Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 153 of 172
Found at i:44310387 original size:2 final size:2
Alignment explanation
Indices: 44310332--44310375 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
44310322 TATTGCAGTT
44310332 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
44310374 TC
1 TC
44310376 GTTCTATCTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:44318232 original size:22 final size:22
Alignment explanation
Indices: 44318189--44318233 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
44318179 TGTAACAAGA
***
44318189 TTTTAATTTAACACGTTTAATT
1 TTTTAATTTAACACGAACAATT
*
44318211 TTTTAATTTAACTCGAACAATT
1 TTTTAATTTAACACGAACAATT
44318233 T
1 T
44318234 CACTCGATTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.11, G:0.04, T:0.51
Consensus pattern (22 bp):
TTTTAATTTAACACGAACAATT
Found at i:44322268 original size:21 final size:22
Alignment explanation
Indices: 44322244--44322286 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
44322234 TATATTTACT
*
44322244 AATTTT-TTTTTTATTTTTTTC
1 AATTTTCTTATTTATTTTTTTC
44322265 AATTTTCTTATTTATTTTTTTC
1 AATTTTCTTATTTATTTTTTTC
44322287 TAACAAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (22 bp):
AATTTTCTTATTTATTTTTTTC
Found at i:44331498 original size:41 final size:41
Alignment explanation
Indices: 44331446--44331544 Score: 153
Period size: 41 Copynumber: 2.4 Consensus size: 41
44331436 GGCTTTGTGC
* *
44331446 CTAGCAAGCTTAATGCCGGTAAAATATTTCAGACTTTACGT
1 CTAGCAGGCTTAATGCCGGTAAAATATTTCAGACCTTACGT
* *
44331487 CTAGTAGGCTTAATGCCGGTGAAATATTTCAGACCTTACGT
1 CTAGCAGGCTTAATGCCGGTAAAATATTTCAGACCTTACGT
*
44331528 CTAGCAGGTTTAATGCC
1 CTAGCAGGCTTAATGCC
44331545 AGTGTATTGA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (41 bp):
CTAGCAGGCTTAATGCCGGTAAAATATTTCAGACCTTACGT
Found at i:44337278 original size:9 final size:9
Alignment explanation
Indices: 44337238--44337288 Score: 52
Period size: 9 Copynumber: 5.6 Consensus size: 9
44337228 TTTGTTTAAG
44337238 TTATATATAA
1 TTAT-TATAA
*
44337248 ATATTAT-A
1 TTATTATAA
44337256 TGTA-TATAAA
1 T-TATTAT-AA
44337266 TTATTATAA
1 TTATTATAA
44337275 TTATTATAA
1 TTATTATAA
44337284 TTATT
1 TTATT
44337289 TATTCAAATG
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
8 4 0.11
9 23 0.66
10 8 0.23
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (9 bp):
TTATTATAA
Found at i:44338345 original size:3 final size:3
Alignment explanation
Indices: 44338331--44338365 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
44338321 GTGAGGTAAG
*
44338331 TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
44338366 GTGGGAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:44344943 original size:25 final size:23
Alignment explanation
Indices: 44344903--44344949 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
44344893 TTATTTTAAT
44344903 ATTATTATTACTATTAT-ATTAC
1 ATTATTATTACTATTATCATTAC
44344925 ATTATTATTATCATCATTATCATTA
1 ATTATTATTA-C-T-ATTATCATTA
44344950 TTTACTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 10 0.48
23 1 0.05
24 1 0.05
25 5 0.24
26 4 0.19
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.53
Consensus pattern (23 bp):
ATTATTATTACTATTATCATTAC
Found at i:44351636 original size:28 final size:28
Alignment explanation
Indices: 44351584--44351637 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
44351574 ATTAAGATTC
**
44351584 AATTGATGATACATATTTACCTTTAAAA
1 AATTGATGATACATATTTAAATTTAAAA
44351612 AATTGATGATACATATTTAAATTTAA
1 AATTGATGATACATATTTAAATTTAA
44351638 CTGAAATCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.41
Consensus pattern (28 bp):
AATTGATGATACATATTTAAATTTAAAA
Found at i:44366092 original size:19 final size:19
Alignment explanation
Indices: 44366046--44366094 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
44366036 AACAGCTTCA
* *
44366046 AAATATTAAACAGAAGAGG
1 AAATATAAAACAGAAGAAG
*
44366065 AACTAATAAAACAGAAGAAG
1 AAAT-ATAAAACAGAAGAAG
44366085 AAATATAAAA
1 AAATATAAAA
44366095 GAAACTCTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.65, C:0.06, G:0.14, T:0.14
Consensus pattern (19 bp):
AAATATAAAACAGAAGAAG
Found at i:44367533 original size:196 final size:197
Alignment explanation
Indices: 44367139--44367537 Score: 791
Period size: 196 Copynumber: 2.0 Consensus size: 197
44367129 ATTTTTTTCA
44367139 CATTTAATTACATCTCATTAAAAATATTTCACATCATCCTTGTTAAATTTTTTAACAGTGCTTTC
1 CATTTAATTACATCTCATTAAAAATATTTCACATCATCCTTGTTAAATTTTTTAACAGTGCTTTC
44367204 ATCAAATTTGCTAAAAAAACAGTTTGAAAAAAAAAAGTTGATGCCAAAAAAAAGCTCAAAAAAAC
66 ATCAAATTTGCTAAAAAAACAGTTTGAAAAAAAAAAGTTGATGCCAAAAAAAAGCTCAAAAAAAC
44367269 AATTAAGGTCATTTTAACAAAACATGTATAATTTAGTGGCCAAATTCTATTTTTAATGTTTTTAG
131 AATTAAGGTCATTTTAACAAAACATGTATAATTTAGTGGCCAAATTCTATTTTTAATGTTTTTAG
44367334 TG
196 TG
44367336 CATTTAATTACATCTCATTAAAAATATTTCACATCATCCTTGTTAAATTTTTTAACAGTGCTTTC
1 CATTTAATTACATCTCATTAAAAATATTTCACATCATCCTTGTTAAATTTTTTAACAGTGCTTTC
44367401 ATCAAATTTGCTAAAAAAACAGTTTG-AAAAAAAAAGTTGATGCCAAAAAAAAGCTCAAAAAAAC
66 ATCAAATTTGCTAAAAAAACAGTTTGAAAAAAAAAAGTTGATGCCAAAAAAAAGCTCAAAAAAAC
44367465 AATTAAGGTCATTTTAACAAAACATGTATAATTTAGTGGCCAAATTCTATTTTTAATGTTTTTAG
131 AATTAAGGTCATTTTAACAAAACATGTATAATTTAGTGGCCAAATTCTATTTTTAATGTTTTTAG
44367530 TG
196 TG
44367532 CATTTA
1 CATTTA
44367538 GTGTATTATA
Statistics
Matches: 202, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
196 111 0.55
197 91 0.45
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.36
Consensus pattern (197 bp):
CATTTAATTACATCTCATTAAAAATATTTCACATCATCCTTGTTAAATTTTTTAACAGTGCTTTC
ATCAAATTTGCTAAAAAAACAGTTTGAAAAAAAAAAGTTGATGCCAAAAAAAAGCTCAAAAAAAC
AATTAAGGTCATTTTAACAAAACATGTATAATTTAGTGGCCAAATTCTATTTTTAATGTTTTTAG
TG
Found at i:44368467 original size:8 final size:8
Alignment explanation
Indices: 44368456--44368482 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
44368446 TCTTTACTAA
44368456 TTTAAAAT
1 TTTAAAAT
44368464 TTTAAAAT
1 TTTAAAAT
44368472 TTTAAAAT
1 TTTAAAAT
44368480 TTT
1 TTT
44368483 TCATTTTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (8 bp):
TTTAAAAT
Found at i:44369143 original size:2 final size:2
Alignment explanation
Indices: 44369136--44369172 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
44369126 AATAGATATT
44369136 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
44369173 TTCTTATACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:44369242 original size:14 final size:14
Alignment explanation
Indices: 44369223--44369262 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
44369213 TTGATTGGCA
44369223 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
44369237 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
44369251 GGAAAATGTTTT
1 GTAAAATGTTTT
44369263 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:44369275 original size:34 final size:35
Alignment explanation
Indices: 44369231--44369297 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
44369221 CAGTAAAATG
* *
44369231 TTTTCCGTAAAAT-GATTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGGATTACTGGAAAATATTTTAC
* *
44369265 TTTTCTGTAAAATGGCTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGGATTACTGGAAAATATTTT
44369298 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 12 0.43
35 16 0.57
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGGATTACTGGAAAATATTTTAC
Found at i:44369284 original size:20 final size:20
Alignment explanation
Indices: 44369246--44369285 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
44369236 CGTAAAATGA
**
44369246 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGGCTTACT
*
44369266 TTTCTGTAAAATGGCTTACT
1 TTTCTGGAAAATGGCTTACT
44369286 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.12, G:0.15, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGGCTTACT
Found at i:44407442 original size:13 final size:13
Alignment explanation
Indices: 44407424--44407460 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
44407414 GGGGTATAGT
44407424 AATATATTAAAAA
1 AATATATTAAAAA
44407437 AATATATT-AAAA
1 AATATATTAAAAA
*
44407449 AATATAGTAAAA
1 AATATATTAAAA
44407461 TATTAAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (13 bp):
AATATATTAAAAA
Found at i:44407464 original size:33 final size:33
Alignment explanation
Indices: 44407418--44407483 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
44407408 GTCCTAGGGG
*
44407418 TATAGTAATATATTAAAAAA-ATATATTAAAAAA
1 TATAGTAAAATATTAAAAAATATAT-TTAAAAAA
*
44407451 TATAGTAAAATATTAAAACATATATTTAAAAAA
1 TATAGTAAAATATTAAAAAATATATTTAAAAAA
44407484 GAGACATGAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 26 0.87
34 4 0.13
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (33 bp):
TATAGTAAAATATTAAAAAATATATTTAAAAAA
Found at i:44407563 original size:3 final size:3
Alignment explanation
Indices: 44407555--44407579 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
44407545 AATATTAACC
44407555 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
44407580 GTTTGTCAGC
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:44409213 original size:86 final size:85
Alignment explanation
Indices: 44409099--44409269 Score: 297
Period size: 86 Copynumber: 2.0 Consensus size: 85
44409089 TCTTCCTTCT
*
44409099 CTTCTTTCTTCCTCTTTTTCTCTCTCCTTTGGTTTCACAGAAGGAAAAAAAAAAGAAAGCTAAAA
1 CTTCTATCTTCCTCTTTTTCTCTCTCCTTTGGTTTCACAGAAGG-AAAAAAAAAGAAAGCTAAAA
44409164 GTAGGCTAACATGGAAAAGAA
65 GTAGGCTAACATGGAAAAGAA
** *
44409185 CTTCTATCTTCCTCTTTTTCTCTCTCCTTTGGTTTCACAGAAGGGGAAAAAAAGAAAGTTAAAAG
1 CTTCTATCTTCCTCTTTTTCTCTCTCCTTTGGTTTCACAGAAGGAAAAAAAAAGAAAGCTAAAAG
44409250 TAGGCTAACATGGAAAAGAA
66 TAGGCTAACATGGAAAAGAA
44409270 AATGGACTCA
Statistics
Matches: 81, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
85 38 0.47
86 43 0.53
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.30
Consensus pattern (85 bp):
CTTCTATCTTCCTCTTTTTCTCTCTCCTTTGGTTTCACAGAAGGAAAAAAAAAGAAAGCTAAAAG
TAGGCTAACATGGAAAAGAA
Found at i:44416128 original size:3 final size:3
Alignment explanation
Indices: 44416111--44416156 Score: 58
Period size: 3 Copynumber: 15.7 Consensus size: 3
44416101 GTCTGTTAAT
* * *
44416111 TAA TAA TGA TGA TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA -AA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
44416157 GCTGTAAGTC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:44416128 original size:12 final size:12
Alignment explanation
Indices: 44416111--44416152 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
44416101 GTCTGTTAAT
*
44416111 TAATAATGATGA
1 TAATAATAATGA
*
44416123 TAATAATAATAA
1 TAATAATAATGA
44416135 TAATAATAATGA
1 TAATAATAATGA
44416147 TAATAA
1 TAATAA
44416153 AATAGCTGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (12 bp):
TAATAATAATGA
Found at i:44432864 original size:6 final size:6
Alignment explanation
Indices: 44432853--44432880 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
44432843 ATAAATGAGT
44432853 GAAGTG GAAGTG GAAGTG GAAGTG GAAG
1 GAAGTG GAAGTG GAAGTG GAAGTG GAAG
44432881 ACGGCCGGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.50, T:0.14
Consensus pattern (6 bp):
GAAGTG
Found at i:44433381 original size:16 final size:17
Alignment explanation
Indices: 44433348--44433381 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
44433338 GTGTATTATT
44433348 AAATTAATACTACAAATC
1 AAATTAATAC-ACAAATC
44433366 AAATTAATAC-CAAATC
1 AAATTAATACACAAATC
44433382 CATCAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
18 10 0.62
ACGTcount: A:0.56, C:0.18, G:0.00, T:0.26
Consensus pattern (17 bp):
AAATTAATACACAAATC
Found at i:44446298 original size:20 final size:20
Alignment explanation
Indices: 44446273--44446329 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
44446263 TACCTTTTGT
* *
44446273 AAATTATTAAATTTCTTACA
1 AAATTACTAAATTTCTTAAA
** *
44446293 AAATTACCGAATATCTTAAA
1 AAATTACTAAATTTCTTAAA
44446313 AAATTACTAAA-TTCTTA
1 AAATTACTAAATTTCTTA
44446330 TAATATTATT
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
19 5 0.17
20 24 0.83
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.39
Consensus pattern (20 bp):
AAATTACTAAATTTCTTAAA
Found at i:44447515 original size:19 final size:19
Alignment explanation
Indices: 44447491--44447529 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
44447481 AATAATTAAC
* * *
44447491 TTTATATTTCATATAATTT
1 TTTATAATTAATAAAATTT
44447510 TTTATAATTAATAAAATTT
1 TTTATAATTAATAAAATTT
44447529 T
1 T
44447530 ATAACGTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTATAATTAATAAAATTT
Found at i:44457625 original size:20 final size:21
Alignment explanation
Indices: 44457583--44457625 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
44457573 TTGAGAGTGG
**
44457583 ATATTTTTAATTTAATTTTAA
1 ATATTTTTAATTTAATTAAAA
44457604 ATATTTTT-ATTTAATTAAAA
1 ATATTTTTAATTTAATTAAAA
44457624 AT
1 AT
44457626 GTCGCATGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
ATATTTTTAATTTAATTAAAA
Found at i:44467020 original size:9 final size:9
Alignment explanation
Indices: 44467006--44467039 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
44466996 TTTGGTTAAA
44467006 AATTACCCG
1 AATTACCCG
44467015 AATTACCCG
1 AATTACCCG
*
44467024 AATTAACCG
1 AATTACCCG
44467033 AATTACC
1 AATTACC
44467040 GAAAAATACC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.38, C:0.29, G:0.09, T:0.24
Consensus pattern (9 bp):
AATTACCCG
Found at i:44475239 original size:72 final size:74
Alignment explanation
Indices: 44475114--44475250 Score: 188
Period size: 74 Copynumber: 1.9 Consensus size: 74
44475104 TAACCTGATG
* ** * * * *
44475114 TCGTTTTAAAGGTTTAGCTTGGACATGTAACTTGACATGTATATATATTTAGCTTGGACAAGCAA
1 TCGTTATAAAGGTTTAGCTCAGACAGGTAACCTAACATGTATATATACTTAGCTTGGACAAGCAA
44475179 TCAGATGTC
66 TCAGATGTC
*
44475188 TCGTTATAAAGGTTTAGCTCAGACAGGTAACCTAACATG-A-ATATACTTAGCTTGGACGAGCAA
1 TCGTTATAAAGGTTTAGCTCAGACAGGTAACCTAACATGTATATATACTTAGCTTGGACAAGCAA
44475251 ATGGTGTAAC
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
72 21 0.38
73 1 0.02
74 33 0.60
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.32
Consensus pattern (74 bp):
TCGTTATAAAGGTTTAGCTCAGACAGGTAACCTAACATGTATATATACTTAGCTTGGACAAGCAA
TCAGATGTC
Found at i:44475547 original size:3 final size:3
Alignment explanation
Indices: 44475539--44475569 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
44475529 AAAATTCACC
44475539 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
44475570 GATTTGCCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:44477237 original size:14 final size:15
Alignment explanation
Indices: 44477215--44477291 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
44477205 CAATCAAACA
44477215 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
44477229 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
44477244 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
44477264 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
44477278 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
44477292 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:44477256 original size:20 final size:20
Alignment explanation
Indices: 44477231--44477270 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
44477221 AATATTTTCC
*
44477231 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
44477251 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
44477271 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:44477276 original size:34 final size:35
Alignment explanation
Indices: 44477219--44477285 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
44477209 CAAACACCAG
*
44477219 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
44477254 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
44477286 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:44498892 original size:49 final size:49
Alignment explanation
Indices: 44498820--44498917 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
44498810 TGGTTTTAAA
44498820 ATAATTAAAGTTAATGGAAGCTGACGGGAACCATTACTACTAGTGCATT
1 ATAATTAAAGTTAATGGAAGCTGACGGGAACCATTACTACTAGTGCATT
44498869 ATAATTAAAGTTAATGGAAGCTGACGGGAACCATTACTACTAGTGCATT
1 ATAATTAAAGTTAATGGAAGCTGACGGGAACCATTACTACTAGTGCATT
44498918 CTTTTTCAGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (49 bp):
ATAATTAAAGTTAATGGAAGCTGACGGGAACCATTACTACTAGTGCATT
Found at i:44499841 original size:99 final size:99
Alignment explanation
Indices: 44499669--44499867 Score: 371
Period size: 99 Copynumber: 2.0 Consensus size: 99
44499659 TCCGGGGCTT
44499669 TGGCACCAAAAATGCAGATCTCAGTTATTTAACTTTCTTGGTAATTTATAAATTAGTTGCAGAAC
1 TGGCACCAAAAATGCAGATCTCAGTTATTTAACTTTCTTGGTAATTTATAAATTAGTTGCAGAAC
44499734 ATTGTTGGGAACTTGGTCATTGTATTTGTCTCCC
66 ATTGTTGGGAACTTGGTCATTGTATTTGTCTCCC
*
44499768 TGGCACCAAAAATGCAGATCTCAGTTATTTAACTTTCTTGGTAATTTATAATTTAGTTGCAGAAC
1 TGGCACCAAAAATGCAGATCTCAGTTATTTAACTTTCTTGGTAATTTATAAATTAGTTGCAGAAC
* *
44499833 ATTTTTGGGAACTTGGTCATTGTATTTGTGTCCC
66 ATTGTTGGGAACTTGGTCATTGTATTTGTCTCCC
44499867 T
1 T
44499868 ACCAATATAT
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
99 97 1.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.40
Consensus pattern (99 bp):
TGGCACCAAAAATGCAGATCTCAGTTATTTAACTTTCTTGGTAATTTATAAATTAGTTGCAGAAC
ATTGTTGGGAACTTGGTCATTGTATTTGTCTCCC
Found at i:44503356 original size:14 final size:15
Alignment explanation
Indices: 44503298--44503356 Score: 54
Period size: 14 Copynumber: 4.1 Consensus size: 15
44503288 AAAATCTTCC
*
44503298 TTTTTTAA-ATTTTA
1 TTTTTTAATATATTA
*
44503312 TATTTTAAATATATT-
1 T-TTTTTAATATATTA
44503327 TTTGTTT-ATATATTA
1 TTT-TTTAATATATTA
44503342 TTTTTTAATAT-TTA
1 TTTTTTAATATATTA
44503356 T
1 T
44503357 ATATTTTTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 17 0.46
15 16 0.43
16 4 0.11
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (15 bp):
TTTTTTAATATATTA
Found at i:44503374 original size:19 final size:20
Alignment explanation
Indices: 44503331--44503384 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 20
44503321 TATATTTTTG
**
44503331 TTTATATATTATTTTTTAATA
1 TTTATATATT-TTTTGAAATA
44503352 TTTATATATTTTTTGAAAT-
1 TTTATATATTTTTTGAAATA
*
44503371 TTTATGTATTTTTT
1 TTTATATATTTTTT
44503385 ATTTTGATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 13 0.43
20 7 0.23
21 10 0.33
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.69
Consensus pattern (20 bp):
TTTATATATTTTTTGAAATA
Found at i:44531692 original size:5 final size:5
Alignment explanation
Indices: 44531682--44531731 Score: 100
Period size: 5 Copynumber: 10.0 Consensus size: 5
44531672 ATTACTTAAT
44531682 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
44531732 GAAAATGTAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 45 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:44533221 original size:6 final size:6
Alignment explanation
Indices: 44533205--44533234 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
44533195 TTTAATTACA
44533205 ATAATAT ATAAAT ATAAAT ATAAAT ATAAA
1 ATAA-AT ATAAAT ATAAAT ATAAAT ATAAA
44533235 ATTATTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.83
7 4 0.17
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
ATAAAT
Found at i:44536802 original size:30 final size:31
Alignment explanation
Indices: 44536763--44536821 Score: 102
Period size: 30 Copynumber: 1.9 Consensus size: 31
44536753 CAATTACTAT
*
44536763 TAGTGTATTTTAAAAAT-AAAAAAATATATG
1 TAGTATATTTTAAAAATAAAAAAAATATATG
44536793 TAGTATATTTTAAAAATAAAAAAAATATA
1 TAGTATATTTTAAAAATAAAAAAAATATA
44536822 GTTTATATTC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 16 0.59
31 11 0.41
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.36
Consensus pattern (31 bp):
TAGTATATTTTAAAAATAAAAAAAATATATG
Found at i:44538902 original size:34 final size:35
Alignment explanation
Indices: 44538862--44538928 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
44538852 TTTTGTTGGC
* *
44538862 ATTTTATTTATCAATTT-ATTTTTTTTGCCTTTTA
1 ATTTTATTTATCAATTTAATTTATGTTGCCTTTTA
44538896 ATTTTATTTATCAATTTAATTTATGTTGCCTTT
1 ATTTTATTTATCAATTTAATTTATGTTGCCTTT
44538929 GCAATTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.22, C:0.09, G:0.04, T:0.64
Consensus pattern (35 bp):
ATTTTATTTATCAATTTAATTTATGTTGCCTTTTA
Found at i:44538915 original size:18 final size:18
Alignment explanation
Indices: 44538862--44538917 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
44538852 TTTTGTTGGC
44538862 ATTTTATTTATCAATTT-
1 ATTTTATTTATCAATTTA
**
44538879 ATTTT-TTT-TGCCTTTTA
1 ATTTTATTTAT-CAATTTA
44538896 ATTTTATTTATCAATTTA
1 ATTTTATTTATCAATTTA
44538914 ATTT
1 ATTT
44538918 ATGTTGCCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
15 1 0.03
16 7 0.23
17 10 0.32
18 12 0.39
19 1 0.03
ACGTcount: A:0.25, C:0.07, G:0.02, T:0.66
Consensus pattern (18 bp):
ATTTTATTTATCAATTTA
Found at i:44543809 original size:2 final size:2
Alignment explanation
Indices: 44543804--44543838 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
44543794 AATGGATATA
*
44543804 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TT TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
44543839 TCATGATTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.46, T:0.54
Consensus pattern (2 bp):
TG
Found at i:44553457 original size:21 final size:21
Alignment explanation
Indices: 44553433--44553472 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
44553423 TAATATTTTT
*
44553433 TTTATTAAATAATAAATTTGG
1 TTTAATAAATAATAAATTTGG
**
44553454 TTTAATAAATTTTAAATTT
1 TTTAATAAATAATAAATTT
44553473 TCTCATAAAT
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:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (21 bp):
TTTAATAAATAATAAATTTGG
Found at i:44563266 original size:41 final size:41
Alignment explanation
Indices: 44563209--44563294 Score: 163
Period size: 41 Copynumber: 2.1 Consensus size: 41
44563199 TTTATTGCTA
*
44563209 AAACAGAAGAAAAGGAATTTCTCATGACTCATTTAAAGTTT
1 AAACAGAAGAAAAGGAATTTCTCATAACTCATTTAAAGTTT
44563250 AAACAGAAGAAAAGGAATTTCTCATAACTCATTTAAAGTTT
1 AAACAGAAGAAAAGGAATTTCTCATAACTCATTTAAAGTTT
44563291 AAAC
1 AAAC
44563295 TTCCAGATAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.28
Consensus pattern (41 bp):
AAACAGAAGAAAAGGAATTTCTCATAACTCATTTAAAGTTT
Found at i:44568189 original size:25 final size:25
Alignment explanation
Indices: 44568160--44568226 Score: 89
Period size: 25 Copynumber: 2.6 Consensus size: 25
44568150 TTTTTATTTT
44568160 TATTTTTTAATTTTTAATTTTAAAA
1 TATTTTTTAATTTTTAATTTTAAAA
* *
44568185 TATTTTTTATTTTTTATTTTTAAAA
1 TATTTTTTAATTTTTAATTTTAAAA
* *
44568210 TAATGTTTTAATGTTTA
1 T-ATTTTTTAATTTTTA
44568227 TTAAAAATGG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
25 24 0.67
26 12 0.33
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (25 bp):
TATTTTTTAATTTTTAATTTTAAAA
Found at i:44568206 original size:6 final size:7
Alignment explanation
Indices: 44568150--44568205 Score: 51
Period size: 7 Copynumber: 7.6 Consensus size: 7
44568140 AATAAATATA
44568150 TTTTTA-
1 TTTTTAT
44568156 TTTTTAT
1 TTTTTAT
44568163 TTTTTAAT
1 TTTTT-AT
*
44568171 TTTTAAT
1 TTTTTAT
*
44568178 TTTAAAATAT
1 TTT---TTAT
44568188 TTTTTAT
1 TTTTTAT
44568195 TTTTTAT
1 TTTTTAT
44568202 TTTT
1 TTTT
44568206 AAAATAATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
6 6 0.15
7 24 0.59
8 6 0.15
10 5 0.12
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTAT
Found at i:44570137 original size:19 final size:19
Alignment explanation
Indices: 44570113--44570152 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
44570103 TTTTCTGCCC
* *
44570113 TTTTAAATATTTAAGAATA
1 TTTTAAAAATATAAGAATA
44570132 TTTTAAAAATATAAGAATA
1 TTTTAAAAATATAAGAATA
44570151 TT
1 TT
44570153 GAGTTTCTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (19 bp):
TTTTAAAAATATAAGAATA
Found at i:44570371 original size:10 final size:10
Alignment explanation
Indices: 44570356--44570381 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
44570346 TATGAAGACC
44570356 AAATTCTAAT
1 AAATTCTAAT
44570366 AAATTCTAAT
1 AAATTCTAAT
44570376 AAATTC
1 AAATTC
44570382 GTCCTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (10 bp):
AAATTCTAAT
Found at i:44571790 original size:14 final size:14
Alignment explanation
Indices: 44571771--44571799 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
44571761 CCCGGATAGA
44571771 AACTATTGAAACAG
1 AACTATTGAAACAG
44571785 AACTATTGAAACAG
1 AACTATTGAAACAG
44571799 A
1 A
44571800 CTTCACTTTT
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:0.52, C:0.14, G:0.14, T:0.21
Consensus pattern (14 bp):
AACTATTGAAACAG
Found at i:44573958 original size:31 final size:31
Alignment explanation
Indices: 44573920--44573978 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
44573910 AATAAAAGCA
44573920 ATATTAAT-TGAATATTAATTAATATGGTAGT
1 ATATTAATGTGAA-ATTAATTAATATGGTAGT
*
44573951 ATATTAATGTGAAATTAATTAATTTGGT
1 ATATTAATGTGAAATTAATTAATATGGT
44573979 CATATCTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 22 0.85
32 4 0.15
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.46
Consensus pattern (31 bp):
ATATTAATGTGAAATTAATTAATATGGTAGT
Found at i:44574296 original size:24 final size:23
Alignment explanation
Indices: 44574259--44574307 Score: 80
Period size: 24 Copynumber: 2.1 Consensus size: 23
44574249 GTACTTTCCA
44574259 TGTATGTAATTTTGAAATTCATC
1 TGTATGTAATTTTGAAATTCATC
*
44574282 TGTATGTGAATTTTGAAATTGATC
1 TGTATGT-AATTTTGAAATTCATC
44574306 TG
1 TG
44574308 ATCATTAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.29, C:0.06, G:0.18, T:0.47
Consensus pattern (23 bp):
TGTATGTAATTTTGAAATTCATC
Found at i:44575481 original size:26 final size:26
Alignment explanation
Indices: 44575427--44575481 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
44575417 AGATGTTTAG
* * *
44575427 TTATTGTTATTTGATATTTGATAGTT
1 TTATTATTATTTGATATTTAATAATT
44575453 TTATTATTATTTGAT-TTTAATAATAT
1 TTATTATTATTTGATATTTAATAAT-T
44575479 TTA
1 TTA
44575482 CATAATTGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (26 bp):
TTATTATTATTTGATATTTAATAATT
Found at i:44578182 original size:31 final size:31
Alignment explanation
Indices: 44578115--44578173 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
44578105 TTAACTTTTT
44578115 CATAATGACAAATATAAAAATATATATTTAA
1 CATAATGACAAATATAAAAATATATATTTAA
44578146 CATAATGGA-AAATATAAAAA-ATATATTT
1 CATAAT-GACAAATATAAAAATATATATTT
44578174 TTATATAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 8 0.30
31 17 0.63
32 2 0.07
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (31 bp):
CATAATGACAAATATAAAAATATATATTTAA
Found at i:44581420 original size:29 final size:29
Alignment explanation
Indices: 44581365--44581421 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
44581355 GTTTAATGTG
* *
44581365 TAATTTTATACGTGAATTTTGATTTTGAA
1 TAATTTTATACATGAATTTTGAATTTGAA
*
44581394 TAATTTTATATATGAAATTTT-AATTTGA
1 TAATTTTATACATG-AATTTTGAATTTGA
44581422 TTCAATTCTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 18 0.75
30 6 0.25
ACGTcount: A:0.35, C:0.02, G:0.11, T:0.53
Consensus pattern (29 bp):
TAATTTTATACATGAATTTTGAATTTGAA
Found at i:44584530 original size:37 final size:37
Alignment explanation
Indices: 44584489--44584599 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
44584479 TAGTTTTAGC
44584489 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
*
44584526 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGC
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
****
44584563 TACACTTATCTGATCAAGTGGTAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
44584600 AGCCTAGCTA
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.28
Consensus pattern (37 bp):
TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
Found at i:44592135 original size:37 final size:37
Alignment explanation
Indices: 44592094--44592241 Score: 251
Period size: 37 Copynumber: 4.0 Consensus size: 37
44592084 TAGTTTTAGC
44592094 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
44592131 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
*
44592168 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGC
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
****
44592205 TACACTTATCTGATCAAGTGGTAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
44592242 AGCCTAGCTA
Statistics
Matches: 105, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 105 1.00
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.28
Consensus pattern (37 bp):
TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
Found at i:44599792 original size:36 final size:37
Alignment explanation
Indices: 44599710--44599856 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
44599700 TAGTTTTAGC
44599710 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
44599747 TACACTTATCTGATCAAGAAACAAAGTGATAAGT-GT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
*
44599783 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGC
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
****
44599820 TACACTTATCTGATCAAGTGGTAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
44599857 AGCCTAGCTA
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
36 36 0.35
37 67 0.65
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.28
Consensus pattern (37 bp):
TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
Found at i:44628322 original size:38 final size:37
Alignment explanation
Indices: 44628220--44628367 Score: 219
Period size: 37 Copynumber: 4.0 Consensus size: 37
44628210 TAGTTTTAGC
44628220 TACACTTATCTGATCAAG-AACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
44628256 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
*
44628293 TACAC-TATCTGATCAAAAGAAACAAAGTGATAAGTGGC
1 TACACTTATCTGATC--AAGAAACAAAGTGATAAGTGGT
****
44628331 TACACTTATCTGATCAAGTGGTAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
44628368 AGCCTAGCTA
Statistics
Matches: 102, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
36 27 0.26
37 40 0.39
38 26 0.25
39 9 0.09
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (37 bp):
TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
Found at i:44628327 original size:75 final size:73
Alignment explanation
Indices: 44628220--44628367 Score: 217
Period size: 75 Copynumber: 2.0 Consensus size: 73
44628210 TAGTTTTAGC
*
44628220 TACACTTATCTGATCAAGAACAAAGTGATAAGTGGTTACACTTATCTGATCAAGAAACAAAGTGA
1 TACACTTATCTGATCAAGAACAAAGTGATAAGTGGCTACACTTATCTGATCAAGAAACAAAGTGA
44628285 TAAGTGGT
66 TAAGTGGT
****
44628293 TACAC-TATCTGATCAAAAGAAACAAAGTGATAAGTGGCTACACTTATCTGATCAAGTGGTAAAG
1 TACACTTATCTGATC--AAG-AACAAAGTGATAAGTGGCTACACTTATCTGATCAAGAAACAAAG
44628357 TGATAAGTGGT
63 TGATAAGTGGT
44628368 AGCCTAGCTA
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
72 9 0.13
73 5 0.07
74 3 0.04
75 50 0.75
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (73 bp):
TACACTTATCTGATCAAGAACAAAGTGATAAGTGGCTACACTTATCTGATCAAGAAACAAAGTGA
TAAGTGGT
Found at i:44630555 original size:31 final size:28
Alignment explanation
Indices: 44630520--44630576 Score: 69
Period size: 31 Copynumber: 1.9 Consensus size: 28
44630510 TAACGGATCT
*
44630520 TAATTTGGAGCTCTGTAGCTCCGGATAAAAA
1 TAATTTAGAGCTCTG-A-CT-CGGATAAAAA
*
44630551 TAATTTAGTGCTCTGACTCGGATAAA
1 TAATTTAGAGCTCTGACTCGGATAAA
44630577 CAGCTTTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 8 0.33
29 2 0.08
30 1 0.04
31 13 0.54
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.32
Consensus pattern (28 bp):
TAATTTAGAGCTCTGACTCGGATAAAAA
Found at i:44631065 original size:44 final size:40
Alignment explanation
Indices: 44631000--44631131 Score: 108
Period size: 40 Copynumber: 3.1 Consensus size: 40
44630990 CACTTATCTG
*
44631000 ATCAAGTGACAAGTGGAAAGTGAAAGATAGCTTCGGCTATACTT
1 ATCAAGTGACAAGAGGAAAGT----GATAGCTTCGGCTATACTT
*
44631044 ATCAAGTGATAA-AGGATAAGTGATAGCTTCGGCTATACTTATCT
1 ATCAAGTGACAAGAGGA-AAGTGATAGCTTCGGCTATAC---T-T
*
44631088 GATCAAGTGACAA-AGTGATAAGTGATAGCTTC-GCTACACTT
1 -ATCAAGTGACAAGAG-GA-AAGTGATAGCTTCGGCTATACTT
44631129 ATC
1 ATC
44631132 TGATCAAGTG
Statistics
Matches: 77, Mismatches: 4, Indels: 18
0.78 0.04 0.18
Matches are distributed among these distances:
40 20 0.26
41 1 0.01
42 1 0.01
43 4 0.05
44 16 0.21
45 19 0.25
46 16 0.21
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (40 bp):
ATCAAGTGACAAGAGGAAAGTGATAGCTTCGGCTATACTT
Found at i:44631079 original size:40 final size:41
Alignment explanation
Indices: 44631025--44631131 Score: 137
Period size: 40 Copynumber: 2.5 Consensus size: 41
44631015 GAAAGTGAAA
*
44631025 GATAGCTTCGGCTATACTTATCAAGTGATAAAG-GATAAGT
1 GATAGCTTCGGCTATACTTATCAAGTGACAAAGTGATAAGT
44631065 GATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GATAGCTTCGGCTATAC---T-T-ATCAAGTGACAAAGTGATAAGT
*
44631111 GATAGCTTC-GCTACACTTATC
1 GATAGCTTCGGCTATACTTATC
44631132 TGATCAAGTG
Statistics
Matches: 59, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
40 20 0.34
41 1 0.02
42 1 0.02
43 1 0.02
44 1 0.02
45 19 0.32
46 16 0.27
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.31
Consensus pattern (41 bp):
GATAGCTTCGGCTATACTTATCAAGTGACAAAGTGATAAGT
Found at i:44631169 original size:50 final size:50
Alignment explanation
Indices: 44631099--44631297 Score: 224
Period size: 50 Copynumber: 4.1 Consensus size: 50
44631089 ATCAAGTGAC
*
44631099 AAAGTGATAAGTGATAGCTTCGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCGCTACACTTATCTGATCAAGAGACAAGTG
*
44631149 AAAGTGATAAGTGATAGCTTCGCTACACTTATCTGATCAAG-GAAAAAGTG
1 AAAGTGATAAGTGATAGCTTCGCTACACTTATCTGATCAAGAG-ACAAGTG
*
44631199 AAAAGTGATAAGTGA-AGCTTCGGCTATAC---TCTGATCAAGAGAC-----
1 -AAAGTGATAAGTGATAGCTTC-GCTACACTTATCTGATCAAGAGACAAGTG
* *
44631242 -AAGTGATAA-TGATAGTTTAGCTACACTTATCTGATCAAGAGACAAAGTG
1 AAAGTGATAAGTGATAGCTTCGCTACACTTATCTGATCAAGAGAC-AAGTG
44631291 ATAAGTG
1 A-AAGTG
44631298 GCTACACTTA
Statistics
Matches: 127, Mismatches: 6, Indels: 31
0.77 0.04 0.19
Matches are distributed among these distances:
40 9 0.07
41 13 0.10
43 14 0.11
48 11 0.09
49 2 0.02
50 53 0.42
51 25 0.20
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (50 bp):
AAAGTGATAAGTGATAGCTTCGCTACACTTATCTGATCAAGAGACAAGTG
Found at i:44631348 original size:33 final size:37
Alignment explanation
Indices: 44631261--44631350 Score: 152
Period size: 35 Copynumber: 2.5 Consensus size: 37
44631251 TGATAGTTTA
44631261 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
44631298 GCTACACTTATCTGATCAA-A-ACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
44631333 GCTAC-C-TATCTGATCAAG
1 GCTACACTTATCTGATCAAG
44631351 TGATAGTGTA
Statistics
Matches: 52, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
33 11 0.21
34 1 0.02
35 20 0.38
36 1 0.02
37 19 0.37
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.26
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:44632695 original size:49 final size:49
Alignment explanation
Indices: 44632634--44632826 Score: 323
Period size: 49 Copynumber: 3.9 Consensus size: 49
44632624 ATGTGAACAT
44632634 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
44632684 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* *
44632733 GTGATATGTGATTTCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* * * *
44632782 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCG
44632827 AGAAAACGAA
Statistics
Matches: 137, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
49 133 0.97
50 4 0.03
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (49 bp):
GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
Found at i:44636002 original size:46 final size:46
Alignment explanation
Indices: 44635918--44636283 Score: 323
Period size: 46 Copynumber: 7.6 Consensus size: 46
44635908 TTTGAGTACT
* * *
44635918 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCT-TTAGCTACACTTA
1 TCTGATCAAGTGA-CAAGTGATAAGTGATAGCTATCAGCTACACTTA
* * *
44635964 TCTGATCAAGTGACAAGTGGA-AAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAAGT-GATAAGTGAT-AG--CTA---TCAGCTACACTTA
* * *
44636016 TCTGATCAAGTGATAAAGTGATAAGTGATAGCT-TCGGCTATACTTA
1 TCTGATCAAGTGA-CAAGTGATAAGTGATAGCTATCAGCTACACTTA
44636062 TCTGATCAAGTGACAAAGTGATAAGTGATAGCT-TCAGCTACACTTA
1 TCTGATCAAGTGAC-AAGTGATAAGTGATAGCTATCAGCTACACTTA
*
44636108 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCT-TCGGCTACACTTA
1 TCTGATCAAGTGAC-------AAGTGATAAGTGATAGCTATCAGCTACACTTA
* * *
44636160 TCTGATCAAGTGAAAGTGAAAAGTGATAAGTGATAGCT-TCGGCTATACTTA
1 TCTGATC------AAGTGACAAGTGATAAGTGATAGCTATCAGCTACACTTA
* *
44636211 TCTGATCAAGAGACAAAGTGATAAGTGATAGCT-TTAGCTACACTTA
1 TCTGATCAAGTGAC-AAGTGATAAGTGATAGCTATCAGCTACACTTA
44636257 TCTGATCAAGTGACAAAGTGATAAGTG
1 TCTGATCAAGTGAC-AAGTGATAAGTG
44636284 GCTACACTTA
Statistics
Matches: 276, Mismatches: 20, Indels: 48
0.80 0.06 0.14
Matches are distributed among these distances:
45 15 0.05
46 140 0.51
48 1 0.00
50 1 0.00
51 37 0.13
52 65 0.24
53 11 0.04
58 6 0.02
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.29
Consensus pattern (46 bp):
TCTGATCAAGTGACAAGTGATAAGTGATAGCTATCAGCTACACTTA
Found at i:44636038 original size:98 final size:97
Alignment explanation
Indices: 44635918--44636283 Score: 501
Period size: 98 Copynumber: 3.7 Consensus size: 97
44635908 TTTGAGTACT
* *
44635918 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-
*
44635983 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
65 GAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
44636016 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
44636076 AAAGTGATAAGTGATAGCTTCAGCTACACTTA
66 AAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
44636108 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 TCTGATCAAGTG---A-T--AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
44636173 -AAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
60 CAAGTG-AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* * *
44636211 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGT
44636276 GATAAGTG
65 GA-AAGTG
44636284 GCTACACTTA
Statistics
Matches: 239, Mismatches: 14, Indels: 29
0.85 0.05 0.10
Matches are distributed among these distances:
92 41 0.17
95 1 0.00
96 1 0.00
97 43 0.18
98 101 0.42
99 10 0.04
100 1 0.00
103 41 0.17
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.29
Consensus pattern (97 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:44636265 original size:195 final size:196
Alignment explanation
Indices: 44635932--44636283 Score: 607
Period size: 195 Copynumber: 1.8 Consensus size: 196
44635922 ATCAAGTGAT
* * *
44635932 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
* * * *
44635997 ATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
44636062 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
131 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
44636127 G
196 G
* *
44636128 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA-AAGTGAAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
*
44636192 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
44636257 TCTGATCAAGTGACAAAGTGATAAGTG
131 TCTGATCAAGTGACAAAGTGATAAGTG
44636284 GCTACACTTA
Statistics
Matches: 146, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
195 104 0.71
196 42 0.29
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (196 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
G
Found at i:44636291 original size:37 final size:37
Alignment explanation
Indices: 44636247--44636354 Score: 168
Period size: 37 Copynumber: 3.0 Consensus size: 37
44636237 GATAGCTTTA
*
44636247 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
44636284 GCTACACTTATCTGATCAAGAAACAAAGTGAT-AGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
44636320 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
44636355 ATCATACGTA
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
34 7 0.11
35 8 0.12
36 21 0.32
37 30 0.45
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:44641907 original size:40 final size:41
Alignment explanation
Indices: 44641840--44641946 Score: 139
Period size: 40 Copynumber: 2.7 Consensus size: 41
44641830 CGTTTGAACA
44641840 AAAAACGCCGCTAAAAATCAAGCATTAGCGGCG-CTTTAGG
1 AAAAACGCCGCTAAAAATCAAGCATTAGCGGCGTCTTTAGG
* * * * *
44641880 AAAAACGCCGCTAAAGATCCAGTATTAGCGGCGTTTTTTGG
1 AAAAACGCCGCTAAAAATCAAGCATTAGCGGCGTCTTTAGG
*
44641921 -AAAACGCCGCTAAAAATGAA-CATTAG
1 AAAAACGCCGCTAAAAATCAAGCATTAG
44641947 TGGCATTTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
39 5 0.09
40 47 0.82
41 5 0.09
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (41 bp):
AAAAACGCCGCTAAAAATCAAGCATTAGCGGCGTCTTTAGG
Found at i:44642173 original size:41 final size:40
Alignment explanation
Indices: 44642013--44642203 Score: 242
Period size: 41 Copynumber: 4.7 Consensus size: 40
44642003 TTTTTCAGGG
*
44642013 CTTTAGCGGCGTTTTTCGAAAAGCGCTGCTAATGCTCGGGT
1 CTTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATGCTCGGGT
* *
44642054 CTTTAGCGGCATTTTTGGAGAAGCGCCGCTAATGCTCGGGT
1 CTTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATGCTCGGGT
* *
44642095 CTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTCTGGT
1 CTTTAGCGGCGTTTTTGAA-AAGCGCCGCTAATGCTCGGGT
**
44642136 CTTTAGCGGCGTTTTTGATAAAGCGCCGCTAATGCTC-TAT
1 CTTTAGCGGCGTTTTTGA-AAAGCGCCGCTAATGCTCGGGT
* *
44642176 TTTTAGC-GCGTTTTTTAAAAAGCGCCGC
1 CTTTAGCGGCG-TTTTTGAAAAGCGCCGC
44642204 AAAAAATATT
Statistics
Matches: 136, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 13 0.10
40 15 0.11
41 107 0.79
42 1 0.01
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.32
Consensus pattern (40 bp):
CTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTCGGGT
Found at i:44643304 original size:21 final size:20
Alignment explanation
Indices: 44643270--44643372 Score: 59
Period size: 21 Copynumber: 5.0 Consensus size: 20
44643260 TATAGATTTA
*
44643270 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
*
44643290 GGGATTTAAGGTTTAGGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
** * *
44643311 ATGAGTTAGGGATT-AGGAGTT
1 GGGA-TTAAGGTTTAAGG-GTT
* *
44643332 AGGGATTTAGGGTTTTAAGGGTC
1 -GGGA-TTAAGG-TTTAAGGGTT
44643355 GGG-TTAAGGTTT-AGGGTT
1 GGGATTAAGGTTTAAGGGTT
44643373 TAGATTAATT
Statistics
Matches: 63, Mismatches: 15, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
18 5 0.08
19 3 0.05
20 11 0.17
21 26 0.41
22 11 0.17
23 4 0.06
24 3 0.05
ACGTcount: A:0.21, C:0.01, G:0.41, T:0.37
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:44643319 original size:14 final size:14
Alignment explanation
Indices: 44643302--44643338 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
44643292 GATTTAAGGT
* *
44643302 TTAGGGGTTATGAG
1 TTAGGGATTAGGAG
44643316 TTAGGGATTAGGAG
1 TTAGGGATTAGGAG
44643330 TTAGGGATT
1 TTAGGGATT
44643339 TAGGGTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.41, T:0.35
Consensus pattern (14 bp):
TTAGGGATTAGGAG
Found at i:44646784 original size:43 final size:43
Alignment explanation
Indices: 44646731--44646893 Score: 229
Period size: 43 Copynumber: 3.8 Consensus size: 43
44646721 AAGATATATT
* * *
44646731 TTTAGTGGCGTTTGTTTG-AAAAGCGCCGCTAAAAGCCATGGTC
1 TTTAGTGGCGTTTG-TGGAAAAAGCGCCGCTAAAGGTCATGGTC
* * *
44646774 TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCATGGTT
1 TTTAGTGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTC
* * *
44646817 TTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTAGTC
1 TTTAGTGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTC
44646860 TTTAGTGGCGTTTGTGGAAAAAGCGCCGCTAAAG
1 TTTAGTGGCGTTTGTGGAAAAAGCGCCGCTAAAG
44646894 TTAGCGACGC
Statistics
Matches: 108, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 2 0.02
43 106 0.98
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (43 bp):
TTTAGTGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:44646874 original size:86 final size:86
Alignment explanation
Indices: 44646729--44646893 Score: 258
Period size: 86 Copynumber: 1.9 Consensus size: 86
44646719 AAAAGATATA
** * *
44646729 TTTTTAGTGGCGTTTGTTTGAAAAGCGCCGCTAAAAGCCATGGTCTTTAGCGGCGTTTGTGGTAA
1 TTTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAAGCCATAGTCTTTAGCGGCGTTTGTGGAAA
44646794 AAGCGCCGCTAAAGGTCATGG
66 AAGCGCCGCTAAAGGTCATGG
* * * *
44646815 TTTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTAGTCTTTAGTGGCGTTTGTGGAAA
1 TTTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAAGCCATAGTCTTTAGCGGCGTTTGTGGAAA
44646880 AAGCGCCGCTAAAG
66 AAGCGCCGCTAAAG
44646894 TTAGCGACGC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
86 71 1.00
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.30
Consensus pattern (86 bp):
TTTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAAGCCATAGTCTTTAGCGGCGTTTGTGGAAA
AAGCGCCGCTAAAGGTCATGG
Found at i:44646993 original size:22 final size:22
Alignment explanation
Indices: 44646965--44647008 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
44646955 TAGTGGCGCT
* *
44646965 AAAAAGCGTCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
44646987 AAAAAGCGCCGCTAAAAGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
44647009 TTTTGGTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.25, G:0.20, T:0.11
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:44656607 original size:10 final size:10
Alignment explanation
Indices: 44656592--44656616 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
44656582 GTTGCCAAAT
44656592 AATCTCACAA
1 AATCTCACAA
44656602 AATCTCACAA
1 AATCTCACAA
44656612 AATCT
1 AATCT
44656617 TAAAAACTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (10 bp):
AATCTCACAA
Found at i:44658265 original size:42 final size:41
Alignment explanation
Indices: 44658204--44658362 Score: 178
Period size: 41 Copynumber: 3.9 Consensus size: 41
44658194 TTCTACCTTT
*
44658204 TCAGATCTTTAGCGTCGTTTGTAGAAAAAGCGCCGCTAATGC
1 TCAGATCTTTAGCGGCGTTT-TAGAAAAAGCGCCGCTAATGC
* *
44658246 TCAGATATTTAGCGGCGTTTTTAG-AAGAGCGCCGCTAATGC
1 TCAGATCTTTAGCGGCG-TTTTAGAAAAAGCGCCGCTAATGC
* ** *
44658287 TTAGATCTTTAGCGGCGTTTTCCAAGAAGCGCCGCTAATGC
1 TCAGATCTTTAGCGGCGTTTTAGAAAAAGCGCCGCTAATGC
* * * *
44658328 TC-GAGGCTTTAGCGACGTTTTTGAAAAAGCACCGC
1 TCAGA-TCTTTAGCGGCGTTTTAGAAAAAGCGCCGC
44658363 AAAAAACATT
Statistics
Matches: 98, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
40 6 0.06
41 71 0.72
42 18 0.18
43 3 0.03
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (41 bp):
TCAGATCTTTAGCGGCGTTTTAGAAAAAGCGCCGCTAATGC
Found at i:44658822 original size:14 final size:14
Alignment explanation
Indices: 44658803--44658837 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
44658793 GAATGTTTAT
*
44658803 GGGTTAGGGGTTAA
1 GGGTTAGAGGTTAA
44658817 GGGTTAGAGGTTAA
1 GGGTTAGAGGTTAA
*
44658831 GAGTTAG
1 GGGTTAG
44658838 TGATTTAGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.46, T:0.29
Consensus pattern (14 bp):
GGGTTAGAGGTTAA
Found at i:44659265 original size:43 final size:43
Alignment explanation
Indices: 44659210--44659403 Score: 171
Period size: 43 Copynumber: 4.6 Consensus size: 43
44659200 TAGTGGCGTT
*
44659210 TTTGTGAG--AAGCGCCGCTAAAGGTATTGAGCTATAGCGGCG
1 TTTGTGAGAAAAGCGCTGCTAAAGGTATTGAGCTATAGCGGCG
* * * * *
44659251 TTTGTGGGAAAAGCGTTGCTAAAGGTCTCGATCTATAGCGGCG
1 TTTGTGAGAAAAGCGCTGCTAAAGGTATTGAGCTATAGCGGCG
* * * * ** * *
44659294 TTTGTAATAACAGTGCTGCTAAATCTCTTGAGCTATAGTGGCG
1 TTTGTGAGAAAAGCGCTGCTAAAGGTATTGAGCTATAGCGGCG
* * *
44659337 TTTGTGGGAAAAGCG-TCGCTAAATG-ACTTGAGCTATAGCGGTG
1 TTTGTGAGAAAAGCGCT-GCTAAAGGTA-TTGAGCTATAGCGGCG
* *
44659380 TTTGTTAGAAAAGCGATGCTAAAG
1 TTTGTGAGAAAAGCGCTGCTAAAG
44659404 ACCCTGACCT
Statistics
Matches: 119, Mismatches: 29, Indels: 8
0.76 0.19 0.05
Matches are distributed among these distances:
41 7 0.06
42 1 0.01
43 110 0.92
44 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.29
Consensus pattern (43 bp):
TTTGTGAGAAAAGCGCTGCTAAAGGTATTGAGCTATAGCGGCG
Found at i:44659400 original size:86 final size:86
Alignment explanation
Indices: 44659235--44659402 Score: 228
Period size: 86 Copynumber: 2.0 Consensus size: 86
44659225 GCTAAAGGTA
* * *
44659235 TTGAGCTATAGCGGCGTTTGTGGGAAAAGCGTTGCTAAAGGTCTCGATCTATAGCGGCGTTTGTA
1 TTGAGCTATAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGACTCGAGCTATAGCGGCGTTTGTA
* * * *
44659300 ATAACAGTGCTGCTAAATCTC
66 AGAAAAGCGATGCTAAATCTC
* * * * *
44659321 TTGAGCTATAGTGGCGTTTGTGGGAAAAGCGTCGCTAAATGACTTGAGCTATAGCGGTGTTTGTT
1 TTGAGCTATAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGACTCGAGCTATAGCGGCGTTTGTA
44659386 AGAAAAGCGATGCTAAA
66 AGAAAAGCGATGCTAAA
44659403 GACCCTGACC
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
86 70 1.00
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (86 bp):
TTGAGCTATAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGACTCGAGCTATAGCGGCGTTTGTA
AGAAAAGCGATGCTAAATCTC
Found at i:44659423 original size:86 final size:86
Alignment explanation
Indices: 44659240--44659425 Score: 212
Period size: 86 Copynumber: 2.2 Consensus size: 86
44659230 AGGTATTGAG
* * * * *
44659240 CTATAGCGGCGTTTGTGGGAAAAGCGTTGCTAAAGGTCTCGATCTATAGCGGCGTTTGTAATAAC
1 CTATAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGACTCGAGCTATAGCGGCGTTTGTAAGAAA
* * * * *
44659305 AGTGCTGCTAAATCTCTTGAG
66 AGCGATGCTAAAACTCCTGAC
* * * * *
44659326 CTATAGTGGCGTTTGTGGGAAAAGCGTCGCTAAATGACTTGAGCTATAGCGGTGTTTGTTAGAAA
1 CTATAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGACTCGAGCTATAGCGGCGTTTGTAAGAAA
44659391 AGCGATGCTAAAGAC-CCTGAC
66 AGCGATGCTAAA-ACTCCTGAC
*
44659412 CTTTAGCGGCGTTT
1 CTATAGCGGCGTTT
44659426 TTTGCTGCGC
Statistics
Matches: 82, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
86 81 0.99
87 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (86 bp):
CTATAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGACTCGAGCTATAGCGGCGTTTGTAAGAAA
AGCGATGCTAAAACTCCTGAC
Found at i:44659501 original size:22 final size:21
Alignment explanation
Indices: 44659468--44659512 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
44659458 TTTAGCGGCG
*
44659468 CTAAAAAACGCCGCTAAAGGC
1 CTAAAAAACGCCGCTAAAAGC
44659489 CTAAAAAAGCGCCGCTAAAAGC
1 CTAAAAAA-CGCCGCTAAAAGC
44659511 CT
1 CT
44659513 GTTTTTGTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.42, C:0.29, G:0.18, T:0.11
Consensus pattern (21 bp):
CTAAAAAACGCCGCTAAAAGC
Found at i:44665321 original size:15 final size:15
Alignment explanation
Indices: 44665303--44665340 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
44665293 TAACGTTAAC
*
44665303 AATAATAATGATGAT
1 AATAATAATAATGAT
44665318 AATAATAATAATGAT
1 AATAATAATAATGAT
*
44665333 AATGATAA
1 AATAATAA
44665341 AAATATAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.32
Consensus pattern (15 bp):
AATAATAATAATGAT
Found at i:44674143 original size:19 final size:18
Alignment explanation
Indices: 44674119--44674164 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
44674109 AACGTCTCTT
*
44674119 TTTGCATTCATTTCATGCA
1 TTTGCATTCATTACAT-CA
44674138 TTTGCATTTCATTACATCA
1 TTTGCA-TTCATTACATCA
*
44674157 TATGCATT
1 TTTGCATT
44674165 AAACACAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 13 0.54
20 9 0.38
ACGTcount: A:0.24, C:0.20, G:0.09, T:0.48
Consensus pattern (18 bp):
TTTGCATTCATTACATCA
Found at i:44677005 original size:6 final size:7
Alignment explanation
Indices: 44676982--44677025 Score: 56
Period size: 7 Copynumber: 6.3 Consensus size: 7
44676972 AAAAGTGATG
44676982 TGAAAAA
1 TGAAAAA
44676989 TGAAAAGA
1 TGAAAA-A
44676997 TG-AAAA
1 TGAAAAA
44677003 TGAAAAA
1 TGAAAAA
44677010 TGAAAAA
1 TGAAAAA
44677017 -GTAAAAA
1 TG-AAAAA
44677024 TG
1 TG
44677026 GAGAGGCTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
6 4 0.12
7 25 0.76
8 4 0.12
ACGTcount: A:0.66, C:0.00, G:0.18, T:0.16
Consensus pattern (7 bp):
TGAAAAA
Found at i:44677023 original size:21 final size:21
Alignment explanation
Indices: 44676982--44677025 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
44676972 AAAAGTGATG
*
44676982 TGAAAAATGAAAAGATGAAAA
1 TGAAAAATGAAAAGATAAAAA
44677003 TGAAAAATGAAAA-AGTAAAAA
1 TGAAAAATGAAAAGA-TAAAAA
44677024 TG
1 TG
44677026 GAGAGGCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.66, C:0.00, G:0.18, T:0.16
Consensus pattern (21 bp):
TGAAAAATGAAAAGATAAAAA
Found at i:44678460 original size:91 final size:92
Alignment explanation
Indices: 44678339--44678571 Score: 369
Period size: 92 Copynumber: 2.5 Consensus size: 92
44678329 GAGCAGGTTG
* * * *
44678339 AAGATAGCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGGATAAAGCAGATCTTGT
1 AAGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAGAAAACAGATCTTGT
44678404 CTTCATGTACTGGCGTGAAGTAGATCA
66 CTTCATGTACTGGCGTGAAGTAGATCA
* *
44678431 GAGA-AACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAATCGAAGAAAACAGATCTTG
1 AAGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAA-AGAAGAAAACAGATCTTG
44678495 TCTTCATGTACTGGCGTGAAGTAGATCA
65 TCTTCATGTACTGGCGTGAAGTAGATCA
* * *
44678523 AAGATACCAGATCTTGCCTTCCCATACTGGTGGCAAAGTAGATCAAAGA
1 AAGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGA
44678572 TACAAATTTT
Statistics
Matches: 128, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
91 40 0.31
92 50 0.39
93 38 0.30
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (92 bp):
AAGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAGAAAACAGATCTTGT
CTTCATGTACTGGCGTGAAGTAGATCA
Found at i:44678536 original size:44 final size:44
Alignment explanation
Indices: 44678339--44678573 Score: 177
Period size: 44 Copynumber: 5.1 Consensus size: 44
44678329 GAGCAGGTTG
* * * * *
44678339 AAGATAGCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCA
1 AAGATAACAGATCTTGCCTTCACATACTGG-CGTGAAGTAGATCA
* **
44678384 AAGGATAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCA
1 AA-GAT-AA-CAGATCTTGCCTTCACATACTGGCGTGAAGTAGATCA
* * * * *
44678431 GAGA-AACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAA
1 AAGATAACAGATCTTGCCTTCACATACTGG-CGTGAAGTAGATC-A
* * **
44678476 TCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCA
1 ---AAGATAACAGATCTTGCCTTCACATACTGGCGTGAAGTAGATCA
* * *
44678523 AAGATACCAGATCTTGCCTTCCCATACTGGTG-GCAAAGTAGATCA
1 AAGATAACAGATCTTGCCTTCACATACTGGCGTG--AAGTAGATCA
44678568 AAGATA
1 AAGATA
44678574 CAAATTTTAT
Statistics
Matches: 148, Mismatches: 31, Indels: 22
0.74 0.15 0.11
Matches are distributed among these distances:
43 20 0.14
44 37 0.25
45 19 0.13
46 5 0.03
47 14 0.09
48 32 0.22
49 21 0.14
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.24
Consensus pattern (44 bp):
AAGATAACAGATCTTGCCTTCACATACTGGCGTGAAGTAGATCA
Found at i:44678589 original size:44 final size:46
Alignment explanation
Indices: 44678513--44678609 Score: 137
Period size: 44 Copynumber: 2.2 Consensus size: 46
44678503 TACTGGCGTG
* *
44678513 AAGTAGATCAAAGATACCAGATCTTGCCTTCCCATACTGGTGGC-A
1 AAGTAGATCAAAGATACCAAATCTTACCTTCCCATACTGGTGGCGA
* *
44678558 AAGTAGATCAAAGATA-CAAATTTTATCTTCCCATACTGGTGGCGA
1 AAGTAGATCAAAGATACCAAATCTTACCTTCCCATACTGGTGGCGA
44678603 AA-TAGAT
1 AAGTAGAT
44678610 TGAAGATTAC
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
44 28 0.60
45 19 0.40
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.27
Consensus pattern (46 bp):
AAGTAGATCAAAGATACCAAATCTTACCTTCCCATACTGGTGGCGA
Found at i:44679011 original size:132 final size:132
Alignment explanation
Indices: 44678603--44679004 Score: 619
Period size: 132 Copynumber: 3.0 Consensus size: 132
44678593 CTGGTGGCGA
* * *
44678603 AATAGATTGAAGATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGTAGATCAAAGATGACGGTT
1 AATAGATTGAAGATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGGAT
* *
44678668 TTTACCTCCCTGTGGTTACAGTGGAGTACATTGAACCCAGTAATTCTA-CTTCCCTGGGCAGCAG
66 TTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATC-TCCCTGGGCAACAG
*
44678732 AGG
130 TGG
* *
44678735 AATAGATTGAAGATCT-CAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAAATCAAATATGGCGGA
1 AATAGATTGAAGAT-TACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGGA
**
44678799 TTTTACCTCCCTGTGGTTGTAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACAG
65 TTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACAG
44678864 TGG
130 TGG
* * *
44678867 AATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAATGGAGCAGATCAAAGATGGTGGAT
1 AATAGATTGAAGATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGGAT
* * * *
44678932 TTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCACGGGGCAACTGT
66 TTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACAGT
44678997 GG
131 GG
44678999 AATAGA
1 AATAGA
44679005 CAGAAGAAAT
Statistics
Matches: 246, Mismatches: 21, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
131 1 0.00
132 243 0.99
133 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (132 bp):
AATAGATTGAAGATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGGAT
TTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACAGT
GG
Found at i:44679963 original size:46 final size:45
Alignment explanation
Indices: 44679862--44680059 Score: 256
Period size: 46 Copynumber: 4.6 Consensus size: 45
44679852 TACGTATGAT
*
44679862 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTAC
44679905 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
*
44679951 CACTTATCACTTTCTCACTTGATCAGATAA--GTA--TA-G----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTAC
* *
44679987 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
*
44680033 CACTTATCACTTTGTCTCTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
44680060 AGTACTCAAA
Statistics
Matches: 137, Mismatches: 5, Indels: 23
0.83 0.03 0.14
Matches are distributed among these distances:
36 29 0.21
38 3 0.02
40 2 0.01
41 2 0.01
42 2 0.01
43 10 0.07
44 8 0.06
45 20 0.15
46 61 0.45
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (45 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTAC
Found at i:44679992 original size:36 final size:36
Alignment explanation
Indices: 44679951--44680023 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
44679941 CTAAGGCTAC
44679951 CACTTATCACTTTCTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTCTCACTTGATCAGATAAGTATAG
* *
44679987 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTCTCACTTGATCAGATAAGTATAG
44680023 C
1 C
44680024 TAAAGCTACC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTCTCACTTGATCAGATAAGTATAG
Found at i:44680012 original size:82 final size:82
Alignment explanation
Indices: 44679905--44680059 Score: 274
Period size: 82 Copynumber: 1.9 Consensus size: 82
44679895 GCTAGGCTAC
*
44679905 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTCTCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTCTCACT
44679970 TGATCAGATAAGTATAG
66 TGATCAGATAAGTATAG
* * *
44679987 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTCTCACT
44680052 TGATCAGA
66 TGATCAGA
44680060 AGTACTCAAA
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 69 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (82 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTCTCACT
TGATCAGATAAGTATAG
Found at i:44700546 original size:29 final size:29
Alignment explanation
Indices: 44700504--44700565 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
44700494 TAACACCGAA
44700504 GATGCACTCAAGTATTTTTACTTATGCAT
1 GATGCACTCAAGTATTTTTACTTATGCAT
44700533 GATGCACTCAAGTATTTTTACTTATGCAT
1 GATGCACTCAAGTATTTTTACTTATGCAT
44700562 GATG
1 GATG
44700566 TAAACACAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (29 bp):
GATGCACTCAAGTATTTTTACTTATGCAT
Found at i:44705929 original size:6 final size:6
Alignment explanation
Indices: 44705918--44705944 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
44705908 GAGAGAAAAG
44705918 GGAAGT GGAAGT GGAAGT GGAAGT GGA
1 GGAAGT GGAAGT GGAAGT GGAAGT GGA
44705945 GGCCTGTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.52, T:0.15
Consensus pattern (6 bp):
GGAAGT
Found at i:44707424 original size:30 final size:30
Alignment explanation
Indices: 44707388--44707447 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
44707378 TTGATTGTAT
44707388 TTGTAATATTAAAACTTTAAAACGAAAAAA
1 TTGTAATATTAAAACTTTAAAACGAAAAAA
44707418 TTGTAATATTAAAACTTTAAAACGAAAAAA
1 TTGTAATATTAAAACTTTAAAACGAAAAAA
44707448 AAAAAACACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (30 bp):
TTGTAATATTAAAACTTTAAAACGAAAAAA
Found at i:44710288 original size:26 final size:28
Alignment explanation
Indices: 44710234--44710294 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
44710224 TATTATCAAG
* *
44710234 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
44710262 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
44710288 AATTATA
1 AATTATA
44710295 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:44710414 original size:59 final size:56
Alignment explanation
Indices: 44710324--44710624 Score: 163
Period size: 54 Copynumber: 5.1 Consensus size: 56
44710314 TTATTAGTTA
*
44710324 TAATTATTTTAAA-TTTTATTAA--ATCATATATTTTAATTAAAATATATTTAATAT
1 TAATTA-TTTAAATTTTTTTTAAGTATCATATATTTTAATTAAAATATATTTAATAT
* **
44710378 TAATTATTTCAAATTTTCTTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAAGAATA
1 TAATTATTT-AAATTTT-TTTTA-AGTATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATA
44710443 T
56 T
* * * * *
44710444 TAATTA-TTAAGAATTTTATTAA--ATTATATATTTTAATTATAATATATTTAATAA
1 TAATTATTTAA-ATTTTTTTTAAGTATCATATATTTTAATTAAAATATATTTAATAT
* * *
44710498 TAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAATAAT
1 TAATTAT-TTAAATTT-T-TTTTA-AGTATCATATATT-TTAATT-A--AAA-T-ATAT-TTAAT
44710562 AT
55 AT
* * * * *
44710564 TAATTA-TTAAGAATTTTATTAA--ATTATATATTTTAATTATAATATATTTAATAA
1 TAATTATTTAA-ATTTTTTTTAAGTATCATATATTTTAATTAAAATATATTTAATAT
44710618 TAATTAT
1 TAATTAT
44710625 GTTTAAATAT
Statistics
Matches: 188, Mismatches: 28, Indels: 61
0.68 0.10 0.22
Matches are distributed among these distances:
53 3 0.02
54 33 0.18
55 13 0.07
56 12 0.06
57 6 0.03
59 21 0.11
60 18 0.10
61 20 0.11
63 7 0.04
64 14 0.07
65 16 0.09
66 25 0.13
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.51
Consensus pattern (56 bp):
TAATTATTTAAATTTTTTTTAAGTATCATATATTTTAATTAAAATATATTTAATAT
Found at i:44710444 original size:66 final size:63
Alignment explanation
Indices: 44710372--44710580 Score: 179
Period size: 66 Copynumber: 3.3 Consensus size: 63
44710362 AAAATATATT
44710372 TAATATTAATTATTTCAAATTTTCTTTTATAGTATCATATATTATTATTTGAGTAAATTCATATA
1 TAATATTAATTATTT-AAATTTT-TTTTA-AGTATCATATATTATTATTTGAGTAAATTCATATA
44710437 A
63 A
* * * * * *
44710438 GAATATTAATTA-TTAAGAATTTTATTAA--ATTATATATT-TTAATT-A-T-AA-T-ATAT-T
1 TAATATTAATTATTTAA-ATTTTTTTTAAGTATCATATATTATTATTTGAGTAAATTCATATAA
* *
44710492 TAATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATAT
1 TAATATTAATTAT-TTAAATTT-T-TTTTA-AGTATCATATATTATTATTTGAGTAAATTCATAT
44710556 AA
62 AA
*
44710558 TAATATTAATTATTAAGAATTTT
1 TAATATTAATTATTTA-AATTTT
44710581 ATTAAATTAT
Statistics
Matches: 110, Mismatches: 16, Indels: 34
0.69 0.10 0.21
Matches are distributed among these distances:
54 13 0.12
55 6 0.05
56 7 0.06
57 3 0.03
58 1 0.01
59 10 0.09
60 9 0.08
61 10 0.09
62 1 0.01
63 3 0.03
64 7 0.06
65 11 0.10
66 24 0.22
67 5 0.05
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.50
Consensus pattern (63 bp):
TAATATTAATTATTTAAATTTTTTTTAAGTATCATATATTATTATTTGAGTAAATTCATATAA
Found at i:44710459 original size:120 final size:120
Alignment explanation
Indices: 44710335--44710627 Score: 491
Period size: 120 Copynumber: 2.4 Consensus size: 120
44710325 AATTATTTTA
* * * *
44710335 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTATATT
* *
44710398 TTATAGTATCATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
44710455 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
*
44710520 ACAGTATCATATATTATGATTTGAGTAAATTCATATAATAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
44710575 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
44710628 TAAATATGAT
Statistics
Matches: 164, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
119 5 0.03
120 157 0.96
121 2 0.01
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:44710495 original size:15 final size:15
Alignment explanation
Indices: 44710460--44710621 Score: 58
Period size: 15 Copynumber: 10.9 Consensus size: 15
44710450 TTAAGAATTT
*
44710460 TATTAAATTAT-ATA
1 TATTTAATTATAATA
44710474 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
44710488 TATTTAATAATAAT-
1 TATTTAATTATAATA
44710502 TATGTTAATT-T-ATA
1 TAT-TTAATTATAATA
* *
44710516 T-TTTACAGTATCATA
1 TATTTA-ATTATAATA
* *
44710531 TATTATGATT-TGAGTA
1 TATT-TAATTAT-AATA
* *
44710547 -AATTCA-TATAATA
1 TATTTAATTATAATA
*
44710560 -ATATTAATTATTAAGA
1 TAT-TTAATTA-TAATA
* *
44710576 -ATTTTATTAAATTATA
1 TATTTAATT--ATAATA
44710592 TATTTTAATTATAATA
1 TA-TTTAATTATAATA
*
44710608 TATTTAATAATAAT
1 TATTTAATTATAAT
44710622 TATGTTTAAA
Statistics
Matches: 110, Mismatches: 20, Indels: 35
0.67 0.12 0.21
Matches are distributed among these distances:
12 3 0.03
13 18 0.16
14 17 0.15
15 41 0.37
16 22 0.20
17 3 0.03
18 6 0.05
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.51
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:44710610 original size:16 final size:16
Alignment explanation
Indices: 44710589--44710630 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
44710579 TTATTAAATT
*
44710589 ATATATTTTAATTATA
1 ATATATTTTAATAATA
44710605 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
44710620 AT-TATGTTTAA
1 ATATAT-TTTAA
44710631 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:44710742 original size:157 final size:157
Alignment explanation
Indices: 44710564--44710880 Score: 571
Period size: 157 Copynumber: 2.0 Consensus size: 157
44710554 ATAATAATAT
* * *
44710564 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATATTT
* *
44710629 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATATTATTAAAATTTAAATAACAATAACAA
*
44710694 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
44710721 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATATTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATATTT
44710786 AAATATGATTAAATTATTTATTATTGATAATAATAATATTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATATTATTAAAATTTAAATAACAATAACAA
*
44710851 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
44710878 TAA
1 TAA
44710881 GGGTATTCTA
Statistics
Matches: 153, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 153 1.00
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATATTT
AAATATGATTAAATTATTTATTATTGATAATAATAATATTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:44710761 original size:18 final size:17
Alignment explanation
Indices: 44710733--44710767 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
44710723 ATTATTAAGA
*
44710733 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
44710750 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
44710768 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:44710957 original size:39 final size:40
Alignment explanation
Indices: 44710914--44711018 Score: 104
Period size: 44 Copynumber: 2.5 Consensus size: 40
44710904 TTCCATTATG
*
44710914 CTATTACACCTCTATTCCATTCAACCAAGCACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
44710953 CTATTACGCCTCTATTTCACTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTA-TT--C--CATTCAACCAAACACAAGATTTA
44710998 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
44711019 ACACTTCTAT
Statistics
Matches: 53, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
39 13 0.25
40 6 0.11
42 2 0.04
44 17 0.32
45 15 0.28
ACGTcount: A:0.30, C:0.30, G:0.06, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:44711021 original size:16 final size:16
Alignment explanation
Indices: 44711000--44711053 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
44710990 TTGATTTGCT
*
44711000 ATTACACCTCTATTCC
1 ATTACACTTCTATTCC
*
44711016 ATTACACTTCTATTTC
1 ATTACACTTCTATTCC
*
44711032 ATTACACTTCTAATCC
1 ATTACACTTCTATTCC
*
44711048 AATACA
1 ATTACA
44711054 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.31, C:0.30, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTACACTTCTATTCC
Found at i:44713125 original size:14 final size:14
Alignment explanation
Indices: 44713106--44713132 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
44713096 AAATACCAAA
44713106 AACACTTTTCATTT
1 AACACTTTTCATTT
44713120 AACACTTTTCATT
1 AACACTTTTCATT
44713133 GGTTTCGTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.22, G:0.00, T:0.48
Consensus pattern (14 bp):
AACACTTTTCATTT
Found at i:44713261 original size:84 final size:84
Alignment explanation
Indices: 44713120--44713313 Score: 361
Period size: 84 Copynumber: 2.3 Consensus size: 84
44713110 CTTTTCATTT
* *
44713120 AACACTTTTCATTGGTTTCGTCAATTACCATTCGGTGTTATTTTTGAAGCTAAAATCATATCCGA
1 AACACTTTTCATTGGTTTCGTCGATTACCATTCAGTGTTATTTTTGAAGCTAAAATCATATCCGA
44713185 AACGAGTCAAAATACCAAA
66 AACGAGTCAAAATACCAAA
*
44713204 AACACTTTTCATTGGTTTCGTCGATTGCCATTCAGTGTTATTTTTGAAGCTAAAATCATATCCGA
1 AACACTTTTCATTGGTTTCGTCGATTACCATTCAGTGTTATTTTTGAAGCTAAAATCATATCCGA
44713269 AACGAGTCAAAATACCAAA
66 AACGAGTCAAAATACCAAA
44713288 AACACTTTTCATTGGTTTCGTCGATT
1 AACACTTTTCATTGGTTTCGTCGATT
44713314 TTTTTTCTCC
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 107 1.00
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (84 bp):
AACACTTTTCATTGGTTTCGTCGATTACCATTCAGTGTTATTTTTGAAGCTAAAATCATATCCGA
AACGAGTCAAAATACCAAA
Found at i:44717274 original size:6 final size:6
Alignment explanation
Indices: 44717263--44717289 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
44717253 GAGAGAAAAG
44717263 GGAAGT GGAAGT GGAAGT GGAAGT GGA
1 GGAAGT GGAAGT GGAAGT GGAAGT GGA
44717290 GGCCTGTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.52, T:0.15
Consensus pattern (6 bp):
GGAAGT
Found at i:44723373 original size:32 final size:33
Alignment explanation
Indices: 44723301--44723373 Score: 89
Period size: 33 Copynumber: 2.2 Consensus size: 33
44723291 TAGAAAAACT
*
44723301 AATATTTTCTGATGTTTGGATGAATTTGTGTAA
1 AATATTTTCTGATGTTTGGATGAACTTGTGTAA
*
44723334 AATATTTTCTGCTGTTT-GAT-AGACTTGCTG-AA
1 AATATTTTCTGATGTTTGGATGA-ACTTG-TGTAA
44723366 AATATTTT
1 AATATTTT
44723374 ATAAAAGTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
31 1 0.03
32 17 0.47
33 18 0.50
ACGTcount: A:0.27, C:0.07, G:0.18, T:0.48
Consensus pattern (33 bp):
AATATTTTCTGATGTTTGGATGAACTTGTGTAA
Found at i:44743996 original size:39 final size:41
Alignment explanation
Indices: 44743922--44744011 Score: 139
Period size: 39 Copynumber: 2.2 Consensus size: 41
44743912 AAAAAAGTGT
* *
44743922 TTATATTAAAAAACACTATCATAAATATAATAAATATTTTG
1 TTATATTAAAAAACACTATAATAAATATAATAAATATTTTA
44743963 TTATATTAAAAAACAC-A-AATAAATATAATAAATATTTTA
1 TTATATTAAAAAACACTATAATAAATATAATAAATATTTTA
*
44744002 TTGTATTAAA
1 TTATATTAAA
44744012 TATAAGTTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
39 29 0.63
40 1 0.02
41 16 0.35
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (41 bp):
TTATATTAAAAAACACTATAATAAATATAATAAATATTTTA
Found at i:44746950 original size:22 final size:23
Alignment explanation
Indices: 44746906--44746950 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
44746896 GGATTTATAT
* *
44746906 TATTCTAGGTGTGTTAGGTTGGA
1 TATTCTAGGTGTATTAGGGTGGA
*
44746929 TATTCT-GGTGTATTTGGGTGGA
1 TATTCTAGGTGTATTAGGGTGGA
44746951 ATCCATGTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.16, C:0.04, G:0.36, T:0.44
Consensus pattern (23 bp):
TATTCTAGGTGTATTAGGGTGGA
Found at i:44749728 original size:11 final size:11
Alignment explanation
Indices: 44749660--44749772 Score: 59
Period size: 11 Copynumber: 10.3 Consensus size: 11
44749650 TAAATATCTC
44749660 TAAAATAATAA
1 TAAAATAATAA
*
44749671 CAAAATTAATAA
1 TAAAA-TAATAA
*
44749683 TAAAATGATAA
1 TAAAATAATAA
* * * *
44749694 TTACACAATAT
1 TAAAATAATAA
* * *
44749705 TTAAACAACAA
1 TAAAATAATAA
44749716 TAAAATAATAA
1 TAAAATAATAA
44749727 TAATAA-AATAA
1 TAA-AATAATAA
* **
44749738 CAAAATGGTAA
1 TAAAATAATAA
* *
44749749 CAAAATAACAA
1 TAAAATAATAA
*
44749760 CAAAATAA-AA
1 TAAAATAATAA
44749770 TAA
1 TAA
44749773 TAATTTTTAT
Statistics
Matches: 78, Mismatches: 21, Indels: 7
0.74 0.20 0.07
Matches are distributed among these distances:
10 6 0.08
11 60 0.77
12 12 0.15
ACGTcount: A:0.66, C:0.08, G:0.03, T:0.23
Consensus pattern (11 bp):
TAAAATAATAA
Found at i:44754814 original size:24 final size:23
Alignment explanation
Indices: 44754785--44754837 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 23
44754775 TATTCAAAAA
*
44754785 TTAAAA-AAATTCAATAAAACATT
1 TTAAAAGAAA-TCAATAAAAAATT
44754808 TTGAAAAGAAATCAATAAAAAATT
1 TT-AAAAGAAATCAATAAAAAATT
44754832 TTAAAA
1 TTAAAA
44754838 TTACTAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 6 0.22
24 18 0.67
25 3 0.11
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.28
Consensus pattern (23 bp):
TTAAAAGAAATCAATAAAAAATT
Found at i:44754845 original size:19 final size:20
Alignment explanation
Indices: 44754823--44754868 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
44754813 AAGAAATCAA
44754823 TAAAAAATTTT-AAAATTAC
1 TAAAAAATTTTAAAAATTAC
44754842 T--AAAATTTTAGAAAATTAC
1 TAAAAAATTTTA-AAAATTAC
44754861 -AAAAAATT
1 TAAAAAATT
44754869 AAAAAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.35
19 9 0.39
20 6 0.26
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (20 bp):
TAAAAAATTTTAAAAATTAC
Found at i:44757403 original size:14 final size:14
Alignment explanation
Indices: 44757384--44757413 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
44757374 CCTCCTCCTC
*
44757384 CTTCTTCTTCTCTT
1 CTTCTTCTTCGCTT
44757398 CTTCTTCTTCGCTT
1 CTTCTTCTTCGCTT
44757412 CT
1 CT
44757414 CAATCAGGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.37, G:0.03, T:0.60
Consensus pattern (14 bp):
CTTCTTCTTCGCTT
Found at i:44773394 original size:9 final size:9
Alignment explanation
Indices: 44773380--44773404 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
44773370 ATAAAATATA
44773380 TTATTATTG
1 TTATTATTG
44773389 TTATTATTG
1 TTATTATTG
44773398 TTATTAT
1 TTATTAT
44773405 ATTATAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (9 bp):
TTATTATTG
Found at i:44773420 original size:23 final size:23
Alignment explanation
Indices: 44773394--44773442 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
44773384 TATTGTTATT
*
44773394 ATTGTTATTATATTAT-AAATTAA
1 ATTGATATTATATTATGAAA-TAA
44773417 ATTGATATTATATTATGAAATAA
1 ATTGATATTATATTATGAAATAA
44773440 ATT
1 ATT
44773443 AAGAAAAGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 21 0.88
24 3 0.12
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (23 bp):
ATTGATATTATATTATGAAATAA
Found at i:44775768 original size:19 final size:20
Alignment explanation
Indices: 44775726--44775768 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
44775716 TCATGCTTTC
*
44775726 TATTCACATTTTCATATTCA
1 TATTCACATTTTCAAATTCA
44775746 -ATTCACATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
44775764 TATTC
1 TATTC
44775769 CACAATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Done.