Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 167 of 356
Found at i:54103249 original size:27 final size:25
Alignment explanation
Indices: 54103218--54103297 Score: 70
Period size: 27 Copynumber: 3.0 Consensus size: 25
54103208 TAAAATTACC
54103218 ATTTATAGAATTACTGGTTTACCCTCG
1 ATTTATAGAATTACT--TTTACCCTCG
* * * *
54103245 GTTTACAAAATTATCATTTTACCATCG
1 ATTTATAGAATTA-C-TTTTACCCTCG
54103272 ATTTATAGAATTACTATTTTACCCTC
1 ATTTATAGAATTAC--TTTTACCCTC
54103298 AATTGTGAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
26 1 0.02
27 39 0.93
28 1 0.02
29 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.42
Consensus pattern (25 bp):
ATTTATAGAATTACTTTTACCCTCG
Found at i:54103255 original size:42 final size:42
Alignment explanation
Indices: 54103176--54103263 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 42
54103166 TTTACCCTCG
* **
54103176 ATTTACAGAATTACCGTTTTACCCTCAATTTGTAAAATTACC
1 ATTTACAGAATTACCGGTTTACCCTCAATTTACAAAATTACC
* * ** *
54103218 ATTTATAGAATTACTGGTTTACCCTCGGTTTACAAAATTATC
1 ATTTACAGAATTACCGGTTTACCCTCAATTTACAAAATTACC
54103260 ATTT
1 ATTT
54103264 TACCATCGAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.41
Consensus pattern (42 bp):
ATTTACAGAATTACCGGTTTACCCTCAATTTACAAAATTACC
Found at i:54103257 original size:96 final size:95
Alignment explanation
Indices: 54103122--54103311 Score: 247
Period size: 96 Copynumber: 2.0 Consensus size: 95
54103112 TTTACCCTCG
* * * * *
54103122 ATTTACAGAATTACCGTTTTATCCTTAGTTTACAGAATTA-CTATTTTACCCTCGATTTACAGAA
1 ATTTACAGAATTACCGGTTTACCCTCAGTTTACAAAATTATC-ATTTTACCATCGATTTACAGAA
*
54103186 TTACCGTTTTACCCTCAATTTGTAAAATTACC
65 TTACCATTTTACCCTCAA-TTGTAAAATTACC
* * * *
54103218 ATTTATAGAATTACTGGTTTACCCTCGGTTTACAAAATTATCATTTTACCATCGATTTATAGAAT
1 ATTTACAGAATTACCGGTTTACCCTCAGTTTACAAAATTATCATTTTACCATCGATTTACAGAAT
* *
54103283 TACTATTTTACCCTCAATTGTGAAATTAC
66 TACCATTTTACCCTCAATTGTAAAATTAC
54103312 TGAAATACCC
Statistics
Matches: 81, Mismatches: 12, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
95 11 0.14
96 69 0.85
97 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.41
Consensus pattern (95 bp):
ATTTACAGAATTACCGGTTTACCCTCAGTTTACAAAATTATCATTTTACCATCGATTTACAGAAT
TACCATTTTACCCTCAATTGTAAAATTACC
Found at i:54103338 original size:27 final size:27
Alignment explanation
Indices: 54103306--54103500 Score: 248
Period size: 27 Copynumber: 7.3 Consensus size: 27
54103296 TCAATTGTGA
*
54103306 AATTACTGAAATACCCTTATAGGGTAG
1 AATTACCGAAATACCCTTATAGGGTAG
*
54103333 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTATAGGGTAG
**
54103360 AATTACTAAAATACCCTTATAGGGTAG
1 AATTACCGAAATACCCTTATAGGGTAG
**
54103387 AATTACCGAAATACCC-CGTAGGGTAG
1 AATTACCGAAATACCCTTATAGGGTAG
* *
54103413 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTATAGGGTAG
* *
54103440 AAATACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTATAGGGTAG
* * * * *
54103467 AATTACCGAGATACCTTTGTGGGGTAA
1 AATTACCGAAATACCCTTATAGGGTAG
54103494 AATTACC
1 AATTACC
54103501 ATTTTGCCCC
Statistics
Matches: 145, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 23 0.16
27 122 0.84
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCTTATAGGGTAG
Found at i:54103361 original size:80 final size:80
Alignment explanation
Indices: 54103306--54103481 Score: 228
Period size: 80 Copynumber: 2.2 Consensus size: 80
54103296 TCAATTGTGA
* *
54103306 AATTACTGAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACTAAAA
1 AATTACCGAAATACCC-CATAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACTAAAA
*
54103371 TACCCTTATAGGGTAG
65 TACCCTAATAGGGTAG
* * * * * **
54103387 AATTACCGAAATACCCCGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAAATACCGAAAT
1 AATTACCGAAATACCCCATAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACTAAAAT
54103452 ACCCCT-ATAGGGTAG
66 A-CCCTAATAGGGTAG
*
54103467 AATTACCGAGATACC
1 AATTACCGAAATACC
54103482 TTTGTGGGGT
Statistics
Matches: 84, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
80 65 0.77
81 19 0.23
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (80 bp):
AATTACCGAAATACCCCATAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACTAAAAT
ACCCTAATAGGGTAG
Found at i:54103374 original size:54 final size:54
Alignment explanation
Indices: 54103306--54103500 Score: 277
Period size: 54 Copynumber: 3.6 Consensus size: 54
54103296 TCAATTGTGA
54103306 AATTACTGAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTATAGGGTAG
* *
54103360 AATTACTAAAATACCCTTATAGGGTAGAATTACCGAAATACCCC-GTAGGGTAG
1 AATTACTGAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTATAGGGTAG
* *
54103413 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTATAGGGTAG
1 AATTACT-GAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTATAGGGTAG
* * * * * *
54103467 AATTACCGAGATACCTTTGTGGGGTAAAATTACC
1 AATTACTGAAATACCCTTATAGGGTAGAATTACC
54103501 ATTTTGCCCC
Statistics
Matches: 126, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
52 1 0.01
53 47 0.37
54 78 0.62
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.26
Consensus pattern (54 bp):
AATTACTGAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTATAGGGTAG
Found at i:54103737 original size:27 final size:26
Alignment explanation
Indices: 54103699--54103781 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 26
54103689 CGGAGGAAGC
54103699 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
54103726 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * * * *
54103752 ATATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
54103779 GTT
1 GTT
54103782 GACCGATCGA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
26 9 0.18
27 40 0.82
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:54104124 original size:27 final size:27
Alignment explanation
Indices: 54104094--54104165 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
54104084 GGTGGGTTTT
* *
54104094 CCACATTATCTG-ATCCTGGTGGCTCTG
1 CCACAATATCTGTAT-CTGGTGACTCTG
54104121 CCACAATATCTGTATCTGGTGACTCTG
1 CCACAATATCTGTATCTGGTGACTCTG
* *
54104148 TCACGATATCTGT-TCTGG
1 CCACAATATCTGTATCTGG
54104166 CAGCCATGCT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
26 5 0.12
27 33 0.82
28 2 0.05
ACGTcount: A:0.18, C:0.26, G:0.21, T:0.35
Consensus pattern (27 bp):
CCACAATATCTGTATCTGGTGACTCTG
Found at i:54104292 original size:6 final size:6
Alignment explanation
Indices: 54104283--54104427 Score: 120
Period size: 6 Copynumber: 23.8 Consensus size: 6
54104273 TTGCATTCAC
* *
54104283 ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG -TTACTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATT-CTG
* * * * *
54104332 ATTCTG ATTCTG ATTTTG -TTAGTG ATTTTG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG
*
54104381 ATTCTG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG GTTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
54104428 CATTTTGGTT
Statistics
Matches: 113, Mismatches: 14, Indels: 24
0.75 0.09 0.16
Matches are distributed among these distances:
5 8 0.07
6 93 0.82
7 10 0.09
8 2 0.02
ACGTcount: A:0.17, C:0.17, G:0.16, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:54104395 original size:31 final size:30
Alignment explanation
Indices: 54104354--54104427 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 30
54104344 ATTTTGTTAG
*
54104354 TGATTTTGATTCTGATTCTGTCACCTAATTC
1 TGATTCTGATTCTGATTCTGTCA-CTAATTC
* *
54104385 TGATTCTGATTCTGATTCTGTTACTGATTC
1 TGATTCTGATTCTGATTCTGTCACTAATTC
*
54104415 TGGTTCTGATTCT
1 TGATTCTGATTCT
54104428 CATTTTGGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 18 0.46
31 21 0.54
ACGTcount: A:0.16, C:0.18, G:0.16, T:0.50
Consensus pattern (30 bp):
TGATTCTGATTCTGATTCTGTCACTAATTC
Found at i:54104433 original size:73 final size:73
Alignment explanation
Indices: 54104277--54104434 Score: 214
Period size: 73 Copynumber: 2.2 Consensus size: 73
54104267 TTGGGATTGC
* *
54104277 ATTCACATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGTTACTGATTCTGATTC
1 ATTCTCATTTTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGTTACTGATTCTGATTC
*
54104342 TGATTTTG
66 TGATTCTG
* *
54104350 -TTAGTGATTTTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATT-CTG-TTACTGA
1 ATT-CTCATTTTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTG-TTACTGATT-CTGA
*
54104412 TTCTGGTTCTG
63 TTCTGATTCTG
54104423 ATTCTCATTTTG
1 ATTCTCATTTTG
54104435 GTTCCAATTC
Statistics
Matches: 73, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
72 4 0.05
73 65 0.89
74 4 0.05
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (73 bp):
ATTCTCATTTTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGTTACTGATTCTGATTC
TGATTCTG
Found at i:54104436 original size:18 final size:18
Alignment explanation
Indices: 54104309--54104448 Score: 90
Period size: 18 Copynumber: 7.7 Consensus size: 18
54104299 TGTCACCTAA
54104309 TTCTGATTCTGATTCT-G
1 TTCTGATTCTGATTCTGG
*
54104326 TTACTGATTCTGATTCTGA
1 TT-CTGATTCTGATTCTGG
* * * *
54104345 TTTTG-TTAGTGATTTTGA
1 TTCTGATT-CTGATTCTGG
* **
54104363 TTCTGATTCTG-TCACCTAA
1 TTCTGATTCTGAT--TCTGG
*
54104382 TTCTGATTCTGATTCTGA
1 TTCTGATTCTGATTCTGG
54104400 TTCTG-TTACTGATTCTGG
1 TTCTGATT-CTGATTCTGG
* *
54104418 TTCTGATTCTCATTTTGG
1 TTCTGATTCTGATTCTGG
**
54104436 TTCCAATTCTGAT
1 TTCTGATTCTGAT
54104449 AATGTTTCTT
Statistics
Matches: 97, Mismatches: 17, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
17 7 0.07
18 70 0.72
19 19 0.20
20 1 0.01
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.51
Consensus pattern (18 bp):
TTCTGATTCTGATTCTGG
Found at i:54116140 original size:40 final size:40
Alignment explanation
Indices: 54116042--54116424 Score: 565
Period size: 40 Copynumber: 9.6 Consensus size: 40
54116032 TCCTCGTTCA
* * ** *
54116042 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* *
54116081 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
54116121 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
54116161 TATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
54116201 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* *
54116241 AATGCCTTCGGAACTTAATCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
54116281 TATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
54116321 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
54116361 AATGCCTTCGGAACTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGACTTAACCCGGATTTA-ACAAC-TCGCACG
* *
54116401 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
54116425 CAGCATTCAA
Statistics
Matches: 318, Mismatches: 23, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
39 35 0.11
40 277 0.87
41 6 0.02
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:54123937 original size:40 final size:40
Alignment explanation
Indices: 54123839--54124220 Score: 556
Period size: 40 Copynumber: 9.6 Consensus size: 40
54123829 TCCTCGTTCA
* * ** *
54123839 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* *
54123878 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
54123918 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
54123958 TATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
54123998 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* *
54124038 AATGCCTTCGGAACTTAATCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
54124078 TATGCCTTC-GGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
54124117 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
54124157 AATGCCTTCGGAACTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGACTTAACCCGGATTTA-ACAAC-TCGCACG
* *
54124197 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
54124221 CAGCATTCAA
Statistics
Matches: 316, Mismatches: 23, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
39 71 0.22
40 239 0.76
41 6 0.02
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:54124156 original size:119 final size:120
Alignment explanation
Indices: 54123840--54124181 Score: 589
Period size: 119 Copynumber: 2.9 Consensus size: 120
54123830 CCTCGTTCAA
* * ** * *
54123840 ATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC-AATGCCTTCGGGACATAACCCGGATT
1 ATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATT
* * *
54123904 TAACAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGT
66 TAACAACTCGCACGAATGCCTTCGGAACTTAATCCGGATTTAACAACTCGCACGT
54123959 ATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATT
1 ATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATT
54124024 TAACAACTCGCACGAATGCCTTCGGAACTTAATCCGGATTTAACAACTCGCACGT
66 TAACAACTCGCACGAATGCCTTCGGAACTTAATCCGGATTTAACAACTCGCACGT
54124079 ATGCCTTC-GGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATT
1 ATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATT
54124143 TAACAACTCGCACGAATGCCTTCGGAACTTAATCCGGAT
66 TAACAACTCGCACGAATGCCTTCGGAACTTAATCCGGAT
54124182 ATATTCACTT
Statistics
Matches: 213, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
119 128 0.60
120 85 0.40
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (120 bp):
ATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATT
TAACAACTCGCACGAATGCCTTCGGAACTTAATCCGGATTTAACAACTCGCACGT
Found at i:54124220 original size:159 final size:159
Alignment explanation
Indices: 54123839--54124220 Score: 536
Period size: 159 Copynumber: 2.4 Consensus size: 159
54123829 TCCTCGTTCA
* * * * ** *
54123839 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCA-CACAATGCCTTCGGGACATAACCCGGAT
1 AATGCCTTCGGAACTTAACCCGGATATAACAACT-AGCACAATGCCTTCGGGACTTAACCCGGAT
*
54123903 TTAACAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGTATGCCTTCG
65 TTAACAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCG
54123968 GGACTTAACCCGGATTTAACAACTCGCACG
130 GGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
54123998 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGAACTTAATCCGGAT
1 AATGCCTTCGGAACTTAACCCGGATATAACAACTAGCAC-AATGCCTTCGGGACTTAACCCGGAT
**
54124063 TTAACAACTCGCACGTATGCCTTC-GGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCG
65 TTAACAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCG
54124127 GGACTTAACCCGGATTTAACAACTCGCACG
130 GGACTTAACCCGGATTTAACAACTCGCACG
* * * *
54124157 AATGCCTTCGGAACTTAATCCGGATATATTC-ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGAACTTAACCCGGATATA-ACAAC-TAGCACAATGCCTTCGGGACTTAACCCGGA
54124221 CAGCATTCAA
Statistics
Matches: 199, Mismatches: 20, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
159 149 0.75
160 50 0.25
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (159 bp):
AATGCCTTCGGAACTTAACCCGGATATAACAACTAGCACAATGCCTTCGGGACTTAACCCGGATT
TAACAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGG
GACTTAACCCGGATTTAACAACTCGCACG
Found at i:54126986 original size:19 final size:19
Alignment explanation
Indices: 54126934--54126979 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
54126924 TGGCCATTGA
*
54126934 ATGTTGGCCTATAATGGTT
1 ATGTTGGCCTATGATGGTT
*
54126953 ATGATGGCCTATGATGGTT
1 ATGTTGGCCTATGATGGTT
54126972 ATGTTGGC
1 ATGTTGGC
54126980 TATTGATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.20, C:0.11, G:0.30, T:0.39
Consensus pattern (19 bp):
ATGTTGGCCTATGATGGTT
Found at i:54128143 original size:28 final size:28
Alignment explanation
Indices: 54128082--54128151 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
54128072 GGGTCGTTCG
* *
54128082 TGCCATGAAGGCATTCCTTTTCAGAGAT
1 TGCCACGAAGGCATTCCTTATCAGAGAT
**
54128110 AACCACGAAGGC-TTCCTTATCTAGAGAT
1 TGCCACGAAGGCATTCCTTATC-AGAGAT
*
54128138 TGCCACAAAGGCAT
1 TGCCACGAAGGCAT
54128152 CATTTTCATT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
27 8 0.24
28 24 0.73
29 1 0.03
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (28 bp):
TGCCACGAAGGCATTCCTTATCAGAGAT
Found at i:54128231 original size:29 final size:29
Alignment explanation
Indices: 54128199--54128293 Score: 79
Period size: 29 Copynumber: 3.3 Consensus size: 29
54128189 TAGAGTCTCA
*
54128199 CCACGAAGGCTTTCCCTTCCAGAGGTTTG
1 CCACGAAGGCTTTCCTTTCCAGAGGTTTG
* *
54128228 CCAC-AATGGTTTTCCTTTAACA-A-GTTTG
1 CCACGAA-GGCTTTCCTTT-CCAGAGGTTTG
* * * *
54128256 CCAAGAAGGCTTGCCTTTCTAGAGTTTTG
1 CCACGAAGGCTTTCCTTTCCAGAGGTTTG
*
54128285 CCACAAAGG
1 CCACGAAGG
54128294 ATGTCTTTTT
Statistics
Matches: 50, Mismatches: 11, Indels: 10
0.70 0.15 0.14
Matches are distributed among these distances:
27 1 0.02
28 20 0.40
29 27 0.54
30 2 0.04
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (29 bp):
CCACGAAGGCTTTCCTTTCCAGAGGTTTG
Found at i:54128281 original size:28 final size:29
Alignment explanation
Indices: 54128252--54128360 Score: 116
Period size: 29 Copynumber: 3.8 Consensus size: 29
54128242 CTTTAACAAG
* *
54128252 TTTGCCA-AGAAGGCTTGCCTTTCTAGAGT
1 TTTGCCACA-AAGGCTTGCCTTTTTAAAGT
* * * *
54128281 TTTGCCACAAAGG-ATGTCTTTTTATAGG
1 TTTGCCACAAAGGCTTGCCTTTTTAAAGT
*
54128309 TTTGCCATAAAGGCTTGCCTTTTTAAAGT
1 TTTGCCACAAAGGCTTGCCTTTTTAAAGT
54128338 TTTGCCACAAAGG-TTGTCCTTTT
1 TTTGCCACAAAGGCTTG-CCTTTT
54128361 ACTGGTGTTT
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
28 25 0.38
29 40 0.61
30 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.39
Consensus pattern (29 bp):
TTTGCCACAAAGGCTTGCCTTTTTAAAGT
Found at i:54128312 original size:57 final size:57
Alignment explanation
Indices: 54128224--54128361 Score: 170
Period size: 57 Copynumber: 2.4 Consensus size: 57
54128214 CTTCCAGAGG
* * * * * * *
54128224 TTTGCCACAATGGTTTTCCTTTAACAAGTTTGCCA-AGAAGGCTTGCCTTTCTAGAGT
1 TTTGCCACAAAGGATGTCCTTTTATAGGTTTGCCATA-AAGGCTTGCCTTTCTAAAGT
* *
54128281 TTTGCCACAAAGGATGTCTTTTTATAGGTTTGCCATAAAGGCTTGCCTTTTTAAAGT
1 TTTGCCACAAAGGATGTCCTTTTATAGGTTTGCCATAAAGGCTTGCCTTTCTAAAGT
*
54128338 TTTGCCACAAAGGTTGTCCTTTTA
1 TTTGCCACAAAGGATGTCCTTTTA
54128362 CTGGTGTTTT
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
57 68 0.99
58 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (57 bp):
TTTGCCACAAAGGATGTCCTTTTATAGGTTTGCCATAAAGGCTTGCCTTTCTAAAGT
Found at i:54128361 original size:28 final size:28
Alignment explanation
Indices: 54128224--54128361 Score: 113
Period size: 28 Copynumber: 4.9 Consensus size: 28
54128214 CTTCCAGAGG
* * *
54128224 TTTGCCACAATGGTTTTCCTTTAACAAG-
1 TTTGCCACAAAGGTTGTCCTTTTA-AAGT
*
54128252 TTTGCCA-AGAAGGCTTG-CCTTTCTAGAGT
1 TTTGCCACA-AAGG-TTGTCCTTT-TAAAGT
* * * *
54128281 TTTGCCACAAAGGATGTCTTTTTATAGG
1 TTTGCCACAAAGGTTGTCCTTTTAAAGT
*
54128309 TTTGCCATAAAGGCTTG-CCTTTTTAAAGT
1 TTTGCCACAAAGG-TTGTCC-TTTTAAAGT
54128338 TTTGCCACAAAGGTTGTCCTTTTA
1 TTTGCCACAAAGGTTGTCCTTTTA
54128362 CTGGTGTTTT
Statistics
Matches: 87, Mismatches: 14, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
27 1 0.01
28 44 0.51
29 41 0.47
30 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (28 bp):
TTTGCCACAAAGGTTGTCCTTTTAAAGT
Found at i:54131234 original size:27 final size:27
Alignment explanation
Indices: 54131204--54131274 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
54131194 TCTGATAAGG
* *
54131204 GCATATCAGTCATTTTACCATGTATGA
1 GCATTTCAGTCATTTTACCATGTAGGA
* *
54131231 GCATTTTAGTCATTTTACCATGTAGGG
1 GCATTTCAGTCATTTTACCATGTAGGA
*
54131258 GCATTTCAATCATTTTA
1 GCATTTCAGTCATTTTA
54131275 TCAATTAGAG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (27 bp):
GCATTTCAGTCATTTTACCATGTAGGA
Found at i:54141927 original size:79 final size:81
Alignment explanation
Indices: 54141791--54141973 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
54141781 TCGAATGATG
* *
54141791 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAATTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAATTGACCAAATCCGGACTAAGATCCGAAGGCATT
54141855 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * **
54141870 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCTAGTT-ACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAATTGACCAAATCCGGACTAAGAT-CCGAAGGCA
54141932 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
54141950 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
54141974 TGAACGAGTA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAATTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:54141982 original size:40 final size:39
Alignment explanation
Indices: 54141792--54141975 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
54141782 CGAATGATGT
* * * *
54141792 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAATTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT-ACTA-AA
* *
54141832 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
* *
54141872 CCGGGCTAAG-CCCGAAGGCATTGGTGCTAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
54141910 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
54141951 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
54141976 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 77 0.62
41 13 0.10
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:54142006 original size:79 final size:79
Alignment explanation
Indices: 54141830--54142008 Score: 195
Period size: 79 Copynumber: 2.3 Consensus size: 79
54141820 AATTGACCAT
* *
54141830 ATCCGGACTAAGA-TCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATT
1 ATCCGGATTAA-ATTCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATT
** *
54141894 GGTGCTAGTTACTAA
65 GGAACGAGTTACTAA
* * * *
54141909 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 ATCCGGATTAAATTCCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
* *
54141973 TTGAACGAG-TAGCTAT
64 TGGAACGAGTTA-CTAA
54141989 ATCC-GATTAAATTCCGAAGG
1 ATCCGGATTAAATTCCGAAGG
54142009 TACGTGATTC
Statistics
Matches: 82, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
78 2 0.02
79 57 0.70
80 23 0.28
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
ATCCGGATTAAATTCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTG
GAACGAGTTACTAA
Found at i:54149987 original size:79 final size:81
Alignment explanation
Indices: 54149851--54150033 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
54149841 TCGAATGATG
* *
54149851 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
54149915 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
54149930 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
54149992 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
54150010 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
54150034 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:54150049 original size:40 final size:40
Alignment explanation
Indices: 54149852--54150035 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
54149842 CGAATGATGT
* * * *
54149852 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
54149892 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
54149932 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
54149970 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
54150011 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
54150036 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:54150057 original size:79 final size:79
Alignment explanation
Indices: 54149904--54150058 Score: 208
Period size: 79 Copynumber: 2.0 Consensus size: 79
54149894 GGACTAAGAT
* **
54149904 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
54149969 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
54149983 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
54150046 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
54150059 ATTCGAAGGT
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
78 2 0.03
79 41 0.61
80 24 0.36
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:54153872 original size:37 final size:37
Alignment explanation
Indices: 54153813--54153988 Score: 325
Period size: 37 Copynumber: 4.8 Consensus size: 37
54153803 AGCTCAGACG
* * *
54153813 AAATCTCCACACGAAGTTATCGGGTCTTACCTGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
54153850 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
54153887 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
54153924 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
54153961 AAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
54153989 TAGAGCTCGG
Statistics
Matches: 136, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 136 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:54154185 original size:47 final size:47
Alignment explanation
Indices: 54154107--54154363 Score: 406
Period size: 47 Copynumber: 5.5 Consensus size: 47
54154097 CCCTTCGGGA
* * * * * *
54154107 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
54154154 CCTGTCACATATATACACTTTCACAATCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54154201 CTTATCACATATATACACTTCCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54154248 CTTATCACATATATACACTTTCACATTAATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54154295 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54154342 CTTATCACATATATACACTTTC
1 CTTATCACATATATACACTTTC
54154364 TTGGTTGAAT
Statistics
Matches: 192, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 192 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:54158398 original size:40 final size:40
Alignment explanation
Indices: 54158167--54158389 Score: 365
Period size: 40 Copynumber: 5.6 Consensus size: 40
54158157 CCAGCATGAT
* * *
54158167 TGCTCTTCGGGACCTAGCCCGGATATATTACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
54158207 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
54158247 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
54158287 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
54158327 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
54158367 TGCTCTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
54158390 CATTTCACTC
Statistics
Matches: 168, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 168 1.00
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:54159731 original size:37 final size:37
Alignment explanation
Indices: 54159667--54159804 Score: 224
Period size: 37 Copynumber: 3.8 Consensus size: 37
54159657 AGCTCAGACG
* * * *
54159667 AAATCTCCACACGAAGTTATCGGGTCTTACCTGGACA
1 AAATCTCCACACGTAGTCATCGAGTCTTACCCGGACA
54159704 AAATCTCCACACGTAGTCATCGAGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGAGTCTTACCCGGACA
*
54159741 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC-
1 AAATCTCCACACGTAGTCATCGAGTCTTACCCGGACA
54159777 AAATCTCCACACGTAGTCATCGAGTCTT
1 AAATCTCCACACGTAGTCATCGAGTCTT
54159805 TAGAGCTCGG
Statistics
Matches: 95, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
36 27 0.28
37 68 0.72
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGAGTCTTACCCGGACA
Found at i:54160001 original size:47 final size:47
Alignment explanation
Indices: 54159923--54160273 Score: 603
Period size: 47 Copynumber: 7.5 Consensus size: 47
54159913 CCCTTCGGGA
* * * * * *
54159923 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54159970 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54160017 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54160064 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54160111 CTTATCACATATATACACTTTCACATTCATCACATTGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54160158 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54160205 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54160252 CTTATCACATATATACACTTTC
1 CTTATCACATATATACACTTTC
54160274 TTGGCTGAAT
Statistics
Matches: 290, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 290 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:54164706 original size:45 final size:45
Alignment explanation
Indices: 54164642--54164731 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
54164632 GGCCACGCAC
54164642 AAGCCTGTATCCCTCAGATGGCCTAGACACGCCCATGTCCAAAAA
1 AAGCCTGTATCCCTCAGATGGCCTAGACACGCCCATGTCCAAAAA
54164687 AAGCCTGTATCCCTCAGATGGCCTAGACACGCCCATGTCCAAAAA
1 AAGCCTGTATCCCTCAGATGGCCTAGACACGCCCATGTCCAAAAA
54164732 CTCAAACATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.31, C:0.33, G:0.18, T:0.18
Consensus pattern (45 bp):
AAGCCTGTATCCCTCAGATGGCCTAGACACGCCCATGTCCAAAAA
Found at i:54169554 original size:47 final size:45
Alignment explanation
Indices: 54169484--54169797 Score: 169
Period size: 46 Copynumber: 6.7 Consensus size: 45
54169474 TATGTATGCT
* *
54169484 AGTGTAAGACATGTCTAGAACATGCATCGGCCACATTATAAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CACATTATAAGAGCC
* * * *
54169530 AGTGTAAGACCATGTCTGGGACATGGCGTCGG--TATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACATT-ATA--AGAGCC
* * *
54169578 AGTGTATGACATGTCTGGGACATGCATCGGCTACATTATGAGAGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC-ACATTATAAGAGCC
** * **
54169624 AGTGTAAGACCATGTCTGGGACATTATTATCGG--CATTGAGACGAGAGAT
1 AGTGTAAGA-CATGTCTGGGACA-T-GCATCGGCACATT-ATA--AGAGCC
*
54169673 AGTGTAAGACATGTCTGGGACATGCA-C--CAACCTTA-AGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC-ACATTATA-A-G--AGCC
* * * * * * * *
54169719 AGTGTATGACATGTATGGGACATGCATCGGC-TATGAGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCACATTATAAGAGCC
*
54169763 AATGTAAGACCATGTCTGGGACATGGCATCGGCAC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCAC
54169798 GAATATGTGA
Statistics
Matches: 204, Mismatches: 37, Indels: 53
0.69 0.13 0.18
Matches are distributed among these distances:
43 2 0.01
44 11 0.05
45 18 0.09
46 72 0.35
47 44 0.22
48 35 0.17
49 22 0.11
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCACATTATAAGAGCC
Found at i:54169642 original size:94 final size:95
Alignment explanation
Indices: 54169481--54169698 Score: 321
Period size: 94 Copynumber: 2.3 Consensus size: 95
54169471 TTATATGTAT
* *
54169481 GCTAGTGTAAGACATGTCTAGAACATGCATCGGCCACATTATAAGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATAAGAGCCAGTGTAAGACCATGTC
* * *
54169546 TGGGACA-TGGCGTCGGTATTGAGACGAGA
66 TGGGACATTAGCATCGGCATTGAGACGAGA
* * * *
54169575 GCTAGTGTATGACATGTCTGGGACATGCATCGGCTACATTATGAGAGGCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATAAGAGCCAGTGTAAGACCATGTC
**
54169640 TGGGACATTATTATCGGCATTGAGACGAGA
66 TGGGACATTAGCATCGGCATTGAGACGAGA
*
54169670 GATAGTGTAAGACATGTCTGGGACATGCA
1 GCTAGTGTAAGACATGTCTGGGACATGCA
54169699 CCAACCTTAA
Statistics
Matches: 110, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
94 66 0.60
95 44 0.40
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.24
Consensus pattern (95 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATAAGAGCCAGTGTAAGACCATGTC
TGGGACATTAGCATCGGCATTGAGACGAGA
Found at i:54169722 original size:95 final size:94
Alignment explanation
Indices: 54169483--54169793 Score: 291
Period size: 94 Copynumber: 3.3 Consensus size: 94
54169473 ATATGTATGC
* * *
54169483 TAGTGTAAGACATGTCTAGAACATGCATCGGCCACATTATA-AGAGCCAGTGTAAGACCATGTCT
1 TAGTGTAAGACATGTCTGGGACATGCATC-GCAACATTA-AGAGAGCCAGTGTAAGACCATGTCT
* * * *
54169547 GGGACA-TGGCGTCGGTATTGAGACGAGAGC
64 GGGACATTAGCATCGGCATTGAGACGAGAGA
* * * *
54169577 TAGTGTATGACATGTCTGGGACATGCATCGGCTACATTATGAGAGGCAGTGTAAGACCATGTCTG
1 TAGTGTAAGACATGTCTGGGACATGCATC-GCAACATTAAGAGAGCCAGTGTAAGACCATGTCTG
**
54169642 GGACATTATTATCGGCATTGAGACGAGAGA
65 GGACATTAGCATCGGCATTGAGACGAGAGA
* * *
54169672 TAGTGTAAGACATGTCTGGGACATGCA-C-CAACCTTAAGATGTAAGCCAGTGTATGA-CATGTA
1 TAGTGTAAGACATGTCTGGGACATGCATCGCAACATTAAGA-G--AGCCAGTGTAAGACCATGTC
* * **
54169734 TGGGACA-T-GCATCGGC-TATGAGATGTGTCA
63 TGGGACATTAGCATCGGCAT-TGAGACGAGAGA
54169764 -A-TGTAAGACCATGTCTGGGACATGGCATCG
1 TAGTGTAAGA-CATGTCTGGGACAT-GCATCG
54169794 GCACGAATAT
Statistics
Matches: 182, Mismatches: 25, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
90 7 0.04
91 16 0.09
92 25 0.14
93 3 0.02
94 76 0.42
95 55 0.30
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.25
Consensus pattern (94 bp):
TAGTGTAAGACATGTCTGGGACATGCATCGCAACATTAAGAGAGCCAGTGTAAGACCATGTCTGG
GACATTAGCATCGGCATTGAGACGAGAGA
Found at i:54169758 original size:46 final size:48
Alignment explanation
Indices: 54169524--54169795 Score: 201
Period size: 46 Copynumber: 5.8 Consensus size: 48
54169514 CCACATTATA
* *
54169524 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCGTCGG-TATTGAGACG
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTA-TGAGATG
* * * *
54169572 AGAGCTAGTGTATGA-CATGTCTGGGACAT-GCATCGGCTA-CATTATG
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTATGA-GATG
* *** *
54169618 AGAGGCAGTGTAAGACCATGTCTGGGACATTATTATCGGC-ATTGAGACG
1 AGAGCCAGTGTAAGACCATGTCTGGGACA-TGGCATCGGCTA-TGAGATG
** * ** *
54169667 AGAGATAGTGTAAGA-CATGTCTGGGACAT-GCACCAACCT-TAAGATG
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GGCTATGAGATG
* *
54169713 TA-AGCCAGTGTATGA-CATGTATGGGACAT-GCATCGGCTATGAGAT-
1 -AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTATGAGATG
* * *
54169758 -GTGTCAATGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
54169796 ACGAATATGT
Statistics
Matches: 174, Mismatches: 36, Indels: 30
0.73 0.15 0.12
Matches are distributed among these distances:
44 9 0.05
45 16 0.09
46 67 0.39
47 32 0.18
48 28 0.16
49 21 0.12
50 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (48 bp):
AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTATGAGATG
Found at i:54180396 original size:20 final size:20
Alignment explanation
Indices: 54180373--54180411 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
54180363 GTTATAATGA
54180373 CCACACGGG-GTGTTGCCCTT
1 CCACACGGGCGTG-TGCCCTT
54180393 CCACACGGGCGTGTGCCCT
1 CCACACGGGCGTGTGCCCT
54180412 GTTTCAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.10, C:0.38, G:0.31, T:0.21
Consensus pattern (20 bp):
CCACACGGGCGTGTGCCCTT
Found at i:54186329 original size:38 final size:38
Alignment explanation
Indices: 54186286--54186411 Score: 125
Period size: 38 Copynumber: 3.3 Consensus size: 38
54186276 GGCTTAAAGA
* *
54186286 CCCGCAGGCTATATGCTTGAATTATATCCGAGTTAAAT
1 CCCGCAGGCTATGTGCTGGAATTATATCCGAGTTAAAT
54186324 CCCGCAGGCT-TCGTGCTGGTAA-TATATCC-AGGTTAAAT
1 CCCGCAGGCTAT-GTGCTGG-AATTATATCCGA-GTTAAAT
* *
54186362 CCCGCAGGCCTA-GTGCTGGTATTATATCTGAGTTTAAAGT
1 CCCGCAGG-CTATGTGCTGGAATTATATCCGAG-TTAAA-T
*
54186402 CCCGTAGGCT
1 CCCGCAGGCT
54186412 TCGTGCTAGT
Statistics
Matches: 74, Mismatches: 5, Indels: 17
0.77 0.05 0.18
Matches are distributed among these distances:
37 3 0.04
38 51 0.69
39 12 0.16
40 8 0.11
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (38 bp):
CCCGCAGGCTATGTGCTGGAATTATATCCGAGTTAAAT
Found at i:54186418 original size:40 final size:37
Alignment explanation
Indices: 54186306--54186418 Score: 136
Period size: 38 Copynumber: 2.9 Consensus size: 37
54186296 ATATGCTTGA
54186306 ATTATATCCGAGTTAAATCCCGCAGGCTTCGTGCTGGT
1 ATTATAT-CGAGTTAAATCCCGCAGGCTTCGTGCTGGT
* * * *
54186344 AATATATCCAGGTTAAATCCCGCAGGCCTAGTGCTGGT
1 ATTATATCGA-GTTAAATCCCGCAGGCTTCGTGCTGGT
*
54186382 ATTATATCTGAGTTTAAAGTCCCGTAGGCTTCGTGCT
1 ATTATATC-GAG-TTAAA-TCCCGCAGGCTTCGTGCT
54186419 AGTGTTATGT
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
37 2 0.03
38 39 0.63
39 6 0.10
40 15 0.24
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (37 bp):
ATTATATCGAGTTAAATCCCGCAGGCTTCGTGCTGGT
Found at i:54188028 original size:43 final size:43
Alignment explanation
Indices: 54187980--54188244 Score: 395
Period size: 43 Copynumber: 6.2 Consensus size: 43
54187970 GCATGAAACT
* *
54187980 CGGTGATGTGTATTCAGGCCTTTGTGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
* * *
54188023 CGGTGATGAGTATTCGGGCCTTTGTGCCTAGAAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
*
54188066 CGGTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
* **
54188109 CGGTGATGAGTATTCGGGCCTTCGTGCCTATTAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
**
54188152 CGGTGATGTGTATTCGGGCCTTCGTGCCTATTAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
* * **
54188195 CAGTGATGTGTATTCGGGTCTTCGTGCCTAGCAGGCTTAATGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
54188238 CGGTGAT
1 CGGTGAT
54188245 TCGAGCAAGG
Statistics
Matches: 205, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 205 1.00
ACGTcount: A:0.12, C:0.22, G:0.33, T:0.32
Consensus pattern (43 bp):
CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
Found at i:54188467 original size:58 final size:58
Alignment explanation
Indices: 54188398--54188590 Score: 268
Period size: 58 Copynumber: 3.3 Consensus size: 58
54188388 CGAATGATTA
54188398 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAGTT
1 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAGTT
* * *
54188456 GAGGCACTGTGTGTGCGAATTCCTTTAACCAAGCACTATGTGTGCGAGATCGGTAATT
1 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAGTT
* * * *
54188514 GAGGCACTGTGTGTGCGAGTT-CTTCAATCGAGCACTATGTGTGCGAGATCGGTCAG-T
1 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGT-AGTT
54188571 G-GGCACTAAGTGTGTG-AAAT
1 GAGGCACT--GTGTGTGCAAAT
54188591 GAGATTCATG
Statistics
Matches: 122, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
56 6 0.05
57 33 0.27
58 83 0.68
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (58 bp):
GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAGTT
Found at i:54188501 original size:29 final size:29
Alignment explanation
Indices: 54188401--54188502 Score: 82
Period size: 29 Copynumber: 3.5 Consensus size: 29
54188391 ATGATTAGAG
* * *
54188401 GCACTGTGTGTGCAAATTCCTTTAACCGA
1 GCACTATGTGTGCGAATTCCTTTAACCAA
** *** *
54188430 GCACTATGTGTGCGAGA-T-CGGTAGTTGAG
1 GCACTATGTGTGCGA-ATTCCTTTA-ACCAA
*
54188459 GCACTGTGTGTGCGAATTCCTTTAACCAA
1 GCACTATGTGTGCGAATTCCTTTAACCAA
54188488 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
54188503 GATCGGTAAT
Statistics
Matches: 52, Mismatches: 17, Indels: 8
0.68 0.22 0.10
Matches are distributed among these distances:
28 4 0.08
29 44 0.85
30 4 0.08
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (29 bp):
GCACTATGTGTGCGAATTCCTTTAACCAA
Found at i:54188520 original size:29 final size:29
Alignment explanation
Indices: 54188430--54188584 Score: 122
Period size: 29 Copynumber: 5.4 Consensus size: 29
54188420 CTTTAACCGA
*
54188430 GCACTATGTGTGCGAGATCGGTAGTTGAG
1 GCACTATGTGTGCGAGATCGGTAATTGAG
* ** ** *
54188459 GCACTGTGTGTGCGA-ATTCCTTTAA-CCAA
1 GCACTATGTGTGCGAGA-T-CGGTAATTGAG
54188488 GCACTATGTGTGCGAGATCGGTAATTGAG
1 GCACTATGTGTGCGAGATCGGTAATTGAG
* * * *
54188517 GCACTGTGTGTGCGAGTTC-TTCAATCGA-
1 GCACTATGTGTGCGAGATCGGT-AATTGAG
* *
54188545 GCACTATGTGTGCGAGATCGGTCAGTG-G
1 GCACTATGTGTGCGAGATCGGTAATTGAG
*
54188573 GCACTAAGTGTG
1 GCACTATGTGTG
54188585 TGAAATGAGA
Statistics
Matches: 95, Mismatches: 24, Indels: 15
0.71 0.18 0.11
Matches are distributed among these distances:
28 36 0.38
29 55 0.58
30 4 0.04
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.28
Consensus pattern (29 bp):
GCACTATGTGTGCGAGATCGGTAATTGAG
Found at i:54188576 original size:28 final size:28
Alignment explanation
Indices: 54188488--54188584 Score: 99
Period size: 28 Copynumber: 3.4 Consensus size: 28
54188478 CTTTAACCAA
54188488 GCACTATGTGTGCGAGATCGGT-AATTGAG
1 GCACTATGTGTGCGAGATCGGTCAA-TG-G
* * * *
54188517 GCACTGTGTGTGCGAGTTC-TTCAATCGA
1 GCACTATGTGTGCGAGATCGGTCAAT-GG
*
54188545 GCACTATGTGTGCGAGATCGGTCAGTGG
1 GCACTATGTGTGCGAGATCGGTCAATGG
*
54188573 GCACTAAGTGTG
1 GCACTATGTGTG
54188585 TGAAATGAGA
Statistics
Matches: 55, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
28 31 0.56
29 24 0.44
ACGTcount: A:0.21, C:0.18, G:0.34, T:0.28
Consensus pattern (28 bp):
GCACTATGTGTGCGAGATCGGTCAATGG
Found at i:54190745 original size:48 final size:48
Alignment explanation
Indices: 54190591--54190738 Score: 224
Period size: 48 Copynumber: 3.1 Consensus size: 48
54190581 ATATATACAC
* **
54190591 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATGCAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
** * *
54190639 GGCTCATAGATATTTCACATTAGCCATTCAGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
*
54190687 ATCTCATACATATTTTACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
54190735 ATCT
1 ATCT
54190739 TGTACATCAA
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 88 1.00
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
Found at i:54193104 original size:23 final size:23
Alignment explanation
Indices: 54193072--54193115 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
54193062 AAAATTTCAC
* *
54193072 ACATGTAATTTCACATATAATAG
1 ACATGAAATTTAACATATAATAG
*
54193095 ACATGAAATTTAACATTTAAT
1 ACATGAAATTTAACATATAAT
54193116 TATTTTTGCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.45, C:0.11, G:0.07, T:0.36
Consensus pattern (23 bp):
ACATGAAATTTAACATATAATAG
Found at i:54196513 original size:38 final size:38
Alignment explanation
Indices: 54196452--54196602 Score: 139
Period size: 38 Copynumber: 3.9 Consensus size: 38
54196442 ATTTGATGTG
* *
54196452 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCTATGTGCTGGAATTA
54196492 TATCCGGGTTAAATCCCGCAGGCT-TCGTGCTGGTAA-TA
1 TATCCGGGTTAAATCCCGCAGGCTAT-GTGCTGG-AATTA
* *
54196530 TATCCGAGTTAAATCCCGCAGGCCTA-GTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGG-CTATGTGCTGGAATTA
* * *
54196568 TATCTGAGTTTAAAGTCCCGTAGGCT-TCGTGCTGG
1 TATCCG-GGTTAAA-TCCCGCAGGCTAT-GTGCTGG
54196603 TGTTATGTTT
Statistics
Matches: 94, Mismatches: 8, Indels: 18
0.78 0.07 0.15
Matches are distributed among these distances:
37 2 0.02
38 53 0.56
39 16 0.17
40 23 0.24
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.29
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTATGTGCTGGAATTA
Found at i:54196600 original size:40 final size:38
Alignment explanation
Indices: 54196468--54196608 Score: 167
Period size: 38 Copynumber: 3.7 Consensus size: 38
54196458 GGCTTAAAGA
* * *
54196468 CCCGCAGGCTAT-ATGCTGGAATTATATCCGGGTTAAAT
1 CCCGCAGGCT-TCGTGCTGGTATTATATCCGAGTTAAAT
*
54196506 CCCGCAGGCTTCGTGCTGGTAATATATCCGAGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGAGTTAAAT
* * *
54196544 CCCGCAGGCCTAGTGCTGGTATTATATCTGAGTTTAAAGT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGAG-TTAAA-T
* *
54196584 CCCGTAGGCTTCGTGCTGGTGTTAT
1 CCCGCAGGCTTCGTGCTGGTATTAT
54196609 GTTTGGGTTT
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
37 1 0.01
38 60 0.68
39 5 0.06
40 22 0.25
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTATTATATCCGAGTTAAAT
Found at i:54208488 original size:8 final size:8
Alignment explanation
Indices: 54208475--54208506 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
54208465 CTAGATCGAC
54208475 AAAAGCCG
1 AAAAGCCG
54208483 AAAAGCCG
1 AAAAGCCG
*
54208491 AAATGCCG
1 AAAAGCCG
54208499 AAAAGCCG
1 AAAAGCCG
54208507 GTATTTTGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.47, C:0.25, G:0.25, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:54218649 original size:37 final size:37
Alignment explanation
Indices: 54218599--54218751 Score: 252
Period size: 37 Copynumber: 4.1 Consensus size: 37
54218589 TTATTACGAA
* * * *
54218599 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
54218636 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
*
54218673 GTCTTACCCGAACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
*
54218710 GTCTTACCCGGACAAAATCCCCACTCGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
54218747 GTCTT
1 GTCTT
54218752 TAGGGCTCGG
Statistics
Matches: 109, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 109 1.00
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.22
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
Found at i:54218948 original size:47 final size:47
Alignment explanation
Indices: 54218870--54219249 Score: 625
Period size: 47 Copynumber: 8.0 Consensus size: 47
54218860 CCCTTCGGGA
* * * * * * *
54218870 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54218917 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54218964 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54219011 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54219058 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54219105 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54219152 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54219201 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54219248 CT
1 CT
54219250 GTAACTCCCC
Statistics
Matches: 314, Mismatches: 17, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 268 0.85
49 46 0.15
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:54220840 original size:29 final size:29
Alignment explanation
Indices: 54220778--54220844 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
54220768 AATCAACCGT
*
54220778 GCACACTTAGTGCCATGTACTTTAAACTC
1 GCACACTTAGTGCCATGCACTTTAAACTC
* **
54220807 ACACACTTAGTGCCATGCA-TTTCAAGTTC
1 GCACACTTAGTGCCATGCACTTT-AAACTC
54220836 GCACACTTA
1 GCACACTTA
54220845 CCTTTTCCGC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.09
29 29 0.91
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.30
Consensus pattern (29 bp):
GCACACTTAGTGCCATGCACTTTAAACTC
Found at i:54221014 original size:29 final size:29
Alignment explanation
Indices: 54220951--54221018 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
54220941 TAATCAACCG
*
54220951 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
54220980 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
54221009 CGCACACTTA
1 CGCACACTTA
54221019 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:54221159 original size:29 final size:30
Alignment explanation
Indices: 54221120--54221198 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
54221110 CTTAATAATC
54221120 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
54221150 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
54221179 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
54221199 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:54221192 original size:174 final size:174
Alignment explanation
Indices: 54220666--54221167 Score: 959
Period size: 174 Copynumber: 2.9 Consensus size: 174
54220656 AACTCAAGGT
* * *
54220666 ACTTACCTTTTCTGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
54220731 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGTGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
54220796 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
54220840 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
54220905 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
54220970 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
54221014 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
54221079 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
*
54221144 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
54221168 TGTACAATTT
Statistics
Matches: 323, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 323 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:54222833 original size:47 final size:47
Alignment explanation
Indices: 54222764--54222880 Score: 225
Period size: 47 Copynumber: 2.5 Consensus size: 47
54222754 GGCTGTTACA
54222764 AGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATT
1 AGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATT
*
54222811 AGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATT
1 AGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATT
54222858 AGGCCTTATCACATATATACACT
1 AGGCCTTATCACATATATACACT
54222881 GTCTTGGCTG
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.31, C:0.28, G:0.09, T:0.32
Consensus pattern (47 bp):
AGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATT
Found at i:54226440 original size:40 final size:40
Alignment explanation
Indices: 54226396--54226618 Score: 270
Period size: 40 Copynumber: 5.6 Consensus size: 40
54226386 CCAGCATGAT
* * *
54226396 TGCTCTTCGGGACCTAGCCCGGATATAACACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
*** *
54226436 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* * *
54226476 TGCTCTTCGAAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* *
54226516 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* *
54226556 TGCTCTTCGGAACTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGAACTTAGCCCGGATAT-ATCAC-TAGCACGAA
* *
54226597 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGAACTTAGCCCGGA
54226619 CATCATTCAA
Statistics
Matches: 163, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
40 149 0.91
41 8 0.05
42 6 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
Found at i:54226966 original size:29 final size:29
Alignment explanation
Indices: 54226926--54227003 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 29
54226916 CTTAATAATC
* *
54226926 AACCACGCACACTTAGTGCTATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
54226956 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
54226985 AGCCCGCACACTTAGTGCC
1 AACCCGCACACTTAGTGCC
54227004 GATCTCACAA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 3 0.07
29 36 0.86
30 3 0.07
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.26
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:54227052 original size:43 final size:43
Alignment explanation
Indices: 54226986--54227088 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
54226976 TGCATTTCAA
*
54226986 GCCCGCACACTTAGTGCCGATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
54227029 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
54227072 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
54227089 TGAAAACCAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.25, C:0.36, G:0.17, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:54228400 original size:37 final size:37
Alignment explanation
Indices: 54228350--54228502 Score: 243
Period size: 37 Copynumber: 4.1 Consensus size: 37
54228340 TTATTACGAA
* * * *
54228350 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
*
54228387 GTCTTACCAGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
*
54228424 GTCTTACCCGGACAAAATCCCCACACGTAGTCGTCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
54228461 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
*
54228498 ATCTT
1 GTCTT
54228503 TAGAGCTCGG
Statistics
Matches: 107, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 107 1.00
ACGTcount: A:0.27, C:0.33, G:0.19, T:0.22
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
Found at i:54228699 original size:47 final size:47
Alignment explanation
Indices: 54228623--54228757 Score: 189
Period size: 47 Copynumber: 2.9 Consensus size: 47
54228613 CTTCGGGACT
* * * * * * *
54228623 TATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCA
* *
54228670 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCA
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCA
54228717 TATCACATATATACACTTTCACATTCATCACATCGGCCACT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACT
54228758 TTCACATTCA
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 77 1.00
ACGTcount: A:0.27, C:0.33, G:0.10, T:0.30
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCA
Found at i:54228760 original size:24 final size:24
Alignment explanation
Indices: 54228730--54228779 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
54228720 CACATATATA
54228730 CACTTTCACATTCATCACATCGGC
1 CACTTTCACATTCATCACATCGGC
54228754 CACTTTCACATTCATCACATCGGC
1 CACTTTCACATTCATCACATCGGC
54228778 CA
1 CA
54228780 TTAGGCCTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.26, C:0.38, G:0.08, T:0.28
Consensus pattern (24 bp):
CACTTTCACATTCATCACATCGGC
Found at i:54228766 original size:71 final size:71
Alignment explanation
Indices: 54228683--54228824 Score: 266
Period size: 71 Copynumber: 2.0 Consensus size: 71
54228673 CACATATATA
54228683 CACTTTCACATTCATCACATCGGCCATTAGGCCATATCACATATATACACTTTCACATTCATCAC
1 CACTTTCACATTCATCACATCGGCCATTAGGCCATATCACATATATACACTTTCACATTCATCAC
54228748 ATCGGC
66 ATCGGC
* *
54228754 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACATATATACACTTTCACATTCATCAC
1 CACTTTCACATTCATCACATCGGCCATTAGGCCATATCACATATATACACTTTCACATTCATCAC
54228819 ATCGGC
66 ATCGGC
54228825 TATTAGGCCT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 69 1.00
ACGTcount: A:0.29, C:0.32, G:0.08, T:0.31
Consensus pattern (71 bp):
CACTTTCACATTCATCACATCGGCCATTAGGCCATATCACATATATACACTTTCACATTCATCAC
ATCGGC
Found at i:54228807 original size:47 final size:47
Alignment explanation
Indices: 54228754--54229135 Score: 692
Period size: 47 Copynumber: 8.1 Consensus size: 47
54228744 TCACATCGGC
*
54228754 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACATATATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
*
54228801 CACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
* *
54228848 CACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
54228895 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATA
*
54228944 CACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
54228991 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
54229038 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
*
54229085 CACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
54229132 CACT
1 CACT
54229136 GTCTTGGCTA
Statistics
Matches: 325, Mismatches: 8, Indels: 4
0.96 0.02 0.01
Matches are distributed among these distances:
47 280 0.86
49 45 0.14
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
Found at i:54228844 original size:118 final size:118
Alignment explanation
Indices: 54228636--54228871 Score: 382
Period size: 118 Copynumber: 2.0 Consensus size: 118
54228626 CACATTTATG
* * * *
54228636 CACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACACTTTCACATTCATCAC
1 CACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACACTTTCACATTCATCAC
54228701 ATCGGCCATTAGGCCATATCACATATATACACTTTCACATTCATCACATCGGC
66 ATCGGCCATTAGGCCATATCACATATATACACTTTCACATTCATCACATCGGC
* * * *
54228754 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACATATATACACTTTCACATTCATCAC
1 CACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACACTTTCACATTCATCAC
* *
54228819 ATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
66 ATCGGCCATTAGGCCATATCACATATATACACTTTCACATTCATCACATCGGC
54228872 TATTAGGCCT
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
118 108 1.00
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.31
Consensus pattern (118 bp):
CACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACACTTTCACATTCATCAC
ATCGGCCATTAGGCCATATCACATATATACACTTTCACATTCATCACATCGGC
Found at i:54228908 original size:165 final size:165
Alignment explanation
Indices: 54228621--54228920 Score: 474
Period size: 165 Copynumber: 1.8 Consensus size: 165
54228611 CCCTTCGGGA
* * * * * *
54228621 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
*
54228686 TTTCACATTCATCACATCGGCCATTAGGCCATATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCATATCACACATATACACTTTCACATTCATCACATC
54228751 GGCCACTTTCACATTCATCACATCGGCCATTAGGC
131 GGCCACTTTCACATTCATCACATCGGCCATTAGGC
* * * * *
54228786 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
* *
54228851 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCATATCACACATATACACTTTCACATTCATCACATC
54228916 GGCCA
131 GGCCA
54228921 TTAGGCCTTA
Statistics
Matches: 121, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
165 121 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (165 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCATATCACACATATACACTTTCACATTCATCACATC
GGCCACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:54228972 original size:190 final size:190
Alignment explanation
Indices: 54228754--54229131 Score: 702
Period size: 190 Copynumber: 2.0 Consensus size: 190
54228744 TCACATCGGC
* *
54228754 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACATATATACACTTTCACATTCATCAC
1 CACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
* *
54228819 ATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
66 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
54228884 TCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
131 TCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
54228944 CACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
1 CACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
54229009 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
66 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
* *
54229074 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATA
131 TCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
54229132 CACTGTCTTG
Statistics
Matches: 182, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
190 182 1.00
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (190 bp):
CACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
TCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
Found at i:54236634 original size:22 final size:22
Alignment explanation
Indices: 54236609--54236659 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
54236599 CACTAGGGAC
*
54236609 TATGTGATTTGAGCTCATGAGT-
1 TATGTGATCTGAGCTCATGA-TA
*
54236631 TATGTGGTCTGAGCTCATGATA
1 TATGTGATCTGAGCTCATGATA
54236653 TATGTGA
1 TATGTGA
54236660 CACATGTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 1 0.04
22 24 0.96
ACGTcount: A:0.24, C:0.10, G:0.27, T:0.39
Consensus pattern (22 bp):
TATGTGATCTGAGCTCATGATA
Found at i:54242670 original size:41 final size:42
Alignment explanation
Indices: 54242594--54242680 Score: 140
Period size: 41 Copynumber: 2.0 Consensus size: 42
54242584 ATTTTGATGA
*
54242594 GATTGATAGTAGGAATGAGGAGTATAAACTCCTCAAACCACCAT
1 GATTGATAGCAGGAAT--GGAGTATAAACTCCTCAAACCACCAT
54242638 GATTGATAGCAGGAAT-GAGTATAAACTCCTCAAACCACCAT
1 GATTGATAGCAGGAATGGAGTATAAACTCCTCAAACCACCAT
54242679 GA
1 GA
54242681 CCATTCACTG
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
41 27 0.64
44 15 0.36
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.22
Consensus pattern (42 bp):
GATTGATAGCAGGAATGGAGTATAAACTCCTCAAACCACCAT
Found at i:54244891 original size:19 final size:21
Alignment explanation
Indices: 54244863--54244906 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
54244853 AGAGCGAAAG
54244863 GAAC-GAG-AAACGGGCCAAA
1 GAACGGAGAAAACGGGCCAAA
*
54244882 -AACGGAGAAAATGGGCCAAA
1 GAACGGAGAAAACGGGCCAAA
54244902 GAACG
1 GAACG
54244907 AAATCAACAC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 3 0.14
19 3 0.14
20 11 0.52
21 4 0.19
ACGTcount: A:0.48, C:0.18, G:0.32, T:0.02
Consensus pattern (21 bp):
GAACGGAGAAAACGGGCCAAA
Found at i:54250365 original size:47 final size:48
Alignment explanation
Indices: 54250293--54250609 Score: 161
Period size: 47 Copynumber: 6.8 Consensus size: 48
54250283 TTATAAGTGT
* * *
54250293 GCTAGTGTACGA-AATGTCTGAGACAT-GCATCGGCCACATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGA
* * *
54250339 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG---TATTGAGACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATT---ATGAGA
* * * * *
54250387 GCTAATGTATGA-CATGTCTGGGACAT--CTATCAGCCTCGA-GATGTA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGC-ATCGGCCAC-ATTATG-AGA
* * * * * * * *
54250433 ACCAGTGTAAGA-CATGTCTGGGATAT-GAATTGGCTAC--GA-GATGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGA-GA
* * * *
54250477 GTTAGTTTAAGACCATGTCTGGGACATGGCATTGG-CACGGATATGTGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC--AT-TATGAGA
*
54250527 GCTAGTGTAAGACCATGTCTAGGACATGGCATC-G--AC-TTGATGGATGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATT-AT-GA-GA
54250574 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
54250610 ATTATACACT
Statistics
Matches: 204, Mismatches: 40, Indels: 51
0.69 0.14 0.17
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 11 0.05
45 21 0.10
46 51 0.25
47 61 0.30
48 24 0.12
49 1 0.00
50 31 0.15
51 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGA
Found at i:54250544 original size:50 final size:49
Alignment explanation
Indices: 54250479--54250610 Score: 164
Period size: 47 Copynumber: 2.7 Consensus size: 49
54250469 CGAGATGTGT
*
54250479 TAGTTTAAGACCATGTCTGGGACATGGCATTGGCACGGAT-ATGTGA-GAGC
1 TAGTGTAAGACCATGTCTGGGACATGGCATTGGCAC--ATGATG-GATGAGC
* * *
54250529 TAGTGTAAGACCATGTCTAGGACATGGCA-TCG-ACTTGATGGATGAGC
1 TAGTGTAAGACCATGTCTGGGACATGGCATTGGCACATGATGGATGAGC
*
54250576 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 TAGTGTAAGACCATGTCTGGGACATGGCATTGGCA
54250611 TTATACACTA
Statistics
Matches: 71, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
46 3 0.04
47 35 0.49
48 3 0.04
49 3 0.04
50 27 0.38
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (49 bp):
TAGTGTAAGACCATGTCTGGGACATGGCATTGGCACATGATGGATGAGC
Found at i:54252606 original size:27 final size:27
Alignment explanation
Indices: 54252564--54252619 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
54252554 ATGCACGAGT
*
54252564 GGCAAAATAGTCATTTAACACCCA-AGG
1 GGCAAAATAGTAATTTAAC-CCCACAGG
* *
54252591 GGCAAAATGGTAATTTTACCCCACAGG
1 GGCAAAATAGTAATTTAACCCCACAGG
54252618 GG
1 GG
54252620 TATTTCGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (27 bp):
GGCAAAATAGTAATTTAACCCCACAGG
Found at i:54252631 original size:27 final size:27
Alignment explanation
Indices: 54252601--54252710 Score: 193
Period size: 27 Copynumber: 4.1 Consensus size: 27
54252591 GGCAAAATGG
* *
54252601 TAATTTTACCCCACAGGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
*
54252628 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGA
54252655 TAATTCTACCCTACAGGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
54252682 TAATTCTACCCTACAGGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
54252709 TA
1 TA
54252711 GTTTTATAAC
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 79 1.00
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGA
Found at i:54260112 original size:26 final size:27
Alignment explanation
Indices: 54260083--54260182 Score: 150
Period size: 27 Copynumber: 3.7 Consensus size: 27
54260073 TACTCCACAA
*
54260083 GGGTATCTCGATAATTCTACCCTACA-
1 GGGTATTTCGATAATTCTACCCTACAG
54260109 GGGTATTTC-AGTAATTCTACCCTACAG
1 GGGTATTTCGA-TAATTCTACCCTACAG
*
54260136 GGGTATTTCAATAATTCTACCCTACAG
1 GGGTATTTCGATAATTCTACCCTACAG
*
54260163 GGGTATTTCGGTAATTCTAC
1 GGGTATTTCGATAATTCTAC
54260183 AACTTATCCA
Statistics
Matches: 68, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
25 1 0.01
26 23 0.34
27 43 0.63
28 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (27 bp):
GGGTATTTCGATAATTCTACCCTACAG
Found at i:54260124 original size:53 final size:54
Alignment explanation
Indices: 54260066--54260182 Score: 166
Period size: 53 Copynumber: 2.2 Consensus size: 54
54260056 GGGCAAAATG
* *
54260066 GTAATTTTACTCC-ACAAGGGTATCTCGATAATTCTACCCTACA-GGGTATTTCA
1 GTAATTCTAC-CCTACAAGGGTATCTCAATAATTCTACCCTACAGGGGTATTTCA
* * *
54260119 GTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATCTCAATAATTCTACCCTACAGGGGTATTTCA
54260173 GTAATTCTAC
1 GTAATTCTAC
54260183 AACTTATCCA
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
52 2 0.04
53 36 0.63
54 19 0.33
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.34
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGGGTATCTCAATAATTCTACCCTACAGGGGTATTTCA
Found at i:54264546 original size:37 final size:37
Alignment explanation
Indices: 54264495--54264570 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
54264485 ATGACCGATG
*
54264495 TTGTTGTGATTAGCCAAATG-TAT-TGGCTTATAATGAT
1 TTGTTGTGATTAGCC--ATGAGATGTGGCTTATAATGAT
54264532 TTGTTGT-ATGTAGCCATGAGATGTGGCTTATAATGAT
1 TTGTTGTGAT-TAGCCATGAGATGTGGCTTATAATGAT
54264569 TT
1 TT
54264571 TGGCTTATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
35 3 0.09
36 4 0.11
37 28 0.80
ACGTcount: A:0.25, C:0.08, G:0.24, T:0.43
Consensus pattern (37 bp):
TTGTTGTGATTAGCCATGAGATGTGGCTTATAATGAT
Found at i:54268114 original size:42 final size:42
Alignment explanation
Indices: 54268035--54268114 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
54268025 GATCATATCT
* * *
54268035 GGGATATGGCATCGGTATATGATTTCGTATAACACCATGTTA
1 GGGACATGGCATCGATATATGATTTCATATAACACCATGTTA
* *
54268077 GGGACATGGCATCGATATGAT-ATTTCATGTAAGACCAT
1 GGGACATGGCATCGATAT-ATGATTTCATATAACACCAT
54268115 ATCCAGGATA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
42 30 0.94
43 2 0.06
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (42 bp):
GGGACATGGCATCGATATATGATTTCATATAACACCATGTTA
Found at i:54269936 original size:33 final size:33
Alignment explanation
Indices: 54269866--54269973 Score: 112
Period size: 33 Copynumber: 3.3 Consensus size: 33
54269856 GGTGTACATT
* * **
54269866 CCTTTCCAAATGGTACACGCAAAGTATACCTTT
1 CCTTTTCAAATGGTACACACAAAGTATACCTAA
*
54269899 CCTTTTCATATGGTACACACAAAGTATACCTAA
1 CCTTTTCAAATGGTACACACAAAGTATACCTAA
** * * *
54269932 CC-TTTCAGGT-GTACACACAAGGTGTACATAA
1 CCTTTTCAAATGGTACACACAAAGTATACCTAA
54269963 CCTTTTCAAAT
1 CCTTTTCAAAT
54269974 TAAACCATTT
Statistics
Matches: 62, Mismatches: 12, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
31 20 0.32
32 12 0.19
33 30 0.48
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.31
Consensus pattern (33 bp):
CCTTTTCAAATGGTACACACAAAGTATACCTAA
Found at i:54271599 original size:42 final size:43
Alignment explanation
Indices: 54271491--54271659 Score: 121
Period size: 42 Copynumber: 3.9 Consensus size: 43
54271481 GACAGGTACA
* * * *
54271491 ATGCCGACGTCCCAGACGTGGTCTTACATGTAATTCAGTATCG
1 ATGCCGATGTCCCAGACATGGTCTTACACGTAAATCAGTATCG
** * * *
54271534 ATGCCTCTGTCCCACACAAGGTCTTATACG-AAATCAG-ATACG
1 ATGCCGATGTCCCAGACATGGTCTTACACGTAAATCAGTAT-CG
* * *
54271576 ATGCCGATGTCCCGGACATGGTCTTACACATAAATTTCAAT-TCG
1 ATGCCGATGTCCCAGACATGGTCTTACACGTAAA--TCAGTATCG
* * * *
54271620 ATGCATG-TGTCCTAGACACGGTCTTACACGATAATTCAGT
1 ATGC-CGATGTCCCAGACATGGTCTTACACG-TAAATCAGT
54271660 TCAATACCAA
Statistics
Matches: 95, Mismatches: 24, Indels: 14
0.71 0.18 0.11
Matches are distributed among these distances:
41 2 0.02
42 31 0.33
43 29 0.31
44 25 0.26
45 8 0.08
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (43 bp):
ATGCCGATGTCCCAGACATGGTCTTACACGTAAATCAGTATCG
Found at i:54276246 original size:47 final size:47
Alignment explanation
Indices: 54276195--54276656 Score: 728
Period size: 47 Copynumber: 9.7 Consensus size: 47
54276185 TTAGGATTCT
* * *
54276195 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
*
54276242 ATGTGATGAATGTGAAAGTGTATATACATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATAT--ATGTGATAAGGCCTAATGGCCG
*
54276291 ATGTGAAGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
54276338 ATGTGATGAATGTGAAAGTGTATATACATGTGACAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATAT--ATGTGATAAGGCCTAATGGCCG
54276387 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
54276434 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
54276481 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
54276528 ATATGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
54276575 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
54276622 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
54276657 TCCCGAAGGG
Statistics
Matches: 387, Mismatches: 23, Indels: 10
0.92 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 297 0.77
49 89 0.23
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:54276826 original size:37 final size:37
Alignment explanation
Indices: 54276776--54276928 Score: 243
Period size: 37 Copynumber: 4.1 Consensus size: 37
54276766 CCAAGCTCTA
*
54276776 AAGACCCGATGACTACGTGTGGGGATTTTGTCTGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
*
54276813 AAGACCCGATGACTACGTGTGGGGATTTCGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
*
54276850 AAGACCCGATGACTACGTGTGGGGATTTTGTCTGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
* * * *
54276887 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
54276924 AAGAC
1 AAGAC
54276929 TTCGTAATAA
Statistics
Matches: 107, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 107 1.00
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.27
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
Found at i:54283430 original size:42 final size:43
Alignment explanation
Indices: 54283322--54283480 Score: 128
Period size: 42 Copynumber: 3.7 Consensus size: 43
54283312 GACAGGTACA
* * * *
54283322 ATGCCGACGTCCCAGACGTGGTCTTACATGTAATTCAGTATCG
1 ATGCCGATGTCCCAGACATGGTCTTACACGTAAATCAGTATCG
** * * *
54283365 ATGCCTCTGTCCCACACAAGGTCTTATACG-AAATCAG-ATACG
1 ATGCCGATGTCCCAGACATGGTCTTACACGTAAATCAGTAT-CG
* * *
54283407 ATGCCGATGTCCCGGACATGGTCTTACACGTAAATTTCA-AATTG
1 ATGCCGATGTCCCAGACATGGTCTTACACGTAAA--TCAGTATCG
* *
54283451 ATGCCTG-TGTCCCAAACACGGTCTTACACG
1 ATGCC-GATGTCCCAGACATGGTCTTACACG
54283481 ATAATTTAGT
Statistics
Matches: 91, Mismatches: 19, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
41 2 0.02
42 32 0.35
43 25 0.27
44 26 0.29
45 6 0.07
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.26
Consensus pattern (43 bp):
ATGCCGATGTCCCAGACATGGTCTTACACGTAAATCAGTATCG
Found at i:54292632 original size:46 final size:47
Alignment explanation
Indices: 54292522--54292741 Score: 198
Period size: 46 Copynumber: 4.6 Consensus size: 47
54292512 TCATCTTCGA
*
54292522 GGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTATATACAT
1 GGCTGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTC--ATATACAT
* * **
54292573 -GCTGATGCATGTCCCAAACATGTTTTACACTAGCACTCATA-ATGT
1 GGCTGATGCATGTCCCAGACATGTCTTACACTAGCACTCATATACAT
* * *
54292618 GGCTGATGCATGTCCCAGACATGTCTTACACTAGCCCTCATCT-CAA
1 GGCTGATGCATGTCCCAGACATGTCTTACACTAGCACTCATATACAT
* ** * **
54292664 CGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTA-TCATA-ATGT
1 GGCTGATG-CATGTCCCAGACAT-GTCTTACACTAGC-ACTCATATACAT
* *
54292712 GGCCGATGCATGTTCCAGACATGTCTTACA
1 GGCTGATGCATGTCCCAGACATGTCTTACA
54292742 TTGGCGCACA
Statistics
Matches: 139, Mismatches: 24, Indels: 17
0.77 0.13 0.09
Matches are distributed among these distances:
45 2 0.01
46 53 0.38
47 27 0.19
48 37 0.27
49 13 0.09
50 7 0.05
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (47 bp):
GGCTGATGCATGTCCCAGACATGTCTTACACTAGCACTCATATACAT
Found at i:54292695 original size:94 final size:93
Alignment explanation
Indices: 54292522--54292741 Score: 266
Period size: 94 Copynumber: 2.3 Consensus size: 93
54292512 TCATCTTCGA
* * **
54292522 GGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTATATACATGCTGATGCATGTCC
1 GGCTGATG-CATGTCCCAGACAT-GTCTTACACTAGCCCTCG-ATATACACGCCAATGCATGTCC
*
54292587 CAAACATGTTTTACACTAGC-ACTCATAATGT
63 CAAACATGTCTTACACTAGCTA-TCATAATGT
*
54292618 GGCTGATGCATGTCCCAGACATGTCTTACACTAGCCCTC-ATCT-CAACGCCAATGCCATGTCCC
1 GGCTGATGCATGTCCCAGACATGTCTTACACTAGCCCTCGATATAC-ACGCCAATG-CATGTCCC
* *
54292681 AGACATGGTCTTACACTGGCTATCATAATGT
64 AAACAT-GTCTTACACTAGCTATCATAATGT
* *
54292712 GGCCGATGCATGTTCCAGACATGTCTTACA
1 GGCTGATGCATGTCCCAGACATGTCTTACA
54292742 TTGGCGCACA
Statistics
Matches: 110, Mismatches: 10, Indels: 10
0.85 0.08 0.08
Matches are distributed among these distances:
91 1 0.01
92 9 0.08
93 13 0.12
94 64 0.58
95 15 0.14
96 8 0.07
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (93 bp):
GGCTGATGCATGTCCCAGACATGTCTTACACTAGCCCTCGATATACACGCCAATGCATGTCCCAA
ACATGTCTTACACTAGCTATCATAATGT
Found at i:54299094 original size:39 final size:39
Alignment explanation
Indices: 54298983--54299112 Score: 170
Period size: 40 Copynumber: 3.3 Consensus size: 39
54298973 GGACTAAGAT
* * *
54298983 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGG-CATTGTGCGAGTTACTAAATCCGGGTTATGTC
**
54299023 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATT-GTGCGAGTTACTAAATCCGGGTTATGTC
* * *
54299063 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
54299102 CCGAAGGCATT
1 CCGAAGGCATT
54299113 TGAACGAGGA
Statistics
Matches: 79, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
39 37 0.47
40 42 0.53
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
Found at i:54299132 original size:79 final size:79
Alignment explanation
Indices: 54298983--54299147 Score: 179
Period size: 79 Copynumber: 2.1 Consensus size: 79
54298973 GGACTAAGAT
* * * ** ** *
54298983 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
**
54299048 AATCCGGGTTATGTC
66 AATCC-GGTTAAATC
* * * *
54299063 CCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
54299127 TATCCGGTTAAATC
66 AATCCGGTTAAATC
54299141 CCGAAGG
1 CCGAAGG
54299148 TACGTGATTT
Statistics
Matches: 70, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
78 14 0.20
79 49 0.70
80 7 0.10
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGTTAAATC
Found at i:54301704 original size:48 final size:48
Alignment explanation
Indices: 54301614--54301787 Score: 191
Period size: 48 Copynumber: 3.7 Consensus size: 48
54301604 TGGGATAAGT
*
54301614 TGCCGACGCCATGTCCCAGACATCGTCTTACACTAGCTCTCGTATATAC
1 TGCCGATGCCATGTCCCAGACATCGTCTTACACTAGCTCTCGTATA-AC
* *
54301663 ATGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCCCTCGTCTCAAC
1 -TGCCGATGCCATGTCCCAGACATCGTCTTACACTAGCTCTCGTAT-AAC
* * * *
54301711 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATC--ATAATG
1 TGCCGATGCCATGTCCCAGACATCGTCTTACACTAGCTCTCGTATAA-C
54301757 TGGCCGATG-CATGTCCCAGACAT-GTCTTACA
1 T-GCCGATGCCATGTCCCAGACATCGTCTTACA
54301788 GTGGTGCACA
Statistics
Matches: 110, Mismatches: 8, Indels: 16
0.82 0.06 0.12
Matches are distributed among these distances:
45 2 0.02
46 16 0.15
47 28 0.25
48 42 0.38
49 15 0.14
50 7 0.06
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAGACATCGTCTTACACTAGCTCTCGTATAAC
Found at i:54304140 original size:33 final size:32
Alignment explanation
Indices: 54304101--54304188 Score: 81
Period size: 33 Copynumber: 2.7 Consensus size: 32
54304091 AAGGTGTACA
54304101 TTCCTTTCCAAGTGGTACACACAAAGTATACCT
1 TTCCTTT-CAAGTGGTACACACAAAGTATACCT
* * *
54304134 TTCCTTTTCATA-TGGTATACATAAGGTATACCT
1 TTCC-TTTCA-AGTGGTACACACAAAGTATACCT
** *
54304167 AACCTTTCAAGT-ATACACACAA
1 TTCCTTTCAAGTGGTACACACAA
54304189 GGTGTAAATA
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
31 8 0.18
32 6 0.14
33 26 0.59
34 4 0.09
ACGTcount: A:0.33, C:0.24, G:0.10, T:0.33
Consensus pattern (32 bp):
TTCCTTTCAAGTGGTACACACAAAGTATACCT
Found at i:54307405 original size:17 final size:17
Alignment explanation
Indices: 54307383--54307415 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
54307373 TAGTACATAA
54307383 AATATCATTAA-AAAATT
1 AATATC-TTAATAAAATT
54307400 AATATCTTAATAAAAT
1 AATATCTTAATAAAAT
54307416 ATTATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (17 bp):
AATATCTTAATAAAATT
Found at i:54312225 original size:21 final size:21
Alignment explanation
Indices: 54312186--54312225 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
54312176 ATGAATTCAC
*
54312186 CTTTAAAGAAAATATATATAT
1 CTTTAAAGAAAATAAATATAT
54312207 CTTTAAA-AAAATTAAATAT
1 CTTTAAAGAAAA-TAAATAT
54312226 TAAAGAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (21 bp):
CTTTAAAGAAAATAAATATAT
Found at i:54312758 original size:15 final size:14
Alignment explanation
Indices: 54312720--54312767 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
54312710 AAAAATTTGA
*
54312720 AATTTAGTTTTTAT
1 AATTTAATTTTTAT
* *
54312734 ATTTTTATTTTTAGT
1 AATTTAATTTTTA-T
*
54312749 AATTTAATTTTTTT
1 AATTTAATTTTTAT
54312763 AATTT
1 AATTT
54312768 TTAAAATTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (14 bp):
AATTTAATTTTTAT
Found at i:54312977 original size:17 final size:17
Alignment explanation
Indices: 54312955--54312989 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
54312945 TCTAAAAATT
* *
54312955 AAAATAAATATATTTTA
1 AAAATAAAAATATATTA
54312972 AAAATAAAAATATATTA
1 AAAATAAAAATATATTA
54312989 A
1 A
54312990 TTAAATTTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATAAAAATATATTA
Found at i:54313050 original size:15 final size:16
Alignment explanation
Indices: 54313030--54313061 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
54313020 ATTTATAACA
54313030 ATTAGA-ATTAACTTT
1 ATTAGATATTAACTTT
54313045 ATTAGATATTAACTTT
1 ATTAGATATTAACTTT
54313061 A
1 A
54313062 AAAAATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (16 bp):
ATTAGATATTAACTTT
Found at i:54314259 original size:19 final size:19
Alignment explanation
Indices: 54314237--54314285 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
54314227 ATCACTGTCA
*
54314237 CCCAATGTAATTAAATTTG
1 CCCAATGTAATCAAATTTG
*** *
54314256 CCCACCATAATCGAATTTG
1 CCCAATGTAATCAAATTTG
54314275 CCCAATGTAAT
1 CCCAATGTAAT
54314286 AACTGTTACT
Statistics
Matches: 22, Mismatches: 8, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.35, C:0.24, G:0.10, T:0.31
Consensus pattern (19 bp):
CCCAATGTAATCAAATTTG
Found at i:54314769 original size:128 final size:125
Alignment explanation
Indices: 54314626--54314877 Score: 296
Period size: 125 Copynumber: 2.0 Consensus size: 125
54314616 AGTGAGAAGT
* ** *
54314626 AAAAGTTTTGGGGGTTGAAGGAATAAAATTTTGGGGGGGGGGATATT-AAAAAAAATTTGGC-AG
1 AAAAGTTTTGGGGGTTGAAGGAATAAAATTTT--GAGGGGAAATATTCAAAAAAAAATT--CAAG
** * *
54314689 GTGGGATGGGTTTGGGGTAGAAGGGAGGTGGGATGGG-AGGGCAGTAAAAGTTCT-GGGGGAAAA
62 G-GAAATGGGTTTGGGGTAGAAGGG-GGTGGGATGGGAAGAG-AATAAAAGTTCTAGGGGGAAAA
54314752 TA
124 TA
* * *
54314754 AAAAGTTTTGGGGGTTTAGGGAGTAAAATTTTGAGGGGAAATATTCAAAAAAAAATTCAAGGGAA
1 AAAAGTTTTGGGGGTTGAAGGAATAAAATTTTGAGGGGAAATATTCAAAAAAAAATTCAAGGGAA
* *
54314819 ATGGGTTTGGGGTAGAAGGGGTTGGGATGGGAAGAGAATAAAAGTTTTAGGGGGAAAAT
66 ATGGGTTTGGGGTAGAAGGGGGTGGGATGGGAAGAGAATAAAAGTTCTAGGGGGAAAAT
54314878 GGGAGGGGGT
Statistics
Matches: 107, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
124 20 0.19
125 35 0.33
126 13 0.12
127 10 0.09
128 29 0.27
ACGTcount: A:0.35, C:0.02, G:0.39, T:0.24
Consensus pattern (125 bp):
AAAAGTTTTGGGGGTTGAAGGAATAAAATTTTGAGGGGAAATATTCAAAAAAAAATTCAAGGGAA
ATGGGTTTGGGGTAGAAGGGGGTGGGATGGGAAGAGAATAAAAGTTCTAGGGGGAAAATA
Found at i:54321861 original size:15 final size:15
Alignment explanation
Indices: 54321841--54321870 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
54321831 AGAAATCACA
54321841 TGTCCCAGAAAAGTT
1 TGTCCCAGAAAAGTT
54321856 TGTCCCAGAAAAGTT
1 TGTCCCAGAAAAGTT
54321871 AACTCTCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (15 bp):
TGTCCCAGAAAAGTT
Found at i:54330440 original size:48 final size:48
Alignment explanation
Indices: 54330377--54330566 Score: 238
Period size: 48 Copynumber: 4.0 Consensus size: 48
54330367 TACTCAGGAG
* * * * *
54330377 TCTTGCACGCTAAGTGCTAATATCATGGCCTGAAGCTAACTCAATGTA
1 TCTTGCACCCGAAGTGCTAATATCATGGCCTGAAGCCAAATCAATGAA
* *
54330425 TCTTGCACCCAAAGTGCTAATATCATGGCCCGAAGCCAAATCAATGAA
1 TCTTGCACCCGAAGTGCTAATATCATGGCCTGAAGCCAAATCAATGAA
* * ** *
54330473 GCTTGCACCTGAAGTGCCGATATCATGGCCTGAAGCCAAATCAATAAA
1 TCTTGCACCCGAAGTGCTAATATCATGGCCTGAAGCCAAATCAATGAA
* *
54330521 GT-TGGCACCCGAAGTGCTGATATCATGGCCTGAAGCCAAATCAATG
1 -TCTTGCACCCGAAGTGCTAATATCATGGCCTGAAGCCAAATCAATG
54330567 TATCCCCAAT
Statistics
Matches: 123, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
48 123 1.00
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.23
Consensus pattern (48 bp):
TCTTGCACCCGAAGTGCTAATATCATGGCCTGAAGCCAAATCAATGAA
Found at i:54331155 original size:21 final size:21
Alignment explanation
Indices: 54331131--54331170 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
54331121 ACTAGTATAA
*
54331131 CTATCATCAAACATTAAAAAT
1 CTATCATCAAACATCAAAAAT
*
54331152 CTATCATTAAACATCAAAA
1 CTATCATCAAACATCAAAA
54331171 TACTCATGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.28
Consensus pattern (21 bp):
CTATCATCAAACATCAAAAAT
Found at i:54332054 original size:83 final size:83
Alignment explanation
Indices: 54331915--54332073 Score: 273
Period size: 83 Copynumber: 1.9 Consensus size: 83
54331905 CCTAGCACAT
* * *
54331915 GGGCATGTGGTTTGGTCATGTGTTCCCTACATCTATTAATTTGCAAAACGAAATACTCAGAAGTG
1 GGGCATGTGGTTTGGCCATGTGTCCCCTACATCTATTAATTTGCAAAACGAAATACTCAGAAGAG
54331980 TTCACATGGCCAACATAC
66 TTCACATGGCCAACATAC
* *
54331998 GGGCATGTGGTTTGGCCGTGTGTCCCCTGCATCTATTAATTTGCAAAACGAAATACTCAGAAGAG
1 GGGCATGTGGTTTGGCCATGTGTCCCCTACATCTATTAATTTGCAAAACGAAATACTCAGAAGAG
54332063 TTCACATGGCC
66 TTCACATGGCC
54332074 TAGCACACGG
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
83 71 1.00
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (83 bp):
GGGCATGTGGTTTGGCCATGTGTCCCCTACATCTATTAATTTGCAAAACGAAATACTCAGAAGAG
TTCACATGGCCAACATAC
Found at i:54332126 original size:83 final size:82
Alignment explanation
Indices: 54331947--54332126 Score: 218
Period size: 83 Copynumber: 2.2 Consensus size: 82
54331937 TTCCCTACAT
* * ***
54331947 CTATTAATTTGCAAAACGAAATACTCAGAAGTGTTCACATGGCCAACATACGGGCATGTGGTTTG
1 CTATTAA-TTGCAAAACGAAATACTCAGAAGAGTTCACATGGCCAACACACGGGCATGTAACTTG
* *
54332012 GCCGTGTGTCCCCTGCAT
65 GCCGTGTGACCCCTGCAC
* *
54332030 CTATTAATTTGCAAAACGAAATACTCAGAAGAGTTCACATGGCCTAGCACACGGGCGTGTAACTT
1 CTATTAA-TTGCAAAACGAAATACTCAGAAGAGTTCACATGGCC-AACACACGGGCATGTAACTT
* *
54332095 GGCTGTGTGACCCTTGCAC
64 GGCCGTGTGACCCCTGCAC
54332114 CTTATTAA-TGCAA
1 C-TATTAATTGCAA
54332127 GTTAGTATGC
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
83 48 0.57
84 30 0.36
85 6 0.07
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (82 bp):
CTATTAATTGCAAAACGAAATACTCAGAAGAGTTCACATGGCCAACACACGGGCATGTAACTTGG
CCGTGTGACCCCTGCAC
Found at i:54339273 original size:40 final size:40
Alignment explanation
Indices: 54339190--54339335 Score: 156
Period size: 40 Copynumber: 3.6 Consensus size: 40
54339180 TTGAATGATG
* * * *
54339190 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
54339230 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
54339270 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
54339311 -CTGGGC-AATGTCCCGAAGGTATTTG
1 TCCGGGCTAA-GTCCCGAAGGCATTTG
54339336 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
39 3 0.03
40 78 0.86
41 10 0.11
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:54347279 original size:40 final size:40
Alignment explanation
Indices: 54347196--54347381 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
54347186 TTGAATGATG
* * * *
54347196 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
54347236 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
54347276 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
54347316 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
54347357 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
54347382 AACGAGTAGC
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 1 0.01
40 122 0.92
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:54347388 original size:80 final size:79
Alignment explanation
Indices: 54347249--54347414 Score: 228
Period size: 80 Copynumber: 2.1 Consensus size: 79
54347239 GGACTAAGAT
* **
54347249 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCT
*
54347313 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
*
54347329 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCT
* *
54347393 ATATCCGGTTAAATT
65 AAATCCGGTTAAATC
54347408 CCGAAGG
1 CCGAAGG
54347415 TACGTGATTT
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
79 16 0.21
80 59 0.77
81 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:54361225 original size:40 final size:40
Alignment explanation
Indices: 54361073--54361218 Score: 172
Period size: 40 Copynumber: 3.6 Consensus size: 40
54361063 TTGAATGATG
* * * *
54361073 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
54361113 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
54361153 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
54361194 -CTGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
54361219 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
39 1 0.01
40 81 0.88
41 10 0.11
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:54361225 original size:80 final size:80
Alignment explanation
Indices: 54361073--54361251 Score: 186
Period size: 80 Copynumber: 2.2 Consensus size: 80
54361063 TTGAATGATG
* *
54361073 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
54361138 GTGCGAGTTA-CTAAA
66 GAACGAG-TAGCTAAA
* * * * * *
54361153 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACTGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
*
54361216 TTGAACGAGTAGCTATA
64 TTGAACGAGTAGCTAAA
* *
54361233 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
54361252 TACGTGATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 7
0.81 0.13 0.07
Matches are distributed among these distances:
79 17 0.20
80 59 0.71
81 7 0.08
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTAGCTAAA
Found at i:54369163 original size:40 final size:40
Alignment explanation
Indices: 54369080--54369265 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
54369070 TTGAATGATG
* * * *
54369080 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
54369120 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
54369160 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
54369200 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
54369241 -CTGGGCTATGTCCCGAAGGTATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
54369266 AACGAGTAGC
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 120 0.92
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:54369272 original size:80 final size:79
Alignment explanation
Indices: 54369133--54369288 Score: 208
Period size: 80 Copynumber: 2.0 Consensus size: 79
54369123 GGACTAAGAT
* **
54369133 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCT
54369197 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAGTC
* * *
54369213 CCGAAGGCATTTGTGCGAGTTACTATAA-CTGGGCTATGTCCCGAAGGTATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCT
*
54369277 ATATCCGGTTAA
65 AAATCCGGTTAA
54369289 ATTCTGAAGG
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
79 8 0.12
80 57 0.85
81 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAGTC
Found at i:54380415 original size:15 final size:15
Alignment explanation
Indices: 54380371--54380409 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
54380361 GGAATTAAAT
54380371 TAAACTAAATG-AAAA
1 TAAAC-AAATGAAAAA
54380386 TAAACAAATGAAAAA
1 TAAACAAATGAAAAA
*
54380401 TAAATAAAT
1 TAAACAAAT
54380410 TTAAAAGAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.69, C:0.05, G:0.05, T:0.21
Consensus pattern (15 bp):
TAAACAAATGAAAAA
Found at i:54382619 original size:40 final size:40
Alignment explanation
Indices: 54382514--54382813 Score: 369
Period size: 40 Copynumber: 7.5 Consensus size: 40
54382504 CGAATGATAA
* *
54382514 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
54382554 CCGGGTTAAG-CCCGAAGGCATTTGTGCGAGTCACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
54382593 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
54382633 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
54382673 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGCGAGTTACTATAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGT----GCGAGTTACTAT-AT
*
54382718 -CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
54382757 CCGGGCT-AGTCCCAAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
54382796 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
54382814 TACTTGGTTT
Statistics
Matches: 231, Mismatches: 19, Indels: 21
0.85 0.07 0.08
Matches are distributed among these distances:
38 6 0.03
39 69 0.30
40 119 0.52
44 36 0.16
45 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:54382744 original size:84 final size:81
Alignment explanation
Indices: 54382510--54382813 Score: 381
Period size: 79 Copynumber: 3.8 Consensus size: 81
54382500 TATTCGAATG
* * * *
54382510 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGTTAAG-CCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAATCCGGGCTAAGTCCCGAAGGC
*
54382573 ATTTGTGCGAGTCACT
66 ATTTGTGCGAGTTACT
* *
54382589 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAT-ATCCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAATCCGGGCTAAGTCCCGAAGGC
54382653 ATTTGTGCGAGTTACT
66 ATTTGTGCGAGTTACT
* *
54382669 ATAACTGGGCTAAGTCCCGAAGGCATTTGTGCGAGCGAGTTACTATAAT-CGGGCTAAGTCCCGA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGT----GCGAGTCACTATAATCCGGGCTAAGTCCCGA
54382733 AGGCATTTGTGCGAGTTACT
62 AGGCATTTGTGCGAGTTACT
* * * * *
54382753 ATAACCGGGCT-AGTCCCAAAGGCATTTGAGCAAGT-AGCTAT-ATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCA-CTATAATCCGGGCTAAGTCCCGAAGG
54382814 TACTTGGTTT
Statistics
Matches: 199, Mismatches: 17, Indels: 19
0.85 0.07 0.08
Matches are distributed among these distances:
78 17 0.09
79 57 0.29
80 51 0.26
83 16 0.08
84 56 0.28
85 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAATCCGGGCTAAGTCCCGAAGGC
ATTTGTGCGAGTTACT
Found at i:54389570 original size:27 final size:27
Alignment explanation
Indices: 54389111--54389563 Score: 553
Period size: 27 Copynumber: 16.9 Consensus size: 27
54389101 AGTACTCCCA
*
54389111 ATTTACAGAATTACCATTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
54389138 ATTTACAGAATTACCGTTTTACCCTC-
1 ATTTACAGAATTACCGTTTTACCCTCG
*
54389164 ATTTACAGAATTACCATTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
** *
54389191 ATTTGTAAAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
54389218 ATTTACAGAATTACCGTTTTACCCTC-
1 ATTTACAGAATTACCGTTTTACCCTCG
**
54389244 AGTTTACAGAATTACTATTTTACCCTCG
1 A-TTTACAGAATTACCGTTTTACCCTCG
*
54389272 ATTTACAGAATTATCGTTTTACCCTC-
1 ATTTACAGAATTACCGTTTTACCCTCG
**
54389298 AGTTTACAGAATTACTATTTTACCCTCG
1 A-TTTACAGAATTACCGTTTTACCCTCG
* **
54389326 ATTTATAGAA-TATTGTTTTACCCTC-
1 ATTTACAGAATTACCGTTTTACCCTCG
**
54389351 AGTTTACAGAATTACTATTTTACCCTCG
1 A-TTTACAGAATTACCGTTTTACCCTCG
*
54389379 ATTTATAGAATTACCGTTTTACCCTC-
1 ATTTACAGAATTACCGTTTTACCCTCG
** *
54389405 AGTTTACAGAATTATTGTTTTACCATCG
1 A-TTTACAGAATTACCGTTTTACCCTCG
54389433 ATTTACAGAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
** * *
54389460 ATTTGTAAAATTACCGTTTTACCCTTG
1 ATTTACAGAATTACCGTTTTACCCTCG
*
54389487 ATTTACAGAATTACTAG-TTTACCCTC-
1 ATTTACAGAATTAC-CGTTTTACCCTCG
* *
54389513 AGTTTACAAAATTATCGTTTTACCCTCG
1 A-TTTACAGAATTACCGTTTTACCCTCG
*
54389541 ATTTATAGAATTACCGTTTTACC
1 ATTTACAGAATTACCGTTTTACC
54389564 TTTGATTGTG
Statistics
Matches: 364, Mismatches: 48, Indels: 28
0.83 0.11 0.06
Matches are distributed among these distances:
25 1 0.00
26 51 0.14
27 306 0.84
28 6 0.02
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.40
Consensus pattern (27 bp):
ATTTACAGAATTACCGTTTTACCCTCG
Found at i:54389750 original size:27 final size:27
Alignment explanation
Indices: 54389582--54389752 Score: 189
Period size: 27 Copynumber: 6.3 Consensus size: 27
54389572 TGAAATTGCT
* ***
54389582 GAAATACCCCTGTAGGGCAGAATTTTT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
54389609 GAAATACCCCTATAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
54389636 AAAATACCCTTATAGGATAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
54389663 AAAATACCCCTGTAGAGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
54389690 GAAATACCCTTGTAGGGTAGAAATATC
1 GAAATACCCCTGTAGGGTAGAATTACC
54389717 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
54389744 GAGATACCC
1 GAAATACCC
54389753 TTGTGAGGCA
Statistics
Matches: 123, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 123 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:54389751 original size:54 final size:54
Alignment explanation
Indices: 54389582--54389756 Score: 215
Period size: 54 Copynumber: 3.2 Consensus size: 54
54389572 TGAAATTGCT
* * * * * *
54389582 GAAATACCCCTGTAGGGCAGAATTTTTGAAATACCCCTATAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTACC
* * * * * * *
54389636 AAAATACCCTTATAGGATAGAATTACCAAAATACCCCTGTAGAGTAGAATTATC
1 GAAATACCCTTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTACC
*
54389690 GAAATACCCTTGTAGGGTAGAAATATCGAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTACC
*
54389744 GAGATACCCTTGT
1 GAAATACCCTTGT
54389757 GAGGCAAAAT
Statistics
Matches: 99, Mismatches: 22, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 99 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (54 bp):
GAAATACCCTTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTACC
Found at i:54390364 original size:27 final size:26
Alignment explanation
Indices: 54390334--54390435 Score: 105
Period size: 27 Copynumber: 3.8 Consensus size: 26
54390324 ATTCTATTAA
*
54390334 GTGGCTTTGCCACATTATCTGATTCTC
1 GTGGCTTTGCCACAATATCTG-TTCTC
* * *
54390361 GTGGCTATGCCACAAATATTTGTTCTG
1 GTGGCTTTGCCAC-AATATCTGTTCTC
*
54390388 GTGGCTTTGCCACAATATCTGTATCTG
1 GTGGCTTTGCCACAATATCTGT-TCTC
* * *
54390415 GTGACTCTGTCACAATATCTG
1 GTGGCTTTGCCACAATATCTG
54390436 ATAACTGAGC
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
26 8 0.12
27 50 0.78
28 6 0.09
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.37
Consensus pattern (26 bp):
GTGGCTTTGCCACAATATCTGTTCTC
Found at i:54390610 original size:6 final size:6
Alignment explanation
Indices: 54390572--54390654 Score: 64
Period size: 6 Copynumber: 13.3 Consensus size: 6
54390562 TTGCATTCAC
* *
54390572 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
54390622 -TCACCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
54390655 AATGTTTCTT
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
5 4 0.06
6 44 0.71
7 12 0.19
8 2 0.03
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:54390652 original size:31 final size:31
Alignment explanation
Indices: 54390572--54390645 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 31
54390562 TTGCATTCAC
* *
54390572 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTCTGATTCTGTCACCTGATACTG
*
54390604 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
54390635 ATTCTGATTCT
1 ATTCTGATTCT
54390646 AGTTCTGATA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
31 32 0.82
32 7 0.18
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Done.