Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 287 of 444
Found at i:82965365 original size:530 final size:532
Alignment explanation
Indices: 82964346--82965390 Score: 1923
Period size: 530 Copynumber: 2.0 Consensus size: 532
82964336 AACCAACTTT
*
82964346 CCCAATTTTTGATTTTTCTCTCATTCTAGGTTCAAATCTCGTTTTCTAGGATTATTGAGCTTGGA
1 CCCAATTTTTGATTTTTCTCTCATTCTAGGTTCAAATCTCGTTTTCCAGGATTATTGAGCTTGGA
82964411 AAGCTTGAAAACCCTAGCCATGGCTTCCCCCATGCTAATTTCGGCCTCCATGAAAAAGATGAGTC
66 AAGCTTGAAAACCCTAGCCATGGCTTCCCCCATGCTAATTTCGGCCTCCATGAAAAAGATGAGTC
* *
82964476 AATTTTGGATTTATTTTCCCTTTTTATTTCTTTTGATTACCAAATGACCAAAATGCCCTTCCTTA
131 AATTTTGGATTTATTTTCCCTTTTTATTTCTTTTAATTACCAAATGACCAAAATACCCTTCCTTA
*
82964541 CTAAACTTTCAAAAATTTCATCCATGTCCAATTTTTGTCCATCACTTAGAAATTGGTCAAATTGC
196 CTAAACTTTCAAAAATTCCATCCATGTCCAATTTTTGTCCATCACTTAGAAATTGGTCAAATTGC
* *
82964606 TATTTAAGACCTCCTAATTAATATTTCAAAGCAATGTCTTACTAGAAACTTCTAGAATGCAAGTT
261 TATTTAAGACCTCCTAATTAATATTTCAAAGCAATGTCATACTAGAAACTTCAAGAATGCAAGTT
82964671 TTACAACTTATTCAATTTAGTCCCTAACTTCAAATTGAGCACTTTATGCATAGAATTTCTTCACG
326 TTACAACTTATTCAATTTAGTCCCTAACTTCAAATTGAGCACTTTATGCATAGAATTTCTTCACG
*
82964736 AAATTTTCACACAATCATGAAATCATATCATAGACCTTAAAATAATCATAAAATAATTATTTCTA
391 AAATTTTCACACAATCATGAAATCATATCATAGACCTCAAAATAATCATAAAATAATTATTTCTA
82964801 TCTCGAATTTTGTGGTCCCGAAACCTCTGTTCCAACTAGACCCAATTTTGGGCTATTACAACTCT
456 TCTCGAATTTTGTGGTCCCGAAACCTCTGTTCCAACTAGACCCAATTTTGGGCTATTACAACTCT
82964866 CCCCCCTTTAGA
521 CCCCCCTTTAGA
* *
82964878 CCCAATTTTTGA-TTTT-TCTCATTCTAGGTTCAAATCTCGTTTTCCGGGATTATTTAGCTTGGA
1 CCCAATTTTTGATTTTTCTCTCATTCTAGGTTCAAATCTCGTTTTCCAGGATTATTGAGCTTGGA
* *
82964941 AAGCTTGAAAACCCTAGCCATGGCTTCCCCTATGCTAATTTCGGCCTCTATGAAAAAGATGAGTC
66 AAGCTTGAAAACCCTAGCCATGGCTTCCCCCATGCTAATTTCGGCCTCCATGAAAAAGATGAGTC
*
82965006 AATTTTGGCTTTATTTTCCCTTTTTATTTCTTTTAATTACCAAATGACCAAAATACCCTTCCTTA
131 AATTTTGGATTTATTTTCCCTTTTTATTTCTTTTAATTACCAAATGACCAAAATACCCTTCCTTA
82965071 CTAAACTTTCAAAAATTCCATCCATGTCCAATTTTTGTCCATCACTTAGAAATTGGTCAAATTGC
196 CTAAACTTTCAAAAATTCCATCCATGTCCAATTTTTGTCCATCACTTAGAAATTGGTCAAATTGC
*
82965136 TATTTAAGACCTCCTAATTAATATTTCAAAGCAATTTCATACTAGAAACTTCAAGAATGCAAGTT
261 TATTTAAGACCTCCTAATTAATATTTCAAAGCAATGTCATACTAGAAACTTCAAGAATGCAAGTT
*
82965201 TTGCAACTTATTCAATTTAGTCCCTAACTTCAAATTGAGCACTTTATGCATAGAATTTCTTCACG
326 TTACAACTTATTCAATTTAGTCCCTAACTTCAAATTGAGCACTTTATGCATAGAATTTCTTCACG
*
82965266 AAATTTTCACACAATCATGCAATCATATCATAGACCTCAAAATAATCATAAAATAATTATTTCTA
391 AAATTTTCACACAATCATGAAATCATATCATAGACCTCAAAATAATCATAAAATAATTATTTCTA
* *
82965331 TCTCGAATTTTGTGGTCCTGAAACCTCTGTTCCAACTAGACCTAATTTTGGGCTATTACA
456 TCTCGAATTTTGTGGTCCCGAAACCTCTGTTCCAACTAGACCCAATTTTGGGCTATTACA
82965391 GATAGGGTTT
Statistics
Matches: 496, Mismatches: 17, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
530 480 0.97
531 4 0.01
532 12 0.02
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.37
Consensus pattern (532 bp):
CCCAATTTTTGATTTTTCTCTCATTCTAGGTTCAAATCTCGTTTTCCAGGATTATTGAGCTTGGA
AAGCTTGAAAACCCTAGCCATGGCTTCCCCCATGCTAATTTCGGCCTCCATGAAAAAGATGAGTC
AATTTTGGATTTATTTTCCCTTTTTATTTCTTTTAATTACCAAATGACCAAAATACCCTTCCTTA
CTAAACTTTCAAAAATTCCATCCATGTCCAATTTTTGTCCATCACTTAGAAATTGGTCAAATTGC
TATTTAAGACCTCCTAATTAATATTTCAAAGCAATGTCATACTAGAAACTTCAAGAATGCAAGTT
TTACAACTTATTCAATTTAGTCCCTAACTTCAAATTGAGCACTTTATGCATAGAATTTCTTCACG
AAATTTTCACACAATCATGAAATCATATCATAGACCTCAAAATAATCATAAAATAATTATTTCTA
TCTCGAATTTTGTGGTCCCGAAACCTCTGTTCCAACTAGACCCAATTTTGGGCTATTACAACTCT
CCCCCCTTTAGA
Found at i:82967980 original size:22 final size:22
Alignment explanation
Indices: 82967953--82967996 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
82967943 TTTTCATATA
82967953 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* *
82967975 ATAAATTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
82967997 TATTTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:82968032 original size:13 final size:14
Alignment explanation
Indices: 82968016--82968057 Score: 59
Period size: 13 Copynumber: 2.9 Consensus size: 14
82968006 TTTCAATTTT
82968016 ATTTTAAAAATA-A
1 ATTTTAAAAATATA
82968029 ATTTTAAAAATAATA
1 ATTTTAAAAAT-ATA
82968044 ATTTTAAATAATAT
1 ATTTTAAA-AATAT
82968058 TATTCACATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 11 0.42
14 1 0.04
15 11 0.42
16 3 0.12
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
ATTTTAAAAATATA
Found at i:82968109 original size:15 final size:15
Alignment explanation
Indices: 82968089--82968145 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
82968079 ATTCAATATT
82968089 AATATTTTAATAATA
1 AATATTTTAATAATA
*
82968104 AATATTTATTATAATTATA
1 AATA--T-TT-TAATAATA
*
82968123 AATATATTAATAATA
1 AATATTTTAATAATA
82968138 AATATTTT
1 AATATTTT
82968146 GTAGTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 18 0.53
16 1 0.03
17 2 0.06
18 2 0.06
19 11 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:82968588 original size:14 final size:14
Alignment explanation
Indices: 82968569--82968607 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
82968559 CTAAAAAAGT
82968569 AAATTATTTTTCAA
1 AAATTATTTTTCAA
*
82968583 AAATTATTTTTCGA
1 AAATTATTTTTCAA
82968597 AAATTATTTTT
1 AAATTATTTTT
82968608 AATGAAACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (14 bp):
AAATTATTTTTCAA
Found at i:82969992 original size:15 final size:15
Alignment explanation
Indices: 82969972--82970002 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
82969962 AAAAAAAAAT
82969972 TTAATTATTATAGAA
1 TTAATTATTATAGAA
82969987 TTAATTATTATAGAA
1 TTAATTATTATAGAA
82970002 T
1 T
82970003 GAGTAACTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (15 bp):
TTAATTATTATAGAA
Found at i:82975200 original size:24 final size:24
Alignment explanation
Indices: 82975145--82975208 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 24
82975135 GTCATATCGA
*
82975145 GAAGCTC-TAAAGAGCCAATTAACGG
1 GAAGCTCAT-AAGAG-CAATTAACAG
82975170 GAAGCTCATGAAGAGCAA-TAACAG
1 GAAGCTCAT-AAGAGCAATTAACAG
*
82975194 GACGCTCATAAGAGC
1 GAAGCTCATAAGAGC
82975209 TAAGGTGTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.17
24 13 0.37
25 10 0.29
26 6 0.17
ACGTcount: A:0.41, C:0.20, G:0.25, T:0.14
Consensus pattern (24 bp):
GAAGCTCATAAGAGCAATTAACAG
Found at i:82980208 original size:18 final size:18
Alignment explanation
Indices: 82980185--82980245 Score: 95
Period size: 18 Copynumber: 3.4 Consensus size: 18
82980175 GCAGTTGAAT
*
82980185 AACTCAATTTCTAGTATA
1 AACTCAATTTCCAGTATA
82980203 AACTCAATTTCCAGTATA
1 AACTCAATTTCCAGTATA
*
82980221 AACTCAATTTCCAGCATA
1 AACTCAATTTCCAGTATA
*
82980239 GACTCAA
1 AACTCAA
82980246 GTTTTTTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.39, C:0.23, G:0.07, T:0.31
Consensus pattern (18 bp):
AACTCAATTTCCAGTATA
Found at i:82980591 original size:2 final size:2
Alignment explanation
Indices: 82980584--82980615 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
82980574 GTCACATTTA
82980584 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
82980616 CATTTTTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:82981387 original size:27 final size:27
Alignment explanation
Indices: 82981349--82981406 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
82981339 CATTTTGAGC
* *
82981349 TTCTCTAACTCCAATCTCAGCTTCTCA
1 TTCTCTAACTCCAATCTCACCCTCTCA
82981376 TTCTCTAACTCCAATCTCACCCTCTCA
1 TTCTCTAACTCCAATCTCACCCTCTCA
82981403 TTCT
1 TTCT
82981407 GGTGCAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.21, C:0.40, G:0.02, T:0.38
Consensus pattern (27 bp):
TTCTCTAACTCCAATCTCACCCTCTCA
Found at i:82983155 original size:3 final size:3
Alignment explanation
Indices: 82983149--82983233 Score: 170
Period size: 3 Copynumber: 28.3 Consensus size: 3
82983139 GATGGTGGTT
82983149 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
82983197 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
82983234 TATTATTATT
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 82 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:82986042 original size:65 final size:65
Alignment explanation
Indices: 82985934--82986080 Score: 222
Period size: 65 Copynumber: 2.3 Consensus size: 65
82985924 GATACATGGA
* * * *
82985934 TCTCCAACATACCAAATGACTCATAGAGTCGAACATATCCCAAAATTGAAGCATAGAGCTAATAC
1 TCTCCAACACACCAAATGACTCATAGAGTCGAACATATCCCAAAAGTGAAGCATAAAGCTAACAC
* * * *
82985999 TCTCCAACACACCAATTGACTCATAGAGTTGAACATATTCCAAAAGTGAAGCATAAAGTTAACAC
1 TCTCCAACACACCAAATGACTCATAGAGTCGAACATATCCCAAAAGTGAAGCATAAAGCTAACAC
82986064 TCTCCAACACACCAAAT
1 TCTCCAACACACCAAAT
82986081 ATGTCCTGTT
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
65 73 1.00
ACGTcount: A:0.41, C:0.26, G:0.11, T:0.22
Consensus pattern (65 bp):
TCTCCAACACACCAAATGACTCATAGAGTCGAACATATCCCAAAAGTGAAGCATAAAGCTAACAC
Found at i:82989919 original size:2 final size:2
Alignment explanation
Indices: 82989912--82989956 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
82989902 TAACTGCTAC
82989912 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
82989954 TA T
1 TA T
82989957 TTTAACTGCT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:82992417 original size:27 final size:27
Alignment explanation
Indices: 82992379--82992436 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
82992369 CATTTTGAGC
* *
82992379 TTCTCTAACTCCAGTCTCAGCTTCTCA
1 TTCTCTAACTCCAATCTCAGCCTCTCA
82992406 TTCTCTAACTCCAATCTCAGCCTCTCA
1 TTCTCTAACTCCAATCTCAGCCTCTCA
82992433 TTCT
1 TTCT
82992437 GGTGCAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.19, C:0.38, G:0.05, T:0.38
Consensus pattern (27 bp):
TTCTCTAACTCCAATCTCAGCCTCTCA
Found at i:82994176 original size:3 final size:3
Alignment explanation
Indices: 82994170--82994204 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
82994160 GTTGGTGGTT
82994170 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
82994205 TAAAATAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:82998245 original size:26 final size:27
Alignment explanation
Indices: 82998216--82998277 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
82998206 TCGGTCATTG
*
82998216 AGCACTAAATGTG-AAAGTTGGTTTTA-
1 AGCACTAAATGTGCAAA-TTGGATTTAC
*
82998242 AGCACTAAGTGTGCAAATTGGATTTAC
1 AGCACTAAATGTGCAAATTGGATTTAC
82998269 GAGCACTAA
1 -AGCACTAA
82998278 GTTTGCGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 20 0.65
27 3 0.10
28 8 0.26
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (27 bp):
AGCACTAAATGTGCAAATTGGATTTAC
Found at i:82999643 original size:18 final size:17
Alignment explanation
Indices: 82999601--82999658 Score: 61
Period size: 18 Copynumber: 3.5 Consensus size: 17
82999591 TAAATAAGTG
82999601 AATAAA-TAATGATAA-
1 AATAAAGTAATGATAAT
82999616 AAT-AAG-AATGATAGAT
1 AATAAAGTAATGATA-AT
*
82999632 AATAAAGTAATGACAAT
1 AATAAAGTAATGATAAT
82999649 AATAGAAGTA
1 AATA-AAGTA
82999659 TAAATAACAT
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
14 9 0.25
15 4 0.11
16 3 0.08
17 9 0.25
18 11 0.31
ACGTcount: A:0.60, C:0.02, G:0.14, T:0.24
Consensus pattern (17 bp):
AATAAAGTAATGATAAT
Found at i:83000709 original size:7 final size:6
Alignment explanation
Indices: 83000698--83000761 Score: 56
Period size: 6 Copynumber: 10.0 Consensus size: 6
83000688 TGGATTTATG
* *
83000698 ATAAAA GATAAAT ATAAAA TATAAAA ATAAAA ATAAAA TATAGAAA AAAAAA
1 ATAAAA -ATAAAA ATAAAA -ATAAAA ATAAAA ATAAAA -ATA-AAA ATAAAA
* *
83000750 ACAAAA AGAAAA
1 ATAAAA ATAAAA
83000762 CAAAATGTAG
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
6 30 0.61
7 16 0.33
8 3 0.06
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:83000733 original size:19 final size:19
Alignment explanation
Indices: 83000698--83000755 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
83000688 TGGATTTATG
*
83000698 ATAAAAGATAAATATAAAAT
1 ATAAAA-ATAAAAATAAAAT
83000718 ATAAAAATAAAAATAAAAT
1 ATAAAAATAAAAATAAAAT
* *
83000737 ATAGAAAAAAAAAACAAAA
1 ATA-AAAATAAAAATAAAA
83000756 AGAAAACAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 15 0.44
20 19 0.56
ACGTcount: A:0.78, C:0.02, G:0.03, T:0.17
Consensus pattern (19 bp):
ATAAAAATAAAAATAAAAT
Found at i:83000748 original size:13 final size:13
Alignment explanation
Indices: 83000698--83000748 Score: 54
Period size: 13 Copynumber: 3.9 Consensus size: 13
83000688 TGGATTTATG
83000698 ATAAAAGAT-AAAT
1 ATAAAA-ATAAAAT
83000711 ATAAAATATAAAA-
1 ATAAAA-ATAAAAT
83000724 ATAAAAATAAAAT
1 ATAAAAATAAAAT
83000737 ATAGAAAA-AAAA
1 ATA-AAAATAAAA
83000749 AACAAAAAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
12 6 0.18
13 21 0.62
14 7 0.21
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (13 bp):
ATAAAAATAAAAT
Found at i:83000749 original size:26 final size:26
Alignment explanation
Indices: 83000698--83000761 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
83000688 TGGATTTATG
*
83000698 ATAAAAGAT-AAATATAAAATATAAAA
1 ATAAAA-ATAAAATATAAAATAAAAAA
83000724 ATAAAAATAAAATATAGAAA-AAAAAA
1 ATAAAAATAAAATATA-AAATAAAAAA
* *
83000750 ACAAAAAGAAAA
1 ATAAAAATAAAA
83000762 CAAAATGTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 2 0.06
26 28 0.85
27 3 0.09
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.16
Consensus pattern (26 bp):
ATAAAAATAAAATATAAAATAAAAAA
Found at i:83001598 original size:45 final size:44
Alignment explanation
Indices: 83001547--83001759 Score: 162
Period size: 45 Copynumber: 4.7 Consensus size: 44
83001537 AGCTTCAATA
* *
83001547 TGTTCCACTGCAACTTTAGGGAAATAAGATTTGCTATCTTTAGTC
1 TGTTCCACTGCAACTTTAGGGAGATAAGATTTG-TATCTTTAATC
* ** * *
83001592 TGTTCCACTTCAACTTTAGGGAGATAAGGCTTG--T-TTTGACC
1 TGTTCCACTGCAACTTTAGGGAGATAAGATTTGTATCTTTAATC
* * * * * *
83001633 TGCTCTACTGCAACTTCAGAGAGATAGGATCTGTAATTCATAGCTTCAATC
1 TGTTCCACTGCAACTTTAGGGAGATAAGATTTGT-A-TC-T---TT-AATC
* * *
83001684 TGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAATC
1 TGTTCCACTGCAACTTTAGGGAGATAAGATTTG-TATCTTTAATC
* *
83001729 TGCTCCACTGTAACTTTAGGGAGATAAGATT
1 TGTTCCACTGCAACTTTAGGGAGATAAGATT
83001760 AATGGCTACG
Statistics
Matches: 128, Mismatches: 29, Indels: 22
0.72 0.16 0.12
Matches are distributed among these distances:
41 28 0.22
42 1 0.01
45 61 0.48
46 1 0.01
47 1 0.01
49 1 0.01
50 4 0.03
51 30 0.23
52 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (44 bp):
TGTTCCACTGCAACTTTAGGGAGATAAGATTTGTATCTTTAATC
Found at i:83001705 original size:137 final size:138
Alignment explanation
Indices: 83001454--83001756 Score: 416
Period size: 137 Copynumber: 2.2 Consensus size: 138
83001444 CTCCAGTCCA
* *
83001454 CTCCACTGCAACTTCAGGGAGATAAGGCTTGTAAATTTAACCTGCTCCACTGCAACTTCAGGAAG
1 CTCCACTTCAACTTTAGGGAGATAAGGCTTGT--ATTTAACCTGCTCCACTGCAACTTCAGGAAG
* * * *
83001519 ATAAGGTTTGCGATTTATAGCTTCAATATGTTCCACTGCAACTTTAGGGAAATAAGATTTGCTAT
64 ATAAGGTCTGCAATTCATAGCTTCAATATGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTAT
* *
83001584 CTTTAGTCTG
129 CTTCAATCTG
* * *
83001594 TTCCACTTCAACTTTAGGGAGATAAGGCTTGT-TTTGACCTGCTCTACTGCAACTTCA-GAGAGA
1 CTCCACTTCAACTTTAGGGAGATAAGGCTTGTATTTAACCTGCTCCACTGCAACTTCAGGA-AGA
* *
83001657 T-AGGATCTGTAATTCATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTAT
65 TAAGG-TCTGCAATTCATAGCTTCAATATGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTAT
83001721 CTTCAATCTG
129 CTTCAATCTG
83001731 CTCCACTGT-AACTTTAGGGAGATAAG
1 CTCCACT-TCAACTTTAGGGAGATAAG
83001757 ATTAATGGCT
Statistics
Matches: 146, Mismatches: 14, Indels: 9
0.86 0.08 0.05
Matches are distributed among these distances:
136 5 0.03
137 111 0.76
138 1 0.01
140 29 0.20
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.32
Consensus pattern (138 bp):
CTCCACTTCAACTTTAGGGAGATAAGGCTTGTATTTAACCTGCTCCACTGCAACTTCAGGAAGAT
AAGGTCTGCAATTCATAGCTTCAATATGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCT
TCAATCTG
Found at i:83013903 original size:18 final size:17
Alignment explanation
Indices: 83013861--83013918 Score: 61
Period size: 18 Copynumber: 3.5 Consensus size: 17
83013851 TAAATAAGTG
83013861 AATAAA-TAATGATAA-
1 AATAAAGTAATGATAAT
83013876 AAT-AAG-AATGATAGAT
1 AATAAAGTAATGATA-AT
*
83013892 AATAAAGTAATGACAAT
1 AATAAAGTAATGATAAT
83013909 AATAGAAGTA
1 AATA-AAGTA
83013919 TAAATAACAT
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
14 9 0.25
15 4 0.11
16 3 0.08
17 9 0.25
18 11 0.31
ACGTcount: A:0.60, C:0.02, G:0.14, T:0.24
Consensus pattern (17 bp):
AATAAAGTAATGATAAT
Found at i:83014973 original size:12 final size:11
Alignment explanation
Indices: 83014956--83014993 Score: 58
Period size: 12 Copynumber: 3.3 Consensus size: 11
83014946 TGGATTTATG
83014956 ATAAAAGATAAA
1 ATAAAA-ATAAA
83014968 ATAAAATATAAA
1 ATAAAA-ATAAA
83014980 ATAAAAATAAA
1 ATAAAAATAAA
83014991 ATA
1 ATA
83014994 TAGAAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
11 8 0.32
12 17 0.68
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (11 bp):
ATAAAAATAAA
Found at i:83014988 original size:18 final size:18
Alignment explanation
Indices: 83014965--83015004 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
83014955 GATAAAAGAT
83014965 AAAATAAAATATA-AAATA
1 AAAATAAAATATAGAAA-A
83014983 AAAATAAAATATAGAAAA
1 AAAATAAAATATAGAAAA
83015001 AAAA
1 AAAA
83015005 AAGAAAACGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 18 0.86
19 3 0.14
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (18 bp):
AAAATAAAATATAGAAAA
Found at i:83020596 original size:13 final size:13
Alignment explanation
Indices: 83020565--83020604 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
83020555 AAAACACCTA
83020565 AAAAATAAAT-AT
1 AAAAATAAATAAT
*
83020577 AATAATAAATAAT
1 AAAAATAAATAAT
*
83020590 AAAAATAATTAAT
1 AAAAATAAATAAT
83020603 AA
1 AA
83020605 GGTTAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
12 9 0.38
13 15 0.62
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AAAAATAAATAAT
Found at i:83025492 original size:76 final size:77
Alignment explanation
Indices: 83025365--83025519 Score: 294
Period size: 76 Copynumber: 2.0 Consensus size: 77
83025355 CACTTAGGCT
83025365 ATTTTCCAACCCTTTATGTTACCCTTAATCCTTCACATCTTTATACACCCTGAGACACATATCAT
1 ATTTTCCAACCCTTTATGTTACCCTTAATCCTTCACATCTTTATACACCCTGAGACACATATCAT
83025430 GACATCATTTTA
66 GACATCATTTTA
*
83025442 ATTTTCCAAGCCTTTAT-TTACCCTTAATCCTTCACATCTTTATACACCCTGAGACACATATCAT
1 ATTTTCCAACCCTTTATGTTACCCTTAATCCTTCACATCTTTATACACCCTGAGACACATATCAT
83025506 GACATCATTTTA
66 GACATCATTTTA
83025518 AT
1 AT
83025520 GATTTAGCAC
Statistics
Matches: 77, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
76 61 0.79
77 16 0.21
ACGTcount: A:0.29, C:0.28, G:0.05, T:0.38
Consensus pattern (77 bp):
ATTTTCCAACCCTTTATGTTACCCTTAATCCTTCACATCTTTATACACCCTGAGACACATATCAT
GACATCATTTTA
Found at i:83027187 original size:50 final size:49
Alignment explanation
Indices: 83027014--83027235 Score: 181
Period size: 49 Copynumber: 4.6 Consensus size: 49
83027004 GTAGGATGCT
* * * * *
83027014 GATGTCATGTGCCAAACATGGTCTTACACTGACTCAT-AC-ATC-AAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCACAATCGAGGAC
* *
83027061 GATGCCATGTCCCAGACATGGTCTTACACCGACTATCACAATCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCACAATCGAGGAC
* * * * *
83027110 CACGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCCG-TGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCACA-AT-CGAGGAC
* * * * * *
83027160 GATGCCATGTCCTAAACATGGTCTTACACTAACACATCTC-AT--A-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGAC-TATCACAATCGAGGAC
*
83027206 GATGCCATGTCGCAGACATGGTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
83027236 AGCCCTCGTC
Statistics
Matches: 142, Mismatches: 26, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
46 31 0.22
47 32 0.23
48 3 0.02
49 40 0.28
50 31 0.22
51 5 0.04
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.25
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACTATCACAATCGAGGAC
Found at i:83027213 original size:46 final size:46
Alignment explanation
Indices: 83027009--83027283 Score: 155
Period size: 49 Copynumber: 5.7 Consensus size: 46
83026999 ATAAGGTAGG
* * * *
83027009 ATGCTGATGTCATGTGCCAAACATGGTCTTACACT-GACTCATACAT-C
1 ATGCCGATGCCATGT-CCAAACATGGTCTTACACTACACACAT-C-TCC
* * * * * *
83027056 AAGTCGATGCCATGTCCCAGACATGGTCTTACACCGACTATCACA-ATCG
1 ATGCCGATGCCATGT-CCAAACATGGTCTTACA-CTAC-A-CACATCTCC
* * * * * * *
83027105 AGGCCCACGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCC
1 ATGCCGATGCCATGT-CCAAACATGGTCTTACACT---ACACACATCTCC
* *
83027155 GTGACGATGCCATGTCCTAAACATGGTCTTACACTA-ACACATCT-C
1 ATGCCGATGCCATGTCC-AAACATGGTCTTACACTACACACATCTCC
* * * *
83027200 ATAGCCGATGCCATGTCGCAGACATGGTCTTACACTAGCCCTCGTCTCC
1 AT-GCCGATGCCATGTC-CAAACATGGTCTTACACTA-CACACATCTCC
*
83027249 ATGCCAATGCCATGTTCCAAACATGGTCTTACACT
1 ATGCCGATGCCATG-TCCAAACATGGTCTTACACT
83027284 GGCTCTCATA
Statistics
Matches: 176, Mismatches: 36, Indels: 31
0.72 0.15 0.13
Matches are distributed among these distances:
45 2 0.01
46 36 0.20
47 28 0.16
48 36 0.20
49 40 0.23
50 30 0.17
51 4 0.02
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.25
Consensus pattern (46 bp):
ATGCCGATGCCATGTCCAAACATGGTCTTACACTACACACATCTCC
Found at i:83027275 original size:48 final size:45
Alignment explanation
Indices: 83027161--83027283 Score: 140
Period size: 48 Copynumber: 2.6 Consensus size: 45
83027151 ATCCGTGACG
*
83027161 ATGCCATGTCCTAAACATGGTCTTACACTAACACATCTCATAGCCG
1 ATGCCATGTCC-AAACATGGTCTTACACTAACACATCTCATAGCCA
* * * *
83027207 ATGCCATGTCGCAGACATGGTCTTACACTAGCCCTCGTCTCCAT-GCCA
1 ATGCCATGTC-CAAACATGGTCTTACACTA--ACACATCT-CATAGCCA
83027255 ATGCCATGTTCCAAACATGGTCTTACACT
1 ATGCCATG-TCCAAACATGGTCTTACACT
83027284 GGCTCTCATA
Statistics
Matches: 66, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
46 27 0.41
47 1 0.02
48 33 0.50
49 5 0.08
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.27
Consensus pattern (45 bp):
ATGCCATGTCCAAACATGGTCTTACACTAACACATCTCATAGCCA
Found at i:83027303 original size:96 final size:98
Alignment explanation
Indices: 83027062--83027332 Score: 261
Period size: 94 Copynumber: 2.8 Consensus size: 98
83027052 CATCAAGTCG
* * * * * * * *
83027062 ATGCCATGTCCCAGACATGGTCTTACACCGACTATCACAATCGAGGCCCACGCCATGTCCCAGAC
1 ATGCCATGTTCCAAACATGGTCTTACACTGACTCTCATAAT-GTGGCCGATGCCATGTCCCAGAC
* * *
83027127 ATGGTCTTACACTGGCTCTCACATATCCGTGACG
65 ATGGTCTTACACTAGCTCTCACATATCCATGACA
* * * * *
83027161 ATGCCATG-TCCTAAACATGGTCTTACACTAACACATC-TCA--TAGCCGATGCCATGTCGCAGA
1 ATGCCATGTTCC-AAACATGGTCTTACACTGACTC-TCATAATGTGGCCGATGCCATGTCCCAGA
* * * *
83027222 CATGGTCTTACACTAGC-C-CTCGTCTCCATGCCA
64 CATGGTCTTACACTAGCTCTCACATATCCATGACA
* *
83027255 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAATGTGGCCGATG-TATGTCCCAGACA
1 ATGCCATGTTCCAAACATGGTCTTACACTGACTCTCATAATGTGGCCGATGCCATGTCCCAGACA
83027319 T-GTCTTACACTAGC
66 TGGTCTTACACTAGC
83027333 ACACATGTCA
Statistics
Matches: 139, Mismatches: 27, Indels: 17
0.76 0.15 0.09
Matches are distributed among these distances:
93 2 0.01
94 51 0.37
95 16 0.12
96 40 0.29
98 2 0.01
99 26 0.19
100 2 0.01
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (98 bp):
ATGCCATGTTCCAAACATGGTCTTACACTGACTCTCATAATGTGGCCGATGCCATGTCCCAGACA
TGGTCTTACACTAGCTCTCACATATCCATGACA
Found at i:83036730 original size:22 final size:21
Alignment explanation
Indices: 83036694--83036742 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
83036684 AAATAGCTTA
83036694 TTTTTACAAATAAAA-ATGTAG
1 TTTTTACAAATAAAATATG-AG
83036715 CTTTTTACAAGA-AAAATATGAG
1 -TTTTTACAA-ATAAAATATGAG
83036737 TTTTTA
1 TTTTTA
83036743 TAGAGAATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
21 6 0.24
22 15 0.60
23 4 0.16
ACGTcount: A:0.43, C:0.06, G:0.10, T:0.41
Consensus pattern (21 bp):
TTTTTACAAATAAAATATGAG
Found at i:83038289 original size:21 final size:21
Alignment explanation
Indices: 83038263--83038314 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
83038253 GTGCATTTTG
83038263 AGCTTCTC-TAACTCCAATCTC
1 AGCTTCTCAT-ACTCCAATCTC
*
83038284 AGCTTCTCATTCTCCAATCTC
1 AGCTTCTCATACTCCAATCTC
*
83038305 AGCCTCTCAT
1 AGCTTCTCAT
83038315 TCTGGTGCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.21, C:0.38, G:0.06, T:0.35
Consensus pattern (21 bp):
AGCTTCTCATACTCCAATCTC
Found at i:83038315 original size:21 final size:21
Alignment explanation
Indices: 83038274--83038317 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
83038264 GCTTCTCTAA
*
83038274 CTCCAATCTCAGCTTCTCATT
1 CTCCAATCTCAGCCTCTCATT
83038295 CTCCAATCTCAGCCTCTCATT
1 CTCCAATCTCAGCCTCTCATT
83038316 CT
1 CT
83038318 GGTGCAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.18, C:0.41, G:0.05, T:0.36
Consensus pattern (21 bp):
CTCCAATCTCAGCCTCTCATT
Found at i:83039978 original size:3 final size:3
Alignment explanation
Indices: 83039970--83040021 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
83039960 GAAATTAAAT
83039970 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
83040018 TTA T
1 TTA T
83040022 AGTTGATTTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:83041879 original size:96 final size:96
Alignment explanation
Indices: 83041715--83041901 Score: 311
Period size: 96 Copynumber: 1.9 Consensus size: 96
83041705 TCGCTTCTTT
* *
83041715 TTGCTCCTCTTTTCCCTCTTGGCTTCGGATTTTCCCTTACTCGAATCAAGCTTCTTGGGCTCCTT
1 TTGCTCCTCTTTGCCCTCTTGGCTTCGGATTTTCCCTTACTCGAACCAAGCTTCTTGGGCTCCTT
* *
83041780 GTCTTCTCCATCGTTCCCTTCGATGATAGAC
66 GTCTGCTCCATCGTTCCCATCGATGATAGAC
* * *
83041811 TTGCTCCTCTTTGCCCTCTTGGCTTCGGTTTTTCCCTTGCTCGAACCAAGTTTCTTGGGCTCCTT
1 TTGCTCCTCTTTGCCCTCTTGGCTTCGGATTTTCCCTTACTCGAACCAAGCTTCTTGGGCTCCTT
83041876 GTCTGCTCCATCGTTCCCATCGATGA
66 GTCTGCTCCATCGTTCCCATCGATGA
83041902 CAGGCTTCCT
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 84 1.00
ACGTcount: A:0.10, C:0.33, G:0.17, T:0.40
Consensus pattern (96 bp):
TTGCTCCTCTTTGCCCTCTTGGCTTCGGATTTTCCCTTACTCGAACCAAGCTTCTTGGGCTCCTT
GTCTGCTCCATCGTTCCCATCGATGATAGAC
Found at i:83044038 original size:2 final size:2
Alignment explanation
Indices: 83044031--83044068 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
83044021 TCATTCTTAC
83044031 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
83044069 TTCTTTATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:83045393 original size:18 final size:19
Alignment explanation
Indices: 83045356--83045392 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
83045346 AAAAATCTAT
83045356 TAAAAATAATTTGGAAAAA
1 TAAAAATAATTTGGAAAAA
*
83045375 TAAAAATATTTTGGAAAA
1 TAAAAATAATTTGGAAAA
83045393 TTAATTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (19 bp):
TAAAAATAATTTGGAAAAA
Found at i:83045530 original size:27 final size:27
Alignment explanation
Indices: 83045474--83045532 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
83045464 TATTGGGGTT
* **
83045474 AATTTGAGTTAATTTAAATATTAATTA
1 AATTTGAGTTAATTTAAATATAAAGGA
*
83045501 AATTTGATTTAATTGTAAA-ATAAAGGA
1 AATTTGAGTTAATT-TAAATATAAAGGA
83045528 AATTT
1 AATTT
83045533 TGGAGTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 23 0.85
28 4 0.15
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (27 bp):
AATTTGAGTTAATTTAAATATAAAGGA
Found at i:83047941 original size:40 final size:40
Alignment explanation
Indices: 83047897--83048117 Score: 309
Period size: 40 Copynumber: 5.5 Consensus size: 40
83047887 GCTCGATTGT
* * *
83047897 CTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGC
1 CTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAATGC
* *
83047937 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGC
*
83047977 CTTCGGGAATTAACCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGC
*
83048017 CTTCAGGACTTAACCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGC
* * * *
83048057 CTTCGGGACTTAACCTGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAACCCGGATTTAGTAAC-TCGCACAAATGC
*
83048098 CTTCGGGACTTAGCCCGGAT
1 CTTCGGGACTTAACCCGGAT
83048118 ACCATTGAAT
Statistics
Matches: 163, Mismatches: 16, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
40 133 0.82
41 30 0.18
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGC
Found at i:83055960 original size:40 final size:39
Alignment explanation
Indices: 83055916--83056133 Score: 283
Period size: 40 Copynumber: 5.4 Consensus size: 39
83055906 GCTTGATTGT
* * *
83055916 CTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGC
1 CTTCGGGACTTAACCCGGTT-TAGTAACTCGCACAAATGC
* *
83055956 CTTCGAGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGG-TTTAGTAACTCGCACAAATGC
*
83055996 CTTCGGGAATTAACCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGG-TTTAGTAACTCGCACAAATGC
83056036 CTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGG-TTTAGTAACTCGCACAAATGC
* * * *
83056076 CTTCGGGACTTAACCCAGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAACCC-GGTTTAGTAAC-TCGCACAAATGC
*
83056117 CTTCGGGACTTAGCCCG
1 CTTCGGGACTTAACCCG
83056134 AATACCATTG
Statistics
Matches: 160, Mismatches: 15, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
40 132 0.82
41 28 0.17
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
CTTCGGGACTTAACCCGGTTTAGTAACTCGCACAAATGC
Found at i:83058502 original size:6 final size:6
Alignment explanation
Indices: 83058491--83058520 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
83058481 CAATCCGGGA
83058491 CTGATT CTGATT CTGATT CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT
83058521 GGGAGTAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.50
Consensus pattern (6 bp):
CTGATT
Found at i:83064284 original size:34 final size:34
Alignment explanation
Indices: 83064241--83064310 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
83064231 CCTCAATACC
83064241 TCTACTAAAAATCATGAAAATCATCTAGAATTTT
1 TCTACTAAAAATCATGAAAATCATCTAGAATTTT
83064275 TCTACTAAAAATCATGAAAATCATCTAGAATTTT
1 TCTACTAAAAATCATGAAAATCATCTAGAATTTT
83064309 TC
1 TC
83064311 AGCACCAACG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.43, C:0.16, G:0.06, T:0.36
Consensus pattern (34 bp):
TCTACTAAAAATCATGAAAATCATCTAGAATTTT
Found at i:83069746 original size:17 final size:17
Alignment explanation
Indices: 83069724--83069769 Score: 92
Period size: 17 Copynumber: 2.7 Consensus size: 17
83069714 GTTGACACAT
83069724 AGCATCTGGCCTGAACC
1 AGCATCTGGCCTGAACC
83069741 AGCATCTGGCCTGAACC
1 AGCATCTGGCCTGAACC
83069758 AGCATCTGGCCT
1 AGCATCTGGCCT
83069770 CTGGATGACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.22, C:0.35, G:0.24, T:0.20
Consensus pattern (17 bp):
AGCATCTGGCCTGAACC
Found at i:83075544 original size:25 final size:23
Alignment explanation
Indices: 83075516--83075561 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
83075506 AAAGAAAAAC
83075516 AATTATAAAATTATAAATCAAATCA
1 AATTATAAAATTA-AAA-CAAATCA
* *
83075541 AATTTTAACATTAAAACAAAT
1 AATTATAAAATTAAAACAAAT
83075562 TAATTAAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 3 0.16
25 11 0.58
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.33
Consensus pattern (23 bp):
AATTATAAAATTAAAACAAATCA
Found at i:83076015 original size:29 final size:27
Alignment explanation
Indices: 83075963--83076027 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 27
83075953 AAAATTATGG
* *
83075963 AAAAAGAATAAAAGATCTTTAAATTTA
1 AAAAAAAATAAAAGATCTTTAAATATA
83075990 AAAAAAAATAAAAATGAT-TTTGAAATATA
1 AAAAAAAAT-AAAA-GATCTTT-AAATATA
*
83076019 AATAAAAAT
1 AAAAAAAAT
83076028 TGGAAATTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 8 0.25
28 7 0.22
29 17 0.53
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.28
Consensus pattern (27 bp):
AAAAAAAATAAAAGATCTTTAAATATA
Found at i:83077089 original size:28 final size:28
Alignment explanation
Indices: 83077055--83077114 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
83077045 GTGTTTTGTT
*
83077055 AAAATAATTTAGGGTTTAAGAATT-TTAA
1 AAAATAAATTAGGGTTT-AGAATTGTTAA
*
83077083 AAAATAAATTAGGGTTTAGAGTTGTTAA
1 AAAATAAATTAGGGTTTAGAATTGTTAA
83077111 AAAA
1 AAAA
83077115 ATTAATTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 5 0.17
28 24 0.83
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.35
Consensus pattern (28 bp):
AAAATAAATTAGGGTTTAGAATTGTTAA
Found at i:83077210 original size:34 final size:33
Alignment explanation
Indices: 83077087--83077216 Score: 163
Period size: 34 Copynumber: 3.8 Consensus size: 33
83077077 TTTTAAAAAA
* *
83077087 TAAATTAGGGTTTAGAGTTGTTAAAAAAATTAAT
1 TAAATTAGGGTTTAGAGTT-TTTAAAATATTAAT
* *
83077121 TAAATTAGGTTTTAGGAG-TTTTAAATTAATTAAT
1 TAAATTAGGGTTTA-GAGTTTTTAAAAT-ATTAAT
83077155 TAAATTAGGGTTTAGAGTTTTTAAGAATATTAAT
1 TAAATTAGGGTTTAGAGTTTTTAA-AATATTAAT
**
83077189 TAAATTAGGGTTTAGTTTTTTTAAAATA
1 TAAATTAGGGTTTAGAGTTTTTAAAATA
83077217 AATTTGTGTT
Statistics
Matches: 84, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
33 12 0.14
34 67 0.80
35 5 0.06
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (33 bp):
TAAATTAGGGTTTAGAGTTTTTAAAATATTAAT
Found at i:83077526 original size:125 final size:126
Alignment explanation
Indices: 83077322--83077698 Score: 490
Period size: 125 Copynumber: 3.0 Consensus size: 126
83077312 GGTAGTTTCA
* * *** *
83077322 GAAAAATTAATTTTGGGAAGACAATTCTGAAAAGATAATGTCAAAAACGCTTCAAGCAAGATGCA
1 GAAAAAATAATTTTGAGAAGATGGTTCTGAAAAAATAATGTCAAAAACGCTTCAAGCAAGATGCA
* * * *
83077387 CCGTCAGCAAAATTACTGAAAAAAGCTTCTACGTGAACGCCCTTTTTCTACAATAGTTCCT
66 CTGTCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGCTCTTTTTCTACAATAGTTCCT
* * **
83077448 GAAAAAATAATTTTGAG-AGATGGTTCTGAAAAAATATTGTCAAAAACGCTTCAAGCAAAATGTG
1 GAAAAAATAATTTTGAGAAGATGGTTCTGAAAAAATAATGTCAAAAACGCTTCAAGCAAGATGCA
* * *
83077512 CTGTCAGCAAAATTACTGAAAAAA-CTCCAACGTGGACGTTTTTTTTCTACAATAGTTCCT
66 CTGTCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGCTCTTTTTCTACAATAGTTCCT
* * * **
83077572 AAAAAAATAATTTTGAGAAGATGGTTCT-AAAAAATAGTGTCAAAAAACACTTCAAGCCGGATGC
1 GAAAAAATAATTTTGAGAAGATGGTTCTGAAAAAATAATGTC-AAAAACGCTTCAAGCAAGATGC
* * * *
83077636 ACTGTTAACAAAATTACTAAAAAAAGCTCCTACGTGGACGCTCTTTTTCTACAGTAGTTCCT
65 ACTGTCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGCTCTTTTTCTACAATAGTTCCT
83077698 G
1 G
83077699 CTTGGCCTTA
Statistics
Matches: 215, Mismatches: 33, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
124 58 0.27
125 110 0.51
126 47 0.22
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (126 bp):
GAAAAAATAATTTTGAGAAGATGGTTCTGAAAAAATAATGTCAAAAACGCTTCAAGCAAGATGCA
CTGTCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGCTCTTTTTCTACAATAGTTCCT
Found at i:83079720 original size:27 final size:27
Alignment explanation
Indices: 83079682--83079788 Score: 169
Period size: 27 Copynumber: 4.0 Consensus size: 27
83079672 TGAACATCTT
*
83079682 TAACTCTAATCTCAGCTTCTCATTCTC
1 TAACTCCAATCTCAGCTTCTCATTCTC
*
83079709 TAACTCCAATCTCAGCTTTTCATTCTC
1 TAACTCCAATCTCAGCTTCTCATTCTC
*
83079736 TAACTCCCATCTCAGCTTCTCATTCTC
1 TAACTCCAATCTCAGCTTCTCATTCTC
* *
83079763 CAACTCCAATCTCAGCCTCTCATTCT
1 TAACTCCAATCTCAGCTTCTCATTCT
83079789 GGTGCAACAA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 73 1.00
ACGTcount: A:0.21, C:0.37, G:0.04, T:0.37
Consensus pattern (27 bp):
TAACTCCAATCTCAGCTTCTCATTCTC
Found at i:83079923 original size:93 final size:93
Alignment explanation
Indices: 83079764--83079973 Score: 287
Period size: 93 Copynumber: 2.3 Consensus size: 93
83079754 CTCATTCTCC
* ** * * *
83079764 AACTCCAATCTCAGCCTCT-CATTCTGGTGCAACAATTGTTCTTTTTCGTTGATCACTTGAATCA
1 AACTCCAATCTCAGCCT-TGCATTCCGGTGCAACAATTGACCTTCTACATTGATCACTTGAATCA
* *
83079828 ATTCCAAGTTCTGTTCCCTTTGACGCTCA
65 ATTCCAAATTCTGTTCCCTTTCACGCTCA
*
83079857 AACTCCAATCTCAGCCTTGCATTCCGGTGCAATAATTGACCTTCTACATTGATCACTTGAATCAA
1 AACTCCAATCTCAGCCTTGCATTCCGGTGCAACAATTGACCTTCTACATTGATCACTTGAATCAA
* * *
83079922 TTTCAAATTCTGTTCCGTTTCACGCTCT
66 TTCCAAATTCTGTTCCCTTTCACGCTCA
*
83079950 AACTCCAATCTCAGCCTCGCATTC
1 AACTCCAATCTCAGCCTTGCATTC
83079974 TCCTTCTCCA
Statistics
Matches: 103, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
92 1 0.01
93 102 0.99
ACGTcount: A:0.23, C:0.30, G:0.12, T:0.35
Consensus pattern (93 bp):
AACTCCAATCTCAGCCTTGCATTCCGGTGCAACAATTGACCTTCTACATTGATCACTTGAATCAA
TTCCAAATTCTGTTCCCTTTCACGCTCA
Found at i:83081649 original size:2 final size:2
Alignment explanation
Indices: 83081642--83081673 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
83081632 TGTATACTGT
83081642 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
83081674 ATTATGAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:83081718 original size:12 final size:12
Alignment explanation
Indices: 83081642--83081724 Score: 62
Period size: 12 Copynumber: 6.9 Consensus size: 12
83081632 TGTATACTGT
*
83081642 TATATATATATA
1 TATATATATTTA
*
83081654 TATATATATATA
1 TATATATATTTA
*
83081666 TATATATAATTA
1 TATATATATTTA
*
83081678 TGA-ATATTTTTCA
1 T-ATATATATTT-A
* * *
83081691 CATATAAATTTG
1 TATATATATTTA
*
83081703 TATATATTTTTA
1 TATATATATTTA
83081715 TATATA-ATTT
1 TATATATATTT
83081725 CGTGGGTAAA
Statistics
Matches: 55, Mismatches: 13, Indels: 7
0.73 0.17 0.09
Matches are distributed among these distances:
11 3 0.05
12 44 0.80
13 8 0.15
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (12 bp):
TATATATATTTA
Found at i:83084324 original size:41 final size:41
Alignment explanation
Indices: 83084279--83084514 Score: 185
Period size: 41 Copynumber: 5.8 Consensus size: 41
83084269 AATAGGGCTT
* * * *
83084279 TAGCGGCGTTTTAACTAAAAATGCTGCT-AAAAATAGAGCAG
1 TAGCGGCGTTTT-ACCAAAAATGCCGCTAAAAAACAGAGCAA
*** *
83084320 TAGCGGCGTTTTTGGTAAAACT-CCGCTAAAAAACAGAGCAA
1 TAGCGGCG-TTTTACCAAAAATGCCGCTAAAAAACAGAGCAA
* *
83084361 TAGCGGCGTTTTACCAAAAATGACTCTAAAAAACAGAGCAA
1 TAGCGGCGTTTTACCAAAAATGCCGCTAAAAAACAGAGCAA
* * * * *
83084402 TAGCAGCGTTTTGCCAAAAACGCCGCTAAAAACCAGAGCAT
1 TAGCGGCGTTTTACCAAAAATGCCGCTAAAAAACAGAGCAA
* * * *
83084443 TAGCGGCGCTTT--CAGTAAAACGCCGCTAAAAACCAGAGCAT
1 TAGCGGCGTTTTACCA--AAAATGCCGCTAAAAAACAGAGCAA
* * * *
83084484 TAACGGCGCTTT-CGATAAAACGCCGCTAAAA
1 TAGCGGCGTTTTACCA-AAAATGCCGCTAAAA
83084515 GTCATATAAC
Statistics
Matches: 166, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
39 2 0.01
40 13 0.08
41 146 0.88
42 5 0.03
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (41 bp):
TAGCGGCGTTTTACCAAAAATGCCGCTAAAAAACAGAGCAA
Found at i:83084422 original size:82 final size:82
Alignment explanation
Indices: 83084279--83084450 Score: 215
Period size: 82 Copynumber: 2.1 Consensus size: 82
83084269 AATAGGGCTT
* * * * ** *
83084279 TAGCGGCGTTTTAACTAAAAATGCTGCTAAAAATAGAGCAGTAGCGGCGTTTTTGGTAAAACTCC
1 TAGCGGCGTTTTAACCAAAAATGCTGCTAAAAACAGAGCAATAGCAGCGTTTTTGCAAAAACGCC
83084344 GCTAAAAAACAGAGCAA
66 GCTAAAAAACAGAGCAA
83084361 TAGCGGCGTTTT-ACCAAAAATGACT-CTAAAAAACAGAGCAATAGCAGCG-TTTTGCCAAAAAC
1 TAGCGGCGTTTTAACCAAAAATG-CTGCT-AAAAACAGAGCAATAGCAGCGTTTTTG-CAAAAAC
* *
83084423 GCCGCTAAAAACCAGAGCAT
63 GCCGCTAAAAAACAGAGCAA
83084443 TAGCGGCG
1 TAGCGGCG
83084451 CTTTCAGTAA
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
81 16 0.21
82 62 0.79
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (82 bp):
TAGCGGCGTTTTAACCAAAAATGCTGCTAAAAACAGAGCAATAGCAGCGTTTTTGCAAAAACGCC
GCTAAAAAACAGAGCAA
Found at i:83084580 original size:21 final size:20
Alignment explanation
Indices: 83084554--83084616 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 20
83084544 AAAAAAATCA
*
83084554 TAAACATTAATCTATAACCCC
1 TAAACACTAA-CTATAACCCC
83084575 TAAACACTAA--A-AA-CCC
1 TAAACACTAACTATAACCCC
83084591 TAAACACTAAACTATAACCCC
1 TAAACACT-AACTATAACCCC
83084612 TAAAC
1 TAAAC
83084617 CCCTAAAACT
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
16 11 0.31
17 4 0.11
18 1 0.03
19 1 0.03
20 2 0.06
21 17 0.47
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (20 bp):
TAAACACTAACTATAACCCC
Found at i:83084631 original size:37 final size:37
Alignment explanation
Indices: 83084534--83084632 Score: 110
Period size: 37 Copynumber: 2.6 Consensus size: 37
83084524 CCCATAAAAT
* * * *
83084534 CCTAAACCCCAAAAAAATCATAAACATTAATCTATAACC
1 CCTAAACCCC-TAAAACTC-TAAACACTAAACTATAACC
* *
83084573 CCTAAA-CACTAAAAACCCTAAACACTAAACTATAACC
1 CCTAAACCCCT-AAAACTCTAAACACTAAACTATAACC
83084610 CCTAAACCCCTAAAACTCTAAAC
1 CCTAAACCCCTAAAACTCTAAAC
83084633 CCCAAAAAAC
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
37 34 0.68
38 10 0.20
39 6 0.12
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.18
Consensus pattern (37 bp):
CCTAAACCCCTAAAACTCTAAACACTAAACTATAACC
Found at i:83085568 original size:8 final size:8
Alignment explanation
Indices: 83085529--83085610 Score: 78
Period size: 8 Copynumber: 9.9 Consensus size: 8
83085519 TTTATATGAT
83085529 AATTTAAA
1 AATTTAAA
83085537 AATTATAAA
1 AATT-TAAA
83085546 AATCTTCAAAAA
1 AAT-TT---AAA
83085558 AATTTAAA
1 AATTTAAA
83085566 AATTTAAA
1 AATTTAAA
83085574 AA-TTAAA
1 AATTTAAA
83085581 AA-TTAAA
1 AATTTAAA
*
83085588 AATTAAAA
1 AATTTAAA
*
83085596 AACTTAAA
1 AATTTAAA
*
83085604 TATTTAA
1 AATTTAA
83085611 TATTTAATAT
Statistics
Matches: 63, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
7 14 0.22
8 32 0.51
9 8 0.13
10 1 0.02
11 2 0.03
12 6 0.10
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (8 bp):
AATTTAAA
Found at i:83085588 original size:6 final size:7
Alignment explanation
Indices: 83085555--83085596 Score: 66
Period size: 7 Copynumber: 5.7 Consensus size: 7
83085545 AAATCTTCAA
83085555 AAAAATTT
1 AAAAA-TT
83085563 AAAAATTT
1 AAAAA-TT
83085571 AAAAATT
1 AAAAATT
83085578 AAAAATT
1 AAAAATT
83085585 AAAAATT
1 AAAAATT
83085592 AAAAA
1 AAAAA
83085597 ACTTAAATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 21 0.62
8 13 0.38
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AAAAATT
Found at i:83085588 original size:29 final size:29
Alignment explanation
Indices: 83085529--83085596 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
83085519 TTTATATGAT
**
83085529 AATTTAAAAATTATAAAAATCTTCAAAAA
1 AATTTAAAAATTATAAAAATCTAAAAAAA
83085558 AATTTAAAAATT-TAAAAAT-TAAAAATTAA
1 AATTTAAAAATTATAAAAATCTAAAAA--AA
*
83085587 AAATTAAAAA
1 AATTTAAAAA
83085597 ACTTAAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 4 0.12
28 7 0.21
29 23 0.68
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (29 bp):
AATTTAAAAATTATAAAAATCTAAAAAAA
Found at i:83090098 original size:45 final size:45
Alignment explanation
Indices: 83090034--83090124 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
83090024 TAGATTGTTG
83090034 CTGGAGTGTTGGTCCTGATGAATTTAGGAAAAATCAATGCACTTA
1 CTGGAGTGTTGGTCCTGATGAATTTAGGAAAAATCAATGCACTTA
* **
83090079 CTGGAGTGTTGGTCCTGATGAATTTGGGAGGAATCAATGCACTTA
1 CTGGAGTGTTGGTCCTGATGAATTTAGGAAAAATCAATGCACTTA
83090124 C
1 C
83090125 ATATTATTCT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (45 bp):
CTGGAGTGTTGGTCCTGATGAATTTAGGAAAAATCAATGCACTTA
Found at i:83091211 original size:43 final size:42
Alignment explanation
Indices: 83091117--83091218 Score: 123
Period size: 42 Copynumber: 2.4 Consensus size: 42
83091107 AAGTTTATAT
* * * *
83091117 TCTTTAGCGGCGTTTGTAAAAAAAGTGCCGCTAAAGGTTTGA
1 TCTTTAGCGGCGTTTTTAAAAAAAGCGACGCTAAAGGTATGA
* * * *
83091159 TATATAGCGGCGTTTTTAGAAAAAGCGACGCTAAAGGTCATGG
1 TCTTTAGCGGCGTTTTTAAAAAAAGCGACGCTAAAGGT-ATGA
83091202 TCTTTAGCGGCGTTTTT
1 TCTTTAGCGGCGTTTTT
83091219 TTAAATAAAC
Statistics
Matches: 49, Mismatches: 10, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
42 32 0.65
43 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.32
Consensus pattern (42 bp):
TCTTTAGCGGCGTTTTTAAAAAAAGCGACGCTAAAGGTATGA
Found at i:83094796 original size:25 final size:25
Alignment explanation
Indices: 83094768--83094815 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
83094758 ACTAATGGAC
*
83094768 TTTTATTGTTTTTA-TTTTGGTTTAT
1 TTTTATT-TTTTAATTTTTGGTTTAT
*
83094793 TTTTGTTTTTTAATTTTTGGTTT
1 TTTTATTTTTTAATTTTTGGTTT
83094816 TTGGTTTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.10, C:0.00, G:0.12, T:0.77
Consensus pattern (25 bp):
TTTTATTTTTTAATTTTTGGTTTAT
Found at i:83096773 original size:23 final size:23
Alignment explanation
Indices: 83096732--83096783 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
83096722 AGTAATATAC
* *
83096732 AAAATAATATACATTAATTCAAA
1 AAAATAATATACATAAATTAAAA
* *
83096755 TAAATAATATACCTAAATTAAAA
1 AAAATAATATACATAAATTAAAA
83096778 AAAATA
1 AAAATA
83096784 GTGTAATGTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (23 bp):
AAAATAATATACATAAATTAAAA
Found at i:83098830 original size:15 final size:15
Alignment explanation
Indices: 83098810--83098849 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
83098800 ACTCTATTTA
83098810 TATTTTATTTCAT-AT
1 TATTTTATTT-ATAAT
83098825 TATTTTATTTATAAT
1 TATTTTATTTATAAT
*
83098840 TAATTTATTT
1 TATTTTATTT
83098850 TGTTTGCTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 2 0.09
15 21 0.91
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (15 bp):
TATTTTATTTATAAT
Found at i:83099361 original size:77 final size:76
Alignment explanation
Indices: 83099223--83099529 Score: 298
Period size: 76 Copynumber: 4.0 Consensus size: 76
83099213 ATTAAAAGTA
* * * * * *
83099223 AAATAAAAATCGTTTTGGGATTGA-TTCTCGCCGTTTAACGATTTTATTTCAAAATTGTTTTATT
1 AAAT-AAAATC-TTTCGGGATCGATTTC-CGTCGTTCAACGATTTTATTCCAAATTTGTTTTATT
83099287 TCCAAAAACGAGTT
63 TCCAAAAACGAGTT
* ** * * * *
83099301 AAATAAAATCATTTCGGGACCGATTTCCACCATTTAATGATTTTATTCCAAATTTTTTTTATTT-
1 AAATAAAATC-TTTCGGGATCGATTTCCGTCGTTCAACGATTTTATTCCAAATTTGTTTTATTTC
*
83099365 CAAAAACGAGTA
65 CAAAAACGAGTT
* * *
83099377 AAATAAAATCGTTTCAGGATCGA-TTCTCGTCGTTCAATGATTTTATTCCAATTTTGTTTTATTT
1 AAATAAAATC-TTTCGGGATCGATTTC-CGTCGTTCAACGATTTTATTCCAAATTTGTTTTATTT
*
83099441 CCAAAAACAAG-T
64 CCAAAAACGAGTT
* * * *
83099453 AACATAAAAATCTTTCTGGGATTGATTCCCGTCGTTCAACGATTTCATTCCAAATTTGGTTTATT
1 AA-AT-AAAATCTTTC-GGGATCGATTTCCGTCGTTCAACGATTTTATTCCAAATTTGTTTTATT
*
83099518 TCCAGAAACGAG
63 TCCAAAAACGAG
83099530 AAATTAAATT
Statistics
Matches: 191, Mismatches: 31, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
75 3 0.02
76 64 0.34
77 61 0.32
78 61 0.32
79 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (76 bp):
AAATAAAATCTTTCGGGATCGATTTCCGTCGTTCAACGATTTTATTCCAAATTTGTTTTATTTCC
AAAAACGAGTT
Found at i:83099401 original size:76 final size:77
Alignment explanation
Indices: 83099219--83099537 Score: 324
Period size: 77 Copynumber: 4.1 Consensus size: 77
83099209 GGAAATTAAA
* * * * * *
83099219 AGTAAAATAAAAATCGTTTTGGGATTGATTCTCGCCGTTTAACGATTTTATTTCAAAATTGTTTT
1 AGTAAAAT-AAAATCGTTTCGGGATCGATTCTCGCCGTTTAATGATTTTATTCCAAATTTTTTTT
83099284 ATTTCCAAAAACG
65 ATTTCCAAAAACG
* * * * *
83099297 AGTTAAATAAAATCATTTCGGGACCGATT-TCCACCATTTAATGATTTTATTCCAAATTTTTTTT
1 AGTAAAATAAAATCGTTTCGGGATCGATTCT-CGCCGTTTAATGATTTTATTCCAAATTTTTTTT
83099361 ATTT-CAAAAACG
65 ATTTCCAAAAACG
* * *
83099373 AGTAAAATAAAATCGTTTCAGGATCGATTCTCGTCGTTCAATGATTTTATTCC-AATTTTGTTTT
1 AGTAAAATAAAATCGTTTCGGGATCGATTCTCGCCGTTTAATGATTTTATTCCAAATTTT-TTTT
*
83099437 ATTTCCAAAAACA
65 ATTTCCAAAAACG
* * * * * * * **
83099450 AGTAACATAAAAATC-TTTCTGGGATTGATTCCCGTCGTTCAACGATTTCATTCCAAATTTGGTT
1 AGTAAAAT-AAAATCGTTTC-GGGATCGATTCTCGCCGTTTAATGATTTTATTCCAAATTTTTTT
*
83099514 TATTTCCAGAAACG
64 TATTTCCAAAAACG
*
83099528 AG-AAATTAAA
1 AGTAAAATAAA
83099538 TTAAATAAAA
Statistics
Matches: 202, Mismatches: 32, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
75 6 0.03
76 63 0.31
77 70 0.35
78 58 0.29
79 5 0.02
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.39
Consensus pattern (77 bp):
AGTAAAATAAAATCGTTTCGGGATCGATTCTCGCCGTTTAATGATTTTATTCCAAATTTTTTTTA
TTTCCAAAAACG
Found at i:83099701 original size:84 final size:83
Alignment explanation
Indices: 83099609--83099762 Score: 211
Period size: 84 Copynumber: 1.8 Consensus size: 83
83099599 ATTAGAATAG
* * *
83099609 AATTAAATAAAATCTGTTTCGAGATTTATT-CTCGCCATTTAACAAGATTTTATTTGATTTTATT
1 AATTAAATAAAATATGTTTCGAGATTTATTCCT-GCCATTTAACAAGATTTTA-TCGATATTATT
83099673 TTGTTTCTTAATTCAAATTA
64 TTGTTTCTTAATTCAAATTA
* * * * *
83099693 AATTAAATAAAATATGTTTTGGGATTTATTCCTGTCGTTTAACAAGATTTTATCGATATTGTTTT
1 AATTAAATAAAATATGTTTCGAGATTTATTCCTGCCATTTAACAAGATTTTATCGATATTATTTT
83099758 GTTTC
66 GTTTC
83099763 CAAACAAAGA
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
83 15 0.25
84 44 0.72
85 2 0.03
ACGTcount: A:0.31, C:0.10, G:0.11, T:0.49
Consensus pattern (83 bp):
AATTAAATAAAATATGTTTCGAGATTTATTCCTGCCATTTAACAAGATTTTATCGATATTATTTT
GTTTCTTAATTCAAATTA
Found at i:83099849 original size:19 final size:20
Alignment explanation
Indices: 83099811--83099849 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
83099801 TATTCTTGTC
* *
83099811 ATTTAATAGATTTTATTTTG
1 ATTTAATAGATATAATTTTG
83099831 ATTTAAT-GATATAATTTTG
1 ATTTAATAGATATAATTTTG
83099850 TTTTGAGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.56
Consensus pattern (20 bp):
ATTTAATAGATATAATTTTG
Found at i:83103412 original size:39 final size:39
Alignment explanation
Indices: 83103354--83103469 Score: 151
Period size: 39 Copynumber: 3.0 Consensus size: 39
83103344 TGGGGTTTCA
* * * *
83103354 GTTTAGCTCTGATGAGCTTCAGTTAGCCTTCGGGCTTCT
1 GTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCC
*
83103393 GTTTAGCACTTATGTGCTTCAGTTAGCCTCCGGGCTTCC
1 GTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCC
* * **
83103432 GTTTAGAACTTATGTGCTTCAGCTAGATTTCGGGCTTC
1 GTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTC
83103470 AGATCATGAT
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 67 1.00
ACGTcount: A:0.15, C:0.23, G:0.24, T:0.38
Consensus pattern (39 bp):
GTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCC
Found at i:83104363 original size:18 final size:19
Alignment explanation
Indices: 83104338--83104378 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
83104328 TTAATAAAAG
83104338 TAAAAAAAATCACTTTATC
1 TAAAAAAAATCACTTTATC
83104357 TAAAAAAAATCACTTTATC
1 TAAAAAAAATCACTTTATC
83104376 TAA
1 TAA
83104379 TACATAGCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAAAAAATCACTTTATC
Found at i:83106534 original size:26 final size:24
Alignment explanation
Indices: 83106504--83106553 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
83106494 TAAATCATTC
* *
83106504 TATTTATATTTTATTTCATATTTGTT
1 TATTTATAATTAATTT-AT-TTTGTT
83106530 TATTTATAATTAATTTATTTTGTT
1 TATTTATAATTAATTTATTTTGTT
83106554 CGATAACGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 6 0.27
25 2 0.09
26 14 0.64
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (24 bp):
TATTTATAATTAATTTATTTTGTT
Found at i:83116024 original size:21 final size:20
Alignment explanation
Indices: 83116000--83116050 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
83115990 ACAAATGTGG
83116000 TTATTTGAAAATCATAAAATA
1 TTATTT-AAAATCATAAAATA
* *
83116021 TTATCTAGAAATTATAAAATA
1 TTATTTA-AAATCATAAAATA
83116042 TT-TTTAAAA
1 TTATTTAAAA
83116051 AAATTATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 3 0.12
20 4 0.15
21 19 0.73
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (20 bp):
TTATTTAAAATCATAAAATA
Found at i:83116072 original size:22 final size:23
Alignment explanation
Indices: 83116027--83116098 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 23
83116017 AATATTATCT
* *
83116027 AGAAATTATAAAATATTTTTAAA
1 AGAAATTATAAAATATTATAAAA
83116050 A-AAATTATAAAA-ATTAATAAAA
1 AGAAATTATAAAATATT-ATAAAA
*
83116072 AGAAATATATATATATATTATTAAAA
1 AGAAAT-TATA-AAATATTA-TAAAA
83116098 A
1 A
83116099 TATTAAAGAT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
21 3 0.08
22 16 0.40
23 5 0.12
24 4 0.10
25 3 0.08
26 9 0.22
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (23 bp):
AGAAATTATAAAATATTATAAAA
Found at i:83116539 original size:21 final size:21
Alignment explanation
Indices: 83116515--83116558 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
83116505 TTTTAATAAA
83116515 TTGTAAATAAATTTTATAATT
1 TTGTAAATAAATTTTATAATT
* * *
83116536 TTGTAATTTAATTTTATTATT
1 TTGTAAATAAATTTTATAATT
83116557 TT
1 TT
83116559 AATAATTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (21 bp):
TTGTAAATAAATTTTATAATT
Found at i:83116567 original size:22 final size:21
Alignment explanation
Indices: 83116524--83116567 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
83116514 ATTGTAAATA
*
83116524 AATTTTATAATTTTGTAATTT
1 AATTTTATAATTTTATAATTT
*
83116545 AATTTTATTATTTTAATAATTT
1 AATTTTATAATTTT-ATAATTT
83116567 A
1 A
83116568 TAATTTTGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
AATTTTATAATTTTATAATTT
Found at i:83116624 original size:19 final size:21
Alignment explanation
Indices: 83116600--83116638 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
83116590 TTTTATAATT
83116600 ATTTT-AAA-AATATTTTAAA
1 ATTTTAAAATAATATTTTAAA
83116619 ATTTTAAAATAATATTTTAA
1 ATTTTAAAATAATATTTTAA
83116639 TGATTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 3 0.17
21 10 0.56
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTTTAAAATAATATTTTAAA
Found at i:83121197 original size:222 final size:222
Alignment explanation
Indices: 83120811--83121271 Score: 793
Period size: 222 Copynumber: 2.1 Consensus size: 222
83120801 TGCAAACTTT
* *
83120811 TCTTCCACACCCAATTTGGTACGGCCCCGCTTATTTGGTTGTTTGAAAGGTCAAGTTCTTCTAAG
1 TCTTCCACAACCAATTTGGTACGGCCCCGCTTATTTGGTTATTTGAAAGGTCAAGTTCTTCTAAG
* **
83120876 CTCTCTTGACTCTTTAGAAATGCTGGAAACGTACTTATATTACAGGATCTCAAACGCAACGAAAT
66 CTCTCTTGACTCTTTAGAAATGCTGGAAACGTACTTATATTACAAGATCTCAAAAACAACGAAAT
83120941 CAGCATTGGAAAGGAGGAATTTGCATCATCAAAAGGAAACTGATTCGGAATGTCAATCGCATTGG
131 CAGCATTGGAAAGGAGGAATTTGCATCATCAAAAGGAAACTGATTCGGAATGTCAATCGCATTGG
83121006 AAGAAAGGTCTACGA-ATAT-AAGTGTGC
196 AAGAAAGGTCTA--ATATATCAAGTGTGC
*
83121033 TCTTCCACAACCAATTTGGTACTGCCCCGCTTATTTGGTTATTTGAAAGGTCAAGTTCTTCTAAG
1 TCTTCCACAACCAATTTGGTACGGCCCCGCTTATTTGGTTATTTGAAAGGTCAAGTTCTTCTAAG
**
83121098 CTCTCTTGACTCTTTAGAAATGCTGGAAACGTACTTATATTACAAGAT-TCCAAAAACAACGATC
66 CTCTCTTGACTCTTTAGAAATGCTGGAAACGTACTTATATTACAAGATCT-CAAAAACAACGAAA
83121162 TCAGCATTGGAAAGGAGGAATTTGCATCATCAAAAGGAAACTGATTCGGAATGTCAATCGCATTG
130 TCAGCATTGGAAAGGAGGAATTTGCATCATCAAAAGGAAACTGATTCGGAATGTCAATCGCATTG
*
83121227 GAAGAAAGGTCTAATATTTCAAGTGTGC
195 GAAGAAAGGTCTAATATATCAAGTGTGC
83121255 TCTTCCACAACCAATTT
1 TCTTCCACAACCAATTT
83121272 AGAACAAGAC
Statistics
Matches: 227, Mismatches: 9, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
220 1 0.00
221 4 0.02
222 222 0.98
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (222 bp):
TCTTCCACAACCAATTTGGTACGGCCCCGCTTATTTGGTTATTTGAAAGGTCAAGTTCTTCTAAG
CTCTCTTGACTCTTTAGAAATGCTGGAAACGTACTTATATTACAAGATCTCAAAAACAACGAAAT
CAGCATTGGAAAGGAGGAATTTGCATCATCAAAAGGAAACTGATTCGGAATGTCAATCGCATTGG
AAGAAAGGTCTAATATATCAAGTGTGC
Found at i:83131460 original size:25 final size:25
Alignment explanation
Indices: 83131419--83131488 Score: 133
Period size: 25 Copynumber: 2.8 Consensus size: 25
83131409 TGATACAAAT
83131419 TGATAATA-GTTAGGTAAATGTTCA
1 TGATAATAGGTTAGGTAAATGTTCA
83131443 TGATAATAGGTTAGGTAAATGTTCA
1 TGATAATAGGTTAGGTAAATGTTCA
83131468 TGATAATAGGTTAGGTAAATG
1 TGATAATAGGTTAGGTAAATG
83131489 ATTAATGTTG
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
24 8 0.18
25 37 0.82
ACGTcount: A:0.37, C:0.03, G:0.24, T:0.36
Consensus pattern (25 bp):
TGATAATAGGTTAGGTAAATGTTCA
Found at i:83131531 original size:26 final size:26
Alignment explanation
Indices: 83131497--83131561 Score: 121
Period size: 26 Copynumber: 2.5 Consensus size: 26
83131487 TGATTAATGT
*
83131497 TGTTCCATGATAATGGGTTAGGTAAA
1 TGTTTCATGATAATGGGTTAGGTAAA
83131523 TGTTTCATGATAATGGGTTAGGTAAA
1 TGTTTCATGATAATGGGTTAGGTAAA
83131549 TGTTTCATGATAA
1 TGTTTCATGATAA
83131562 GAATTTCATG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (26 bp):
TGTTTCATGATAATGGGTTAGGTAAA
Found at i:83132022 original size:34 final size:34
Alignment explanation
Indices: 83131984--83132052 Score: 122
Period size: 34 Copynumber: 2.0 Consensus size: 34
83131974 ACCATGCCAC
83131984 CAAAA-CGACGTTCAAATCGTTGTACATCTTCGTA
1 CAAAATCGACGTTCAAATCG-TGTACATCTTCGTA
83132018 CAAAATCGACGTTCAAATCGTGTACATCTTCGTA
1 CAAAATCGACGTTCAAATCGTGTACATCTTCGTA
83132052 C
1 C
83132053 TCCCCGGGTG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
34 20 0.59
35 14 0.41
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (34 bp):
CAAAATCGACGTTCAAATCGTGTACATCTTCGTA
Found at i:83137042 original size:40 final size:40
Alignment explanation
Indices: 83136930--83137082 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
83136920 GGATATAGCG
* * * * ***
83136930 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGGTTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* * *
83136970 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* **
83137010 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATGGGA
*
83137050 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
83137083 CATCATTCGA
Statistics
Matches: 92, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 3 0.03
40 78 0.85
41 11 0.12
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
Found at i:83144356 original size:8 final size:8
Alignment explanation
Indices: 83144339--83144373 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
83144329 TGATGTGAAT
83144339 AATA-TAA
1 AATATTAA
83144346 AATATTAA
1 AATATTAA
83144354 AATATTAA
1 AATATTAA
*
83144362 AATATTAG
1 AATATTAA
83144370 AATA
1 AATA
83144374 ATAATAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
7 4 0.15
8 22 0.85
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (8 bp):
AATATTAA
Found at i:83144558 original size:20 final size:21
Alignment explanation
Indices: 83144516--83144558 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
83144506 CCTTTTTTAG
* *
83144516 AATAATAATTAAATATACGAA
1 AATAATAATTAAATACACAAA
*
83144537 AATAAT-ATTATATACACAAA
1 AATAATAATTAAATACACAAA
83144557 AA
1 AA
83144559 GGTATATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (21 bp):
AATAATAATTAAATACACAAA
Found at i:83144730 original size:21 final size:23
Alignment explanation
Indices: 83144688--83144730 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
83144678 AGTATTTCGG
*
83144688 AGTATGTACATGAGACAATATAA
1 AGTATATACATGAGACAATATAA
83144711 AGTATATACATG-GA-AATATA
1 AGTATATACATGAGACAATATA
83144731 CAAGAAGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 2 0.11
23 11 0.58
ACGTcount: A:0.49, C:0.07, G:0.16, T:0.28
Consensus pattern (23 bp):
AGTATATACATGAGACAATATAA
Found at i:83144741 original size:23 final size:23
Alignment explanation
Indices: 83144694--83144743 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
83144684 TCGGAGTATG
*
83144694 TACATGAGACAATATAAAGTATA
1 TACATGAGACAATATAAAGAATA
83144717 TACATG-GA-AATATACAAGAAGTA
1 TACATGAGACAATATA-AAGAA-TA
83144740 TACA
1 TACA
83144744 ACTAATAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 6 0.25
22 6 0.25
23 12 0.50
ACGTcount: A:0.52, C:0.10, G:0.14, T:0.24
Consensus pattern (23 bp):
TACATGAGACAATATAAAGAATA
Found at i:83145317 original size:13 final size:13
Alignment explanation
Indices: 83145299--83145323 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
83145289 AAAAACGGAA
83145299 AAAAATAAAAAAT
1 AAAAATAAAAAAT
83145312 AAAAATAAAAAA
1 AAAAATAAAAAA
83145324 AGAGTAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:83145602 original size:25 final size:24
Alignment explanation
Indices: 83145563--83145639 Score: 109
Period size: 24 Copynumber: 3.2 Consensus size: 24
83145553 GGTTTCTTGG
**
83145563 TTTTTTTTGGGGGGTTAGGTTTTT
1 TTTTTTTTTTGGGGTTAGGTTTTT
*
83145587 CTTTTTTTTTTTGGGTTAGGTTTTT
1 -TTTTTTTTTTGGGGTTAGGTTTTT
*
83145612 TCTTTTTTTTGGGGTTAGGTTTTT
1 TTTTTTTTTTGGGGTTAGGTTTTT
83145636 TTTT
1 TTTT
83145640 GGAGGGCTTA
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
24 25 0.54
25 21 0.46
ACGTcount: A:0.04, C:0.03, G:0.25, T:0.69
Consensus pattern (24 bp):
TTTTTTTTTTGGGGTTAGGTTTTT
Found at i:83145926 original size:3 final size:3
Alignment explanation
Indices: 83145920--83146000 Score: 128
Period size: 3 Copynumber: 27.0 Consensus size: 3
83145910 ATGCTATTTT
83145920 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
83145967 CTA GTA TTA TTTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
83146001 CTGTCATTAT
Statistics
Matches: 73, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
2 2 0.03
3 68 0.93
4 3 0.04
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:83146275 original size:15 final size:15
Alignment explanation
Indices: 83146251--83146284 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
83146241 AGTTTGGATT
*
83146251 ATTATTTTTATTACC
1 ATTATATTTATTACC
*
83146266 ATTATATTTATTACT
1 ATTATATTTATTACC
83146281 ATTA
1 ATTA
83146285 CTAGTATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTATATTTATTACC
Found at i:83146390 original size:3 final size:3
Alignment explanation
Indices: 83146384--83146410 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
83146374 TATCATCATC
83146384 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
83146411 TACTTATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:83146588 original size:13 final size:13
Alignment explanation
Indices: 83146548--83146580 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
83146538 TGTGCCCTTC
*
83146548 TATTTATCTA-TT
1 TATTTATTTATTT
83146560 TATTTATTTATTT
1 TATTTATTTATTT
83146573 TATTTATT
1 TATTTATT
83146581 ATTATTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (13 bp):
TATTTATTTATTT
Found at i:83149487 original size:132 final size:132
Alignment explanation
Indices: 83149250--83149489 Score: 365
Period size: 132 Copynumber: 1.8 Consensus size: 132
83149240 TCTCGCTTTG
* * * * * *
83149250 GAAAACGTGAATGAAATTTCAAAGGGATATTCGATTATTTTGGACAAACGAGAAATTGCAACCCA
1 GAAAACATGAACGAAATTTCAAAGAGACATCCGATTATTTTGGACAAACAAGAAATTGCAACCCA
* *
83149315 GCACGATAGGGCACGATTCCCCGAATTGCCGAACTTCGAACATTTCCTTCGTTTTAAAATTTTTT
66 GCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTTCCTTCGTTTTAAAATTTTTT
83149380 TA
131 TA
* *
83149382 GAAAACATGAACGAAA-TTCTAAAGAGACATCCGATTATTTTGGGCAAACAAGAAATTGCAGCCC
1 GAAAACATGAACGAAATTTC-AAAGAGACATCCGATTATTTTGGACAAACAAGAAATTGCAACCC
*
83149446 AGCACGATAGGGCACGATTCCCCGAATTGCTAAACATCGAACAT
65 AGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACAT
83149490 CGTCTCCGTT
Statistics
Matches: 96, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
131 3 0.03
132 93 0.97
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (132 bp):
GAAAACATGAACGAAATTTCAAAGAGACATCCGATTATTTTGGACAAACAAGAAATTGCAACCCA
GCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTTCCTTCGTTTTAAAATTTTTT
TA
Found at i:83149799 original size:3 final size:3
Alignment explanation
Indices: 83149791--83149853 Score: 99
Period size: 3 Copynumber: 20.7 Consensus size: 3
83149781 ACAAACAATG
* *
83149791 ATA ATA ATA ATA ATA ATA ACA ATG ATA ATA ATA ATA ATA ATA ATA ATTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
83149840 ATA ATA ATA ATA AT
1 ATA ATA ATA ATA AT
83149854 GCAATGATAG
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
3 52 0.95
4 3 0.05
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:83149803 original size:24 final size:24
Alignment explanation
Indices: 83149775--83149852 Score: 95
Period size: 24 Copynumber: 3.2 Consensus size: 24
83149765 TAAATAAATA
83149775 AATAACACA-AACAATGATAATAAT
1 AATAACA-ATAACAATGATAATAAT
*
83149799 AATAATAATAACAATGATAATAAT
1 AATAACAATAACAATGATAATAAT
* * *
83149823 AATAATAATAATAATTAATAATAAT
1 AATAACAATAACAA-TGATAATAAT
83149848 AATAA
1 AATAA
83149853 TGCAATGATA
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
23 1 0.02
24 34 0.69
25 14 0.29
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.28
Consensus pattern (24 bp):
AATAACAATAACAATGATAATAAT
Found at i:83150308 original size:43 final size:43
Alignment explanation
Indices: 83150197--83150311 Score: 169
Period size: 43 Copynumber: 2.7 Consensus size: 43
83150187 TGAAAAAAAT
* *
83150197 GCCGCTAAAAGTCAAGACTTTTAGCAGCGTTTGTGGGAAAAGC
1 GCCGCTAAAAGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGC
***
83150240 ATGGCTAAAAGTCACA-GCTTTTAGCGGCGTTTGTGGGAAAAGC
1 GCCGCTAAAAGTCA-AGGCTTTTAGCGGCGTTTGTGGGAAAAGC
83150283 GCCGCTAAAAGTCAAGGCTTTTAGCGGCG
1 GCCGCTAAAAGTCAAGGCTTTTAGCGGCG
83150312 CTTTTTCTAC
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 1 0.02
43 60 0.97
44 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (43 bp):
GCCGCTAAAAGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGC
Found at i:83156754 original size:24 final size:24
Alignment explanation
Indices: 83156722--83156792 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
83156712 TTAACTTAAA
83156722 TGATAAAACGGACGATAATATTTG
1 TGATAAAACGGACGATAATATTTG
*
83156746 TGATAAAACGGACAATAATATTTG
1 TGATAAAACGGACGATAATATTTG
* *
83156770 TGATAAAACGGAAGAGAATATTT
1 TGATAAAACGGACGATAATATTT
83156793 CAATAATAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.45, C:0.07, G:0.20, T:0.28
Consensus pattern (24 bp):
TGATAAAACGGACGATAATATTTG
Found at i:83156929 original size:64 final size:64
Alignment explanation
Indices: 83156840--83156973 Score: 214
Period size: 64 Copynumber: 2.1 Consensus size: 64
83156830 ATATTTTATT
* *
83156840 AAATATTTGTATATTAGATGGGACATATTATATTAACAAATAAATTTATCAAAAATCATGATAG
1 AAATATTTGTATATTAGATGAGACATATTATATCAACAAATAAATTTATCAAAAATCATGATAG
* * * *
83156904 AAATATTTTTATATTAGATGAGACATATTATATCAATAAATAAATTTATTAAAAATCGTGATAG
1 AAATATTTGTATATTAGATGAGACATATTATATCAACAAATAAATTTATCAAAAATCATGATAG
83156968 AAATAT
1 AAATAT
83156974 AGAAATATTA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.37
Consensus pattern (64 bp):
AAATATTTGTATATTAGATGAGACATATTATATCAACAAATAAATTTATCAAAAATCATGATAG
Found at i:83159950 original size:36 final size:37
Alignment explanation
Indices: 83159910--83159980 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 37
83159900 AACTAAACCA
* *
83159910 TAAACTCAAATACCCTAAACCCTAAATTT-TAAACTC
1 TAAACCCAAATACCATAAACCCTAAATTTGTAAACTC
* * *
83159946 TAAACCCTAATTCCATATACCCTAAATTTGTAAAC
1 TAAACCCAAATACCATAAACCCTAAATTTGTAAAC
83159981 CATAAACGTC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
36 24 0.83
37 5 0.17
ACGTcount: A:0.42, C:0.27, G:0.01, T:0.30
Consensus pattern (37 bp):
TAAACCCAAATACCATAAACCCTAAATTTGTAAACTC
Found at i:83160091 original size:18 final size:18
Alignment explanation
Indices: 83160068--83160106 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
83160058 ACCCTAAAAC
83160068 CATATATAATACTATAAA
1 CATATATAATACTATAAA
*
83160086 CATATATAATACTCTAAA
1 CATATATAATACTATAAA
83160104 CAT
1 CAT
83160107 GTACTAAGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.33
Consensus pattern (18 bp):
CATATATAATACTATAAA
Found at i:83160906 original size:41 final size:40
Alignment explanation
Indices: 83160840--83161070 Score: 286
Period size: 41 Copynumber: 5.7 Consensus size: 40
83160830 GCGGCGTTTT
83160840 CGCTATTACTCAGTTTTAGCGGCGTTTGGACTAAAAACGC
1 CGCTATTACTCAGTTTTAGCGGCGTTTGGACTAAAAACGC
* * *
83160880 CGCTATTTCTAAGTTTTTAGCGGCGTTTGGACCAAAAACGC
1 CGCTATTACTCAG-TTTTAGCGGCGTTTGGACTAAAAACGC
* **
83160921 CGCTATTACTCAGTTTTAGCGGCGTTTTTG-CTCCAAACGC
1 CGCTATTACTCAGTTTTAGCGGCG-TTTGGACTAAAAACGC
* *
83160961 CGCTATTACTCAGTTTTTAGCGGCGTTTGGACCAAAAATGC
1 CGCTATTACTCAG-TTTTAGCGGCGTTTGGACTAAAAACGC
* **
83161002 CGCTATTACTCAGTTTTAGCGGCGTTTTTG-CTCCAAACGC
1 CGCTATTACTCAGTTTTAGCGGCG-TTTGGACTAAAAACGC
*
83161042 CGCTATTACTCAATTTTTTAGCGGCGTTT
1 CGCTATTACTC-A-GTTTTAGCGGCGTTT
83161071 TTGTGCAAAC
Statistics
Matches: 164, Mismatches: 20, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
40 74 0.45
41 79 0.48
42 11 0.07
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (40 bp):
CGCTATTACTCAGTTTTAGCGGCGTTTGGACTAAAAACGC
Found at i:83160976 original size:81 final size:81
Alignment explanation
Indices: 83160840--83161070 Score: 374
Period size: 81 Copynumber: 2.8 Consensus size: 81
83160830 GCGGCGTTTT
* ** * *
83160840 CGCTATTACTCAGTTTTAGCGGCG-TTTGGACTAAAAACGCCGCTATTTCTAAGTTTTTAGCGGC
1 CGCTATTACTCAGTTTTAGCGGCGTTTTTG-CTCCAAACGCCGCTATTACTCAGTTTTTAGCGGC
83160904 GTTTGGACCAAAAACGC
65 GTTTGGACCAAAAACGC
83160921 CGCTATTACTCAGTTTTAGCGGCGTTTTTGCTCCAAACGCCGCTATTACTCAGTTTTTAGCGGCG
1 CGCTATTACTCAGTTTTAGCGGCGTTTTTGCTCCAAACGCCGCTATTACTCAGTTTTTAGCGGCG
*
83160986 TTTGGACCAAAAATGC
66 TTTGGACCAAAAACGC
*
83161002 CGCTATTACTCAGTTTTAGCGGCGTTTTTGCTCCAAACGCCGCTATTACTCAATTTTTTAGCGGC
1 CGCTATTACTCAGTTTTAGCGGCGTTTTTGCTCCAAACGCCGCTATTACTC-AGTTTTTAGCGGC
83161067 GTTT
65 GTTT
83161071 TTGTGCAAAC
Statistics
Matches: 141, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
81 121 0.86
82 20 0.14
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (81 bp):
CGCTATTACTCAGTTTTAGCGGCGTTTTTGCTCCAAACGCCGCTATTACTCAGTTTTTAGCGGCG
TTTGGACCAAAAACGC
Found at i:83161619 original size:3 final size:3
Alignment explanation
Indices: 83161611--83161662 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
83161601 ATATATTAGG
83161611 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
83161659 AAT A
1 AAT A
83161663 GTAAAATCGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:83164015 original size:89 final size:90
Alignment explanation
Indices: 83163863--83164039 Score: 268
Period size: 89 Copynumber: 2.0 Consensus size: 90
83163853 AAGACTAGTG
* * * *
83163863 ATTTTCAGCCTATATTACCCTATCGCTTAGGGGGTTAAGGCTTGGTGGCTTGAATCTGCTTCACT
1 ATTTTCAGCC-ATATTACCCTATCGCTTAAGGGATTAAGGCTTGGTGGCTTAAATATGCTTCACT
*
83163928 GCAACTTCAGGAAGGCAAGATTTGTA
65 ACAACTTCAGGAAGGCAAGATTTGTA
*
83163954 ATTTTCAGCC-TATTACCCTA-CTGCTTAAGGGATTAAGGCTTGGTGGCTTAAATATGTTTCACT
1 ATTTTCAGCCATATTACCCTATC-GCTTAAGGGATTAAGGCTTGGTGGCTTAAATATGCTTCACT
83164017 ACAACTTCAGGAAGGCAAGATTT
65 ACAACTTCAGGAAGGCAAGATTT
83164040 ACCGTCTTCG
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
88 1 0.01
89 68 0.86
91 10 0.13
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.33
Consensus pattern (90 bp):
ATTTTCAGCCATATTACCCTATCGCTTAAGGGATTAAGGCTTGGTGGCTTAAATATGCTTCACTA
CAACTTCAGGAAGGCAAGATTTGTA
Found at i:83164322 original size:133 final size:132
Alignment explanation
Indices: 83164184--83164619 Score: 393
Period size: 133 Copynumber: 3.3 Consensus size: 132
83164174 TGCTATATTT
*
83164184 GATCTGCTCCACTGCAATCTCAGGGAAACAAGTTCTACAATCTTCAGCCTACTCCACTACAACTT
1 GATCTGCTCCACTGCAATCTCAGGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTT
* * * *
83164249 TAGGGAGTTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGGCAAGATTTATCGTC
66 TAGGGAGATAGGATGGTGGCTTAAATATGCTTCACTGCAACTTCAGGAAGACAAGATTT-CCGTC
83164314 TTC
130 TTC
* * * * * ** * * *
83164317 AATCTGTTCCACTGCAA-CTTCAGGGAGACAAGATCT---ATTTTGA-TTTGCTCTACTGCAACT
1 GATCTGCTCCACTGCAATC-TCAGGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACT
* * * * ** * *
83164377 TCA-AGAGATAAGATCTGTAATTTAACTTCAATATG-TTCCACTGCAACTTCAGGGAA-ATAAGA
65 TTAGGGAGATAGGA--TG----GTGGCTTAAATATGCTT-CACTGCAACTTCA-GGAAGACAAGA
** * *
83164439 TTTGCTATATTT
122 TTT-CCGTCTTC
83164451 GATCTGCTCCACTGCAATCTCAGGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTT
1 GATCTGCTCCACTGCAATCTCAGGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTT
* * * * * * * *
83164516 TAGGGAGCTAGGATGGTGGTTTAAATTTGCTTCACTACAACATCAGGAAGCCTAGATTCGCCGTC
66 TAGGGAGATAGGATGGTGGCTTAAATATGCTTCACTGCAACTTCAGGAAGACAAGATT-TCCGTC
83164581 TTC
130 TTC
83164584 GATCTGCTCCACTGCAATCTCAGGGAAACAAGATCT
1 GATCTGCTCCACTGCAATCTCAGGGAAACAAGATCT
83164620 GTAGAATTGA
Statistics
Matches: 227, Mismatches: 58, Indels: 36
0.71 0.18 0.11
Matches are distributed among these distances:
128 7 0.03
129 14 0.06
130 7 0.03
132 5 0.02
133 96 0.42
134 65 0.29
135 5 0.02
137 7 0.03
138 14 0.06
139 7 0.03
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (132 bp):
GATCTGCTCCACTGCAATCTCAGGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTT
TAGGGAGATAGGATGGTGGCTTAAATATGCTTCACTGCAACTTCAGGAAGACAAGATTTCCGTCT
TC
Found at i:83164456 original size:134 final size:135
Alignment explanation
Indices: 83164056--83164487 Score: 438
Period size: 134 Copynumber: 3.2 Consensus size: 135
83164046 TTCGATATGT
* *
83164056 TCCACTGCAA-CTTCAGGGAGACAAGATCTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGATA
1 TCCACTGCAATC-TCAGGGAAACAAGATCTATTTTGATCTGCTCTACTGCAACTTCAGAGAGATA
*
83164120 AGATCTGTAATTTAGCTTCAATCTGTTCCACTGCAATTTCAGGGAAATAAGATTTGCTATATTTG
65 AGATCTGTAATTTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATATTTG
83164185 ATCTGC
130 ATCTGC
* * * * * * * * *
83164191 TCCACTGCAATCTCAGGGAAACAAGTTCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAG
1 TCCACTGCAATCTCAGGGAAACAAGATCT---ATTTTGA-TCTGCTCTACTGCAACTTCAGAGAG
* * * * * ** * *
83164256 TTAGGA--TG----GTGGCTTAAATCTGCTT-CACTGCAACTTCA-GGAAGGCAAGATTT-ATCG
62 ATAAGATCTGTAATTTAGCTTCAATCTG-TTCCACTGCAACTTCAGGGAA-ATAAGATTTGCT-A
* ** *
83164312 TCTTCAATCTGT
124 TATTTGATCTGC
* *
83164324 TCCACTGCAA-CTTCAGGGAGACAAGATCTATTTTGATTTGCTCTACTGCAACTTCA-AGAGATA
1 TCCACTGCAATC-TCAGGGAAACAAGATCTATTTTGATCTGCTCTACTGCAACTTCAGAGAGATA
* *
83164387 AGATCTGTAATTTAACTTCAATATGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATATTTG
65 AGATCTGTAATTTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATATTTG
83164452 ATCTGC
130 ATCTGC
83164458 TCCACTGCAATCTCAGGGAAACAAGATCTA
1 TCCACTGCAATCTCAGGGAAACAAGATCTA
83164488 CAATCTTCAG
Statistics
Matches: 226, Mismatches: 52, Indels: 39
0.71 0.16 0.12
Matches are distributed among these distances:
128 7 0.03
129 14 0.06
130 7 0.03
132 6 0.03
133 65 0.29
134 66 0.29
135 31 0.14
136 1 0.00
137 2 0.01
138 4 0.02
139 23 0.10
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (135 bp):
TCCACTGCAATCTCAGGGAAACAAGATCTATTTTGATCTGCTCTACTGCAACTTCAGAGAGATAA
GATCTGTAATTTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATATTTGA
TCTGC
Found at i:83164482 original size:267 final size:268
Alignment explanation
Indices: 83163994--83164619 Score: 1031
Period size: 267 Copynumber: 2.3 Consensus size: 268
83163984 GATTAAGGCT
* *
83163994 TGGTGGCTTAAATATGTTTCACTACAACTTCAGGAAGGCAAGATTTACCGTCTTCGATATGTTCC
1 TGGTGGCTTAAATATGCTTCACTACAACTTCAGGAAGGCAAGATTTACCGTCTTCGATCTGTTCC
*
83164059 ACTGCAACTTCAGGGAGACAAGATCTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
66 ACTGCAACTTCAGGGAGACAAGATCTATTTTGATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
* * *
83164124 CTGTAATTTAGCTTCAATCTGTTCCACTGCAATTTCAGGGAAATAAGATTTGCTATATTTGATCT
131 CTGTAATTTAACTTCAATATGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATATTTGATCT
*
83164189 GCTCCACTGCAATCTCAGGGAAACAAGTTCTACAATCTTCAGCCTACTCCACTACAACTTTAGGG
196 GCTCCACTGCAATCTCAGGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGG
*
83164254 AGTTAGGA
261 AGCTAGGA
* * * *
83164262 TGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGGCAAGATTTATCGTCTTCAATCTGTTCC
1 TGGTGGCTTAAATATGCTTCACTACAACTTCAGGAAGGCAAGATTTACCGTCTTCGATCTGTTCC
*
83164327 ACTGCAACTTCAGGGAGACAAGATCTATTTTGATTTGCTCTACTGCAACTTCA-AGAGATAAGAT
66 ACTGCAACTTCAGGGAGACAAGATCTATTTTGATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
83164391 CTGTAATTTAACTTCAATATGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATATTTGATCT
131 CTGTAATTTAACTTCAATATGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATATTTGATCT
83164456 GCTCCACTGCAATCTCAGGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGG
196 GCTCCACTGCAATCTCAGGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGG
83164521 AGCTAGGA
261 AGCTAGGA
* * * * * ** *
83164529 TGGTGGTTTAAATTTGCTTCACTACAACATCAGGAAGCCTAGATTCGCCGTCTTCGATCTGCTCC
1 TGGTGGCTTAAATATGCTTCACTACAACTTCAGGAAGGCAAGATTTACCGTCTTCGATCTGTTCC
*
83164594 ACTGCAA-TCTCAGGGAAACAAGATCT
66 ACTGCAACT-TCAGGGAGACAAGATCT
83164620 GTAGAATTGA
Statistics
Matches: 332, Mismatches: 25, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
266 1 0.00
267 221 0.67
268 110 0.33
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (268 bp):
TGGTGGCTTAAATATGCTTCACTACAACTTCAGGAAGGCAAGATTTACCGTCTTCGATCTGTTCC
ACTGCAACTTCAGGGAGACAAGATCTATTTTGATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
CTGTAATTTAACTTCAATATGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATATTTGATCT
GCTCCACTGCAATCTCAGGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGG
AGCTAGGA
Found at i:83176633 original size:3 final size:3
Alignment explanation
Indices: 83176625--83176690 Score: 123
Period size: 3 Copynumber: 21.7 Consensus size: 3
83176615 ACAAACAATG
83176625 ATA ATA ATA ATAA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
83176671 ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA AT
83176691 GCAATGATAG
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 59 0.95
4 3 0.05
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:83177097 original size:26 final size:26
Alignment explanation
Indices: 83177060--83177193 Score: 232
Period size: 26 Copynumber: 5.2 Consensus size: 26
83177050 TGATACAAAT
*
83177060 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
83177086 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
83177112 TGATAATGTGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
83177138 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
83177164 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
83177190 TGAT
1 TGAT
83177194 TGGAATTTCA
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 103 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:83180376 original size:3 final size:3
Alignment explanation
Indices: 83180368--83180425 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
83180358 ATATATTAGG
83180368 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
83180416 AAT AAT AAT A
1 AAT AAT AAT A
83180426 GTAAAATCGA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:83180568 original size:9 final size:9
Alignment explanation
Indices: 83180554--83180595 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
83180544 TATAAACAGA
*
83180554 AAATAAAAT
1 AAATAAAAC
83180563 AAATAAAAC
1 AAATAAAAC
*
83180572 AAATAAGAC
1 AAATAAAAC
83180581 AAA-AATAAC
1 AAATAA-AAC
83180590 AAATAA
1 AAATAA
83180596 TATTGATGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
8 2 0.07
9 24 0.86
10 2 0.07
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.14
Consensus pattern (9 bp):
AAATAAAAC
Found at i:83182195 original size:13 final size:12
Alignment explanation
Indices: 83182173--83182205 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
83182163 AATTGGACTG
83182173 TTTT-ATTTTTT
1 TTTTGATTTTTT
83182184 TTTTGGATTTTTT
1 TTTT-GATTTTTT
83182197 TTTTGATTT
1 TTTTGATTT
83182206 GGGCTCGGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 4 0.20
12 5 0.25
13 11 0.55
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.82
Consensus pattern (12 bp):
TTTTGATTTTTT
Found at i:83183882 original size:27 final size:27
Alignment explanation
Indices: 83183845--83183951 Score: 151
Period size: 27 Copynumber: 4.0 Consensus size: 27
83183835 TGAGCCTCTT
*
83183845 TAACTCTAATCTCAGCTTCTCATTCTC
1 TAACTCCAATCTCAGCTTCTCATTCTC
* * *
83183872 TAACTCCAATCTCAGATTTTCATTCTG
1 TAACTCCAATCTCAGCTTCTCATTCTC
*
83183899 TTACTCCAATCTCAGCTTCTCATTCTC
1 TAACTCCAATCTCAGCTTCTCATTCTC
* *
83183926 TAACTCCAATCTCAACCTCTCATTCT
1 TAACTCCAATCTCAGCTTCTCATTCT
83183952 GGTGCAAGAA
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.23, C:0.34, G:0.04, T:0.39
Consensus pattern (27 bp):
TAACTCCAATCTCAGCTTCTCATTCTC
Found at i:83183949 original size:54 final size:54
Alignment explanation
Indices: 83183847--83183952 Score: 169
Period size: 54 Copynumber: 2.0 Consensus size: 54
83183837 AGCCTCTTTA
* * *
83183847 ACTCTAATCTCAGCTTCTCATTCTCTAACTCCAATCTCAGATTTTCATTCTGTT
1 ACTCCAATCTCAGCTTCTCATTCTCTAACTCCAATCTCAGACTCTCATTCTGTT
83183901 ACTCCAATCTCAGCTTCTCATTCTCTAACTCCAATCTCA-ACCTCTCATTCTG
1 ACTCCAATCTCAGCTTCTCATTCTCTAACTCCAATCTCAGA-CTCTCATTCTG
83183953 GTGCAAGAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
53 1 0.02
54 47 0.98
ACGTcount: A:0.23, C:0.34, G:0.05, T:0.39
Consensus pattern (54 bp):
ACTCCAATCTCAGCTTCTCATTCTCTAACTCCAATCTCAGACTCTCATTCTGTT
Found at i:83185697 original size:3 final size:3
Alignment explanation
Indices: 83185689--83185718 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
83185679 GGTTTTTCTT
83185689 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
83185719 ATAAAAATAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:83187392 original size:31 final size:30
Alignment explanation
Indices: 83187343--83187400 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 30
83187333 ATAAGAAATG
*
83187343 AATTTAAAATAAATAATGTGAAAAAAAAAGA
1 AATTTAAAATAAACAATGT-AAAAAAAAAGA
* * *
83187374 AATTTAATATCAACAATGTACAAAAAA
1 AATTTAAAATAAACAATGTAAAAAAAA
83187401 TTTAAAAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 7 0.30
31 16 0.70
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.24
Consensus pattern (30 bp):
AATTTAAAATAAACAATGTAAAAAAAAAGA
Found at i:83187521 original size:26 final size:27
Alignment explanation
Indices: 83187453--83187580 Score: 100
Period size: 26 Copynumber: 4.8 Consensus size: 27
83187443 ATATAGGCTA
* * **
83187453 AAGTTTGACATAAATAATATATGGGAA-
1 AAGTTTAAAATAAATAATATAT-AAAAT
* *
83187480 AAGTTTAAAATGAATAATATGTAAAAT
1 AAGTTTAAAATAAATAATATATAAAAT
*
83187507 AA-TTTAAGATAAATAATATAT-AAAT
1 AAGTTTAAAATAAATAATATATAAAAT
* * *
83187532 AAGTTTAAAATAAATATTATCTAAAAAG
1 AAGTTTAAAATAAATAATATAT-AAAAT
* * *
83187560 AAATTTATAATAAGTAATATA
1 AAGTTTAAAATAAATAATATA
83187581 CAAGACATCT
Statistics
Matches: 79, Mismatches: 18, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
25 6 0.08
26 34 0.43
27 20 0.25
28 19 0.24
ACGTcount: A:0.55, C:0.02, G:0.09, T:0.34
Consensus pattern (27 bp):
AAGTTTAAAATAAATAATATATAAAAT
Found at i:83187736 original size:25 final size:23
Alignment explanation
Indices: 83187659--83187740 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 23
83187649 TATATAAAAT
* *
83187659 TTTAAAGTAAATAA-TAAAACAA
1 TTTAAAATAAATAATTAAAAGAA
83187681 TTTAAAATGAAA-AATACATAAAACGAA
1 TTTAAAAT-AAATAAT---TAAAA-GAA
83187708 TTTAAAATAAATAATGTAAAAGAA
1 TTTAAAATAAATAAT-TAAAAGAA
83187732 TTTTAAAAT
1 -TTTAAAAT
83187741 CTATATTACA
Statistics
Matches: 49, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
22 9 0.18
23 3 0.06
24 3 0.06
25 13 0.27
26 8 0.16
27 13 0.27
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.29
Consensus pattern (23 bp):
TTTAAAATAAATAATTAAAAGAA
Found at i:83196607 original size:17 final size:17
Alignment explanation
Indices: 83196585--83196619 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
83196575 TCATCCAAAA
83196585 CATAGTCACTAGCCAAC
1 CATAGTCACTAGCCAAC
83196602 CATAGTCACTAGCCAAC
1 CATAGTCACTAGCCAAC
83196619 C
1 C
83196620 TTCTCAATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.37, G:0.11, T:0.17
Consensus pattern (17 bp):
CATAGTCACTAGCCAAC
Done.