Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 25 of 208
Found at i:9669203 original size:96 final size:96
Alignment explanation
Indices: 9669036--9669247 Score: 318
Period size: 96 Copynumber: 2.2 Consensus size: 96
9669026 CCTGATCAGT
* * * * * *
9669036 AATCAGTAACGGTAGCAGTAACAGTAACAGTATTCAATACACAATGTGATGAATCTGTAACAGTA
1 AATCGGTAACAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGATGAATCGGTAACAGTA
* *
9669101 ACGGTAACAGTATTTGACACACAAAGTATCG
66 ACGGTAACAGTATTCGACACACAAAGTACCG
*
9669132 AATCGGTAACAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTG-TCGAATCGGTAACAGT
1 AATCGGTAACAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGAT-GAATCGGTAACAGT
*
9669196 AACGGTAACAGTATTCGACACACAAAGTGCCG
65 AACGGTAACAGTATTCGACACACAAAGTACCG
9669228 AATCGGTAACAGTAACAGTA
1 AATCGGTAACAGTAACAGTA
9669248 GTCGGCACAT
Statistics
Matches: 105, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
95 1 0.01
96 104 0.99
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.21
Consensus pattern (96 bp):
AATCGGTAACAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGATGAATCGGTAACAGTA
ACGGTAACAGTATTCGACACACAAAGTACCG
Found at i:9683729 original size:11 final size:11
Alignment explanation
Indices: 9683713--9683738 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
9683703 TAAAGCAAGG
9683713 TTTTTTTTTCT
1 TTTTTTTTTCT
9683724 TTTTTTTTTCT
1 TTTTTTTTTCT
9683735 TTTT
1 TTTT
9683739 CTGGATATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTTTTCT
Found at i:9687585 original size:23 final size:19
Alignment explanation
Indices: 9687536--9687573 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
9687526 ACAGATTTCA
9687536 TTCATGGAAATCTTTATTT
1 TTCATGGAAATCTTTATTT
9687555 TTCATGGAAATCTTTATTT
1 TTCATGGAAATCTTTATTT
9687574 ACTTCTAGTG
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:0.26, C:0.11, G:0.11, T:0.53
Consensus pattern (19 bp):
TTCATGGAAATCTTTATTT
Found at i:9688816 original size:13 final size:13
Alignment explanation
Indices: 9688798--9688823 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9688788 ATCAAAGACT
9688798 ACACTGATTAGAA
1 ACACTGATTAGAA
9688811 ACACTGATTAGAA
1 ACACTGATTAGAA
9688824 CACCATTAAC
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:0.46, C:0.15, G:0.15, T:0.23
Consensus pattern (13 bp):
ACACTGATTAGAA
Found at i:9692745 original size:19 final size:19
Alignment explanation
Indices: 9692721--9692758 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
9692711 ATGAAAAAAA
9692721 TTTAAATTTAAAATTTTAT
1 TTTAAATTTAAAATTTTAT
*
9692740 TTTAAATTTAAATTTTTAT
1 TTTAAATTTAAAATTTTAT
9692759 GTATAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTAAATTTAAAATTTTAT
Found at i:9692755 original size:13 final size:13
Alignment explanation
Indices: 9692718--9692755 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
9692708 TATATGAAAA
*
9692718 AAATTTAAATTTA
1 AAATTTAAATTTT
*
9692731 AAATTT-TATTTT
1 AAATTTAAATTTT
9692743 AAATTTAAATTTT
1 AAATTTAAATTTT
9692756 TATGTATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
AAATTTAAATTTT
Found at i:9692766 original size:19 final size:19
Alignment explanation
Indices: 9692723--9692764 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
9692713 GAAAAAAATT
*
9692723 TAAATTTAAAATTTTATTT
1 TAAATTTAAAATTTTATTA
*
9692742 TAAATTTAAATTTTTATGTA
1 TAAATTTAAAATTTTAT-TA
9692762 TAA
1 TAA
9692765 TTATATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TAAATTTAAAATTTTATTA
Found at i:9713242 original size:16 final size:16
Alignment explanation
Indices: 9713209--9713242 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9713199 TAGTAATACT
*
9713209 AATAATTTGACTAAAA
1 AATAATTTGACCAAAA
9713225 AATAATTTGACCAGAAA
1 AATAATTTGACCA-AAA
9713242 A
1 A
9713243 GGGAAAACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.56, C:0.09, G:0.09, T:0.26
Consensus pattern (16 bp):
AATAATTTGACCAAAA
Found at i:9715767 original size:44 final size:44
Alignment explanation
Indices: 9715701--9715791 Score: 137
Period size: 44 Copynumber: 2.1 Consensus size: 44
9715691 ACCAACAAGC
*
9715701 AAATAATAATATAATAAAAAGGAAAAGGACAAAAAAGGAAAGAG
1 AAATAATAATATAATAAAAAGGAAAAAGACAAAAAAGGAAAGAG
* * * *
9715745 AAATAATAATATAATAAGAAGGAAAAAGATAAAAATGTAAAGAG
1 AAATAATAATATAATAAAAAGGAAAAAGACAAAAAAGGAAAGAG
9715789 AAA
1 AAA
9715792 AAAGTGGAGG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.68, C:0.01, G:0.16, T:0.14
Consensus pattern (44 bp):
AAATAATAATATAATAAAAAGGAAAAAGACAAAAAAGGAAAGAG
Found at i:9716135 original size:27 final size:27
Alignment explanation
Indices: 9716075--9716135 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 27
9716065 ATAATAAATA
*
9716075 TTTTTATTTTTAAAATACTTTTTTTACT
1 TTTTTATTTTTAAAATAC-TTTTTTAAT
9716103 TTTTTATTTTTAAAATAC-TTTTTAAT
1 TTTTTATTTTTAAAATACTTTTTTAAT
9716129 TTGTTTA
1 TT-TTTA
9716136 AAAAAATTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
26 9 0.29
27 4 0.13
28 18 0.58
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (27 bp):
TTTTTATTTTTAAAATACTTTTTTAAT
Found at i:9717036 original size:17 final size:15
Alignment explanation
Indices: 9717004--9717037 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
9716994 AATGAATTTT
9717004 TAAAAATAAAAAATA
1 TAAAAATAAAAAATA
9717019 TAAAAACTAAACAAATA
1 TAAAAA-TAAA-AAATA
9717036 TA
1 TA
9717038 CTAATAGTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 4 0.24
17 7 0.41
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.21
Consensus pattern (15 bp):
TAAAAATAAAAAATA
Found at i:9719216 original size:31 final size:31
Alignment explanation
Indices: 9719175--9719233 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
9719165 ATTAACGATG
* *
9719175 TATTCGTTAATTAAAATTATATGTTTATGTA
1 TATTCATTAATTAAAATTATATATTTATGTA
*
9719206 TATTCATTAATTAAAGTTATATATTTAT
1 TATTCATTAATTAAAATTATATATTTAT
9719234 AAAAAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.37, C:0.03, G:0.07, T:0.53
Consensus pattern (31 bp):
TATTCATTAATTAAAATTATATATTTATGTA
Found at i:9723283 original size:79 final size:80
Alignment explanation
Indices: 9723183--9723335 Score: 218
Period size: 79 Copynumber: 1.9 Consensus size: 80
9723173 CCAATATTGA
* * * *
9723183 CCATAAATTCCCTCTAGTAGTGGTTCTATTGTTGATATTGAGTTATTCTAGAATATCTTTTTGCC
1 CCATAAATCCCCTCTAGTAGTGGTTCTATAGTTGATATCGAGTTATTCTAGAACATCTTTTTGCC
9723248 AAATATACTTATTCC
66 AAATATACTTATTCC
* * * *
9723263 CCAT-AATCCCCTCTATTAGTGGTTCTGTAGTTGATATCGAGTTATTGTAGAACATCTTTTTGGC
1 CCATAAATCCCCTCTAGTAGTGGTTCTATAGTTGATATCGAGTTATTCTAGAACATCTTTTTGCC
*
9723327 AAATTTACT
66 AAATATACT
9723336 CTCAGATATA
Statistics
Matches: 64, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
79 60 0.94
80 4 0.06
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.42
Consensus pattern (80 bp):
CCATAAATCCCCTCTAGTAGTGGTTCTATAGTTGATATCGAGTTATTCTAGAACATCTTTTTGCC
AAATATACTTATTCC
Found at i:9727329 original size:14 final size:15
Alignment explanation
Indices: 9727310--9727342 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
9727300 GGATCAAAGC
*
9727310 TAAAAATT-TTATAT
1 TAAAAATTCTTAAAT
9727324 TAAAAATTCTTAAAT
1 TAAAAATTCTTAAAT
9727339 TAAA
1 TAAA
9727343 TTATCAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (15 bp):
TAAAAATTCTTAAAT
Found at i:9727548 original size:22 final size:22
Alignment explanation
Indices: 9727523--9727564 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
9727513 GAAACTAAAT
9727523 TTAACAAAGAATTTTAACAATA
1 TTAACAAAGAATTTTAACAATA
* **
9727545 TTAATAAATTATTTTAACAA
1 TTAACAAAGAATTTTAACAA
9727565 CATATAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.38
Consensus pattern (22 bp):
TTAACAAAGAATTTTAACAATA
Found at i:9729222 original size:125 final size:125
Alignment explanation
Indices: 9728943--9729248 Score: 416
Period size: 126 Copynumber: 2.4 Consensus size: 125
9728933 GATAAAATCA
* * * **
9728943 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAGTCGCGCCCACGTGTACGTGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTGTGAAATCGCGCCCACGTGGACACGCTTTTGCTACAGT
*
9729008 AGGTCCTGCAAAAATAATTTCAAGTTGACATTTCTGAGCAAATAGTATAAAAAAACGCTTC
66 AGGTCCTGAAAAAATAATTTCAAGTTGACATTTCTGAGCAAATAGTAT-AAAAAACGCTTC
* * *
9729069 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCTCCCTCGTGGACACGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTGTGAAATCGCGCCCACGTGGACACGCTTTTGCTACAGT
* ** * *
9729134 ATGTCCTGAAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTAT-AAAAATGCTTC
66 AGGTCCTG-AAAAAATAATTTCAAGTTGACATTTCTGAGCAAATAGTATAAAAAACGCTTC
* ** * *
9729194 AAGCAGGATGCTTTATCAAAAGAATTTGTGAAATCATGCCCATGTGGACGCGCTT
1 AAGCAGGATGCTTTATCAGAAGAATTTGTGAAATCGCGCCCACGTGGACACGCTT
9729249 ATCAAGACGA
Statistics
Matches: 157, Mismatches: 22, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
125 57 0.36
126 64 0.41
127 36 0.23
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (125 bp):
AAGCAGGATGCTTTATCAGAAGAATTTGTGAAATCGCGCCCACGTGGACACGCTTTTGCTACAGT
AGGTCCTGAAAAAATAATTTCAAGTTGACATTTCTGAGCAAATAGTATAAAAAACGCTTC
Found at i:9729388 original size:51 final size:51
Alignment explanation
Indices: 9729344--9729443 Score: 141
Period size: 51 Copynumber: 2.0 Consensus size: 51
9729334 AATTATTTAA
9729344 AAATAGGGATTTAAGAGAAATTT-AAAAGGAAATT-GAGAGCAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTTGAAAA-G-AATTCGAGAGCAAATTGAGATT
* * *
9729395 AAATATGGATTTGAGAGAAATTTGGAAAGAATTCGAGAGCAAATTGAGA
1 AAATAGGGATTTAAGAGAAATTTGAAAAGAATTCGAGAGCAAATTGAGA
9729444 GGAATTTGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
50 4 0.09
51 37 0.84
52 3 0.07
ACGTcount: A:0.47, C:0.03, G:0.25, T:0.25
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTGAAAAGAATTCGAGAGCAAATTGAGATT
Found at i:9738835 original size:4 final size:4
Alignment explanation
Indices: 9738828--9738865 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
9738818 TATCTATCTA
9738828 TATG TATG TATG TATG TATG TATG TATG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TA
9738866 CCTTGGATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:9742577 original size:20 final size:21
Alignment explanation
Indices: 9742552--9742595 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
9742542 AACTTATAAA
*
9742552 TAAATACTAA-TAAA-ATTATT
1 TAAATA-TAAGTAAATATTACT
9742572 TAAATATAAGTAAATATTACT
1 TAAATATAAGTAAATATTACT
9742593 TAA
1 TAA
9742596 TTAGAACTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 3 0.14
20 10 0.48
21 8 0.38
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (21 bp):
TAAATATAAGTAAATATTACT
Found at i:9743165 original size:3 final size:3
Alignment explanation
Indices: 9743157--9743204 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
9743147 TAAGGAGCCC
9743157 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
9743205 ATACACTCGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:9754286 original size:29 final size:31
Alignment explanation
Indices: 9754221--9754298 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 31
9754211 ATTATTAGCT
9754221 TTTAAGTACTAAAATGGATAAAGAAAAAAAAG
1 TTTAAGTACTAAAAT-GATAAAGAAAAAAAAG
* *
9754253 TTTAAGTACTAAAAT-ATGATA-AAAAATAA-
1 TTTAAGTACTAAAATGAT-AAAGAAAAAAAAG
*
9754282 TTTAAGTACTCAAATGA
1 TTTAAGTACTAAAATGA
9754299 GAAAATAGGT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
29 14 0.34
30 10 0.24
31 2 0.05
32 15 0.37
ACGTcount: A:0.55, C:0.05, G:0.12, T:0.28
Consensus pattern (31 bp):
TTTAAGTACTAAAATGATAAAGAAAAAAAAG
Found at i:9754298 original size:27 final size:29
Alignment explanation
Indices: 9754221--9754303 Score: 82
Period size: 29 Copynumber: 2.8 Consensus size: 29
9754211 ATTATTAGCT
*
9754221 TTTAAGTACTAAAATGGATAAAGAAAAAAAAG
1 TTTAAGTACTAAAAT--AT-GAGAAAAAAAAG
*
9754253 TTTAAGTACTAAAATATGATAAAAAATAA-
1 TTTAAGTACTAAAATATGAGAAAAAA-AAG
*
9754282 TTTAAGTACT-CAA-ATGAGAAAA
1 TTTAAGTACTAAAATATGAGAAAA
9754304 TAGGTGTAGT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
27 8 0.17
28 2 0.04
29 17 0.37
30 4 0.09
32 15 0.33
ACGTcount: A:0.57, C:0.05, G:0.12, T:0.27
Consensus pattern (29 bp):
TTTAAGTACTAAAATATGAGAAAAAAAAG
Found at i:9764976 original size:23 final size:23
Alignment explanation
Indices: 9764950--9764995 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
9764940 ATGAGAATTT
* * *
9764950 TTAAATATTTTAAAGTAACTTAA
1 TTAAAAATTTTAAAATAAATTAA
9764973 TTAAAAATTTTAAAATAAATTAA
1 TTAAAAATTTTAAAATAAATTAA
9764996 AAAAGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (23 bp):
TTAAAAATTTTAAAATAAATTAA
Found at i:9765375 original size:30 final size:27
Alignment explanation
Indices: 9765335--9765391 Score: 69
Period size: 30 Copynumber: 2.0 Consensus size: 27
9765325 TTTTGAAAAT
9765335 GAGAAGATTAAATTATTCTAATATTTGGA
1 GAGAAGATTAAATTATTC-AA-ATTTGGA
* *
9765364 GAGAAGGATTAATTTGTTCAAATTTGGA
1 GAGAA-GATTAAATTATTCAAATTTGGA
9765392 AATGAGAGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 7 0.28
29 7 0.28
30 11 0.44
ACGTcount: A:0.39, C:0.04, G:0.21, T:0.37
Consensus pattern (27 bp):
GAGAAGATTAAATTATTCAAATTTGGA
Found at i:9770576 original size:22 final size:22
Alignment explanation
Indices: 9770550--9770606 Score: 105
Period size: 22 Copynumber: 2.6 Consensus size: 22
9770540 TCATATTAAT
*
9770550 AAGGTTAAGGTTTTAAGATTTC
1 AAGGTTAATGTTTTAAGATTTC
9770572 AAGGTTAATGTTTTAAGATTTC
1 AAGGTTAATGTTTTAAGATTTC
9770594 AAGGTTAATGTTT
1 AAGGTTAATGTTT
9770607 CAAATTTTGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.32, C:0.04, G:0.21, T:0.44
Consensus pattern (22 bp):
AAGGTTAATGTTTTAAGATTTC
Found at i:9771605 original size:32 final size:32
Alignment explanation
Indices: 9771562--9771624 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
9771552 CTAAATAGTA
* *
9771562 TGTGATGAAATACGTTTTATGGATTGCTTGTC
1 TGTGATAAAATAAGTTTTATGGATTGCTTGTC
*
9771594 TGTGATAAAATAAGTTTTATGGGTTGCTTGT
1 TGTGATAAAATAAGTTTTATGGATTGCTTGT
9771625 TATGTTCTGC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.24, C:0.06, G:0.25, T:0.44
Consensus pattern (32 bp):
TGTGATAAAATAAGTTTTATGGATTGCTTGTC
Found at i:9771704 original size:96 final size:97
Alignment explanation
Indices: 9771534--9771726 Score: 361
Period size: 96 Copynumber: 2.0 Consensus size: 97
9771524 GGTGGATTGC
9771534 CTGCTTACATCTCTTAAGCTAAATAGTATGTGATGAAATACGTTTTATGGATTGCTTGTCTGTGA
1 CTGCTTACATCTCTTAAGCTAAATAGTATGTGATGAAATACGTTTTATGGATTGCTTGTCTGTGA
9771599 TAAAATAAGTTTTATGGGTTGCTTGTTATGTT
66 TAAAATAAGTTTTATGGGTTGCTTGTTATGTT
*
9771631 CTGCTTACATCTCTTAAGCT-AATAGTATGTGATGGAATACGTTTTATGGATTGCTTGTCTGTGA
1 CTGCTTACATCTCTTAAGCTAAATAGTATGTGATGAAATACGTTTTATGGATTGCTTGTCTGTGA
*
9771695 TAAAGTAAGTTTTATGGGTTGCTTGTTATGTT
66 TAAAATAAGTTTTATGGGTTGCTTGTTATGTT
9771727 TTGTTTATGG
Statistics
Matches: 94, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
96 74 0.79
97 20 0.21
ACGTcount: A:0.24, C:0.10, G:0.22, T:0.44
Consensus pattern (97 bp):
CTGCTTACATCTCTTAAGCTAAATAGTATGTGATGAAATACGTTTTATGGATTGCTTGTCTGTGA
TAAAATAAGTTTTATGGGTTGCTTGTTATGTT
Found at i:9772558 original size:22 final size:22
Alignment explanation
Indices: 9772533--9772577 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
9772523 TTTAATAAAG
9772533 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
9772555 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
9772577 A
1 A
9772578 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:9776332 original size:22 final size:22
Alignment explanation
Indices: 9776307--9776351 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
9776297 TTTAATAAAG
9776307 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
9776329 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
9776351 A
1 A
9776352 CATATTACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:9784073 original size:6 final size:6
Alignment explanation
Indices: 9784062--9784099 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
9784052 ATAATAAAAG
*
9784062 AAGAAA AAGAAA AATAAA AAGAAA AA-AAA CAAGAAA AA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA -AAGAAA AA
9784100 AATCAGAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
5 3 0.11
6 22 0.79
7 3 0.11
ACGTcount: A:0.84, C:0.03, G:0.11, T:0.03
Consensus pattern (6 bp):
AAGAAA
Found at i:9784101 original size:21 final size:21
Alignment explanation
Indices: 9784057--9784101 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
9784047 CTGTGATAAT
* *
9784057 AAAAGAAGAAAAAGAAAAATA
1 AAAAGAAAAAAAACAAAAATA
*
9784078 AAAAGAAAAAAAACAAGAA-A
1 AAAAGAAAAAAAACAAAAATA
9784098 AAAA
1 AAAA
9784102 TCAGAAATAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.84, C:0.02, G:0.11, T:0.02
Consensus pattern (21 bp):
AAAAGAAAAAAAACAAAAATA
Found at i:9787575 original size:22 final size:22
Alignment explanation
Indices: 9787550--9787606 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
9787540 TCATATTAAT
*
9787550 AAGGTTAAGGTTTGAAGATTTC
1 AAGGTTAATGTTTGAAGATTTC
* *
9787572 AAGGGTAATGTTTTAAGATTTC
1 AAGGTTAATGTTTGAAGATTTC
9787594 AAGGTTAATGTTT
1 AAGGTTAATGTTT
9787607 CAAATTTTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.32, C:0.04, G:0.25, T:0.40
Consensus pattern (22 bp):
AAGGTTAATGTTTGAAGATTTC
Found at i:9788614 original size:32 final size:32
Alignment explanation
Indices: 9788571--9788633 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
9788561 CTAAATAGTA
* *
9788571 TGTGATGAAATACGTTTTATGGATTGCTTGTC
1 TGTGATAAAATAAGTTTTATGGATTGCTTGTC
*
9788603 TGTGATAAAATAAGTTTTATGGGTTGCTTGT
1 TGTGATAAAATAAGTTTTATGGATTGCTTGT
9788634 TATGTTCTGC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.24, C:0.06, G:0.25, T:0.44
Consensus pattern (32 bp):
TGTGATAAAATAAGTTTTATGGATTGCTTGTC
Found at i:9788713 original size:96 final size:97
Alignment explanation
Indices: 9788546--9788735 Score: 346
Period size: 96 Copynumber: 2.0 Consensus size: 97
9788536 GGATTGCCAT
*
9788546 CTTACATCTCTTAAGCTAAATAGTATGTGATGAAATACGTTTTATGGATTGCTTGTCTGTGATAA
1 CTTACATCTCTTAAGCTAAATAGTATGTGATGAAATACGTTTTATGGATTGCTTGTCTATGATAA
9788611 AATAAGTTTTATGGGTTGCTTGTTATGTTCTG
66 AATAAGTTTTATGGGTTGCTTGTTATGTTCTG
*
9788643 CTTACATCTCTTAAGGT-AATAGTATGTGATGAAATACGTTTTATGGATTGCTTGTCTATGATAA
1 CTTACATCTCTTAAGCTAAATAGTATGTGATGAAATACGTTTTATGGATTGCTTGTCTATGATAA
*
9788707 AGTAAGTTTTATGGGTTGCTTGTTATGTT
66 AATAAGTTTTATGGGTTGCTTGTTATGTT
9788736 TTGTTTATGG
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
96 74 0.82
97 16 0.18
ACGTcount: A:0.26, C:0.09, G:0.21, T:0.44
Consensus pattern (97 bp):
CTTACATCTCTTAAGCTAAATAGTATGTGATGAAATACGTTTTATGGATTGCTTGTCTATGATAA
AATAAGTTTTATGGGTTGCTTGTTATGTTCTG
Found at i:9807767 original size:12 final size:11
Alignment explanation
Indices: 9807741--9807781 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
9807731 ACCCAAAATT
9807741 TATTTT-AAAA
1 TATTTTAAAAA
9807751 -A-TTTAAAAA
1 TATTTTAAAAA
9807760 GTATTTTAAAAA
1 -TATTTTAAAAA
9807772 TATTTTAAAA
1 TATTTTAAAA
9807782 TTAAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
8 3 0.11
9 5 0.19
11 11 0.41
12 8 0.30
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:9807790 original size:20 final size:20
Alignment explanation
Indices: 9807767--9807825 Score: 53
Period size: 20 Copynumber: 3.4 Consensus size: 20
9807757 AAAGTATTTT
9807767 AAAAATATTTTAAAATT-AA
1 AAAAATATTTTAAAATTAAA
9807786 AAAAA-A-TTT----T-AAA
1 AAAAATATTTTAAAATTAAA
*
9807799 AAAAGTATTTTAAAATTAAA
1 AAAAATATTTTAAAATTAAA
9807819 AAAAATA
1 AAAAATA
9807826 AAAAAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 15
0.64 0.04 0.32
Matches are distributed among these distances:
13 7 0.23
14 1 0.03
15 3 0.10
17 3 0.10
18 1 0.03
19 6 0.20
20 9 0.30
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (20 bp):
AAAAATATTTTAAAATTAAA
Found at i:9807802 original size:31 final size:31
Alignment explanation
Indices: 9807741--9807838 Score: 112
Period size: 32 Copynumber: 3.2 Consensus size: 31
9807731 ACCCAAAATT
**
9807741 TATTTTAAAAATTTAAAAAGTATTTT--AAAAA
1 TATTTT-AAAA-TTAAAAAAAATTTTAAAAAAA
9807772 TATTTTAAAATTAAAAAAAATTTTAAAAAAA
1 TATTTTAAAATTAAAAAAAATTTTAAAAAAA
**
9807803 GTATTTTAAAATTAAAAAAAA-TAAAAAAAAA
1 -TATTTTAAAATTAAAAAAAATTTTAAAAAAA
9807834 TATTT
1 TATTT
9807839 ATTATATTCG
Statistics
Matches: 60, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
29 12 0.20
30 9 0.15
31 19 0.32
32 20 0.33
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (31 bp):
TATTTTAAAATTAAAAAAAATTTTAAAAAAA
Found at i:9808468 original size:17 final size:16
Alignment explanation
Indices: 9808435--9808469 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
9808425 TAACTAATTT
9808435 TTAAAAAATTTAAAAA
1 TTAAAAAATTTAAAAA
*
9808451 TTAAAAAATATTATAAA
1 TTAAAAAAT-TTAAAAA
9808468 TT
1 TT
9808470 TTTTAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
TTAAAAAATTTAAAAA
Found at i:9814676 original size:84 final size:84
Alignment explanation
Indices: 9814562--9815271 Score: 859
Period size: 84 Copynumber: 8.5 Consensus size: 84
9814552 AGTTGCTTCC
* * * * ***
9814562 GCTTTAGCGATCTCAAAATCGGCACATTTTCTTGCTTCAACAGCCTTCTTCTTGGTTTCTTCTGC
1 GCTTTAGCAATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCCTTCTTCTTCAATTCTTCTGC
* **
9814627 AATCTTCCTTTGCGCCTCC
66 AATCTTCCTTTGCTCCTGT
* * ** ** *
9814646 GCTTCAGCCATCTGTAAATCAGCATGTTTTCTTTCTTCAACTGCCTTCTTCTT-AATCTCTTCTG
1 GCTTTAGCAATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCCTTCTTCTTCAAT-TCTTCTG
9814710 CAATCTT-CTTCTGCTCCTGT
65 CAATCTTCCTT-TGCTCCTGT
* * * * *
9814730 GCTTTAGCCATCTCCAAAGC--CACATGTTTTCTTTCTTCAACAACCTTCTTCTTCGACTCTTCT
1 GCTTTAGCAATCTCCAAATCAGCACA--TTTTCTTTCTTCAACAGCCTTCTTCTTCAATTCTTCT
*
9814793 GCAATCTTCCTCTGCTCCTGT
64 GCAATCTTCCTTTGCTCCTGT
* * **
9814814 GCTTTAGCCATCTCCAAAGCAGCATGTTTTCTTTCTTCAACAGCCTTCTTCTTCAATTCTTCTGC
1 GCTTTAGCAATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCCTTCTTCTTCAATTCTTCTGC
*
9814879 AGTCTTCCTCTT-CTCCTGT
66 AATCTTCCT-TTGCTCCTGT
9814898 GCTTTAGCAATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCCTTCTTCTTCAATTCTTCTGC
1 GCTTTAGCAATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCCTTCTTCTTCAATTCTTCTGC
*
9814963 AGTCTTCCTCTT-CTCCTGT
66 AATCTTCCT-TTGCTCCTGT
9814982 GCTTTAGCAATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCCTTCTTCTTCAATTCTTCTGC
1 GCTTTAGCAATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCCTTCTTCTTCAATTCTTCTGC
*
9815047 AGTCTTCCTTTGCTCCTGT
66 AATCTTCCTTTGCTCCTGT
*
9815066 GCTTTAGCAATCTCCAAATCAGCACATTTTCTTTCTTCAACGGCCTTCTTCTTC-ATCTCTTCTG
1 GCTTTAGCAATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCCTTCTTCTTCAAT-TCTTCTG
* * *
9815130 CAACCTTCCTGTCCTCCTGT
65 CAATCTTCCTTTGCTCCTGT
* * * *
9815150 GCTTTAGCCATCTCCAGATCAGCACATTTTCTATCTTCAACAG-C-T-TTCTT-AGATTTTTC-G
1 GCTTTAGCAATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCCTTCTTCTTCA-ATTCTTCTG
* * *
9815210 ACAAACTTCCTCTGCTCCTTT
65 -CAATCTTCCTTTGCTCCTGT
* * *
9815231 GCTTTAGCCATCTCCGAATCAGCACCTTTTCTTTCTTCAAC
1 GCTTTAGCAATCTCCAAATCAGCACATTTTCTTTCTTCAAC
9815272 CACCTTCCTT
Statistics
Matches: 558, Mismatches: 54, Indels: 31
0.87 0.08 0.05
Matches are distributed among these distances:
80 1 0.00
81 62 0.11
82 5 0.01
83 9 0.02
84 475 0.85
85 4 0.01
86 2 0.00
ACGTcount: A:0.17, C:0.32, G:0.10, T:0.41
Consensus pattern (84 bp):
GCTTTAGCAATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCCTTCTTCTTCAATTCTTCTGC
AATCTTCCTTTGCTCCTGT
Found at i:9817127 original size:18 final size:18
Alignment explanation
Indices: 9817093--9817130 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
9817083 CAAAAAAATC
9817093 ATAAAAATAAACTTTTTTA
1 ATAAAAATAAAC-TTTTTA
9817112 ATAAAAATATAA-TTTTTA
1 ATAAAAATA-AACTTTTTA
9817130 A
1 A
9817131 ACTATTAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 9 0.50
20 2 0.11
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
ATAAAAATAAACTTTTTA
Found at i:9817263 original size:32 final size:34
Alignment explanation
Indices: 9817193--9817263 Score: 92
Period size: 35 Copynumber: 2.1 Consensus size: 34
9817183 TACTTTGAAC
*
9817193 TTTTTATGATTTTTAAATATATATTATTTTATGAT
1 TTTTTATGATTTTTAAATATATA-TATTATATGAT
* *
9817228 TTTTTTTGTTTTTTAAA-ATATA-ATTATATGAT
1 TTTTTATGATTTTTAAATATATATATTATATGAT
9817260 TTTT
1 TTTT
9817264 ACTTTTCTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
32 13 0.39
34 5 0.15
35 15 0.45
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.65
Consensus pattern (34 bp):
TTTTTATGATTTTTAAATATATATATTATATGAT
Found at i:9817470 original size:6 final size:6
Alignment explanation
Indices: 9817459--9817483 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
9817449 ATATATTTTA
9817459 TTATTT TTATTT TTATTT TTATTT T
1 TTATTT TTATTT TTATTT TTATTT T
9817484 CGAGTTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTATTT
Found at i:9817678 original size:20 final size:21
Alignment explanation
Indices: 9817649--9817692 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
9817639 TCACATCAAC
9817649 AAATAATTTAAAAAT-TATTA
1 AAATAATTTAAAAATATATTA
* *
9817669 AAATATTTTAAATATATATTA
1 AAATAATTTAAAAATATATTA
9817690 AAA
1 AAA
9817693 GTAGGATGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AAATAATTTAAAAATATATTA
Found at i:9824540 original size:7 final size:7
Alignment explanation
Indices: 9824523--9824709 Score: 56
Period size: 7 Copynumber: 25.6 Consensus size: 7
9824513 GAGTTTTAAA
9824523 GTTTAGAG
1 GTTTAG-G
9824531 GTTTAGG
1 GTTTAGG
9824538 GTTTTAGG
1 G-TTTAGG
* *
9824546 GTTGATGA
1 GTTTA-GG
*
9824554 TTTTAGTG
1 GTTTAG-G
* *
9824562 TTTTTAAG
1 -GTTTAGG
9824570 GTTTAGG
1 GTTTAGG
9824577 GTTTATGG
1 GTTTA-GG
* *
9824585 TTTTTAGT
1 -GTTTAGG
*
9824593 TTTTAGG
1 GTTTAGG
*
9824600 GTTTA-T
1 GTTTAGG
9824606 GTTTAGG
1 GTTTAGG
*
9824613 GTTTATGA
1 GTTTA-GG
* *
9824621 TTTTA-T
1 GTTTAGG
*
9824627 GTTTATG
1 GTTTAGG
*
9824634 GTTTATG
1 GTTTAGG
*
9824641 GTTTATG
1 GTTTAGG
9824648 GTTTATGG
1 GTTTA-GG
* *
9824656 CTTAAGG
1 GTTTAGG
*
9824663 GTTTA-T
1 GTTTAGG
*
9824669 TTTTAGG
1 GTTTAGG
*
9824676 GTTTAAG
1 GTTTAGG
*
9824683 TTTTAGG
1 GTTTAGG
9824690 GTTTTTAGG
1 G--TTTAGG
*
9824699 GTTTATG
1 GTTTAGG
9824706 GTTT
1 GTTT
9824710 TAGAGTTTTT
Statistics
Matches: 133, Mismatches: 33, Indels: 27
0.69 0.17 0.14
Matches are distributed among these distances:
6 13 0.10
7 74 0.56
8 30 0.23
9 16 0.12
ACGTcount: A:0.17, C:0.01, G:0.29, T:0.54
Consensus pattern (7 bp):
GTTTAGG
Found at i:9824581 original size:23 final size:22
Alignment explanation
Indices: 9824555--9824609 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 22
9824545 GGTTGATGAT
9824555 TTTAGTGTTTTTAAG-GTTTAGGG
1 TTTA-TGTTTTT-AGTGTTTAGGG
*
9824578 TTTATGGTTTTTAGTTTTTAGGG
1 TTTAT-GTTTTTAGTGTTTAGGG
9824601 TTTATGTTT
1 TTTATGTTT
9824610 AGGGTTTATG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 7 0.24
23 22 0.76
ACGTcount: A:0.15, C:0.00, G:0.25, T:0.60
Consensus pattern (22 bp):
TTTATGTTTTTAGTGTTTAGGG
Found at i:9824586 original size:14 final size:14
Alignment explanation
Indices: 9824523--9824739 Score: 81
Period size: 15 Copynumber: 15.3 Consensus size: 14
9824513 GAGTTTTAAA
*
9824523 GTTTAGAGGTTTAGG
1 GTTTAG-GGTTTATG
*
9824538 GTTTTAGGGTTGATG
1 G-TTTAGGGTTTATG
* * *
9824553 ATTTTAGTGTTTTTAAG
1 -GTTTAG-G-GTTTATG
9824570 GTTTAGGGTTTATG
1 GTTTAGGGTTTATG
** *
9824584 GTTTTTAGTTTTTAGG
1 G--TTTAGGGTTTATG
* *
9824600 GTTTA-TGTTTAGG
1 GTTTAGGGTTTATG
**
9824613 GTTTATGATTTTAT-
1 GTTTA-GGGTTTATG
*
9824627 GTTTATGGTTTATG
1 GTTTAGGGTTTATG
*
9824641 GTTTATGGTTTATG
1 GTTTAGGGTTTATG
*
9824655 GCTTAAGGGTTTAT-
1 G-TTTAGGGTTTATG
* *
9824669 TTTTAGGGTTTAAG
1 GTTTAGGGTTTATG
*
9824683 TTTTAGGG--T-T-
1 GTTTAGGGTTTATG
9824693 -TTTAGGGTTTATG
1 GTTTAGGGTTTATG
* *
9824706 GTTTTAGAGTTTTTG
1 G-TTTAGGGTTTATG
* *
9824721 GTTTTAGAGTTTTTG
1 G-TTTAGGGTTTATG
9824736 GTTT
1 GTTT
9824740 TGTGTTTTTA
Statistics
Matches: 158, Mismatches: 27, Indels: 35
0.72 0.12 0.16
Matches are distributed among these distances:
9 7 0.04
11 1 0.01
12 2 0.01
13 27 0.17
14 41 0.26
15 54 0.34
16 22 0.14
17 4 0.03
ACGTcount: A:0.16, C:0.00, G:0.29, T:0.55
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:9824627 original size:21 final size:20
Alignment explanation
Indices: 9824601--9824711 Score: 78
Period size: 21 Copynumber: 5.2 Consensus size: 20
9824591 GTTTTTAGGG
9824601 TTTATGTTTAGGGTTTATGAT
1 TTTATGTTTAGGGTTTATG-T
* *
9824622 TTTATGTTTATGGTTTATGG
1 TTTATGTTTAGGGTTTATGT
* * * *
9824642 TTTATGGTTTATGGCTTAAGGG
1 TTTAT-GTTTA-GGGTTTATGT
* *
9824664 TTTATTTTTAGGGTTTAAGT
1 TTTATGTTTAGGGTTTATGT
*
9824684 TTTAGGGTTTTTAGGGTTTATGGT
1 TTTA---TGTTTAGGGTTTAT-GT
9824708 TTTA
1 TTTA
9824712 GAGTTTTTGG
Statistics
Matches: 72, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
20 15 0.21
21 27 0.38
22 11 0.15
23 13 0.18
24 6 0.08
ACGTcount: A:0.17, C:0.01, G:0.26, T:0.56
Consensus pattern (20 bp):
TTTATGTTTAGGGTTTATGT
Found at i:9824695 original size:23 final size:24
Alignment explanation
Indices: 9824668--9824733 Score: 84
Period size: 23 Copynumber: 2.8 Consensus size: 24
9824658 TAAGGGTTTA
*
9824668 TTTTTAGGGTTTA-AGTTTTAGGG
1 TTTTTAGGGTTTAGAGTTTTAGAG
9824691 TTTTTAGGGTTTATG-GTTTTAGAG
1 TTTTTAGGGTTTA-GAGTTTTAGAG
*
9824715 TTTTT-GGTTTTAGAGTTTT
1 TTTTTAGGGTTTAGAGTTTT
9824734 TGGTTTTGTG
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
22 1 0.03
23 24 0.63
24 13 0.34
ACGTcount: A:0.15, C:0.00, G:0.27, T:0.58
Consensus pattern (24 bp):
TTTTTAGGGTTTAGAGTTTTAGAG
Found at i:9824786 original size:13 final size:14
Alignment explanation
Indices: 9824770--9824800 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
9824760 TTAATGTTTT
9824770 TTTTAT-TTTAGGG
1 TTTTATGTTTAGGG
9824783 TTTTATGTTTAGGG
1 TTTTATGTTTAGGG
9824797 TTTT
1 TTTT
9824801 TTATTTATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.13, C:0.00, G:0.23, T:0.65
Consensus pattern (14 bp):
TTTTATGTTTAGGG
Found at i:9824800 original size:53 final size:53
Alignment explanation
Indices: 9824531--9824801 Score: 124
Period size: 53 Copynumber: 5.2 Consensus size: 53
9824521 AAGTTTAGAG
* * * * * *
9824531 GTTTAGGG-TTTTAGGGTTGATGATTTTAGTGTTTTTAAGGTTTAGGG-TTTAT
1 GTTTAGGGTTTTTAGGGTTTATGGTGTTAGAGTTTTTTA-TTTTAGGGTTTTAT
*** * * * *
9824583 GGTTTTTAGTTTTTAGGGTTTAT-GT-TTAGGGTTTATGATTTTA-TG-TTTAT
1 -GTTTAGGGTTTTTAGGGTTTATGGTGTTAGAGTTTTTTATTTTAGGGTTTTAT
* * * ** *
9824633 GGTTTATGG--TTTATGGTTTATGG-CTTA-AG-GGTTTATTTTTAGGG-TTTAA
1 -GTTTAGGGTTTTTAGGGTTTATGGTGTTAGAGTTTTTTA-TTTTAGGGTTTTAT
* ** *
9824682 GTTTTAGGGTTTTTAGGGTTTATGGTTTTAGAGTTTTTGGTTTTAGAGTTTT-T
1 G-TTTAGGGTTTTTAGGGTTTATGGTGTTAGAGTTTTTTATTTTAGGGTTTTAT
* *
9824735 GGTTTTGTGTTTTTAGGG-TT-TGGTGTTA-ATGTTTTTTTTATTTTAGGGTTTTAT
1 -GTTTAGGGTTTTTAGGGTTTATGGTGTTAGA-G--TTTTTTATTTTAGGGTTTTAT
9824789 GTTTAGGGTTTTT
1 GTTTAGGGTTTTT
9824802 TATTTATGTT
Statistics
Matches: 164, Mismatches: 37, Indels: 34
0.70 0.16 0.14
Matches are distributed among these distances:
47 2 0.01
48 18 0.11
49 15 0.09
50 14 0.09
51 25 0.15
52 15 0.09
53 56 0.34
54 19 0.12
ACGTcount: A:0.15, C:0.00, G:0.28, T:0.57
Consensus pattern (53 bp):
GTTTAGGGTTTTTAGGGTTTATGGTGTTAGAGTTTTTTATTTTAGGGTTTTAT
Found at i:9824807 original size:14 final size:14
Alignment explanation
Indices: 9824768--9824807 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
9824758 TGTTAATGTT
9824768 TTTTTTATTTTAGGG
1 TTTTTTA-TTTAGGG
* *
9824783 TTTTATGTTTAGGG
1 TTTTTTATTTAGGG
9824797 TTTTTTATTTA
1 TTTTTTATTTA
9824808 TGTTTAGGGT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
14 16 0.76
15 5 0.24
ACGTcount: A:0.15, C:0.00, G:0.17, T:0.68
Consensus pattern (14 bp):
TTTTTTATTTAGGG
Found at i:9824911 original size:21 final size:22
Alignment explanation
Indices: 9824871--9824917 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
9824861 AGTTTTATGA
9824871 TTTATGGTTTTATTGCTTAGGG
1 TTTATGGTTTTATTGCTTAGGG
* *
9824893 TTTATGTTTTTA-TGTTTAGGG
1 TTTATGGTTTTATTGCTTAGGG
9824914 TTTA
1 TTTA
9824918 GGGATTAGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.15, C:0.02, G:0.23, T:0.60
Consensus pattern (22 bp):
TTTATGGTTTTATTGCTTAGGG
Found at i:9824999 original size:22 final size:22
Alignment explanation
Indices: 9824958--9825042 Score: 95
Period size: 22 Copynumber: 3.9 Consensus size: 22
9824948 TGTTTGTGGT
9824958 TTTATGATTTTA--TTTCTTAGTG
1 TTTAT-ATTTTAGGTTT-TTAGTG
*
9824980 TTTATATTTTAGGTTTTTAGGG
1 TTTATATTTTAGGTTTTTAGTG
*
9825002 TTTATATTTTAGG-TTTTATTG
1 TTTATATTTTAGGTTTTTAGTG
* *
9825023 TTTATGTTTTAGGGTTTTAG
1 TTTATATTTTAGGTTTTTAG
9825043 GATACATGGT
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
21 24 0.44
22 28 0.51
23 3 0.05
ACGTcount: A:0.18, C:0.01, G:0.19, T:0.62
Consensus pattern (22 bp):
TTTATATTTTAGGTTTTTAGTG
Found at i:9825069 original size:15 final size:15
Alignment explanation
Indices: 9824994--9825072 Score: 54
Period size: 15 Copynumber: 5.4 Consensus size: 15
9824984 TATTTTAGGT
*
9824994 TTTTAGGGTTTATA-
1 TTTTAGGATTTATAG
* *
9825008 TTTTAGGTTTTATTG
1 TTTTAGGATTTATAG
* * **
9825023 -TTTATGTTTTAGGG
1 TTTTAGGATTTATAG
** *
9825037 TTTTAGGATACATGG
1 TTTTAGGATTTATAG
9825052 TTTTAGGATTTATAG
1 TTTTAGGATTTATAG
9825067 TTTTAG
1 TTTTAG
9825073 TGTTTTTAGG
Statistics
Matches: 50, Mismatches: 13, Indels: 3
0.76 0.20 0.05
Matches are distributed among these distances:
14 23 0.46
15 27 0.54
ACGTcount: A:0.20, C:0.01, G:0.23, T:0.56
Consensus pattern (15 bp):
TTTTAGGATTTATAG
Found at i:9825108 original size:38 final size:38
Alignment explanation
Indices: 9825066--9825191 Score: 118
Period size: 38 Copynumber: 3.3 Consensus size: 38
9825056 AGGATTTATA
* *
9825066 GTTTTAGTGTTTTTAGGGTTCATTGCTTGTGTTGTTAG
1 GTTTTAGTGTTTTTAAGGTTTATTGCTTGTGTTGTTAG
** * *
9825104 GTTTTAAG-G-TTTTAAGGTTTAGGGTTTAG-GTT-TTATA
1 GTTTT-AGTGTTTTTAAGGTTTATTGCTT-GTGTTGTTA-G
9825141 GTTTTA-TAGTTTTTAAGGTTTATTGCTTGTGTTGTTAG
1 GTTTTAGT-GTTTTTAAGGTTTATTGCTTGTGTTGTTAG
*
9825179 GTTTTAATGTTTT
1 GTTTTAGTGTTTT
9825192 ATGTTTTTAT
Statistics
Matches: 69, Mismatches: 10, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
36 4 0.06
37 23 0.33
38 36 0.52
39 6 0.09
ACGTcount: A:0.16, C:0.02, G:0.25, T:0.56
Consensus pattern (38 bp):
GTTTTAGTGTTTTTAAGGTTTATTGCTTGTGTTGTTAG
Found at i:9825115 original size:8 final size:8
Alignment explanation
Indices: 9825102--9825161 Score: 56
Period size: 8 Copynumber: 7.8 Consensus size: 8
9825092 TTGTGTTGTT
9825102 AGGTTTTA
1 AGGTTTTA
9825110 AGGTTTTA
1 AGGTTTTA
9825118 AGG-TTT-
1 AGGTTTTA
*
9825124 AGGGTTT-
1 AGGTTTTA
9825131 AGGTTTTA
1 AGGTTTTA
9825139 TA-GTTTTA
1 -AGGTTTTA
*
9825147 TAGTTTTTA
1 -AGGTTTTA
9825156 AGGTTT
1 AGGTTT
9825162 ATTGCTTGTG
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
6 3 0.07
7 12 0.27
8 24 0.53
9 6 0.13
ACGTcount: A:0.22, C:0.00, G:0.25, T:0.53
Consensus pattern (8 bp):
AGGTTTTA
Found at i:9825208 original size:75 final size:75
Alignment explanation
Indices: 9825053--9825192 Score: 228
Period size: 75 Copynumber: 1.9 Consensus size: 75
9825043 GATACATGGT
*
9825053 TTTAGGATTTATAGTTTTAGTGTTTTTAGGGTTCATTGCTTGTGTTGTTAGGTTTTAAGGTTTTA
1 TTTAGGATTTATAGTTTTAGTGTTTTTAAGGTTCATTGCTTGTGTTGTTAGGTTTTAAGGTTTTA
9825118 AGGTTTAGGG
66 AGGTTTAGGG
* * *
9825128 TTTAGGTTTTATAGTTTTA-TAGTTTTTAAGGTTTATTGCTTGTGTTGTTAGGTTTTAATGTTTT
1 TTTAGGATTTATAGTTTTAGT-GTTTTTAAGGTTCATTGCTTGTGTTGTTAGGTTTTAAGGTTTT
9825192 A
65 A
9825193 TGTTTTTATG
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
74 1 0.02
75 59 0.98
ACGTcount: A:0.18, C:0.02, G:0.24, T:0.56
Consensus pattern (75 bp):
TTTAGGATTTATAGTTTTAGTGTTTTTAAGGTTCATTGCTTGTGTTGTTAGGTTTTAAGGTTTTA
AGGTTTAGGG
Found at i:9825257 original size:15 final size:15
Alignment explanation
Indices: 9825239--9825271 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
9825229 TGCTTTAGGG
9825239 TTTGTGGTTTTAGCA
1 TTTGTGGTTTTAGCA
*
9825254 TTTGTGGTTTTAGGA
1 TTTGTGGTTTTAGCA
9825269 TTT
1 TTT
9825272 TATTTCTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.03, G:0.27, T:0.58
Consensus pattern (15 bp):
TTTGTGGTTTTAGCA
Found at i:9825300 original size:14 final size:14
Alignment explanation
Indices: 9825283--9825403 Score: 50
Period size: 14 Copynumber: 8.4 Consensus size: 14
9825273 ATTTCTTATT
9825283 GTTTATGTTTTAGG
1 GTTTATGTTTTAGG
**
9825297 GTTTA-GTATTTATA
1 GTTTATGT-TTTAGG
*
9825311 TTTTA-GATTTTAGG
1 GTTTATG-TTTTAGG
*
9825325 GTTTATGATTTATGG
1 GTTTATGTTTTA-GG
* * *
9825340 TTTTGTGTTTTTAGC
1 GTTTATG-TTTTAGG
* * *
9825355 GTTTATGGTTAATG
1 GTTTATGTTTTAGG
* **
9825369 GTTTTTAGTTTTTATA
1 GTTTAT-G-TTTTAGG
9825385 GTTTATG-TTTAGG
1 GTTTATGTTTTAGG
9825398 GTTTAT
1 GTTTAT
9825404 ATGCTATATT
Statistics
Matches: 76, Mismatches: 24, Indels: 15
0.66 0.21 0.13
Matches are distributed among these distances:
13 12 0.16
14 34 0.45
15 17 0.22
16 13 0.17
ACGTcount: A:0.18, C:0.01, G:0.22, T:0.59
Consensus pattern (14 bp):
GTTTATGTTTTAGG
Found at i:9825309 original size:28 final size:28
Alignment explanation
Indices: 9825278--9825342 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 28
9825268 ATTTTATTTC
9825278 TTATTGTTTATG-TTTTAGGGTTTA-GTAT
1 TTATTGTTTA-GATTTTAGGGTTTATG-AT
9825306 TTATAT-TTTAGATTTTAGGGTTTATGAT
1 TTAT-TGTTTAGATTTTAGGGTTTATGAT
*
9825334 TTATGGTTT
1 TTATTGTTT
9825343 TGTGTTTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
27 1 0.03
28 29 0.91
29 2 0.06
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (28 bp):
TTATTGTTTAGATTTTAGGGTTTATGAT
Found at i:9825322 original size:21 final size:21
Alignment explanation
Indices: 9825284--9825323 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
9825274 TTTCTTATTG
* *
9825284 TTTATGTTTTAGGGTTTAGTA
1 TTTATATTTTAGAGTTTAGTA
*
9825305 TTTATATTTTAGATTTTAG
1 TTTATATTTTAGAGTTTAG
9825324 GGTTTATGAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.17, T:0.60
Consensus pattern (21 bp):
TTTATATTTTAGAGTTTAGTA
Found at i:9825345 original size:102 final size:101
Alignment explanation
Indices: 9825239--9825429 Score: 253
Period size: 102 Copynumber: 1.9 Consensus size: 101
9825229 TGCTTTAGGG
* * *
9825239 TTTGTGGTTTTAGCATTTGTGGTT-TTAGGATTTTA-TTTCTTATTGTTTATGTTTTAGGGTTTA
1 TTTGTGGTTTTAGCATTTATGGTTAAT-GGATTTTAGTTT-TTATAGTTTATG-TTTAGGGTTTA
* *
9825302 GTAT-TTATATTTTAGATTTTAGGGTTTATGATTTATGGT
63 -TATGCTATATTTTACATTTTAGGGTTTATGATTTATGGT
* * *
9825341 TTTGTGTTTTTAGCGTTTATGGTTAATGGTTTTTAGTTTTTATAGTTTATGTTTAGGGTTTATAT
1 TTTGTGGTTTTAGCATTTATGGTTAATGGATTTTAGTTTTTATAGTTTATGTTTAGGGTTTATAT
9825406 GCTATATTTTACATTTTAGGGTTT
66 GCTATATTTTACATTTTAGGGTTT
9825430 TAAGGTTTTA
Statistics
Matches: 78, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
100 3 0.04
101 32 0.41
102 39 0.50
103 4 0.05
ACGTcount: A:0.18, C:0.03, G:0.21, T:0.59
Consensus pattern (101 bp):
TTTGTGGTTTTAGCATTTATGGTTAATGGATTTTAGTTTTTATAGTTTATGTTTAGGGTTTATAT
GCTATATTTTACATTTTAGGGTTTATGATTTATGGT
Found at i:9825349 original size:21 final size:21
Alignment explanation
Indices: 9825282--9825349 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
9825272 TATTTCTTAT
* * *
9825282 TGTTTATGTTTTAGGGTTTAG
1 TGTTTATGATTTATGGTTTTG
* *
9825303 TATTTAT-ATTT-TAGATTTTAG
1 TGTTTATGATTTAT-GGTTTT-G
*
9825324 GGTTTATGATTTATGGTTTTG
1 TGTTTATGATTTATGGTTTTG
9825345 TGTTT
1 TGTTT
9825350 TTAGCGTTTA
Statistics
Matches: 34, Mismatches: 9, Indels: 8
0.67 0.18 0.16
Matches are distributed among these distances:
20 7 0.21
21 17 0.50
22 9 0.26
23 1 0.03
ACGTcount: A:0.18, C:0.00, G:0.22, T:0.60
Consensus pattern (21 bp):
TGTTTATGATTTATGGTTTTG
Found at i:9825359 original size:30 final size:29
Alignment explanation
Indices: 9825311--9825401 Score: 94
Period size: 30 Copynumber: 3.1 Consensus size: 29
9825301 AGTATTTATA
* *
9825311 TTTTAGATTTTAGGGTTTATGATTTATGGT
1 TTTTAGTTTTTAGAGTTTATG-TTTATGGT
* *
9825341 TTTGT-GTTTTTAGCGTTTATGGTTAATGGT
1 TTT-TAGTTTTTAGAGTTTAT-GTTTATGGT
* *
9825371 TTTTAGTTTTTATAGTTTATGTTTAGGGT
1 TTTTAGTTTTTAGAGTTTATGTTTATGGT
9825400 TT
1 TT
9825402 ATATGCTATA
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
29 10 0.20
30 39 0.76
31 2 0.04
ACGTcount: A:0.16, C:0.01, G:0.23, T:0.59
Consensus pattern (29 bp):
TTTTAGTTTTTAGAGTTTATGTTTATGGT
Found at i:9825383 original size:23 final size:23
Alignment explanation
Indices: 9825333--9825376 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
9825323 GGGTTTATGA
*
9825333 TTTATGGTTTTGTGTTTTTAGCG
1 TTTATGGTTATGTGTTTTTAGCG
9825356 TTTATGGTTAATG-GTTTTTAG
1 TTTATGGTT-ATGTGTTTTTAG
9825377 TTTTTATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.14, C:0.02, G:0.25, T:0.59
Consensus pattern (23 bp):
TTTATGGTTATGTGTTTTTAGCG
Found at i:9825454 original size:102 final size:103
Alignment explanation
Indices: 9825269--9825478 Score: 243
Period size: 102 Copynumber: 2.1 Consensus size: 103
9825259 GGTTTTAGGA
* * * *
9825269 TTTTA-TTTCTTATTGTTTATGTTTTAGGGTTTAGTATTTATATTTTAGATTTTAGGGTTTATGA
1 TTTTAGTTTCTTATAGTTTATGTTTTAGGGTTTAGTATCTATATTTTACATTTTAGGGTTTAGGA
* * *
9825333 TTTATGGTTTTGTGTTTTTAGCGTTTATGGTTAATGGT
66 TTTATGCTTCTGTGTTTTTAGCGTTTATGATTAATGGT
9825371 TTTTAGTTT-TTATAGTTTATG-TTTAGGGTTTA-TATGCTATATTTTACATTTTAGGGTTTTAA
1 TTTTAGTTTCTTATAGTTTATGTTTTAGGGTTTAGTAT-CTATATTTTACATTTTAGGG-TTT-A
* * **
9825433 GGTTTTATTGCTTCT-TG-TTTTAGGGTTTATGATTTGTGGT
63 GGATTTA-TGCTTCTGTGTTTTTAGCGTTTATGATTAATGGT
9825473 TTTTAG
1 TTTTAG
9825479 GGTTGTCTTT
Statistics
Matches: 92, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
100 3 0.03
101 29 0.32
102 44 0.48
103 11 0.12
104 5 0.05
ACGTcount: A:0.18, C:0.03, G:0.20, T:0.59
Consensus pattern (103 bp):
TTTTAGTTTCTTATAGTTTATGTTTTAGGGTTTAGTATCTATATTTTACATTTTAGGGTTTAGGA
TTTATGCTTCTGTGTTTTTAGCGTTTATGATTAATGGT
Found at i:9825512 original size:21 final size:21
Alignment explanation
Indices: 9825488--9825532 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
9825478 GGGTTGTCTT
*
9825488 TTTAAGGTTTATATTTTAGGG
1 TTTAAGGGTTATATTTTAGGG
*
9825509 TTTATGGGTTATATTTTAGGG
1 TTTAAGGGTTATATTTTAGGG
9825530 TTT
1 TTT
9825533 TTAATGTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.20, C:0.00, G:0.24, T:0.56
Consensus pattern (21 bp):
TTTAAGGGTTATATTTTAGGG
Found at i:9825578 original size:16 final size:16
Alignment explanation
Indices: 9825553--9825584 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9825543 GGGTTTATGG
*
9825553 TTAGGTTTTATTGTTT
1 TTAGGGTTTATTGTTT
9825569 TTAGGGTTTATTGTTT
1 TTAGGGTTTATTGTTT
9825585 GTGTTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.12, C:0.00, G:0.22, T:0.66
Consensus pattern (16 bp):
TTAGGGTTTATTGTTT
Found at i:9829792 original size:6 final size:6
Alignment explanation
Indices: 9829778--9829831 Score: 99
Period size: 6 Copynumber: 9.0 Consensus size: 6
9829768 AGATGGGAGA
*
9829778 GAATGG GAATTG GAATTG GAATTG GAATTG GAATTG GAATTG GAATTG
1 GAATTG GAATTG GAATTG GAATTG GAATTG GAATTG GAATTG GAATTG
9829826 GAATTG
1 GAATTG
9829832 AAAGAAGTAG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.33, C:0.00, G:0.35, T:0.31
Consensus pattern (6 bp):
GAATTG
Found at i:9830454 original size:25 final size:24
Alignment explanation
Indices: 9830426--9830474 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 24
9830416 AATTTAAATT
9830426 TTATATTAATATTAAATAAATATAA
1 TTATATTAATATTAAATAAA-ATAA
*
9830451 TTATATTAATCTTAAATAAAATAA
1 TTATATTAATATTAAATAAAATAA
9830475 AATCCCCTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
TTATATTAATATTAAATAAAATAA
Found at i:9837167 original size:222 final size:222
Alignment explanation
Indices: 9836781--9837201 Score: 806
Period size: 222 Copynumber: 1.9 Consensus size: 222
9836771 CTTTACACGA
*
9836781 AGAATGTACCATGAAGTTTTTGGGCAGAAGCAATGAGGACGGCTGCATTTGTAATCAATAGGCTT
1 AGAATGTACCAGGAAGTTTTTGGGCAGAAGCAATGAGGACGGCTGCATTTGTAATCAATAGGCTT
9836846 CCTCAACAAAGGTTATGTTTTATTTCACCTTTTGAAAAATTATGCAACATGAAACCTTCAGTTAG
66 CCTCAACAAAGGTTATGTTTTATTTCACCTTTTGAAAAATTATGCAACATGAAACCTTCAGTTAG
9836911 TTATTTCAGAGTTTTCGGATATGTTTACTATGTATTTGTACCTGATCATTTACGTAGCAAAATAG
131 TTATTTCAGAGTTTTCGGATATGTTTACTATGTATTTGTACCTGATCATTTACGTAGCAAAATAG
9836976 ACAAAAATTATGCAACATGAAACCTTC
196 ACAAAAATTATGCAACATGAAACCTTC
*
9837003 AGAATGTACCAGGACGTTTTTGGGCAGAAGCAATGAGGACGGCTGCATTTGTAATCAATAGGCTT
1 AGAATGTACCAGGAAGTTTTTGGGCAGAAGCAATGAGGACGGCTGCATTTGTAATCAATAGGCTT
*
9837068 CCTCAACAAATGTTATGTTTTATTTCACCTTTTGAAAAATTATGCAACATGAAACCTTCAGTTAG
66 CCTCAACAAAGGTTATGTTTTATTTCACCTTTTGAAAAATTATGCAACATGAAACCTTCAGTTAG
*
9837133 TTATTTCAGAGTTTTCGGATATGTTTTCTATGTATTTGTACCTGATCATTTACGTAGCAAAATAG
131 TTATTTCAGAGTTTTCGGATATGTTTACTATGTATTTGTACCTGATCATTTACGTAGCAAAATAG
9837198 ACAA
196 ACAA
9837202 GAAGGCTGTT
Statistics
Matches: 195, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
222 195 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (222 bp):
AGAATGTACCAGGAAGTTTTTGGGCAGAAGCAATGAGGACGGCTGCATTTGTAATCAATAGGCTT
CCTCAACAAAGGTTATGTTTTATTTCACCTTTTGAAAAATTATGCAACATGAAACCTTCAGTTAG
TTATTTCAGAGTTTTCGGATATGTTTACTATGTATTTGTACCTGATCATTTACGTAGCAAAATAG
ACAAAAATTATGCAACATGAAACCTTC
Found at i:9842683 original size:27 final size:28
Alignment explanation
Indices: 9842652--9842704 Score: 90
Period size: 27 Copynumber: 1.9 Consensus size: 28
9842642 AACTAAACAT
*
9842652 ATGATGTTTTATACTAT-CTAATTTTAC
1 ATGATGTTTTATACCATACTAATTTTAC
9842679 ATGATGTTTTATACCATACTAATTTT
1 ATGATGTTTTATACCATACTAATTTT
9842705 TAAAATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.51
Consensus pattern (28 bp):
ATGATGTTTTATACCATACTAATTTTAC
Found at i:9852236 original size:20 final size:20
Alignment explanation
Indices: 9852211--9852248 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9852201 ATATGTTTAA
*
9852211 TTGTTGAGGATTTAGTGGCG
1 TTGTTGAGGATGTAGTGGCG
*
9852231 TTGTTGAGTATGTAGTGG
1 TTGTTGAGGATGTAGTGG
9852249 AGATATTGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.16, C:0.03, G:0.39, T:0.42
Consensus pattern (20 bp):
TTGTTGAGGATGTAGTGGCG
Found at i:9857531 original size:23 final size:24
Alignment explanation
Indices: 9857501--9857545 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
9857491 AGAGACTACT
9857501 GTTATCTA-TTCTAAGTTGTTTAA
1 GTTATCTATTTCTAAGTTGTTTAA
9857524 GTTATCTATTTCTAAGTTGTTT
1 GTTATCTATTTCTAAGTTGTTT
9857546 GAATCATGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.22, C:0.09, G:0.13, T:0.56
Consensus pattern (24 bp):
GTTATCTATTTCTAAGTTGTTTAA
Found at i:9858168 original size:190 final size:190
Alignment explanation
Indices: 9857839--9858212 Score: 658
Period size: 190 Copynumber: 2.0 Consensus size: 190
9857829 ACAAGATCTC
* *
9857839 TAAAGAAATATCTGAAATAAAAATTAGATAGGATATTTCTTTAATTTCATTTATGTGAAGGGCTT
1 TAAAGAAATATCTGAAATAAAAATTAGATAGAATATTGCTTTAATTTCATTTATGTGAAGGGCTT
*
9857904 CTACCAACATTTTGCTTTATCTCTATTTCTCTCATTTTTCTTTAGGTTATATAAGGGCATTGATA
66 CTACCAACATTTTGCTTTATCTCTATTTCTCTCATTTTTCTTAAGGTTATATAAGGGCATTGATA
* *
9857969 CTGTCTGGTTTCTTTTGTCATAAGAGGGGGATCTAAGCTTATTGTACAGGGATTTTGAAA
131 CTATCTGGTTTCTTTTGTCATAAGAGCGGGATCTAAGCTTATTGTACAGGGATTTTGAAA
* **
9858029 TAAAGAAATATCTGAAATAAAAATTAGATAGAATATTGCTTTAGTTTCATTTATGTGAAGGTTTT
1 TAAAGAAATATCTGAAATAAAAATTAGATAGAATATTGCTTTAATTTCATTTATGTGAAGGGCTT
* *
9858094 TTACCAACATTTTGCTTTATCTCTATTTCTCTCATTTTTCTTAAGGTTATATACGGGCATTGATA
66 CTACCAACATTTTGCTTTATCTCTATTTCTCTCATTTTTCTTAAGGTTATATAAGGGCATTGATA
9858159 CTATCTGGTTTCTTTTGTCATAAGAGCGGGATCTAAGCTTATTGTACAGGGATT
131 CTATCTGGTTTCTTTTGTCATAAGAGCGGGATCTAAGCTTATTGTACAGGGATT
9858213 CTGAGATGAC
Statistics
Matches: 174, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
190 174 1.00
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.42
Consensus pattern (190 bp):
TAAAGAAATATCTGAAATAAAAATTAGATAGAATATTGCTTTAATTTCATTTATGTGAAGGGCTT
CTACCAACATTTTGCTTTATCTCTATTTCTCTCATTTTTCTTAAGGTTATATAAGGGCATTGATA
CTATCTGGTTTCTTTTGTCATAAGAGCGGGATCTAAGCTTATTGTACAGGGATTTTGAAA
Found at i:9859354 original size:105 final size:103
Alignment explanation
Indices: 9859169--9859374 Score: 308
Period size: 105 Copynumber: 2.0 Consensus size: 103
9859159 ACTTTGTAAG
* *
9859169 AGTCATATGCATTTCGTTTAAAATCTCGAGGTTGACCAAGCAATATAACTCTGGTTATACACGAA
1 AGTCATATGCATTTCGTTTAAAATCTCAAAGTTGACCAAGCAATATAACTCTGGTTATACACGAA
*
9859234 GAAAAAGAGACAAAAAGGAAAAAAAAAAAAGAATCTTAAT
66 GAAAAAGAGA-AAAAAAG-AAAAAAAAAAAGAATCTTAAT
* *
9859274 AGTCATATGCATTTCTTTTAAAATGTCAAAGTTGA-CAGAGCAATATAACTCTGGTTATACAC-A
1 AGTCATATGCATTTCGTTTAAAATCTCAAAGTTGACCA-AGCAATATAACTCTGGTTATACACGA
*
9859337 GAGAAAAAGAGAAAAAAAGAAAAAGAAAAAGAATCTTA
65 -AGAAAAAGAGAAAAAAAGAAAAAAAAAAAGAATCTTA
9859375 TGCCAAGCTG
Statistics
Matches: 93, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
103 18 0.19
104 9 0.10
105 66 0.71
ACGTcount: A:0.49, C:0.12, G:0.16, T:0.23
Consensus pattern (103 bp):
AGTCATATGCATTTCGTTTAAAATCTCAAAGTTGACCAAGCAATATAACTCTGGTTATACACGAA
GAAAAAGAGAAAAAAAGAAAAAAAAAAAGAATCTTAAT
Found at i:9860691 original size:190 final size:190
Alignment explanation
Indices: 9860362--9860750 Score: 733
Period size: 190 Copynumber: 2.0 Consensus size: 190
9860352 GCACTTGGCC
*
9860362 CTTGTAATGGGACAAGACAAATTTGTTTCAACAAACAGGGGTGGGCATTTTCTTAATGTTTCTAC
1 CTTGT-ATGGGACAAGACAAATTTGTTTCAACAAACAGGGATGGGCATTTTCTTAATGTTTCTAC
*
9860427 TACATGAATGTCATCATATTTACTACTTGCAACCTAATGCTCCTGTTTCTGTTCCACTTTTAGCA
65 TACATGAATGTCATCATATTTACTACTTACAACCTAATGCTCCTGTTTCTGTTCCACTTTTAGCA
9860492 TGCAAGTAATTCATTTGTCTTTTTTATCACATTCAACCTGGTCGTTATCATACATCTTTCA
130 TGCAAGTAATTCATTTGTCTTTTTTATCACATTCAACCTGGTCGTTATCATACATCTTTCA
9860553 CTTGTATGGGACAAGACAAATTTGTTTCAACAAACAGGGATGGGCATTTTCTTAATGTTTCTACT
1 CTTGTATGGGACAAGACAAATTTGTTTCAACAAACAGGGATGGGCATTTTCTTAATGTTTCTACT
* *
9860618 ACATGAATGTCATCATATTTACTACTTACAACCTACTGCTCCTGTTTGTGTTCCACTTTTAGCAT
66 ACATGAATGTCATCATATTTACTACTTACAACCTAATGCTCCTGTTTCTGTTCCACTTTTAGCAT
9860683 GCAAGTAATTCATTTGTCTTTTTTATCACATTCAACCTGGTCGTTATCATACATCTTTCA
131 GCAAGTAATTCATTTGTCTTTTTTATCACATTCAACCTGGTCGTTATCATACATCTTTCA
9860743 CTTGTATG
1 CTTGTATG
9860751 AGGTTGACAT
Statistics
Matches: 194, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
190 189 0.97
191 5 0.03
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (190 bp):
CTTGTATGGGACAAGACAAATTTGTTTCAACAAACAGGGATGGGCATTTTCTTAATGTTTCTACT
ACATGAATGTCATCATATTTACTACTTACAACCTAATGCTCCTGTTTCTGTTCCACTTTTAGCAT
GCAAGTAATTCATTTGTCTTTTTTATCACATTCAACCTGGTCGTTATCATACATCTTTCA
Found at i:9869763 original size:63 final size:64
Alignment explanation
Indices: 9869658--9869792 Score: 200
Period size: 63 Copynumber: 2.1 Consensus size: 64
9869648 GTTATCTCCG
* *
9869658 GTTTCTGCGCACCCCTATAATCTGGTCTGTCTCAAGTTCAATGGTAAGTGCCCACATTCTAGACA
1 GTTTCTGCGCACCCC-ATAATCTGGTCTGTCTCAAGTACAATGGTAAGCGCCCACATTCTAGACA
* * * *
9869723 GTTTCTGCTCACCCC-TGATCTGGTCTGTCTCAAGTACAATGGTAAGCGGCCACATTCTGGACA
1 GTTTCTGCGCACCCCATAATCTGGTCTGTCTCAAGTACAATGGTAAGCGCCCACATTCTAGACA
9869786 GTTTCTG
1 GTTTCTG
9869793 TGAAGAGGAT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
63 50 0.78
65 14 0.22
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (64 bp):
GTTTCTGCGCACCCCATAATCTGGTCTGTCTCAAGTACAATGGTAAGCGCCCACATTCTAGACA
Found at i:9884738 original size:2 final size:2
Alignment explanation
Indices: 9884733--9884772 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
9884723 CACACACACA
*
9884733 CT CT CT TT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
9884773 TTCATCATTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:9896463 original size:17 final size:19
Alignment explanation
Indices: 9896441--9896477 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
9896431 ACATAAATTC
9896441 AAAAAA-AA-AAAAGAAAA
1 AAAAAAGAAGAAAAGAAAA
*
9896458 AAAAAAGAAGAAGAGAAAA
1 AAAAAAGAAGAAAAGAAAA
9896477 A
1 A
9896478 CTAGTTATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 2 0.12
19 9 0.53
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (19 bp):
AAAAAAGAAGAAAAGAAAA
Found at i:9898671 original size:29 final size:30
Alignment explanation
Indices: 9898628--9898686 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
9898618 AAATTGAATC
*
9898628 AAATTAATATTTTATGTATAAAATTACACA
1 AAATTAATAATTTATGTATAAAATTACACA
*
9898658 AAATTAA-AATTTATGTATAATATTACACA
1 AAATTAATAATTTATGTATAAAATTACACA
9898687 TTGAACAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 20 0.74
30 7 0.26
ACGTcount: A:0.51, C:0.07, G:0.03, T:0.39
Consensus pattern (30 bp):
AAATTAATAATTTATGTATAAAATTACACA
Found at i:9898764 original size:50 final size:50
Alignment explanation
Indices: 9898706--9898807 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
9898696 TGTTTATGAG
9898706 TAGTTTTGAGATTTATCCTTAAAAGATAAATAAAGTCAATTTTTAAAATT
1 TAGTTTTGAGATTTATCCTTAAAAGATAAATAAAGTCAATTTTTAAAATT
9898756 TAGTTTTGAGATTTATCCTTAAAAGATAAATAAAGTCAATTTTTAAAATT
1 TAGTTTTGAGATTTATCCTTAAAAGATAAATAAAGTCAATTTTTAAAATT
9898806 TA
1 TA
9898808 TGATTTAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.42
Consensus pattern (50 bp):
TAGTTTTGAGATTTATCCTTAAAAGATAAATAAAGTCAATTTTTAAAATT
Found at i:9899180 original size:22 final size:22
Alignment explanation
Indices: 9899133--9899179 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
9899123 ATACCATTTG
*
9899133 TTTTGTATGTTTTTTTTTATAA
1 TTTTGTATGTTTGTTTTTATAA
9899155 TTTTGT-TGTTATGTTTTTA-AA
1 TTTTGTATGTT-TGTTTTTATAA
9899176 TTTT
1 TTTT
9899180 TTCTAATTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.17, C:0.00, G:0.11, T:0.72
Consensus pattern (22 bp):
TTTTGTATGTTTGTTTTTATAA
Found at i:9903804 original size:18 final size:17
Alignment explanation
Indices: 9903777--9903810 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
9903767 ATCCTTTTTA
9903777 TATTTTTTAAAATTATT
1 TATTTTTTAAAATTATT
9903794 TATTGTTTTAAAATTAT
1 TATT-TTTTAAAATTAT
9903811 GTGTTAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
TATTTTTTAAAATTATT
Found at i:9907285 original size:14 final size:14
Alignment explanation
Indices: 9907266--9907294 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
9907256 GACCCTTGAA
9907266 TGGGTGACATATCT
1 TGGGTGACATATCT
9907280 TGGGTGACATATCT
1 TGGGTGACATATCT
9907294 T
1 T
9907295 TTACTTACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.28, T:0.38
Consensus pattern (14 bp):
TGGGTGACATATCT
Found at i:9915386 original size:6 final size:6
Alignment explanation
Indices: 9915364--9915403 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
9915354 GGAAATGTGC
* *
9915364 TTTGTT TTGGGT TTTGTT TTTGTT TTTGTT TTTGTAT TTT
1 TTTGTT TTTGTT TTTGTT TTTGTT TTTGTT TTTGT-T TTT
9915404 CCCTGTACTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
6 25 0.86
7 4 0.14
ACGTcount: A:0.03, C:0.00, G:0.20, T:0.78
Consensus pattern (6 bp):
TTTGTT
Found at i:9946415 original size:26 final size:26
Alignment explanation
Indices: 9946378--9946427 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
9946368 ATTTTTTTCA
* * *
9946378 TCAATTTGGGTACTCGAATTAAAGGG
1 TCAATTTAGGTAATCAAATTAAAGGG
9946404 TCAATTTAGGTAATCAAATTAAAG
1 TCAATTTAGGTAATCAAATTAAAG
9946428 TTTAGGTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.32
Consensus pattern (26 bp):
TCAATTTAGGTAATCAAATTAAAGGG
Found at i:9953462 original size:4 final size:4
Alignment explanation
Indices: 9953453--9953488 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
9953443 ACCAAGTGTT
9953453 TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG
9953489 CATGCATGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:9975122 original size:12 final size:11
Alignment explanation
Indices: 9975078--9975128 Score: 68
Period size: 12 Copynumber: 4.5 Consensus size: 11
9975068 CAGTAGTGAG
9975078 TTTTTTTTTCT
1 TTTTTTTTTCT
9975089 TTTTCTTTTTCT
1 TTTT-TTTTTCT
9975101 TTTTCTTTTTCT
1 TTTT-TTTTTCT
9975113 TTTTTGTTTT-T
1 TTTTT-TTTTCT
9975124 TTTTT
1 TTTTT
9975129 GGGGGTTATA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.29
12 27 0.71
ACGTcount: A:0.00, C:0.10, G:0.02, T:0.88
Consensus pattern (11 bp):
TTTTTTTTTCT
Found at i:9975128 original size:6 final size:6
Alignment explanation
Indices: 9975078--9975116 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
9975068 CAGTAGTGAG
9975078 TTTT-T TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTT
9975117 TGTTTTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 4 0.12
6 29 0.88
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (6 bp):
TTTTCT
Found at i:9975128 original size:18 final size:17
Alignment explanation
Indices: 9975078--9975127 Score: 75
Period size: 18 Copynumber: 2.9 Consensus size: 17
9975068 CAGTAGTGAG
9975078 TTTTTTTTTCTTTTTCT
1 TTTTTTTTTCTTTTTCT
9975095 TTTTCTTTTTCTTTTTCT
1 TTTT-TTTTTCTTTTTCT
9975113 TTTTTGTTTT-TTTTT
1 TTTTT-TTTTCTTTTT
9975128 TGGGGGTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.32
18 21 0.68
ACGTcount: A:0.00, C:0.10, G:0.02, T:0.88
Consensus pattern (17 bp):
TTTTTTTTTCTTTTTCT
Found at i:9980096 original size:18 final size:18
Alignment explanation
Indices: 9980067--9980116 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 18
9980057 AACCCAGATG
*
9980067 TTATTAAATTTTATATTA
1 TTATTAATTTTTATATTA
*
9980085 TTTTTAATTTTTA-A-T-
1 TTATTAATTTTTATATTA
9980100 TTATTAATTTTT-TATTA
1 TTATTAATTTTTATATTA
9980117 AGATTTAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
15 12 0.46
16 2 0.08
17 1 0.04
18 11 0.42
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTATTAATTTTTATATTA
Found at i:9980151 original size:16 final size:15
Alignment explanation
Indices: 9980109--9980151 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 15
9980099 TTTATTAATT
9980109 TTTTATTAAGATTTAA
1 TTTTATTAA-ATTTAA
*
9980125 TTTTATT-AATTTTA
1 TTTTATTAAATTTAA
9980139 TTTTATATAAATT
1 TTTTAT-TAAATT
9980152 ACATTATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 11 0.46
15 2 0.08
16 11 0.46
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (15 bp):
TTTTATTAAATTTAA
Found at i:9993784 original size:18 final size:18
Alignment explanation
Indices: 9993755--9993804 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 18
9993745 AACCCAGATG
*
9993755 TTATTAAATTTTATATTA
1 TTATTAATTTTTATATTA
*
9993773 TTTTTAATTTTTA-A-T-
1 TTATTAATTTTTATATTA
9993788 TTATTAATTTTT-TATTA
1 TTATTAATTTTTATATTA
9993805 AGATTTAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
15 12 0.46
16 2 0.08
17 1 0.04
18 11 0.42
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTATTAATTTTTATATTA
Found at i:9993839 original size:16 final size:15
Alignment explanation
Indices: 9993797--9993839 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 15
9993787 TTTATTAATT
9993797 TTTTATTAAGATTTAA
1 TTTTATTAA-ATTTAA
*
9993813 TTTTATT-AATTTTA
1 TTTTATTAAATTTAA
9993827 TTTTATATAAATT
1 TTTTAT-TAAATT
9993840 ACATTATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 11 0.46
15 2 0.08
16 11 0.46
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (15 bp):
TTTTATTAAATTTAA
Found at i:10004153 original size:9 final size:9
Alignment explanation
Indices: 10004139--10004164 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
10004129 AATGGTAGAT
10004139 AAAATCAAC
1 AAAATCAAC
10004148 AAAATCAAC
1 AAAATCAAC
10004157 AAAATCAA
1 AAAATCAA
10004165 TAATAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.69, C:0.19, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAATCAAC
Found at i:10007497 original size:164 final size:164
Alignment explanation
Indices: 10007226--10007554 Score: 622
Period size: 164 Copynumber: 2.0 Consensus size: 164
10007216 TTTAACTTGG
* *
10007226 TTTTTTCCTCTAATGTTTTTAAATCATAACGAATATTTTTTTTTCTTAAATCATAAATTTTGAAT
1 TTTTTTCCTCTAATGTTTTTAAATCATAACGAATATTTCTATTTCTTAAATCATAAATTTTGAAT
10007291 TAGTAAAAATGCTTTCTTTTTAATGTCATTGTGAGCAAACGCTCAAAGGTTAAACGTAGAGAAGA
66 TAGTAAAAATGCTTTCTTTTTAATGTCATTGTGAGCAAACGCTCAAAGGTTAAACGTAGAGAAGA
10007356 GTAATGATAAGAGAGTTAAGTTTTCAAATAGAAT
131 GTAATGATAAGAGAGTTAAGTTTTCAAATAGAAT
10007390 TTTTTTCCTCTAATGTTTTTAAATCATAACGAATATTTCTATTTCTTAAATCATAAATTTTGAAT
1 TTTTTTCCTCTAATGTTTTTAAATCATAACGAATATTTCTATTTCTTAAATCATAAATTTTGAAT
*
10007455 TAGTAACAATGCTTTCTTTTTAATGTCATTGTGAGCAAACGCTCAAAGGTTAAACGTAGAGAAGA
66 TAGTAAAAATGCTTTCTTTTTAATGTCATTGTGAGCAAACGCTCAAAGGTTAAACGTAGAGAAGA
*
10007520 GTAATGATAAGAGAGTTCAGTTTTCAAATAGAAT
131 GTAATGATAAGAGAGTTAAGTTTTCAAATAGAAT
10007554 T
1 T
10007555 GAGATAATTT
Statistics
Matches: 161, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
164 161 1.00
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.40
Consensus pattern (164 bp):
TTTTTTCCTCTAATGTTTTTAAATCATAACGAATATTTCTATTTCTTAAATCATAAATTTTGAAT
TAGTAAAAATGCTTTCTTTTTAATGTCATTGTGAGCAAACGCTCAAAGGTTAAACGTAGAGAAGA
GTAATGATAAGAGAGTTAAGTTTTCAAATAGAAT
Found at i:10013755 original size:33 final size:33
Alignment explanation
Indices: 10013713--10013778 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
10013703 AACATAATAC
10013713 GTAAGCATCATGATCCTTTTCTTTCTGGGAAAT
1 GTAAGCATCATGATCCTTTTCTTTCTGGGAAAT
10013746 GTAAGCATCATGATCCTTTTCTTTCTGGGAAAT
1 GTAAGCATCATGATCCTTTTCTTTCTGGGAAAT
10013779 AAAAAATTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (33 bp):
GTAAGCATCATGATCCTTTTCTTTCTGGGAAAT
Found at i:10017862 original size:33 final size:35
Alignment explanation
Indices: 10017825--10017922 Score: 91
Period size: 33 Copynumber: 2.9 Consensus size: 35
10017815 ATGGTTATAT
10017825 TTAAATATTTAAAATATAATTTATATATT-C-TAA
1 TTAAATATTTAAAATATAATTTATATATTACTTAA
* *
10017858 TTAAAT-TTTATAA-ATAATTAATATTTATTACTTAA
1 TTAAATATTTAAAATATAATT--TATATATTACTTAA
*
10017893 --AAATATTTAAAATTTATATTTCATATATTA
1 TTAAATATTTAAAATATA-ATTT-ATATATTA
10017923 AAATATTAAC
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 6 0.12
32 6 0.12
33 17 0.33
34 8 0.15
35 12 0.23
36 3 0.06
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (35 bp):
TTAAATATTTAAAATATAATTTATATATTACTTAA
Found at i:10017912 original size:30 final size:30
Alignment explanation
Indices: 10017873--10017929 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
10017863 TTTTATAAAT
10017873 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
10017903 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
10017930 AACAATAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:10031284 original size:28 final size:29
Alignment explanation
Indices: 10031246--10031311 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
10031236 ACCAATAAAA
*
10031246 GCTG-TTTTTTTAAAATTTATCGAAATGG
1 GCTGATTTTTTGAAAATTTATCGAAATGG
** *
10031274 GCTGATTTTTTGATTATTTATCGGAATGG
1 GCTGATTTTTTGAAAATTTATCGAAATGG
*
10031303 G-TCATTTTT
1 GCTGATTTTT
10031312 CGCGAAATCG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 11 0.34
29 21 0.66
ACGTcount: A:0.23, C:0.08, G:0.20, T:0.50
Consensus pattern (29 bp):
GCTGATTTTTTGAAAATTTATCGAAATGG
Found at i:10033398 original size:21 final size:21
Alignment explanation
Indices: 10033359--10033398 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
10033349 TTATATTTAA
*
10033359 ATAAAGTTATTTATTTTTTTT
1 ATAAAATTATTTATTTTTTTT
*
10033380 ATAAAATT-TTTATTATTTT
1 ATAAAATTATTTATTTTTTT
10033399 ATTTTTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (21 bp):
ATAAAATTATTTATTTTTTTT
Found at i:10033402 original size:14 final size:14
Alignment explanation
Indices: 10033385--10033412 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
10033375 TTTTTATAAA
10033385 ATTTTTATTATTTT
1 ATTTTTATTATTTT
10033399 ATTTTTATTATTTT
1 ATTTTTATTATTTT
10033413 TAATGACAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
ATTTTTATTATTTT
Found at i:10034737 original size:45 final size:44
Alignment explanation
Indices: 10034673--10034760 Score: 115
Period size: 45 Copynumber: 2.0 Consensus size: 44
10034663 ATTAGAGGTG
*
10034673 TAATGAAATAGAGGTGTAATAGCAAATCAAT-TGTTTGGTTGAATA
1 TAATGAAATAGAGGCGTAATAG-AAATC-ATGTGTTTGGTTGAATA
* * *
10034718 TAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAAT
1 TAATGAAATAGAGGCGTAATAGAAATCATGTGTTTGGTTGAAT
10034761 GGAATAGAGG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
43 1 0.03
44 17 0.45
45 20 0.53
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (44 bp):
TAATGAAATAGAGGCGTAATAGAAATCATGTGTTTGGTTGAATA
Found at i:10034943 original size:16 final size:16
Alignment explanation
Indices: 10034906--10034947 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
10034896 TTAATCATAT
*
10034906 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
10034922 TT-AAATATATTATAA
1 TTAAAATATATTATAA
10034937 TTAAAATATAT
1 TTAAAATATAT
10034948 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:10034954 original size:14 final size:15
Alignment explanation
Indices: 10034915--10034956 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
10034905 TTTAAACATA
*
10034915 ATTATTATTAAATAT
1 ATTATAATTAAATAT
10034930 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
10034944 A-TATAATTTAATA
1 ATTATAATTAAATA
10034957 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:10038572 original size:41 final size:41
Alignment explanation
Indices: 10038388--10038585 Score: 229
Period size: 41 Copynumber: 4.8 Consensus size: 41
10038378 ATTTAAATAG
* * * * **
10038388 ATTCACTGGCACTTCA-CCTGATAGGCTTATAGTTTAATTCA
1 ATTCACCGGCACTT-AGCCTGCTAGACGTATAGTCCAATTCA
* * * * *
10038429 GTTCACCGGCACTTAGCCTGCTAGGCTTGTAG-CCTGATTCA
1 ATTCACCGGCACTTAGCCTGCTAGACGTATAGTCC-AATTCA
* *
10038470 GTTCACCGGCACTTAGCCTGCTAGACGTATAGTCCGATTCA
1 ATTCACCGGCACTTAGCCTGCTAGACGTATAGTCCAATTCA
* *
10038511 ATTCACCGGCATTTAGCCTGCTAGATGTATAGTCCAATTCA
1 ATTCACCGGCACTTAGCCTGCTAGACGTATAGTCCAATTCA
10038552 ATTCACCGGCACTTAGCCTGCTAGACGTATAGTC
1 ATTCACCGGCACTTAGCCTGCTAGACGTATAGTC
10038586 TGAATAATTT
Statistics
Matches: 138, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
40 1 0.01
41 135 0.98
42 2 0.01
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (41 bp):
ATTCACCGGCACTTAGCCTGCTAGACGTATAGTCCAATTCA
Found at i:10038598 original size:41 final size:41
Alignment explanation
Indices: 10038430--10038603 Score: 208
Period size: 41 Copynumber: 4.2 Consensus size: 41
10038420 TTTAATTCAG
* * * * * *
10038430 TTCACCGGCACTTAGCCTGCTAGGCTTGTAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGACGTATAGTCTGAATCAA
* *
10038471 TTCACCGGCACTTAGCCTGCTAGACGTATAGTCCGATTCAA
1 TTCACCGGCACTTAGCCTGCTAGACGTATAGTCTGAATCAA
* * *
10038512 TTCACCGGCATTTAGCCTGCTAGATGTATAGTC-CAATTCAA
1 TTCACCGGCACTTAGCCTGCTAGACGTATAGTCTGAA-TCAA
10038553 TTCACCGGCACTTAGCCTGCTAGACGTATAGTCTGAAT-AA
1 TTCACCGGCACTTAGCCTGCTAGACGTATAGTCTGAATCAA
*
10038593 TTTCACTGGCA
1 -TTCACCGGCA
10038604 ATAAATCCGA
Statistics
Matches: 116, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
40 3 0.03
41 111 0.96
42 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGACGTATAGTCTGAATCAA
Found at i:10040258 original size:13 final size:13
Alignment explanation
Indices: 10040240--10040264 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10040230 CAATCAAATG
10040240 CACACAAAATAAA
1 CACACAAAATAAA
10040253 CACACAAAATAA
1 CACACAAAATAA
10040265 TATTAATAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:10054658 original size:16 final size:17
Alignment explanation
Indices: 10054632--10054666 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
10054622 TCTATATTTT
*
10054632 ATTTGTTTTCAGATAAA
1 ATTTGTTTTCAAATAAA
10054649 ATTT-TTTTCAAATAAA
1 ATTTGTTTTCAAATAAA
10054665 AT
1 AT
10054667 ATTAATCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.49
Consensus pattern (17 bp):
ATTTGTTTTCAAATAAA
Found at i:10062109 original size:34 final size:34
Alignment explanation
Indices: 10062059--10062141 Score: 112
Period size: 34 Copynumber: 2.4 Consensus size: 34
10062049 CAAACATTTC
* * *
10062059 AACAATTGATTCAAAAGAAATAATATTTTAATAT
1 AACAATCGATTTAAAAGAAATAATATTCTAATAT
* *
10062093 AACAATCGATTTAAAAGGAGTAATATTCTAATAT
1 AACAATCGATTTAAAAGAAATAATATTCTAATAT
*
10062127 GACAATCGATTTAAA
1 AACAATCGATTTAAA
10062142 CATAAAAACA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33
Consensus pattern (34 bp):
AACAATCGATTTAAAAGAAATAATATTCTAATAT
Found at i:10083591 original size:29 final size:27
Alignment explanation
Indices: 10083554--10083655 Score: 93
Period size: 26 Copynumber: 3.8 Consensus size: 27
10083544 TGTTGTAAAA
*
10083554 TTTTATATATTTTTCATAATATTATAGT
1 TTTTATATATTTTTAATAATATTATA-T
** *
10083582 CTTTTATATATTTTTAATTGTA-TGTAT
1 -TTTTATATATTTTTAATAATATTATAT
* *
10083609 TTTTATATATTTTTTATAAAATTATA-
1 TTTTATATATTTTTAATAATATTATAT
*
10083635 TTATATAT-TTTTTAAATAATA
1 TTTTATATATTTTT-AATAATA
10083656 ATAACAAAAA
Statistics
Matches: 59, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
25 5 0.08
26 29 0.49
27 4 0.07
28 3 0.05
29 18 0.31
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (27 bp):
TTTTATATATTTTTAATAATATTATAT
Found at i:10085082 original size:27 final size:26
Alignment explanation
Indices: 10085063--10085129 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 26
10085053 CCTATCAAGT
10085063 AGGCGCCAATGAAGGTGCCTCATAGAG
1 AGGCGCCAATGAAGGTGCCT-ATAGAG
10085090 AGGCGCCAATGAAGGTGCCTTATAGAG
1 AGGCGCCAATGAAGGTGCC-TATAGAG
10085117 AGGCGCCAATGAA
1 AGGCGCCAATGAA
10085130 ATTTATGTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 38 0.97
28 1 0.03
ACGTcount: A:0.31, C:0.21, G:0.33, T:0.15
Consensus pattern (26 bp):
AGGCGCCAATGAAGGTGCCTATAGAG
Found at i:10085337 original size:19 final size:20
Alignment explanation
Indices: 10085337--10085422 Score: 73
Period size: 22 Copynumber: 3.8 Consensus size: 20
10085327 AAATTATAAT
10085337 ATTACAATATTCATACAAAAA
1 ATTACAATATTCATAC-AAAA
*
10085358 ATTGCAATATTCATACAAAATTATAA
1 ATTACAATATTCATAC---A--A-AA
10085384 TATTACAATATTCATACAAAAAA
1 -ATTACAATATTCATAC--AAAA
10085407 ATTACAATATTCATAC
1 ATTACAATATTCATAC
10085423 TAAATATAGA
Statistics
Matches: 57, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
21 15 0.26
22 16 0.28
23 4 0.07
24 1 0.02
25 1 0.02
26 5 0.09
27 15 0.26
ACGTcount: A:0.52, C:0.14, G:0.01, T:0.33
Consensus pattern (20 bp):
ATTACAATATTCATACAAAA
Found at i:10085346 original size:27 final size:23
Alignment explanation
Indices: 10085310--10085428 Score: 127
Period size: 27 Copynumber: 4.9 Consensus size: 23
10085300 ATATCCCGAC
10085310 ATTACAATATTCATACAAAATTATAA
1 ATTACAATATTCATAC-AAA-TA-AA
10085336 TATTACAATATTCATAC-AA-AAA
1 -ATTACAATATTCATACAAATAAA
*
10085358 ATTGCAATATTCATACAAAATTATAA
1 ATTACAATATTCATAC-AAA-TA-AA
10085384 TATTACAATATTCATACAAA-AAA
1 -ATTACAATATTCATACAAATAAA
10085407 ATTACAATATTCATACTAAATA
1 ATTACAATATTCATAC-AAATA
10085429 TAGATAATCT
Statistics
Matches: 82, Mismatches: 2, Indels: 19
0.80 0.02 0.18
Matches are distributed among these distances:
21 15 0.18
22 18 0.22
23 8 0.10
24 2 0.02
25 3 0.04
26 5 0.06
27 31 0.38
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.34
Consensus pattern (23 bp):
ATTACAATATTCATACAAATAAA
Found at i:10085377 original size:48 final size:48
Alignment explanation
Indices: 10085257--10085427 Score: 222
Period size: 48 Copynumber: 3.5 Consensus size: 48
10085247 AATTAATTAT
*
10085257 AAAATAATTACAATATTCATACAAAAAATTACAATATTACAATA-T-AT-C
1 AAAA-AATTACAATATTCATAC--AAAATTATAATATTACAATATTCATAC
*** *
10085305 CCGACATTACAATATTCATACAAAATTATAATATTACAATATTCATAC
1 AAAAAATTACAATATTCATACAAAATTATAATATTACAATATTCATAC
*
10085353 AAAAAATTGCAATATTCATACAAAATTATAATATTACAATATTCATAC
1 AAAAAATTACAATATTCATACAAAATTATAATATTACAATATTCATAC
*
10085401 AAAAAAATTACAATATTCATACTAAAT
1 -AAAAAATTACAATATTCATACAAAAT
10085428 ATAGATAATC
Statistics
Matches: 107, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
45 19 0.18
46 1 0.01
47 18 0.17
48 45 0.42
49 24 0.22
ACGTcount: A:0.53, C:0.14, G:0.01, T:0.32
Consensus pattern (48 bp):
AAAAAATTACAATATTCATACAAAATTATAATATTACAATATTCATAC
Found at i:10085501 original size:27 final size:27
Alignment explanation
Indices: 10085463--10085519 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
10085453 ATAACAAAAA
10085463 AATATTGCAATTTTATATGAATATTGT
1 AATATTGCAATTTTATATGAATATTGT
* * *
10085490 AATATTGTAATTTTGTGTGAATATTGT
1 AATATTGCAATTTTATATGAATATTGT
10085517 AAT
1 AAT
10085520 GTCGGGATGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.35, C:0.02, G:0.14, T:0.49
Consensus pattern (27 bp):
AATATTGCAATTTTATATGAATATTGT
Found at i:10085735 original size:8 final size:8
Alignment explanation
Indices: 10085722--10085785 Score: 56
Period size: 8 Copynumber: 7.4 Consensus size: 8
10085712 AATTTGTATG
10085722 AATATTGT
1 AATATTGT
10085730 AATATTGT
1 AATATTGT
*
10085738 AATTTTGTAT
1 AATATTG--T
10085748 GAATATTGT
1 -AATATTGT
* *
10085757 AATATCGGG
1 AATAT-TGT
10085766 ACATATTGT
1 A-ATATTGT
10085775 AATATTGT
1 AATATTGT
10085783 AAT
1 AAT
10085786 TTTTTGTATG
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
8 29 0.64
9 5 0.11
10 5 0.11
11 6 0.13
ACGTcount: A:0.36, C:0.03, G:0.16, T:0.45
Consensus pattern (8 bp):
AATATTGT
Found at i:10085953 original size:19 final size:19
Alignment explanation
Indices: 10085925--10085965 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
10085915 ACAAACGCAA
* *
10085925 AAATTTATAACATAATCCT
1 AAATTCATAACATAACCCT
10085944 AAATTCATAACATAACCCT
1 AAATTCATAACATAACCCT
10085963 AAA
1 AAA
10085966 CCCGAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.51, C:0.20, G:0.00, T:0.29
Consensus pattern (19 bp):
AAATTCATAACATAACCCT
Found at i:10086115 original size:20 final size:20
Alignment explanation
Indices: 10086078--10086115 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10086068 GGGAAAGTAT
*
10086078 AAAATTATATTTTATTTAAA
1 AAAATTATATTATATTTAAA
10086098 AAAATTATTATTAT-TTTA
1 AAAATTA-TATTATATTTA
10086116 TTCATTTGCG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
AAAATTATATTATATTTAAA
Done.