TTTTCATTTTAATTTATTTTTG
Found at i:11125615 original size:23 final size:22
Alignment explanation
Indices: 11125585--11125633 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 22
11125575 GCCAATTACA
11125585 TTATTTA-TATTTGTTTTGTCTAT
1 TTATTTATTATTTGTTTT-TCT-T
11125608 TTATTTATTTATTTGTTTTTCTT
1 TTATTTA-TTATTTGTTTTTCTT
11125631 TTA
1 TTA
11125634 CTTTTTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 11 0.46
24 3 0.12
25 10 0.42
ACGTcount: A:0.16, C:0.04, G:0.06, T:0.73
Consensus pattern (22 bp):
TTATTTATTATTTGTTTTTCTT
Found at i:11125870 original size:21 final size:20
Alignment explanation
Indices: 11125845--11125891 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
11125835 GTTTTACCTT
*
11125845 TTATTTATTTTCTTTAT-TCA
1 TTATTTA-TTTATTTATGTCA
11125865 TCTATTTATTTATTTATGTCA
1 T-TATTTATTTATTTATGTCA
11125886 TTATTT
1 TTATTT
11125892 CACCCTCTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.21, C:0.09, G:0.02, T:0.68
Consensus pattern (20 bp):
TTATTTATTTATTTATGTCA
Found at i:11127817 original size:17 final size:16
Alignment explanation
Indices: 11127797--11127859 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 16
11127787 ATTTGTAACA
11127797 TTATATATATATATATT
1 TTAT-TATATATATATT
11127814 TTATTATATGATATATCTCT
1 TTATTATAT-ATATA--T-T
*
11127834 TTATTATATTATTTATT
1 TTATTATA-TATATATT
11127851 TTATTATAT
1 TTATTATAT
11127860 TTTTATATGT
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
16 6 0.15
17 18 0.45
18 1 0.03
19 1 0.03
20 13 0.32
21 1 0.03
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (16 bp):
TTATTATATATATATT
Found at i:11127821 original size:20 final size:19
Alignment explanation
Indices: 11127796--11127859 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 19
11127786 TATTTGTAAC
11127796 ATTATATATATATATATTTT
1 ATTATATATATAT-TATTTT
*
11127816 ATTATATGATATATCT-CTTT
1 ATTATAT-ATATAT-TATTTT
11127836 ATTATAT-TAT-TTATTTT
1 ATTATATATATATTATTTT
11127853 ATTATAT
1 ATTATAT
11127860 TTTTATATGT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
16 1 0.03
17 11 0.28
18 3 0.08
20 17 0.44
21 7 0.18
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (19 bp):
ATTATATATATATTATTTT
Found at i:11128073 original size:5 final size:5
Alignment explanation
Indices: 11127988--11128057 Score: 54
Period size: 5 Copynumber: 13.8 Consensus size: 5
11127978 CTTTTTTTTA
* * *
11127988 TATAT TATAT TATA- TACAT TATAT TATAT AAT-T TATAT TACTAT ATATTT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TA-TAT -TATAT
* *
11128038 TATTT GTAAAT TATAT TATA
1 TATAT -TATAT TATAT TATA
11128058 CACTATATAT
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
4 6 0.12
5 36 0.69
6 8 0.15
7 2 0.04
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (5 bp):
TATAT
Found at i:11128076 original size:14 final size:14
Alignment explanation
Indices: 11127986--11128078 Score: 51
Period size: 14 Copynumber: 6.1 Consensus size: 14
11127976 TACTTTTTTT
*
11127986 TATATATTATATTA
1 TATATATTATACTA
* *
11128000 TATACATTATATTA
1 TATATATTATACTA
*
11128014 TATAATTTATATTACTA
1 TAT-ATAT-TA-TACTA
* **
11128031 TATATTTTATTTGTA
1 TATATATTA-TACTA
*
11128046 AATTATATTATACACTA
1 TA-TATATTAT--ACTA
11128063 TATATATTATACTA
1 TATATATTATACTA
11128077 TA
1 TA
11128079 CTTCTTTACA
Statistics
Matches: 62, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
14 22 0.35
15 10 0.16
16 20 0.32
17 10 0.16
ACGTcount: A:0.41, C:0.05, G:0.01, T:0.53
Consensus pattern (14 bp):
TATATATTATACTA
Found at i:11130429 original size:3 final size:3
Alignment explanation
Indices: 11130414--11130465 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
11130404 AAATGAGGCG
*
11130414 TAT TAT AAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11130462 TAT T
1 TAT T
11130466 TGTAGCACCC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:11133134 original size:26 final size:26
Alignment explanation
Indices: 11133104--11133211 Score: 207
Period size: 26 Copynumber: 4.2 Consensus size: 26
11133094 TGAAATTCCC
11133104 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11133130 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
11133156 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11133182 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11133208 ATCA
1 ATCA
11133212 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:11140226 original size:26 final size:26
Alignment explanation
Indices: 11140196--11140277 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
11140186 TGAAATTCCC
*
11140196 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
11140222 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
* *
11140248 ATCATAAAAAATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
11140274 ATCA
1 ATCA
11140278 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.40, C:0.26, G:0.04, T:0.30
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:11140617 original size:3 final size:3
Alignment explanation
Indices: 11140609--11140645 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
11140599 GGGGCGTTAC
*
11140609 ATT ATT ATT ATT ATT ATT TTT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
11140646 AATAAAGTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:11141196 original size:12 final size:12
Alignment explanation
Indices: 11141179--11141209 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11141169 GAAGCAGGGG
11141179 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
11141191 AGAAAAAGGGAA
1 AGAAAAAGAGAA
11141203 AGAAAAA
1 AGAAAAA
11141210 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:11151509 original size:17 final size:17
Alignment explanation
Indices: 11151484--11151523 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
11151474 GTTTTATTAT
* *
11151484 TTGAAATGGAATTGGAA
1 TTGAAATGGAAATGAAA
*
11151501 TTGATATGGAAATGAAA
1 TTGAAATGGAAATGAAA
11151518 TTGAAA
1 TTGAAA
11151524 AAAAAAAAGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.25, T:0.30
Consensus pattern (17 bp):
TTGAAATGGAAATGAAA
Found at i:11152316 original size:8 final size:8
Alignment explanation
Indices: 11152303--11152329 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
11152293 AATAAAAGTA
11152303 TTTGATGT
1 TTTGATGT
11152311 TTTGATGT
1 TTTGATGT
11152319 TTTGATGT
1 TTTGATGT
11152327 TTT
1 TTT
11152330 AAACTAGTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.00, G:0.22, T:0.67
Consensus pattern (8 bp):
TTTGATGT
Found at i:11158689 original size:17 final size:17
Alignment explanation
Indices: 11158667--11158708 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
11158657 TGATGTTCGG
11158667 TATTATT-TTGTGTGTGA
1 TATTATTCTTGTG-GTGA
11158684 TATTATTGCTTGTGGTGA
1 TATTATT-CTTGTGGTGA
11158702 TATTATT
1 TATTATT
11158709 GTGGGTAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.30
18 11 0.48
19 5 0.22
ACGTcount: A:0.19, C:0.02, G:0.21, T:0.57
Consensus pattern (17 bp):
TATTATTCTTGTGGTGA
Found at i:11158703 original size:18 final size:19
Alignment explanation
Indices: 11158674--11158709 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
11158664 CGGTATTATT
11158674 TTGTGTGTGATATTATTGC
1 TTGTGTGTGATATTATTGC
11158693 TTGTG-GTGATATTATTG
1 TTGTGTGTGATATTATTG
11158710 TGGGTAAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.17, C:0.03, G:0.28, T:0.53
Consensus pattern (19 bp):
TTGTGTGTGATATTATTGC
Found at i:11161936 original size:20 final size:19
Alignment explanation
Indices: 11161913--11161963 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
11161903 TGAAAAATAA
*
11161913 ATATTATACATATAAAAATT
1 ATATT-TACATATAAAAATG
*
11161933 ATATTTAC-TAAAAAAATG
1 ATATTTACATATAAAAATG
11161951 ATATTTACA-ATAA
1 ATATTTACATATAA
11161964 TTTTTTGATT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 19 0.70
19 3 0.11
20 5 0.19
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (19 bp):
ATATTTACATATAAAAATG
Found at i:11164569 original size:235 final size:233
Alignment explanation
Indices: 11164079--11164515 Score: 548
Period size: 233 Copynumber: 1.9 Consensus size: 233
11164069 GCATAATTAT
* * * *
11164079 TATTATAATATAGATTATAATAAAAGATATAGTAGAATACGATATTATAGTGTTTGATCATCGAT
1 TATTATAATATAGATTATAATATAAGATATAGTAGAATACGATATTATAATATTTAATCATCGAT
* *
11164144 GCATATATATAAACTATTAATATATTGTATGATATGATATAACATTATATAATATAGTAGGGTGA
66 GCATATATATAAACTATTAATATATTATATGATATAATATAACATTATATAATATAGTAGGGTGA
* * *
11164209 CTAACTTTCAAATGTACCAAATATGTAGGAACGTATAGCATATTTCAACTAGTATAATAATAAAC
131 CTAACTTTCAAATGTACCAAATATGAAGGAACGTAGAGCATATTTCAACTAGCATAATAATAAAC
* * *
11164274 AATAATATATAATGTACTACTACTATATATATAGCTAT
196 AATAATATATAATGAACTAATACTATATATATAGCTAC
** * *
11164312 TATTATAATATAGATTATAATATAAGATATAGTATTATATGATATTATAATATTTAATCATTGAT
1 TATTATAATATAGATTATAATATAAGATATAGTAGAATACGATATTATAATATTTAATCATCGAT
* * *
11164377 GCATATATATAAACTATTAATATATTATAT-ACTGTATAATATAGCATTATCTAATCTAGTAGAA
66 GCATATATATAAACTATTAATATATTATATGA---TATAATATAACATTATATAATATAGTAG--
** * *
11164441 GG-G-CTAACTTTCAAATGTAGGAAACGTAT-AAGG-ACTTAGAGCATATTTTAACTAGC---AT
126 GGTGACTAACTTTCAAATGTACCAAA--TATGAAGGAACGTAGAGCATATTTCAACTAGCATAAT
11164499 AATAAACAATAATATAT
189 AATAAACAATAATATAT
11164516 GATAATAAGT
Statistics
Matches: 177, Mismatches: 20, Indels: 15
0.83 0.09 0.07
Matches are distributed among these distances:
232 20 0.11
233 86 0.49
235 62 0.35
236 4 0.02
237 5 0.03
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.37
Consensus pattern (233 bp):
TATTATAATATAGATTATAATATAAGATATAGTAGAATACGATATTATAATATTTAATCATCGAT
GCATATATATAAACTATTAATATATTATATGATATAATATAACATTATATAATATAGTAGGGTGA
CTAACTTTCAAATGTACCAAATATGAAGGAACGTAGAGCATATTTCAACTAGCATAATAATAAAC
AATAATATATAATGAACTAATACTATATATATAGCTAC
Found at i:11165107 original size:20 final size:20
Alignment explanation
Indices: 11165082--11165133 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
11165072 CAAGGGTCAT
11165082 ACGCCCGTGTGGCTTGAGAC
1 ACGCCCGTGTGGCTTGAGAC
11165102 ACGCCCGTGTGGCTTGAGAC
1 ACGCCCGTGTGGCTTGAGAC
*
11165122 ACACCCGTGTGG
1 ACGCCCGTGTGG
11165134 GCAAGCCGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.15, C:0.31, G:0.35, T:0.19
Consensus pattern (20 bp):
ACGCCCGTGTGGCTTGAGAC
Found at i:11165607 original size:15 final size:17
Alignment explanation
Indices: 11165589--11165620 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
11165579 TAGCATAATT
11165589 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
11165604 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
11165621 CAAGTATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:11167797 original size:31 final size:31
Alignment explanation
Indices: 11167756--11167819 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
11167746 CCTTTTCATA
*
11167756 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
11167787 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
11167818 TT
1 TT
11167820 ACTGTAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:11168059 original size:23 final size:24
Alignment explanation
Indices: 11168012--11168222 Score: 335
Period size: 23 Copynumber: 9.0 Consensus size: 24
11168002 GCTTTATCAT
*
11168012 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
11168037 ACAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
11168060 ATAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
11168083 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
11168106 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
11168130 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
11168153 ATAACTGGGGTATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
11168177 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
11168200 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
11168223 TGCACTTCCT
Statistics
Matches: 176, Mismatches: 5, Indels: 11
0.92 0.03 0.06
Matches are distributed among these distances:
23 108 0.61
24 61 0.35
25 7 0.04
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:11168123 original size:47 final size:47
Alignment explanation
Indices: 11168012--11168222 Score: 347
Period size: 47 Copynumber: 4.5 Consensus size: 47
11168002 GCTTTATCAT
* *
11168012 ATAACTGGAGGCCT-AGCCTCTTTTAACAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCC-TTTA
11168060 ATAACTGGGGCA-AAGCCCTTTTAATAACTGGGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTA
11168106 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTA
*
11168153 ATAACTGGGGTATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTA
11168200 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
11168223 TGCACTTCCT
Statistics
Matches: 156, Mismatches: 4, Indels: 7
0.93 0.02 0.04
Matches are distributed among these distances:
46 33 0.21
47 115 0.74
48 8 0.05
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (47 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTA
Found at i:11168133 original size:70 final size:72
Alignment explanation
Indices: 11168012--11168222 Score: 335
Period size: 70 Copynumber: 3.0 Consensus size: 72
11168002 GCTTTATCAT
* *
11168012 ATAACTGGAGGCCT-AGCCTCTTTTAACAACTGGGGCA-AAGCCCTTTTAATAACTGGGGCA-AA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAA
11168074 GCCCTTTTA
64 GCCCTTTTA
11168083 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGC
11168147 CC-TTTA
66 CCTTTTA
*
11168153 ATAACTGGGGTATAAGCCCTTTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGC
11168217 CCTTTT
66 CCTTTT
11168223 TGCACTTCCT
Statistics
Matches: 132, Mismatches: 3, Indels: 10
0.91 0.02 0.07
Matches are distributed among these distances:
69 15 0.11
70 73 0.55
71 44 0.33
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (72 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGC
CCTTTTA
Found at i:11168295 original size:9 final size:9
Alignment explanation
Indices: 11168281--11168337 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
11168271 ATCTCATGTG
11168281 CATATCATA
1 CATATCATA
*
11168290 CATATCATGTG
1 CATATCA--TA
11168301 CATATCATA
1 CATATCATA
* *
11168310 CATGTCATGTG
1 CATATCA--TA
11168321 CATATCATA
1 CATATCATA
11168330 CATATCAT
1 CATATCAT
11168338 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:11168297 original size:20 final size:20
Alignment explanation
Indices: 11168269--11168339 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
11168259 GCATTTATGA
*
11168269 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
11168289 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
11168309 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
11168329 ACATATCATGT
1 ACATATCATGT
11168340 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:11168304 original size:11 final size:11
Alignment explanation
Indices: 11168274--11168328 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
11168264 TATGAACATC
11168274 TCATGTGCATA
1 TCATGTGCATA
*
11168285 TCA--TACATA
1 TCATGTGCATA
11168294 TCATGTGCATA
1 TCATGTGCATA
* *
11168305 TCA--TACATG
1 TCATGTGCATA
11168314 TCATGTGCATA
1 TCATGTGCATA
11168325 TCAT
1 TCAT
11168329 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:11168404 original size:25 final size:25
Alignment explanation
Indices: 11168376--11168423 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
11168366 ATATATAAAC
* *
11168376 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
11168401 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
11168424 CATGTTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:11169643 original size:27 final size:27
Alignment explanation
Indices: 11169582--11169658 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
11169572 GGGCATATTC
*
11169582 GTCATTTTACCATATA-GGGTATTACG
1 GTCATTTTACCCTATAGGGGTATTACG
*
11169608 GTCACTTTACCCTATAGGGGCT-TTACG
1 GTCATTTTACCCTATAGGGG-TATTACG
*
11169635 GTCTTTTTA-CCTAATAGGGGTATT
1 GTCATTTTACCCT-ATAGGGGTATT
11169659 TTAGACATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
26 18 0.42
27 24 0.56
28 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.39
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTACG
Found at i:11169719 original size:27 final size:27
Alignment explanation
Indices: 11169677--11169914 Score: 197
Period size: 27 Copynumber: 8.7 Consensus size: 27
11169667 TTCATCCTAC
* * * *
11169677 AAGGGTGTTTTGGTAAATCTACAAACT
1 AAGGGTATTTCGGTAATTTTACAAACT
* ** *
11169704 AAGGGTATTTCAGTAATTTTGTAAACC
1 AAGGGTATTTCGGTAATTTTACAAACT
* ** * *
11169731 AATGGTATTTCTATAATTTTTAGAAAGT
1 AAGGGTATTTCGGTAA-TTTTACAAACT
* * ** *
11169759 CAAGGGTATTTCTGTAACTTTGTAAATT
1 -AAGGGTATTTCGGTAATTTTACAAACT
* * *
11169787 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTCGGTAATTTTACAAACT
* * *
11169814 GAGGGTATTTCGGTAATTTCACAAACC
1 AAGGGTATTTCGGTAATTTTACAAACT
*
11169841 AAGGGTATTTTGGTAATTTTACAAACT
1 AAGGGTATTTCGGTAATTTTACAAACT
* *
11169868 AGGGGTATTTTGGTAATTTTACAAACT
1 AAGGGTATTTCGGTAATTTTACAAACT
**
11169895 AAGGGTATTTTAGTAATTTT
1 AAGGGTATTTCGGTAATTTT
11169915 GTAAATCGAG
Statistics
Matches: 169, Mismatches: 40, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
27 141 0.83
28 14 0.08
29 14 0.08
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
AAGGGTATTTCGGTAATTTTACAAACT
Found at i:11169926 original size:27 final size:27
Alignment explanation
Indices: 11169704--11169982 Score: 152
Period size: 27 Copynumber: 10.3 Consensus size: 27
11169694 TCTACAAACT
* * *
11169704 AAGGGTATTTCAGTAATTTTGTAAACC
1 AAGGGTATTTTAGTAATTTTATAAATC
* *
11169731 AATGGTATTTCTA-TAATTTTTAGAAAGTC
1 AAGGGTATTT-TAGTAA-TTTTATAAA-TC
* * *
11169760 AAGGGTATTTCT-GTAACTTTGTAAATT
1 AAGGGTATTT-TAGTAATTTTATAAATC
* * * *
11169787 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTAGTAATTTTATAAATC
* ** * * *
11169814 GAGGGTATTTCGGTAATTTCACAAACC
1 AAGGGTATTTTAGTAATTTTATAAATC
* *
11169841 AAGGGTATTTTGGTAATTTTACAAA-C
1 AAGGGTATTTTAGTAATTTTATAAATC
* * *
11169867 TAGGGGTATTTTGGTAATTTTACAAA-C
1 -AAGGGTATTTTAGTAATTTTATAAATC
*
11169894 TAAGGGTATTTTAGTAATTTTGTAAATC
1 -AAGGGTATTTTAGTAATTTTATAAATC
* **** * *
11169922 GAGGGTAAAACAGTAATTCTGTAAATC
1 AAGGGTATTTTAGTAATTTTATAAATC
*** *
11169949 AAGGGTAAAATAGTAATTCTATAAATC
1 AAGGGTATTTTAGTAATTTTATAAATC
*
11169976 GAGGGTA
1 AAGGGTA
11169983 AAACGGTAAT
Statistics
Matches: 207, Mismatches: 38, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
26 2 0.01
27 175 0.85
28 15 0.07
29 15 0.07
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.38
Consensus pattern (27 bp):
AAGGGTATTTTAGTAATTTTATAAATC
Found at i:11169927 original size:81 final size:80
Alignment explanation
Indices: 11169676--11169928 Score: 231
Period size: 81 Copynumber: 3.1 Consensus size: 80
11169666 TTTCATCCTA
* * * ** ** * *
11169676 CAAGGGTGTTTTGGTAAATCTACAAACTAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTT
1 CAAGGGTATTTTGGTAAATTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTT
11169741 CTA-TAATTTTTAGAAAGT
66 -TAGTAATTTTT--AAA-T
* ** * * *
11169759 CAAGGGTATTTCT-GTAACTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATT
1 CAAGGGTATTT-TGGTAAATTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATT
** ** *
11169823 TCGGTAATTTCACAAAC
65 TTAGTAATTT-TTAAAT
*
11169840 CAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTT
1 CAAGGGTATTTTGGTAAATTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTT
11169905 TAGTAATTTTGTAAAT
66 TAGTAATTTT-TAAAT
*
11169921 CGAGGGTA
1 CAAGGGTA
11169929 AAACAGTAAT
Statistics
Matches: 133, Mismatches: 32, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
80 1 0.01
81 74 0.56
82 3 0.02
83 54 0.41
84 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.39
Consensus pattern (80 bp):
CAAGGGTATTTTGGTAAATTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTT
TAGTAATTTTTAAAT
Found at i:11170208 original size:27 final size:27
Alignment explanation
Indices: 11169907--11170223 Score: 386
Period size: 27 Copynumber: 11.7 Consensus size: 27
11169897 GGGTATTTTA
* *
11169907 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
11169934 GTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
11169961 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
11169988 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
11170015 GTAATTCTGTAAATTGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
11170042 ATAATTATGTAAATC-AGAGGTAAAACG
1 GTAATTCTGTAAATCGAG-GGTAAAACG
* *
11170069 GTAATTCTGTAAATCGGGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * **
11170096 GTAATTCTATAAATCGGGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
11170123 GTAATTCTGTAAA-CTAAGGGTAAAATG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
*
11170150 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
11170177 GTAATTTTGTAAATTGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * **
11170204 ATAATTTTACAAATCGAGGG
1 GTAATTCTGTAAATCGAGGG
11170224 CATTTCAGTA
Statistics
Matches: 256, Mismatches: 30, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
26 3 0.01
27 251 0.98
28 2 0.01
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:11176031 original size:47 final size:46
Alignment explanation
Indices: 11175977--11176141 Score: 161
Period size: 47 Copynumber: 3.5 Consensus size: 46
11175967 AGTTTCTAAC
11175977 ACGTTGTGGATAAACCACTGGTCAAGCAGATGACTGTCGACTAAAAT
1 ACGTTGTGGATAAACCACTGGT-AAGCAGATGACTGTCGACTAAAAT
* * * * *
11176024 ACGTTGTGGATAAACCACTGGTTGAGCAAATGATCTGTCAACTAGAGT
1 ACGTTGTGGATAAACCACTGG-TAAGCAGATGA-CTGTCGACTAAAAT
* * * * * ** *
11176072 ACATTATAGATAAAACACTAGTAAGCAGATGGTTGTTGACTAAAAT
1 ACGTTGTGGATAAACCACTGGTAAGCAGATGACTGTCGACTAAAAT
* *
11176118 ATGTTGT-GATAAACCATTGGTAAG
1 ACGTTGTGGATAAACCACTGGTAAG
11176142 TAAATGAACT
Statistics
Matches: 92, Mismatches: 24, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
45 14 0.15
46 13 0.14
47 37 0.40
48 28 0.30
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (46 bp):
ACGTTGTGGATAAACCACTGGTAAGCAGATGACTGTCGACTAAAAT
Found at i:11176662 original size:12 final size:12
Alignment explanation
Indices: 11176645--11176686 Score: 84
Period size: 12 Copynumber: 3.5 Consensus size: 12
11176635 CCTGTAAAAT
11176645 AGTAAAAATAAC
1 AGTAAAAATAAC
11176657 AGTAAAAATAAC
1 AGTAAAAATAAC
11176669 AGTAAAAATAAC
1 AGTAAAAATAAC
11176681 AGTAAA
1 AGTAAA
11176687 GGCGAAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.67, C:0.07, G:0.10, T:0.17
Consensus pattern (12 bp):
AGTAAAAATAAC
Found at i:11177607 original size:20 final size:20
Alignment explanation
Indices: 11177569--11177616 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
11177559 TAAATTCTAA
**
11177569 AAAGATAAATACATTTAATT
1 AAAGATAAATACAGATAATT
*
11177589 AAAGATAAATAGAGATAATT
1 AAAGATAAATACAGATAATT
11177609 AAA-ATAAA
1 AAAGATAAA
11177617 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.27
Consensus pattern (20 bp):
AAAGATAAATACAGATAATT
Found at i:11177663 original size:15 final size:15
Alignment explanation
Indices: 11177643--11177674 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
11177633 AATCCTAATG
11177643 ATTATCCTAATATAA
1 ATTATCCTAATATAA
11177658 ATTATCCTAATATAA
1 ATTATCCTAATATAA
11177673 AT
1 AT
11177675 AAAATGGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTATCCTAATATAA
Found at i:11178254 original size:11 final size:11
Alignment explanation
Indices: 11178238--11178276 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
11178228 TTAATATGAC
11178238 TTTTTTCTTTT
1 TTTTTTCTTTT
11178249 TTTTTTC-TTT
1 TTTTTTCTTTT
*
11178259 CTTTTTCTTTCT
1 TTTTTTCTTT-T
11178271 TTTTTT
1 TTTTTT
11178277 ATAGAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 9 0.38
11 9 0.38
12 6 0.25
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:11178486 original size:99 final size:100
Alignment explanation
Indices: 11178291--11178488 Score: 281
Period size: 99 Copynumber: 2.0 Consensus size: 100
11178281 AATTTTAATT
* * * * * * *
11178291 TAATTTATTTATTTTTACTTAGGAATATACTGTACCTTTTGACATGAAGAGAGATGACAACCCAA
1 TAATTTATTTATTATTACCTAGGAACATACTGAACCATTTGACACGAAGAAAGATGACAACCCAA
*
11178356 GCACCCCACCCCGGTTACTCAGCCCAGCACATTCC
66 GCACCCCACCCCGGTTACTCAGCCCAACACATTCC
* * *
11178391 TAATTTTTTTATTATT-CCTAGGAACATATTGAACCATTTGACGCGAAGAAAGATGACAACCCAA
1 TAATTTATTTATTATTACCTAGGAACATACTGAACCATTTGACACGAAGAAAGATGACAACCCAA
*
11178455 GCACCTCACCCCGGTTACTCAGCCCAACACATTC
66 GCACCCCACCCCGGTTACTCAGCCCAACACATTC
11178489 TTAGAAATTA
Statistics
Matches: 86, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
99 72 0.84
100 14 0.16
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (100 bp):
TAATTTATTTATTATTACCTAGGAACATACTGAACCATTTGACACGAAGAAAGATGACAACCCAA
GCACCCCACCCCGGTTACTCAGCCCAACACATTCC
Found at i:11189552 original size:25 final size:25
Alignment explanation
Indices: 11189524--11189574 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
11189514 GCCTAGCCTC
*
11189524 TTTTGGTAAACTGGGGCAAAGCCCT
1 TTTTGGTAAACTGGGGCAAAACCCT
*
11189549 TTTTGGTAAATTGGGGCAAAACCCT
1 TTTTGGTAAACTGGGGCAAAACCCT
11189574 T
1 T
11189575 GCCGCACTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (25 bp):
TTTTGGTAAACTGGGGCAAAACCCT
Found at i:11189649 original size:21 final size:21
Alignment explanation
Indices: 11189624--11189674 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
11189614 TATAATGAGT
*
11189624 ATATCATGTGCATCTCATAAC
1 ATATCATGTGCATATCATAAC
**
11189645 ATATCATGTGCATATCATGTC
1 ATATCATGTGCATATCATAAC
11189666 ATATCATGT
1 ATATCATGT
11189675 ATATCAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (21 bp):
ATATCATGTGCATATCATAAC
Found at i:11189739 original size:25 final size:25
Alignment explanation
Indices: 11189711--11189759 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
11189701 ATAATTTAAC
* *
11189711 CCTAGGGGTATAATAGTTATTTTTA
1 CCTAGGGGTAAAATAGTCATTTTTA
11189736 CCTAGGGGTAAAATAGTCATTTTT
1 CCTAGGGGTAAAATAGTCATTTTT
11189760 CATATTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (25 bp):
CCTAGGGGTAAAATAGTCATTTTTA
Found at i:11190754 original size:22 final size:22
Alignment explanation
Indices: 11190726--11190768 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
11190716 CGGCAAGGGT
*
11190726 GATGAAAAGAAAGGGAGTAGTA
1 GATGAAAAGAAAGAGAGTAGTA
11190748 GATGAAAAGAAAGAGAGTAGT
1 GATGAAAAGAAAGAGAGTAGT
11190769 GGTTTGGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.35, T:0.14
Consensus pattern (22 bp):
GATGAAAAGAAAGAGAGTAGTA
Found at i:11192368 original size:18 final size:18
Alignment explanation
Indices: 11192345--11192381 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
11192335 CGATACTGGC
11192345 ACCTCATGCAACTGCACT
1 ACCTCATGCAACTGCACT
11192363 ACCTCATGCAACTGCACT
1 ACCTCATGCAACTGCACT
11192381 A
1 A
11192382 TCTCTGCCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.38, G:0.11, T:0.22
Consensus pattern (18 bp):
ACCTCATGCAACTGCACT
Found at i:11197437 original size:24 final size:25
Alignment explanation
Indices: 11197410--11197460 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
11197400 GCCTAGCCTC
*
11197410 TTTTAAT-AACTGGGGCAAAGCCCT
1 TTTTAATAAAATGGGGCAAAGCCCT
**
11197434 TTTTGGTAAAATGGGGCAAAGCCCT
1 TTTTAATAAAATGGGGCAAAGCCCT
11197459 TT
1 TT
11197461 CCGCACTTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (25 bp):
TTTTAATAAAATGGGGCAAAGCCCT
Found at i:11197534 original size:21 final size:21
Alignment explanation
Indices: 11197509--11197559 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
11197499 TATAATGAGT
*
11197509 ATATCATGTGCATCTCATAAC
1 ATATCATGTGCATATCATAAC
**
11197530 ATATCATGTGCATATCATGTC
1 ATATCATGTGCATATCATAAC
11197551 ATATCATGT
1 ATATCATGT
11197560 ATATCAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (21 bp):
ATATCATGTGCATATCATAAC
Found at i:11199274 original size:19 final size:20
Alignment explanation
Indices: 11199250--11199289 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
11199240 TCACAACCAA
*
11199250 ATACCAAATT-TTAAAAATT
1 ATACCAAATTCTCAAAAATT
11199269 ATACCAAATTCTCAAAAATT
1 ATACCAAATTCTCAAAAATT
11199289 A
1 A
11199290 CGAAAATTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.33
Consensus pattern (20 bp):
ATACCAAATTCTCAAAAATT
Found at i:11203314 original size:25 final size:25
Alignment explanation
Indices: 11203277--11203327 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
11203267 TGGTAACGAG
*
11203277 TTCAACCACTGTTTAGCCTTGTTCC
1 TTCAACCACTGTTTAACCTTGTTCC
*
11203302 TTCAACCATTGTTTAACCTTGTTCC
1 TTCAACCACTGTTTAACCTTGTTCC
11203327 T
1 T
11203328 CATTGAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.18, C:0.29, G:0.10, T:0.43
Consensus pattern (25 bp):
TTCAACCACTGTTTAACCTTGTTCC
Found at i:11206783 original size:33 final size:31
Alignment explanation
Indices: 11206700--11206785 Score: 118
Period size: 31 Copynumber: 2.7 Consensus size: 31
11206690 AACCCTTTCT
*
11206700 GCATTAAATCCAACCAAAAACAGCAAATATA
1 GCATAAAATCCAACCAAAAACAGCAAATATA
* *
11206731 GCATGAAATCCAACCAAAAACAGCAAATGTA
1 GCATAAAATCCAACCAAAAACAGCAAATATA
*
11206762 GCATAAAAAATACAACCAAAAACA
1 GCAT--AAAATCCAACCAAAAACA
11206786 TTAAATCTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
31 33 0.67
33 16 0.33
ACGTcount: A:0.57, C:0.22, G:0.08, T:0.13
Consensus pattern (31 bp):
GCATAAAATCCAACCAAAAACAGCAAATATA
Found at i:11210415 original size:345 final size:346
Alignment explanation
Indices: 11209783--11210461 Score: 1297
Period size: 345 Copynumber: 2.0 Consensus size: 346
11209773 ATATATCATC
11209783 TAATTCTGCAATTTCAACTTTGCCGATTGGTTCTCCACAACTTTGGAATAAATAAGTTTCGGCCA
1 TAATTCTGCAATTTCAACTTTGCCGATTGGTTCTCCACAACTTTGGAATAAATAAGTTTCGGCCA
11209848 AGTTATGATCATTGAGCCCAGCATTTCTACTTGGTCTATTCAATCGTGTTTCAACATCTTCTAAA
66 AGTTATGATCATTGAGCCCAGCATTTCTACTTGGTCTATTCAATCGTGTTTCAACATCTTCTAAA
*
11209913 TATCTAGAACAGAAGGTCATGCAGTCCTCTGCCAAGTAGCCTTCAGCAATTGATCCTTCTGGATA
131 TATCTAGAACAGAAGGTCATGCAGTCCTCTACCAAGTAGCCTTCAGCAATTGATCCTTCTGGATA
**
11209978 ATGCTTATTGCGATAATAAGACTTCAATTTGCTTAGGAACCTAAACACGATATACAATATTTATC
196 ACACTTATTGCGATAATAAGACTTCAATTTGCTTAGGAACCTAAACACGATATACAATATTTATC
* *
11210043 AAAAGCTGTAACTAAATGTATAGAGGTGAATGAATGAATACTTGACAAATAAATTAGCACCTTTC
261 AAAAACTGTAACTAAATGTATAGAGGTGAATGAATGAATACTTGACAAATAAATTAACACCTTTC
11210108 TATAGGATATATTCACCTCTA
326 TATAGGATATATTCACCTCTA
*
11210129 TAATTCTGCAATTTCAACTTTGCCGATTGGTTCTCCATAACTTTGGAATAAATAAGTTTCGGCCA
1 TAATTCTGCAATTTCAACTTTGCCGATTGGTTCTCCACAACTTTGGAATAAATAAGTTTCGGCCA
11210194 AGTTATGATCATTGA-CCCAGCATTTCTACTTGGTCTATTCAATCGTGTTTCAACATCTTCTAAA
66 AGTTATGATCATTGAGCCCAGCATTTCTACTTGGTCTATTCAATCGTGTTTCAACATCTTCTAAA
11210258 TATCTAGAACAGAAGGTCATGCAGTCCTCTACCAAGTAGCCTTCAGCAATTGATCCTTCTGGATA
131 TATCTAGAACAGAAGGTCATGCAGTCCTCTACCAAGTAGCCTTCAGCAATTGATCCTTCTGGATA
11210323 ACACTTATTGCGATAATAAGACTTCAATTTGCTTAGGAACCTAAACACGATATACAATATTTATC
196 ACACTTATTGCGATAATAAGACTTCAATTTGCTTAGGAACCTAAACACGATATACAATATTTATC
11210388 AAAAACTGTAACTAAATGTATAGAGGTGAATGAATGAATACTTGACAAATAAATTAACACCTTTC
261 AAAAACTGTAACTAAATGTATAGAGGTGAATGAATGAATACTTGACAAATAAATTAACACCTTTC
11210453 TATAGGATA
326 TATAGGATA
11210462 CATCCATCGA
Statistics
Matches: 327, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
345 248 0.76
346 79 0.24
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (346 bp):
TAATTCTGCAATTTCAACTTTGCCGATTGGTTCTCCACAACTTTGGAATAAATAAGTTTCGGCCA
AGTTATGATCATTGAGCCCAGCATTTCTACTTGGTCTATTCAATCGTGTTTCAACATCTTCTAAA
TATCTAGAACAGAAGGTCATGCAGTCCTCTACCAAGTAGCCTTCAGCAATTGATCCTTCTGGATA
ACACTTATTGCGATAATAAGACTTCAATTTGCTTAGGAACCTAAACACGATATACAATATTTATC
AAAAACTGTAACTAAATGTATAGAGGTGAATGAATGAATACTTGACAAATAAATTAACACCTTTC
TATAGGATATATTCACCTCTA
Found at i:11211166 original size:12 final size:12
Alignment explanation
Indices: 11211149--11211174 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11211139 ATCCTCCTCT
11211149 TCATCAGATTCA
1 TCATCAGATTCA
11211161 TCATCAGATTCA
1 TCATCAGATTCA
11211173 TC
1 TC
11211175 CCTCGATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (12 bp):
TCATCAGATTCA
Found at i:11212907 original size:9 final size:9
Alignment explanation
Indices: 11212893--11212997 Score: 81
Period size: 9 Copynumber: 11.9 Consensus size: 9
11212883 TAAGTATAAT
11212893 TAAGTTATG
1 TAAGTTATG
11212902 TAAGTTATG
1 TAAGTTATG
* * *
11212911 ATATGATATC
1 -TAAGTTATG
*
11212921 T-ATTTATG
1 TAAGTTATG
11212929 T-A-TTATG
1 TAAGTTATG
*
11212936 TAAGTTATA
1 TAAGTTATG
* *
11212945 AAAATTATG
1 TAAGTTATG
*
11212954 TAAGTTCTG
1 TAAGTTATG
*
11212963 TAAATTATG
1 TAAGTTATG
*
11212972 TGAGTTATG
1 TAAGTTATG
*
11212981 TGAGTTATG
1 TAAGTTATG
11212990 TAAGTTAT
1 TAAGTTAT
11212998 ATAAATTGTA
Statistics
Matches: 74, Mismatches: 19, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
7 6 0.08
8 6 0.08
9 56 0.76
10 6 0.08
ACGTcount: A:0.34, C:0.02, G:0.18, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:11213373 original size:26 final size:26
Alignment explanation
Indices: 11213337--11213472 Score: 220
Period size: 26 Copynumber: 5.2 Consensus size: 26
11213327 TGATACAAAT
11213337 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
11213363 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
* *
11213389 TGATAATTGATTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
11213415 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
11213441 TGATAAT-GGTTTAGGTAAATGTTTCA
1 TGATAATAGG-TTAGGTAAATGTTTCA
11213467 TGATAA
1 TGATAA
11213473 GAATTTCATG
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
25 2 0.02
26 101 0.98
ACGTcount: A:0.34, C:0.04, G:0.23, T:0.39
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:11215161 original size:28 final size:26
Alignment explanation
Indices: 11215096--11215179 Score: 114
Period size: 27 Copynumber: 3.1 Consensus size: 26
11215086 GGAAGCGTTT
*
11215096 TGGTGGCTCTGCCACATATATCTATTC
1 TGGTGGCTCTGCCACAT-TATCTGTTC
11215123 TGGTGGCTCTGCCACGATTATCTGTATC
1 TGGTGGCTCTGCCAC-ATTATCTGT-TC
* *
11215151 TGGTGACTCTGTCACATTATCTGTTC
1 TGGTGGCTCTGCCACATTATCTGTTC
11215177 TGG
1 TGG
11215180 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
26 5 0.10
27 30 0.58
28 17 0.33
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (26 bp):
TGGTGGCTCTGCCACATTATCTGTTC
Found at i:11216426 original size:29 final size:28
Alignment explanation
Indices: 11216393--11216459 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 28
11216383 ATCACATGGA
*
11216393 AAAAAATTATTTTAATTAAATAATATTT
1 AAAAAATTATATTAATTAAATAATATTT
* *
11216421 ATAAAAATTATATTAATTTAATAATGTTT
1 A-AAAAATTATATTAATTAAATAATATTT
11216450 AAATAAATTA
1 AAA-AAATTA
11216460 ATCCAAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (28 bp):
AAAAAATTATATTAATTAAATAATATTT
Found at i:11216471 original size:39 final size:39
Alignment explanation
Indices: 11216425--11216519 Score: 172
Period size: 39 Copynumber: 2.4 Consensus size: 39
11216415 ATATTTATAA
* *
11216425 AAATTATATTAATTTAATAATGTTTAAATAAATTAATCC
1 AAATTATATTAATTAAATAATATTTAAATAAATTAATCC
11216464 AAATTATATTAATTAAATAATATTTAAATAAATTAATCC
1 AAATTATATTAATTAAATAATATTTAAATAAATTAATCC
11216503 AAATTATATTAATTAAA
1 AAATTATATTAATTAAA
11216520 ATAAGATTGA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (39 bp):
AAATTATATTAATTAAATAATATTTAAATAAATTAATCC
Done.