Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 197 of 328
Found at i:58840248 original size:6 final size:6
Alignment explanation
Indices: 58840209--58840296 Score: 56
Period size: 6 Copynumber: 14.3 Consensus size: 6
58840199 TTGTATTCAC
* * *
58840209 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCT-
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
58840257 ATCACCTA ATTTTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
58840297 AATGTTTTTT
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
5 5 0.08
6 50 0.78
7 6 0.09
8 3 0.05
ACGTcount: A:0.22, C:0.17, G:0.12, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:58844229 original size:46 final size:44
Alignment explanation
Indices: 58844140--58844356 Score: 159
Period size: 46 Copynumber: 4.7 Consensus size: 44
58844130 GGGGTAAGGT
*
58844140 GCCAATGCCATGTCCCAGACATGGTCTTGCACTGACACATCTCGTA-
1 GCCAATG-CATGTCCCAGACAT-GTCTTACACTGACACATCTCG-AG
* *
58844186 GCCAATGCATGTCTCAGACATGTCTTACACTGACTTACGTCTCGAG
1 GCCAATGCATGTCCCAGACATGTCTTACACTGAC--ACATCTCGAG
* * * * *
58844232 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAT
1 GCCAATGCATGTCCCAGACATGTCTTACACT-G-ACACATCTCGAG
* * * * * * *
58844278 ACCGATGCCATGTCCCAGACATGGTGTTACACTGGCTCTTATAAT-GTG
1 GCCAATG-CATGTCCCAGACAT-GTCTTACACTGACAC--AT-CTCGAG
**
58844326 GCTGATGCATGTCCCAGACATGTCTTACACT
1 GCCAATGCATGTCCCAGACATGTCTTACACT
58844357 AGTTCACAAT
Statistics
Matches: 142, Mismatches: 19, Indels: 20
0.78 0.10 0.11
Matches are distributed among these distances:
44 12 0.08
45 14 0.10
46 68 0.48
47 30 0.21
48 17 0.12
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (44 bp):
GCCAATGCATGTCCCAGACATGTCTTACACTGACACATCTCGAG
Found at i:58847156 original size:11 final size:11
Alignment explanation
Indices: 58847142--58847217 Score: 50
Period size: 11 Copynumber: 6.8 Consensus size: 11
58847132 GATAATTACT
58847142 TTAATATTAAA
1 TTAATATTAAA
58847153 TTAATA--AAA
1 TTAATATTAAA
*
58847162 -TACTATTAAGA
1 TTAATATTAA-A
* *
58847173 TAAATATTAAC
1 TTAATATTAAA
*
58847184 TTAAAATTAATA
1 TTAATATTAA-A
58847196 TTAAACTATTAAA
1 TT-AA-TATTAAA
*
58847209 ATAATATTA
1 TTAATATTA
58847218 TTTTTGAAAT
Statistics
Matches: 49, Mismatches: 9, Indels: 14
0.68 0.12 0.19
Matches are distributed among these distances:
8 4 0.08
9 3 0.06
10 2 0.04
11 20 0.41
12 11 0.22
13 4 0.08
14 5 0.10
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.39
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:58847170 original size:25 final size:26
Alignment explanation
Indices: 58847116--58847170 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
58847106 ACAAACACTA
*
58847116 ATTAAATTAAAATTAAGATAATTACT
1 ATTAAATTAAAATTAAGATAAATACT
*
58847142 -TTAATATT-AAATTAATA-AAATACT
1 ATTAA-ATTAAAATTAAGATAAATACT
58847166 ATTAA
1 ATTAA
58847171 GATAAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
24 6 0.24
25 16 0.64
26 3 0.12
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.40
Consensus pattern (26 bp):
ATTAAATTAAAATTAAGATAAATACT
Found at i:58847215 original size:19 final size:19
Alignment explanation
Indices: 58847163--58847217 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 19
58847153 TTAATAAAAT
*
58847163 ACTATTAAGATAAATATT-A
1 ACTATTAAAAT-AATATTAA
58847182 AC--TTAAAATTAATATTAA
1 ACTATTAAAA-TAATATTAA
58847200 ACTATTAAAATAATATTA
1 ACTATTAAAATAATATTA
58847218 TTTTTGAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
17 11 0.35
18 4 0.13
19 10 0.32
20 6 0.19
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (19 bp):
ACTATTAAAATAATATTAA
Found at i:58850442 original size:19 final size:19
Alignment explanation
Indices: 58850426--58850463 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
58850416 GTCTCGACGC
58850426 GTAAGCCACAACTCGACCT
1 GTAAGCCACAACTCGACCT
58850445 GTAAGCCACAACTCGACCT
1 GTAAGCCACAACTCGACCT
58850464 TCTTGCATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.37, G:0.16, T:0.16
Consensus pattern (19 bp):
GTAAGCCACAACTCGACCT
Found at i:58854928 original size:29 final size:29
Alignment explanation
Indices: 58854895--58854968 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 29
58854885 CCTTCGAGCT
*
58854895 CGCACACCCAGTGCCGTATATTTCCAGCA
1 CGCACACCCAGTGCCATATATTTCCAGCA
* **
58854924 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACCCAGTGCCATATATTTCCAGCA
**
58854953 CGCACACTTAGTGCCA
1 CGCACACCCAGTGCCA
58854969 ATCTCGTCAC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.26, C:0.34, G:0.16, T:0.24
Consensus pattern (29 bp):
CGCACACCCAGTGCCATATATTTCCAGCA
Found at i:58861076 original size:23 final size:23
Alignment explanation
Indices: 58861041--58861088 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
58861031 CTTTGCAAAA
*
58861041 AAAAAAAAAAAAAAAGAAAGAAAG
1 AAAAAAAAAAAAGAA-AAAGAAAG
*
58861065 AAAAAAAGAAAAGAAAAAGAAAG
1 AAAAAAAAAAAAGAAAAAGAAAG
58861088 A
1 A
58861089 CATAGGACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (23 bp):
AAAAAAAAAAAAGAAAAAGAAAG
Found at i:58863488 original size:2 final size:2
Alignment explanation
Indices: 58863481--58863522 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
58863471 AATGAAAACA
*
58863481 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
58863523 TTCTCACTCC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:58866280 original size:46 final size:46
Alignment explanation
Indices: 58866217--58866575 Score: 540
Period size: 46 Copynumber: 7.8 Consensus size: 46
58866207 TTCAACATGA
* * * * * *
58866217 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* ** *** *
58866263 TGCCATGGTATCATTCAACCATGGTCTTATTCATTTTCCCGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*
58866310 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
58866356 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
58866402 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
58866448 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
58866494 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
58866540 TGCCATGATATCTTTCAACCATGGTCTTACACATTT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT
58866576 TCTACCAGAG
Statistics
Matches: 295, Mismatches: 17, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
46 259 0.88
47 36 0.12
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:58868640 original size:11 final size:11
Alignment explanation
Indices: 58868624--58868675 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
58868614 TATACTAAAT
58868624 AAATAATAATA
1 AAATAATAATA
*
58868635 AAATAAT-ATT
1 AAATAATAATA
* *
58868645 AAATATCTCATA
1 AAATA-ATAATA
*
58868657 AAATATTAATA
1 AAATAATAATA
58868668 AAATAATA
1 AAATAATA
58868676 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:58878346 original size:25 final size:25
Alignment explanation
Indices: 58878303--58878351 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
58878293 TAATCTTTTA
* *
58878303 TTATTTTTTTTAATTTATTTTAAAG
1 TTATTTTTTTTAATCTATTATAAAG
58878328 TTATTTTTTATTAA-CTATTATAAA
1 TTATTTTTT-TTAATCTATTATAAA
58878352 TTAATTGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (25 bp):
TTATTTTTTTTAATCTATTATAAAG
Found at i:58882068 original size:48 final size:48
Alignment explanation
Indices: 58881982--58882075 Score: 134
Period size: 48 Copynumber: 2.0 Consensus size: 48
58881972 ATTCTAATGT
* * ** *
58881982 ATCTAATTTATATTACAAAGTTTCTTCCTCGTTTTAATGTTGCAATTC
1 ATCTAATTTAAATTACAAAGTTTATTCCAAGTTCTAATGTTGCAATTC
*
58882030 ATCTAATTTAAATTATAAAGTTTATTCCAAGTTCTAATGTTGCAAT
1 ATCTAATTTAAATTACAAAGTTTATTCCAAGTTCTAATGTTGCAAT
58882076 GAATTTCAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.46
Consensus pattern (48 bp):
ATCTAATTTAAATTACAAAGTTTATTCCAAGTTCTAATGTTGCAATTC
Found at i:58882615 original size:24 final size:24
Alignment explanation
Indices: 58882570--58882615 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
58882560 CCGCTTGGGC
* *
58882570 TCAGACTCTGGCTCTAGTTCGGGT
1 TCAGACTCGGGCTCTAGCTCGGGT
* *
58882594 TCAGGCTCGGGCTCTGGCTCGG
1 TCAGACTCGGGCTCTAGCTCGG
58882616 CTGTCCCAAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.09, C:0.28, G:0.35, T:0.28
Consensus pattern (24 bp):
TCAGACTCGGGCTCTAGCTCGGGT
Found at i:58884297 original size:17 final size:18
Alignment explanation
Indices: 58884265--58884301 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
58884255 CAATATTGTT
*
58884265 TGCCCGTGTAGGCCCACA
1 TGCCCATGTAGGCCCACA
58884283 TGCCCATGT-GGCCCACA
1 TGCCCATGTAGGCCCACA
58884300 TG
1 TG
58884302 GCTTGAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.16, C:0.38, G:0.27, T:0.19
Consensus pattern (18 bp):
TGCCCATGTAGGCCCACA
Found at i:58887315 original size:21 final size:21
Alignment explanation
Indices: 58887291--58887331 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
58887281 AAGTCATGCG
*
58887291 TTGGATAATTTGCCTCATGTA
1 TTGGATAATATGCCTCATGTA
*
58887312 TTGGATAATATGTCTCATGT
1 TTGGATAATATGCCTCATGT
58887332 GTCTTAAGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.12, G:0.20, T:0.44
Consensus pattern (21 bp):
TTGGATAATATGCCTCATGTA
Found at i:58893761 original size:14 final size:13
Alignment explanation
Indices: 58893744--58893783 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
58893734 ACAATAAATT
58893744 TTACAATAAATACA
1 TTACAA-AAATACA
*
58893758 TTACAAAAATTTCA
1 TTACAAAAA-TACA
58893772 TTACAAAAATAC
1 TTACAAAAATAC
58893784 TATACAGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 5 0.22
14 18 0.78
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (13 bp):
TTACAAAAATACA
Found at i:58894820 original size:2 final size:2
Alignment explanation
Indices: 58894813--58894840 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
58894803 TGACCTATTA
58894813 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
58894841 TAAAAATGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:58896066 original size:22 final size:22
Alignment explanation
Indices: 58896025--58896068 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
58896015 ATAGTTTACT
*
58896025 TAATATAATAATATTTTATAAG
1 TAATATAATAATATTATATAAG
58896047 TAATATAATATATATATATATA
1 TAATATAATA-ATAT-TATATA
58896069 TATATATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 4 0.21
24 5 0.26
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (22 bp):
TAATATAATAATATTATATAAG
Found at i:58897165 original size:19 final size:18
Alignment explanation
Indices: 58897141--58897199 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 18
58897131 TAAATTTTAA
58897141 AATTTTTATAAATATTTTT
1 AATTTTTA-AAATATTTTT
* *
58897160 AATTTTAAAAAAATATTTTA
1 AATTTT--TAAAATATTTTT
58897180 AATTTTTGAAAACTATTTTT
1 AATTTTT-AAAA-TATTTTT
58897200 TTTTTGTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
19 10 0.31
20 21 0.66
21 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (18 bp):
AATTTTTAAAATATTTTT
Found at i:58897173 original size:20 final size:20
Alignment explanation
Indices: 58897150--58897199 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
58897140 AAATTTTTAT
58897150 AAATATTTTTAATTTTAAAA
1 AAATATTTTTAATTTTAAAA
* **
58897170 AAATATTTTAAATTTTTGAA
1 AAATATTTTTAATTTTAAAA
*
58897190 AACTATTTTT
1 AAATATTTTT
58897200 TTTTTGTAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (20 bp):
AAATATTTTTAATTTTAAAA
Found at i:58907380 original size:44 final size:44
Alignment explanation
Indices: 58907317--58907406 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
58907307 GATGAGACCG
58907317 AGAGAATATTCTTAGCTAAGGGTGACAAACAATATAATTGGTAT
1 AGAGAATATTCTTAGCTAAGGGTGACAAACAATATAATTGGTAT
58907361 AGAGAATATTCTTAGCTAAGGGTGACAAACAATATAATTGGTAT
1 AGAGAATATTCTTAGCTAAGGGTGACAAACAATATAATTGGTAT
58907405 AG
1 AG
58907407 GCTTATTAGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (44 bp):
AGAGAATATTCTTAGCTAAGGGTGACAAACAATATAATTGGTAT
Found at i:58910267 original size:19 final size:21
Alignment explanation
Indices: 58910223--58910268 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 21
58910213 TTACAATTTT
*
58910223 ATTTTAATAATAAATTTTAAC
1 ATTTTAAAAATAAATTTTAAC
58910244 A--TTAAAAAT-AATTTTAA-
1 ATTTTAAAAATAAATTTTAAC
58910261 ATTTTAAA
1 ATTTTAAA
58910269 TGATATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
17 1 0.05
18 8 0.36
19 12 0.55
21 1 0.05
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
ATTTTAAAAATAAATTTTAAC
Found at i:58911160 original size:28 final size:29
Alignment explanation
Indices: 58911111--58911173 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
58911101 CTTTTTGGGC
**
58911111 TAAATTAGCCATATTTGCCTTTATTTTT-
1 TAAATTAGCCATATAAGCCTTTATTTTTG
* * *
58911139 TAAATTAGCCTTATAAGTCTTTTTTTTTG
1 TAAATTAGCCATATAAGCCTTTATTTTTG
58911168 TAAATT
1 TAAATT
58911174 TAAAGAAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 23 0.79
29 6 0.21
ACGTcount: A:0.27, C:0.11, G:0.08, T:0.54
Consensus pattern (29 bp):
TAAATTAGCCATATAAGCCTTTATTTTTG
Found at i:58930186 original size:41 final size:41
Alignment explanation
Indices: 58930129--58930208 Score: 160
Period size: 41 Copynumber: 2.0 Consensus size: 41
58930119 CTTCGGCCAC
58930129 AAAGACTACCCAAAATACAAAATAGTAAACTGCAGTTCAAT
1 AAAGACTACCCAAAATACAAAATAGTAAACTGCAGTTCAAT
58930170 AAAGACTACCCAAAATACAAAATAGTAAACTGCAGTTCA
1 AAAGACTACCCAAAATACAAAATAGTAAACTGCAGTTCA
58930209 TTCTAACAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.51, C:0.20, G:0.10, T:0.19
Consensus pattern (41 bp):
AAAGACTACCCAAAATACAAAATAGTAAACTGCAGTTCAAT
Found at i:58947671 original size:40 final size:39
Alignment explanation
Indices: 58947626--58947832 Score: 216
Period size: 40 Copynumber: 5.2 Consensus size: 39
58947616 CGGAATACGA
*
58947626 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
58947666 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
58947706 CCGGATTTAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* ** * *
58947746 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * * *
58947786 CCGGATATAATTACAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
58947825 CCGGATAT
1 CCGGATAT
58947833 CATTCAATTG
Statistics
Matches: 139, Mismatches: 27, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
39 28 0.20
40 111 0.80
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:58955696 original size:40 final size:39
Alignment explanation
Indices: 58955651--58955858 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
58955641 CGGAATACAA
*
58955651 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
58955691 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
58955731 CCGGATTTAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* ** * *
58955771 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * * *
58955811 CCGGATATAATTACCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCA-CTGCACAAATGCCTTCGGGTCTTAGC
58955851 CCGGATAT
1 CCGGATAT
58955859 CATTCAATTG
Statistics
Matches: 139, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 137 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:58955791 original size:80 final size:81
Alignment explanation
Indices: 58955651--58955856 Score: 233
Period size: 80 Copynumber: 2.6 Consensus size: 81
58955641 CGGAATACAA
* *
58955651 CCGGATATAACCA-CATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAA
1 CCGGATATAACAACCA-GCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAA
*
58955714 TGCCTTCGGGTATTAGC
65 TGCCTTCGGGTATTAAC
* *
58955731 CCGGATTTAACAACTC-GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAA
1 CCGGATATAACAAC-CAGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAA
* *
58955793 TTGCCTTCGGGTCTTAAC
64 ATGCCTTCGGGTATTAAC
** ** * *
58955811 CCGGATATAATTACCAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACCAGCACGAATGCCTTCGGGTCTTAGCCCGGAT
58955857 ATCATTCAAT
Statistics
Matches: 107, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
79 1 0.01
80 101 0.94
81 1 0.01
82 4 0.04
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
CCGGATATAACAACCAGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:58959926 original size:24 final size:24
Alignment explanation
Indices: 58959895--58959940 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
58959885 AACTTTACCA
58959895 AGAGATTTATGTACAAATCTAATG
1 AGAGATTTATGTACAAATCTAATG
58959919 AGAGATTTATGTACAAATCTAA
1 AGAGATTTATGTACAAATCTAA
58959941 ACCTCCAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.33
Consensus pattern (24 bp):
AGAGATTTATGTACAAATCTAATG
Found at i:58962708 original size:19 final size:20
Alignment explanation
Indices: 58962675--58962712 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
58962665 CTTATTTACA
58962675 TTTGAAAATTTTGATATGGC
1 TTTGAAAATTTTGATATGGC
58962695 TTTGAAAA-TTTGATATGG
1 TTTGAAAATTTTGATATGG
58962713 TGGGTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.32, C:0.03, G:0.21, T:0.45
Consensus pattern (20 bp):
TTTGAAAATTTTGATATGGC
Found at i:58965955 original size:17 final size:17
Alignment explanation
Indices: 58965933--58965966 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
58965923 GCCCATGTTG
*
58965933 CATGCCCATGTGGCCCA
1 CATGCCCATATGGCCCA
*
58965950 CATGCCCGTATGGCCCA
1 CATGCCCATATGGCCCA
58965967 TACGGCCCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.41, G:0.24, T:0.18
Consensus pattern (17 bp):
CATGCCCATATGGCCCA
Found at i:58976889 original size:46 final size:47
Alignment explanation
Indices: 58976774--58976889 Score: 137
Period size: 46 Copynumber: 2.5 Consensus size: 47
58976764 AAGCTGACGC
* *
58976774 CATGTCCTAGACATGTCTTACACTAGCTTGTACATCGCGAGGCTGATG
1 CATGTCCTAGACATGTCTTACACTAGCTTGTA-ATCGCAAGGCCGATG
* * *
58976822 CATGTCCTAGACATGTTTTACACTAGCTCT-T-ATCTCAATGCCGATG
1 CATGTCCTAGACATGTCTTACACTAGCT-TGTAATCGCAAGGCCGATG
* *
58976868 CATGTCCCAGACCTGTCTTACA
1 CATGTCCTAGACATGTCTTACA
58976890 TTGGCTTAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 30 0.51
48 28 0.47
49 1 0.02
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.31
Consensus pattern (47 bp):
CATGTCCTAGACATGTCTTACACTAGCTTGTAATCGCAAGGCCGATG
Found at i:58983696 original size:49 final size:47
Alignment explanation
Indices: 58983634--58983855 Score: 179
Period size: 49 Copynumber: 4.7 Consensus size: 47
58983624 GTTAAGTTGT
*
58983634 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTTCATCGAGGC
1 CGATG-CATGTCCCAGACATGGTCTTACACTGGCTATCTTAAT-GAGGC
* * * * *
58983683 CGATGCCAGGTCCCAGATATGGTCTTACACTAGCTCTCGTGT-ATAAGTGC
1 CGATG-CATGTCCCAGACATGGTCTTACACTGGCTATC-T-TAATGAG-GC
** * * *
58983733 TAATGCATGTCCCAGACAT-GTCTTACACTGGC-A-C-GAAGCTTA-AC
1 CGATGCATGTCCCAGACATGGTCTTACACTGGCTATCTTAA--TGAGGC
* *
58983777 CGATGCATGTCCCAGACATGGTCTTACACTGGCTATCGTAATGTGGC
1 CGATGCATGTCCCAGACATGGTCTTACACTGGCTATCTTAATGAGGC
* * *
58983824 TGATGCACGTCCCAGACA-CGTCTTACACTGGC
1 CGATGCATGTCCCAGACATGGTCTTACACTGGC
58983856 ACTCATCTCT
Statistics
Matches: 139, Mismatches: 23, Indels: 25
0.74 0.12 0.13
Matches are distributed among these distances:
44 19 0.14
45 13 0.09
46 18 0.13
47 18 0.13
48 14 0.10
49 48 0.35
50 8 0.06
51 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (47 bp):
CGATGCATGTCCCAGACATGGTCTTACACTGGCTATCTTAATGAGGC
Found at i:58983788 original size:44 final size:44
Alignment explanation
Indices: 58983735--58983857 Score: 142
Period size: 47 Copynumber: 2.7 Consensus size: 44
58983725 ATAAGTGCTA
58983735 ATGCATGTCCCAGACATGTCTTACACTGGCACG-AA-GCTTAACCG
1 ATGCATGTCCCAGACATGTCTTACACTGGCACGTAATG--TAACCG
** *
58983779 ATGCATGTCCCAGACATGGTCTTACACTGGCTATCGTAATGTGGCTG
1 ATGCATGTCCCAGACAT-GTCTTACACTGGC-A-CGTAATGTAACCG
* *
58983826 ATGCACGTCCCAGACACGTCTTACACTGGCAC
1 ATGCATGTCCCAGACATGTCTTACACTGGCAC
58983858 TCATCTCTAC
Statistics
Matches: 69, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
44 18 0.26
45 14 0.20
46 14 0.20
47 20 0.29
48 2 0.03
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.24
Consensus pattern (44 bp):
ATGCATGTCCCAGACATGTCTTACACTGGCACGTAATGTAACCG
Found at i:58983848 original size:91 final size:93
Alignment explanation
Indices: 58983682--58983857 Score: 241
Period size: 91 Copynumber: 1.9 Consensus size: 93
58983672 TTCATCGAGG
* * *
58983682 CCGATGCCAGGTCCCAGATATGGTCTTACACTAGCTCTCGTGTATAAGTGCTAATGCATGTCCCA
1 CCGATGCCAGGTCCCAGACATGGTCTTACACTAGCTATCG-GTATAAGTGCTAATGCACGTCCCA
*
58983747 GACATGTCTTACACTGGCACGAAGCTTAA
65 GACACGTCTTACACTGGCACGAAGCTTAA
* * * *
58983776 CCGATG-CATGTCCCAGACATGGTCTTACACTGGCTATC-GTA-ATGTGGCTGATGCACGTCCCA
1 CCGATGCCAGGTCCCAGACATGGTCTTACACTAGCTATCGGTATAAGT-GCTAATGCACGTCCCA
58983838 GACACGTCTTACACTGGCAC
65 GACACGTCTTACACTGGCAC
58983858 TCATCTCTAC
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
90 3 0.04
91 36 0.49
93 28 0.38
94 6 0.08
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (93 bp):
CCGATGCCAGGTCCCAGACATGGTCTTACACTAGCTATCGGTATAAGTGCTAATGCACGTCCCAG
ACACGTCTTACACTGGCACGAAGCTTAA
Found at i:58983875 original size:46 final size:44
Alignment explanation
Indices: 58983735--58983886 Score: 126
Period size: 47 Copynumber: 3.3 Consensus size: 44
58983725 ATAAGTGCTA
* ** * *
58983735 ATGCATGTCCCAGACATGTCTTACACTGGCACGAAGCTTAACCG
1 ATGCATGTCCCAGACACGTCTTACACTGGCACTCATCTTAGCCG
* * * * *
58983779 ATGCATGTCCCAGACATGGTCTTACACTGGCTATCGTAAT-GTGGCTG
1 ATGCATGTCCCAGACA-CGTCTTACACTGGC-A-C-TCATCTTAGCCG
*
58983826 ATGCACGTCCCAGACACGTCTTACACTGGCACTCATCTCTACGCCG
1 ATGCATGTCCCAGACACGTCTTACACTGGCACTCATCT-TA-GCCG
*
58983872 ATGCCATGTTCCAGA
1 ATG-CATGTCCCAGA
58983887 TACTTAGTTC
Statistics
Matches: 85, Mismatches: 15, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
43 3 0.04
44 17 0.20
45 15 0.18
46 20 0.24
47 28 0.33
48 2 0.02
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (44 bp):
ATGCATGTCCCAGACACGTCTTACACTGGCACTCATCTTAGCCG
Found at i:58989868 original size:47 final size:45
Alignment explanation
Indices: 58989759--58990013 Score: 166
Period size: 47 Copynumber: 5.5 Consensus size: 45
58989749 TTGCCGATGC
*
58989759 CATGTCCCAGACATGTCTTACACTAGCACAACTCT-T-A-GCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCAC--CTCTATGAGGCCAATG
* * * *
58989803 CGTGTCCTAGACACGTCTTACACTAGCTACCTCTGTCGAGGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGC-ACCTCTAT-GAGGCCAATG
* * * *
58989850 CATGTCCTAGACATGTCTTACTCTGGCA-CTCATAAT-ATGGCTGAA-G
1 CATGTCCCAGACATGTCTTACACTAGCACCTC-T-ATGA-GGC-CAATG
* * * * *
58989896 AATGTCCTAGACATGTCTTACACTAGC-CCTCGTCTGTATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCACCTC-TATG-AGGCCAATG
* * *
58989942 CCATGTCCCAGACATGGTCTTACACTGGC-TCTCATAATGAGGCCAAAG
1 -CATGTCCCAGACAT-GTCTTACACTAGCACCTC-T-ATGAGGCCAATG
*
58989990 TATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
58990014 GGCGCACAAA
Statistics
Matches: 167, Mismatches: 28, Indels: 30
0.74 0.12 0.13
Matches are distributed among these distances:
43 4 0.02
44 25 0.15
45 8 0.05
46 48 0.29
47 58 0.35
48 22 0.13
49 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTAGCACCTCTATGAGGCCAATG
Found at i:58990002 original size:94 final size:92
Alignment explanation
Indices: 58989805--58990013 Score: 253
Period size: 94 Copynumber: 2.2 Consensus size: 92
58989795 AGCCGATGCG
* *
58989805 TGTCCTAGACACGTCTTACACTAGCTACCTCTGTCGAGGCCAATGCATGTCCTAGACATGTCTTA
1 TGTCCTAGACATGTCTTACACTAGC-ACCTCTGTCGAGGCCAATGCATGTCCCAGACATGTCTTA
* **
58989870 CTCTGGCACTCATAATATGGCTGAAGAA
65 CACTGGCACTCATAATATGGCCAAAGAA
* *
58989898 TGTCCTAGACATGTCTTACACTAGC-CCTC-GTCTGTATGCCGATGCCATGTCCCAGACATGGTC
1 TGTCCTAGACATGTCTTACACTAGCACCTCTGTC-G-AGGCCAATG-CATGTCCCAGACAT-GTC
* *
58989961 TTACACTGGCTCTCATAATGA-GGCCAAAGTA
62 TTACACTGGCACTCATAAT-ATGGCCAAAGAA
*
58989992 TGTCCCAGACATGTCTTACACT
1 TGTCCTAGACATGTCTTACACT
58990014 GGCGCACAAA
Statistics
Matches: 101, Mismatches: 10, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
90 3 0.03
91 5 0.05
92 7 0.07
93 37 0.37
94 48 0.48
95 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (92 bp):
TGTCCTAGACATGTCTTACACTAGCACCTCTGTCGAGGCCAATGCATGTCCCAGACATGTCTTAC
ACTGGCACTCATAATATGGCCAAAGAA
Found at i:58995682 original size:68 final size:68
Alignment explanation
Indices: 58995533--58995690 Score: 162
Period size: 68 Copynumber: 2.3 Consensus size: 68
58995523 CTAGCCGATT
* * * *
58995533 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACTCATGTGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGTGACCTAGCTACA
*
58995598 TTTA
65 TATA
* *
58995602 TCTCTCATGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTA
1 TATCTC--GTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGTGACCTAGCTA
58995664 CTATATA
63 C-ATATA
58995671 GTATCTCGTAGC-CTTCTTGT
1 -TATCTCGTAGCTC-TCTTGT
58995691 ACACATGATG
Statistics
Matches: 75, Mismatches: 8, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
67 1 0.01
68 33 0.44
69 9 0.12
70 7 0.09
71 25 0.33
ACGTcount: A:0.21, C:0.27, G:0.16, T:0.37
Consensus pattern (68 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGTGACCTAGCTACAT
ATA
Found at i:58999634 original size:47 final size:48
Alignment explanation
Indices: 58999435--58999639 Score: 142
Period size: 47 Copynumber: 4.4 Consensus size: 48
58999425 TGGGATAAAT
* * * * *
58999435 TGCCAATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTCATATATGCA
1 TGCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCACCTC-TGTCTG-A
* ** *
58999485 TGCTGATG-CATGTCCCAGACATGTCTTACACTAGCACAAC--TCTTA
1 TGCCGATGCCATGTCCCAGACATGTCTTACACTAGCACCTCTGTCTGA
* * *
58999530 -GCCGATG-CGTGTCCCAGACACGTCTTACACTGGCTACCTCTGTC-GA
1 TGCCGATGCCATGTCCCAGACATGTCTTACACTAGC-ACCTCTGTCTGA
* * *
58999576 GGCCAAT-CCATGTCCCAGACATGTCTTACAGTAGC-CCTC-GTCTGGA
1 TGCCGATGCCATGTCCCAGACATGTCTTACACTAGCACCTCTGTCT-GA
* *
58999622 TGCTGATGCCATGCCCCA
1 TGCCGATGCCATGTCCCA
58999640 ATGATGGTCT
Statistics
Matches: 122, Mismatches: 24, Indels: 21
0.73 0.14 0.13
Matches are distributed among these distances:
44 33 0.27
45 8 0.07
46 9 0.07
47 39 0.32
48 12 0.10
49 15 0.12
50 6 0.05
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.26
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAGACATGTCTTACACTAGCACCTCTGTCTGA
Found at i:59013528 original size:27 final size:26
Alignment explanation
Indices: 59013470--59013533 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 26
59013460 ATGAATTTTC
* *
59013470 TCAAAATTTTATTGGGGGTAAAATCG
1 TCAAAATTTTATTGAGCGTAAAATCG
* * *
59013496 TTAAAAATTTATTGAAGCGTAAAATTG
1 TCAAAATTTTATTG-AGCGTAAAATCG
59013523 TCAAAATTTTA
1 TCAAAATTTTA
59013534 CTGGAGTAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 12 0.40
27 18 0.60
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.38
Consensus pattern (26 bp):
TCAAAATTTTATTGAGCGTAAAATCG
Found at i:59028470 original size:35 final size:35
Alignment explanation
Indices: 59028431--59028502 Score: 110
Period size: 35 Copynumber: 2.1 Consensus size: 35
59028421 TTTTAACTTA
*
59028431 TACAATTTCTAAGTATCTTTTAGTTTTT-CAAATTT
1 TACAATTTCTAAGTAT-TTTTACTTTTTCCAAATTT
*
59028466 TACAATTTCTAAGTATTTTTTCTTTTTCCAAATTT
1 TACAATTTCTAAGTATTTTTACTTTTTCCAAATTT
59028501 TA
1 TA
59028503 AATATTGGTG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 9 0.26
35 25 0.74
ACGTcount: A:0.28, C:0.12, G:0.04, T:0.56
Consensus pattern (35 bp):
TACAATTTCTAAGTATTTTTACTTTTTCCAAATTT
Found at i:59028615 original size:27 final size:27
Alignment explanation
Indices: 59028525--59028616 Score: 64
Period size: 27 Copynumber: 3.4 Consensus size: 27
59028515 ATTTTGATTA
* ** *
59028525 TATATTCAAATTTTAATGAA-AAATAA
1 TATATTTAAATTTTAACAAATAAATAT
*
59028551 TATATTTAAA-TTT-ACATATTCAAATAT
1 TATATTTAAATTTTAACA-AAT-AAATAT
* ***
59028578 TGTACCAAAATTTTAACAAATAAATAT
1 TATATTTAAATTTTAACAAATAAATAT
59028605 TATATTTAAATT
1 TATATTTAAATT
59028617 AAATAACAAT
Statistics
Matches: 47, Mismatches: 14, Indels: 9
0.67 0.20 0.13
Matches are distributed among these distances:
24 1 0.02
25 4 0.09
26 9 0.19
27 25 0.53
28 5 0.11
29 3 0.06
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (27 bp):
TATATTTAAATTTTAACAAATAAATAT
Found at i:59028909 original size:15 final size:17
Alignment explanation
Indices: 59028889--59028920 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
59028879 TACTATTATT
59028889 TTAGTTT-TTG-ATTTC
1 TTAGTTTATTGTATTTC
59028904 TTAGTTTATTGTATTTC
1 TTAGTTTATTGTATTTC
59028921 ATTTGAATAT
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:0.16, C:0.06, G:0.12, T:0.66
Consensus pattern (17 bp):
TTAGTTTATTGTATTTC
Found at i:59029152 original size:22 final size:21
Alignment explanation
Indices: 59029114--59029154 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
59029104 ATTATTATAA
**
59029114 AACAAAGAGAATTATAGAATG
1 AACAAAGAGAAGAATAGAATG
59029135 AACAAGAGAGAAGAATAGAA
1 AACAA-AGAGAAGAATAGAA
59029155 AAATGAAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.61, C:0.05, G:0.22, T:0.12
Consensus pattern (21 bp):
AACAAAGAGAAGAATAGAATG
Found at i:59032493 original size:12 final size:12
Alignment explanation
Indices: 59032396--59032499 Score: 53
Period size: 12 Copynumber: 9.0 Consensus size: 12
59032386 TTATTTTAAT
59032396 ATATTTAATATTA
1 ATATTTAAT-TTA
59032409 A-ATTTAATTTA
1 ATATTTAATTTA
*
59032420 ATACTT-ATCTTA
1 ATATTTAAT-TTA
*
59032432 ATA-GT-ATTT-
1 ATATTTAATTTA
59032441 -TA-TTAATTTA
1 ATATTTAATTTA
* * *
59032451 ATATTAAAGTGA
1 ATATTTAATTTA
*
59032463 TTATCTTAATATTA
1 ATAT-TTAAT-TTA
59032477 A-ATTTAATTTA
1 ATATTTAATTTA
*
59032488 ATATTTATTTTA
1 ATATTTAATTTA
59032500 TAGATAAATA
Statistics
Matches: 70, Mismatches: 12, Indels: 19
0.69 0.12 0.19
Matches are distributed among these distances:
8 3 0.04
9 4 0.06
10 2 0.03
11 15 0.21
12 38 0.54
13 6 0.09
14 2 0.03
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (12 bp):
ATATTTAATTTA
Found at i:59032596 original size:58 final size:60
Alignment explanation
Indices: 59032470--59032604 Score: 143
Period size: 58 Copynumber: 2.3 Consensus size: 60
59032460 TGATTATCTT
* * * *
59032470 AATATTAAATTTAATTTAATATTTATTTTATAGATAAATATTCTATTAATATAATAGATTT
1 AATATTAAATTTAATCTAATATTTATTCTATAGATAAATATTATATTAATATAATA-ATTG
* * *
59032531 AATATTAATTTTAATCTAATATTTA-TCT-T-GATAAGTATTATATTAATTTAAT-ATTG
1 AATATTAAATTTAATCTAATATTTATTCTATAGATAAATATTATATTAATATAATAATTG
*
59032587 AAGTGATTAAGTTTAATC
1 AA-T-ATTAAATTTAATC
59032605 ATAGTTGAAC
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
56 5 0.08
57 1 0.02
58 32 0.50
59 1 0.02
60 2 0.03
61 23 0.36
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (60 bp):
AATATTAAATTTAATCTAATATTTATTCTATAGATAAATATTATATTAATATAATAATTG
Found at i:59035727 original size:22 final size:21
Alignment explanation
Indices: 59035702--59035745 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
59035692 TATAATAATT
59035702 ATTTA-ATATAATTATAATATAA
1 ATTTATATAT-ATTATAAT-TAA
*
59035724 ATTTATTTATATTATAATTAA
1 ATTTATATATATTATAATTAA
59035745 A
1 A
59035746 GGTTGACATC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 4 0.20
22 13 0.65
23 3 0.15
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTTATATATATTATAATTAA
Found at i:59035835 original size:18 final size:17
Alignment explanation
Indices: 59035812--59035852 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
59035802 ATATTTGTAT
59035812 TAATTTAAAAACATATTA
1 TAATTTAAAAA-ATATTA
59035830 TAATTT-AAAAATATTA
1 TAATTTAAAAAATATTA
*
59035846 TTATTTA
1 TAATTTA
59035853 CAAATTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 11 0.52
17 4 0.19
18 6 0.29
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
TAATTTAAAAAATATTA
Found at i:59035843 original size:16 final size:16
Alignment explanation
Indices: 59035812--59035857 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
59035802 ATATTTGTAT
59035812 TAATTTAAAAACATATTA
1 TAATTT-AAAA-ATATTA
59035830 TAATTTAAAAATATTA
1 TAATTTAAAAATATTA
* *
59035846 TTATTTACAAAT
1 TAATTTAAAAAT
59035858 TTAAAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 16 0.62
17 4 0.15
18 6 0.23
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATTTAAAAATATTA
Found at i:59062809 original size:23 final size:22
Alignment explanation
Indices: 59062772--59062823 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
59062762 ATTGGTATTA
* **
59062772 TTATTCTTGTCATTATTATTTTT
1 TTATTCTTGTAATTA-TAGATTT
*
59062795 TTATTCTTTTAATTATAGATTT
1 TTATTCTTGTAATTATAGATTT
59062817 TTATTCT
1 TTATTCT
59062824 ATTGGTTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 12 0.48
23 13 0.52
ACGTcount: A:0.21, C:0.08, G:0.04, T:0.67
Consensus pattern (22 bp):
TTATTCTTGTAATTATAGATTT
Found at i:59064380 original size:6 final size:6
Alignment explanation
Indices: 59064363--59064443 Score: 126
Period size: 6 Copynumber: 13.3 Consensus size: 6
59064353 GTCCAATTAT
* * *
59064363 TTTTTA TATTTA TGTTTA TCTTTA TTTTTA TCTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA T-TTTTA TTTTTA TTTTTA
59064412 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TT
59064444 CTTTTTGTTA
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
6 64 0.91
7 6 0.09
ACGTcount: A:0.17, C:0.02, G:0.01, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:59068292 original size:10 final size:10
Alignment explanation
Indices: 59068279--59068338 Score: 68
Period size: 10 Copynumber: 6.1 Consensus size: 10
59068269 AATTGTAAAA
*
59068279 AATAAAAATC
1 AATAAAAATT
59068289 AAT-AAAATT
1 AATAAAAATT
*
59068298 TATAAAAATT
1 AATAAAAATT
* *
59068308 ATTAAAATTT
1 AATAAAAATT
*
59068318 AATAAAAAAT
1 AATAAAAATT
59068328 AATAAAAATT
1 AATAAAAATT
59068338 A
1 A
59068339 GAATGAAATA
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
9 7 0.17
10 33 0.82
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (10 bp):
AATAAAAATT
Found at i:59068302 original size:19 final size:19
Alignment explanation
Indices: 59068279--59068334 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 19
59068269 AATTGTAAAA
59068279 AATAAAAATCAATAAAATTT
1 AATAAAAAT-AATAAAATTT
*
59068299 -ATAAAAATTATTAAAATTT
1 AATAAAAA-TAATAAAATTT
59068318 AATAAAAAATAATAAAA
1 AAT-AAAAATAATAAAA
59068335 ATTAGAATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
19 16 0.52
20 10 0.32
21 5 0.16
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (19 bp):
AATAAAAATAATAAAATTT
Found at i:59068338 original size:27 final size:28
Alignment explanation
Indices: 59068308--59068363 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
59068298 TATAAAAATT
**
59068308 ATTAAAATTTAATA-AAAAATAATAAAA
1 ATTAAAATGAAATATAAAAATAATAAAA
* *
59068335 ATTAGAATGAAATATAAAAATAGTAAAA
1 ATTAAAATGAAATATAAAAATAATAAAA
59068363 A
1 A
59068364 AATAAAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 11 0.46
28 13 0.54
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (28 bp):
ATTAAAATGAAATATAAAAATAATAAAA
Found at i:59068373 original size:19 final size:19
Alignment explanation
Indices: 59068321--59068373 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
59068311 AAAATTTAAT
59068321 AAAAAATAATAAAAATTAGA
1 AAAAAATAA-AAAAATTAGA
** *
59068341 ATGAAATATAAAAA-TAGTA
1 AAAAAATAAAAAAATTAG-A
59068360 AAAAAATAAAAAAA
1 AAAAAATAAAAAAA
59068374 AAATTGTAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
18 3 0.12
19 17 0.65
20 6 0.23
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (19 bp):
AAAAAATAAAAAAATTAGA
Found at i:59068385 original size:30 final size:30
Alignment explanation
Indices: 59068351--59068426 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
59068341 ATGAAATATA
* *
59068351 AAAATAGTAAAAAAATAAAAAAAAAATTGT
1 AAAATAATAAAAAAATAAAAAAAAAATTAT
** * * *
59068381 AAAATTTTATAAAAATCATAAAAAAATTAT
1 AAAATAATAAAAAAATAAAAAAAAAATTAT
59068411 AAAATACATAAAAAAA
1 AAAATA-ATAAAAAAA
59068427 AGGCTCTTTA
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
30 29 0.81
31 7 0.19
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (30 bp):
AAAATAATAAAAAAATAAAAAAAAAATTAT
Found at i:59068404 original size:20 final size:20
Alignment explanation
Indices: 59068387--59068426 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
59068377 TTGTAAAATT
59068387 TTATAAAA-ATCATAAAAAAA
1 TTATAAAATA-CATAAAAAAA
59068407 TTATAAAATACATAAAAAAA
1 TTATAAAATACATAAAAAAA
59068427 AGGCTCTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (20 bp):
TTATAAAATACATAAAAAAA
Found at i:59068414 original size:9 final size:9
Alignment explanation
Indices: 59068266--59068414 Score: 55
Period size: 9 Copynumber: 16.4 Consensus size: 9
59068256 GACATGTGAA
*
59068266 AAAAATTGT
1 AAAAATTAT
59068275 AAAAA--AT
1 AAAAATTAT
*
59068282 AAAAATCAAT
1 AAAAAT-TAT
*
59068292 AAAATTTAT
1 AAAAATTAT
59068301 AAAAATTATT
1 AAAAATTA-T
*
59068311 AAAATTTAAT
1 AAAAATT-AT
*
59068321 AAAAAATAAT
1 -AAAAATTAT
*
59068331 AAAAATTAG
1 AAAAATTAT
59068340 AATGAAA-TAT
1 AA--AAATTAT
59068350 AAAAA-TAGT
1 AAAAATTA-T
*
59068359 AAAAA-AAT
1 AAAAATTAT
59068367 -AAAA--A-
1 AAAAATTAT
*
59068372 AAAAATTGT
1 AAAAATTAT
*
59068381 AAAATTTTAT
1 AAAA-ATTAT
*
59068391 AAAAATCATAA
1 AAAAAT--TAT
59068402 AAAAATTAT
1 AAAAATTAT
59068411 AAAA
1 AAAA
59068415 TACATAAAAA
Statistics
Matches: 107, Mismatches: 17, Indels: 32
0.69 0.11 0.21
Matches are distributed among these distances:
6 5 0.05
7 10 0.09
8 6 0.06
9 41 0.38
10 28 0.26
11 17 0.16
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.28
Consensus pattern (9 bp):
AAAAATTAT
Found at i:59068614 original size:10 final size:10
Alignment explanation
Indices: 59068595--59068758 Score: 62
Period size: 10 Copynumber: 16.9 Consensus size: 10
59068585 TTTTGGTACG
59068595 ATAA-TTTTT
1 ATAATTTTTT
59068604 ATAATTTTTT
1 ATAATTTTTT
59068614 ATTAA--TTTT
1 A-TAATTTTTT
59068623 AT-ATTTCTTT
1 ATAATTT-TTT
* *
59068633 ACATTTTTTT
1 ATAATTTTTT
59068643 ATAATTTTCTT
1 ATAATTTT-TT
**
59068654 AT--TACTTT
1 ATAATTTTTT
* ** *
59068662 AAAAAATTTC
1 ATAATTTTTT
59068672 ATAATTTTTT
1 ATAATTTTTT
* *
59068682 -TCTATATTTCT
1 AT-AAT-TTTTT
*
59068693 AT-ATATTTT
1 ATAATTTTTT
59068702 ATAATTTTTT
1 ATAATTTTTT
**
59068712 ACGATTTTTT
1 ATAATTTTTT
59068722 -TAATTTTTTT
1 ATAA-TTTTTT
**
59068732 ATAATTTTAA
1 ATAATTTTTT
59068742 AT-ATTTTTT
1 ATAATTTTTT
59068751 AT-ATTTTT
1 ATAATTTTT
59068759 ATTAAAATTT
Statistics
Matches: 113, Mismatches: 27, Indels: 30
0.66 0.16 0.18
Matches are distributed among these distances:
7 1 0.01
8 4 0.04
9 32 0.28
10 58 0.51
11 17 0.15
12 1 0.01
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.65
Consensus pattern (10 bp):
ATAATTTTTT
Found at i:59068647 original size:39 final size:37
Alignment explanation
Indices: 59068599--59068768 Score: 112
Period size: 39 Copynumber: 4.3 Consensus size: 37
59068589 GGTACGATAA
59068599 TTTTTATAATTTTTTATTAATTTTATATTTCTTTACATT
1 TTTTTATAATTTTTTA-TAATTTTATATTT-TTTACATT
* * * **
59068638 TTTTTATAATTTTCTTATTACTTTAAAAAATTTCATA-ATT
1 TTTTTATAATTTT-TTA-TAATTT--TATATTTTTTACATT
* *
59068678 TTTTTCT-ATATTTCTATATATTTTATAATTTTTTACGATT
1 TTTTTATAAT-TTTTTATA-ATTTTAT-ATTTTTTAC-ATT
* *
59068718 TTTTTA-ATTTTTTTATAATTTTAAATATTTTTTATATT
1 TTTTTATAATTTTTTATAATTTT--ATATTTTTTACATT
*
59068756 TTTATTAAAATTT
1 TTT-TTATAATTT
59068769 AATAATTTTT
Statistics
Matches: 101, Mismatches: 17, Indels: 25
0.71 0.12 0.17
Matches are distributed among these distances:
37 1 0.01
38 19 0.19
39 38 0.38
40 36 0.36
41 2 0.02
42 5 0.05
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.65
Consensus pattern (37 bp):
TTTTTATAATTTTTTATAATTTTATATTTTTTACATT
Found at i:59068739 original size:19 final size:19
Alignment explanation
Indices: 59068717--59068759 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
59068707 TTTTTACGAT
*
59068717 TTTTTTAAT-TTTTTTATA
1 TTTTTAAATATTTTTTATA
*
59068735 ATTTTAAATATTTTTTATA
1 TTTTTAAATATTTTTTATA
59068754 TTTTTA
1 TTTTTA
59068760 TTAAAATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTTAAATATTTTTTATA
Found at i:59068772 original size:28 final size:28
Alignment explanation
Indices: 59068717--59068779 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 28
59068707 TTTTTACGAT
*
59068717 TTTTTTAATTTTTTTATAATTTTAAATA
1 TTTTTTAATTTTTTTATAAATTTAAATA
59068745 TTTTTTATATTTTTATTA-AAATTT-AATA
1 TTTTTTA-ATTTTT-TTATAAATTTAAATA
*
59068773 ATTTTTA
1 TTTTTTA
59068780 CAACTTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 17 0.55
29 11 0.35
30 3 0.10
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (28 bp):
TTTTTTAATTTTTTTATAAATTTAAATA
Found at i:59069139 original size:13 final size:13
Alignment explanation
Indices: 59069121--59069146 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
59069111 CGTGTTTCCA
59069121 AAAACCATTTGTT
1 AAAACCATTTGTT
59069134 AAAACCATTTGTT
1 AAAACCATTTGTT
59069147 TGCATAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
AAAACCATTTGTT
Found at i:59078816 original size:43 final size:43
Alignment explanation
Indices: 59078759--59078940 Score: 215
Period size: 43 Copynumber: 4.2 Consensus size: 43
59078749 AAAAGATCAA
**
59078759 GACTTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTTAT
1 GACTTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGCCAT
* * * * *
59078802 GACCTTTAGCGGCGTTTGTTAGGGAAA-CGCCGCTAAAGGCAAT
1 GACTTTTAGCGGCGTTTGTGA-GAAAAGCGCCGCTAAAAGCCAT
* * *
59078845 GACTTTTAACGGCGTTTGTGAGAAAAGCACTGCTAAAAGCCAT
1 GACTTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGCCAT
* * *
59078888 GACTTTTAGCGGCATTTTTTG-GGAAAGCGCCGCTAAAAGCCAT
1 GACTTTTAGCGGC-GTTTGTGAGAAAAGCGCCGCTAAAAGCCAT
59078931 GACTTTTAGC
1 GACTTTTAGC
59078941 CGCGCTTTTT
Statistics
Matches: 116, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
42 4 0.03
43 103 0.89
44 9 0.08
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (43 bp):
GACTTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGCCAT
Found at i:59078919 original size:86 final size:86
Alignment explanation
Indices: 59078759--59078938 Score: 254
Period size: 86 Copynumber: 2.1 Consensus size: 86
59078749 AAAAGATCAA
* * ** *
59078759 GACTTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTTATGACCTTTAGCGGCGTTTGTTAG
1 GACTTTTAACGGCGTTTGTGAGAAAAGCACCGCTAAAAGCCATGACCTTTAGCGGCATTTGTTAG
*
59078824 GGAAACGCCGCTAAAGGCAAT
66 GGAAACGCCGCTAAAAGCAAT
* * *
59078845 GACTTTTAACGGCGTTTGTGAGAAAAGCACTGCTAAAAGCCATGACTTTTAGCGGCATTT-TTTG
1 GACTTTTAACGGCGTTTGTGAGAAAAGCACCGCTAAAAGCCATGACCTTTAGCGGCATTTGTTAG
*
59078909 GGAAAGCGCCGCTAAAAGCCAT
66 GGAAA-CGCCGCTAAAAGCAAT
59078931 GACTTTTA
1 GACTTTTA
59078939 GCCGCGCTTT
Statistics
Matches: 83, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
85 8 0.10
86 75 0.90
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (86 bp):
GACTTTTAACGGCGTTTGTGAGAAAAGCACCGCTAAAAGCCATGACCTTTAGCGGCATTTGTTAG
GGAAACGCCGCTAAAAGCAAT
Found at i:59078963 original size:43 final size:43
Alignment explanation
Indices: 59078782--59078966 Score: 119
Period size: 43 Copynumber: 4.3 Consensus size: 43
59078772 GTTTGTGAGA
** * * * *
59078782 AAAGCGCCGCTAAAAGTTATGACCTTTAGCGGCGTTTGTT-AGGG
1 AAAGCGCCGCTAAAAGCCATGACTTTTAGCGGCATTTTTTCA--C
* * * * * * *
59078826 AAA-CGCCGCTAAAGGCAATGACTTTTAACGGC-GTTTGTGAGA
1 AAAGCGCCGCTAAAAGCCATGACTTTTAGCGGCATTTTTTCA-C
* * ***
59078868 AAAGCACTGCTAAAAGCCATGACTTTTAGCGGCATTTTTTGGG
1 AAAGCGCCGCTAAAAGCCATGACTTTTAGCGGCATTTTTTCAC
59078911 AAAGCGCCGCTAAAAGCCATGACTTTTAGCCGCGC-TTTTTTCAC
1 AAAGCGCCGCTAAAAGCCATGACTTTTAG-CG-GCATTTTTTCAC
*
59078955 AAA-TGCCGCTAA
1 AAAGCGCCGCTAA
59078967 TTTTGGCAGA
Statistics
Matches: 112, Mismatches: 24, Indels: 11
0.76 0.16 0.07
Matches are distributed among these distances:
42 7 0.06
43 84 0.75
44 19 0.17
45 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (43 bp):
AAAGCGCCGCTAAAAGCCATGACTTTTAGCGGCATTTTTTCAC
Found at i:59078966 original size:86 final size:84
Alignment explanation
Indices: 59078759--59078966 Score: 202
Period size: 86 Copynumber: 2.4 Consensus size: 84
59078749 AAAAGATCAA
* * * ** *
59078759 GACTTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTTATGACCTTTAGCGGCGTTTGTTAG
1 GACTTTTAACGGCGTTTGTCACAAAA--GCCGCTAAAAGCCATGACCTTTAGCGGCATTTGTTAG
*
59078824 GGAAACGCCGCTAAAGGCAAT
64 GGAAACGCCGCTAAAAGCAAT
* * * *
59078845 GACTTTTAACGGCGTTTGTGAGAAAAGCACTGCTAAAAGCCATGACTTTTAGCGGCATTT-TTTG
1 GACTTTTAACGGCGTTTGTCACAAAAGC-C-GCTAAAAGCCATGACCTTTAGCGGCATTTGTTAG
*
59078909 GGAAAGCGCCGCTAAAAGCCAT
64 GGAAA-CGCCGCTAAAAGCAAT
* * * *
59078931 GACTTTTAGCCGCGCTTTTTTCACAAATGCCGCTAA
1 GACTTTTA-ACG-GCGTTTGTCACAAAAGCCGCTAA
59078967 TTTTGGCAGA
Statistics
Matches: 103, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
84 2 0.02
85 9 0.09
86 77 0.75
87 3 0.03
88 12 0.12
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (84 bp):
GACTTTTAACGGCGTTTGTCACAAAAGCCGCTAAAAGCCATGACCTTTAGCGGCATTTGTTAGGG
AAACGCCGCTAAAAGCAAT
Found at i:59079079 original size:31 final size:31
Alignment explanation
Indices: 59079015--59079080 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
59079005 AACCCTTCTT
* **
59079015 GCATTAAATCCAACCAAAAACAGTAAATATA
1 GCATGAAATCCAACCAAAAACAACAAATATA
*
59079046 GCATGAAATCCAACCAAAAACAACAAATGTA
1 GCATGAAATCCAACCAAAAACAACAAATATA
59079077 GCAT
1 GCAT
59079081 AAAAAATACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.17
Consensus pattern (31 bp):
GCATGAAATCCAACCAAAAACAACAAATATA
Found at i:59079813 original size:13 final size:14
Alignment explanation
Indices: 59079787--59079815 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
59079777 ACTAATGACG
59079787 AATTAAACCATTAT
1 AATTAAACCATTAT
59079801 AATTAAA-CATTAT
1 AATTAAACCATTAT
59079814 AA
1 AA
59079816 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:59084950 original size:9 final size:9
Alignment explanation
Indices: 59084936--59085196 Score: 125
Period size: 9 Copynumber: 30.1 Consensus size: 9
59084926 TATGTATTAC
*
59084936 GTAAGTTAA
1 GTAAGTTAT
*
59084945 GTAAGTTTT
1 GTAAGTTAT
59084954 GTAAGTTAT
1 GTAAGTTAT
59084963 GTAAGTTAT
1 GTAAGTTAT
* *
59084972 GATATGATAT
1 G-TAAGTTAT
* *
59084982 -AAATTTAT
1 GTAAGTTAT
*
59084990 GTAAGGTAT
1 GTAAGTTAT
59084999 GTAAGTTAT
1 GTAAGTTAT
*
59085008 GTAAATTAT
1 GTAAGTTAT
* **
59085017 GATATGAAAT
1 G-TAAGTTAT
* *
59085027 AT-ATTTAT
1 GTAAGTTAT
*
59085035 GT-A-TTAC
1 GTAAGTTAT
*
59085042 GTAAGCTAT
1 GTAAGTTAT
59085051 GTAAGTTAT
1 GTAAGTTAT
* *
59085060 AT-ATTTAT
1 GTAAGTTAT
*
59085068 -TTA-TTAT
1 GTAAGTTAT
* *
59085075 TTAAGTTTT
1 GTAAGTTAT
59085084 GTAAGTTAT
1 GTAAGTTAT
59085093 GTAAGTTAT
1 GTAAGTTAT
*
59085102 GTAAATTAT
1 GTAAGTTAT
* **
59085111 GATATGAAAT
1 G-TAAGTTAT
* *
59085121 AT-ATTTAT
1 GTAAGTTAT
*
59085129 GT-A-TTAC
1 GTAAGTTAT
*
59085136 ATAAGTTAT
1 GTAAGTTAT
59085145 GTAAGTTAT
1 GTAAGTTAT
* *
59085154 AT-ATTTAT
1 GTAAGTTAT
59085162 GT-A-TTAT
1 GTAAGTTAT
*
59085169 GTAAGTTTT
1 GTAAGTTAT
59085178 GTAAGTTAT
1 GTAAGTTAT
59085187 GTAAGTTAT
1 GTAAGTTAT
59085196 G
1 G
59085197 ATATGATATA
Statistics
Matches: 185, Mismatches: 54, Indels: 26
0.70 0.20 0.10
Matches are distributed among these distances:
7 20 0.11
8 30 0.16
9 121 0.65
10 14 0.08
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.47
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:59085063 original size:33 final size:33
Alignment explanation
Indices: 59085025--59085186 Score: 147
Period size: 33 Copynumber: 5.1 Consensus size: 33
59085015 ATGATATGAA
*
59085025 ATATATTTATGTATTACGTAAGCTATGTAAGTT
1 ATATATTTATGTATTACGTAAGTTATGTAAGTT
* ** *
59085058 ATATATTTATTTATTATTTAAGTTTTGTAAGTT
1 ATATATTTATGTATTACGTAAGTTATGTAAGTT
* * * * **
59085091 ATGTA---A-G--TTATGTAAATTATGATATGAA
1 ATATATTTATGTATTACGTAAGTTATG-TAAGTT
*
59085119 ATATATTTATGTATTACATAAGTTATGTAAGTT
1 ATATATTTATGTATTACGTAAGTTATGTAAGTT
* *
59085152 ATATATTTATGTATTATGTAAGTTTTGTAAGTT
1 ATATATTTATGTATTACGTAAGTTATGTAAGTT
59085185 AT
1 AT
59085187 GTAAGTTATG
Statistics
Matches: 99, Mismatches: 23, Indels: 14
0.73 0.17 0.10
Matches are distributed among these distances:
27 11 0.11
28 7 0.07
30 1 0.01
31 1 0.01
32 1 0.01
33 67 0.68
34 11 0.11
ACGTcount: A:0.35, C:0.02, G:0.14, T:0.50
Consensus pattern (33 bp):
ATATATTTATGTATTACGTAAGTTATGTAAGTT
Found at i:59085109 original size:94 final size:94
Alignment explanation
Indices: 59085004--59085196 Score: 350
Period size: 94 Copynumber: 2.1 Consensus size: 94
59084994 GGTATGTAAG
* *
59085004 TTATGTAAATTATGATATGAAATATATTTATGTATTACGTAAGCTATGTAAGTTATATATTTATT
1 TTATGTAAATTATGATATGAAATATATTTATGTATTACATAAGCTATGTAAGTTATATATTTATG
*
59085069 TATTATTTAAGTTTTGTAAGTTATGTAAG
66 TATTATGTAAGTTTTGTAAGTTATGTAAG
*
59085098 TTATGTAAATTATGATATGAAATATATTTATGTATTACATAAGTTATGTAAGTTATATATTTATG
1 TTATGTAAATTATGATATGAAATATATTTATGTATTACATAAGCTATGTAAGTTATATATTTATG
59085163 TATTATGTAAGTTTTGTAAGTTATGTAAG
66 TATTATGTAAGTTTTGTAAGTTATGTAAG
59085192 TTATG
1 TTATG
59085197 ATATGATATA
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 95 1.00
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.49
Consensus pattern (94 bp):
TTATGTAAATTATGATATGAAATATATTTATGTATTACATAAGCTATGTAAGTTATATATTTATG
TATTATGTAAGTTTTGTAAGTTATGTAAG
Found at i:59087966 original size:30 final size:30
Alignment explanation
Indices: 59087930--59088089 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
59087920 GACAAGATTG
* * * * *
59087930 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
* *
59087960 GCACTAAGTGTGCGAGTTTG---ATTATACA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
59087988 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
59088017 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
59088047 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
59088076 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
59088090 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 23 0.19
29 48 0.40
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:59088058 original size:59 final size:57
Alignment explanation
Indices: 59087930--59088089 Score: 214
Period size: 59 Copynumber: 2.8 Consensus size: 57
59087920 GACAAGATTG
* * * * * *
59087930 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATACA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATACA
*
59087988 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATACA
59088047 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
59088090 GATTCACTAT
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 50 0.54
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATACA
Found at i:59095919 original size:30 final size:30
Alignment explanation
Indices: 59095883--59096042 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
59095873 GACAAGATTG
* * * * *
59095883 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
* *
59095913 GCACTAAGTGTGCGAGTTTG---ATTATACA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
59095941 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
59095970 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
59096000 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
59096029 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
59096043 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 23 0.19
29 48 0.40
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:59096011 original size:59 final size:57
Alignment explanation
Indices: 59095883--59096042 Score: 214
Period size: 59 Copynumber: 2.8 Consensus size: 57
59095873 GACAAGATTG
* * * * * *
59095883 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATACA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATACA
*
59095941 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATACA
59096000 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
59096043 GATTCACTAT
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 50 0.54
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATACA
Found at i:59100263 original size:31 final size:31
Alignment explanation
Indices: 59100202--59100263 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
59100192 ATTTTTAAAT
* * *
59100202 TTTGAAAAGTACAAAAGATAAAATTGATCAA
1 TTTGAAAAATACAAAAGATAAAACTAATCAA
*
59100233 TTTGAAAAATAC-AATGACTAAAACTAATCAA
1 TTTGAAAAATACAAAAGA-TAAAACTAATCAA
59100264 ATTAAAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
30 4 0.15
31 22 0.85
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.26
Consensus pattern (31 bp):
TTTGAAAAATACAAAAGATAAAACTAATCAA
Found at i:59100578 original size:93 final size:94
Alignment explanation
Indices: 59100426--59100596 Score: 229
Period size: 93 Copynumber: 1.8 Consensus size: 94
59100416 TTTTTTTGCA
* * ** * *
59100426 AAAAAACGCCGCTAATCCCCTAAATATCCAATTAAAATGACGTCGTTTTCGTTATACTATTTTGC
1 AAAAAACGCCGCTAATCCCCTAAATATCCAATTAAAACGACGACGTTTAAGTGATACTATTATGC
59100491 TTTTTTGCAGCGTTTTTTAAAAAAATGCC
66 TTTTTTGCAGCGTTTTTTAAAAAAATGCC
* *
59100520 AAAAAACGCCGCTACT-CCCTAAATTTCCAATTAAAACGACGACGTTTAAGATGA-ACTATTATG
1 AAAAAACGCCGCTAATCCCCTAAATATCCAATTAAAACGACGACGTTTAAG-TGATACTATTATG
* *
59100583 TTTTTTTGCGGCGT
65 CTTTTTTGCAGCGT
59100597 ATTTCTCCTC
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
93 49 0.74
94 17 0.26
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.34
Consensus pattern (94 bp):
AAAAAACGCCGCTAATCCCCTAAATATCCAATTAAAACGACGACGTTTAAGTGATACTATTATGC
TTTTTTGCAGCGTTTTTTAAAAAAATGCC
Found at i:59100802 original size:73 final size:74
Alignment explanation
Indices: 59100675--59100893 Score: 223
Period size: 73 Copynumber: 2.9 Consensus size: 74
59100665 TTTTTATAAG
* *
59100675 ACGCCGCTAATCCCCTAAATCTCCAATTAAAACAACGACGTTTAGGATAAACTATTATGTTTTTT
1 ACGCCGCTAATCCCCTAAATCTCCAATTAAAAC--CGTCGTTTACGATAAACTATTATGTTTTTT
59100740 GC-A-A-AAAA
64 GCTATATAAAA
* * *
59100748 ACGCCGCTAATCCCCTAAATCTCCAATTAAAACGGCGTCGTTTTCGTTATACTA-TATTGCTTTT
1 ACGCCGCTAATCCCCTAAATCTCCAATTAAAAC--CGTCGTTTACGATAAACTATTA-TG-TTTT
* *
59100812 TGCGGCGTTTATATCAAA
62 T--TGC---TATATAAAA
* *
59100830 ACGCCGCTAATCCCCTAAATCTCCTATTAAAA-CGTCGTTTACGAGAAACTATTATGTTTTTTGC
1 ACGCCGCTAATCCCCTAAATCTCCAATTAAAACCGTCGTTTACGATAAACTATTATGTTTTTTGC
59100894 GGCCTTTTTT
Statistics
Matches: 120, Mismatches: 15, Indels: 19
0.78 0.10 0.12
Matches are distributed among these distances:
72 2 0.02
73 49 0.41
74 5 0.04
76 4 0.03
78 5 0.04
79 17 0.14
80 3 0.03
81 1 0.01
82 34 0.28
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.33
Consensus pattern (74 bp):
ACGCCGCTAATCCCCTAAATCTCCAATTAAAACCGTCGTTTACGATAAACTATTATGTTTTTTGC
TATATAAAA
Found at i:59101337 original size:7 final size:7
Alignment explanation
Indices: 59101321--59101453 Score: 83
Period size: 7 Copynumber: 18.7 Consensus size: 7
59101311 CCCTATCCCA
*
59101321 TAAACAC
1 TAAACCC
*
59101328 TAAACTC
1 TAAACCC
59101335 TAAACCC
1 TAAACCC
59101342 TAAACCC
1 TAAACCC
*
59101349 TAAATCC
1 TAAACCC
*
59101356 TTAACCC
1 TAAACCC
*
59101363 TTAACCC
1 TAAACCC
59101370 GT-AACCC
1 -TAAACCC
* *
59101377 TTAGACTC
1 -TAAACCC
*
59101385 TAAACCA
1 TAAACCC
59101392 TAAACCTC
1 TAAACC-C
59101400 T-AACCC
1 TAAACCC
*
59101406 TTAACCC
1 TAAACCC
*
59101413 TTAACCCC
1 -TAAACCC
*
59101421 TAACCCC
1 TAAACCC
*
59101428 TAACCCC
1 TAAACCC
*
59101435 TAACCCC
1 TAAACCC
59101442 T-AACCC
1 TAAACCC
59101448 TTAAAC
1 -TAAAC
59101454 TCCAACTATT
Statistics
Matches: 104, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
6 6 0.06
7 85 0.82
8 13 0.12
ACGTcount: A:0.36, C:0.41, G:0.02, T:0.22
Consensus pattern (7 bp):
TAAACCC
Found at i:59101351 original size:50 final size:49
Alignment explanation
Indices: 59101291--59101424 Score: 126
Period size: 50 Copynumber: 2.7 Consensus size: 49
59101281 ACTAATTAAT
* * *
59101291 CTAAAACCTAAGCCTCTAACCCCTATCCCATAAACAC-TAAACTCTAAACC
1 CTAAACCCTAACCCT-TAACCCCTAACCCAT-AACACTTAAACTCTAAACC
* * * * *
59101341 CTAAACCCTAAATCCTTAACCCTTAACCCGTAACCCTTAGACTCTAAACC
1 CTAAACCCT-AACCCTTAACCCCTAACCCATAACACTTAAACTCTAAACC
* * *
59101391 ATAAACCTCTAACCCTTAACCCTTAACCCCTAAC
1 CTAAACC-CTAACCCTTAACCCCTAACCCATAAC
59101425 CCCTAACCCC
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
49 4 0.06
50 60 0.85
51 7 0.10
ACGTcount: A:0.37, C:0.39, G:0.02, T:0.22
Consensus pattern (49 bp):
CTAAACCCTAACCCTTAACCCCTAACCCATAACACTTAAACTCTAAACC
Found at i:59101361 original size:21 final size:21
Alignment explanation
Indices: 59101321--59101453 Score: 92
Period size: 21 Copynumber: 6.2 Consensus size: 21
59101311 CCCTATCCCA
* * *
59101321 TAAACACTAAACTCTAAACCC
1 TAAACCCTAAACCCTTAACCC
*
59101342 TAAACCCTAAATCCTTAACCC
1 TAAACCCTAAACCCTTAACCC
* *
59101363 TTAACCCGT-AACCCTTAGACTC
1 TAAACCC-TAAACCCTTA-ACCC
*
59101385 TAAACCATAAA-CCTCTAACCC
1 TAAACCCTAAACCCT-TAACCC
* * *
59101406 TTAACCCTTAACCCCTAACCCC
1 TAAACCCTAAACCCTTAA-CCC
* *
59101428 TAACCCCT-AACCCCTAACCC
1 TAAACCCTAAACCCTTAACCC
59101448 TTAAAC
1 -TAAAC
59101454 TCCAACTATT
Statistics
Matches: 88, Mismatches: 17, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
20 3 0.03
21 61 0.69
22 24 0.27
ACGTcount: A:0.36, C:0.41, G:0.02, T:0.22
Consensus pattern (21 bp):
TAAACCCTAAACCCTTAACCC
Found at i:59101425 original size:50 final size:50
Alignment explanation
Indices: 59101331--59101426 Score: 149
Period size: 50 Copynumber: 1.9 Consensus size: 50
59101321 TAAACACTAA
* * *
59101331 ACTCTAAACCCTAAACCCTAAATCCTTAACCCTTAACCCGTAACCCTTAG
1 ACTCTAAACCATAAACCCTAAACCCTTAACCCTTAACCCCTAACCCTTAG
59101381 ACTCTAAACCATAAACCTCT-AACCCTTAACCCTTAACCCCTAACCC
1 ACTCTAAACCATAAACC-CTAAACCCTTAACCCTTAACCCCTAACCC
59101427 CTAACCCCTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
50 40 0.95
51 2 0.05
ACGTcount: A:0.34, C:0.41, G:0.02, T:0.23
Consensus pattern (50 bp):
ACTCTAAACCATAAACCCTAAACCCTTAACCCTTAACCCCTAACCCTTAG
Found at i:59101552 original size:14 final size:14
Alignment explanation
Indices: 59101528--59101572 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
59101518 TCTTAACCCT
*
59101528 TAAACCCTAAACCA
1 TAAATCCTAAACCA
*
59101542 TATATCCTAAACCA
1 TAAATCCTAAACCA
*
59101556 TAAATCCTAAACTA
1 TAAATCCTAAACCA
59101570 TAA
1 TAA
59101573 TCATAATTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAATCCTAAACCA
Found at i:59101600 original size:14 final size:14
Alignment explanation
Indices: 59101581--59101627 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
59101571 AATCATAATT
59101581 AATTCAATATTTTA
1 AATTCAATATTTTA
*
59101595 AATTCAATA--CT-
1 AATTCAATATTTTA
59101606 -ATTCAATATTTTA
1 AATTCAATATTTTA
59101619 AATTCAATA
1 AATTCAATA
59101628 CTATCTCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
10 8 0.30
12 2 0.07
14 17 0.63
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.45
Consensus pattern (14 bp):
AATTCAATATTTTA
Found at i:59101614 original size:24 final size:24
Alignment explanation
Indices: 59101582--59101631 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
59101572 ATCATAATTA
59101582 ATTCAATATTTTAAATTCAATACT
1 ATTCAATATTTTAAATTCAATACT
59101606 ATTCAATATTTTAAATTCAATACT
1 ATTCAATATTTTAAATTCAATACT
59101630 AT
1 AT
59101632 CTCTTTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.46
Consensus pattern (24 bp):
ATTCAATATTTTAAATTCAATACT
Found at i:59102424 original size:42 final size:42
Alignment explanation
Indices: 59102324--59102470 Score: 163
Period size: 42 Copynumber: 3.5 Consensus size: 42
59102314 TACCAATGTC
* * *
59102324 ATATCTCAGATATGGTCATACATGTAATCTCATATCGATGCCA
1 ATATCCCAGATATGGTCTTACA-GAAATCTCATATCGATGCCA
* * *
59102367 ATAGCCTAGCTATGGTCTTACACGAAATCTCATATCGATG-CA
1 ATATCCCAGATATGGTCTTACA-GAAATCTCATATCGATGCCA
* * * *
59102409 ATATCCCAGATATGGTTTTACATAAAGTCTCATATAGATGTC-
1 ATATCCCAGATATGGTCTTACAGAAA-TCTCATATCGATGCCA
59102451 ATATCCCAGATATGGTCTTA
1 ATATCCCAGATATGGTCTTA
59102471 ACATAGTCTT
Statistics
Matches: 88, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
41 3 0.03
42 51 0.58
43 34 0.39
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (42 bp):
ATATCCCAGATATGGTCTTACAGAAATCTCATATCGATGCCA
Found at i:59104985 original size:13 final size:13
Alignment explanation
Indices: 59104967--59104992 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
59104957 CATGTTTCTA
59104967 AAAACCATTTGTT
1 AAAACCATTTGTT
59104980 AAAACCATTTGTT
1 AAAACCATTTGTT
59104993 TGCGTGAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
AAAACCATTTGTT
Found at i:59105376 original size:13 final size:14
Alignment explanation
Indices: 59105344--59105381 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
59105334 ATAGATACAG
59105344 ATAT-CAGAATCAA
1 ATATACAGAATCAA
*
59105357 ATGTACAGAA-CAA
1 ATATACAGAATCAA
59105370 ATATACAGAATC
1 ATATACAGAATC
59105382 CTACCCCCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 15 0.71
14 6 0.29
ACGTcount: A:0.53, C:0.16, G:0.11, T:0.21
Consensus pattern (14 bp):
ATATACAGAATCAA
Found at i:59107000 original size:20 final size:20
Alignment explanation
Indices: 59106977--59107020 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
59106967 ATATTAATGG
59106977 TCAACCATTAAAATTAACGA
1 TCAACCATTAAAATTAACGA
*
59106997 TCAACCATTAAAATTAACGG
1 TCAACCATTAAAATTAACGA
59107017 TCAA
1 TCAA
59107021 AGGGCCTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.48, C:0.20, G:0.07, T:0.25
Consensus pattern (20 bp):
TCAACCATTAAAATTAACGA
Found at i:59110603 original size:33 final size:33
Alignment explanation
Indices: 59110561--59110631 Score: 142
Period size: 33 Copynumber: 2.2 Consensus size: 33
59110551 AAGCTTTAAC
59110561 GTTTTACAGGTTTCTATGGTGCACCTTACGCGA
1 GTTTTACAGGTTTCTATGGTGCACCTTACGCGA
59110594 GTTTTACAGGTTTCTATGGTGCACCTTACGCGA
1 GTTTTACAGGTTTCTATGGTGCACCTTACGCGA
59110627 GTTTT
1 GTTTT
59110632 CAAGAAGAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.17, C:0.20, G:0.24, T:0.39
Consensus pattern (33 bp):
GTTTTACAGGTTTCTATGGTGCACCTTACGCGA
Found at i:59114863 original size:25 final size:24
Alignment explanation
Indices: 59114798--59114864 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 24
59114788 GTTGATATAA
* *
59114798 ATTTTGATTTTTGAAAATATTTTAT
1 ATTTTTATTTTT-AAAATATTTCAT
**
59114823 ATTTTTATTTAAAAAATAGGTTTCAT
1 ATTTTTATTTTTAAAATA--TTTCAT
59114849 -TTTTTATTTTTAAAAT
1 ATTTTTATTTTTAAAAT
59114865 TAGAAAACAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
24 6 0.18
25 23 0.68
26 5 0.15
ACGTcount: A:0.34, C:0.01, G:0.06, T:0.58
Consensus pattern (24 bp):
ATTTTTATTTTTAAAATATTTCAT
Found at i:59119838 original size:40 final size:40
Alignment explanation
Indices: 59119783--59119950 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
59119773 TGAATGATAC
* *
59119783 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
59119823 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
59119863 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * * *
59119903 CCGGGTTAAGACCTGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
59119943 CC-GGCTAA
1 CCGGGCTAA
59119951 ATTCCGAAGA
Statistics
Matches: 105, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
39 6 0.06
40 97 0.92
41 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:59128127 original size:40 final size:40
Alignment explanation
Indices: 59128072--59128239 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
59128062 TGAATGATAC
* *
59128072 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
59128112 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
59128152 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
59128192 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
59128232 CC-GGCTAA
1 CCGGGCTAA
59128240 ATTCCGAAGA
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 6 0.06
40 98 0.92
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:59139145 original size:43 final size:43
Alignment explanation
Indices: 59139084--59139555 Score: 260
Period size: 43 Copynumber: 10.7 Consensus size: 43
59139074 TATCATCAGC
** *
59139084 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAAACCAGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAATTATCAGAT
* * * * *
59139127 CTTATCTTCACTGAGCAGGAGTGAAGCAGATCGAATTTTGATGAAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAG-GCTAATTATCA-G-AT
* * * * * * *
59139173 CTTATCTCCAC-GTA-CCGGCGATGGAGCAGATTCCAATCATCAG-C
1 CTTATCTTCACTG-AGCAGGAG-TGGAGCAG--GCTAATTATCAGAT
** * *
59139217 CTTATCTTCACTGAGCAGGAGTGGAATAGGCTAAATACCAGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAATTATCAGAT
* * * * *
59139260 CTTATCTTCATTGAGCAGGAGTGAAGCAGGTCGAATTTTGATGAAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGG-CTAATTATCA-G-AT
* * * * * * *
59139306 CTTATCTCCAC-GTA-CCGGCGATGGAGCAGATTCCAATCATCAG-C
1 CTTATCTTCACTG-AGCAGGAG-TGGAGCAG--GCTAATTATCAGAT
* *
59139350 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAATTATCAGAT
* * * * *
59139393 CTTATCTTCACTGAGCAGAAGTGAAGCAGGTCGAATTTTGATGAAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGG-CTAATTATCA-G-AT
* * * * * *
59139439 CTTATCTCCAC-GTACCAGCGA-TGGAGCAGATTCCAATCATCAG-C
1 CTTATCTTCACTG-AGCAG-GAGTGGAGCAG--GCTAATTATCAGAT
* * *
59139483 CTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATACCAGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAATTATCAGAT
*
59139526 CTTATCTTCACTGAGCAGGAGTGAAGCAGG
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGG
59139556 TCGAATTTTG
Statistics
Matches: 314, Mismatches: 86, Indels: 58
0.69 0.19 0.13
Matches are distributed among these distances:
42 21 0.07
43 112 0.36
44 71 0.23
45 25 0.08
46 65 0.21
47 20 0.06
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (43 bp):
CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAATTATCAGAT
Found at i:59139257 original size:133 final size:133
Alignment explanation
Indices: 59139075--59139650 Score: 1046
Period size: 133 Copynumber: 4.3 Consensus size: 133
59139065 GATTACAGAT
* *
59139075 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAAACCAGATCTTATCTTCACTG
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATACCAGATCTTATCTTCACTG
*
59139140 AGCAGGAGTGAAGCAGATCGAATTTTGATGAATCTTATCTCCACGTACCGGCGATGGAGCAGATT
66 AGCAGGAGTGAAGCAGGTCGAATTTTGATGAATCTTATCTCCACGTACCGGCGATGGAGCAGATT
59139205 CCA
131 CCA
* *
59139208 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAATAGGCTAAATACCAGATCTTATCTTCATTG
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATACCAGATCTTATCTTCACTG
59139273 AGCAGGAGTGAAGCAGGTCGAATTTTGATGAATCTTATCTCCACGTACCGGCGATGGAGCAGATT
66 AGCAGGAGTGAAGCAGGTCGAATTTTGATGAATCTTATCTCCACGTACCGGCGATGGAGCAGATT
59139338 CCA
131 CCA
*
59139341 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAGATCTTATCTTCACTG
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATACCAGATCTTATCTTCACTG
* *
59139406 AGCAGAAGTGAAGCAGGTCGAATTTTGATGAATCTTATCTCCACGTACCAGCGATGGAGCAGATT
66 AGCAGGAGTGAAGCAGGTCGAATTTTGATGAATCTTATCTCCACGTACCGGCGATGGAGCAGATT
59139471 CCA
131 CCA
59139474 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATACCAGATCTTATCTTCACTG
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATACCAGATCTTATCTTCACTG
59139539 AGCAGGAGTGAAGCAGGTCGAATTTTGATGAATCTTATCTCCACGTACCGGCGATGGAGCAGATT
66 AGCAGGAGTGAAGCAGGTCGAATTTTGATGAATCTTATCTCCACGTACCGGCGATGGAGCAGATT
59139604 CCA
131 CCA
* *
59139607 ATCATCAGCCTTATCTTCACTAAGCAGTAG-GGTAACAGGCTAAA
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGG-AACAGGCTAAA
59139651 GTCTACAGAT
Statistics
Matches: 427, Mismatches: 15, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
132 2 0.00
133 425 1.00
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (133 bp):
ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATACCAGATCTTATCTTCACTG
AGCAGGAGTGAAGCAGGTCGAATTTTGATGAATCTTATCTCCACGTACCGGCGATGGAGCAGATT
CCA
Found at i:59142537 original size:14 final size:14
Alignment explanation
Indices: 59142520--59142556 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
59142510 GGGTTTCGAC
*
59142520 ATTTATATTTTTTA
1 ATTTTTATTTTTTA
*
59142534 ATTTTTAATTTTTA
1 ATTTTTATTTTTTA
59142548 ATTTTTATT
1 ATTTTTATT
59142557 ATATCTTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
ATTTTTATTTTTTA
Found at i:59142540 original size:7 final size:7
Alignment explanation
Indices: 59142528--59142554 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
59142518 ACATTTATAT
59142528 TTTTTAA
1 TTTTTAA
59142535 TTTTTAA
1 TTTTTAA
59142542 TTTTTAA
1 TTTTTAA
59142549 TTTTTA
1 TTTTTA
59142555 TTATATCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTTAA
Found at i:59143051 original size:21 final size:21
Alignment explanation
Indices: 59143025--59143077 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
59143015 AACAGCGGTG
*
59143025 GCGGTGAGATTGGTTACTGTA
1 GCGGTGAGATTGGATACTGTA
59143046 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTGGATACTGTA
59143067 GCGGTGAGATT
1 GCGGTGAGATT
59143078 AGAAACAGCG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.21, C:0.09, G:0.40, T:0.30
Consensus pattern (21 bp):
GCGGTGAGATTGGATACTGTA
Found at i:59143464 original size:2 final size:2
Alignment explanation
Indices: 59143457--59143489 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
59143447 ATTTTTAATA
59143457 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
59143490 GTAACATAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:59145105 original size:32 final size:32
Alignment explanation
Indices: 59145066--59145225 Score: 248
Period size: 32 Copynumber: 5.0 Consensus size: 32
59145056 CATAAAAAAT
* *
59145066 ATCATACATTAGGTTTACCTATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
* *
59145098 ATCATACATTAGTTTTGCATATAAAAAAGTAT
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
* *
59145130 ATCATACATTAGGTTCACATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
* *
59145162 ATCATACATTAGTTTTGCATATGAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
59145194 ATCATACATTAGTTTTACATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
59145226 CATAGTTATA
Statistics
Matches: 114, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 114 1.00
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (32 bp):
ATCATACATTAGTTTTACATATAAAAAAGTAG
Found at i:59145135 original size:64 final size:64
Alignment explanation
Indices: 59145064--59145225 Score: 279
Period size: 64 Copynumber: 2.5 Consensus size: 64
59145054 AACATAAAAA
*
59145064 ATATCATACATTAGGTTTACCTATAAAAAAGTAGATCATACATTAGTTTTGCATATAAAAAAGT
1 ATATCATACATTAGGTTTACATATAAAAAAGTAGATCATACATTAGTTTTGCATATAAAAAAGT
* *
59145128 ATATCATACATTAGGTTCACATATAAAAAAGTAGATCATACATTAGTTTTGCATATGAAAAAGT
1 ATATCATACATTAGGTTTACATATAAAAAAGTAGATCATACATTAGTTTTGCATATAAAAAAGT
* *
59145192 AGATCATACATTAGTTTTACATATAAAAAAGTAG
1 ATATCATACATTAGGTTTACATATAAAAAAGTAG
59145226 CATAGTTATA
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 92 1.00
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.33
Consensus pattern (64 bp):
ATATCATACATTAGGTTTACATATAAAAAAGTAGATCATACATTAGTTTTGCATATAAAAAAGT
Found at i:59149894 original size:37 final size:37
Alignment explanation
Indices: 59149853--59149927 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
59149843 CACTGCACTG
59149853 TGCTGTTGAACCAAATAGCATACTAGTGAGTTTACTA
1 TGCTGTTGAACCAAATAGCATACTAGTGAGTTTACTA
*
59149890 TGCTGTTGAACCAAGTAGCATACTAGTGAGTTTACTA
1 TGCTGTTGAACCAAATAGCATACTAGTGAGTTTACTA
59149927 T
1 T
59149928 CCCTCACTGC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (37 bp):
TGCTGTTGAACCAAATAGCATACTAGTGAGTTTACTA
Found at i:59150512 original size:15 final size:15
Alignment explanation
Indices: 59150492--59150523 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
59150482 TCGCACATTA
*
59150492 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
59150507 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
59150522 TT
1 TT
59150524 TACATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:59153585 original size:29 final size:29
Alignment explanation
Indices: 59153523--59153625 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
59153513 GTGACGAGAT
* * *
59153523 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
59153552 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
59153581 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
59153610 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
59153626 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:59161603 original size:29 final size:29
Alignment explanation
Indices: 59161541--59161643 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
59161531 GTGACGAGAT
* * *
59161541 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
59161570 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
59161599 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
59161628 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
59161644 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:59163234 original size:25 final size:25
Alignment explanation
Indices: 59163200--59163254 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
59163190 TTAGTGCTTA
* *
59163200 AAACCAGTCGGGTCGTCTTTGACCC
1 AAACCAGTCGGGTCATCATTGACCC
*
59163225 AAACCAGTCGGGTCATCATTGACTC
1 AAACCAGTCGGGTCATCATTGACCC
59163250 AAACC
1 AAACC
59163255 GAACTAGCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.22
Consensus pattern (25 bp):
AAACCAGTCGGGTCATCATTGACCC
Found at i:59167025 original size:25 final size:28
Alignment explanation
Indices: 59166973--59167026 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 28
59166963 TTATCGCTAT
* *
59166973 TATGTGTTGAATGATCGATTTTGCATAA
1 TATGTGTTGAATGATCGATTATGAATAA
59167001 TATG-GTTGAAT-AT-GATTATGAATAA
1 TATGTGTTGAATGATCGATTATGAATAA
59167026 T
1 T
59167027 GCATGATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 11 0.46
26 2 0.08
27 7 0.29
28 4 0.17
ACGTcount: A:0.33, C:0.04, G:0.20, T:0.43
Consensus pattern (28 bp):
TATGTGTTGAATGATCGATTATGAATAA
Found at i:59167174 original size:48 final size:48
Alignment explanation
Indices: 59167117--59167435 Score: 290
Period size: 48 Copynumber: 6.6 Consensus size: 48
59167107 TGTGTGCTAA
*
59167117 TGTAAGACCATGTTTGGGACATGGCATCGGCCACGATATGAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAG
* * * ** * *
59167165 TGTAAGACCATGTTTAGAACATGGCATCGGTAATG-TAATGAAAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCACGAT-ATGAGAGCCAG
* * *
59167213 TGTAAGACCACGTCTGGGACATGGCATTGGCCAC-ATTATGAGAGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCACGA-TATGAGAGCCAG
* * * * *
59167261 TGTAAGACCATGTCTAGGACATGGCATCGG-TATTGATATGTA-CGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCA-CGATATG-AGAGCCAG
* * **
59167309 TGTAAGACCATGTCTGGGACATGGCATCGG-CATTGAGACT-AGAGAAAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCA-CGATA-TGAGAGCCAG
** * ** *
59167357 TGTAAGACCATGTCTGGGACATGGCATCTACCTCGACGTGTGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAG
* *
59167405 TGTAAGACCATGTTTGGAACATGGCATCGGC
1 TGTAAGACCATGTCTGGGACATGGCATCGGC
59167436 AATTCACCCT
Statistics
Matches: 218, Mismatches: 43, Indels: 20
0.78 0.15 0.07
Matches are distributed among these distances:
47 4 0.02
48 209 0.96
49 5 0.02
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAG
Found at i:59167283 original size:96 final size:96
Alignment explanation
Indices: 59167117--59167435 Score: 335
Period size: 96 Copynumber: 3.3 Consensus size: 96
59167107 TGTGTGCTAA
* *
59167117 TGTAAGACCATGTTTGGGACATGGCATCGGCCACGATATGAGAGCCAGTGTAAGACCATGTTTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGTGTAAGACCATGTCTAG
59167182 AACATGGCATCGGTAATG-TAATGAAAGCCAG
66 AACATGGCATCGGTAATGAT-ATGAAAGCCAG
* * *
59167213 TGTAAGACCACGTCTGGGACATGGCATTGGCCAC-ATTATGAGAGTCAGTGTAAGACCATGTCTA
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCACGA-TATGAGAGCCAGTGTAAGACCATGTCTA
* * * * *
59167277 GGACATGGCATCGGTATTGATATGTACGCTAG
65 GAACATGGCATCGGTAATGATATGAAAGCCAG
* * **
59167309 TGTAAGACCATGTCTGGGACATGGCATCGG-CATTGAGACT-AGAGAAAGTGTAAGACCATGTCT
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCA-CGATA-TGAGAGCCAGTGTAAGACCATGTCT
* * * ** **
59167372 GGGACATGGCATC--TACCTCGACGTGTGAGCCAG
64 AGAACATGGCATCGGTA-AT-GATATGAAAGCCAG
* *
59167405 TGTAAGACCATGTTTGGAACATGGCATCGGC
1 TGTAAGACCATGTCTGGGACATGGCATCGGC
59167436 AATTCACCCT
Statistics
Matches: 190, Mismatches: 25, Indels: 15
0.83 0.11 0.07
Matches are distributed among these distances:
94 2 0.01
95 4 0.02
96 181 0.95
97 3 0.02
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (96 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGTGTAAGACCATGTCTAG
AACATGGCATCGGTAATGATATGAAAGCCAG
Found at i:59170573 original size:13 final size:13
Alignment explanation
Indices: 59170555--59170617 Score: 65
Period size: 13 Copynumber: 4.8 Consensus size: 13
59170545 TCTTCATTGT
59170555 TTTTGAAAAGTAC
1 TTTTGAAAAGTAC
* *
59170568 TTTTGAAAAAT-G
1 TTTTGAAAAGTAC
*
59170580 TTGTGGAAAAGTAC
1 TT-TTGAAAAGTAC
*
59170594 TTTTGAGAAGTAC
1 TTTTGAAAAGTAC
*
59170607 TTTTGAGAAGT
1 TTTTGAAAAGT
59170618 GCTTAAGAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
12 2 0.05
13 37 0.90
14 2 0.05
ACGTcount: A:0.35, C:0.05, G:0.22, T:0.38
Consensus pattern (13 bp):
TTTTGAAAAGTAC
Found at i:59182708 original size:21 final size:21
Alignment explanation
Indices: 59182658--59182712 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
59182648 GCTGTTACAT
* *
59182658 TTTTCATTAGTTTTAGCTAGT
1 TTTTCATTCGTTTTAGCTAGG
59182679 TTTTCATTCGTTTTAGCTAGG
1 TTTTCATTCGTTTTAGCTAGG
59182700 TTTTCATTC-TTTT
1 TTTTCATTCGTTTT
59182713 CATCTTCTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 4 0.12
21 28 0.88
ACGTcount: A:0.15, C:0.13, G:0.13, T:0.60
Consensus pattern (21 bp):
TTTTCATTCGTTTTAGCTAGG
Found at i:59184993 original size:22 final size:22
Alignment explanation
Indices: 59184951--59184993 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
59184941 CAAGGGCGTG
**
59184951 TGACTCAGTCAAGTATGACACA
1 TGACTCAGTCAAGTACAACACA
*
59184973 TGACTCAGTCAAGTGCAACAC
1 TGACTCAGTCAAGTACAACAC
59184994 GACCGTGTGT
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:0.35, C:0.26, G:0.19, T:0.21
Consensus pattern (22 bp):
TGACTCAGTCAAGTACAACACA
Found at i:59204399 original size:119 final size:119
Alignment explanation
Indices: 59204183--59204402 Score: 261
Period size: 119 Copynumber: 1.8 Consensus size: 119
59204173 GCCGTGTCCC
*
59204183 AGACAGGTCTTACACTGACACATATCAAGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCT
1 AGACAGGTCTTACACTGACACATATCAAGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCT
* * * *
59204248 TTCACGATGTGGCTGATGCATCTCCTAGACATGTCTGTGTCGACACCATATCCT
66 TTCACGATCTGGCAGATGCATCTCCGAAACATGTCTGTGTCGACACCATATCCT
* * * *
59204302 AGACATGGTCTTACACTGACACATCTCGTAGCCGATG-CATGTCCTAGACAT-GTCTTACACTGG
1 AGACA-GGTCTTACACTGACACATATC-AAGCCGATGCCATGTCCCAGACATGGTCTTACACTAG
* *
59204365 C-TT-ACG-TCTCAAGGCAGATGCATGTTCGAAACATGTCT
64 CTTTCACGATCT---GGCAGATGCATCTCCGAAACATGTCT
59204403 TACACTAGCA
Statistics
Matches: 85, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
116 2 0.02
117 3 0.04
118 2 0.02
119 38 0.45
120 33 0.39
121 7 0.08
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (119 bp):
AGACAGGTCTTACACTGACACATATCAAGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCT
TTCACGATCTGGCAGATGCATCTCCGAAACATGTCTGTGTCGACACCATATCCT
Found at i:59209176 original size:50 final size:47
Alignment explanation
Indices: 59209064--59209187 Score: 139
Period size: 50 Copynumber: 2.6 Consensus size: 47
59209054 TATTATGAAA
*
59209064 GGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCTACAAGATGT
1 GGCTAGTGTAAGACCATGTCTAGGACATGGCATCGACTACAAGATGT
* * *
59209109 GTC-AGTGTAAGACCATGTCTAGGACATGGCATCGAC-ACGGATATGT
1 GGCTAGTGTAAGACCATGTCTAGGACATGGCATCGACTAC-AAGATGT
*
59209155 GAGAGCTAGTGTAAGACCATGTCTGGGACATGG
1 --G-GCTAGTGTAAGACCATGTCTAGGACATGG
59209188 TGTCGGCCTC
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
44 9 0.14
45 18 0.27
46 12 0.18
48 1 0.02
49 1 0.02
50 25 0.38
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (47 bp):
GGCTAGTGTAAGACCATGTCTAGGACATGGCATCGACTACAAGATGT
Found at i:59215804 original size:24 final size:24
Alignment explanation
Indices: 59215772--59215820 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
59215762 TACAGATCAA
59215772 AATTTTCTATAGAACTCAACACCT
1 AATTTTCTATAGAACTCAACACCT
*
59215796 AATTTTCTATAGAATTCAACACCT
1 AATTTTCTATAGAACTCAACACCT
59215820 A
1 A
59215821 TGAATATCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.39, C:0.22, G:0.04, T:0.35
Consensus pattern (24 bp):
AATTTTCTATAGAACTCAACACCT
Found at i:59220840 original size:3 final size:3
Alignment explanation
Indices: 59220832--59220856 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
59220822 AGAAAAACAC
59220832 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
59220857 CCAAAAACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:59223898 original size:21 final size:22
Alignment explanation
Indices: 59223872--59223912 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
59223862 GACTAGCCAC
*
59223872 AGGGGC-ACACGCCGGTGTGGG
1 AGGGGCAACACGCCCGTGTGGG
59223893 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACGCCCGTGTG
59223913 ACCAATTCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.17, C:0.27, G:0.46, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGG
Found at i:59225204 original size:46 final size:46
Alignment explanation
Indices: 59225107--59225277 Score: 168
Period size: 46 Copynumber: 3.7 Consensus size: 46
59225097 AACTCGTAGT
* * * * * * *
59225107 CGATGCATGTCTCAGACATGTCTTACATTGGCTT-ACGTCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAG-TTCTCGTATCAATGC
*
59225153 TGATGCATGTCCCAGACATGTCTTACACTAGTTCTCGTATCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGTTCTCGTATCAATGC
* * *
59225199 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCGTA--ATGTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGTTCTCGTATCA-AT-GC
*
59225247 CGATGCATGTCCCAAACATGTCTTACACTAG
1 CGATGCATGTCCCAGACATGTCTTACACTAG
59225278 CTCACAATAA
Statistics
Matches: 106, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
45 2 0.02
46 51 0.48
47 28 0.26
48 25 0.24
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.29
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGTTCTCGTATCAATGC
Done.