Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167993.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_25, whole genome shotgun sequence
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: 17943224
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 94000 characters in sequence are not A, C, G, or T
File 81 of 100
Found at i:14457864 original size:26 final size:26
Alignment explanation
Indices: 14457835--14457898 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 26
14457825 CCAAACACCG
14457835 ATGGGCCTAATCGAACTTAGACGTCA
1 ATGGGCCTAATCGAACTTAGACGTCA
** * *
14457861 ATGGGCCTAATCGGGCTTGGATGTCA
1 ATGGGCCTAATCGAACTTAGACGTCA
*
14457887 ATAGGCCTAATC
1 ATGGGCCTAATC
14457899 AGGCTTGGAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (26 bp):
ATGGGCCTAATCGAACTTAGACGTCA
Found at i:14457903 original size:26 final size:26
Alignment explanation
Indices: 14457857--14457907 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
14457847 GAACTTAGAC
* *
14457857 GTCAATGGGCCTAATCGGGCTTGGAT
1 GTCAATAGGCCTAATCAGGCTTGGAT
14457883 GTCAATAGGCCTAATCAGGCTTGGA
1 GTCAATAGGCCTAATCAGGCTTGGA
14457908 GACATTGACG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (26 bp):
GTCAATAGGCCTAATCAGGCTTGGAT
Found at i:14458355 original size:89 final size:89
Alignment explanation
Indices: 14458258--14458787 Score: 396
Period size: 89 Copynumber: 6.0 Consensus size: 89
14458248 AAGTGATCGG
** * *
14458258 GATGAAACCATAAGTCAAAATAAAGTGACCAAGATCGAATCGAGATCAAAA-TCAAATTATCGAG
1 GATGAAACCACGAGTCAAAATAAAGTGACCAAGATCGAATCGAGGTCAAAAGT-AAATGATCGAG
*
14458322 ATGAAACCATGAATCGTAAGACCGA
65 ATGAAACCATGAATCATAAGACCGA
* * * * *
14458347 GATGAAACCACAAGTTAAAATAAAGCGACCAAAATC-AAGTCGAGGTCAAAAGTAAATGAAC-AG
1 GATGAAACCACGAGTCAAAATAAAGTGACCAAGATCGAA-TCGAGGTCAAAAGTAAATGATCGA-
**
14458410 GATGAAACCACAAATCATAAGACCCG-
64 GATGAAACCATGAATCATAAGA-CCGA
** * * * * * * * * *
14458436 GACAAAATCATGAGTCAAAACAAAGTGACCAAGAAT-GAGTCAAGTTCGAAAGTAAATGATTGGG
1 GATGAAACCACGAGTCAAAATAAAGTGACCAAG-ATCGAATCGAGGTCAAAAGTAAATGATCGAG
** * ** *
14458500 ACAAAATCATGAATCATGTGACCGG
65 ATGAAACCATGAATCATAAGACCGA
* * * * * * *
14458525 GATGATACCACGAGTAAAAAAAAAGTGACTAAAAT-TAAGTCGAGATCAAAAGTAAATGATC-AG
1 GATGAAACCACGAGTCAAAATAAAGTGACCAAGATCGAA-TCGAGGTCAAAAGTAAATGATCGA-
* *
14458588 GATGAAACCATGAATCATAAGATCGG
64 GATGAAACCATGAATCATAAGACCGA
* * ** * * * *
14458614 GA-CAAAGTCACGAGTCAAAATAAAGCAACCAAGATCGACTTGAGGTCGAAAGTAAATGATCGGG
1 GATGAAA-CCACGAGTCAAAATAAAGTGACCAAGATCGAATCGAGGTCAAAAGTAAATGATCGAG
**
14458678 ATGAAACCATGAATCATGTGACC-A
65 ATGAAACCATGAATCATAAGACCGA
* * * * * *
14458702 GGACGAAATCATGAGTTAAAATAAAGTGACCAAGA-CTGAGTCGAGGTCAAAAGTAAATGATCGG
1 -GATGAAACCACGAGTCAAAATAAAGTGACCAAGATC-GAATCGAGGTCAAAAGTAAATGATCGA
* *
14458766 GACGGAACCATGAATCATAAGA
64 GATGAAACCATGAATCATAAGA
14458788 AATGATTTGG
Statistics
Matches: 339, Mismatches: 86, Indels: 32
0.74 0.19 0.07
Matches are distributed among these distances:
88 12 0.04
89 316 0.93
90 11 0.03
ACGTcount: A:0.46, C:0.16, G:0.21, T:0.17
Consensus pattern (89 bp):
GATGAAACCACGAGTCAAAATAAAGTGACCAAGATCGAATCGAGGTCAAAAGTAAATGATCGAGA
TGAAACCATGAATCATAAGACCGA
Found at i:14458730 original size:267 final size:267
Alignment explanation
Indices: 14458297--14458783 Score: 638
Period size: 267 Copynumber: 1.8 Consensus size: 267
14458287 CAAGATCGAA
* * *
14458297 TCGAGATCAAAATCAAATTATCGAGATGAAACCATGAATCGTAAGACCGAGATGAAACCACAAGT
1 TCGAGATCAAAATCAAATGATCGAGATGAAACCATGAATCATAAGACCGAGATCAAACCACAAGT
* * *
14458362 TAAAATAAAGCGACCAAAATCAAGTCGAGGTCAAAAGTAAATGAACAGGATGAAACCACAAATCA
66 CAAAATAAAGCAACCAAAATCAACTCGAGGTCAAAAGTAAATGAACAGGATGAAACCACAAATCA
* * *
14458427 TAAGACCCGGACAAAATCATGAGTCAAAACAAAGTGACCAAGAATGAGTCAAGTTCGAAAGTAAA
131 TAAGACCAGGACAAAATCATGAGTCAAAACAAAGTGACCAAGAATGAGTCAAGGTCAAAAGTAAA
* *
14458492 TGATTGGGACAAAATCATGAATCATGTGACCGGGATGATACCACGAGTAAAAAAAAAGTGACTAA
196 TGATCGGGACAAAACCATGAATCATGTGACCGGGATGATACCACGAGTAAAAAAAAAGTGACTAA
14458557 AATTAAG
261 AATTAAG
* * * *
14458564 TCGAGATCAAAAGT-AAATGATC-AGGATGAAACCATGAATCATAAGATCGGGA-CAAAGTCACG
1 TCGAGATCAAAA-TCAAATGATCGA-GATGAAACCATGAATCATAAGACCGAGATCAAA-CCACA
* * * * * * **
14458626 AGTCAAAATAAAGCAACCAAGATCGACTTGAGGTCGAAAGTAAATGATCGGGATGAAACCATGAA
63 AGTCAAAATAAAGCAACCAAAATCAACTCGAGGTCAAAAGTAAATGAACAGGATGAAACCACAAA
** * * * * *
14458691 TCATGTGACCAGGACGAAATCATGAGTTAAAATAAAGTGACCAAGACTGAGTCGAGGTCAAAAGT
128 TCATAAGACCAGGACAAAATCATGAGTCAAAACAAAGTGACCAAGAATGAGTCAAGGTCAAAAGT
**
14458756 AAATGATCGGGACGGAACCATGAATCAT
193 AAATGATCGGGACAAAACCATGAATCAT
14458784 AAGAAATGAT
Statistics
Matches: 185, Mismatches: 32, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
266 4 0.02
267 180 0.97
268 1 0.01
ACGTcount: A:0.45, C:0.16, G:0.21, T:0.18
Consensus pattern (267 bp):
TCGAGATCAAAATCAAATGATCGAGATGAAACCATGAATCATAAGACCGAGATCAAACCACAAGT
CAAAATAAAGCAACCAAAATCAACTCGAGGTCAAAAGTAAATGAACAGGATGAAACCACAAATCA
TAAGACCAGGACAAAATCATGAGTCAAAACAAAGTGACCAAGAATGAGTCAAGGTCAAAAGTAAA
TGATCGGGACAAAACCATGAATCATGTGACCGGGATGATACCACGAGTAAAAAAAAAGTGACTAA
AATTAAG
Found at i:14458762 original size:178 final size:176
Alignment explanation
Indices: 14458270--14458787 Score: 581
Period size: 178 Copynumber: 2.9 Consensus size: 176
14458260 TGAAACCATA
* * *
14458270 AGTCAAAATAAAGTGACCAAGATCGAATCGAGATC-AAAATCAAATTATCGAGATGAAACCATGA
1 AGTCAAAATAAAGTGACCAAGATCGAATCGAGATCGAAAGT-AAATGATCGGGATGAAACCATGA
* ** * *
14458334 ATCGTAAGACCGAGATGAAACCACAAGTTAAAATAAAGCGACCAAAATCAAGTCGAGGTCAAAAG
65 ATCATGTGACCG-GATGAAACCACGAGTTAAAATAAAGTGACCAAAAT-AAGTCGAGGTCAAAAG
* ** *
14458399 TAAATGAACAGGATGAAACCACAAATCATAAGACCCGGACAAAATCATG
128 TAAATGATCAGGATGAAACCATGAATCATAAGACCCGGACAAAATCACG
* * * * * ** *
14458448 AGTCAAAACAAAGTGACCAAGAAT-GAGTCAAGTTCGAAAGTAAATGATTGGGACAAAATCATGA
1 AGTCAAAATAAAGTGACCAAG-ATCGAATCGAGATCGAAAGTAAATGATCGGGATGAAACCATGA
* * * * *
14458512 ATCATGTGACCGGGATGATACCACGAGTAAAAAAAAAGTGACTAAAATTAAGTCGAGATCAAAAG
65 ATCATGTGACC-GGATGAAACCACGAGTTAAAATAAAGTGACCAAAA-TAAGTCGAGGTCAAAAG
* * *
14458577 TAAATGATCAGGATGAAACCATGAATCATAAGATCGGGACAAAGTCACG
128 TAAATGATCAGGATGAAACCATGAATCATAAGACCCGGACAAAATCACG
** * * *
14458626 AGTCAAAATAAAGCAACCAAGATCGACTTGAGGTCGAAAGTAAATGATCGGGATGAAACCATGAA
1 AGTCAAAATAAAGTGACCAAGATCGAATCGAGATCGAAAGTAAATGATCGGGATGAAACCATGAA
* * * * *
14458691 TCATGTGACCAGGACGAAATCATGAGTTAAAATAAAGTGACCAAGACTGAGTCGAGGTCAAAAGT
66 TCATGTGACC-GGATGAAACCACGAGTTAAAATAAAGTGACCAA-AATAAGTCGAGGTCAAAAGT
* * *
14458756 AAATGATCGGGACGGAACCATGAATCATAAGA
129 AAATGATCAGGATGAAACCATGAATCATAAGA
14458788 AATGATTTGG
Statistics
Matches: 281, Mismatches: 53, Indels: 12
0.81 0.15 0.03
Matches are distributed among these distances:
177 2 0.01
178 270 0.96
179 9 0.03
ACGTcount: A:0.46, C:0.16, G:0.21, T:0.17
Consensus pattern (176 bp):
AGTCAAAATAAAGTGACCAAGATCGAATCGAGATCGAAAGTAAATGATCGGGATGAAACCATGAA
TCATGTGACCGGATGAAACCACGAGTTAAAATAAAGTGACCAAAATAAGTCGAGGTCAAAAGTAA
ATGATCAGGATGAAACCATGAATCATAAGACCCGGACAAAATCACG
Found at i:14470090 original size:14 final size:14
Alignment explanation
Indices: 14470071--14470104 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
14470061 ATTATTTTAC
*
14470071 TTTTTTACTTTCTTT
1 TTTTTTAC-TTCATT
14470086 TTTTTTACTTCATT
1 TTTTTTACTTCATT
14470100 TTTTT
1 TTTTT
14470105 CTCTTTTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTTTACTTCATT
Found at i:14470091 original size:15 final size:15
Alignment explanation
Indices: 14470071--14470104 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
14470061 ATTATTTTAC
14470071 TTTTTTACTTTC-TTT
1 TTTTTTAC-TTCATTT
14470086 TTTTTTACTTCATTT
1 TTTTTTACTTCATTT
14470101 TTTT
1 TTTT
14470105 CTCTTTTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 3 0.17
15 15 0.83
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTTACTTCATTT
Found at i:14470188 original size:5 final size:5
Alignment explanation
Indices: 14470178--14470233 Score: 71
Period size: 5 Copynumber: 11.0 Consensus size: 5
14470168 AAAAATAGGT
14470178 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA -ATAAA -AAAA TAAAA GTAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TA-AAA TAAAA TAAAA -TAAAA
14470228 TGAAAA
1 T-AAAA
14470234 AAGAAAAACC
Statistics
Matches: 47, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.09
5 34 0.72
6 9 0.19
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.18
Consensus pattern (5 bp):
TAAAA
Found at i:14470218 original size:19 final size:18
Alignment explanation
Indices: 14470178--14470240 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 18
14470168 AAAAATAGGT
14470178 TAAAATAAAATAAAATAAAA
1 TAAAATAAAAT-AAA-AAAA
14470198 TAAAATAAAAATAAAAAAA
1 TAAAAT-AAAATAAAAAAA
*
14470217 TAAAAGTAAAATGAAAAAA
1 TAAAA-TAAAATAAAAAAA
*
14470236 GAAAA
1 TAAAA
14470241 ACCTACAATC
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
19 24 0.62
20 10 0.26
21 5 0.13
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (18 bp):
TAAAATAAAATAAAAAAA
Found at i:14470539 original size:20 final size:20
Alignment explanation
Indices: 14470516--14470557 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
14470506 CCGAAAAGTA
* *
14470516 AAAAATACATCAATTTTTGG
1 AAAAAGACATCAAATTTTGG
*
14470536 -AAAAGCCATCAAATTTTGG
1 AAAAAGACATCAAATTTTGG
14470555 AAA
1 AAA
14470558 TCTTTTCGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 2
0.78 0.13 0.09
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.29
Consensus pattern (20 bp):
AAAAAGACATCAAATTTTGG
Found at i:14471089 original size:3 final size:3
Alignment explanation
Indices: 14471083--14471147 Score: 96
Period size: 3 Copynumber: 21.7 Consensus size: 3
14471073 AAAATACCAG
* *
14471083 TAA TAA TAA TAA TAA TAA TGA TAA TGAA -AA TGA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
14471128 TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
14471148 TGATAAGATA
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.04
3 52 0.93
4 2 0.04
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:14471291 original size:25 final size:26
Alignment explanation
Indices: 14471263--14471311 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
14471253 TCAAACACAA
14471263 ATGGACCTAATCG-GCCCAAATGTTT
1 ATGGACCTAATCGAGCCCAAATGTTT
* *
14471288 ATGGGCCTAATCGAGCCCATATGT
1 ATGGACCTAATCGAGCCCAAATGT
14471312 CAATGGGCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (26 bp):
ATGGACCTAATCGAGCCCAAATGTTT
Found at i:14471317 original size:26 final size:25
Alignment explanation
Indices: 14471231--14471324 Score: 82
Period size: 26 Copynumber: 3.7 Consensus size: 25
14471221 TCGGGCTTGG
* *
14471231 ATGTCAATGGGCTTAATCAGGCTCAA
1 ATGTCAATGGGCCTAATC-GGCCCAA
** *
14471257 A-CACAAATGGACCTAATCGGCCCAA
1 ATGTC-AATGGGCCTAATCGGCCCAA
** *
14471282 ATGTTTATGGGCCTAATCGAGCCCAT
1 ATGTCAATGGGCCTAATCG-GCCCAA
14471308 ATGTCAATGGGCCTAAT
1 ATGTCAATGGGCCTAAT
14471325 AAGACCCGGA
Statistics
Matches: 52, Mismatches: 13, Indels: 6
0.73 0.18 0.08
Matches are distributed among these distances:
25 20 0.38
26 32 0.62
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.24
Consensus pattern (25 bp):
ATGTCAATGGGCCTAATCGGCCCAA
Found at i:14474441 original size:14 final size:13
Alignment explanation
Indices: 14474411--14474450 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
14474401 CATAACATAT
14474411 TATGAATGCATGA
1 TATGAATGCATGA
*
14474424 TATGAATGACATGG
1 TATGAATG-CATGA
14474438 TATGAATGCATGA
1 TATGAATGCATGA
14474451 CAATTTATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (13 bp):
TATGAATGCATGA
Found at i:14474452 original size:18 final size:18
Alignment explanation
Indices: 14474415--14474466 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
14474405 ACATATTATG
* *
14474415 AATGCATGATATGAATGAC
1 AATGTATGA-ATGCATGAC
14474434 -ATGGTATGAATGCATGAC
1 AAT-GTATGAATGCATGAC
*
14474452 AATTTATGAATGCAT
1 AATGTATGAATGCAT
14474467 ATAATAATGT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 21 0.75
19 7 0.25
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (18 bp):
AATGTATGAATGCATGAC
Found at i:14474550 original size:19 final size:19
Alignment explanation
Indices: 14474512--14474640 Score: 120
Period size: 19 Copynumber: 6.8 Consensus size: 19
14474502 ATTTGGGGGT
* *
14474512 TGGTTT-GGTTTTAAAAGG
1 TGGTTTAGGGTTTGAAAGG
* *
14474530 TGGTTTAAGGTTTGGAAGG
1 TGGTTTAGGGTTTGAAAGG
* *
14474549 TGGTTTAGGATTTTATAA-G
1 TGGTTTAGGGTTTGA-AAGG
*
14474568 TGGTTTAGGGTTT-AAAGAT
1 TGGTTTAGGGTTTGAAAG-G
*
14474587 TGGTTTAGGGCTTGAAAGG
1 TGGTTTAGGGTTTGAAAGG
* * *
14474606 TAGTTTAGGGTTTGTATGG
1 TGGTTTAGGGTTTGAAAGG
14474625 TGGTTTAGGGTTTGAA
1 TGGTTTAGGGTTTGAA
14474641 TGATGGCTTA
Statistics
Matches: 88, Mismatches: 18, Indels: 9
0.77 0.16 0.08
Matches are distributed among these distances:
17 2 0.02
18 7 0.08
19 73 0.83
20 6 0.07
ACGTcount: A:0.22, C:0.01, G:0.36, T:0.42
Consensus pattern (19 bp):
TGGTTTAGGGTTTGAAAGG
Found at i:14474591 original size:57 final size:57
Alignment explanation
Indices: 14474530--14474637 Score: 146
Period size: 57 Copynumber: 1.9 Consensus size: 57
14474520 TTTTAAAAGG
* * *
14474530 TGGTTTAAGGTTTGGAAGGTGGTTTAGGATTT-TATAAGTGGTTTAGGGTTTAAAGAT
1 TGGTTTAAGGCTTGAAAGGTAGTTTAGGATTTGTAT-AGTGGTTTAGGGTTTAAAGAT
* * *
14474587 TGGTTTAGGGCTTGAAAGGTAGTTTAGGGTTTGTATGGTGGTTTAGGGTTT
1 TGGTTTAAGGCTTGAAAGGTAGTTTAGGATTTGTATAGTGGTTTAGGGTTT
14474638 GAATGATGGC
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
57 41 0.93
58 3 0.07
ACGTcount: A:0.20, C:0.01, G:0.36, T:0.43
Consensus pattern (57 bp):
TGGTTTAAGGCTTGAAAGGTAGTTTAGGATTTGTATAGTGGTTTAGGGTTTAAAGAT
Found at i:14474651 original size:19 final size:19
Alignment explanation
Indices: 14474610--14474656 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
14474600 GAAAGGTAGT
* * *
14474610 TTAGGGTTTGTATGGTGGT
1 TTAGGGTTTGAATGATGGC
14474629 TTAGGGTTTGAATGATGGC
1 TTAGGGTTTGAATGATGGC
*
14474648 TTAGAGTTT
1 TTAGGGTTT
14474657 AAGATTTAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.17, C:0.02, G:0.36, T:0.45
Consensus pattern (19 bp):
TTAGGGTTTGAATGATGGC
Found at i:14474710 original size:18 final size:18
Alignment explanation
Indices: 14474687--14474722 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
14474677 AAGGGTTTCA
14474687 AATTTAGGGTTTCATGGG
1 AATTTAGGGTTTCATGGG
14474705 AATTTAGGGTTTCATGGG
1 AATTTAGGGTTTCATGGG
14474723 TATGCATGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.06, G:0.33, T:0.39
Consensus pattern (18 bp):
AATTTAGGGTTTCATGGG
Found at i:14476191 original size:144 final size:142
Alignment explanation
Indices: 14476043--14476304 Score: 309
Period size: 144 Copynumber: 1.8 Consensus size: 142
14476033 TGCACCAAAA
* * *
14476043 ATCATCACATAAT-TTAAAAGCATGATTTGGTA-AGTTTTGTGAAAAAT-CAACCTCTA-AAGTG
1 ATCATCAAATAATATT-AAAGCATGATCTGG-AGA-TTTTGTG-AAAATCCAACCTCAAGAAG-G
*
14476104 TCAAATTAC-AAAATTACCCTTAAGGAATATTTTGGTAATTTCACACCTCTCGAGGTACGATCAA
61 TCAAATTACGAAAA-TACCCTTAAGGAATATTTTGGTAA-TTCACACCTCTCAAGGTACGATCAA
14476168 GGTTTTCAACTTTTTAAAC
124 GGTTTTCAACTTTTTAAAC
* * * *
14476187 ATCATCAAATAATATTAAATCTTGATCTGGAGCATTTTGTGTAATTCCAACCTCAAGAAGGTCAA
1 ATCATCAAATAATATTAAAGCATGATCTGGAG-ATTTTGTGAAAATCCAACCTCAAGAAGGTCAA
* * * *
14476252 ATTACGAAAATATCCTTAAGGGATATTTTGGTAATTCATACCTTTCAAGGTAC
65 ATTACGAAAATACCCTTAAGGAATATTTTGGTAATTCACACCTCTCAAGGTAC
14476305 AATTTGGGTT
Statistics
Matches: 100, Mismatches: 12, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
143 20 0.20
144 70 0.70
145 10 0.10
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (142 bp):
ATCATCAAATAATATTAAAGCATGATCTGGAGATTTTGTGAAAATCCAACCTCAAGAAGGTCAAA
TTACGAAAATACCCTTAAGGAATATTTTGGTAATTCACACCTCTCAAGGTACGATCAAGGTTTTC
AACTTTTTAAAC
Found at i:14479054 original size:140 final size:138
Alignment explanation
Indices: 14478804--14479084 Score: 384
Period size: 140 Copynumber: 2.0 Consensus size: 138
14478794 TGACCTAGTT
* **
14478804 ATTACACCATTAAAAATTTCCTTTGCAATATTACTCTCTTTTTAGCCATTTTTTAGGAAAATCTC
1 ATTACACCATTAAAAATTTCCTTTGCAATATTACTATCTTTTTAGCCATTTTTTACCAAAATCTC
* * * * *
14478869 AGAGTCTCTACCTTGGAATTCACCATTGCATTCTTTTGTTAAATTCAACACAAATGGTTCTTATA
66 AAAGTCTCTAACTTGGAATCCACCATTGCATTCCTTTGTTAAATTCAAAACAAATGGTTCTTATA
14478934 GCGAGTAG
131 GCGAGTAG
** * * * *
14478942 ATTACACCATTAATGATTTTCTTTGTAATCTTGCTATCTCTTTTAGCCATTTTTTTACCAAAATC
1 ATTACACCATTAAAAATTTCCTTTGCAATATTACTATCT-TTTTAGCCA-TTTTTTACCAAAATC
*
14479007 TCAAAGTCT-TAGACTTGGAATCCACCTTTGCATTCCTTTGTTAAATTCAAAACAAATGGTTCTT
64 TCAAAGTCTCTA-ACTTGGAATCCACCATTGCATTCCTTTGTTAAATTCAAAACAAATGGTTCTT
*
14479071 ATAGGGAGTAG
128 ATAGCGAGTAG
14479082 ATT
1 ATT
14479085 TAGTAATTCA
Statistics
Matches: 124, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
138 32 0.26
139 11 0.09
140 81 0.65
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (138 bp):
ATTACACCATTAAAAATTTCCTTTGCAATATTACTATCTTTTTAGCCATTTTTTACCAAAATCTC
AAAGTCTCTAACTTGGAATCCACCATTGCATTCCTTTGTTAAATTCAAAACAAATGGTTCTTATA
GCGAGTAG
Found at i:14480229 original size:2 final size:2
Alignment explanation
Indices: 14480222--14480257 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
14480212 ATTTCGTACC
* *
14480222 TA TA TA TA TA TA TA TA TA TT TA TA TA TT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14480258 AAGACTAAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:14480310 original size:2 final size:2
Alignment explanation
Indices: 14480303--14480347 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
14480293 GATTTTCTTT
14480303 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
14480345 TC T
1 TC T
14480348 TTTCTTTCGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:14480572 original size:22 final size:21
Alignment explanation
Indices: 14480547--14480613 Score: 66
Period size: 22 Copynumber: 3.2 Consensus size: 21
14480537 AGTTTCGCTT
14480547 TTTTTTTTTTTTCTATTCTTCC
1 TTTTTTTTTTTT-TATTCTTCC
* * *
14480569 TTTTTTTTCTTTGAAT-TT-C
1 TTTTTTTTTTTTTATTCTTCC
*
14480588 TTTTTTCTTTTTTTTTTCTTCC
1 TTTTTT-TTTTTTTATTCTTCC
14480610 TTTT
1 TTTT
14480614 GACTATAGTA
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
19 7 0.20
20 8 0.23
21 4 0.11
22 16 0.46
ACGTcount: A:0.04, C:0.15, G:0.01, T:0.79
Consensus pattern (21 bp):
TTTTTTTTTTTTTATTCTTCC
Found at i:14483767 original size:21 final size:22
Alignment explanation
Indices: 14483741--14483798 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
14483731 ACACAACCCA
14483741 ATTTTATTATATAATATATTAT
1 ATTTTATTATATAATATATTAT
*
14483763 -TTTTA-TAT-TCATATATTAT
1 ATTTTATTATATAATATATTAT
* *
14483782 ATGTT-TTATATTATATA
1 ATTTTATTATATAATATA
14483799 AAAATATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
19 10 0.33
20 9 0.30
21 11 0.37
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (22 bp):
ATTTTATTATATAATATATTAT
Found at i:14483805 original size:22 final size:21
Alignment explanation
Indices: 14483745--14483805 Score: 52
Period size: 22 Copynumber: 2.8 Consensus size: 21
14483735 AACCCAATTT
*
14483745 TATTATATAATATATTATTTTTA
1 TATTATATAA-A-AATATTTTTA
**
14483768 TATTCATAT-ATTATATGTTTTA
1 TATT-ATATAAAAATAT-TTTTA
14483790 TATTATATAAAAATAT
1 TATTATATAAAAATAT
14483806 ATAATATTAC
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
21 7 0.23
22 14 0.47
23 5 0.17
24 4 0.13
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
TATTATATAAAAATATTTTTA
Found at i:14489559 original size:12 final size:11
Alignment explanation
Indices: 14489533--14489561 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
14489523 GAATCTAATC
14489533 AAAAAATGTAG
1 AAAAAATGTAG
14489544 AAAAAATGTAG
1 AAAAAATGTAG
14489555 AAAAAAT
1 AAAAAAT
14489562 TAATTTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.17
Consensus pattern (11 bp):
AAAAAATGTAG
Found at i:14492610 original size:22 final size:22
Alignment explanation
Indices: 14492566--14492643 Score: 56
Period size: 22 Copynumber: 3.5 Consensus size: 22
14492556 CAGTTACAGG
*
14492566 GATTTTTATTCATTT-TTATTTTA
1 GATTTTT-TTTATTTATTA-TTTA
14492589 GATTTTTTTTATTTCA-TATTTA
1 GATTTTTTTTATTT-ATTATTTA
* *
14492611 TCA-CTTTTTTATTTATTATTT-
1 -GATTTTTTTTATTTATTATTTA
14492632 GATTATTTTTTA
1 GATT-TTTTTTA
14492644 AAAAAAAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
20 1 0.02
21 1 0.02
22 32 0.73
23 10 0.23
ACGTcount: A:0.22, C:0.05, G:0.04, T:0.69
Consensus pattern (22 bp):
GATTTTTTTTATTTATTATTTA
Found at i:14492874 original size:18 final size:18
Alignment explanation
Indices: 14492851--14492893 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
14492841 AAAAAAGATG
*
14492851 GAGGAGAAATCTGAATAA
1 GAGGAGAAATCCGAATAA
* *
14492869 GAGGAGGAGTCCGAATAA
1 GAGGAGAAATCCGAATAA
14492887 GA-GAGAA
1 GAGGAGAA
14492894 GAAAAAAGGA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.47, C:0.07, G:0.35, T:0.12
Consensus pattern (18 bp):
GAGGAGAAATCCGAATAA
Found at i:14500914 original size:15 final size:16
Alignment explanation
Indices: 14500867--14500919 Score: 63
Period size: 15 Copynumber: 3.3 Consensus size: 16
14500857 AACATTAGAA
*
14500867 AAAAAAGAAAAACAAAG
1 AAAAAAGCAAAA-AAAG
*
14500884 AAAATAGCAAAAAAAG
1 AAAAAAGCAAAAAAAG
*
14500900 AAAAAAG-ACAAAAAG
1 AAAAAAGCAAAAAAAG
14500915 AAAAA
1 AAAAA
14500920 GGGAAGTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
15 12 0.38
16 10 0.31
17 10 0.31
ACGTcount: A:0.81, C:0.06, G:0.11, T:0.02
Consensus pattern (16 bp):
AAAAAAGCAAAAAAAG
Found at i:14501237 original size:22 final size:22
Alignment explanation
Indices: 14501197--14501244 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
14501187 TTGAGATTTG
*
14501197 TAAGATCTCTGGGCATAATCTT
1 TAAGATCTCTGGGCATAATCTC
* **
14501219 TAAGATTTCTGGGTGTAATCTC
1 TAAGATCTCTGGGCATAATCTC
14501241 TAAG
1 TAAG
14501245 TTTTTTGAGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.38
Consensus pattern (22 bp):
TAAGATCTCTGGGCATAATCTC
Found at i:14501385 original size:107 final size:106
Alignment explanation
Indices: 14501254--14501542 Score: 348
Period size: 107 Copynumber: 2.7 Consensus size: 106
14501244 GTTTTTTGAG
* * *
14501254 CAAGATTCATAAGTCTTTCGAGCTGAATTTATTTTAGTTTCAAGATTTATAAGACCTCTAGGCAT
1 CAAGATTCATAAGT-TTTCAAGCTGAATCTATTTTAGTTTCAAGATTTGTAAGACCTCTAGGCAT
* *
14501319 AATCTTTTAAGACCTCCGAGCATAATCTCTAAATCCTCCAGA
65 AATATTTTAAGACCTCCGAACATAATCTCTAAATCCTCCAGA
* * * *
14501361 CAGGATTCGTAAGTTTTCAAAGCTGAATCTATTTTAGTTTTAAGATTTGTAAGACCTCT-GGATA
1 CAAGATTCATAAGTTTTC-AAGCTGAATCTATTTTAGTTTCAAGATTTGTAAGACCTCTAGG-CA
* * ** * * *
14501425 TAATATTTAAAGACTTTTGAACGTAATCTCTAAGTCCTCCAGG
64 TAATATTTTAAGACCTCCGAACATAATCTCTAAATCCTCCAGA
**
14501468 CAAGATTCATAAGTTTTTTTAGCTGAATCTATTTTAGTTTCAAGATTTGTAAGACCT-TCAGGCA
1 CAAGATTCATAAG-TTTTCAAGCTGAATCTATTTTAGTTTCAAGATTTGTAAGACCTCT-AGGCA
*
14501532 AAATATTTTAA
64 TAATATTTTAA
14501543 ATTTAAAGTT
Statistics
Matches: 153, Mismatches: 24, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
106 7 0.05
107 140 0.92
108 6 0.04
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (106 bp):
CAAGATTCATAAGTTTTCAAGCTGAATCTATTTTAGTTTCAAGATTTGTAAGACCTCTAGGCATA
ATATTTTAAGACCTCCGAACATAATCTCTAAATCCTCCAGA
Found at i:14501621 original size:39 final size:40
Alignment explanation
Indices: 14501538--14501622 Score: 100
Period size: 39 Copynumber: 2.1 Consensus size: 40
14501528 GGCAAAATAT
* **
14501538 TTTAAATTTAAAGTTTCATTGTCTCTGGTCAAAAGAGTTT
1 TTTAAATTTAAAGTTTCATTGCCTCTGGTCAAAAGAGTCA
* * * *
14501578 TTTAAATTTGAAGTTT-GTTGCCTTTGGTCAAATGAGTCA
1 TTTAAATTTAAAGTTTCATTGCCTCTGGTCAAAAGAGTCA
14501617 TTTAAA
1 TTTAAA
14501623 GTTTCATAGC
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 23 0.61
40 15 0.39
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.45
Consensus pattern (40 bp):
TTTAAATTTAAAGTTTCATTGCCTCTGGTCAAAAGAGTCA
Found at i:14501848 original size:40 final size:40
Alignment explanation
Indices: 14501763--14501902 Score: 122
Period size: 40 Copynumber: 3.5 Consensus size: 40
14501753 TTAGAAAAGT
* * * * * *
14501763 CATTTAAAGTTTCGTTGCCTCTGGTTAGAAGAGCCTTTTGA
1 CATTTAAAG-TTCGTTGCCTTTAGTCAGAGGAGCTTTTTAA
*
14501804 -ATTTAAAGTTCATTGCCTTTAGTCAGAGGAGCTTTTTAA
1 CATTTAAAGTTCGTTGCCTTTAGTCAGAGGAGCTTTTTAA
* ** * * *
14501843 CATTTAAAGTT-TTTTACTTCTAGTCAAAGAATCTTTTTAA
1 CATTTAAAGTTCGTTGCCTT-TAGTCAGAGGAGCTTTTTAA
*
14501883 CATTTAAAGTTTGTTGCCTT
1 CATTTAAAGTTCGTTGCCTT
14501903 CGATTAAAGG
Statistics
Matches: 80, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
39 29 0.36
40 46 0.57
41 5 0.06
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.44
Consensus pattern (40 bp):
CATTTAAAGTTCGTTGCCTTTAGTCAGAGGAGCTTTTTAA
Found at i:14501984 original size:39 final size:40
Alignment explanation
Indices: 14501940--14502071 Score: 115
Period size: 40 Copynumber: 3.3 Consensus size: 40
14501930 GTTAAATGAA
* *
14501940 CCTTTTAAATTTAAAATTT-GTTACCTCTAGTCGGATGAG
1 CCTTTTAAATTTAAAATTTCGTTACCTCTAGTCAGAGGAG
* * * *
14501979 TCTTTTAACATTTAAAGTTTCGTTGCCTCTAGTTAGAGGAG
1 CCTTTTAA-ATTTAAAATTTCGTTACCTCTAGTCAGAGGAG
* * * * *
14502020 CCTTATGAATTTAAAATTTC-ATAGCCTCTATTTAGAGGAG
1 CCTTTTAAATTTAAAATTTCGTTA-CCTCTAGTCAGAGGAG
* *
14502060 CCCTTCAAATTT
1 CCTTTTAAATTT
14502072 TCTTTTGAAA
Statistics
Matches: 73, Mismatches: 17, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
39 8 0.11
40 44 0.60
41 21 0.29
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (40 bp):
CCTTTTAAATTTAAAATTTCGTTACCTCTAGTCAGAGGAG
Found at i:14502235 original size:3 final size:3
Alignment explanation
Indices: 14502227--14502255 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
14502217 ATTTTGTTTA
14502227 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
14502256 AAAAGATGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:14503160 original size:11 final size:10
Alignment explanation
Indices: 14503137--14503207 Score: 58
Period size: 9 Copynumber: 7.3 Consensus size: 10
14503127 TTTAATTTTA
14503137 ATTTTAT-TT
1 ATTTTATGTT
*
14503146 ATTTTGTGTT
1 ATTTTATGTT
14503156 GATTTTATGTT
1 -ATTTTATGTT
* *
14503167 ATTTTTTATT
1 ATTTTATGTT
14503177 -TTTTATGTT
1 ATTTTATGTT
* *
14503186 ACTAT-TGTT
1 ATTTTATGTT
*
14503195 ATTTTATATT
1 ATTTTATGTT
14503205 ATT
1 ATT
14503208 ACTAGTAATA
Statistics
Matches: 47, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
9 20 0.43
10 18 0.38
11 9 0.19
ACGTcount: A:0.20, C:0.01, G:0.08, T:0.70
Consensus pattern (10 bp):
ATTTTATGTT
Found at i:14509651 original size:20 final size:18
Alignment explanation
Indices: 14509624--14509672 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
14509614 TTCTCTCTGT
14509624 TCCC-TTTCTCTTTTCTC
1 TCCCTTTTCTCTTTTCTC
14509641 TCCTTCTTTTC-CATTTTCTC
1 TCC--CTTTTCTC-TTTTCTC
14509661 TCCCTTTTCTCT
1 TCCCTTTTCTCT
14509673 AATTTTTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
17 3 0.11
18 7 0.26
19 3 0.11
20 14 0.52
ACGTcount: A:0.02, C:0.39, G:0.00, T:0.59
Consensus pattern (18 bp):
TCCCTTTTCTCTTTTCTC
Found at i:14510385 original size:5 final size:5
Alignment explanation
Indices: 14510374--14510441 Score: 61
Period size: 5 Copynumber: 13.8 Consensus size: 5
14510364 AAACAAATAA
* * *
14510374 AAAAT AAGAT AAGAT AAAATT AAGAT -AAAT AAAAT AAAAT AAAAT AAAA-
1 AAAAT AAAAT AAAAT AAAA-T AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
*
14510423 ATAAAT -GAAT AAAAT AAAA
1 A-AAAT AAAAT AAAAT AAAA
14510442 GATAAAAAGG
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
4 7 0.13
5 41 0.79
6 4 0.08
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:14510410 original size:25 final size:25
Alignment explanation
Indices: 14510375--14510441 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
14510365 AACAAATAAA
* * * *
14510375 AAATAAGATAAGATAAAATTAAGAT
1 AAATAAAATAAAATAAAATAAAAAT
14510400 AAATAAAATAAAATAAAATAAAAAT
1 AAATAAAATAAAATAAAATAAAAAT
*
14510425 AAAT-GAATAAAATAAAA
1 AAATAAAATAAAATAAAA
14510442 GATAAAAAGG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
24 12 0.32
25 25 0.68
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (25 bp):
AAATAAAATAAAATAAAATAAAAAT
Found at i:14510461 original size:45 final size:46
Alignment explanation
Indices: 14510368--14510464 Score: 110
Period size: 45 Copynumber: 2.1 Consensus size: 46
14510358 AAAAAAAAAC
*
14510368 AAATAAAAAATAAGATAAGATAAAATTAAGATAAATAAAATAAAATA
1 AAAT-AAAAATAAGATAAGATAAAATAAAGATAAATAAAATAAAATA
* * *
14510415 AAATAAAAATAA-ATGA-ATAAAATAAAAGATAAA-AAGGATAATATA
1 AAATAAAAATAAGATAAGATAAAAT-AAAGATAAATAA-AATAAAATA
14510460 AAATA
1 AAATA
14510465 TTGACAAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
44 9 0.20
45 23 0.52
46 8 0.18
47 4 0.09
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (46 bp):
AAATAAAAATAAGATAAGATAAAATAAAGATAAATAAAATAAAATA
Found at i:14510512 original size:13 final size:13
Alignment explanation
Indices: 14510494--14510518 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14510484 ATATAAAGAT
14510494 AAAACAAAAAATA
1 AAAACAAAAAATA
14510507 AAAACAAAAAAT
1 AAAACAAAAAAT
14510519 GAAATAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (13 bp):
AAAACAAAAAATA
Found at i:14513058 original size:21 final size:20
Alignment explanation
Indices: 14513030--14513102 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 20
14513020 AGTTAATGAT
14513030 TTTACATATTTATATTTATA
1 TTTACATATTTATATTTATA
*
14513050 TTTAGCATATTTTACATATTA-A
1 TTTA-CATA-TTTATAT-TTATA
*
14513072 TTTTACATATTTATGTTTATA
1 -TTTACATATTTATATTTATA
14513093 TTTAGCATAT
1 TTTA-CATAT
14513103 AGTATCAACA
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
20 11 0.25
21 15 0.34
22 11 0.25
23 7 0.16
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (20 bp):
TTTACATATTTATATTTATA
Found at i:14513076 original size:13 final size:13
Alignment explanation
Indices: 14513058--14513082 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14513048 TATTTAGCAT
14513058 ATTTTACATATTA
1 ATTTTACATATTA
14513071 ATTTTACATATT
1 ATTTTACATATT
14513083 TATGTTTATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (13 bp):
ATTTTACATATTA
Found at i:14514887 original size:15 final size:15
Alignment explanation
Indices: 14514867--14514911 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 15
14514857 TTTCAATGAC
14514867 TTAGAAAATAATTAG
1 TTAGAAAATAATTAG
* *
14514882 TTAGAAAA-ATTTAA
1 TTAGAAAATAATTAG
14514896 TT-GAAAATAATT-G
1 TTAGAAAATAATTAG
14514909 TTA
1 TTA
14514912 TAATTTACAA
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
13 7 0.29
14 9 0.38
15 8 0.33
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (15 bp):
TTAGAAAATAATTAG
Found at i:14517476 original size:27 final size:27
Alignment explanation
Indices: 14517446--14517505 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 27
14517436 TTTATTTTTA
*
14517446 TTAATTAAATAATATTAATT-ATAGTA-T
1 TTAATTAAA-AA-ATTAATTAATAATACT
14517473 TTAATTAAAAAATTAATTAATAATACT
1 TTAATTAAAAAATTAATTAATAATACT
14517500 TTAATT
1 TTAATT
14517506 TTAATTAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 7 0.23
26 7 0.23
27 16 0.53
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (27 bp):
TTAATTAAAAAATTAATTAATAATACT
Found at i:14517584 original size:29 final size:29
Alignment explanation
Indices: 14517551--14517624 Score: 103
Period size: 29 Copynumber: 2.6 Consensus size: 29
14517541 ACTTAATACT
*
14517551 AAAATATTATTAAAATAACATTAAACATT
1 AAAATATTATTAAAATAACATTAAACATG
* * * *
14517580 TAAATATTATTAAATTAATATTTAACATG
1 AAAATATTATTAAAATAACATTAAACATG
14517609 AAAATATTATTAAAAT
1 AAAATATTATTAAAAT
14517625 TACCGAACCA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.39
Consensus pattern (29 bp):
AAAATATTATTAAAATAACATTAAACATG
Found at i:14517809 original size:18 final size:18
Alignment explanation
Indices: 14517786--14517822 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
14517776 TTTAAAATAC
14517786 TATTAAAATAATATTTAA
1 TATTAAAATAATATTTAA
* *
14517804 TATTAAATTATTATTTAA
1 TATTAAAATAATATTTAA
14517822 T
1 T
14517823 TGATACTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TATTAAAATAATATTTAA
Found at i:14517809 original size:29 final size:29
Alignment explanation
Indices: 14517777--14517863 Score: 77
Period size: 29 Copynumber: 3.0 Consensus size: 29
14517767 TAAAAAAATT
*
14517777 TTAAAATACTATTAAAATAATATTTAATA
1 TTAAAATAATATTAAAATAATATTTAATA
* * * * * *
14517806 TTAAATTATTATTTAATTGATACTTAATA
1 TTAAAATAATATTAAAATAATATTTAATA
* *
14517835 -TAAAACTAATATTAAAACAATATTCAATA
1 TTAAAA-TAATATTAAAATAATATTTAATA
14517864 ACCTGAAATA
Statistics
Matches: 43, Mismatches: 14, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
28 4 0.09
29 39 0.91
ACGTcount: A:0.52, C:0.06, G:0.01, T:0.41
Consensus pattern (29 bp):
TTAAAATAATATTAAAATAATATTTAATA
Found at i:14517917 original size:17 final size:16
Alignment explanation
Indices: 14517895--14517930 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
14517885 TTAAATTAAT
14517895 ATTTAATATATAAATAA
1 ATTTAATATA-AAATAA
*
14517912 ATTTAATATAATATAA
1 ATTTAATATAAAATAA
14517928 ATT
1 ATT
14517931 ATTAAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTTAATATAAAATAA
Found at i:14518054 original size:29 final size:29
Alignment explanation
Indices: 14518021--14518107 Score: 93
Period size: 29 Copynumber: 3.0 Consensus size: 29
14518011 TGTAATATTG
*
14518021 AAATATTGTTAAAATAATATTAAATCTTA
1 AAATATTATTAAAATAATATTAAATCTTA
* * * ** * *
14518050 AAATATTAATACATTAATATTTCATATGA
1 AAATATTATTAAAATAATATTAAATCTTA
*
14518079 AAATATTATTAAAATAATATTCAATCTTA
1 AAATATTATTAAAATAATATTAAATCTTA
14518108 TTAAAGTAAT
Statistics
Matches: 43, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.41
Consensus pattern (29 bp):
AAATATTATTAAAATAATATTAAATCTTA
Found at i:14518219 original size:21 final size:21
Alignment explanation
Indices: 14518193--14518233 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
14518183 AAATAATATT
* *
14518193 TATTAAATTATTATTTAATAC
1 TATTAAATGAATATTTAATAC
14518214 TATTAAATGAATATTTAATA
1 TATTAAATGAATATTTAATA
14518234 TTAAAGTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
TATTAAATGAATATTTAATAC
Found at i:14518322 original size:28 final size:28
Alignment explanation
Indices: 14518285--14518406 Score: 92
Period size: 28 Copynumber: 4.2 Consensus size: 28
14518275 TGAATAATTC
14518285 TTAAAATAATA-TTAATATGAAAATATTA
1 TTAAAATAATATTTAATAT-AAAATATTA
* * *
14518313 TTAAATTAATATTTCATATTACAAATAGTA
1 TTAAAATAATATTTAATA-TA-AAATATTA
*
14518343 TTAAAATAATA--TAATATATCAAAGAATTA
1 TTAAAATAATATTTAATATA--AAA-TATTA
*
14518372 -TAAAGTTAA-ATTTAATAATAAAATATTA
1 TTAAA-ATAATATTTAAT-ATAAAATATTA
14518400 TTAAAAT
1 TTAAAAT
14518407 GTGATCAAAT
Statistics
Matches: 74, Mismatches: 10, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
27 2 0.03
28 28 0.38
29 19 0.26
30 22 0.30
31 3 0.04
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.39
Consensus pattern (28 bp):
TTAAAATAATATTTAATATAAAATATTA
Found at i:14518351 original size:58 final size:57
Alignment explanation
Indices: 14518285--14518406 Score: 142
Period size: 58 Copynumber: 2.1 Consensus size: 57
14518275 TGAATAATTC
* * * *
14518285 TTAAAATAATATTA-ATATGAAA-ATATTATTAAA-TTAATATTTCATATTACAAATAGTA
1 TTAAAATAATATAATATATCAAAGA-ATTA-TAAAGTTAA-ATTTAATAATA-AAATAGTA
*
14518343 TTAAAATAATATAATATATCAAAGAATTATAAAGTTAAATTTAATAATAAAATATTA
1 TTAAAATAATATAATATATCAAAGAATTATAAAGTTAAATTTAATAATAAAATAGTA
14518400 TTAAAAT
1 TTAAAAT
14518407 GTGATCAAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
57 14 0.25
58 26 0.46
59 15 0.27
60 1 0.02
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.39
Consensus pattern (57 bp):
TTAAAATAATATAATATATCAAAGAATTATAAAGTTAAATTTAATAATAAAATAGTA
Found at i:14518441 original size:11 final size:11
Alignment explanation
Indices: 14518425--14518535 Score: 52
Period size: 11 Copynumber: 10.5 Consensus size: 11
14518415 ATTAATATGG
*
14518425 AATATTATAAT
1 AATATTAAAAT
14518436 AATATTAAAAT
1 AATATTAAAAT
* * *
14518447 ATTATGAAACT
1 AATATTAAAAT
*
14518458 -A-A-T-AATT
1 AATATTAAAAT
*
14518465 AAGATTAAAAT
1 AATATTAAAAT
* **
14518476 CATAAGAAAAT
1 AATATTAAAAT
* *
14518487 AGTATTAAGAT
1 AATATTAAAAT
*
14518498 AATATTAAAAC
1 AATATTAAAAT
*
14518509 AATATT-CAAT
1 AATATTAAAAT
* *
14518519 ATTATTAAATT
1 AATATTAAAAT
14518530 AATATT
1 AATATT
14518536 TAATTTTATT
Statistics
Matches: 69, Mismatches: 26, Indels: 10
0.66 0.25 0.10
Matches are distributed among these distances:
7 3 0.04
8 1 0.01
9 2 0.03
10 8 0.12
11 55 0.80
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.37
Consensus pattern (11 bp):
AATATTAAAAT
Found at i:14518484 original size:29 final size:29
Alignment explanation
Indices: 14518431--14518497 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 29
14518421 ATGGAATATT
* * *
14518431 ATAA-TAATATTAAAATATTATGAAACTA
1 ATAATTAAGATTAAAATATTAAGAAAATA
14518459 ATAATTAAGATTAAAATCA-TAAGAAAATA
1 ATAATTAAGATTAAAAT-ATTAAGAAAATA
*
14518488 GT-ATTAAGAT
1 ATAATTAAGAT
14518498 AATATTAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 12 0.36
29 20 0.61
30 1 0.03
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (29 bp):
ATAATTAAGATTAAAATATTAAGAAAATA
Found at i:14518552 original size:21 final size:21
Alignment explanation
Indices: 14518500--14518696 Score: 176
Period size: 21 Copynumber: 9.7 Consensus size: 21
14518490 ATTAAGATAA
** *
14518500 TATTAAAACAATATTCAATAT
1 TATTAAATTAATATTTAATAT
*
14518521 TATTAAATTAATATTTAATTT
1 TATTAAATTAATATTTAATAT
* *
14518542 TATTAAGTTAATATTTCATAT
1 TATTAAATTAATATTTAATAT
* *
14518563 TATTCAA-TAATATTCT-ATAA
1 TATTAAATTAATATT-TAATAT
* *
14518583 TATTAAATTCATATTTAATAC
1 TATTAAATTAATATTTAATAT
**
14518604 TATTACGTTAATATTTAATAT
1 TATTAAATTAATATTTAATAT
* *
14518625 TATTAAATTAACATTAAATAT
1 TATTAAATTAATATTTAATAT
*
14518646 TATTGAATTAATA-TT-A-AT
1 TATTAAATTAATATTTAATAT
14518664 TA-T--ATTAATATTTAATAT
1 TATTAAATTAATATTTAATAT
* *
14518682 GATTAATTTAATATT
1 TATTAAATTAATATT
14518697 AATTAATATA
Statistics
Matches: 141, Mismatches: 26, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
15 7 0.05
16 2 0.01
17 2 0.01
18 7 0.05
19 2 0.01
20 18 0.13
21 103 0.73
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (21 bp):
TATTAAATTAATATTTAATAT
Found at i:14518583 original size:83 final size:84
Alignment explanation
Indices: 14518496--14518660 Score: 208
Period size: 83 Copynumber: 2.0 Consensus size: 84
14518486 TAGTATTAAG
* * * * **
14518496 ATAATATTAAA-ACAATATTCAATATTATTAAATTAATATTTAATTTTATTAAGTTAATATTTCA
1 ATAATATTAAATAC-ATATTCAATACTATTAAATTAATATTTAATATTATTAAATTAACATTAAA
14518560 TATTATTCAA-TAATATTCT
65 TATTATTCAATTAATATTCT
* * **
14518579 ATAATATTAAATTCATATTTAATACTATTACGTTAATATTTAATATTATTAAATTAACATTAAAT
1 ATAATATTAAATACATATTCAATACTATTAAATTAATATTTAATATTATTAAATTAACATTAAAT
*
14518644 ATTATTGAATTAATATT
66 ATTATTCAATTAATATT
14518661 AATTATATTA
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
83 61 0.88
84 8 0.12
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (84 bp):
ATAATATTAAATACATATTCAATACTATTAAATTAATATTTAATATTATTAAATTAACATTAAAT
ATTATTCAATTAATATTCT
Found at i:14518587 original size:62 final size:63
Alignment explanation
Indices: 14518500--14518671 Score: 206
Period size: 62 Copynumber: 2.8 Consensus size: 63
14518490 ATTAAGATAA
** * *
14518500 TATTAAAACAATATTCAATATTATTAAATTAATATTTAATTTTATTAAGTTAATATTTCATAT
1 TATTAAATTAATATTCAATATTATTAAATTAATATTTAATTATATTAAGTTAATATTTAATAT
* * * * *
14518563 TATTCAA-TAATATTCTATAATATTAAATTCATATTTAA-TACTATTACGTTAATATTTAATAT
1 TATTAAATTAATATTCAATATTATTAAATTAATATTTAATTA-TATTAAGTTAATATTTAATAT
* * *
14518625 TATTAAATTAACATTAAATATTATTGAATTAATA-TTAATTATATTAA
1 TATTAAATTAATATTCAATATTATTAAATTAATATTTAATTATATTAA
14518672 TATTTAATAT
Statistics
Matches: 90, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
61 1 0.01
62 61 0.68
63 28 0.31
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (63 bp):
TATTAAATTAATATTCAATATTATTAAATTAATATTTAATTATATTAAGTTAATATTTAATAT
Found at i:14518670 original size:15 final size:16
Alignment explanation
Indices: 14518652--14518693 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
14518642 ATATTATTGA
14518652 ATTAATATTAATTAT-
1 ATTAATATTAATTATG
14518667 ATTAATATTTAA-TATG
1 ATTAATA-TTAATTATG
14518683 ATTAAT-TTAAT
1 ATTAATATTAAT
14518694 ATTAATTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 4 0.17
15 10 0.42
16 10 0.42
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATTAATATTAATTATG
Found at i:14518681 original size:36 final size:36
Alignment explanation
Indices: 14518616--14518702 Score: 115
Period size: 36 Copynumber: 2.4 Consensus size: 36
14518606 TTACGTTAAT
*
14518616 ATTTAATATT-ATTAAATTAACATTAAATATTATTGA
1 ATTTAATATTAATTAAATTAACATTAAATATGATT-A
* * *
14518652 A-TTAATATTAATTATATTAATATTTAATATGATTA
1 ATTTAATATTAATTAAATTAACATTAAATATGATTA
14518687 ATTTAATATTAATTAA
1 ATTTAATATTAATTAA
14518703 TATATATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
35 10 0.23
36 34 0.77
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.49
Consensus pattern (36 bp):
ATTTAATATTAATTAAATTAACATTAAATATGATTA
Found at i:14518711 original size:21 final size:20
Alignment explanation
Indices: 14518658--14518711 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 20
14518648 TTGAATTAAT
14518658 ATTAATTATA-TTAATATTTA
1 ATTAATTATATTTAATA-TTA
*
14518678 ATATGATTA-ATTTAATATTA
1 AT-TAATTATATTTAATATTA
14518698 ATTAATATATATTT
1 ATTAAT-TATATTT
14518712 TTATATTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
19 3 0.11
20 10 0.36
21 15 0.54
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
ATTAATTATATTTAATATTA
Found at i:14520434 original size:19 final size:19
Alignment explanation
Indices: 14520412--14520454 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
14520402 AAATTTTTTA
*
14520412 AAAAATTCAAA-AAAATCAG
1 AAAAATT-AAATAAAATAAG
14520431 AAAAATTAAATAAAATAAG
1 AAAAATTAAATAAAATAAG
14520450 AAAAA
1 AAAAA
14520455 AGTAAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.16
Consensus pattern (19 bp):
AAAAATTAAATAAAATAAG
Found at i:14520464 original size:19 final size:18
Alignment explanation
Indices: 14520420--14520464 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
14520410 TAAAAAATTC
* *
14520420 AAAAAAATCAGAAAAATT
1 AAAAAAATAAGAAAAAGT
14520438 AAATAAAATAAGAAAAAAGT
1 AAA-AAAATAAG-AAAAAGT
14520458 AAAAAAA
1 AAAAAAA
14520465 AAATCTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 3 0.13
19 11 0.48
20 9 0.39
ACGTcount: A:0.78, C:0.02, G:0.07, T:0.13
Consensus pattern (18 bp):
AAAAAAATAAGAAAAAGT
Found at i:14520534 original size:24 final size:25
Alignment explanation
Indices: 14520507--14520569 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 25
14520497 AAAATTTTCC
14520507 AATATTTTTAATTTTTTA-AAAAAT
1 AATATTTTTAATTTTTTAGAAAAAT
14520531 AATATTTCTTTAATTTTTTAGAAAAAT
1 AATA-TT-TTTAATTTTTTAGAAAAAT
*
14520558 AA-AGTTTTAATT
1 AATATTTTTAATT
14520570 AAAATTTTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
24 11 0.31
25 3 0.09
26 13 0.37
27 8 0.23
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (25 bp):
AATATTTTTAATTTTTTAGAAAAAT
Found at i:14520675 original size:22 final size:21
Alignment explanation
Indices: 14520643--14520728 Score: 82
Period size: 21 Copynumber: 3.8 Consensus size: 21
14520633 TGGTTTTTCC
*
14520643 AAAAATTTCTTTTTTTAAAAA
1 AAAAATTTCTATTTTTAAAAA
14520664 AAAATATTTCTTTTATTTTTAAAAA
1 AAAA-ATTTC---TATTTTTAAAAA
* *
14520689 AATAATATTTCAATTTTGAAAAA
1 AA-AA-ATTTCTATTTTTAAAAA
*
14520712 ATAAATTTCTATTTTTA
1 AAAAATTTCTATTTTTA
14520729 GAATTTATAA
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
21 15 0.28
22 7 0.13
23 11 0.20
25 13 0.24
26 8 0.15
ACGTcount: A:0.45, C:0.05, G:0.01, T:0.49
Consensus pattern (21 bp):
AAAAATTTCTATTTTTAAAAA
Found at i:14520704 original size:23 final size:23
Alignment explanation
Indices: 14520647--14520728 Score: 89
Period size: 22 Copynumber: 3.6 Consensus size: 23
14520637 TTTTCCAAAA
*
14520647 ATTTCTTTTTTTAAAAAAA-AAT
1 ATTTCTATTTTTAAAAAAATAAT
14520669 ATTTCTTTTATTTTTAAAAAAATAAT
1 ATTTC---TATTTTTAAAAAAATAAT
* *
14520695 ATTTC-AATTTTGAAAAAATAA-
1 ATTTCTATTTTTAAAAAAATAAT
14520716 ATTTCTATTTTTA
1 ATTTCTATTTTTA
14520729 GAATTTATAA
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
21 5 0.10
22 24 0.48
25 13 0.26
26 8 0.16
ACGTcount: A:0.43, C:0.05, G:0.01, T:0.51
Consensus pattern (23 bp):
ATTTCTATTTTTAAAAAAATAAT
Found at i:14523010 original size:29 final size:29
Alignment explanation
Indices: 14522972--14523031 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
14522962 AAATTATAAT
* * *
14522972 AAAATATTTAATATGATACCTGAACAATA
1 AAAATATTTAAAATAATACCTAAACAATA
* *
14523001 AAAATTTTTAAAATAATACCTAAACTATA
1 AAAATATTTAAAATAATACCTAAACAATA
14523030 AA
1 AA
14523032 TCTGTTAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.55, C:0.10, G:0.03, T:0.32
Consensus pattern (29 bp):
AAAATATTTAAAATAATACCTAAACAATA
Found at i:14527089 original size:46 final size:46
Alignment explanation
Indices: 14527039--14527140 Score: 107
Period size: 46 Copynumber: 2.2 Consensus size: 46
14527029 TCAGTATGAT
* * * *
14527039 TTTTAAAGTTATCAAACCTTTGATGAAAAGGGCTTTTTAG-TTTGAA
1 TTTTAAAGTTATCAAACCTCTAATG-AAAGGACCTTTTAGATTTGAA
* * * * *
14527085 TTTTAAAATTGTCAAGCCTCTAATGAAAGGACCTTTTCGATTTGAT
1 TTTTAAAGTTATCAAACCTCTAATGAAAGGACCTTTTAGATTTGAA
14527131 TTTTAAAGTT
1 TTTTAAAGTT
14527141 GTTGAGCTTA
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
45 11 0.24
46 34 0.76
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.42
Consensus pattern (46 bp):
TTTTAAAGTTATCAAACCTCTAATGAAAGGACCTTTTAGATTTGAA
Found at i:14529669 original size:21 final size:23
Alignment explanation
Indices: 14529630--14529674 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
14529620 AATATATTTC
14529630 AAATTTTAAATAAAATAAA-AAT
1 AAATTTTAAATAAAATAAATAAT
* *
14529652 AAATTTT-TATAAATTAAATAAT
1 AAATTTTAAATAAAATAAATAAT
14529674 A
1 A
14529675 TCCCAAGCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
AAATTTTAAATAAAATAAATAAT
Found at i:14555482 original size:18 final size:18
Alignment explanation
Indices: 14555459--14555516 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
14555449 AGTCACAAAG
*
14555459 TTTTCAAATTTATAAGAA
1 TTTTCAAATTTGTAAGAA
* *
14555477 TTTTCAGATTTGCAAGAA
1 TTTTCAAATTTGTAAGAA
* *
14555495 CTTTCATATTTGTAAGAA
1 TTTTCAAATTTGTAAGAA
14555513 TTTT
1 TTTT
14555517 ATATCCGCAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.47
Consensus pattern (18 bp):
TTTTCAAATTTGTAAGAA
Found at i:14555513 original size:70 final size:69
Alignment explanation
Indices: 14555423--14555586 Score: 174
Period size: 70 Copynumber: 2.4 Consensus size: 69
14555413 AAAGATTCAC
* * * *
14555423 AAAATTT-AAATTTATAAGAATTTCATAGT-CACAAAGTTTTCAAATTTA-TAAGAATTTTCAGA
1 AAAATTTCATATTTGTAAGAATTTCATA-TCCACAAAATTTTCAAA-TTAGCAAGAATTTTCAG-
14555485 TTT-GCA
63 TTTCGCA
* * * * *
14555491 AGAACTTTCATATTTGTAAGAATTTTATATCCGCAAAATTTTTAAATTAGCAAGAATTTTTAGTT
1 A-AAATTTCATATTTGTAAGAATTTCATATCCACAAAATTTTCAAATTAGCAAGAATTTTCAGTT
14555556 TCGCA
65 TCGCA
*
14555561 AAAATTTCATATTTGCAAGAATTTCA
1 AAAATTTCATATTTGTAAGAATTTCA
14555587 AATTCGCAAG
Statistics
Matches: 79, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
68 1 0.01
69 34 0.43
70 44 0.56
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (69 bp):
AAAATTTCATATTTGTAAGAATTTCATATCCACAAAATTTTCAAATTAGCAAGAATTTTCAGTTT
CGCA
Found at i:14555583 original size:17 final size:17
Alignment explanation
Indices: 14555472--14555648 Score: 101
Period size: 17 Copynumber: 10.3 Consensus size: 17
14555462 TCAAATTTAT
*
14555472 AAGAATTTTCAGATTTGC
1 AAGAA-TTTCATATTTGC
*
14555490 AAGAACTTTCATATTTGT
1 AAGAA-TTTCATATTTGC
* **
14555508 AAGAATTTTATATCCGC
1 AAGAATTTCATATTTGC
* * *
14555525 AA-AATTTTTAAATTAGC
1 AAGAA-TTTCATATTTGC
*
14555542 AAGAATTT-TTAGTTTCGC
1 AAGAATTTCATA-TTT-GC
*
14555560 AAAAATTTCATATTTGC
1 AAGAATTTCATATTTGC
* *
14555577 AAGAATTTCAAATTCGC
1 AAGAATTTCATATTTGC
* * *
14555594 AAGAATTTGAAAATTCGC
1 AAGAATTT-CATATTTGC
* * *
14555612 TAGAA-TTAAGATTTGC
1 AAGAATTTCATATTTGC
*
14555628 AAGAATAT-ATATTTGC
1 AAGAATTTCATATTTGC
14555644 AAGAA
1 AAGAA
14555649 CTAGAGATTC
Statistics
Matches: 127, Mismatches: 25, Indels: 16
0.76 0.15 0.10
Matches are distributed among these distances:
16 26 0.20
17 53 0.42
18 46 0.36
19 2 0.02
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.37
Consensus pattern (17 bp):
AAGAATTTCATATTTGC
Found at i:14555675 original size:17 final size:17
Alignment explanation
Indices: 14555653--14555754 Score: 77
Period size: 17 Copynumber: 6.1 Consensus size: 17
14555643 CAAGAACTAG
14555653 AGATTCACTAGAATTTA
1 AGATTCACTAGAATTTA
* * *
14555670 ATATTC-GTAAGAATTGA
1 AGATTCACT-AGAATTTA
*
14555687 AGATTCA-TAAGAATTGA
1 AGATTCACT-AGAATTTA
*
14555704 AGATTCACAAGAATTT-
1 AGATTCACTAGAATTTA
* *
14555720 AGATTCAC-AAAATTTTC
1 AGATTCACTAGAA-TTTA
*
14555737 AGATTCACAAGAATTTA
1 AGATTCACTAGAATTTA
14555754 A
1 A
14555755 ATATTTGCAA
Statistics
Matches: 70, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
15 3 0.04
16 12 0.17
17 52 0.74
18 3 0.04
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (17 bp):
AGATTCACTAGAATTTA
Found at i:14555682 original size:84 final size:85
Alignment explanation
Indices: 14555576--14555795 Score: 218
Period size: 84 Copynumber: 2.6 Consensus size: 85
14555566 TTCATATTTG
* *
14555576 CAAGAATTTCAA-ATTCGCAAGAATTTGAAAATTCGCTAGAATTAAGATTTGCAAGAATATATAT
1 CAAGAATTTAAATATTCGCAAGAATTTGAAAATTCGCTAGAATTAAGATTTGCAAGAATATAGAT
** *
14555640 TTGCAAGAA-CTAGAGATTCA
66 TCACAA-AATCTACAGATTCA
* * * * ** *
14555660 CTAGAATTT-AATATTCGTAAGAA-TTGAAGATTC-ATAAGAATTGAAGATTCACAAGAATTTAG
1 CAAGAATTTAAATATTCGCAAGAATTTGAAAATTCGCT-AGAATT-AAGATTTGCAAGAATATAG
* *
14555722 ATTCACAAAATTTTCAGATTCA
64 ATTCACAAAATCTACAGATTCA
* *
14555744 CAAGAATTTAAATATTTGCAA-AATTTTGAAAATTCGCCAGAATTAAGATTTG
1 CAAGAATTTAAATATTCGCAAGAA-TTTGAAAATTCGCTAGAATTAAGATTTG
14555796 TAAAACTTTT
Statistics
Matches: 107, Mismatches: 21, Indels: 15
0.75 0.15 0.10
Matches are distributed among these distances:
82 1 0.01
83 19 0.18
84 57 0.53
85 15 0.14
86 15 0.14
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (85 bp):
CAAGAATTTAAATATTCGCAAGAATTTGAAAATTCGCTAGAATTAAGATTTGCAAGAATATAGAT
TCACAAAATCTACAGATTCA
Found at i:14555691 original size:34 final size:34
Alignment explanation
Indices: 14555643--14555751 Score: 91
Period size: 34 Copynumber: 3.2 Consensus size: 34
14555633 TATATATTTG
* * * *
14555643 CAAGAACTAGAGATTCACT-AGAATTTAATATTCG
1 CAAGAATTA-AGATTCACTAAGAATTGAAGATTCA
*
14555677 TAAGAATTGAAGATTCA-TAAGAATTGAAGATTCA
1 CAAGAATT-AAGATTCACTAAGAATTGAAGATTCA
* **
14555711 CAAGAATTTAGATTCAC-AA-AATTTTCAGATTCA
1 CAAGAATTAAGATTCACTAAGAA-TTGAAGATTCA
14555744 CAAGAATT
1 CAAGAATT
14555752 TAAATATTTG
Statistics
Matches: 62, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
32 2 0.03
33 27 0.44
34 32 0.52
35 1 0.02
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (34 bp):
CAAGAATTAAGATTCACTAAGAATTGAAGATTCA
Found at i:14557474 original size:56 final size:56
Alignment explanation
Indices: 14557341--14557555 Score: 218
Period size: 57 Copynumber: 3.8 Consensus size: 56
14557331 TTTATTTTTA
* ** * * **
14557341 AAAAATTGATACTTTCAACTTTTTCTCCAAATATTTTTTAAAAATAATTTTGTTCGAG
1 AAAAATTGATAC-TTCAACTTTTCCTTAAAATATTTTTTAAAAAT-TTTTTATTTAAG
* * * * * *
14557399 GAAAATTGATATTTAAACTTTTCCTTAAAAGACTTTTTCAAAATTTTTTATTTAAG
1 AAAAATTGATACTTCAACTTTTCCTTAAAATATTTTTTAAAAATTTTTTATTTAAG
14557455 AAAAATTGATACTTCAACTTTT-CTTCAAAATATTTTTTAAAATATTTTTTATTTAAG
1 AAAAATTGATACTTCAACTTTTCCTT-AAAATATTTTTTAAAA-ATTTTTTATTTAAG
* * * * *
14557512 GAAAATTAATACTTTAACTTTTCCTT-AAACATTTTTTAGAAATT
1 AAAAATTGATACTTCAACTTTTCCTTAAAATATTTTTTAAAAATT
14557556 AAAAAAAAAT
Statistics
Matches: 130, Mismatches: 24, Indels: 9
0.80 0.15 0.06
Matches are distributed among these distances:
55 6 0.05
56 53 0.41
57 58 0.45
58 13 0.10
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.47
Consensus pattern (56 bp):
AAAAATTGATACTTCAACTTTTCCTTAAAATATTTTTTAAAAATTTTTTATTTAAG
Found at i:14557498 original size:12 final size:12
Alignment explanation
Indices: 14557481--14557505 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14557471 ACTTTTCTTC
14557481 AAAATATTTTTT
1 AAAATATTTTTT
14557493 AAAATATTTTTT
1 AAAATATTTTTT
14557505 A
1 A
14557506 TTTAAGGAAA
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:0.00, T:0.56
Consensus pattern (12 bp):
AAAATATTTTTT
Found at i:14557600 original size:25 final size:26
Alignment explanation
Indices: 14557572--14557627 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
14557562 AAATTTAACT
* *
14557572 TTTTTAAT-TTTTGAA-TTTTTTTTTG
1 TTTTTAATATTTT-AACTTTTTCTTTA
14557597 TTTTTAATATTTTAACTTTTTCTTTA
1 TTTTTAATATTTTAACTTTTTCTTTA
14557623 TTTTT
1 TTTTT
14557628 TTAAAATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 10 0.37
26 17 0.63
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.75
Consensus pattern (26 bp):
TTTTTAATATTTTAACTTTTTCTTTA
Found at i:14558784 original size:6 final size:6
Alignment explanation
Indices: 14558773--14558805 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
14558763 TGTCGGTTTT
14558773 GATTGA GATTGA GATTGA GATTGA GATTGA GAT
1 GATTGA GATTGA GATTGA GATTGA GATTGA GAT
14558806 GGTGATGGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (6 bp):
GATTGA
Found at i:14559706 original size:18 final size:18
Alignment explanation
Indices: 14559685--14559797 Score: 90
Period size: 18 Copynumber: 6.4 Consensus size: 18
14559675 TCATATTCAT
*
14559685 AAGAATTTTTAGATTTGC
1 AAGAATTTTTATATTTGC
* * *
14559703 AAGAACTTTCATATTTGT
1 AAGAATTTTTATATTTGC
**
14559721 AAGAA-TTTTATATTCAC
1 AAGAATTTTTATATTTGC
* * *
14559738 AA-AATTTTTAAATTCGT
1 AAGAATTTTTATATTTGC
14559755 AAGAATTTTTAT-TTTCGC
1 AAGAATTTTTATATTT-GC
* *
14559773 AA-AAATTTCATATTTGC
1 AAGAATTTTTATATTTGC
14559790 AAGAATTT
1 AAGAATTT
14559798 CAGATTCACA
Statistics
Matches: 73, Mismatches: 17, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
16 2 0.03
17 34 0.47
18 37 0.51
ACGTcount: A:0.37, C:0.09, G:0.10, T:0.44
Consensus pattern (18 bp):
AAGAATTTTTATATTTGC
Found at i:14559727 original size:70 final size:69
Alignment explanation
Indices: 14559650--14559832 Score: 215
Period size: 70 Copynumber: 2.6 Consensus size: 69
14559640 TTTAAATTCA
* * * *
14559650 TAAGAATTTAAGATTCACAAGGTTTTCATATTCATAAGAATTTTTAGATTT-GCAAGAACTTTCA
1 TAAGAATTTAAGATTCACAAGATTTTAAAATTCATAAGAATTTTTA-ATTTCGCAA-AAATTTCA
14559714 TATTTG
64 TATTTG
* * * * * *
14559720 TAAGAATTTTATATTCACAAAATTTTTAAATTCGTAAGAATTTTTATTTTCGCAAAAATTTCATA
1 TAAGAATTTAAGATTCACAAGATTTTAAAATTCATAAGAATTTTTAATTTCGCAAAAATTTCATA
14559785 TTTG
66 TTTG
* * *
14559789 CAAGAATTTCAGATTCACAAGATTTTGAAAATTCATCAGAATTT
1 TAAGAATTTAAGATTCACAAGATTTT-AAAATTCATAAGAATTT
14559833 GAAAATTCGC
Statistics
Matches: 95, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
69 38 0.40
70 57 0.60
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (69 bp):
TAAGAATTTAAGATTCACAAGATTTTAAAATTCATAAGAATTTTTAATTTCGCAAAAATTTCATA
TTTG
Found at i:14559809 original size:17 final size:17
Alignment explanation
Indices: 14559630--14559810 Score: 71
Period size: 17 Copynumber: 10.6 Consensus size: 17
14559620 GTTTTGAAAG
*
14559630 ATTCACAA-AATTT-AA
1 ATTCACAAGAATTTCAT
* * *
14559645 ATTCATAAGAATTTAAG
1 ATTCACAAGAATTTCAT
**
14559662 ATTCACAAGGTTTTCAT
1 ATTCACAAGAATTTCAT
* * *
14559679 ATTCATAAGAATTTTTAG
1 ATTCACAAGAA-TTTCAT
**
14559697 ATTTGCAAGAACTTTCAT
1 ATTCACAAGAA-TTTCAT
*** *
14559715 ATTTGTAAGAATTTTAT
1 ATTCACAAGAATTTCAT
* *
14559732 ATTCACAA-AATTTTTAA
1 ATTCACAAGAA-TTTCAT
** *
14559749 ATTCGTAAGAATTTTTAT
1 ATTCACAAGAA-TTTCAT
* * *
14559767 TTTCGCAAAAATTTCAT
1 ATTCACAAGAATTTCAT
** *
14559784 ATTTGCAAGAATTTCAG
1 ATTCACAAGAATTTCAT
14559801 ATTCACAAGA
1 ATTCACAAGA
14559811 TTTTGAAAAT
Statistics
Matches: 124, Mismatches: 37, Indels: 8
0.73 0.22 0.05
Matches are distributed among these distances:
15 7 0.06
16 7 0.06
17 68 0.55
18 42 0.34
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.40
Consensus pattern (17 bp):
ATTCACAAGAATTTCAT
Found at i:14559923 original size:17 final size:18
Alignment explanation
Indices: 14559881--14559924 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
14559871 TCGCAAAAAC
*
14559881 TAGAGATTCATAAGAATT
1 TAGAGATTCGTAAGAATT
*
14559899 TA-ATATTCGTAAGAA-T
1 TAGAGATTCGTAAGAATT
14559915 TAGAGATTCG
1 TAGAGATTCG
14559925 CATGAATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 3 0.14
17 17 0.77
18 2 0.09
ACGTcount: A:0.41, C:0.07, G:0.18, T:0.34
Consensus pattern (18 bp):
TAGAGATTCGTAAGAATT
Found at i:14559932 original size:34 final size:34
Alignment explanation
Indices: 14559867--14559946 Score: 81
Period size: 34 Copynumber: 2.4 Consensus size: 34
14559857 GCAAGAATAC
*
14559867 ATATTCGCAAAAACTAGAGATTCATAAGAATTTA
1 ATATTCGCAAAAACTAGAGATTCACAAGAATTTA
* * * * *
14559901 ATATTCGTAAGAATTAGAGATTCGCATGAATTTTA
1 ATATTCGCAAAAACTAGAGATTCACAAGAA-TTTA
*
14559936 A-ATTCACAAAA
1 ATATTCGCAAAA
14559947 TTTTCAGATT
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
34 31 0.86
35 5 0.14
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.31
Consensus pattern (34 bp):
ATATTCGCAAAAACTAGAGATTCACAAGAATTTA
Found at i:14561452 original size:56 final size:55
Alignment explanation
Indices: 14561383--14561543 Score: 180
Period size: 57 Copynumber: 2.9 Consensus size: 55
14561373 TCAAATATTT
* *
14561383 TTTTAAAATATTTTTTGTTCGAGGAAAATTGATACTTAAACTTTTCCTCAAAAAAAG
1 TTTTAAAATATTTTTTATT-AAGGAAAATTGATACTTAAACTTTTCCTC-AAAAAAG
* * * * *
14561440 TTTTGAAA-ATTTTTTATTTAAGGAAAATTGATACTTCAACTTTTCTTCAAAATAT
1 TTTTAAAATATTTTTTA-TTAAGGAAAATTGATACTTAAACTTTTCCTCAAAAAAG
* * *
14561495 TGTTTCAAATATTTTTTAATTAAGGAAAATTGACACTTTAACTTTTCCT
1 T-TTTAAAATATTTTTT-ATTAAGGAAAATTGATACTTAAACTTTTCCT
14561544 TAAACATTTT
Statistics
Matches: 89, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
55 6 0.07
56 39 0.44
57 43 0.48
58 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.45
Consensus pattern (55 bp):
TTTTAAAATATTTTTTATTAAGGAAAATTGATACTTAAACTTTTCCTCAAAAAAG
Found at i:14561521 original size:113 final size:116
Alignment explanation
Indices: 14561336--14561543 Score: 282
Period size: 113 Copynumber: 1.8 Consensus size: 116
14561326 AAATTAATAG
* * * *
14561336 TTTATTTAAAGAAAAGTTGATACTTTCAATTTTTTTCTCAAATATTTTTTTAAAATATTTTTTGT
1 TTTATTTAAAGAAAAGTTGATACTTTCAATTTTCTTCTAAAATATTTGTTTAAAATATTTTTTAT
* *
14561401 TCGAGGAAAATTGATACTTAAACTTTTCCTCAAAAAAAGTTTTGAAAATTT
66 TCAAGGAAAATTGACACTTAAACTTTTCCTCAAAAAAAGTTTTGAAAATTT
* *
14561452 TTTATTTAAGGAAAA-TTGATAC-TTCAACTTTTCTTC-AAAATA-TTGTTTCAAATATTTTTTA
1 TTTATTTAAAGAAAAGTTGATACTTTCAA-TTTTCTTCTAAAATATTTGTTTAAAATATTTTTT-
*
14561513 ATT-AAGGAAAATTGACACTTTAACTTTTCCT
64 ATTCAAGGAAAATTGACACTTAAACTTTTCCT
14561544 TAAACATTTT
Statistics
Matches: 81, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
113 41 0.51
114 12 0.15
115 14 0.17
116 14 0.17
ACGTcount: A:0.36, C:0.10, G:0.08, T:0.46
Consensus pattern (116 bp):
TTTATTTAAAGAAAAGTTGATACTTTCAATTTTCTTCTAAAATATTTGTTTAAAATATTTTTTAT
TCAAGGAAAATTGACACTTAAACTTTTCCTCAAAAAAAGTTTTGAAAATTT
Found at i:14561538 original size:57 final size:56
Alignment explanation
Indices: 14561404--14561543 Score: 183
Period size: 57 Copynumber: 2.5 Consensus size: 56
14561394 TTTTTGTTCG
* *
14561404 AGGAAAATTGATACTTAAACTTTTCCTCAAAAAAAGTTTTGAAAATTTTTTATTTA
1 AGGAAAATTGATACTTAAACTTTTCCTCAAAAAAAGTTTTCAAAATTTTTTAATTA
* * * *
14561460 AGGAAAATTGATACTTCAACTTTTCTTC-AAAATATTGTTTCAAATATTTTTTAATTA
1 AGGAAAATTGATACTTAAACTTTTCCTCAAAAAAAGT-TTTCAAA-ATTTTTTAATTA
* *
14561517 AGGAAAATTGACACTTTAACTTTTCCT
1 AGGAAAATTGATACTTAAACTTTTCCT
14561544 TAAACATTTT
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
55 6 0.08
56 32 0.44
57 35 0.48
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.42
Consensus pattern (56 bp):
AGGAAAATTGATACTTAAACTTTTCCTCAAAAAAAGTTTTCAAAATTTTTTAATTA
Found at i:14563671 original size:17 final size:17
Alignment explanation
Indices: 14563634--14563804 Score: 98
Period size: 17 Copynumber: 10.0 Consensus size: 17
14563624 AAGTTTTGAA
14563634 AGATTCACAA-AA-TTT
1 AGATTCACAAGAATTTT
*
14563649 AAATTCACAAGAATTTT
1 AGATTCACAAGAATTTT
* *
14563666 AGATTCGCAA-AGTTTAT
1 AGATTCACAAGAATTT-T
* *
14563683 AGTTTCACAAAAATTTTT
1 AGATTCACAAGAA-TTTT
** *
14563701 AGATTTGCAAGAACTTTC
1 AGATTCACAAGAA-TTTT
** *
14563719 AGATTTGCAAGAATTCT
1 AGATTCACAAGAATTTT
*
14563736 ATATTCACAA-AATTTTT
1 AGATTCACAAGAA-TTTT
*
14563753 AAATTCACAAGAATTTTT
1 AGATTCACAAGAA-TTTT
* ** *
14563771 AGTTTTGCAAGAATTTC
1 AGATTCACAAGAATTTT
* *
14563788 ATATTCACAAGAGTTTT
1 AGATTCACAAGAATTTT
14563805 GAATTCGCAA
Statistics
Matches: 118, Mismatches: 31, Indels: 12
0.73 0.19 0.07
Matches are distributed among these distances:
15 9 0.08
16 8 0.07
17 55 0.47
18 43 0.36
19 3 0.03
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.39
Consensus pattern (17 bp):
AGATTCACAAGAATTTT
Found at i:14563751 original size:52 final size:52
Alignment explanation
Indices: 14563636--14563816 Score: 167
Period size: 52 Copynumber: 3.5 Consensus size: 52
14563626 GTTTTGAAAG
* * *
14563636 ATTCACAAAA--TTTAAATTCACAAGAA-TTTTAGATTCGCAA-AGTTT-AT
1 ATTCACAAAATTTTTAAATTCACAAGAACTTTCAGATTTGCAAGAATTTCAT
* **
14563683 AGTTTCACAAAAATTTTTAGATTTGCAAGAACTTTCAGATTTGCAAGAA-TTCTAT
1 A--TTCAC-AAAATTTTTAAATTCACAAGAACTTTCAGATTTGCAAGAATTTC-AT
* * *
14563738 ATTCACAAAATTTTTAAATTCACAAGAATTTTTAGTTTTGCAAGAATTTCAT
1 ATTCACAAAATTTTTAAATTCACAAGAACTTTCAGATTTGCAAGAATTTCAT
* * * *
14563790 ATTCACAAGAGTTTTGAATTCGCAAGA
1 ATTCACAAAATTTTTAAATTCACAAGA
14563817 TTTTGAAATT
Statistics
Matches: 108, Mismatches: 16, Indels: 15
0.78 0.12 0.11
Matches are distributed among these distances:
47 1 0.01
49 5 0.05
50 4 0.04
52 72 0.67
53 22 0.20
54 1 0.01
55 3 0.03
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.38
Consensus pattern (52 bp):
ATTCACAAAATTTTTAAATTCACAAGAACTTTCAGATTTGCAAGAATTTCAT
Found at i:14563826 original size:17 final size:17
Alignment explanation
Indices: 14563790--14563823 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
14563780 AGAATTTCAT
14563790 ATTCACAAGAGTTTTGA
1 ATTCACAAGAGTTTTGA
*
14563807 ATTCGCAAGA-TTTTGA
1 ATTCACAAGAGTTTTGA
14563823 A
1 A
14563824 ATTTTGCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (17 bp):
ATTCACAAGAGTTTTGA
Found at i:14565684 original size:17 final size:17
Alignment explanation
Indices: 14565647--14565816 Score: 112
Period size: 17 Copynumber: 10.0 Consensus size: 17
14565637 AAGTTTTGAA
14565647 AGATTCACAA-AA-TTT
1 AGATTCACAAGAATTTT
* *
14565662 AAATTCATAAGAATTTT
1 AGATTCACAAGAATTTT
** **
14565679 AGATTCGTAAGGTTTTT
1 AGATTCACAAGAATTTT
14565696 AGATTCACAAGAATTTT
1 AGATTCACAAGAATTTT
* ** *
14565713 CAAATTTGCAAGAACTTTC
1 -AGATTCACAAGAA-TTTT
* **
14565732 ATATTCGTAAGAATTTT
1 AGATTCACAAGAATTTT
*
14565749 ATATTCACAAGAATTTTT
1 AGATTCACAAGAA-TTTT
* * * *
14565767 AGTTTCGCAAAAATTTC
1 AGATTCACAAGAATTTT
* *
14565784 ATATTCACAAGAATTTC
1 AGATTCACAAGAATTTT
14565801 AGATTCACAAG-ATTTT
1 AGATTCACAAGAATTTT
14565817 GAAAATTCAT
Statistics
Matches: 119, Mismatches: 31, Indels: 9
0.75 0.19 0.06
Matches are distributed among these distances:
15 8 0.07
16 6 0.05
17 69 0.58
18 33 0.28
19 3 0.03
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (17 bp):
AGATTCACAAGAATTTT
Found at i:14565784 original size:70 final size:69
Alignment explanation
Indices: 14565649--14565816 Score: 164
Period size: 70 Copynumber: 2.5 Consensus size: 69
14565639 GTTTTGAAAG
* ** * *
14565649 ATTCACAA-AATTT-AAATTCATAAGAATTTTAGATTCGTAAGGTTTTTAGATTCACAAGAATTT
1 ATTCACAAGAATTTCAGATTCATAAGAATTTTAGATTCACAAGATTTTTAGATTCACAAGAAATT
14565712 TCAA
66 TCAA
** * * * * *
14565716 ATTTGCAAGAACTTTCATATTCGTAAGAATTTTATATTCACAAGAATTTTTAGTTTCGCAA-AAA
1 ATTCACAAGAA-TTTCAGATTCATAAGAATTTTAGATTCACAAG-ATTTTTAGATTCACAAGAAA
*
14565780 TTTCAT
64 TTTCAA
*
14565786 ATTCACAAGAATTTCAGATTCACAAG-ATTTT
1 ATTCACAAGAATTTCAGATTCATAAGAATTTT
14565817 GAAAATTCAT
Statistics
Matches: 80, Mismatches: 17, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
67 6 0.08
68 7 0.09
69 15 0.19
70 39 0.49
71 13 0.16
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.39
Consensus pattern (69 bp):
ATTCACAAGAATTTCAGATTCATAAGAATTTTAGATTCACAAGATTTTTAGATTCACAAGAAATT
TCAA
Found at i:14565807 original size:52 final size:53
Alignment explanation
Indices: 14565696--14565816 Score: 149
Period size: 52 Copynumber: 2.3 Consensus size: 53
14565686 TAAGGTTTTT
* ** *
14565696 AGATTCACAAGAATTTTCAAATTTGCAAGAACTTTCATATTCGTAAGAATTTT
1 AGATTCACAAGAATTTTCAAATTTGCAAGAAATTTCATATTCACAAGAATTTC
* * *
14565749 ATATTCACAAGAATTTT-TAGTTTCGCAA-AAATTTCATATTCACAAGAATTTC
1 AGATTCACAAGAATTTTCAAATTT-GCAAGAAATTTCATATTCACAAGAATTTC
14565801 AGATTCACAAG-ATTTT
1 AGATTCACAAGAATTTT
14565817 GAAAATTCAT
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
51 5 0.08
52 34 0.58
53 20 0.34
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (53 bp):
AGATTCACAAGAATTTTCAAATTTGCAAGAAATTTCATATTCACAAGAATTTC
Found at i:14565851 original size:18 final size:18
Alignment explanation
Indices: 14565814--14565851 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
14565804 TTCACAAGAT
*
14565814 TTTGAAAATTCATCAAAA
1 TTTGAAAATTCACCAAAA
*
14565832 TTTGAAAATTCACCATAA
1 TTTGAAAATTCACCAAAA
14565850 TT
1 TT
14565852 AAGATTTGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.45, C:0.13, G:0.05, T:0.37
Consensus pattern (18 bp):
TTTGAAAATTCACCAAAA
Found at i:14565874 original size:16 final size:16
Alignment explanation
Indices: 14565853--14565899 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
14565843 ACCATAATTA
*
14565853 AGATTTGCAAGAATAT
1 AGATTTGCAAGAATAG
*
14565869 AGATTTGTAAGAACTAG
1 AGATTTGCAAGAA-TAG
*
14565886 AAATTTGCAAGAAT
1 AGATTTGCAAGAAT
14565900 TTTAAATTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.45, C:0.06, G:0.19, T:0.30
Consensus pattern (16 bp):
AGATTTGCAAGAATAG
Found at i:14565953 original size:16 final size:17
Alignment explanation
Indices: 14565659--14565955 Score: 95
Period size: 17 Copynumber: 17.4 Consensus size: 17
14565649 ATTCACAAAA
**
14565659 TTTAAATTCATAAGAAT
1 TTTAAATTCGCAAGAAT
* * **
14565676 TTTAGATTCGTAAGGTT
1 TTTAAATTCGCAAGAAT
* *
14565693 TTTAGATTCACAAGAAT
1 TTTAAATTCGCAAGAAT
*
14565710 TTTCAAATTTGCAAGAACT
1 TTT-AAATTCGCAAGAA-T
* * *
14565729 TTCATATTCGTAAGAAT
1 TTTAAATTCGCAAGAAT
* *
14565746 TTTATATTCACAAGAATT
1 TTTAAATTCGCAAGAA-T
** *
14565764 TTTAGTTTCGCAAAAAT
1 TTTAAATTCGCAAGAAT
* * *
14565781 TTCATATTCACAAGAAT
1 TTTAAATTCGCAAGAAT
* * *
14565798 TTCAGATTCACAAG-AT
1 TTTAAATTCGCAAGAAT
*
14565814 TTTGAAAATTCATCAA-AAT
1 TTT--AAATTC-GCAAGAAT
* * * *
14565833 TTGAAAATTCACCATAA-
1 TT-TAAATTCGCAAGAAT
*
14565850 -TTAAGATTTGCAAGAA-
1 TTTAA-ATTCGCAAGAAT
* * * * *
14565866 TATAGATTTGTAAGAAC
1 TTTAAATTCGCAAGAAT
** *
14565883 TAGAAATTTGCAAGAAT
1 TTTAAATTCGCAAGAAT
**
14565900 TTTAAATTTACAA-AAT
1 TTTAAATTCGCAAGAAT
* *
14565916 TTTCATATTCGTAAGAAT
1 TTT-AAATTCGCAAGAAT
14565934 TTTAAATTCGCAAG-AT
1 TTTAAATTCGCAAGAAT
14565950 TTTAAA
1 TTTAAA
14565956 AATTCATCAG
Statistics
Matches: 211, Mismatches: 55, Indels: 29
0.72 0.19 0.10
Matches are distributed among these distances:
15 2 0.01
16 36 0.17
17 111 0.53
18 52 0.25
19 10 0.05
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (17 bp):
TTTAAATTCGCAAGAAT
Found at i:14566065 original size:21 final size:22
Alignment explanation
Indices: 14566039--14566084 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
14566029 AATTTGAGAA
14566039 ATTCACATCCAAAA-TTCCAAT
1 ATTCACATCCAAAATTTCCAAT
* *
14566060 ATTCACATTCAAAATTTTCAAT
1 ATTCACATCCAAAATTTCCAAT
14566082 ATT
1 ATT
14566085 TCAAAGATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.41, C:0.22, G:0.00, T:0.37
Consensus pattern (22 bp):
ATTCACATCCAAAATTTCCAAT
Found at i:14568379 original size:42 final size:43
Alignment explanation
Indices: 14568310--14568408 Score: 105
Period size: 42 Copynumber: 2.3 Consensus size: 43
14568300 TTAATAACCT
* ** * *
14568310 AAAACGCCACTAATCAATAGCATTTAGC-AGTGTTTGT-TCTTC
1 AAAACACCACTAATCAATAAAAATTAGCGA-TGTTTGTATCTAC
*
14568352 AAAACACCACTAATTAATAAAAATTAGCGATGTTTGTAGTCTAC
1 AAAACACCACTAATCAATAAAAATTAGCGATGTTTGTA-TCTAC
14568396 -AAACACCACTAAT
1 AAAACACCACTAAT
14568409 GGAATTATTA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
42 30 0.62
43 14 0.29
44 4 0.08
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.29
Consensus pattern (43 bp):
AAAACACCACTAATCAATAAAAATTAGCGATGTTTGTATCTAC
Found at i:14568753 original size:17 final size:18
Alignment explanation
Indices: 14568727--14568761 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
14568717 TTTTCTTTGA
14568727 TTTCCATTTCCATTTTCC
1 TTTCCATTTCCATTTTCC
*
14568745 TTTCC-TTTCCTTTTTCC
1 TTTCCATTTCCATTTTCC
14568762 CCCATTATGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.06, C:0.34, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTCCATTTCCATTTTCC
Found at i:14572880 original size:29 final size:28
Alignment explanation
Indices: 14572838--14572893 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
14572828 TATGTGAGGA
*
14572838 AGCAATTTTATTTCGATGGACTAAATCTG
1 AGCAATTTTATTTCGAT-AACTAAATCTG
*
14572867 AGCAATTTTATTTCTATAACTAAATCT
1 AGCAATTTTATTTCGATAACTAAATCT
14572894 AACTACCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 9 0.36
29 16 0.64
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (28 bp):
AGCAATTTTATTTCGATAACTAAATCTG
Found at i:14578845 original size:24 final size:23
Alignment explanation
Indices: 14578818--14578867 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
14578808 AAAATTTTAT
*
14578818 TTTATTTTAAGGAAAAATTAATAC
1 TTTA-TTTAAGGAAAAATGAATAC
*
14578842 TTTATTTAAGGAAAAATGGATAC
1 TTTATTTAAGGAAAAATGAATAC
14578865 TTT
1 TTT
14578868 CAACATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.42, C:0.04, G:0.12, T:0.42
Consensus pattern (23 bp):
TTTATTTAAGGAAAAATGAATAC
Found at i:14578983 original size:55 final size:56
Alignment explanation
Indices: 14578842--14579008 Score: 180
Period size: 55 Copynumber: 2.9 Consensus size: 56
14578832 AAATTAATAC
* * **
14578842 TTTATTTAAGGAAAAATGGATACTTTCAACATTTTTGCAAAATATTTTTAAAAAATATTT
1 TTTATTTAAGG-AAAATTGATAC-TTCAAC-TTTTTCCAAAATATTTTT-TTAAATATTT
* *
14578902 TTTATTTAA-GAAAATTTGATAATTCAACTTTTTCTCAAAACATTTTTTTAAA-A-TT
1 TTTATTTAAGGAAAA-TTGATACTTCAACTTTTTC-CAAAATATTTTTTTAAATATTT
*
14578957 TTTATTTAAGGAAAATTGATACTTCAA-TTTTTCCTTAAATATTTTTTTAAAT
1 TTTATTTAAGGAAAATTGATACTTCAACTTTTTCC-AAAATATTTTTTTAAAT
14579009 TTAAAACAAA
Statistics
Matches: 93, Mismatches: 9, Indels: 15
0.79 0.08 0.13
Matches are distributed among these distances:
53 1 0.01
54 20 0.22
55 22 0.24
56 6 0.06
57 8 0.09
58 21 0.23
59 6 0.06
60 9 0.10
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.48
Consensus pattern (56 bp):
TTTATTTAAGGAAAATTGATACTTCAACTTTTTCCAAAATATTTTTTTAAATATTT
Found at i:14584899 original size:29 final size:30
Alignment explanation
Indices: 14584842--14584896 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
14584832 CTCTATTTTT
*
14584842 TTTGTTTTTTCCTTTTCTTGTATTCTTATG
1 TTTGTTTTTTCCTTTTCTTGTATCCTTATG
*
14584872 TTTGTTTTTT-CTTTT-TTTTATCCTT
1 TTTGTTTTTTCCTTTTCTTGTATCCTT
14584897 TATCCTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 8 0.35
29 5 0.22
30 10 0.43
ACGTcount: A:0.05, C:0.13, G:0.07, T:0.75
Consensus pattern (30 bp):
TTTGTTTTTTCCTTTTCTTGTATCCTTATG
Found at i:14585075 original size:28 final size:28
Alignment explanation
Indices: 14585018--14585098 Score: 83
Period size: 28 Copynumber: 2.9 Consensus size: 28
14585008 CAGATTTTGG
* * *
14585018 GCCCGATTGAATTAAAATTGGGCTTGAA
1 GCCCAATTGAATTAAAATCGGGCTTAAA
*
14585046 GCCCAATTGAATTAAAATCGAG-TCTAAA
1 GCCCAATTGAATTAAAATCGGGCT-TAAA
* * *
14585074 GCCTAATTGAATTGAGATCGGGCTT
1 GCCCAATTGAATTAAAATCGGGCTT
14585099 CGACCCGAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
27 1 0.02
28 41 0.95
29 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.28
Consensus pattern (28 bp):
GCCCAATTGAATTAAAATCGGGCTTAAA
Found at i:14585465 original size:104 final size:103
Alignment explanation
Indices: 14585357--14585659 Score: 371
Period size: 104 Copynumber: 2.9 Consensus size: 103
14585347 TTAAAATCTA
* * *
14585357 AAAAAGGCTCCTCTCAA-CAGAGGCTCAATAACTTTAAAAATTCTCATCTTAAAAAAGGCTCCTT
1 AAAAAGGCTCCTCT-AAGTAGAGGCTCAACAACTTTAAAAATTCTCATCTTAAAAAA-GCTCCTC
*
14585421 TAAGCAGAGGCTCAACAACTTTAAAGAAATTCTCATATTG
64 TAAGTAGAGGCTCAACAACTTTAAAGAAATTCTCATATTG
* * * * * *
14585461 AAAAAAGCTCCTCTAAGTAAAGGCTCAACAACATTAAAAAAATTCTCATTTTGAAAAAGTTCCTC
1 AAAAAGGCTCCTCTAAGTAGAGGCTCAACAAC-TT-TAAAAATTCTCATCTTAAAAAAGCTCCTC
* *
14585526 TAAATAGAGGCTCAACAACTTTAAA-AAATTTCTCATCTTG
64 TAAGTAGAGGCTCAACAACTTTAAAGAAA-TTCTCATATTG
* * * *
14585566 -AAAAGGCTCTTCTAAGTAGAAGCTCAACACCTTTAAAAATTCT-ATCTTAAAAAAGCTTCTCTA
1 AAAAAGGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATTCTCATCTTAAAAAAGCTCCTCTA
* *
14585629 AGTAGAGGATCAATAACTTTAAAGAAATTCT
66 AGTAGAGGCTCAACAACTTTAAAGAAATTCT
14585660 TTTTGAAACT
Statistics
Matches: 169, Mismatches: 25, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
101 40 0.24
102 12 0.07
103 4 0.02
104 54 0.32
105 40 0.24
106 19 0.11
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.28
Consensus pattern (103 bp):
AAAAAGGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATTCTCATCTTAAAAAAGCTCCTCTA
AGTAGAGGCTCAACAACTTTAAAGAAATTCTCATATTG
Found at i:14585471 original size:53 final size:52
Alignment explanation
Indices: 14585356--14585659 Score: 336
Period size: 52 Copynumber: 5.9 Consensus size: 52
14585346 TTTAAAATCT
* *
14585356 AAAAAAGGCTCCTCTCAA-CAGAGGCTCAATAACTTT-AAAAATTCTCATCTT-
1 AAAAAA-GCTCCTCT-AAGTAGAGGCTCAACAACTTTAAAAAATTCTCATCTTG
* * *
14585407 AAAAAAGGCTCCTTTAAGCAGAGGCTCAACAACTTTAAAGAAATTCTCATATTG
1 AAAAAA-GCTCCTCTAAGTAGAGGCTCAACAACTTTAAA-AAATTCTCATCTTG
* * *
14585461 AAAAAAGCTCCTCTAAGTAAAGGCTCAACAACATTAAAAAAATTCTCATTTTG
1 AAAAAAGCTCCTCTAAGTAGAGGCTCAACAAC-TTTAAAAAATTCTCATCTTG
* *
14585514 -AAAAAGTTCCTCTAAATAGAGGCTCAACAACTTTAAAAAATTTCTCATCTTG
1 AAAAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAAAA-TTCTCATCTTG
* * * *
14585566 -AAAAGGCTCTTCTAAGTAGAAGCTCAACACCTTT-AAAAATTCT-ATCTT-
1 AAAAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAAAATTCTCATCTTG
* * *
14585614 AAAAAAGCTTCTCTAAGTAGAGGATCAATAACTTTAAAGAAATTCT
1 AAAAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAA-AAATTCT
14585660 TTTTGAAACT
Statistics
Matches: 218, Mismatches: 26, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
49 32 0.15
50 8 0.04
51 51 0.23
52 68 0.31
53 48 0.22
54 11 0.05
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.28
Consensus pattern (52 bp):
AAAAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAAAATTCTCATCTTG
Found at i:14586495 original size:11 final size:12
Alignment explanation
Indices: 14586466--14586497 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
14586456 TTTTTTTTGA
14586466 CTTTTTT-TTCT
1 CTTTTTTCTTCT
14586477 CTTTTTTCTTCT
1 CTTTTTTCTTCT
14586489 -TTTTTTCTT
1 CTTTTTTCTT
14586498 TAAGCAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 16 0.80
12 4 0.20
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (12 bp):
CTTTTTTCTTCT
Found at i:14590791 original size:28 final size:28
Alignment explanation
Indices: 14590749--14590817 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 28
14590739 CTTTGGTCGG
* *
14590749 GTTGAATTAAGATTGGGCTTGAAGCCCA
1 GTTGAATTAAAATTGGGCCTGAAGCCCA
14590777 GTTGAATTAAAATTGGGCCTGAAGCCCA
1 GTTGAATTAAAATTGGGCCTGAAGCCCA
*
14590805 GTTGAATTGAAAT
1 GTTGAATTAAAAT
14590818 CGAGCTTCAG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (28 bp):
GTTGAATTAAAATTGGGCCTGAAGCCCA
Found at i:14591534 original size:3 final size:3
Alignment explanation
Indices: 14591526--14591585 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
14591516 ATTTTATGCC
14591526 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
14591574 TAT TAT TAT TAT
1 TAT TAT TAT TAT
14591586 AAACTTACTT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:14591835 original size:5 final size:5
Alignment explanation
Indices: 14591799--14591900 Score: 64
Period size: 5 Copynumber: 19.0 Consensus size: 5
14591789 CTAATTATTC
** * *
14591799 ATTTT ATTAC ATTTT ATTTT TTTCTCT CTTTT ATTTT ATTTT ATTTT AATTTT
1 ATTTT ATTTT ATTTT ATTTT ATT-T-T ATTTT ATTTT ATTTT ATTTT -ATTTT
*
14591852 -TTCT ATTATT -TATTT ATTTAT GATTTT ATTTT ATTTTAT ATTTT ATTTT
1 ATTTT ATT-TT AT-TTT ATTT-T -ATTTT ATTTT A-TTT-T ATTTT ATTTT
14591901 TTTAAATAAA
Statistics
Matches: 77, Mismatches: 9, Indels: 22
0.71 0.08 0.20
Matches are distributed among these distances:
4 3 0.04
5 47 0.61
6 18 0.23
7 9 0.12
ACGTcount: A:0.21, C:0.05, G:0.01, T:0.74
Consensus pattern (5 bp):
ATTTT
Found at i:14591864 original size:32 final size:32
Alignment explanation
Indices: 14591792--14591900 Score: 91
Period size: 32 Copynumber: 3.4 Consensus size: 32
14591782 AATTAAGCTA
* ** *
14591792 ATTATTCATTTTATTACATTTTATTTTTTTCT
1 ATTATTTATTTTATTTTATTTTAATTTTTTCT
*
14591824 CTCT-TTTATTTTATTTTATTTTAATTTTTTCT
1 AT-TATTTATTTTATTTTATTTTAATTTTTTCT
*
14591856 ATTATTTA-TTTATTTATGATTTT-ATTTTATTTT
1 ATTATTTATTTTATTT-T-ATTTTAATTTT-TTCT
14591889 A-TATTTTATTTT
1 ATTA-TTTATTTT
14591901 TTTAAATAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
31 8 0.13
32 38 0.60
33 14 0.22
34 3 0.05
ACGTcount: A:0.21, C:0.06, G:0.01, T:0.72
Consensus pattern (32 bp):
ATTATTTATTTTATTTTATTTTAATTTTTTCT
Found at i:14592633 original size:22 final size:24
Alignment explanation
Indices: 14592588--14592641 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 24
14592578 TTCATCTATT
14592588 TTTATTTTTATTACTTTAACA-TTTC
1 TTTATTTTTATTA--TTAACATTTTC
14592613 ATTTATTTTTATTA-TAA-ATTTTC
1 -TTTATTTTTATTATTAACATTTTC
14592636 TTTATT
1 TTTATT
14592642 AGAAAATTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
22 7 0.26
23 7 0.26
26 13 0.48
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (24 bp):
TTTATTTTTATTATTAACATTTTC
Found at i:14593720 original size:20 final size:20
Alignment explanation
Indices: 14593688--14593736 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
14593678 AGGAGATTTC
*
14593688 AAATGATTA-TTTTTTCTAAG
1 AAAT-ATTATTTTTTTCAAAG
*
14593708 AAATATTATTTTTTTGAAAG
1 AAATATTATTTTTTTCAAAG
*
14593728 AATTATTAT
1 AAATATTAT
14593737 AAGATTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.51
Consensus pattern (20 bp):
AAATATTATTTTTTTCAAAG
Found at i:14597765 original size:41 final size:41
Alignment explanation
Indices: 14597698--14597800 Score: 127
Period size: 41 Copynumber: 2.5 Consensus size: 41
14597688 TTGTTTTTAT
* *
14597698 AATATAAACTAAAGCTTTAAATACAATAAT-ATCTAAATGAA
1 AATACAAACTAAAGCTTTAAAAACAATAATAAT-TAAATGAA
* **
14597739 AATACAAACTAAAGTTTTAAAAACAATAATAATTTCATGAA
1 AATACAAACTAAAGCTTTAAAAACAATAATAATTAAATGAA
* *
14597780 AATGCCAACTAAAGCTTTAAA
1 AATACAAACTAAAGCTTTAAA
14597801 TAAGGAAACA
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
41 51 0.96
42 2 0.04
ACGTcount: A:0.54, C:0.12, G:0.06, T:0.28
Consensus pattern (41 bp):
AATACAAACTAAAGCTTTAAAAACAATAATAATTAAATGAA
Found at i:14598491 original size:19 final size:19
Alignment explanation
Indices: 14598464--14598501 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
14598454 TTTACATATG
*
14598464 TAAAGAAAAATAACAATAA
1 TAAACAAAAATAACAATAA
*
14598483 TAAACAAAACTAACAATAA
1 TAAACAAAAATAACAATAA
14598502 CATGTAACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.71, C:0.11, G:0.03, T:0.16
Consensus pattern (19 bp):
TAAACAAAAATAACAATAA
Found at i:14600053 original size:13 final size:14
Alignment explanation
Indices: 14600035--14600063 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
14600025 GCCTAATCTG
14600035 AATAAAATA-TATA
1 AATAAAATATTATA
14600048 AATAAAATATTATA
1 AATAAAATATTATA
14600062 AA
1 AA
14600064 AGAATTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
AATAAAATATTATA
Found at i:14600510 original size:18 final size:19
Alignment explanation
Indices: 14600484--14600522 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
14600474 GCAGAAAATA
*
14600484 AATCTAAACT-AATGCAGT
1 AATCAAAACTAAATGCAGT
14600502 AATCAAAACTAAATGCAGT
1 AATCAAAACTAAATGCAGT
14600521 AA
1 AA
14600523 AATTTAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.51, C:0.15, G:0.10, T:0.23
Consensus pattern (19 bp):
AATCAAAACTAAATGCAGT
Found at i:14600532 original size:23 final size:23
Alignment explanation
Indices: 14600506--14600550 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
14600496 TGCAGTAATC
*
14600506 AAAACTAAATGCAGTAAAATTTA
1 AAAACTAAATGCAGAAAAATTTA
14600529 AAAACTAAATGCAGAAAAATTT
1 AAAACTAAATGCAGAAAAATTT
14600551 TAAAGCGCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.58, C:0.09, G:0.09, T:0.24
Consensus pattern (23 bp):
AAAACTAAATGCAGAAAAATTTA
Found at i:14602017 original size:15 final size:15
Alignment explanation
Indices: 14601997--14602032 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
14601987 TTCCAAGTTT
*
14601997 GATAAAACAAACATC
1 GATAAAACAAACATA
14602012 GATAAAACAAACATA
1 GATAAAACAAACATA
14602027 GATAAA
1 GATAAA
14602033 GAATTACACC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.64, C:0.14, G:0.08, T:0.14
Consensus pattern (15 bp):
GATAAAACAAACATA
Done.