Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 86 of 228
Found at i:25459581 original size:131 final size:131
Alignment explanation
Indices: 25459375--25459668 Score: 365
Period size: 131 Copynumber: 2.2 Consensus size: 131
25459365 TATTGTTTAC
* * **
25459375 TTTATATATCATGAACAATCTTATTTGAGTTAGCTGATTTAATATCACTACTTCAAACAGCTTGT
1 TTTAT-TATCATGAACAATCTTATTTGAGTTAGCTGATTTAAGATCACTACTCCAAACAGCTCAT
** * * *
25459440 TGATTTAATATCGCAGTTGATATAGTTAAGGTTTGCTGATATGAAT-TCGCAACCTAAGTTCATT
65 TGATTTAATATCGCAACTGATATAGTTAAAGTTCGCTAAT-TGAATATCGCAACCTAAGTTCATT
25459504 CAA
129 CAA
* *
25459507 TTTATTATCATGAACAATCTTATTTGGGTTAGCTGATTTAAGATCGCTACTCCAAACAGCTCATT
1 TTTATTATCATGAACAATCTTATTTGAGTTAGCTGATTTAAGATCACTACTCCAAACAGCTCATT
* * * * *
25459572 GGTTTAATATCGCAACTGATATTGTTAAAGTTCGCTAATTTAATATTGCAACCTAAGTTCATTCG
66 GATTTAATATCGCAACTGATATAGTTAAAGTTCGCTAATTGAATATCGCAACCTAAGTTCATTCA
25459637 A
131 A
* * * * * *
25459638 CTCAATAACATGAACAATCTCATTTGTGTTA
1 TTTATTATCATGAACAATCTTATTTGAGTTA
25459669 CCTAATTTTC
Statistics
Matches: 139, Mismatches: 22, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
130 4 0.03
131 130 0.94
132 5 0.04
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (131 bp):
TTTATTATCATGAACAATCTTATTTGAGTTAGCTGATTTAAGATCACTACTCCAAACAGCTCATT
GATTTAATATCGCAACTGATATAGTTAAAGTTCGCTAATTGAATATCGCAACCTAAGTTCATTCA
A
Found at i:25465993 original size:19 final size:18
Alignment explanation
Indices: 25465949--25465990 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
25465939 AATAAACACC
*
25465949 AAAAATTATTTTAAAAAT
1 AAAAAATATTTTAAAAAT
25465967 AAAAAATATTTTAAAAAT
1 AAAAAATATTTTAAAAAT
25465985 AAAAAA
1 AAAAAA
25465991 ATAAAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAAAATATTTTAAAAAT
Found at i:25468153 original size:104 final size:104
Alignment explanation
Indices: 25467896--25468212 Score: 436
Period size: 104 Copynumber: 3.0 Consensus size: 104
25467886 TTATGACTTA
* * * * ** *
25467896 AGCTGGATTTTAGTAATTGATAATGGGTTAATGAAATGGGGTTATTGTTGATGGTTAAATTATGT
1 AGCTGGATTTTAGTAATTGCTAGTGGATTAATGAAATGGGGTTATTGTTGATTGTTAAACAATGG
* * *
25467961 AGGAATTTTGTGGGTTTACAGCTTAAAAAATTGGTGGTTTC
66 AGGAAATTTATGGGTTTACAGCTT--AAAATTGGTGGTTTT
* *
25468002 AGCTAGATTTTAGTAATTGCTAGTGGATTTATGAAATGGGGTTATTGTTGATTGTTAAACAATGG
1 AGCTGGATTTTAGTAATTGCTAGTGGATTAATGAAATGGGGTTATTGTTGATTGTTAAACAATGG
*
25468067 AGGAAATTTATGGGTTTATAGCTTAAAATTGGTGGTTTT
66 AGGAAATTTATGGGTTTACAGCTTAAAATTGGTGGTTTT
* * *
25468106 AGCTGGATTTTAGTATTTGCTAGTGGATTAATGAAATGGGGTGATTGTTGATTATTAAACAATGG
1 AGCTGGATTTTAGTAATTGCTAGTGGATTAATGAAATGGGGTTATTGTTGATTGTTAAACAATGG
* * *
25468171 AAGAAATTTATGGGTTTACAGCATAAAATTGGCGGCTTTT
66 AGGAAATTTATGGGTTTACAGCTTAAAATTGGTGG-TTTT
25468211 AG
1 AG
25468213 TTATTGCTAC
Statistics
Matches: 188, Mismatches: 22, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
104 105 0.56
105 6 0.03
106 77 0.41
ACGTcount: A:0.29, C:0.05, G:0.26, T:0.39
Consensus pattern (104 bp):
AGCTGGATTTTAGTAATTGCTAGTGGATTAATGAAATGGGGTTATTGTTGATTGTTAAACAATGG
AGGAAATTTATGGGTTTACAGCTTAAAATTGGTGGTTTT
Found at i:25470446 original size:33 final size:33
Alignment explanation
Indices: 25470404--25470468 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
25470394 TTTCGAGTGA
25470404 TTGGATCTAGATATTATAGATCAACTGAGACAG
1 TTGGATCTAGATATTATAGATCAACTGAGACAG
*
25470437 TTGGATCTAGATATTATAGATCAATTGAGACA
1 TTGGATCTAGATATTATAGATCAACTGAGACA
25470469 ATTCACCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.32
Consensus pattern (33 bp):
TTGGATCTAGATATTATAGATCAACTGAGACAG
Found at i:25471523 original size:27 final size:27
Alignment explanation
Indices: 25471490--25471562 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 27
25471480 TATGTCGAAT
*
25471490 TTGTTAGATATTGATTATGTTTTGAGC
1 TTGTTAGATATTGATTATGTTTTAAGC
25471517 TTGTTAGATATTGAATTTATTATGTTTTAAGC
1 TTGTTAGATATTG-----ATTATGTTTTAAGC
*
25471549 TTGTTGGATATTGA
1 TTGTTAGATATTGA
25471563 AATGATTGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
27 14 0.36
32 25 0.64
ACGTcount: A:0.25, C:0.03, G:0.21, T:0.52
Consensus pattern (27 bp):
TTGTTAGATATTGATTATGTTTTAAGC
Found at i:25471542 original size:32 final size:32
Alignment explanation
Indices: 25471503--25471563 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
25471493 TTAGATATTG
*
25471503 ATTATGTTTTGAGCTTGTTAGATATTGAATTT
1 ATTATGTTTTAAGCTTGTTAGATATTGAATTT
*
25471535 ATTATGTTTTAAGCTTGTTGGATATTGAA
1 ATTATGTTTTAAGCTTGTTAGATATTGAA
25471564 ATGATTGACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.26, C:0.03, G:0.20, T:0.51
Consensus pattern (32 bp):
ATTATGTTTTAAGCTTGTTAGATATTGAATTT
Found at i:25475593 original size:19 final size:20
Alignment explanation
Indices: 25475568--25475631 Score: 87
Period size: 19 Copynumber: 3.3 Consensus size: 20
25475558 ATCCAAACAC
25475568 CAGAAAAGTAAATCATTTTT
1 CAGAAAAGTAAATCATTTTT
25475588 -AGAAAAGTAAATCATTTTT
1 CAGAAAAGTAAATCATTTTT
* * *
25475607 CAGAAAA-AAAATTATTTTC
1 CAGAAAAGTAAATCATTTTT
25475626 CAGAAA
1 CAGAAA
25475632 TCATTTTCCG
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
19 34 0.85
20 6 0.15
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.31
Consensus pattern (20 bp):
CAGAAAAGTAAATCATTTTT
Found at i:25477005 original size:105 final size:105
Alignment explanation
Indices: 25476684--25477104 Score: 492
Period size: 104 Copynumber: 4.0 Consensus size: 105
25476674 TCCCTACTTG
* * ***
25476684 TATGTGACAACATTAGGCTCAATGCCTTGCTTTCTCATTGTGTCAACAATATCTGGTGCTTCA-A
1 TATGTGACAACATCAGGCTCAATGCCTTGCTTTCTCATTCTGTCAACAATATCTTCAGCTTCAGA
* *
25476748 AACCATCCCCTTCTTGCAATGTGCATCAACCAATATACTA
66 AACCATTCCCTCCTTGCAATGTGCATCAACCAATATACTA
* * * *
25476788 TGA-GTGTCAACGTCAGGTTCAATACCTTGCTTTCTCA-TCGTGTCAACAATATCTTCAGCTT-A
1 T-ATGTGACAACATCAGGCTCAATGCCTTGCTTTCTCATTC-TGTCAACAATATCTTCAGCTTCA
* * * **
25476850 GGAACCATTCCCTCCTTGCAATGCGCATTAACCAATATGTTA
64 GAAACCATTCCCTCCTTGCAATGTGCATCAACCAATATACTA
* * * *
25476892 TATGTGACAACATCAGGCTCAATGCCTAGCTTTTTCATACTGTCAACAATATCTTCAGCTTTAGA
1 TATGTGACAACATCAGGCTCAATGCCTTGCTTTCTCATTCTGTCAACAATATCTTCAGCTTCAGA
* * *
25476957 AATCATTCCCTTCTTGCAATATGCATCAACCAATATACTA
66 AACCATTCCCTCCTTGCAATGTGCATCAACCAATATACTA
* * ** * *
25476997 TATGTGACAACATCAGGCTCAATGCCTTGCTTTCTCATTGTGTTAACAATATCTAGAACTTCAAA
1 TATGTGACAACATCAGGCTCAATGCCTTGCTTTCTCATTCTGTCAACAATATCTTCAGCTTCAGA
* * *
25477062 AATCATTCCCTCCTTG-AAGTGTGCATCAATCAATATATTA
66 AACCATTCCCTCCTTGCAA-TGTGCATCAACCAATATACTA
25477102 TAT
1 TAT
25477105 ATAAAAATAT
Statistics
Matches: 265, Mismatches: 45, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
103 3 0.01
104 134 0.51
105 128 0.48
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.33
Consensus pattern (105 bp):
TATGTGACAACATCAGGCTCAATGCCTTGCTTTCTCATTCTGTCAACAATATCTTCAGCTTCAGA
AACCATTCCCTCCTTGCAATGTGCATCAACCAATATACTA
Found at i:25484514 original size:22 final size:22
Alignment explanation
Indices: 25484451--25484514 Score: 52
Period size: 22 Copynumber: 3.2 Consensus size: 22
25484441 GGAGTGTTGG
25484451 AATCCCTATAATTAAGGATAGA
1 AATCCCTATAATTAAGGATAGA
* *
25484473 AAT--C--TAA-T--GGTATTGG
1 AATCCCTATAATTAAGG-ATAGA
25484489 AATCCCTATAATTAAGGATAGA
1 AATCCCTATAATTAAGGATAGA
25484511 AATC
1 AATC
25484515 TGTTGTGATC
Statistics
Matches: 30, Mismatches: 4, Indels: 16
0.60 0.08 0.32
Matches are distributed among these distances:
15 2 0.07
16 6 0.20
17 1 0.03
18 4 0.13
20 4 0.13
21 1 0.03
22 10 0.33
23 2 0.07
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (22 bp):
AATCCCTATAATTAAGGATAGA
Found at i:25490044 original size:19 final size:19
Alignment explanation
Indices: 25490007--25490046 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
25489997 ATAGTAGCAA
*
25490007 TAAAATAGTGAAATGACAG
1 TAAAATAGTGAAATAACAG
25490026 TAAAATAGTGACAA-AACAG
1 TAAAATAGTGA-AATAACAG
25490045 TA
1 TA
25490047 GTATTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 17 0.89
20 2 0.11
ACGTcount: A:0.55, C:0.07, G:0.17, T:0.20
Consensus pattern (19 bp):
TAAAATAGTGAAATAACAG
Found at i:25497889 original size:12 final size:12
Alignment explanation
Indices: 25497872--25497901 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
25497862 CCTCACATGC
25497872 TCGTGTGCTAGG
1 TCGTGTGCTAGG
25497884 TCGTGTGCTAGG
1 TCGTGTGCTAGG
*
25497896 CCGTGT
1 TCGTGT
25497902 AACTGCTAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.20, G:0.40, T:0.33
Consensus pattern (12 bp):
TCGTGTGCTAGG
Found at i:25503898 original size:28 final size:28
Alignment explanation
Indices: 25503867--25504013 Score: 142
Period size: 28 Copynumber: 5.2 Consensus size: 28
25503857 AGGCTTATTC
25503867 TTTCATATTACGCCACAAAGACATTTCT
1 TTTCATATTACGCCACAAAGACATTTCT
* * * *
25503895 TTTCATA-AATCGTCACAAAGGCTTATTC-
1 TTTCATATTA-CGCCACAAAGACAT-TTCT
*
25503923 TTTCATATTACGCCACAAAGGCATTTCT
1 TTTCATATTACGCCACAAAGACATTTCT
* *
25503951 TTTCATGAAT-CGCCACAAAG-GATTAT-T
1 TTTCAT-ATTACGCCACAAAGACATT-TCT
*
25503978 CTTTCATATTATGCCACAAAGACATTTCT
1 -TTTCATATTACGCCACAAAGACATTTCT
25504007 TTTCATA
1 TTTCATA
25504014 GATTGCCACA
Statistics
Matches: 97, Mismatches: 12, Indels: 20
0.75 0.09 0.16
Matches are distributed among these distances:
27 10 0.10
28 77 0.79
29 10 0.10
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.37
Consensus pattern (28 bp):
TTTCATATTACGCCACAAAGACATTTCT
Found at i:25503898 original size:56 final size:56
Alignment explanation
Indices: 25503837--25504030 Score: 284
Period size: 56 Copynumber: 3.5 Consensus size: 56
25503827 CAAGGTTATC
*
25503837 CTTTTCATGAATCGCTACAGAGGCTTATTCTTTCATATTACGCCACAAAGACATTT
1 CTTTTCATGAATCGCTACAAAGGCTTATTCTTTCATATTACGCCACAAAGACATTT
* *
25503893 CTTTTCATAAATCG-TCACAAAGGCTTATTCTTTCATATTACGCCACAAAGGCATTT
1 CTTTTCATGAATCGCT-ACAAAGGCTTATTCTTTCATATTACGCCACAAAGACATTT
* * *
25503949 CTTTTCATGAATCGCCACAAAGGATTATTCTTTCATATTATGCCACAAAGACATTT
1 CTTTTCATGAATCGCTACAAAGGCTTATTCTTTCATATTACGCCACAAAGACATTT
* *
25504005 CTTTTCAT-AGATTGCCACAAAGGCTT
1 CTTTTCATGA-ATCGCTACAAAGGCTT
25504031 CCATTTCTGA
Statistics
Matches: 125, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
55 2 0.02
56 123 0.98
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.36
Consensus pattern (56 bp):
CTTTTCATGAATCGCTACAAAGGCTTATTCTTTCATATTACGCCACAAAGACATTT
Found at i:25514873 original size:39 final size:39
Alignment explanation
Indices: 25514830--25515001 Score: 220
Period size: 39 Copynumber: 4.4 Consensus size: 39
25514820 ATAGAAATAT
*
25514830 GGTGATTATTC-GAGCTATATGCCTAACAGGCTTTGTGCC
1 GGTGATTATTCAG-GCTATGTGCCTAACAGGCTTTGTGCC
* * *
25514869 GGTGATTATTCAGGCCATGTGCCTAGCAGGCTTTATGCC
1 GGTGATTATTCAGGCTATGTGCCTAACAGGCTTTGTGCC
* * * *
25514908 GGTGGTTATTCGGGCTATGTGCCTAGCAAGCTTTGTGCC
1 GGTGATTATTCAGGCTATGTGCCTAACAGGCTTTGTGCC
**
25514947 GGTGATTATTCAGGCTATGTGCCTAACAGGCTTTGTGTT
1 GGTGATTATTCAGGCTATGTGCCTAACAGGCTTTGTGCC
* *
25514986 GTTGATTATTCCGGCT
1 GGTGATTATTCAGGCT
25515002 TTGTACCGGT
Statistics
Matches: 115, Mismatches: 17, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
39 114 0.99
40 1 0.01
ACGTcount: A:0.17, C:0.20, G:0.28, T:0.35
Consensus pattern (39 bp):
GGTGATTATTCAGGCTATGTGCCTAACAGGCTTTGTGCC
Found at i:25515039 original size:78 final size:78
Alignment explanation
Indices: 25514957--25515124 Score: 214
Period size: 78 Copynumber: 2.2 Consensus size: 78
25514947 GGTGATTATT
* * * * *
25514957 CAGGCTATGTGCCTAACAGGCTTTGTGTTGTTGATTATTCCGGCTTTGTACCGG-TGATTATTCA
1 CAGGCTATGTGCCTAACAAGCTTTATGCTGGTGATTATTCAGGCTTTGT-CCGGATGATTATTC-
*
25515021 GGCT-ATGTGCCTAG
64 GGCTCATATGCCTAG
* *
25515035 CAGGCTATGTGCCTAGCAAGCTTTATGCTGGTGATTATTCAGGCTTTGTGCGGATGATTATTCGG
1 CAGGCTATGTGCCTAACAAGCTTTATGCTGGTGATTATTCAGGCTTTGTCCGGATGATTATTCGG
*
25515100 GTCATATGCCTAG
66 CTCATATGCCTAG
*
25515113 CAGGCTTTGTGC
1 CAGGCTATGTGC
25515125 TGGTGATTAT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
77 6 0.08
78 72 0.92
ACGTcount: A:0.17, C:0.19, G:0.28, T:0.36
Consensus pattern (78 bp):
CAGGCTATGTGCCTAACAAGCTTTATGCTGGTGATTATTCAGGCTTTGTCCGGATGATTATTCGG
CTCATATGCCTAG
Found at i:25515040 original size:16 final size:16
Alignment explanation
Indices: 25515019--25515052 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
25515009 GGTGATTATT
25515019 CAGGCTATGTGCCTAG
1 CAGGCTATGTGCCTAG
25515035 CAGGCTATGTGCCTAG
1 CAGGCTATGTGCCTAG
25515051 CA
1 CA
25515053 AGCTTTATGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.21, C:0.26, G:0.29, T:0.24
Consensus pattern (16 bp):
CAGGCTATGTGCCTAG
Found at i:25515117 original size:39 final size:39
Alignment explanation
Indices: 25515074--25515157 Score: 127
Period size: 39 Copynumber: 2.2 Consensus size: 39
25515064 GGTGATTATT
25515074 CAGGCTTTGTGC-GGATGATTATTCGGG-TCATATGCCTAG
1 CAGGCTTTGTGCTGG-TGATTATTCGGGCT-ATATGCCTAG
*
25515113 CAGGCTTTGTGCTGGTGATTATTCGGGCTATGTGCCTAG
1 CAGGCTTTGTGCTGGTGATTATTCGGGCTATATGCCTAG
25515152 CAGGCT
1 CAGGCT
25515158 ATATGCCGAT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
39 39 0.93
40 3 0.07
ACGTcount: A:0.15, C:0.19, G:0.32, T:0.33
Consensus pattern (39 bp):
CAGGCTTTGTGCTGGTGATTATTCGGGCTATATGCCTAG
Found at i:25523480 original size:24 final size:25
Alignment explanation
Indices: 25523451--25523520 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 25
25523441 CCCATTTTTT
* *
25523451 AATAAACACCAAA-AATATTTTAAA
1 AATAAAAACAAAATAATATTTTAAA
*
25523475 AATAAAAATAAAATAATATTTTAAA
1 AATAAAAACAAAATAATATTTTAAA
* *
25523500 ATTAAAGAATAAAA-AATATTT
1 AATAAA-AACAAAATAATATTT
25523521 ATTTATTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
24 10 0.25
25 23 0.57
26 7 0.17
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.30
Consensus pattern (25 bp):
AATAAAAACAAAATAATATTTTAAA
Found at i:25523494 original size:25 final size:25
Alignment explanation
Indices: 25523461--25523520 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
25523451 AATAAACACC
25523461 AAAAATATTTTAAAAATAAA-AATA
1 AAAAATATTTTAAAAATAAAGAATA
*
25523485 AAATAATATTTTAAAATTAAAGAATA
1 AAA-AATATTTTAAAAATAAAGAATA
25523511 AAAAATATTT
1 AAAAATATTT
25523521 ATTTATTATA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
24 3 0.09
25 23 0.70
26 7 0.21
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (25 bp):
AAAAATATTTTAAAAATAAAGAATA
Found at i:25525143 original size:7 final size:7
Alignment explanation
Indices: 25525131--25525163 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
25525121 TTATATATAT
25525131 AATACTA
1 AATACTA
25525138 AATACTA
1 AATACTA
25525145 AATACTA
1 AATACTA
25525152 AATACTA
1 AATACTA
25525159 AATAC
1 AATAC
25525164 CAATCGACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:25526331 original size:11 final size:11
Alignment explanation
Indices: 25526315--25526426 Score: 91
Period size: 11 Copynumber: 9.5 Consensus size: 11
25526305 AAATAGGGAT
25526315 TTGAGAGGAAA
1 TTGAGAGGAAA
*
25526326 TTGAGAGCAAA
1 TTGAGAGGAAA
**
25526337 TTGAGATTAAA
1 TTGAGAGGAAA
25526348 TATGGATTGAGAGAAA
1 T-T-GA--GAG-GAAA
25526364 TTTG-GAAGGAAA
1 -TTGAG-AGGAAA
*
25526376 TTGAGAGCAAA
1 TTGAGAGGAAA
*
25526387 TTGAGAGGAAC
1 TTGAGAGGAAA
25526398 TTGAGAGGAAA
1 TTGAGAGGAAA
*
25526409 TTGAGAGAATAA
1 TTGAGAGGA-AA
25526421 TTGAGA
1 TTGAGA
25526427 AAGGATTAAT
Statistics
Matches: 82, Mismatches: 10, Indels: 17
0.75 0.09 0.16
Matches are distributed among these distances:
11 55 0.67
12 15 0.18
13 4 0.05
15 3 0.04
16 4 0.05
17 1 0.01
ACGTcount: A:0.44, C:0.03, G:0.30, T:0.23
Consensus pattern (11 bp):
TTGAGAGGAAA
Found at i:25527391 original size:153 final size:155
Alignment explanation
Indices: 25527182--25527494 Score: 495
Period size: 153 Copynumber: 2.0 Consensus size: 155
25527172 TAGAATACCC
* *
25527182 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGT-AA-GATTATTGCTATTGTTATTTAAATTTTAATAAGATTATTA
* * * * *
25527247 TTATCAATAATAAATATTTTAATCATATTTAAACATAAATATTATTGAACCCATTCTAATTAAAA
64 ATATCAATAATAAATAATTTAATCATATTTAAACATAAATATTATTAAACACATTATAATTAAAA
*
25527312 TATATAATTTCATAAAATTCTTAATAA
129 TATATAATTTAATAAAATTCTTAATAA
25527339 TTAGCAGAAATTTGTTTTGGT-A-ATTATTGCTATTGTTATTTAAATTTTAATAAGATTATTAAT
1 TTAGCAGAAATTTGTTTTGGTAAGATTATTGCTATTGTTATTTAAATTTTAATAAGATTATTAAT
* * *
25527402 ATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATA
66 ATCAATAATAAATAATTTAATCATATTTAAACATAAATATTATTAAACACATTATAATTAAAATA
25527467 TATAATTTAATAAAATTCTTAATAA
131 TATAATTTAATAAAATTCTTAATAA
25527492 TTA
1 TTA
25527495 ATATTCTTAT
Statistics
Matches: 145, Mismatches: 11, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
153 124 0.86
155 1 0.01
157 20 0.14
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.46
Consensus pattern (155 bp):
TTAGCAGAAATTTGTTTTGGTAAGATTATTGCTATTGTTATTTAAATTTTAATAAGATTATTAAT
ATCAATAATAAATAATTTAATCATATTTAAACATAAATATTATTAAACACATTATAATTAAAATA
TATAATTTAATAAAATTCTTAATAA
Found at i:25527465 original size:16 final size:16
Alignment explanation
Indices: 25527428--25527469 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
25527418 TTAATCATAT
*
25527428 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
25527444 TT-AAATATATTATAA
1 TTAAAATATATTATAA
25527459 TTAAAATATAT
1 TTAAAATATAT
25527470 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:25527476 original size:14 final size:15
Alignment explanation
Indices: 25527437--25527478 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
25527427 TTTAAACATA
*
25527437 ATTATTATTAAATAT
1 ATTATAATTAAATAT
25527452 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
25527466 A-TATAATTTAATA
1 ATTATAATTAAATA
25527479 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:25527567 original size:120 final size:121
Alignment explanation
Indices: 25527426--25527723 Score: 503
Period size: 120 Copynumber: 2.5 Consensus size: 121
25527416 ATTTAATCAT
*
25527426 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
25527491 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTAT-AAATATAA
25527548 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
25527611 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATTTAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATATAA
* * * *
25527667 ATTTGAA-ATAATTAATATTAAATATATTTTATTTAAAATATATGATTTAATAAAATT
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
25527724 TAAAATAATT
Statistics
Matches: 168, Mismatches: 6, Indels: 6
0.93 0.03 0.03
Matches are distributed among these distances:
119 8 0.05
120 155 0.92
121 4 0.02
122 1 0.01
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATATAA
Found at i:25527596 original size:14 final size:15
Alignment explanation
Indices: 25527547--25527598 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
25527537 GTAAAATATA
25527547 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
25527562 TATTAAATATATTAT
1 AATTAAATATATTAT
25527577 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
25527590 AATTTAATA
1 AATTAAATA
25527599 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:25527810 original size:24 final size:25
Alignment explanation
Indices: 25527764--25527811 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
25527754 TATGAATTTG
25527764 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
25527790 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
25527812 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:25527815 original size:92 final size:92
Alignment explanation
Indices: 25527719--25527947 Score: 236
Period size: 92 Copynumber: 2.5 Consensus size: 92
25527709 TGATTTAATA
* * *
25527719 AAATTT-AAAATAATT-ATAACTAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TA
1 AAATTTCAAAA-AATTCATAA-TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTA
*
25527781 ATTATTACATATAATTTAATAATTAATATT
64 A-TATTAAATATAATTTAATAATTAATATT
* * * * *
25527811 AAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAAT
1 AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
* *
25527876 ATTAAATATAATTTAAT-AGTGATA-T
66 ATTAAATATAATTTAATAATTAATATT
* * *
25527901 ATAATTTCATAAAATTCTTAATAATAAAATGT-TCTTATATGAATTTA
1 A-AATTTCAAAAAATTCATAATAAT-AAAT-TATATTATATGAATTTA
25527948 CTAAAATCAA
Statistics
Matches: 119, Mismatches: 12, Indels: 12
0.83 0.08 0.08
Matches are distributed among these distances:
90 2 0.02
91 27 0.23
92 81 0.68
93 9 0.08
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (92 bp):
AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
ATTAAATATAATTTAATAATTAATATT
Found at i:25529378 original size:12 final size:12
Alignment explanation
Indices: 25529361--25529394 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
25529351 CTAGATACAT
25529361 AAAATGAAACCC
1 AAAATGAAACCC
25529373 AAAATGAAACCC
1 AAAATGAAACCC
25529385 AAAATGAAAC
1 AAAATGAAAC
25529395 AACAAGGTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.62, C:0.21, G:0.09, T:0.09
Consensus pattern (12 bp):
AAAATGAAACCC
Found at i:25530466 original size:77 final size:77
Alignment explanation
Indices: 25530339--25530499 Score: 295
Period size: 77 Copynumber: 2.1 Consensus size: 77
25530329 AGGAAGAACA
* * *
25530339 ATTAAAATGATTGTCTATTTATAGATATACACACATACTTATAGCTATATATAACCAAAATGTCA
1 ATTAAAATGATTGTCTATGTATAGATATACACACATACTTATACCTATATATAACCAAAACGTCA
25530404 TGATTCATCTAG
66 TGATTCATCTAG
25530416 ATTAAAATGATTGTCTATGTATAGATATACACACATACTTATACCTATATATAACCAAAACGTCA
1 ATTAAAATGATTGTCTATGTATAGATATACACACATACTTATACCTATATATAACCAAAACGTCA
25530481 TGATTCATCTAG
66 TGATTCATCTAG
25530493 ATTAAAA
1 ATTAAAA
25530500 GTAAATTTTT
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 81 1.00
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.35
Consensus pattern (77 bp):
ATTAAAATGATTGTCTATGTATAGATATACACACATACTTATACCTATATATAACCAAAACGTCA
TGATTCATCTAG
Found at i:25537476 original size:10 final size:9
Alignment explanation
Indices: 25537418--25537477 Score: 52
Period size: 10 Copynumber: 6.4 Consensus size: 9
25537408 GACTAAAGTG
25537418 ATTTTTATA
1 ATTTTTATA
*
25537427 ATCTTTA-A
1 ATTTTTATA
*
25537435 ATATATTTATT
1 AT-T-TTTATA
25537446 ATTTTT-TA
1 ATTTTTATA
25537454 ATTTTTATGA
1 ATTTTTAT-A
25537464 ATTTTTAATA
1 ATTTTT-ATA
25537474 ATTT
1 ATTT
25537478 ATTTACTTGA
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
8 10 0.24
9 10 0.24
10 17 0.41
11 4 0.10
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (9 bp):
ATTTTTATA
Found at i:25538205 original size:24 final size:24
Alignment explanation
Indices: 25538160--25538206 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
25538150 AAGTGATTTT
25538160 TTTTAATTTTTAAATATATTTATA
1 TTTTAATTTTTAAATATATTTATA
25538184 TTTTAAGTTTTCTAAA-AT-TTTAT
1 TTTTAA-TTTT-TAAATATATTTAT
25538207 TAATTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 11 0.52
25 6 0.29
26 4 0.19
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (24 bp):
TTTTAATTTTTAAATATATTTATA
Found at i:25538213 original size:25 final size:24
Alignment explanation
Indices: 25538161--25538213 Score: 56
Period size: 25 Copynumber: 2.2 Consensus size: 24
25538151 AGTGATTTTT
*
25538161 TTTAATTTTTAAATATATTTATAT
1 TTTAATTTTTAAATATATTTATAA
25538185 TTTAAGTTTTCTAAA-AT-TTTATTAA
1 TTTAA-TTTT-TAAATATATTTA-TAA
25538210 TTTA
1 TTTA
25538214 TTTACTTGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
24 9 0.36
25 12 0.48
26 4 0.16
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (24 bp):
TTTAATTTTTAAATATATTTATAA
Found at i:25539787 original size:12 final size:12
Alignment explanation
Indices: 25539770--25539794 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25539760 AATAAATCAT
25539770 ATATGTATATTA
1 ATATGTATATTA
25539782 ATATGTATATTA
1 ATATGTATATTA
25539794 A
1 A
25539795 CAGAAAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATATGTATATTA
Found at i:25539998 original size:24 final size:24
Alignment explanation
Indices: 25539971--25540019 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
25539961 ATTCACATAT
25539971 TTTAATAATTTTAAAAAAGTAAAA
1 TTTAATAATTTTAAAAAAGTAAAA
25539995 TTTAATAATTTTAAAAAAGTAAAA
1 TTTAATAATTTTAAAAAAGTAAAA
25540019 T
1 T
25540020 AATTTAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (24 bp):
TTTAATAATTTTAAAAAAGTAAAA
Found at i:25540185 original size:21 final size:21
Alignment explanation
Indices: 25540137--25540192 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
25540127 CACCATTGTT
*
25540137 TCTAATCTCATCGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
*
25540158 TCCAATCTCACCGCTACAGTAA
1 TCTAATCTCACCGCTACAGT-A
25540180 T-TAATCTCACCGC
1 TCTAATCTCACCGC
25540193 CACCGCTGCT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 29 0.94
22 2 0.06
ACGTcount: A:0.29, C:0.34, G:0.09, T:0.29
Consensus pattern (21 bp):
TCTAATCTCACCGCTACAGTA
Found at i:25542489 original size:15 final size:15
Alignment explanation
Indices: 25542448--25542489 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
25542438 AAATATTCAG
*
25542448 ATTCAATATTTAGAA
1 ATTCAATATTTAAAA
*
25542463 ATTTAATA-TTAAAA
1 ATTCAATATTTAAAA
*
25542477 ATTCAACATTTAA
1 ATTCAATATTTAA
25542490 TTTTTCATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.40
Consensus pattern (15 bp):
ATTCAATATTTAAAA
Found at i:25543281 original size:17 final size:18
Alignment explanation
Indices: 25543259--25543299 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
25543249 ATATGTTTTT
*
25543259 AAAATTTTATTAAA-TTA
1 AAAATTTTAATAAACTTA
25543276 AAAATTTTAATAAACTTTA
1 AAAATTTTAATAAAC-TTA
25543295 AAAAT
1 AAAAT
25543300 ACAATTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 13 0.62
19 8 0.38
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAATTTTAATAAACTTA
Found at i:25543351 original size:15 final size:15
Alignment explanation
Indices: 25543333--25543373 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
25543323 TTTATATTAT
25543333 TTATTTTTAATATAA
1 TTATTTTTAATATAA
*
25543348 TTATTCTTT-TTATAA
1 TTATT-TTTAATATAA
25543363 TTATTTTTAAT
1 TTATTTTTAAT
25543374 TAGTAAAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 3 0.14
15 16 0.73
16 3 0.14
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (15 bp):
TTATTTTTAATATAA
Found at i:25543586 original size:17 final size:19
Alignment explanation
Indices: 25543564--25543605 Score: 61
Period size: 17 Copynumber: 2.3 Consensus size: 19
25543554 TCTATTAAAT
25543564 ATAATAAATATTTAA-TAA
1 ATAATAAATATTTAACTAA
*
25543582 A-AATAAGTATTTAACTAA
1 ATAATAAATATTTAACTAA
25543600 ATAATA
1 ATAATA
25543606 TTATTTGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 12 0.57
18 5 0.24
19 4 0.19
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (19 bp):
ATAATAAATATTTAACTAA
Found at i:25546584 original size:40 final size:42
Alignment explanation
Indices: 25546509--25546628 Score: 119
Period size: 40 Copynumber: 2.9 Consensus size: 42
25546499 ACACTGTTCA
25546509 TGCCACGTCAGCAAATCGCGTCCTAGA-G-GGA-GCGATTTCCT-
1 TGCCACGTCAGCAAATCGCG--CT-GACGTGGACGCGATTTCCTG
25546550 T-CCACGTCAGCAAATCGCGCTGACGTGGACGCGATTTCCTG
1 TGCCACGTCAGCAAATCGCGCTGACGTGGACGCGATTTCCTG
* * * *
25546591 TGCGAAC-CCTG-ACATCGCGCTGACGTGGACGCGATTTC
1 TGC-CACGTCAGCAAATCGCGCTGACGTGGACGCGATTTC
25546629 GCGAAAAATG
Statistics
Matches: 69, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
37 2 0.03
38 3 0.04
39 3 0.04
40 28 0.41
41 28 0.41
42 3 0.04
43 2 0.03
ACGTcount: A:0.20, C:0.31, G:0.28, T:0.22
Consensus pattern (42 bp):
TGCCACGTCAGCAAATCGCGCTGACGTGGACGCGATTTCCTG
Found at i:25546700 original size:30 final size:29
Alignment explanation
Indices: 25546632--25546700 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
25546622 CGATTTCGCG
25546632 AAAAAT-GGCCCATTTCGGTAAATAATTA
1 AAAAATCGGCCCATTTCGGTAAATAATTA
* *
25546660 AAAAACCGGCCCATTTCGGTAAAT-TTTGAA
1 AAAAATCGGCCCATTTCGGTAAATAATT--A
25546690 AAAAATCGGCC
1 AAAAATCGGCC
25546701 TTTTTTGGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 7 0.20
29 17 0.49
30 11 0.31
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.25
Consensus pattern (29 bp):
AAAAATCGGCCCATTTCGGTAAATAATTA
Found at i:25554666 original size:56 final size:58
Alignment explanation
Indices: 25554580--25554746 Score: 189
Period size: 56 Copynumber: 2.8 Consensus size: 58
25554570 TTGTTATTAA
* * * * *
25554580 ATTTTAATAGAATTATTACTAAATATAATTTAATAAAAAATAA-ATAT-TTTAATCAT
1 ATTTTAATATAATTATTATTAAATAAAATTTAATAAAAAATAATATATATTTAATAAC
*
25554636 ATTTTAACATAATTATTATTAAATAAAATTTAAT-AAAAATAATATATAATTTAATAAC
1 ATTTTAATATAATTATTATTAAATAAAATTTAATAAAAAATAATATAT-ATTTAATAAC
*
25554694 ATTCTTAATATAATTATTATTAAAATATGAA-TTAATAAAAATCATAATATATA
1 ATT-TTAATATAATTATTATT-AAATA-AAATTTAATAAAAA--ATAATATATA
25554747 ATATTAGAAA
Statistics
Matches: 94, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
55 8 0.09
56 34 0.36
58 10 0.11
59 16 0.17
60 10 0.11
61 6 0.06
62 1 0.01
63 9 0.10
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (58 bp):
ATTTTAATATAATTATTATTAAATAAAATTTAATAAAAAATAATATATATTTAATAAC
Found at i:25555869 original size:29 final size:27
Alignment explanation
Indices: 25555816--25556068 Score: 115
Period size: 28 Copynumber: 9.1 Consensus size: 27
25555806 GATTGTGTGT
* * *
25555816 CCCTTATTTT-AGATTTTATAGTTTTG
1 CCCTTATTTTCAGATTTTACAATTTTA
*
25555842 CCCTTATTTAATCAGATTTTACAATTTTT
1 CCCTTATTT--TCAGATTTTACAATTTTA
*
25555871 CCCTTATTTTTAGATTTTAC-ATTTTA
1 CCCTTATTTTCAGATTTTACAATTTTA
* * **
25555897 CCCCTATTTTTCAAATTTTACAAAGTT-
1 CCCTTA-TTTTCAGATTTTACAATTTTA
* * *
25555924 CCCTTTGTTTCTCAGATTTTATAGTTTT-
1 CCC-TTATTT-TCAGATTTTACAATTTTA
* * *
25555952 CCCTCTATTTTTTAGATTTTATAATTTTG
1 CCCT-TA-TTTTCAGATTTTACAATTTTA
* * *
25555981 CCTCGGTT-TCTT-AAATTTTACAATTTTC
1 CC-C--TTATTTTCAGATTTTACAATTTTA
* * * * *
25556009 CCCTAATTTTTAGATTCTATAGTTTT-
1 CCCTTATTTTCAGATTTTACAATTTTA
* *
25556035 CCCTTATTTTTTCAAAGTTTACAATTTTGA
1 CCCTTA--TTTTCAGATTTTACAATTTT-A
25556065 CCCT
1 CCCT
25556069 AAAGTTTATT
Statistics
Matches: 171, Mismatches: 37, Indels: 34
0.71 0.15 0.14
Matches are distributed among these distances:
25 1 0.01
26 27 0.16
27 41 0.24
28 65 0.38
29 30 0.18
30 5 0.03
31 1 0.01
32 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.07, T:0.53
Consensus pattern (27 bp):
CCCTTATTTTCAGATTTTACAATTTTA
Found at i:25555905 original size:55 final size:54
Alignment explanation
Indices: 25555815--25555919 Score: 140
Period size: 55 Copynumber: 1.9 Consensus size: 54
25555805 CGATTGTGTG
* * * *
25555815 TCCCTTATTTTAGATTTTATAGTTTTGCCCTTATTTAATCAGATTTTACAATTTT
1 TCCCTTATTTTAGATTTTACAGTTTTACCCCTATTT-ATCAAATTTTACAATTTT
*
25555870 TCCCTTATTTTTAGATTTTACA-TTTTACCCCTATTTTTCAAATTTTACAA
1 TCCCTTA-TTTTAGATTTTACAGTTTTACCCCTATTTATCAAATTTTACAA
25555920 AGTTCCCTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
54 12 0.27
55 19 0.43
56 13 0.30
ACGTcount: A:0.25, C:0.17, G:0.05, T:0.53
Consensus pattern (54 bp):
TCCCTTATTTTAGATTTTACAGTTTTACCCCTATTTATCAAATTTTACAATTTT
Found at i:25555971 original size:56 final size:56
Alignment explanation
Indices: 25555815--25555972 Score: 168
Period size: 56 Copynumber: 2.9 Consensus size: 56
25555805 CGATTGTGTG
* * **
25555815 TCCCTTA-TTTTAGATTTTATAGTTTTGCCCT-TATTTAATCAGATTTTACAATTTT
1 TCCCTTATTTTTAGATTTTATAGTTTTACCCTCTATTT-TTCAGATTTTACAATAGT
* *
25555870 TCCCTTATTTTTAGATTTTACA-TTTTACCC-CTATTTTTCAAATTTTACAA-AGT
1 TCCCTTATTTTTAGATTTTATAGTTTTACCCTCTATTTTTCAGATTTTACAATAGT
*
25555923 TCCCTT-TGTTTCTCAGATTTTATAGTTTT-CCCTCTATTTTTTAGATTTTA
1 TCCCTTAT-TTT-T-AGATTTTATAGTTTTACCCTCTATTTTTCAGATTTTA
25555973 TAATTTTGCC
Statistics
Matches: 87, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
52 1 0.01
53 10 0.11
54 13 0.15
55 31 0.36
56 32 0.37
ACGTcount: A:0.22, C:0.17, G:0.06, T:0.54
Consensus pattern (56 bp):
TCCCTTATTTTTAGATTTTATAGTTTTACCCTCTATTTTTCAGATTTTACAATAGT
Found at i:25555990 original size:56 final size:55
Alignment explanation
Indices: 25555930--25556062 Score: 140
Period size: 55 Copynumber: 2.4 Consensus size: 55
25555920 AGTTCCCTTT
* * * * *
25555930 GTTTCTCAGATTTTATAGTTTTCCCTCTATTTTTTAGATTTTATAATTTTGCCTCG
1 GTTTCTCAAATTTTACAATTTTCCC-CTAATTTTTAGATTCTATAATTTTGCCTCG
* * * **
25555986 GTTTCTTAAATTTTACAATTTTCCCCTAATTTTTAGATTCTATAGTTTTCCCTTA
1 GTTTCTCAAATTTTACAATTTTCCCCTAATTTTTAGATTCTATAATTTTGCCTCG
* * *
25556041 TTTTTTCAAAGTTTACAATTTT
1 GTTTCTCAAATTTTACAATTTT
25556063 GACCCTAAAG
Statistics
Matches: 63, Mismatches: 14, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
55 42 0.67
56 21 0.33
ACGTcount: A:0.22, C:0.16, G:0.08, T:0.55
Consensus pattern (55 bp):
GTTTCTCAAATTTTACAATTTTCCCCTAATTTTTAGATTCTATAATTTTGCCTCG
Found at i:25556747 original size:133 final size:133
Alignment explanation
Indices: 25556505--25556753 Score: 338
Period size: 133 Copynumber: 1.9 Consensus size: 133
25556495 AAGCACTGTA
* * * * * * **
25556505 GCAGTGTTTATCCTTTAACTACAAATTTGGTGTACATCCACAACTTATCGATAGCTTTTACCTGC
1 GCAGTGTTTATCCTTTAACTAAAAAATTGCTATACATCCACAACTCATCGAAAAATTTTACCTGC
* * * *
25556570 AATAATGTTTTGCATTTACATCCTAGTGTCAAATTTTATCTGCGATATTTTGTTGTGTTCCCACA
66 AATAATGTTGTGCATCTACAGCCCAGTGTCAAATTTTATCTGCGATATTTTGTTGTGTTCCCACA
25556635 GTG
131 GTG
* *
25556638 GCAGTGTTTATCCTTTAACTAAAAAATTGCTATACATCCACAACTCATTGAAAAATTTTACTTGC
1 GCAGTGTTTATCCTTTAACTAAAAAATTGCTATACATCCACAACTCATCGAAAAATTTTACCTGC
* *
25556703 AATAATGTTGTGCATCTACAGCCCAGTGAT-AGATTTTATTTGCGATATTTT
66 AATAATGTTGTGCATCTACAGCCCAGTG-TCAAATTTTATCTGCGATATTTT
25556754 ACTGTGCACC
Statistics
Matches: 99, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
133 98 0.99
134 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.39
Consensus pattern (133 bp):
GCAGTGTTTATCCTTTAACTAAAAAATTGCTATACATCCACAACTCATCGAAAAATTTTACCTGC
AATAATGTTGTGCATCTACAGCCCAGTGTCAAATTTTATCTGCGATATTTTGTTGTGTTCCCACA
GTG
Found at i:25557419 original size:253 final size:253
Alignment explanation
Indices: 25556971--25557477 Score: 987
Period size: 253 Copynumber: 2.0 Consensus size: 253
25556961 GTGCATACAG
25556971 TCTGGATTTTCTGTGATGTCATATTTATACCTATATATAAATTGTTGAGTGAACTAAAATACCGA
1 TCTGGATTTTCTGTGATGTCATATTTATACCTATATATAAATTGTTGAGTGAACTAAAATACCGA
*
25557036 TATTCTGAAATTCCTATTATGATTTCTGAGATTCTATTGATGGTTAACCTGAAAAATCGATACTT
66 TATTCTGAAATTCCTATTATGATTTCTGAGATTCTATTGATGGTTAACCTAAAAAATCGATACTT
*
25557101 TGATTTGTCAGTTGATTATTATTATTCTATGTGTTATTATGACTTATCGAGTGTTTTGACTAGTT
131 TGATTTGTCAGTTGATTATTATTATTCTATGTGTTATTATGACTTATAGAGTGTTTTGACTAGTT
25557166 TTGCTTGTGATAGAACTCACCCTAAGCTTCACAGCTCACTCCCTTTTTAATTTCTATC
196 TTGCTTGTGATAGAACTCACCCTAAGCTTCACAGCTCACTCCCTTTTTAATTTCTATC
25557224 TCTGGATTTTCTGTGATGTCATATTTATACCTATATATAAATTGTTGAGTGAACTAAAATACCGA
1 TCTGGATTTTCTGTGATGTCATATTTATACCTATATATAAATTGTTGAGTGAACTAAAATACCGA
*
25557289 TATTCTGAAATTCCTATTATGATTTCTGAGATTCTATTGATGGTTAACCTAAAAAATTGATACTT
66 TATTCTGAAATTCCTATTATGATTTCTGAGATTCTATTGATGGTTAACCTAAAAAATCGATACTT
25557354 TGATTTGTCAGTTGATTATTATTATTCTATGTGTTATTATGACTTATAGAGTGTTTTGACTAGTT
131 TGATTTGTCAGTTGATTATTATTATTCTATGTGTTATTATGACTTATAGAGTGTTTTGACTAGTT
25557419 TTGCTTGTGATAGAACTCACCCTAAGCTTCACAGCTCACTCCCTTTTTAATTTCTATC
196 TTGCTTGTGATAGAACTCACCCTAAGCTTCACAGCTCACTCCCTTTTTAATTTCTATC
25557477 T
1 T
25557478 TTTTAGATAA
Statistics
Matches: 251, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
253 251 1.00
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.43
Consensus pattern (253 bp):
TCTGGATTTTCTGTGATGTCATATTTATACCTATATATAAATTGTTGAGTGAACTAAAATACCGA
TATTCTGAAATTCCTATTATGATTTCTGAGATTCTATTGATGGTTAACCTAAAAAATCGATACTT
TGATTTGTCAGTTGATTATTATTATTCTATGTGTTATTATGACTTATAGAGTGTTTTGACTAGTT
TTGCTTGTGATAGAACTCACCCTAAGCTTCACAGCTCACTCCCTTTTTAATTTCTATC
Found at i:25559348 original size:26 final size:26
Alignment explanation
Indices: 25559317--25559393 Score: 86
Period size: 27 Copynumber: 3.0 Consensus size: 26
25559307 CATGAATTTC
25559317 TCAAAATTTTACTAGGGGTAAAATTA
1 TCAAAATTTTACTAGGGGTAAAATTA
* *
25559343 TCAAAATTTTA-TTGGGAGATAAAATCA
1 TCAAAATTTTACTAGGG-G-TAAAATTA
* *
25559370 TCAAACTTTTACTA-GAGTAAAATT
1 TCAAAATTTTACTAGGGGTAAAATT
25559394 GGGATGAGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
25 10 0.24
26 13 0.31
27 18 0.43
28 1 0.02
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (26 bp):
TCAAAATTTTACTAGGGGTAAAATTA
Found at i:25561519 original size:19 final size:19
Alignment explanation
Indices: 25561497--25561549 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
25561487 TTTTAAGGGT
25561497 ATACCAAAAAAATAAAGAA
1 ATACCAAAAAAATAAAGAA
* * *
25561516 ATACCAAAAATTATGATGAA
1 ATACCAAAAA-AATAAAGAA
*
25561536 TTACCAAAAAAATA
1 ATACCAAAAAAATA
25561550 TGAGTGGATA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.64, C:0.11, G:0.06, T:0.19
Consensus pattern (19 bp):
ATACCAAAAAAATAAAGAA
Found at i:25561566 original size:22 final size:22
Alignment explanation
Indices: 25561541--25561613 Score: 71
Period size: 22 Copynumber: 3.3 Consensus size: 22
25561531 ATGAATTACC
25561541 AAAAAAATATGAGTGGATACGA
1 AAAAAAATATGAGTGGATACGA
* *
25561563 AAAAAAATAAGAGT--ATACCAA
1 AAAAAAATATGAGTGGATA-CGA
*
25561584 AAACAAAACATGAG-GGATTACGA
1 AAA-AAAATATGAGTGGA-TACGA
25561607 AAAAAAA
1 AAAAAAA
25561614 AGATGAGCAT
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
20 3 0.07
21 5 0.12
22 25 0.61
23 6 0.15
24 2 0.05
ACGTcount: A:0.62, C:0.08, G:0.16, T:0.14
Consensus pattern (22 bp):
AAAAAAATATGAGTGGATACGA
Found at i:25565066 original size:13 final size:15
Alignment explanation
Indices: 25565035--25565066 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
25565025 TCATATATAA
25565035 TTTATTAATCAATAT
1 TTTATTAATCAATAT
25565050 TTTATTAAT-AA-AT
1 TTTATTAATCAATAT
25565063 TTTA
1 TTTA
25565067 CACTAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 2 0.12
15 9 0.53
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (15 bp):
TTTATTAATCAATAT
Found at i:25566473 original size:22 final size:22
Alignment explanation
Indices: 25566416--25566475 Score: 102
Period size: 22 Copynumber: 2.7 Consensus size: 22
25566406 TGAAGGTAAT
*
25566416 TCATTTTCCAGACTTTGGCATG
1 TCATTTTCCAGATTTTGGCATG
25566438 TCATTTTCCAGATTTTGGCATG
1 TCATTTTCCAGATTTTGGCATG
*
25566460 TCATTTTCCCGATTTT
1 TCATTTTCCAGATTTT
25566476 ATTTTATTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.17, C:0.22, G:0.15, T:0.47
Consensus pattern (22 bp):
TCATTTTCCAGATTTTGGCATG
Found at i:25569060 original size:9 final size:9
Alignment explanation
Indices: 25569043--25569097 Score: 83
Period size: 9 Copynumber: 6.1 Consensus size: 9
25569033 TAAGTTTTCG
25569043 AATTCGAAT
1 AATTCGAAT
*
25569052 AACTCGAAT
1 AATTCGAAT
* *
25569061 AACTCAAAT
1 AATTCGAAT
25569070 AATTCGAAT
1 AATTCGAAT
25569079 AATTCGAAT
1 AATTCGAAT
25569088 AATTCGAAT
1 AATTCGAAT
25569097 A
1 A
25569098 TCAAATTATA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 42 1.00
ACGTcount: A:0.47, C:0.15, G:0.09, T:0.29
Consensus pattern (9 bp):
AATTCGAAT
Found at i:25584697 original size:20 final size:22
Alignment explanation
Indices: 25584660--25584706 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
25584650 GCCATACAGC
*
25584660 TGTGTGCCTCCTTTCACATGAG
1 TGTGTGCCTCCTTCCACATGAG
*
25584682 TGTGTGCCT-C-TCCACATGGG
1 TGTGTGCCTCCTTCCACATGAG
25584702 TGTGT
1 TGTGT
25584707 TGACCCCCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 13 0.57
21 1 0.04
22 9 0.39
ACGTcount: A:0.11, C:0.26, G:0.28, T:0.36
Consensus pattern (22 bp):
TGTGTGCCTCCTTCCACATGAG
Found at i:25592043 original size:24 final size:24
Alignment explanation
Indices: 25592011--25592060 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
25592001 TTTTAAACAA
25592011 TTAATGAATATTACTATAAGATAT
1 TTAATGAATATTACTATAAGATAT
25592035 TTAATGAATATTACTATAAGATAT
1 TTAATGAATATTACTATAAGATAT
25592059 TT
1 TT
25592061 TTTGTACTTC
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:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (24 bp):
TTAATGAATATTACTATAAGATAT
Found at i:25596500 original size:21 final size:21
Alignment explanation
Indices: 25596475--25596518 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
25596465 CAAGGTTTCT
*
25596475 TCCAGCTGCCAAGTGGCTTCC
1 TCCAGCTCCCAAGTGGCTTCC
25596496 TCCAGCTCCCAAGTGGCTTCC
1 TCCAGCTCCCAAGTGGCTTCC
25596517 TC
1 TC
25596519 AATACCATGG
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:0.14, C:0.41, G:0.20, T:0.25
Consensus pattern (21 bp):
TCCAGCTCCCAAGTGGCTTCC
Found at i:25598436 original size:207 final size:207
Alignment explanation
Indices: 25598081--25598495 Score: 683
Period size: 207 Copynumber: 2.0 Consensus size: 207
25598071 CAAGCTCTTA
*
25598081 TGATCAGTGCGTATATGGAACTTTTCTGAATAAAAGTACTGGTTTAGGATTTTTAGAGCAAAGGT
1 TGATCAGTGCATATATGGAACTTTTCTGAATAAAAGTACTGGTTTAGGATTTTTAGAGCAAAGGT
* * * *
25598146 AACAGCTACCAATTCTAGATTGGGCATCAGATAGTTCTTCTCGTGTGAATTTAATTGTCGAGAAG
66 AACAGCCACCAATTCTAGATCGGGCATCAGATAGTTCTTCTCATGTGAATTTAACTGTCGAGAAG
25598211 CATAAGCAATCACCTTACCTTCTTGCACCGAAATGCAACCTAATCCACTGAGCGAAGCATTACTA
131 CATAAGCAATCACCTTACCTTCTTGCACCGAAATGCAACCTAATCCACTGAGCGAAGCATTACTA
25598276 TAAACAACGAAT
196 TAAACAACGAAT
* *
25598288 TGATCAGTGCATATATGGAATTTTTCTGAATAAAAGTA-TTGTTTCCA-GATTTTTAGAGCAAAG
1 TGATCAGTGCATATATGGAACTTTTCTGAATAAAAGTACTGGTTT--AGGATTTTTAGAGCAAAG
* *
25598351 GTAACA-CCAGCCAATTCTAGATCGGGCGTTAGATAGTTCTTCTCATGTGAATTTAACTGTCGAG
64 GTAACAGCCA-CCAATTCTAGATCGGGCATCAGATAGTTCTTCTCATGTGAATTTAACTGTCGAG
* *
25598415 AAGCATAAGCAATCACCTTACCTTTTTGCACCGAAATGCAACCTAATCCACTGAGCGAATCATTA
128 AAGCATAAGCAATCACCTTACCTTCTTGCACCGAAATGCAACCTAATCCACTGAGCGAAGCATTA
25598480 CTATAAACAACGAAT
193 CTATAAACAACGAAT
25598495 T
1 T
25598496 CCTTTCCAGA
Statistics
Matches: 194, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
206 7 0.04
207 186 0.96
208 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (207 bp):
TGATCAGTGCATATATGGAACTTTTCTGAATAAAAGTACTGGTTTAGGATTTTTAGAGCAAAGGT
AACAGCCACCAATTCTAGATCGGGCATCAGATAGTTCTTCTCATGTGAATTTAACTGTCGAGAAG
CATAAGCAATCACCTTACCTTCTTGCACCGAAATGCAACCTAATCCACTGAGCGAAGCATTACTA
TAAACAACGAAT
Found at i:25602856 original size:22 final size:23
Alignment explanation
Indices: 25602820--25602864 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
25602810 CGAAAGAAGT
*
25602820 CTAAGAAAATGAAAAGAA-AATAA
1 CTAAAAAAATGAAAA-AATAATAA
25602843 CTAAAAAAAT-AAAAAATAATAA
1 CTAAAAAAATGAAAAAATAATAA
25602865 AAATAAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 2 0.10
22 9 0.45
23 9 0.45
ACGTcount: A:0.73, C:0.04, G:0.07, T:0.16
Consensus pattern (23 bp):
CTAAAAAAATGAAAAAATAATAA
Found at i:25611544 original size:18 final size:19
Alignment explanation
Indices: 25611493--25611552 Score: 70
Period size: 18 Copynumber: 3.2 Consensus size: 19
25611483 TAAATTACGA
25611493 TTTTAACCCTCACAATGCT
1 TTTTAACCCTCACAATGCT
* * *
25611512 TTTGTCACACTCACAGTGC-
1 TTT-TAACCCTCACAATGCT
25611531 TTTTAACCCTCACAATG-T
1 TTTTAACCCTCACAATGCT
25611549 TTTT
1 TTTT
25611553 GCTCCCACAA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
18 15 0.45
19 6 0.18
20 12 0.36
ACGTcount: A:0.23, C:0.28, G:0.08, T:0.40
Consensus pattern (19 bp):
TTTTAACCCTCACAATGCT
Found at i:25616236 original size:51 final size:50
Alignment explanation
Indices: 25616176--25616396 Score: 207
Period size: 51 Copynumber: 4.4 Consensus size: 50
25616166 GATGAACATG
25616176 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA-AAATAATGGTCACA
* * * * * *
25616227 TGTGTAGTACTAAGTGAAGGATACTATGTGTA-CTGAAAAGCT-TTCGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATC-GAAAA--TAATGGTCACA
* * * *
25616278 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACT--TGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCG-AAAA-TAATGGTCACA
* * * *
25616328 TTTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGATAATAGTAACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAA-AATAATGGTCACA
* *
25616379 TGGGTGGTACTATGTGAA
1 TGTGTAGTACTATGTGAA
25616397 AACCCCCAAA
Statistics
Matches: 139, Mismatches: 23, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
49 3 0.02
50 43 0.31
51 87 0.63
52 6 0.04
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAAAATAATGGTCACA
Found at i:25616340 original size:50 final size:49
Alignment explanation
Indices: 25616175--25616359 Score: 219
Period size: 51 Copynumber: 3.7 Consensus size: 49
25616165 CGATGAACAT
* * *
25616175 GTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATGGTCAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTACCG-TAAA-ACTTGTCAC
* * * * *
25616226 ATGTGTAGTACTAAGTGAAGGATACTATGTGTACTG-AAAAGCTTTCGTCAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTAAAA-C-TT-GTCAC
*
25616277 GTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGATCAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTAAAACTTG-TCAC
*
25616327 GTTTGTAGTACTATGTGAAGGCTACTACGTGTA
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTA
25616360 TCGAATGATA
Statistics
Matches: 113, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
48 1 0.01
49 4 0.04
50 38 0.34
51 66 0.58
52 4 0.04
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (49 bp):
GTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTAAAACTTGTCAC
Found at i:25625821 original size:153 final size:153
Alignment explanation
Indices: 25625543--25625831 Score: 479
Period size: 153 Copynumber: 1.9 Consensus size: 153
25625533 AATCGATCAA
* * * *
25625543 TTGATGAGTACTTCAAGAAAAGATGGTCAAATGAAAGAAAAAGTACAATTGATCTTTCACTTGTT
1 TTGATGAGTACTTCAAGAAAAGATGGTCAAATAAAAGAAAAAGTACAATTGATCTCTCACCTATT
* *
25625608 ATGAAATGTTATTGGTGTAGTTCAAAAGATCATGAGGGTTTTCGATGTCCAATTAAATGTCCAAC
66 ATGAAATGTTATTGGTGTAGCTCAAAAGATCATGAGGGTTTACGATGTCCAATTAAATGTCCAAC
25625673 TAGAAAGTAATTATGAATTTCAG
131 TAGAAAGTAATTATGAATTTCAG
* *
25625696 TTGATGAGTACTTCAAGAAGAGATGGTCAAATAAAAGAAAGAGTACAATTGATCTCTCACCTATT
1 TTGATGAGTACTTCAAGAAAAGATGGTCAAATAAAAGAAAAAGTACAATTGATCTCTCACCTATT
* * *
25625761 GTGAAATGTTATTGGTGTAGCTCAAAAGATCATGCGGGTTTACGGTGTCCAATTAAATGTCCAAC
66 ATGAAATGTTATTGGTGTAGCTCAAAAGATCATGAGGGTTTACGATGTCCAATTAAATGTCCAAC
25625826 TAGAAA
131 TAGAAA
25625832 TTATGACTTT
Statistics
Matches: 125, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
153 125 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (153 bp):
TTGATGAGTACTTCAAGAAAAGATGGTCAAATAAAAGAAAAAGTACAATTGATCTCTCACCTATT
ATGAAATGTTATTGGTGTAGCTCAAAAGATCATGAGGGTTTACGATGTCCAATTAAATGTCCAAC
TAGAAAGTAATTATGAATTTCAG
Found at i:25626162 original size:22 final size:21
Alignment explanation
Indices: 25626137--25626178 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
25626127 ACAAGACACT
*
25626137 ACATCAACATCATAAATTTTAC
1 ACATCAAC-GCATAAATTTTAC
*
25626159 ACATCTACGCATAAATTTTA
1 ACATCAACGCATAAATTTTA
25626179 AGCAAGGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.43, C:0.21, G:0.02, T:0.33
Consensus pattern (21 bp):
ACATCAACGCATAAATTTTAC
Found at i:25626776 original size:30 final size:30
Alignment explanation
Indices: 25626716--25626804 Score: 91
Period size: 25 Copynumber: 3.1 Consensus size: 30
25626706 ATTTCTCATG
* * *
25626716 CCAATATCTCGATACCTATATCTTTTACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
25626747 CCAATATTTGATACCCATA-CATTTGAC-TT
1 CCAATATTTGATACCCATATC-TTTGACTTT
25626776 ----TATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
25626802 CCA
1 CCA
25626805 TAAATATGGA
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
25 21 0.43
26 3 0.06
29 3 0.06
30 15 0.31
31 7 0.14
ACGTcount: A:0.27, C:0.25, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:25637416 original size:21 final size:24
Alignment explanation
Indices: 25637374--25637416 Score: 65
Period size: 21 Copynumber: 1.9 Consensus size: 24
25637364 GGATAATATG
25637374 TTTTGATATAACAAATTAAAGTGT
1 TTTTGATATAACAAATTAAAGTGT
25637398 TTTTGA-ATAA-AAA-TAAAGT
1 TTTTGATATAACAAATTAAAGT
25637417 TGAGCAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 3 0.16
23 4 0.21
24 6 0.32
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.40
Consensus pattern (24 bp):
TTTTGATATAACAAATTAAAGTGT
Found at i:25637587 original size:20 final size:21
Alignment explanation
Indices: 25637562--25637612 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
25637552 TATCAATCCA
* *
25637562 GTATCGATACT-TTTCTTATG
1 GTATCGATACTATTTCCTAAG
25637582 GTATCGATA-TATTTCCTAAG
1 GTATCGATACTATTTCCTAAG
25637602 GTATCGATACT
1 GTATCGATACT
25637613 CCTGCTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 1 0.04
20 25 0.93
21 1 0.04
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.43
Consensus pattern (21 bp):
GTATCGATACTATTTCCTAAG
Found at i:25641725 original size:40 final size:40
Alignment explanation
Indices: 25641664--25641804 Score: 221
Period size: 40 Copynumber: 3.5 Consensus size: 40
25641654 TGTTATTCTC
* *
25641664 TCTGTCTGGTGTGTTTCGGTTGGATTAGCTTTTATGAGCT
1 TCTGTCTGGTGTGTTTCGGTTGGACTAGCTCTTATGAGCT
* *
25641704 TCTATCTGGTGTGTTTTGGTTGGACTAGCTCTTATGAGCT
1 TCTGTCTGGTGTGTTTCGGTTGGACTAGCTCTTATGAGCT
*
25641744 TCTGTCTGGTGTGTTTCAGTTGGACTAGCTCTTATGAGCT
1 TCTGTCTGGTGTGTTTCGGTTGGACTAGCTCTTATGAGCT
*
25641784 TATGTCTGGTGTG-TTCGGTTG
1 TCTGTCTGGTGTGTTTCGGTTG
25641805 ATCTGACGAT
Statistics
Matches: 92, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 7 0.08
40 85 0.92
ACGTcount: A:0.11, C:0.14, G:0.30, T:0.45
Consensus pattern (40 bp):
TCTGTCTGGTGTGTTTCGGTTGGACTAGCTCTTATGAGCT
Found at i:25643331 original size:20 final size:20
Alignment explanation
Indices: 25643306--25643353 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
25643296 TCGATCCGAA
*
25643306 ATCGATACT-TTTCTTAAGGT
1 ATCGATA-TATTTCCTAAGGT
25643326 ATCGATATATTTCCTAAGGT
1 ATCGATATATTTCCTAAGGT
25643346 ATCGATAT
1 ATCGATAT
25643354 TCTTGCAGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 1 0.04
20 25 0.96
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.42
Consensus pattern (20 bp):
ATCGATATATTTCCTAAGGT
Found at i:25645311 original size:7 final size:7
Alignment explanation
Indices: 25645299--25645324 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
25645289 CTTACAGTAC
25645299 ACACAAT
1 ACACAAT
25645306 ACACAAT
1 ACACAAT
25645313 ACACAAT
1 ACACAAT
25645320 ACACA
1 ACACA
25645325 TATATGTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.31, G:0.00, T:0.12
Consensus pattern (7 bp):
ACACAAT
Found at i:25648397 original size:15 final size:15
Alignment explanation
Indices: 25648377--25648407 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
25648367 GTGTCCACGA
25648377 TGGGAGAATTTGTGT
1 TGGGAGAATTTGTGT
25648392 TGGGAGAATTTGTGT
1 TGGGAGAATTTGTGT
25648407 T
1 T
25648408 TGTACTTATC
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:0.19, C:0.00, G:0.39, T:0.42
Consensus pattern (15 bp):
TGGGAGAATTTGTGT
Found at i:25650491 original size:16 final size:15
Alignment explanation
Indices: 25650472--25650523 Score: 54
Period size: 14 Copynumber: 3.4 Consensus size: 15
25650462 AGGTAAATGA
25650472 ATAATTCAATAAATTT
1 ATAATTC-ATAAATTT
*
25650488 ATAA-TCATAAATGT
1 ATAATTCATAAATTT
25650502 AT-ATTCATGATAATTT
1 ATAATTCAT-A-AATTT
25650518 ATAATT
1 ATAATT
25650524 TTATATTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
13 1 0.03
14 13 0.43
15 3 0.10
16 10 0.33
17 3 0.10
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (15 bp):
ATAATTCATAAATTT
Found at i:25651997 original size:15 final size:15
Alignment explanation
Indices: 25651977--25652008 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
25651967 ACCGCAATAA
25651977 TTCTTCTTTTTCTGC
1 TTCTTCTTTTTCTGC
25651992 TTCTTCTTTTTCTGC
1 TTCTTCTTTTTCTGC
25652007 TT
1 TT
25652009 AATGTTGCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.25, G:0.06, T:0.69
Consensus pattern (15 bp):
TTCTTCTTTTTCTGC
Found at i:25652608 original size:16 final size:16
Alignment explanation
Indices: 25652587--25652618 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25652577 CAATTTTGAA
*
25652587 ATTCAATCTATATTTT
1 ATTCAATATATATTTT
25652603 ATTCAATATATATTTT
1 ATTCAATATATATTTT
25652619 CCCAGTCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTCAATATATATTTT
Found at i:25654601 original size:18 final size:18
Alignment explanation
Indices: 25654578--25654624 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
25654568 ACGCAATAAA
*
25654578 ACACATATATCCATATAT
1 ACACATATATACATATAT
25654596 ACACATATATACATATAT
1 ACACATATATACATATAT
*
25654614 ATACATATATA
1 ACACATATATA
25654625 TACCTAAGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (18 bp):
ACACATATATACATATAT
Found at i:25654602 original size:10 final size:10
Alignment explanation
Indices: 25654578--25654627 Score: 68
Period size: 10 Copynumber: 5.2 Consensus size: 10
25654568 ACGCAATAAA
25654578 ACACATATAT
1 ACACATATAT
25654588 -C-CATATAT
1 ACACATATAT
25654596 ACACATATAT
1 ACACATATAT
*
25654606 ACATATATAT
1 ACACATATAT
*
25654616 ACATATATAT
1 ACACATATAT
25654626 AC
1 AC
25654628 CTAAGCCTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
8 7 0.19
9 2 0.05
10 28 0.76
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.34
Consensus pattern (10 bp):
ACACATATAT
Found at i:25656457 original size:27 final size:29
Alignment explanation
Indices: 25656419--25656475 Score: 91
Period size: 27 Copynumber: 2.0 Consensus size: 29
25656409 AATAAACAAA
*
25656419 AAAAAAGGAGAGAT-GA-GATGTTCTTAC
1 AAAAAAGAAGAGATGGATGATGTTCTTAC
25656446 AAAAAAGAAGAGATGGATGATGTTCTTAC
1 AAAAAAGAAGAGATGGATGATGTTCTTAC
25656475 A
1 A
25656476 TCAAAATTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 13 0.48
28 2 0.07
29 12 0.44
ACGTcount: A:0.46, C:0.07, G:0.25, T:0.23
Consensus pattern (29 bp):
AAAAAAGAAGAGATGGATGATGTTCTTAC
Found at i:25656560 original size:13 final size:13
Alignment explanation
Indices: 25656526--25656562 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
25656516 TGATTTGTTG
25656526 TTTTAT-TATGTTA
1 TTTTATGTAT-TTA
25656539 TTTTA-GTATTTA
1 TTTTATGTATTTA
25656551 TTTTATGTATTT
1 TTTTATGTATTT
25656563 TTAAGTAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 8 0.36
13 14 0.64
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.70
Consensus pattern (13 bp):
TTTTATGTATTTA
Found at i:25657021 original size:18 final size:19
Alignment explanation
Indices: 25657000--25657045 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
25656990 CTTTTTTTGT
*
25657000 TATTTTCTTGT-TTTTCAC
1 TATTTTCTTGTCATTTCAC
25657018 TATTTTGC-TGTCATTTCAC
1 TATTTT-CTTGTCATTTCAC
*
25657037 TATTATCTT
1 TATTTTCTT
25657046 CTACTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.15, C:0.17, G:0.07, T:0.61
Consensus pattern (19 bp):
TATTTTCTTGTCATTTCAC
Found at i:25657719 original size:17 final size:19
Alignment explanation
Indices: 25657697--25657736 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
25657687 CCGAAAATTG
25657697 GTATAT-CTCAT-TTTTTA
1 GTATATCCTCATATTTTTA
*
25657714 GTATATCCTCATATTTTTT
1 GTATATCCTCATATTTTTA
25657733 GTAT
1 GTAT
25657737 CCCCTCATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 6 0.30
18 5 0.25
19 9 0.45
ACGTcount: A:0.23, C:0.12, G:0.07, T:0.57
Consensus pattern (19 bp):
GTATATCCTCATATTTTTA
Found at i:25657730 original size:18 final size:17
Alignment explanation
Indices: 25657697--25657730 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
25657687 CCGAAAATTG
*
25657697 GTATATCTCATTTTTTA
1 GTATATCTCATATTTTA
25657714 GTATATCCTCATATTTT
1 GTATAT-CTCATATTTT
25657731 TTGTATCCCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.24, C:0.15, G:0.06, T:0.56
Consensus pattern (17 bp):
GTATATCTCATATTTTA
Found at i:25657742 original size:19 final size:20
Alignment explanation
Indices: 25657706--25657744 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
25657696 GGTATATCTC
*
25657706 ATTTTTTAGTATATCCTCAT
1 ATTTTTTAGTATACCCTCAT
*
25657726 ATTTTTT-GTATCCCCTCAT
1 ATTTTTTAGTATACCCTCAT
25657745 GTCTACTAGT
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:0.21, C:0.21, G:0.05, T:0.54
Consensus pattern (20 bp):
ATTTTTTAGTATACCCTCAT
Found at i:25659907 original size:40 final size:40
Alignment explanation
Indices: 25659849--25659967 Score: 114
Period size: 40 Copynumber: 3.0 Consensus size: 40
25659839 AGTGGCACTT
*
25659849 TTTAGAAAATGCCGCAATAGATCGAGCATTAGCGGCGCTAG
1 TTTAGAAACT-CCGCAATAGATCGAGCATTAGCGGCGCTAG
* * * *
25659890 TTTAGAAACTCCGCAATAGACCGAGCTTTAGTGGCG-AAG
1 TTTAGAAACTCCGCAATAGATCGAGCATTAGCGGCGCTAG
* * * * * *
25659929 TTTGAGAAACGCTGCTATAGATCAAGAAATAGCGGCGCT
1 TTT-AGAAACTCCGCAATAGATCGAGCATTAGCGGCGCT
25659968 TTATGTAAAA
Statistics
Matches: 61, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
39 5 0.08
40 47 0.77
41 9 0.15
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (40 bp):
TTTAGAAACTCCGCAATAGATCGAGCATTAGCGGCGCTAG
Found at i:25660512 original size:21 final size:20
Alignment explanation
Indices: 25660486--25660580 Score: 82
Period size: 21 Copynumber: 4.5 Consensus size: 20
25660476 AGTTTAGGGT
25660486 TTTAGGGTTTGATATTTATGG
1 TTTAGGGTTT-ATATTTATGG
* *
25660507 TTTAGGGTTTAGCATTTATGA
1 TTTAGGGTTTA-TATTTATGG
* **
25660528 TTTAAGGTTTATAGTGCATGG
1 TTTAGGGTTTATA-TTTATGG
* *
25660549 TTTAGGGTTTAAGATTTAAGG
1 TTTAGGGTTT-ATATTTATGG
25660570 TTTTAGGGTTT
1 -TTTAGGGTTT
25660581 TAGGGTTTAA
Statistics
Matches: 58, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
20 2 0.03
21 44 0.76
22 12 0.21
ACGTcount: A:0.22, C:0.02, G:0.27, T:0.48
Consensus pattern (20 bp):
TTTAGGGTTTATATTTATGG
Found at i:25660938 original size:14 final size:14
Alignment explanation
Indices: 25660919--25660946 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
25660909 GTATCAAATT
25660919 TTTAAATAATATTA
1 TTTAAATAATATTA
25660933 TTTAAATAATATTA
1 TTTAAATAATATTA
25660947 GTAATGTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTTAAATAATATTA
Found at i:25662015 original size:11 final size:10
Alignment explanation
Indices: 25661993--25662022 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
25661983 TTGGCTGTTT
25661993 AGATTGTGTA
1 AGATTGTGTA
25662003 AGATTGATGTA
1 AGATTG-TGTA
25662014 AGATTGTGT
1 AGATTGTGT
25662023 GCTTGGTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.40
Consensus pattern (10 bp):
AGATTGTGTA
Found at i:25662067 original size:36 final size:36
Alignment explanation
Indices: 25662020--25662106 Score: 165
Period size: 36 Copynumber: 2.4 Consensus size: 36
25662010 TGTAAGATTG
25662020 TGTGCTTGGTATATATTTAACAACACTGCTTTATTC
1 TGTGCTTGGTATATATTTAACAACACTGCTTTATTC
*
25662056 TGTGCTTGGTATATATTTGACAACACTGCTTTATTC
1 TGTGCTTGGTATATATTTAACAACACTGCTTTATTC
25662092 TGTGCTTGGTATATA
1 TGTGCTTGGTATATA
25662107 ATTGAAATTC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.23, C:0.15, G:0.17, T:0.45
Consensus pattern (36 bp):
TGTGCTTGGTATATATTTAACAACACTGCTTTATTC
Found at i:25664207 original size:46 final size:45
Alignment explanation
Indices: 25664140--25664356 Score: 218
Period size: 36 Copynumber: 5.2 Consensus size: 45
25664130 TTTGAGTACT
* *
25664140 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAACTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAACTACACTTA
25664186 TCTGATCAAGTGAAAAAGTGATAA---GT-G-----CTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAACTACACTTA
* * * *
25664222 TCTGATCAAGAGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAACTACACTTA
25664268 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-T-A-T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAACTACACTTA
* *
25664304 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAACTACACTTA
25664349 TCTGATCA
1 TCTGATCA
25664357 GGGACAAATG
Statistics
Matches: 142, Mismatches: 10, Indels: 39
0.74 0.05 0.20
Matches are distributed among these distances:
36 59 0.42
38 1 0.01
39 4 0.03
40 4 0.03
41 1 0.01
42 2 0.01
43 5 0.04
45 13 0.09
46 53 0.37
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (45 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAACTACACTTA
Found at i:25664277 original size:82 final size:81
Alignment explanation
Indices: 25664140--25664356 Score: 371
Period size: 82 Copynumber: 2.7 Consensus size: 81
25664130 TTTGAGTACT
* *
25664140 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAACTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAG-TTTAGCTACACTTATCTGATCAAGTGAAAAAGT
25664205 GATAAGTGCTACACTTA
65 GATAAGTGCTACACTTA
25664222 TCTGATCAAGAGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAG-TTTAGCTACACTTATCTGATCAAGTGAAAAAGT
*
25664287 GATAAGTGCTATACTTA
65 GATAAGTGCTACACTTA
* *
25664304 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCA
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGTTTAGCTACACTTATCTGATCA
25664357 GGGACAAATG
Statistics
Matches: 129, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
81 21 0.16
82 108 0.84
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (81 bp):
TCTGATCAAGAGACAAAGTGATAAGTGGTAGTTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
ATAAGTGCTACACTTA
Found at i:25665895 original size:20 final size:22
Alignment explanation
Indices: 25665856--25665899 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
25665846 TATATATTAT
25665856 TTTTTAAATATTAAAACCTATA
1 TTTTTAAATATTAAAACCTATA
*
25665878 TTTTT-AATA-TATAACCTATA
1 TTTTTAAATATTAAAACCTATA
25665898 TT
1 TT
25665900 AGAATGGGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.57
21 4 0.19
22 5 0.24
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (22 bp):
TTTTTAAATATTAAAACCTATA
Found at i:25666374 original size:20 final size:21
Alignment explanation
Indices: 25666332--25666378 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
25666322 TTATAAATAT
25666332 TATATTTTAAATATTAAAACC
1 TATATTTTAAATATTAAAACC
* *
25666353 TATATTTTTAATA-TATAACC
1 TATATTTTAAATATTAAAACC
25666373 TATATT
1 TATATT
25666379 AGTATGGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (21 bp):
TATATTTTAAATATTAAAACC
Found at i:25666378 original size:121 final size:120
Alignment explanation
Indices: 25665829--25666710 Score: 1360
Period size: 120 Copynumber: 7.3 Consensus size: 120
25665819 ATTCATATGC
*
25665829 AATTTTAAA-ATTAATTATATATATTATTTTTTAAATATTAAAACCTATATTTTTAATATATAAC
1 AATTTTAAACA-TAATTATATATATTATATTTTAAATATTAAAACCTATATTTTTAATATATAAC
* * * * *
25665893 CTATATTAGAATGGGTATATAACCTATATTTCAAATTCATGT-TTAGTAACTTTTTA
65 CTATATTAGTATGGATATGTAACCTATATTTCAAATTCAT-TACTAATAACTTTTTA
* * * *
25665949 AATTTTAAACATAATTATTTATTTTATATTTTAAATATTAAAACTTATATTTTTAATATGTAACC
1 AATTTTAAACATAATTATATATATTATATTTTAAATATTAAAACCTATATTTTTAATATATAACC
*
25666014 TATATTAGTATGGATATATAACCTATATTTCAAATTCATTACTAATAACTTTTTA
66 TATATTAGTATGGATATGTAACCTATATTTCAAATTCATTACTAATAACTTTTTA
* * * * * *
25666069 AATTTTAAAAATATTTAAAAATATTATATTTTAAATATTAAAACCTATATTGTTCATATATAACC
1 AATTTTAAACATAATTATATATATTATATTTTAAATATTAAAACCTATATTTTTAATATATAACC
* * *
25666134 --TATTAATATGGGTATATAACCTATATTTCAAATTCATTACTAATAAC-TTTTA
66 TATATTAGTATGGATATGTAACCTATATTTCAAATTCATTACTAATAACTTTTTA
* * *
25666186 AATTTTAAACATAATTATTTATTTTATATTTTTAAATATTAAAACCTATATTTTTAATATATCAC
1 AATTTTAAACATAATTATATATATTATA-TTTTAAATATTAAAACCTATATTTTTAATATATAAC
25666251 CTATATTAGTATGGATATGTAACCTATATTTCAAATTCATTACTAATAACTTTTTTA
65 CTATATTAGTATGGATATGTAACCTATATTTCAAATTCATTACTAATAAC-TTTTTA
* *
25666308 AATTTTATACATAATTATAAATATTATATTTTAAATATTAAAACCTATATTTTTAATATATAACC
1 AATTTTAAACATAATTATATATATTATATTTTAAATATTAAAACCTATATTTTTAATATATAACC
*
25666373 TATATTAGTATGGATATGTAACCTATATTTCAAATTTATTACTAATAACTTTTTA
66 TATATTAGTATGGATATGTAACCTATATTTCAAATTCATTACTAATAACTTTTTA
* * *
25666428 AATTTTAAACATAATTATTTATTTTATATTTTTAAATATTAAAACCTATATTTTTAATATATCAC
1 AATTTTAAACATAATTATATATATTATA-TTTTAAATATTAAAACCTATATTTTTAATATATAAC
25666493 CTATATTAGTATGGATATGTAACCTATATTTCAAATTCATTACTAATAACTTTTTTA
65 CTATATTAGTATGGATATGTAACCTATATTTCAAATTCATTACTAATAAC-TTTTTA
* *
25666550 AATTTTATACATAATTATAAATATTATATTTTAAATATTAAAACCTATATTTTTAATATATAACC
1 AATTTTAAACATAATTATATATATTATATTTTAAATATTAAAACCTATATTTTTAATATATAACC
*
25666615 TATATTAGTATGGATATGTAACCTATATTTCAAATTTATTACTAATAACTTTTTA
66 TATATTAGTATGGATATGTAACCTATATTTCAAATTCATTACTAATAACTTTTTA
* *
25666670 AATTTTAAACATAATTATTTATTTTATATTTTTAAATATTA
1 AATTTTAAACATAATTATATATATTATA-TTTTAAATATTA
25666711 TACATAATTA
Statistics
Matches: 697, Mismatches: 55, Indels: 19
0.90 0.07 0.02
Matches are distributed among these distances:
117 27 0.04
118 79 0.11
119 1 0.00
120 266 0.38
121 265 0.38
122 59 0.08
ACGTcount: A:0.41, C:0.09, G:0.03, T:0.48
Consensus pattern (120 bp):
AATTTTAAACATAATTATATATATTATATTTTAAATATTAAAACCTATATTTTTAATATATAACC
TATATTAGTATGGATATGTAACCTATATTTCAAATTCATTACTAATAACTTTTTA
Found at i:25666483 original size:242 final size:242
Alignment explanation
Indices: 25665840--25666710 Score: 1493
Period size: 242 Copynumber: 3.6 Consensus size: 242
25665830 ATTTTAAAAT
* * *
25665840 TAATTATATATATTATTTTTTAAATATTAAAACCTATATTTTTAATATATAACCTATATTAGAAT
1 TAATTATAAATATTATATTTTAAATATTAAAACCTATATTTTTAATATATAACCTATATTAGTAT
* * *
25665905 GGGTATATAACCTATATTTCAAATTCATGT-TTAGTAACTTTTTAAATTTTAAACATAATTATTT
66 GGATATATAACCTATATTTCAAATTCAT-TACTAATAACTTTTTAAATTTTAAACATAATTATTT
* * * *
25665969 ATTTTATA-TTTTAAATATTAAAACTTATATTTTTAATATGTAACCTATATTAGTATGGATATAT
130 ATTTTATATTTTTAAATATTAAAACCTATATTTTTAATATATCACCTATATTAGTATGGATATGT
* *
25666033 AACCTATATTTCAAATTCATTACTAATAAC-TTTTTAAATTTTAAAAA
195 AACCTATATTTCAAATTCATTACTAATAACTTTTTTAAATTTTATACA
* * * * *
25666080 TATTTAAAAATATTATATTTTAAATATTAAAACCTATATTGTTCATATATAACC--TATTAATAT
1 TAATTATAAATATTATATTTTAAATATTAAAACCTATATTTTTAATATATAACCTATATTAGTAT
*
25666143 GGGTATATAACCTATATTTCAAATTCATTACTAATAAC-TTTTAAATTTTAAACATAATTATTTA
66 GGATATATAACCTATATTTCAAATTCATTACTAATAACTTTTTAAATTTTAAACATAATTATTTA
25666207 TTTTATATTTTTAAATATTAAAACCTATATTTTTAATATATCACCTATATTAGTATGGATATGTA
131 TTTTATATTTTTAAATATTAAAACCTATATTTTTAATATATCACCTATATTAGTATGGATATGTA
25666272 ACCTATATTTCAAATTCATTACTAATAACTTTTTTAAATTTTATACA
196 ACCTATATTTCAAATTCATTACTAATAACTTTTTTAAATTTTATACA
25666319 TAATTATAAATATTATATTTTAAATATTAAAACCTATATTTTTAATATATAACCTATATTAGTAT
1 TAATTATAAATATTATATTTTAAATATTAAAACCTATATTTTTAATATATAACCTATATTAGTAT
* *
25666384 GGATATGTAACCTATATTTCAAATTTATTACTAATAACTTTTTAAATTTTAAACATAATTATTTA
66 GGATATATAACCTATATTTCAAATTCATTACTAATAACTTTTTAAATTTTAAACATAATTATTTA
25666449 TTTTATATTTTTAAATATTAAAACCTATATTTTTAATATATCACCTATATTAGTATGGATATGTA
131 TTTTATATTTTTAAATATTAAAACCTATATTTTTAATATATCACCTATATTAGTATGGATATGTA
25666514 ACCTATATTTCAAATTCATTACTAATAACTTTTTTAAATTTTATACA
196 ACCTATATTTCAAATTCATTACTAATAACTTTTTTAAATTTTATACA
25666561 TAATTATAAATATTATATTTTAAATATTAAAACCTATATTTTTAATATATAACCTATATTAGTAT
1 TAATTATAAATATTATATTTTAAATATTAAAACCTATATTTTTAATATATAACCTATATTAGTAT
* *
25666626 GGATATGTAACCTATATTTCAAATTTATTACTAATAACTTTTTAAATTTTAAACATAATTATTTA
66 GGATATATAACCTATATTTCAAATTCATTACTAATAACTTTTTAAATTTTAAACATAATTATTTA
25666691 TTTTATATTTTTAAATATTA
131 TTTTATATTTTTAAATATTA
25666711 TACATAATTA
Statistics
Matches: 601, Mismatches: 24, Indels: 10
0.95 0.04 0.02
Matches are distributed among these distances:
237 34 0.06
238 123 0.20
239 65 0.11
240 48 0.08
241 43 0.07
242 288 0.48
ACGTcount: A:0.40, C:0.09, G:0.03, T:0.48
Consensus pattern (242 bp):
TAATTATAAATATTATATTTTAAATATTAAAACCTATATTTTTAATATATAACCTATATTAGTAT
GGATATATAACCTATATTTCAAATTCATTACTAATAACTTTTTAAATTTTAAACATAATTATTTA
TTTTATATTTTTAAATATTAAAACCTATATTTTTAATATATCACCTATATTAGTATGGATATGTA
ACCTATATTTCAAATTCATTACTAATAACTTTTTTAAATTTTATACA
Found at i:25666616 original size:20 final size:21
Alignment explanation
Indices: 25666574--25666620 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
25666564 TTATAAATAT
25666574 TATATTTTAAATATTAAAACC
1 TATATTTTAAATATTAAAACC
* *
25666595 TATATTTTTAATA-TATAACC
1 TATATTTTAAATATTAAAACC
25666615 TATATT
1 TATATT
25666621 AGTATGGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (21 bp):
TATATTTTAAATATTAAAACC
Found at i:25666688 original size:34 final size:33
Alignment explanation
Indices: 25666650--25666722 Score: 76
Period size: 34 Copynumber: 2.2 Consensus size: 33
25666640 TATTTCAAAT
*
25666650 TTATTACTAATA-ACTTTTTAAATTTTAAACATAA
1 TTATTA-TAATATA-TTTTTAAATATTAAACATAA
** *
25666684 TTATTTATTTTATATTTTTAAATATTATACATAA
1 TTA-TTATAATATATTTTTAAATATTAAACATAA
25666718 TTATT
1 TTATT
25666723 TATTTTTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
33 2 0.06
34 27 0.82
35 4 0.12
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (33 bp):
TTATTATAATATATTTTTAAATATTAAACATAA
Found at i:25666723 original size:34 final size:34
Alignment explanation
Indices: 25666664--25666728 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
25666654 TACTAATAAC
*
25666664 TTTTTAAATTTTAAACATAATTATTTATTTTATA
1 TTTTTAAATATTAAACATAATTATTTATTTTATA
*
25666698 TTTTTAAATATTATACATAATTATTTATTTT
1 TTTTTAAATATTAAACATAATTATTTATTTT
25666729 TAAATATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (34 bp):
TTTTTAAATATTAAACATAATTATTTATTTTATA
Found at i:25666724 original size:21 final size:22
Alignment explanation
Indices: 25666699--25666769 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 22
25666689 TATTTTATAT
25666699 TTTTAAATATTATACATAATTATTTA
1 TTTTAAATATTATACAT-A--A-TTA
*
25666725 TTTTTAAATATTATACATAA-AA
1 -TTTTAAATATTATACATAATTA
*
25666747 TTTTAAATTTTATACATAATTA
1 TTTTAAATATTATACATAATTA
25666769 T
1 T
25666770 AAATGTTATA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
21 18 0.45
22 3 0.08
24 1 0.03
26 1 0.03
27 17 0.43
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTTAAATATTATACATAATTA
Found at i:25666751 original size:27 final size:27
Alignment explanation
Indices: 25666696--25666749 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
25666686 ATTTATTTTA
*
25666696 TATTTTTAAATATTATACATAATTATT
1 TATTTTTAAATATTATACATAAATATT
25666723 TATTTTTAAATATTATACATAAA-ATT
1 TATTTTTAAATATTATACATAAATATT
25666749 T
1 T
25666750 TAAATTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 4 0.15
27 22 0.85
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.54
Consensus pattern (27 bp):
TATTTTTAAATATTATACATAAATATT
Found at i:25666772 original size:19 final size:20
Alignment explanation
Indices: 25666729--25666779 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
25666719 TATTTATTTT
*
25666729 TAAATATTATACATAAAATTT
1 TAAATATTATACAT-AAATTA
*
25666750 TAAATTTTATACAT-AATTA
1 TAAATATTATACATAAATTA
*
25666769 TAAATGTTATA
1 TAAATATTATA
25666780 TTTTTAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 14 0.52
21 13 0.48
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (20 bp):
TAAATATTATACATAAATTA
Found at i:25666994 original size:52 final size:52
Alignment explanation
Indices: 25666927--25667207 Score: 338
Period size: 52 Copynumber: 5.2 Consensus size: 52
25666917 ACATAACTCA
*
25666927 CATAACTTACATAACTTACATAACTTACATAATACATAAATATTTATCATAT
1 CATAACTTACATAACTCACATAACTTACATAATACATAAATATTTATCATAT
* * *
25666979 CACAACTTACATAACTCACATAACTTACATAATACATAAATATATATCATTT
1 CATAACTTACATAACTCACATAACTTACATAATACATAAATATTTATCATAT
*
25667031 CATAACTTACATAACTCACGTAACTTACATAACTTACAAAATACATAAATATATATATCATAT
1 CATAACTTACAT-A---AC-T--C--ACATAACTTACATAATACATAAATAT-T-TATCATAT
* *
25667094 CATAACTTACATAACTCACATAACTTA-AT-A-AC-T-TATATATATCATAT
1 CATAACTTACATAACTCACATAACTTACATAATACATAAATATTTATCATAT
*
25667141 CATAACTTACATAACTCACATAACTTACATAACTTACATAAATATATATCATAT
1 CATAACTTACATAACTCACATAACTTACATAA--TACATAAATATTTATCATAT
25667195 CATAACTTACATA
1 CATAACTTACATA
25667208 GCTTATTTAT
Statistics
Matches: 199, Mismatches: 12, Indels: 34
0.81 0.05 0.14
Matches are distributed among these distances:
47 35 0.18
48 2 0.01
49 5 0.03
50 1 0.01
51 2 0.01
52 62 0.31
53 3 0.02
54 36 0.18
56 3 0.02
57 1 0.01
58 1 0.01
59 3 0.02
61 25 0.13
62 1 0.01
63 19 0.10
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (52 bp):
CATAACTTACATAACTCACATAACTTACATAATACATAAATATTTATCATAT
Found at i:25666997 original size:70 final size:64
Alignment explanation
Indices: 25666852--25667126 Score: 217
Period size: 70 Copynumber: 4.4 Consensus size: 64
25666842 ACTAATTTCC
* * * *
25666852 ACATAACAT-ACATAACTCACATAACATATATAACTTAATAACTTATATATATCATAACTCAACT
1 ACATAAC-TCACATAACTTACATAAC-TACATAACTTAATAACTAATATATATCATAACACAACT
25666916 T
64 T
* *
25666917 ACATAACTCACATAACTTACATAACTTACATAACTTACATAATACATAAATATTTATCATATCAC
1 ACATAACTCACATAACTTACATAAC-TACATAACTTA-AT-A-AC-T-AATATATATCATAACAC
25666982 AACTT
60 AACTT
*
25666987 ACATAACTCACATAACTTACATAA-TACAT-A---AAT-A-T-ATATCAT-T--T--CATAACTT
1 ACATAACTCACATAACTTACATAACTACATAACTTAATAACTAATAT-ATATCATAACACAACTT
* * * * *
25667039 ACATAACTCACGTAACTTACATAACTTACA-AA-ATACATAAAT-ATATATATCATATCATAACT
1 ACATAACTCACATAACTTACATAAC-TACATAACTTA-ATAACTAATATATATCATAACACAACT
25667101 T
64 T
25667102 ACATAACTCACATAACTTA-ATAACT
1 ACATAACTCACATAACTTACATAACT
25667127 TATATATATC
Statistics
Matches: 179, Mismatches: 11, Indels: 44
0.76 0.05 0.19
Matches are distributed among these distances:
52 30 0.17
54 6 0.03
56 6 0.03
57 3 0.02
58 4 0.02
59 6 0.03
60 1 0.01
61 2 0.01
62 5 0.03
63 28 0.16
64 2 0.01
65 32 0.18
66 2 0.01
67 2 0.01
68 7 0.04
69 1 0.01
70 42 0.23
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.32
Consensus pattern (64 bp):
ACATAACTCACATAACTTACATAACTACATAACTTAATAACTAATATATATCATAACACAACTT
Found at i:25667147 original size:47 final size:48
Alignment explanation
Indices: 25667051--25667207 Score: 205
Period size: 47 Copynumber: 3.2 Consensus size: 48
25667041 ATAACTCACG
* * *
25667051 TAACTTACATAACTTACA-AA-ATACATAA-ATATATATATCATATCA
1 TAACTTACATAACTCACATAACTTACATAACTTATATATATCATATCA
25667096 TAACTTACATAACTCACATAACTTA-ATAACTTATATATATCATATCA
1 TAACTTACATAACTCACATAACTTACATAACTTATATATATCATATCA
25667143 TAACTTACATAACTCACATAACTTACATAACTTACATAAATATATATCATATCA
1 TAACTTACATAACTCACATAACTTACATAAC-T---T--ATATATATCATATCA
25667197 TAACTTACATA
1 TAACTTACATA
25667208 GCTTATTTAT
Statistics
Matches: 99, Mismatches: 3, Indels: 11
0.88 0.03 0.10
Matches are distributed among these distances:
45 17 0.17
46 6 0.06
47 43 0.43
48 5 0.05
49 1 0.01
52 1 0.01
54 26 0.26
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.34
Consensus pattern (48 bp):
TAACTTACATAACTCACATAACTTACATAACTTATATATATCATATCA
Found at i:25667212 original size:9 final size:9
Alignment explanation
Indices: 25666852--25667212 Score: 224
Period size: 9 Copynumber: 40.1 Consensus size: 9
25666842 ACTAATTTCC
*
25666852 ACATAACAT
1 ACATAACTT
*
25666861 ACATAACTC
1 ACATAACTT
*
25666870 ACATAACAT
1 ACATAACTT
*
25666879 ATATAACTT
1 ACATAACTT
25666888 A-ATAACTT
1 ACATAACTT
* *
25666896 ATATATATCAT
1 ACATA-A-CTT
25666907 A-ACTCAACTT
1 ACA-T-AACTT
*
25666917 ACATAACTC
1 ACATAACTT
25666926 ACATAACTT
1 ACATAACTT
25666935 ACATAACTT
1 ACATAACTT
25666944 ACATAACTT
1 ACATAACTT
25666953 ACATAA--T
1 ACATAACTT
*
25666960 ACATAA-AT
1 ACATAACTT
** * *
25666968 ATTTATCAT
1 ACATAACTT
*
25666977 ATCACAACTT
1 A-CATAACTT
*
25666987 ACATAACTC
1 ACATAACTT
25666996 ACATAACTT
1 ACATAACTT
25667005 ACATAA--T
1 ACATAACTT
*
25667012 ACATAA-AT
1 ACATAACTT
* *
25667020 ATATATCATT
1 ACATAAC-TT
*
25667030 TCATAACTT
1 ACATAACTT
*
25667039 ACATAACTC
1 ACATAACTT
*
25667048 ACGTAACTT
1 ACATAACTT
25667057 ACATAACTT
1 ACATAACTT
*
25667066 ACA-AA-AT
1 ACATAACTT
*
25667073 ACATAAATAT
1 ACATAACT-T
* * *
25667083 ATATATCAT
1 ACATAACTT
25667092 ATCATAACTT
1 A-CATAACTT
*
25667102 ACATAACTC
1 ACATAACTT
25667111 ACATAACTT
1 ACATAACTT
25667120 A-ATAACTT
1 ACATAACTT
* *
25667128 ATATATATCAT
1 ACATA-A-CTT
25667139 ATCATAACTT
1 A-CATAACTT
*
25667149 ACATAACTC
1 ACATAACTT
25667158 ACATAACTT
1 ACATAACTT
25667167 ACATAACTT
1 ACATAACTT
*
25667176 ACATAA-AT
1 ACATAACTT
* * *
25667184 ATATATCAT
1 ACATAACTT
25667193 ATCATAACTT
1 A-CATAACTT
*
25667203 ACATAGCTT
1 ACATAACTT
25667212 A
1 A
25667213 TTTATACTTA
Statistics
Matches: 275, Mismatches: 55, Indels: 44
0.74 0.15 0.12
Matches are distributed among these distances:
7 18 0.07
8 34 0.12
9 173 0.63
10 36 0.13
11 10 0.04
12 4 0.01
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.33
Consensus pattern (9 bp):
ACATAACTT
Found at i:25672663 original size:21 final size:21
Alignment explanation
Indices: 25672635--25672691 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
25672625 CTACACCTTA
*
25672635 AAGCAGAGGCAGCAGCGAGGG
1 AAGCAGAGGCAGCAGCAAGGG
* *
25672656 AAGTAGAGGTAGCAGCAAGGG
1 AAGCAGAGGCAGCAGCAAGGG
25672677 AAGCAGA-GCAG-AGCA
1 AAGCAGAGGCAGCAGCA
25672692 GAGAAAAAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 4 0.13
20 3 0.10
21 24 0.77
ACGTcount: A:0.39, C:0.16, G:0.42, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCAAGGG
Found at i:25673095 original size:43 final size:43
Alignment explanation
Indices: 25673015--25673128 Score: 149
Period size: 43 Copynumber: 2.6 Consensus size: 43
25673005 GAACGGTAAT
*
25673015 TTTAGCGGCATTTGT-GATAAAAAGCGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCATTT-TCTAT-AAAAGCGCCGCTAAAGGTCATGTTC
* *
25673059 TTTAGCGGCATTTTCTATAAAAGCGCTGCTATAGGTCATGTTC
1 TTTAGCGGCATTTTCTATAAAAGCGCCGCTAAAGGTCATGTTC
* * *
25673102 TTTAGTGACATTTGCTATAAAAGCGCC
1 TTTAGCGGCATTTTCTATAAAAGCGCC
25673129 TTTAGCGGCG
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
43 47 0.76
44 15 0.24
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.33
Consensus pattern (43 bp):
TTTAGCGGCATTTTCTATAAAAGCGCCGCTAAAGGTCATGTTC
Found at i:25673171 original size:70 final size:70
Alignment explanation
Indices: 25673058--25673197 Score: 208
Period size: 70 Copynumber: 2.0 Consensus size: 70
25673048 AGGTCATGTT
* * *
25673058 CTTTAGCGGCATTTTCTATAAAAGCGCTGCTATAGGTCATGTTCTTTAGTGACATTTGCTATAAA
1 CTTTAGCGGCATTTGCTATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGTGACATTTGCTATAAA
25673123 AGCGC
66 AGCGC
* * * * *
25673128 CTTTAGCGGCGTTTGCTATAAAAGCGCCGCTAAATGTCATGTTCTTTAGTGGCGTTTGTTATAAA
1 CTTTAGCGGCATTTGCTATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGTGACATTTGCTATAAA
25673193 AGCGC
66 AGCGC
25673198 TGCTAAAGAA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
70 62 1.00
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (70 bp):
CTTTAGCGGCATTTGCTATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGTGACATTTGCTATAAA
AGCGC
Found at i:25673191 original size:43 final size:43
Alignment explanation
Indices: 25673128--25673312 Score: 160
Period size: 43 Copynumber: 4.3 Consensus size: 43
25673118 ATAAAAGCGC
*
25673128 CTTTAGCGGCGTTTGCTATAAAAGCGCCGCTAAATGTCATGTT
1 CTTTAGCGGCGTTTGTTATAAAAGCGCCGCTAAATGTCATGTT
* * * **
25673171 CTTTAGTGGCGTTTGTTATAAAAGCGCTGCTAAA-GAACATGGC
1 CTTTAGCGGCGTTTGTTATAAAAGCGCCGCTAAATG-TCATGTT
* * * * * * * *
25673214 CCTTAGCGACGCTTCTTTTTAAA-CGCCGCAAAAAT-TCATGAT
1 CTTTAGCGGCGTTTGTTATAAAAGCGCCGC-TAAATGTCATGTT
* * * *
25673256 CTTTATCAGCGTTTGATATAAAAGCGCCGCTAAAGGTCATGTT
1 CTTTAGCGGCGTTTGTTATAAAAGCGCCGCTAAATGTCATGTT
*
25673299 GTTTAGCGGCGTTT
1 CTTTAGCGGCGTTT
25673313 ATGTGAAAAA
Statistics
Matches: 104, Mismatches: 33, Indels: 10
0.71 0.22 0.07
Matches are distributed among these distances:
42 27 0.26
43 77 0.74
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.32
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTTATAAAAGCGCCGCTAAATGTCATGTT
Found at i:25677330 original size:42 final size:42
Alignment explanation
Indices: 25677271--25677359 Score: 160
Period size: 42 Copynumber: 2.1 Consensus size: 42
25677261 TCATTCCTGG
25677271 CTTGGCTTTCCTTTTTGTCTTGACTCTATCCCTTCCAGCTGT
1 CTTGGCTTTCCTTTTTGTCTTGACTCTATCCCTTCCAGCTGT
* *
25677313 CTTGGCTTTCCTTTTTGTCTTGATTCTATGCCTTCCAGCTGT
1 CTTGGCTTTCCTTTTTGTCTTGACTCTATCCCTTCCAGCTGT
25677355 CTTGG
1 CTTGG
25677360 TGAAGACTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.07, C:0.28, G:0.17, T:0.48
Consensus pattern (42 bp):
CTTGGCTTTCCTTTTTGTCTTGACTCTATCCCTTCCAGCTGT
Found at i:25677924 original size:26 final size:26
Alignment explanation
Indices: 25677895--25678052 Score: 192
Period size: 26 Copynumber: 6.1 Consensus size: 26
25677885 GTAGTGGACT
*
25677895 TAAATTATCGAAATACCCTCGAAGAG
1 TAAATTATCGAAATACCCTCGAAGGG
* *
25677921 TAAATTATTGAAATACCCTCGATGGG
1 TAAATTATCGAAATACCCTCGAAGGG
25677947 TAAATTATCGAAATACCCTC-AATGGG
1 TAAATTATCGAAATACCCTCGAA-GGG
* * * *
25677973 TAAATTATCAAAATAACCTTGATGGG
1 TAAATTATCGAAATACCCTCGAAGGG
* * *
25677999 TAAATTATCAAAATACCCTGGATGGG
1 TAAATTATCGAAATACCCTCGAAGGG
* *
25678025 TAAATTACCGAAATACCCCCGAAGGG
1 TAAATTATCGAAATACCCTCGAAGGG
25678051 TA
1 TA
25678053 GAATGACCGT
Statistics
Matches: 114, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
25 1 0.01
26 112 0.98
27 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (26 bp):
TAAATTATCGAAATACCCTCGAAGGG
Found at i:25678024 original size:78 final size:78
Alignment explanation
Indices: 25677895--25678042 Score: 215
Period size: 78 Copynumber: 1.9 Consensus size: 78
25677885 GTAGTGGACT
* * ** *
25677895 TAAATTATCGAAATACCCTCGAAGAGTAAATTATTGAAATACCCTCGATGGGTAAATTATCGAAA
1 TAAATTATCAAAATAACCTCGAAGAGTAAATTATCAAAATACCCTCGATGGGTAAATTACCGAAA
25677960 TACCCTCAATGGG
66 TACCCTCAATGGG
* * * *
25677973 TAAATTATCAAAATAACCTTGATGGGTAAATTATCAAAATACCCTGGATGGGTAAATTACCGAAA
1 TAAATTATCAAAATAACCTCGAAGAGTAAATTATCAAAATACCCTCGATGGGTAAATTACCGAAA
25678038 TACCC
66 TACCC
25678043 CCGAAGGGTA
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
78 61 1.00
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.27
Consensus pattern (78 bp):
TAAATTATCAAAATAACCTCGAAGAGTAAATTATCAAAATACCCTCGATGGGTAAATTACCGAAA
TACCCTCAATGGG
Found at i:25678310 original size:26 final size:26
Alignment explanation
Indices: 25678281--25678330 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
25678271 ACATATACTG
* *
25678281 TACTGGCAGCTCTGTTGCAATATTTT
1 TACTGGCAGCTATGCTGCAATATTTT
25678307 TACTGGCAGCTATGCTGCAATATT
1 TACTGGCAGCTATGCTGCAATATT
25678331 GGTGTGTGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (26 bp):
TACTGGCAGCTATGCTGCAATATTTT
Found at i:25678841 original size:18 final size:18
Alignment explanation
Indices: 25678818--25678862 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
25678808 AAACAAATAA
25678818 GTTTTCATA-ACAAACACT
1 GTTTTCA-AGACAAACACT
25678836 GTTTTCAAGACAAACACAT
1 GTTTTCAAGACAAACAC-T
*
25678855 ATTTTCAA
1 GTTTTCAA
25678863 CTTCAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 1 0.04
18 15 0.62
19 8 0.33
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (18 bp):
GTTTTCAAGACAAACACT
Found at i:25688540 original size:12 final size:13
Alignment explanation
Indices: 25688513--25688554 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 13
25688503 GGTTTTCTCA
25688513 AAATGGAAAT-AG
1 AAATGGAAATGAG
25688525 AAATGGAAATGA-
1 AAATGGAAATGAG
25688537 AAAT-GAGAATGAG
1 AAATGGA-AATGAG
25688550 AAATG
1 AAATG
25688555 TTTCTTTTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 2 0.08
12 19 0.73
13 5 0.19
ACGTcount: A:0.57, C:0.00, G:0.26, T:0.17
Consensus pattern (13 bp):
AAATGGAAATGAG
Found at i:25688540 original size:18 final size:19
Alignment explanation
Indices: 25688513--25688554 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
25688503 GGTTTTCTCA
*
25688513 AAATGGAAAT-AGAAATG-G
1 AAATGAAAATGAG-AATGAG
25688531 AAATGAAAATGAGAATGAG
1 AAATGAAAATGAGAATGAG
25688550 AAATG
1 AAATG
25688555 TTTCTTTTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.57, C:0.00, G:0.26, T:0.17
Consensus pattern (19 bp):
AAATGAAAATGAGAATGAG
Found at i:25690181 original size:9 final size:9
Alignment explanation
Indices: 25690164--25690200 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
25690154 TGAGTTTTCA
25690164 AATTCGAAT
1 AATTCGAAT
*
25690173 AACTCGAAT
1 AATTCGAAT
25690182 AATTCGAAT
1 AATTCGAAT
25690191 AATTCGAAT
1 AATTCGAAT
25690200 A
1 A
25690201 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:25698237 original size:26 final size:26
Alignment explanation
Indices: 25698203--25698274 Score: 90
Period size: 26 Copynumber: 2.7 Consensus size: 26
25698193 AACCATAGCA
* *
25698203 CAAATTAGTCATTTACCCTCGAGGGG
1 CAAAATAGTCATTTACCCTCCAGGGG
25698229 CAAAATAGTCATTTACCCTCCAGGGG
1 CAAAATAGTCATTTACCCTCCAGGGG
** *
25698255 CATTATGGTCATTTTACCCT
1 CAAAATAGTCA-TTTACCCT
25698275 ATAAGGGTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
26 32 0.80
27 8 0.20
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (26 bp):
CAAAATAGTCATTTACCCTCCAGGGG
Found at i:25698430 original size:27 final size:27
Alignment explanation
Indices: 25698341--25698430 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 27
25698331 AGGGGCACTA
*
25698341 CGATCATATTACCC-TACGAGGGTATTT
1 CGATCATTTTACCCAT-CGAGGGTATTT
* *
25698368 CAATCATTTTACTCATCGAGGGTATTT
1 CGATCATTTTACCCATCGAGGGTATTT
* * *
25698395 TGGTTATTTTACCCATCGAGGGTATTT
1 CGATCATTTTACCCATCGAGGGTATTT
25698422 CGATCATTT
1 CGATCATTT
25698431 AACAAATATT
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
27 50 0.98
28 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (27 bp):
CGATCATTTTACCCATCGAGGGTATTT
Found at i:25701927 original size:54 final size:53
Alignment explanation
Indices: 25701802--25701974 Score: 204
Period size: 54 Copynumber: 3.2 Consensus size: 53
25701792 CTGTAAAATA
* *
25701802 GGTAAAATGACCAAAATACCCTCATAGGGTAAAATAGCTGAAATACCCCCATAA
1 GGTAAAATGACCAAAATACCCTCATAGGGTAAAATA-CTGAAATACCCCTATAG
* * * * * *
25701856 GATAGAATGATCGAAATACCC-CTATAGGGTAAAATGACTGAAATAACCCTACAG
1 GGTAAAATGACCAAAATACCCTC-ATAGGGTAAAAT-ACTGAAATACCCCTATAG
* * *
25701910 GGTAAAAGGACCAAAATACCCTCATAGGGTATAATAACTAAAATACCCCTATAG
1 GGTAAAATGACCAAAATACCCTCATAGGGTAAAAT-ACTGAAATACCCCTATAG
25701964 GGTAAAATGAC
1 GGTAAAATGAC
25701975 TGTTATACCC
Statistics
Matches: 97, Mismatches: 19, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
53 1 0.01
54 94 0.97
55 2 0.02
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.20
Consensus pattern (53 bp):
GGTAAAATGACCAAAATACCCTCATAGGGTAAAATACTGAAATACCCCTATAG
Found at i:25701987 original size:27 final size:27
Alignment explanation
Indices: 25701802--25701975 Score: 158
Period size: 27 Copynumber: 6.4 Consensus size: 27
25701792 CTGTAAAATA
*
25701802 GGTAAAATGACCAAAATA-CCCTCATAG
1 GGTAAAATGACTAAAATACCCCT-ATAG
* * *
25701829 GGTAAAAT-AGCTGAAATACCCCCATAA
1 GGTAAAATGA-CTAAAATACCCCTATAG
* * *
25701856 GATAGAATGA-TCGAAATACCCCTATAG
1 GGTAAAATGACT-AAAATACCCCTATAG
* * *
25701883 GGTAAAATGACTGAAATAACCCTACAG
1 GGTAAAATGACTAAAATACCCCTATAG
* *
25701910 GGTAAAAGGACCAAAATA-CCCTCATAG
1 GGTAAAATGACTAAAATACCCCT-ATAG
* *
25701937 GGTATAATAACTAAAATACCCCTATAG
1 GGTAAAATGACTAAAATACCCCTATAG
25701964 GGTAAAATGACT
1 GGTAAAATGACT
25701976 GTTATACCCC
Statistics
Matches: 118, Mismatches: 22, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
26 6 0.05
27 103 0.87
28 9 0.08
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACTAAAATACCCCTATAG
Done.