Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr6
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: 26303135
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.30
Warning! 1968672 characters in sequence are not A, C, G, or T
File 40 of 66
Found at i:14169360 original size:118 final size:118
Alignment explanation
Indices: 14169087--14169367 Score: 273
Period size: 118 Copynumber: 2.4 Consensus size: 118
14169077 TGGTGGAGCA
* * * * * * * * *
14169087 TGACTTGTGTAATTCATGTGTTGTTTAGAGGCTTTTGTT--CTAGTGTTTTTAGGGTTGCGTGAC
1 TGACTTGTGCAATTCATCTCTTGTTTAGAGGCTCTTGTTCACTAGTG-TTTTAGGATTTCATTAT
*** * * * * * *
14169150 CAATTTTTATATATTACGTTACCTGTTGTTATGTATTGCGAGAGTGGTTGCACG
65 TGGTTTTTATATATTACGTGACCTATTGTTATATATTGCGAAAGCGGTGGCACG
* * * *
14169204 TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTGTTTTAGGATTTCATTATT
1 TGACTTGTGCAATTCATCTCTTGTTTAGAGGCTCTTGTTCACTAGTGTTTTAGGATTTCATTATT
* **
14169269 GGTTTTTATGTATTACGTGACCTATTGTTATATATTGCGAAAGCGGTGGTGCG
66 GGTTTTTATATATTACGTGACCTATTGTTATATATTGCGAAAGCGGTGGCACG
*
14169322 TGACTTGTGCAATTC-TCCTCTTGTTTAG-GGGTGCTTGTTCACTAGT
1 TGACTTGTGCAATTCAT-CTCTTGTTTAGAGGCT-CTTGTTCACTAGT
14169368 TATCAGGCAT
Statistics
Matches: 136, Mismatches: 24, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
117 42 0.31
118 89 0.65
119 5 0.04
ACGTcount: A:0.18, C:0.12, G:0.25, T:0.45
Consensus pattern (118 bp):
TGACTTGTGCAATTCATCTCTTGTTTAGAGGCTCTTGTTCACTAGTGTTTTAGGATTTCATTATT
GGTTTTTATATATTACGTGACCTATTGTTATATATTGCGAAAGCGGTGGCACG
Found at i:14172468 original size:62 final size:56
Alignment explanation
Indices: 14172392--14172509 Score: 157
Period size: 62 Copynumber: 2.0 Consensus size: 56
14172382 TTTTGATGCT
14172392 TGATTTGGTTAGATTTTAATGTATTCTAGTG-TTTTAGTTGTATTGGTGATGTGTAG
1 TGATTTGGTTAGATTTTAATGTATTCTAGTGTTTTTAGTTG-ATTGGTGATGTGTAG
*
14172448 NNNNNNTGATTTGGTTAGATTTTAATGTATTTTAGTGTTTTTAGTTGATTGGTGATGTGTAG
1 ------TGATTTGGTTAGATTTTAATGTATTCTAGTGTTTTTAGTTGATTGGTGATGTGTAG
14172510 CATGAAAATC
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
62 45 0.83
63 9 0.17
ACGTcount: A:0.19, C:0.01, G:0.25, T:0.50
Consensus pattern (56 bp):
TGATTTGGTTAGATTTTAATGTATTCTAGTGTTTTTAGTTGATTGGTGATGTGTAG
Found at i:14175980 original size:40 final size:40
Alignment explanation
Indices: 14175929--14176021 Score: 168
Period size: 40 Copynumber: 2.3 Consensus size: 40
14175919 TGCATAGTTA
* *
14175929 GATCATTAAATTCCAATTACAGTACTTAGCCCATTTGTTG
1 GATCATCAAATTCCAATTACAGTACATAGCCCATTTGTTG
14175969 GATCATCAAATTCCAATTACAGTACATAGCCCATTTGTTG
1 GATCATCAAATTCCAATTACAGTACATAGCCCATTTGTTG
14176009 GATCATCAAATTC
1 GATCATCAAATTC
14176022 ATTGTACTCC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (40 bp):
GATCATCAAATTCCAATTACAGTACATAGCCCATTTGTTG
Found at i:14178444 original size:23 final size:23
Alignment explanation
Indices: 14178418--14178474 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
14178408 AAAATAGGTG
*
14178418 AGTCACGCGATACAAGATCATCT
1 AGTCACGCGATACAAGATCATAT
* * *
14178441 AGTCACGCGATCCCATATCATAT
1 AGTCACGCGATACAAGATCATAT
14178464 AGTCACGCGAT
1 AGTCACGCGAT
14178475 TCAATAAGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.23
Consensus pattern (23 bp):
AGTCACGCGATACAAGATCATAT
Found at i:14179231 original size:15 final size:15
Alignment explanation
Indices: 14179210--14179245 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
14179200 CGAGAAGGGG
14179210 AAAGAGGCAGCATCC
1 AAAGAGGCAGCATCC
* *
14179225 GAAGAGGCAGCCTCC
1 AAAGAGGCAGCATCC
14179240 AAAGAG
1 AAAGAG
14179246 AATGAGGTGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.39, C:0.25, G:0.31, T:0.06
Consensus pattern (15 bp):
AAAGAGGCAGCATCC
Found at i:14180199 original size:23 final size:23
Alignment explanation
Indices: 14180136--14180199 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 23
14180126 AGAATAGGTG
* *
14180136 AGTCATGCGATACAATAGCAACT
1 AGTCATGCGATCCAATATCAACT
** * *
14180159 AGTCACACGATCCCATATCATCT
1 AGTCATGCGATCCAATATCAACT
14180182 AGTCATGCGATCCAATAT
1 AGTCATGCGATCCAATAT
14180200 GAATTCATTA
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (23 bp):
AGTCATGCGATCCAATATCAACT
Found at i:14180907 original size:23 final size:23
Alignment explanation
Indices: 14180875--14180932 Score: 62
Period size: 26 Copynumber: 2.3 Consensus size: 23
14180865 GTATCACATG
*
14180875 AATGAATACAAAGAATAATATGTA
1 AATG-ATACAAAGAATAATATGGA
14180899 AATGATACAACAAAGAATAATATGGA
1 AATGAT---ACAAAGAATAATATGGA
*
14180925 GATGATAC
1 AATGATAC
14180933 CGAATAATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
23 4 0.14
24 4 0.14
26 21 0.72
ACGTcount: A:0.55, C:0.07, G:0.16, T:0.22
Consensus pattern (23 bp):
AATGATACAAAGAATAATATGGA
Found at i:14180913 original size:26 final size:26
Alignment explanation
Indices: 14180882--14180932 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
14180872 ATGAATGAAT
*
14180882 ACAAAGAATAATATGTAAATGATACA
1 ACAAAGAATAATATGGAAATGATACA
*
14180908 ACAAAGAATAATATGGAGATGATAC
1 ACAAAGAATAATATGGAAATGATAC
14180933 CGAATAATGT
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:0.55, C:0.08, G:0.16, T:0.22
Consensus pattern (26 bp):
ACAAAGAATAATATGGAAATGATACA
Found at i:14182602 original size:63 final size:63
Alignment explanation
Indices: 14182494--14182623 Score: 179
Period size: 63 Copynumber: 2.1 Consensus size: 63
14182484 CTGTGTTTGT
* * * * * * * *
14182494 ATCTGCATTGCCCGCTGGATCTCCAACTGCATTTACTGCTGGATCTCCAACTGCATTGACTAC
1 ATCTACATCGCCCGCTAGATCTCCAACTACATTGACTACTAGATCTCCAACTGCATTAACTAC
*
14182557 ATCTACATCGCCCGCTAGATCTCCAACTACATTGACTACTAGATCTCCAACTGCATTAACTGC
1 ATCTACATCGCCCGCTAGATCTCCAACTACATTGACTACTAGATCTCCAACTGCATTAACTAC
14182620 ATCT
1 ATCT
14182624 GCATATTCAT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.25, C:0.32, G:0.14, T:0.29
Consensus pattern (63 bp):
ATCTACATCGCCCGCTAGATCTCCAACTACATTGACTACTAGATCTCCAACTGCATTAACTAC
Found at i:14184510 original size:23 final size:23
Alignment explanation
Indices: 14184484--14184528 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
14184474 TGTGCAATTT
14184484 CCTACAACAATT-GTCACACAATG
1 CCTA-AACAATTAGTCACACAATG
*
14184507 CCTAATCAATTAGTCACACAAT
1 CCTAAACAATTAGTCACACAAT
14184529 TACTAACATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.40, C:0.29, G:0.07, T:0.24
Consensus pattern (23 bp):
CCTAAACAATTAGTCACACAATG
Found at i:14184534 original size:23 final size:22
Alignment explanation
Indices: 14184489--14184552 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 22
14184479 AATTTCCTAC
*
14184489 AACAATT-GTCACACAATGCCT
1 AACAATTAGTCACACAATGACT
*
14184510 AATCAATTAGTCACACAATTACT
1 AA-CAATTAGTCACACAATGACT
*
14184533 AAC-ATTAAATCACACAATGA
1 AACAATT-AGTCACACAATGA
14184553 TTTATAAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
21 5 0.14
22 17 0.47
23 14 0.39
ACGTcount: A:0.45, C:0.23, G:0.06, T:0.25
Consensus pattern (22 bp):
AACAATTAGTCACACAATGACT
Found at i:14184662 original size:23 final size:23
Alignment explanation
Indices: 14184636--14184683 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
14184626 TAATATTCAG
14184636 GCAATAACATAGAAATCAGTCAC
1 GCAATAACATAGAAATCAGTCAC
* * **
14184659 GCAATGACCTATCAATCAGTCAC
1 GCAATAACATAGAAATCAGTCAC
14184682 GC
1 GC
14184684 TAAGTTAAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.27, G:0.15, T:0.19
Consensus pattern (23 bp):
GCAATAACATAGAAATCAGTCAC
Found at i:14195690 original size:42 final size:42
Alignment explanation
Indices: 14195643--14195768 Score: 164
Period size: 42 Copynumber: 3.0 Consensus size: 42
14195633 CAGCTCATAT
*
14195643 GCATCGGCTTATGTGCTCTCCCACTCGCACATAGCCGGGTCA
1 GCATCGGCTTATGTGCACTCCCACTCGCACATAGCCGGGTCA
* ** *
14195685 GCATCGGTTTATGCCCAC-CCTTACTCGCACATAGCCGGGTCA
1 GCATCGGCTTATGTGCACTCC-CACTCGCACATAGCCGGGTCA
** *
14195727 GCATCGGCTTATGCACACTCCTACTCGCACATAGCCGGGTCA
1 GCATCGGCTTATGTGCACTCCCACTCGCACATAGCCGGGTCA
14195769 ATATCATTAC
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
41 2 0.03
42 71 0.95
43 2 0.03
ACGTcount: A:0.19, C:0.36, G:0.22, T:0.23
Consensus pattern (42 bp):
GCATCGGCTTATGTGCACTCCCACTCGCACATAGCCGGGTCA
Found at i:14240519 original size:19 final size:20
Alignment explanation
Indices: 14240481--14240519 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
14240471 ATAAAGATAT
*
14240481 AATTTATATTAAAATATAAA
1 AATTTATATAAAAATATAAA
14240501 AATTTATATAAAAAT-TAAA
1 AATTTATATAAAAATATAAA
14240520 CTAAAATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AATTTATATAAAAATATAAA
Found at i:14257402 original size:24 final size:24
Alignment explanation
Indices: 14257353--14257402 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
14257343 TTAATAAAAC
*
14257353 TTTAAAAATATAAATTTTTTATTA
1 TTTAAAAATATAAATTTTTTAGTA
* *
14257377 TTTAAAAATTTATATTTTATT-GTA
1 TTTAAAAATATAAATTTT-TTAGTA
14257401 TT
1 TT
14257403 CAAATAAATC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 20 0.91
25 2 0.09
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (24 bp):
TTTAAAAATATAAATTTTTTAGTA
Found at i:14257450 original size:18 final size:19
Alignment explanation
Indices: 14257414--14257465 Score: 83
Period size: 19 Copynumber: 2.9 Consensus size: 19
14257404 AAATAAATCT
14257414 TTTAAGAAAATTT--ATTA
1 TTTAAGAAAATTTAAATTA
14257431 TTTAA-AAAATTTAAATTA
1 TTTAAGAAAATTTAAATTA
14257449 TTTAAGAAAATTTAAAT
1 TTTAAGAAAATTTAAAT
14257466 AAATCTTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.22
17 5 0.16
18 9 0.28
19 11 0.34
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (19 bp):
TTTAAGAAAATTTAAATTA
Found at i:14260250 original size:13 final size:13
Alignment explanation
Indices: 14260232--14260256 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14260222 GGAAAATGGG
14260232 ATTTTATAAAATA
1 ATTTTATAAAATA
14260245 ATTTTATAAAAT
1 ATTTTATAAAAT
14260257 TTTTGAAAAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTTATAAAATA
Found at i:14266017 original size:19 final size:19
Alignment explanation
Indices: 14265920--14266018 Score: 67
Period size: 19 Copynumber: 5.1 Consensus size: 19
14265910 TGCCCGTGTG
* *
14265920 CACGATGTGGGGGGATTTA
1 CACGATGTGGGGTGATGTA
*** *
14265939 CACGATG-GCACTGATTGTG
1 CACGATGTGGGGTGA-TGTA
* *
14265958 CACGATGTGGGGGGATGCA
1 CACGATGTGGGGTGATGTA
*
14265977 CACGATGGTGTCGGCT-ATGTA
1 CACGAT-GTG--GGGTGATGTA
14265998 CACGATGTGGGGTGATGTA
1 CACGATGTGGGGTGATGTA
14266017 CA
1 CA
14266019 TGAGCCGGGT
Statistics
Matches: 58, Mismatches: 16, Indels: 12
0.67 0.19 0.14
Matches are distributed among these distances:
18 6 0.10
19 31 0.53
20 9 0.16
21 10 0.17
22 2 0.03
ACGTcount: A:0.21, C:0.16, G:0.38, T:0.24
Consensus pattern (19 bp):
CACGATGTGGGGTGATGTA
Found at i:14271471 original size:22 final size:22
Alignment explanation
Indices: 14271443--14271486 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
14271433 TTTAAAACAA
*
14271443 CTTTAAATCCAAAAGCTCTGAT
1 CTTTAAAACCAAAAGCTCTGAT
14271465 CTTTAAAACCAAAAGCTCTGAT
1 CTTTAAAACCAAAAGCTCTGAT
14271487 ACCACTCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.30
Consensus pattern (22 bp):
CTTTAAAACCAAAAGCTCTGAT
Found at i:14273780 original size:21 final size:20
Alignment explanation
Indices: 14273756--14273803 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
14273746 ATCTTACATT
*
14273756 TTTTTCACTTGTTACGTTGAA
1 TTTTTCACTT-TTACCTTGAA
* *
14273777 TTTTCACACTTTTCCCTTGAA
1 TTTT-TCACTTTTACCTTGAA
14273798 TTTTTC
1 TTTTTC
14273804 CACCTAGGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.05
21 16 0.73
22 5 0.23
ACGTcount: A:0.17, C:0.21, G:0.08, T:0.54
Consensus pattern (20 bp):
TTTTTCACTTTTACCTTGAA
Found at i:14273786 original size:22 final size:21
Alignment explanation
Indices: 14273761--14273801 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
14273751 ACATTTTTTT
*
14273761 CACTTGTTACGTTGAATTTTCA
1 CACTT-TTACCTTGAATTTTCA
*
14273783 CACTTTTCCCTTGAATTTT
1 CACTTTTACCTTGAATTTT
14273802 TCCACCTAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.20, C:0.22, G:0.10, T:0.49
Consensus pattern (21 bp):
CACTTTTACCTTGAATTTTCA
Found at i:14275343 original size:27 final size:27
Alignment explanation
Indices: 14275284--14275343 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
14275274 GATTTTTTTA
* * *
14275284 AAAAAAAAAATCAAACCAAATCATATT
1 AAAATAAAAATCAAACCAAATCAAACT
* **
14275311 ATAATAAAAATCAAATTAAATCAAACT
1 AAAATAAAAATCAAACCAAATCAAACT
14275338 AAAATA
1 AAAATA
14275344 TAATAATTTA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.67, C:0.12, G:0.00, T:0.22
Consensus pattern (27 bp):
AAAATAAAAATCAAACCAAATCAAACT
Found at i:14285522 original size:36 final size:36
Alignment explanation
Indices: 14285472--14285589 Score: 114
Period size: 36 Copynumber: 3.1 Consensus size: 36
14285462 CCAATGTATG
*
14285472 GAAG-AAGCCCATGCCTAAAACTTATTAAAAGAAAA
1 GAAGCAAGCCTATGCCTAAAACTTATTAAAAGAAAA
14285507 GAAGCAAGCCTATGCCTAAAACCTAAAACTTATTAAAAGAAAA
1 GAAGCAAGCCTATG-------CCTAAAACTTATTAAAAGAAAA
* * *
14285550 GAAACATG-CTCATGCCCAAAACTTATTAAAAGAAAA
1 GAAGCAAGCCT-ATGCCTAAAACTTATTAAAAGAAAA
14285586 GAAG
1 GAAG
14285590 TAGTTCAGTT
Statistics
Matches: 69, Mismatches: 5, Indels: 17
0.76 0.05 0.19
Matches are distributed among these distances:
35 4 0.06
36 32 0.46
42 2 0.03
43 31 0.45
ACGTcount: A:0.51, C:0.18, G:0.14, T:0.18
Consensus pattern (36 bp):
GAAGCAAGCCTATGCCTAAAACTTATTAAAAGAAAA
Found at i:14285565 original size:43 final size:43
Alignment explanation
Indices: 14285485--14285571 Score: 131
Period size: 43 Copynumber: 2.0 Consensus size: 43
14285475 GAAGCCCATG
* *
14285485 CCTAAAACTTATTAAAAGAAAAGAAGCAAGCCTATGCCTAAAA
1 CCTAAAACTTATTAAAAGAAAAGAAACAAGCCTATGCCCAAAA
*
14285528 CCTAAAACTTATTAAAAGAAAAGAAACATG-CTCATGCCCAAAA
1 CCTAAAACTTATTAAAAGAAAAGAAACAAGCCT-ATGCCCAAAA
14285571 C
1 C
14285572 TTATTAAAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
42 2 0.05
43 38 0.95
ACGTcount: A:0.51, C:0.21, G:0.10, T:0.18
Consensus pattern (43 bp):
CCTAAAACTTATTAAAAGAAAAGAAACAAGCCTATGCCCAAAA
Found at i:14286288 original size:17 final size:18
Alignment explanation
Indices: 14286259--14286297 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
14286249 AAATTAATAC
14286259 TTGA-TAAATTAATAATT
1 TTGATTAAATTAATAATT
*
14286276 TTGATTAAA-TAATATTT
1 TTGATTAAATTAATAATT
14286293 TTGAT
1 TTGAT
14286298 CGGTCCTAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (18 bp):
TTGATTAAATTAATAATT
Found at i:14293826 original size:43 final size:43
Alignment explanation
Indices: 14293778--14293900 Score: 144
Period size: 43 Copynumber: 2.9 Consensus size: 43
14293768 CACCATCCCA
**
14293778 TCATCATCAGCTTATGCGCACTCCCTACTCGCACAT-GGCTGGG
1 TCATCATCAGCTTATGCGCACTCCCTACTCGCACATAATC-GGG
* *
14293821 TCATCACCGAG-TTATGCGCACTCCCTACTCGGACATAATCGGG
1 TCATCATC-AGCTTATGCGCACTCCCTACTCGCACATAATCGGG
* *
14293864 CCATCATC-GTCTTATGCACACTCCCTACTCGCACATA
1 TCATCATCAG-CTTATGCGCACTCCCTACTCGCACATA
14293901 GCCGAGTCAA
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
41 1 0.01
43 64 0.94
44 3 0.04
ACGTcount: A:0.22, C:0.36, G:0.17, T:0.25
Consensus pattern (43 bp):
TCATCATCAGCTTATGCGCACTCCCTACTCGCACATAATCGGG
Found at i:14296348 original size:20 final size:19
Alignment explanation
Indices: 14296325--14296380 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 19
14296315 AATAAATGAA
14296325 GAAAATAAAAGAAAAGAAAG
1 GAAAA-AAAAGAAAAGAAAG
* *
14296345 GAAAAAAGAAGAAGAGAAAT
1 GAAAAAA-AAGAAAAGAAAG
14296365 GATAAACAAAAGAAAA
1 GA-AAA-AAAAGAAAA
14296381 AAGAATCGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 2 0.07
20 17 0.57
21 9 0.30
22 2 0.07
ACGTcount: A:0.73, C:0.02, G:0.20, T:0.05
Consensus pattern (19 bp):
GAAAAAAAAGAAAAGAAAG
Found at i:14297153 original size:16 final size:16
Alignment explanation
Indices: 14297092--14297162 Score: 65
Period size: 16 Copynumber: 4.3 Consensus size: 16
14297082 CAGTAAATAT
* * *
14297092 AAAAAAAGAAAAAAAG
1 AAAAAAAGATAAGAAC
14297108 AAAAAAAGGATAAAGAA-
1 AAAAAAA-GAT-AAGAAC
14297125 AAGAAATAA-ATAAGAAC
1 AA-AAA-AAGATAAGAAC
14297142 AAAAAAAGATAAGAAC
1 AAAAAAAGATAAGAAC
14297158 AAAAA
1 AAAAA
14297163 CAAAAGGAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
15 2 0.04
16 28 0.60
17 8 0.17
18 7 0.15
19 2 0.04
ACGTcount: A:0.79, C:0.03, G:0.13, T:0.06
Consensus pattern (16 bp):
AAAAAAAGATAAGAAC
Found at i:14302952 original size:21 final size:21
Alignment explanation
Indices: 14302926--14302974 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 21
14302916 AAAGCTCTAC
**
14302926 TTACTTAGTGGCTGTTATTTT
1 TTACTTAGTGAATGTTATTTT
14302947 TTACTTA---AATGTTATTTT
1 TTACTTAGTGAATGTTATTTT
14302965 TTACTTAGTG
1 TTACTTAGTG
14302975 TTCCTAGTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
18 16 0.70
21 7 0.30
ACGTcount: A:0.20, C:0.08, G:0.14, T:0.57
Consensus pattern (21 bp):
TTACTTAGTGAATGTTATTTT
Found at i:14304160 original size:21 final size:21
Alignment explanation
Indices: 14304120--14304160 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
14304110 AAAAATAAAG
*
14304120 AATAAATAAAACTATGAAAAA
1 AATAAATAAAACTATAAAAAA
14304141 AATAAATAAAA-TAATAAAAA
1 AATAAATAAAACT-ATAAAAA
14304161 CAGATATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (21 bp):
AATAAATAAAACTATAAAAAA
Found at i:14308214 original size:19 final size:19
Alignment explanation
Indices: 14308190--14308227 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
14308180 CTGCCAAACC
*
14308190 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
14308209 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
14308228 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:14317312 original size:21 final size:21
Alignment explanation
Indices: 14317288--14317341 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
14317278 AAGTTTCTCG
14317288 CTGCAGCGAGAATGAATTTCA
1 CTGCAGCGAGAATGAATTTCA
* *
14317309 CTGCAACGAGAATGAATTTCG
1 CTGCAGCGAGAATGAATTTCA
14317330 CTGCAGCGAGAA
1 CTGCAGCGAGAA
14317342 GCTACAGTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.20
Consensus pattern (21 bp):
CTGCAGCGAGAATGAATTTCA
Found at i:14320622 original size:13 final size:13
Alignment explanation
Indices: 14320606--14320635 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
14320596 TTTTTTTTAA
14320606 TTTTTTT-AAATT
1 TTTTTTTGAAATT
14320618 TTTTTTTGAAATT
1 TTTTTTTGAAATT
14320631 TTTTT
1 TTTTT
14320636 CCATTAACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (13 bp):
TTTTTTTGAAATT
Found at i:14322117 original size:21 final size:21
Alignment explanation
Indices: 14322088--14322137 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
14322078 TCTGCCCTTA
*
14322088 TCATAAATGCATCAGTCTTTG
1 TCATGAATGCATCAGTCTTTG
*
14322109 TTATGAATGCATCAGTCTTTG
1 TCATGAATGCATCAGTCTTTG
14322130 TCATGAAT
1 TCATGAAT
14322138 TTCATGAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (21 bp):
TCATGAATGCATCAGTCTTTG
Found at i:14339758 original size:33 final size:33
Alignment explanation
Indices: 14339706--14339770 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
14339696 AAAGGATTAA
* *
14339706 GTGACGTACATTCTGTTTTTTTTATATGCTAGG
1 GTGACGTACATTCTATTTTTTTGATATGCTAGG
* *
14339739 GTGATGTACATTCTATTTTTTTGGTATGCTAG
1 GTGACGTACATTCTATTTTTTTGATATGCTAG
14339771 TGGCTATGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.18, C:0.11, G:0.22, T:0.49
Consensus pattern (33 bp):
GTGACGTACATTCTATTTTTTTGATATGCTAGG
Found at i:14340494 original size:13 final size:12
Alignment explanation
Indices: 14340462--14340499 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
14340452 TATATAGAAA
14340462 AATATTATATTT
1 AATATTATATTT
*
14340474 TATATTATATTT
1 AATATTATATTT
14340486 AATTATTATATTT
1 AA-TATTATATTT
14340499 A
1 A
14340500 TTGTTATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 12 0.52
13 11 0.48
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
AATATTATATTT
Found at i:14340508 original size:18 final size:18
Alignment explanation
Indices: 14340463--14340509 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
14340453 ATATAGAAAA
*
14340463 ATATTATATT-TTATATT
1 ATATTTTATTATTATATT
*
14340480 ATATTTAATTATTATATT
1 ATATTTTATTATTATATT
14340498 -TATTGTTATTAT
1 ATATT-TTATTAT
14340510 AGTATACGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (18 bp):
ATATTTTATTATTATATT
Found at i:14349722 original size:25 final size:25
Alignment explanation
Indices: 14349693--14349748 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
14349683 TTTTTATTTT
*
14349693 TAAAT-TTATTTAAAATATTAATATAA
1 TAAATATT-TTTAAAAT-TTAAAATAA
*
14349719 -AAATATTTTTAATATTTAAAATAA
1 TAAATATTTTTAAAATTTAAAATAA
14349743 TAAATA
1 TAAATA
14349749 GTAAAATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 8 0.31
25 16 0.62
26 2 0.08
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
TAAATATTTTTAAAATTTAAAATAA
Found at i:14360374 original size:21 final size:21
Alignment explanation
Indices: 14360332--14360374 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
14360322 CTTGTACTAG
*
14360332 TGGTGGAACTAAAGGAGTAAC
1 TGGTGGAACTAAAGGAGGAAC
* * *
14360353 TGGTGGTACTATAGGTGGAAC
1 TGGTGGAACTAAAGGAGGAAC
14360374 T
1 T
14360375 TGACCAGTCG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.09, G:0.35, T:0.26
Consensus pattern (21 bp):
TGGTGGAACTAAAGGAGGAAC
Found at i:14360822 original size:22 final size:22
Alignment explanation
Indices: 14360764--14360826 Score: 108
Period size: 22 Copynumber: 2.9 Consensus size: 22
14360754 TTTTAAACCA
* *
14360764 CTTTAAAACCAAAAACTATTAT
1 CTTTAAAACCAAAAGCTCTTAT
14360786 CTTTAAAACCAAAAGCTCTTAT
1 CTTTAAAACCAAAAGCTCTTAT
14360808 CTTTAAAACCAAAAGCTCT
1 CTTTAAAACCAAAAGCTCT
14360827 GATACCAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.44, C:0.22, G:0.03, T:0.30
Consensus pattern (22 bp):
CTTTAAAACCAAAAGCTCTTAT
Found at i:14364016 original size:20 final size:21
Alignment explanation
Indices: 14363993--14364032 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
14363983 AAGTCAGTTA
14363993 TTTTAATTTAATT-TTATTTC
1 TTTTAATTTAATTATTATTTC
*
14364013 TTTTAATTTGATTATTATTT
1 TTTTAATTTAATTATTATTT
14364033 ATTAGTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.70
Consensus pattern (21 bp):
TTTTAATTTAATTATTATTTC
Found at i:14366975 original size:41 final size:40
Alignment explanation
Indices: 14366885--14367069 Score: 125
Period size: 41 Copynumber: 4.6 Consensus size: 40
14366875 ATATTGCCCG
* *
14366885 TGTGCACGATATGGGGGGATGCAC--ATGATGGCAT-TAGC-
1 TGTGCACGATGTGGGGGGATGCACAGATGAT-G-ATATCGCT
*
14366923 TGTCCACGATGTGGGGGGATGCACACGATGATGATATCGCT
1 TGTGCACGATGTGGGGGGATGCACA-GATGATGATATCGCT
* * * * * *
14366964 TGTGCATGATGTAGGGGGATGCATA-AAGCAATGGTATTGCT
1 TGTGCACGATGTGGGGGGATGCACAGATG--ATGATATCGCT
* * *
14367005 TGTGCACGATGTGAGGGGATGCAC--ATGATGACT-CCGGAT
1 TGTGCACGATGTGGGGGGATGCACAGATGATGA-TATC-GCT
*
14367044 ATGTGCACAATGTGGGGGGATGCACA
1 -TGTGCACGATGTGGGGGGATGCACA
14367070 TGAGCTGGGT
Statistics
Matches: 115, Mismatches: 21, Indels: 19
0.74 0.14 0.12
Matches are distributed among these distances:
38 25 0.22
39 7 0.06
40 28 0.24
41 55 0.48
ACGTcount: A:0.24, C:0.16, G:0.36, T:0.24
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGCACAGATGATGATATCGCT
Found at i:14373463 original size:14 final size:14
Alignment explanation
Indices: 14373446--14373472 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14373436 GTCGTCACTC
14373446 TCATCTTCCTTCAT
1 TCATCTTCCTTCAT
14373460 TCATCTTCCTTCA
1 TCATCTTCCTTCA
14373473 AAAAAATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.37, G:0.00, T:0.48
Consensus pattern (14 bp):
TCATCTTCCTTCAT
Found at i:14374432 original size:21 final size:20
Alignment explanation
Indices: 14374404--14374445 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
14374394 GCTGGTAGTT
* *
14374404 CCTTACAAGCTGCTCCCACA
1 CCTTACAAGCAGCCCCCACA
14374424 CCTTCACAAGCAGCCCCCACA
1 CCTT-ACAAGCAGCCCCCACA
14374445 C
1 C
14374446 GTAGTGTTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.26, C:0.50, G:0.10, T:0.14
Consensus pattern (20 bp):
CCTTACAAGCAGCCCCCACA
Found at i:14374875 original size:19 final size:18
Alignment explanation
Indices: 14374833--14374880 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
14374823 ATAATGGGTG
*
14374833 AAAAGAATATTTTAAAAT
1 AAAATAATATTTTAAAAT
14374851 AAAATAATATTTTATTAAA-
1 AAAATAATATTTTA--AAAT
14374870 AAAATAATATT
1 AAAATAATATT
14374881 AAAATATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 13 0.48
19 11 0.41
20 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
AAAATAATATTTTAAAAT
Found at i:14383527 original size:18 final size:19
Alignment explanation
Indices: 14383501--14383548 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
14383491 GTAATTGATG
*
14383501 AAAAGAATATTTTA-GAAT
1 AAAATAATATTTTATGAAT
*
14383519 AAAATAATATTTTATTAAT
1 AAAATAATATTTTATGAAT
14383538 AAAATAATATT
1 AAAATAATATT
14383549 AAAATATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (19 bp):
AAAATAATATTTTATGAAT
Found at i:14384272 original size:20 final size:20
Alignment explanation
Indices: 14384247--14384293 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
14384237 TTATTTTAAG
14384247 TTATGTTTTGCATGTTTTAT
1 TTATGTTTTGCATGTTTTAT
14384267 TTATGTTTTGCATGTTTTAT
1 TTATGTTTTGCATGTTTTAT
*
14384287 TTGTGTT
1 TTATGTT
14384294 CAAAAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.13, C:0.04, G:0.17, T:0.66
Consensus pattern (20 bp):
TTATGTTTTGCATGTTTTAT
Found at i:14385608 original size:20 final size:20
Alignment explanation
Indices: 14385585--14385632 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
14385575 TTATAATTAG
*
14385585 TTTATTTTTAAGTGAGTTAT
1 TTTAATTTTAAGTGAGTTAT
* * *
14385605 TTTAATTTTATGTTAGTTCT
1 TTTAATTTTAAGTGAGTTAT
14385625 TTTAATTT
1 TTTAATTT
14385633 GGTTATTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.23, C:0.02, G:0.10, T:0.65
Consensus pattern (20 bp):
TTTAATTTTAAGTGAGTTAT
Found at i:14386267 original size:40 final size:40
Alignment explanation
Indices: 14386222--14386304 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
14386212 TTTTTCTATG
14386222 ATTGCAATTGAACTCACATGTAATATGAATTTTTAATCTC
1 ATTGCAATTGAACTCACATGTAATATGAATTTTTAATCTC
14386262 ATTGCAATTGAACTCACATGTAATATGAATTTTTAATCTC
1 ATTGCAATTGAACTCACATGTAATATGAATTTTTAATCTC
14386302 ATT
1 ATT
14386305 CTTACTTTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (40 bp):
ATTGCAATTGAACTCACATGTAATATGAATTTTTAATCTC
Found at i:14402009 original size:13 final size:13
Alignment explanation
Indices: 14401991--14402015 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14401981 NNNNNNNNNG
14401991 ATTTTATAAAATA
1 ATTTTATAAAATA
14402004 ATTTTATAAAAT
1 ATTTTATAAAAT
14402016 TTTTGAAAAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTTATAAAATA
Found at i:14450709 original size:15 final size:14
Alignment explanation
Indices: 14450689--14450734 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 14
14450679 TTCTTAAAAC
14450689 AACTTTAAAATCGAA
1 AACTTTAAAATC-AA
14450704 AACTTTAAAATCCAA
1 AACTTTAAAAT-CAA
*
14450719 AGCTTTAAAATCAA
1 AACTTTAAAATCAA
14450733 AA
1 AA
14450735 TCTCTGATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 4 0.14
15 23 0.82
16 1 0.04
ACGTcount: A:0.54, C:0.15, G:0.04, T:0.26
Consensus pattern (14 bp):
AACTTTAAAATCAA
Found at i:14454422 original size:19 final size:19
Alignment explanation
Indices: 14454398--14454434 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
14454388 CTTCTAAACT
14454398 TCAAATCATACTCCAATAC
1 TCAAATCATACTCCAATAC
14454417 TCAAATCATACTCCAATA
1 TCAAATCATACTCCAATA
14454435 AGTCAAATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.27
Consensus pattern (19 bp):
TCAAATCATACTCCAATAC
Found at i:14460887 original size:22 final size:22
Alignment explanation
Indices: 14460845--14460887 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
14460835 GTGGAGAATT
14460845 TCAAGAGAAAAAATGTGAAAAA
1 TCAAGAGAAAAAATGTGAAAAA
14460867 TCAAG-GAAAACAA-GTGAAAAA
1 TCAAGAGAAAA-AATGTGAAAAA
14460888 GGTAAGATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.63, C:0.07, G:0.19, T:0.12
Consensus pattern (22 bp):
TCAAGAGAAAAAATGTGAAAAA
Found at i:14465101 original size:13 final size:13
Alignment explanation
Indices: 14465083--14465107 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14465073 GGAGAAATTG
14465083 TGATTTTATAAAA
1 TGATTTTATAAAA
14465096 TGATTTTATAAA
1 TGATTTTATAAA
14465108 TTTTCTGGAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:14480181 original size:13 final size:13
Alignment explanation
Indices: 14480163--14480187 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14480153 GTAGAAATTG
14480163 TGATTTTATAAAA
1 TGATTTTATAAAA
14480176 TGATTTTATAAA
1 TGATTTTATAAA
14480188 TTTTCTGAAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:14490541 original size:13 final size:13
Alignment explanation
Indices: 14490523--14490547 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14490513 GGAAAATGGG
14490523 ATTTTATAAAATA
1 ATTTTATAAAATA
14490536 ATTTTATAAAAT
1 ATTTTATAAAAT
14490548 TTTTAAAAAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTTATAAAATA
Found at i:14502069 original size:23 final size:22
Alignment explanation
Indices: 14502010--14502139 Score: 109
Period size: 23 Copynumber: 5.7 Consensus size: 22
14502000 GCGTGCTAGC
14502010 ACATGGCGTGTAACATTTTTATTGA
1 ACATGGCGTGTAACATTTTTA---A
*** *
14502035 ACATGATATGTAACATGTTGTAA
1 ACATGGCGTGTAACAT-TTTTAA
14502058 ACATGGCGTGTAACAATTTTTAA
1 ACATGGCGTGTAAC-ATTTTTAA
** *
14502081 AC-TTACGTGTAACATTTTTGA
1 ACATGGCGTGTAACATTTTTAA
* * *
14502102 GCATGGCATGTAACATTTTTTTA
1 ACATGGCGTGTAACA-TTTTTAA
14502125 ACATGGCGTGTAACA
1 ACATGGCGTGTAACA
14502140 ATATGGTAAT
Statistics
Matches: 83, Mismatches: 18, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
21 8 0.10
22 18 0.22
23 38 0.46
24 2 0.02
25 13 0.16
26 4 0.05
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (22 bp):
ACATGGCGTGTAACATTTTTAA
Found at i:14502135 original size:45 final size:46
Alignment explanation
Indices: 14502010--14502139 Score: 138
Period size: 44 Copynumber: 2.8 Consensus size: 46
14502000 GCGTGCTAGC
**
14502010 ACATGGCGTGTAACATTTTTATTGAACATGATATGTAACATGTTGTAA
1 ACATGGCGTGTAACATTTTT-TT-AACATGACGTGTAACATGTTGTAA
* * * * *
14502058 ACATGGCGTGTAACAATTTTTAAAC-TTACGTGTAACAT-TTTTGA
1 ACATGGCGTGTAACATTTTTTTAACATGACGTGTAACATGTTGTAA
* * *
14502102 GCATGGCATGTAACATTTTTTTAACATGGCGTGTAACA
1 ACATGGCGTGTAACATTTTTTTAACATGACGTGTAACA
14502140 ATATGGTAAT
Statistics
Matches: 68, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
44 25 0.37
45 20 0.29
46 3 0.04
47 1 0.01
48 19 0.28
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (46 bp):
ACATGGCGTGTAACATTTTTTTAACATGACGTGTAACATGTTGTAA
Found at i:14505006 original size:43 final size:43
Alignment explanation
Indices: 14504953--14505097 Score: 183
Period size: 43 Copynumber: 3.4 Consensus size: 43
14504943 GCTATGTGCG
14504953 AGTAGGGAGTGCGCATAAGCCGAG-GATGACCCGATTATGTGAT
1 AGTAGGGAGTGCGCATAA-CCGAGTGATGACCCGATTATGTGAT
*
14504996 AGTAGGGAGTGCGCATAACCCAGTGATGACCCGATTATGTGCA-
1 AGTAGGGAGTGCGCATAACCGAGTGATGACCCGATTATGTG-AT
**
14505039 AGTAGGGAGTGCGCATAACCTG-GTGATGACCC-AGCCATGTG-T
1 AGTAGGGAGTGCGCATAACC-GAGTGATGACCCGA-TTATGTGAT
14505081 GAGTAGGGAGTGCGCAT
1 -AGTAGGGAGTGCGCAT
14505098 GAGTTGGTGA
Statistics
Matches: 92, Mismatches: 4, Indels: 12
0.85 0.04 0.11
Matches are distributed among these distances:
42 5 0.05
43 86 0.93
44 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.34, T:0.21
Consensus pattern (43 bp):
AGTAGGGAGTGCGCATAACCGAGTGATGACCCGATTATGTGAT
Found at i:14505125 original size:20 final size:20
Alignment explanation
Indices: 14505096--14505158 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
14505086 GGGAGTGCGC
14505096 ATGAGTTGGTGATGATGATG
1 ATGAGTTGGTGATGATGATG
*
14505116 ATGAGCTGGTGATGATGATG
1 ATGAGTTGGTGATGATGATG
*
14505136 ATGGGTTGGTGA-GATGATG
1 ATGAGTTGGTGATGATGATG
14505155 ATGA
1 ATGA
14505159 TGGGTATATA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
19 10 0.26
20 29 0.74
ACGTcount: A:0.25, C:0.02, G:0.41, T:0.32
Consensus pattern (20 bp):
ATGAGTTGGTGATGATGATG
Found at i:14507761 original size:8 final size:8
Alignment explanation
Indices: 14507748--14507772 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
14507738 TTGCAGATAT
14507748 ATTATTTG
1 ATTATTTG
14507756 ATTATTTG
1 ATTATTTG
14507764 ATTATTTG
1 ATTATTTG
14507772 A
1 A
14507773 ACTTAGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (8 bp):
ATTATTTG
Found at i:14508169 original size:76 final size:75
Alignment explanation
Indices: 14508061--14508285 Score: 324
Period size: 76 Copynumber: 3.0 Consensus size: 75
14508051 TATATTGTTA
*
14508061 CACGCTCCAATTGTTAAATGTCGATGACATCTTGTGGTGACATGTTGAGTGGTTGCAGTATTATG
1 CACGCTCCAATTGTTAAATGTCGATGACATCTTGTGGTGACACGTTGAGTGGTTGCAGTATTATG
* **
14508126 GAGTTACACGT
66 G-GTGACACAC
* * * * *
14508137 TATGCTCCAATTGTTAGATGTCGATGACATCTTGTGGTGACACGTTGAATGGTTGCAATATTATA
1 CACGCTCCAATTGTTAAATGTCGATGACATCTTGTGGTGACACGTTGAGTGGTTGCAGTATTAT-
14508202 GGGTGACACAC
65 GGGTGACACAC
* *
14508213 CACGCTCTAATTGTTAAATGTCGATGACATCTTGTGGTGACACGCTGAGTGGTTGCAGTATTATG
1 CACGCTCCAATTGTTAAATGTCGATGACATCTTGTGGTGACACGTTGAGTGGTTGCAGTATTAT-
14508278 GGGTGACA
65 GGGTGACA
14508286 TGCCACACTT
Statistics
Matches: 131, Mismatches: 17, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
76 129 0.98
77 2 0.02
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (75 bp):
CACGCTCCAATTGTTAAATGTCGATGACATCTTGTGGTGACACGTTGAGTGGTTGCAGTATTATG
GGTGACACAC
Found at i:14521639 original size:42 final size:42
Alignment explanation
Indices: 14521582--14521756 Score: 230
Period size: 42 Copynumber: 4.1 Consensus size: 42
14521572 TTATGTGATA
14521582 ATGATGACCCAGCTATGTGCATGTGAGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCATGTGAGAGTGCACATGAGCTG
* *
14521624 ATGATGACCTAGCTATGTGCATCT-AGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCATGTGA-GAGTGCACATGAGCTG
* **
14521666 ATGATGACCCAGTTATGTGTGGTGTG-GAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTG-CATGTGAGAGTGCACATGAGCTG
* *
14521708 ATGATGACCCAACTATGTGCGA-GTGGGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGC-ATGT-GAGAGTGCACATGAGCTG
14521751 ATGATG
1 ATGATG
14521757 GTGGGATGGT
Statistics
Matches: 116, Mismatches: 11, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
41 3 0.03
42 89 0.77
43 24 0.21
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (42 bp):
ATGATGACCCAGCTATGTGCATGTGAGAGTGCACATGAGCTG
Found at i:14523404 original size:14 final size:14
Alignment explanation
Indices: 14523385--14523411 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14523375 TACCAAAGCA
14523385 GCAGAAACTCAATG
1 GCAGAAACTCAATG
14523399 GCAGAAACTCAAT
1 GCAGAAACTCAAT
14523412 AACATATCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.22, G:0.19, T:0.15
Consensus pattern (14 bp):
GCAGAAACTCAATG
Found at i:14525885 original size:21 final size:21
Alignment explanation
Indices: 14525861--14525902 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
14525851 AGACAGAATG
**
14525861 CTCTTAGTTGACTAAGTGCCT
1 CTCTTAGTCAACTAAGTGCCT
14525882 CTCTTAGTCAACTAAGTGCCT
1 CTCTTAGTCAACTAAGTGCCT
14525903 ATTGTCCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (21 bp):
CTCTTAGTCAACTAAGTGCCT
Found at i:14532865 original size:36 final size:37
Alignment explanation
Indices: 14532800--14532871 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 37
14532790 AAGGTAGAGT
* *
14532800 GGTTGTGCTTTAACCATAAAAAGGCATTGTATTGAAA
1 GGTTGTGCTTGAACCATAAAAAGGAATTGTATTGAAA
* *
14532837 GGTTGTGCTTGATCCA-CAAAAGGAATTGTATTGAA
1 GGTTGTGCTTGAACCATAAAAAGGAATTGTATTGAA
14532872 TTCTAATTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 17 0.55
37 14 0.45
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.32
Consensus pattern (37 bp):
GGTTGTGCTTGAACCATAAAAAGGAATTGTATTGAAA
Found at i:14534287 original size:25 final size:25
Alignment explanation
Indices: 14534259--14534306 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
14534249 TTAAAAAAAG
* *
14534259 AAATTAAAAGATAAAAAACATTAAT
1 AAATCAAAACATAAAAAACATTAAT
* *
14534284 AAATCAAAACATATAAAATATTA
1 AAATCAAAACATAAAAAACATTA
14534307 TAATTTACAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (25 bp):
AAATCAAAACATAAAAAACATTAAT
Found at i:14546511 original size:33 final size:33
Alignment explanation
Indices: 14546474--14546540 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
14546464 ACATATACAC
14546474 AGTACATTTCATACTTTATACCATAAGAAGCAT
1 AGTACATTTCATACTTTATACCATAAGAAGCAT
*
14546507 AGTACATTTCATACTTTATACCATAGGAAGCAT
1 AGTACATTTCATACTTTATACCATAAGAAGCAT
14546540 A
1 A
14546541 CATGCACATC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (33 bp):
AGTACATTTCATACTTTATACCATAAGAAGCAT
Found at i:14555157 original size:6 final size:6
Alignment explanation
Indices: 14555148--14555172 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
14555138 TTTTTTATCC
14555148 AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT A
14555173 TCAAAGAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:14569766 original size:37 final size:37
Alignment explanation
Indices: 14569699--14569782 Score: 98
Period size: 37 Copynumber: 2.3 Consensus size: 37
14569689 AGTAGTGCGG
* ** *
14569699 TTGTGCTTGATCCATAAAAGGCAGTGACTTGTGAAA-A
1 TTGTGCTTGATCCAAAAAAAACAGTAACTTGT-AAAGA
*
14569736 TTGTGCTTGATCCAAAAAAAATAGTAACTTGTAAAGA
1 TTGTGCTTGATCCAAAAAAAACAGTAACTTGTAAAGA
*
14569773 TTGTGTTTGA
1 TTGTGCTTGA
14569783 ACCTGATTCC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
36 3 0.08
37 37 0.93
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (37 bp):
TTGTGCTTGATCCAAAAAAAACAGTAACTTGTAAAGA
Found at i:14579527 original size:13 final size:13
Alignment explanation
Indices: 14579509--14579533 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14579499 TTCCAAAAAA
14579509 TTTATAAAATCAT
1 TTTATAAAATCAT
14579522 TTTATAAAATCA
1 TTTATAAAATCA
14579534 CAATTTCTCC
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:14582005 original size:20 final size:21
Alignment explanation
Indices: 14581982--14582031 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
14581972 TACATGTTGA
*
14581982 TTAGTTTGATTTTA-GTTATT
1 TTAGTTTAATTTTATGTTATT
*
14582002 TTAGTTTAATTTTATGTTATG
1 TTAGTTTAATTTTATGTTATT
*
14582023 TTATTTTAA
1 TTAGTTTAA
14582032 ATTACTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (21 bp):
TTAGTTTAATTTTATGTTATT
Found at i:14583089 original size:61 final size:61
Alignment explanation
Indices: 14582991--14583112 Score: 228
Period size: 61 Copynumber: 2.0 Consensus size: 61
14582981 ATGTGTCAAG
14582991 CTTTAATATTTTATTGATTTTCCTTTACAAACCGACTTAAGCTTCTCCCATTTCACTCTTA
1 CTTTAATATTTTATTGATTTTCCTTTACAAACCGACTTAAGCTTCTCCCATTTCACTCTTA
14583052 NCTTTAATATTTTATTGA-TTTCCTTTACAAACCGACTTAAGCTTCTCCCATTTCACTCTTA
1 -CTTTAATATTTTATTGATTTTCCTTTACAAACCGACTTAAGCTTCTCCCATTTCACTCTTA
14583113 TGGTCGGCCA
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
61 43 0.72
62 17 0.28
ACGTcount: A:0.25, C:0.25, G:0.05, T:0.45
Consensus pattern (61 bp):
CTTTAATATTTTATTGATTTTCCTTTACAAACCGACTTAAGCTTCTCCCATTTCACTCTTA
Found at i:14585214 original size:13 final size:13
Alignment explanation
Indices: 14585196--14585222 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14585186 AAATAAATGA
14585196 AATATTTTTATTT
1 AATATTTTTATTT
14585209 AATATTTTTATTT
1 AATATTTTTATTT
14585222 A
1 A
14585223 GTTTGATTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
AATATTTTTATTT
Found at i:14585664 original size:18 final size:19
Alignment explanation
Indices: 14585641--14585680 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
14585631 CAAGTGAGAA
*
14585641 ATTTTA-GAGTAAAATAAT
1 ATTTTATGAATAAAATAAT
*
14585659 ATTTTATTAATAAAATAAT
1 ATTTTATGAATAAAATAAT
14585678 ATT
1 ATT
14585681 AAAATATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (19 bp):
ATTTTATGAATAAAATAAT
Found at i:14585827 original size:56 final size:56
Alignment explanation
Indices: 14585741--14585855 Score: 221
Period size: 56 Copynumber: 2.1 Consensus size: 56
14585731 TATGGCTAAT
*
14585741 CTAAGTAGGGGAAAAAAATAAGGAAGAATTTTGAATAAAAATGATGTTAGTGGGGC
1 CTAAGTAGGGGAAAAAAATAAGGAAGAATTTTGAATAAAAATGATGTTAATGGGGC
14585797 CTAAGTAGGGGAAAAAAATAAGGAAGAATTTTGAATAAAAATGATGTTAATGGGGC
1 CTAAGTAGGGGAAAAAAATAAGGAAGAATTTTGAATAAAAATGATGTTAATGGGGC
14585853 CTA
1 CTA
14585856 CGTACCTTAA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.45, C:0.04, G:0.27, T:0.23
Consensus pattern (56 bp):
CTAAGTAGGGGAAAAAAATAAGGAAGAATTTTGAATAAAAATGATGTTAATGGGGC
Found at i:14598909 original size:21 final size:20
Alignment explanation
Indices: 14598860--14598909 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
14598850 TACATATTGA
14598860 TTAGTTTAATTTAAGTTATT
1 TTAGTTTAATTTAAGTTATT
* *
14598880 TTAGCTTAATTTTATGTTATT
1 TTAGTTTAA-TTTAAGTTATT
*
14598901 TTATTTTAA
1 TTAGTTTAA
14598910 ATTACTTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.28, C:0.02, G:0.08, T:0.62
Consensus pattern (20 bp):
TTAGTTTAATTTAAGTTATT
Found at i:14601471 original size:54 final size:54
Alignment explanation
Indices: 14601389--14601546 Score: 237
Period size: 54 Copynumber: 2.9 Consensus size: 54
14601379 ATTCGTATAC
* * *
14601389 CACCCCATTTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGTCGGA
1 CACCCCATCTCAACCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCGGA
* *
14601443 CACCCCATCTCAACCAGCTCATGTGCATCCCCCCACATCGTGCACACAACCGGA
1 CACCCCATCTCAACCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCGGA
* *
14601497 CACCCCATCTC-ACTTAGCTCATGTGCATCCCCCTACATCGTGCACATAGC
1 CACCCCATCTCAAC-CAGCTCATGTGCATCCCCCCACATCGTGCACATAGC
14601547 TAGAGTCATC
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
53 2 0.02
54 92 0.98
ACGTcount: A:0.23, C:0.44, G:0.13, T:0.20
Consensus pattern (54 bp):
CACCCCATCTCAACCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCGGA
Found at i:14601609 original size:38 final size:38
Alignment explanation
Indices: 14601518--14601658 Score: 203
Period size: 38 Copynumber: 3.7 Consensus size: 38
14601508 ACTTAGCTCA
* * * *
14601518 TGTGCATCCCCCTACATCGTGCACATAGCTAGA-GTCATCA
1 TGTGCATCCCCCCACATCGTGCAC--AGTTA-ATGCCATCG
14601558 TGTGCATCCCCCCACATCGTGCACAGTTAATGCCATCG
1 TGTGCATCCCCCCACATCGTGCACAGTTAATGCCATCG
*
14601596 TGTGCATCCCCCCACATCGTGCACAGTCAATGCCATCG
1 TGTGCATCCCCCCACATCGTGCACAGTTAATGCCATCG
14601634 TGTGCATCCCCCCACATCGTGCACA
1 TGTGCATCCCCCCACATCGTGCACA
14601659 CGTGCAGTAT
Statistics
Matches: 95, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
37 1 0.01
38 71 0.75
40 23 0.24
ACGTcount: A:0.22, C:0.38, G:0.18, T:0.23
Consensus pattern (38 bp):
TGTGCATCCCCCCACATCGTGCACAGTTAATGCCATCG
Found at i:14601613 original size:19 final size:19
Alignment explanation
Indices: 14601591--14601654 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
14601581 CAGTTAATGC
14601591 CATCGTGTGCATCCCCCCA
1 CATCGTGTGCATCCCCCCA
** ****
14601610 CATCGTGCACAGTCAATGC-
1 CATCGTGTGCA-TCCCCCCA
14601629 CATCGTGTGCATCCCCCCA
1 CATCGTGTGCATCCCCCCA
14601648 CATCGTG
1 CATCGTG
14601655 CACACGTGCA
Statistics
Matches: 31, Mismatches: 12, Indels: 4
0.66 0.26 0.09
Matches are distributed among these distances:
18 3 0.10
19 25 0.81
20 3 0.10
ACGTcount: A:0.19, C:0.41, G:0.19, T:0.22
Consensus pattern (19 bp):
CATCGTGTGCATCCCCCCA
Found at i:14601777 original size:2 final size:2
Alignment explanation
Indices: 14601770--14601802 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
14601760 TATGACATAG
14601770 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14601803 CAACNGTACC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14604333 original size:24 final size:24
Alignment explanation
Indices: 14604304--14604361 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
14604294 TTAGTGTGTT
*
14604304 ACACGCTATGTACAAAAATATGTG
1 ACACGCTATGTACAAAAATATATG
* *
14604328 ACACGCCATGTACAAAAATCTATG
1 ACACGCTATGTACAAAAATATATG
*
14604352 ACAAGCTATG
1 ACACGCTATG
14604362 GTTAACTTGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.22
Consensus pattern (24 bp):
ACACGCTATGTACAAAAATATATG
Found at i:14604373 original size:69 final size:69
Alignment explanation
Indices: 14604254--14604399 Score: 213
Period size: 69 Copynumber: 2.1 Consensus size: 69
14604244 GCACACTATG
* * * *
14604254 ATGTTACACGCCATGTACAAAAACCTGTGACAAGCTATGGTTAGTGTGTTACACGCTATGTACAA
1 ATGTGACACGCCATGTACAAAAACCTATGACAAGCTATGGTTACTGTGTTACACGCCATGTACAA
*
14604319 AAAT
66 AAAC
*
14604323 ATGTGACACGCCATGTACAAAAATCTATGACAAGCTATGGTTAACT-TGTTACACGCCATGTACA
1 ATGTGACACGCCATGTACAAAAACCTATGACAAGCTATGGTT-ACTGTGTTACACGCCATGTACA
14604387 AAAAC
65 AAAAC
*
14604392 CTGTGACA
1 ATGTGACA
14604400 AGTCGTGGTT
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
69 67 0.97
70 2 0.03
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.26
Consensus pattern (69 bp):
ATGTGACACGCCATGTACAAAAACCTATGACAAGCTATGGTTACTGTGTTACACGCCATGTACAA
AAAC
Found at i:14604442 original size:45 final size:45
Alignment explanation
Indices: 14604328--14604444 Score: 137
Period size: 45 Copynumber: 2.6 Consensus size: 45
14604318 AAAATATGTG
* * *
14604328 ACACGCCATGTACAAAAATCTATGACAAGCTATGGTTAACTTGTT
1 ACACGCCATGTACAAAAATCTGTGACAAGCTATGGTTAACGTGCT
* * *
14604373 ACACGCCATGTACAAAAACCTGTGACAAG-TCGTGGTTAGCGTGCT
1 ACACGCCATGTACAAAAATCTGTGACAAGCT-ATGGTTAACGTGCT
* * *
14604418 ACACGCTATATACAAAAATATGTGACA
1 ACACGCCATGTACAAAAATCTGTGACA
14604445 TGCCATGTAC
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
44 1 0.02
45 60 0.98
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (45 bp):
ACACGCCATGTACAAAAATCTGTGACAAGCTATGGTTAACGTGCT
Found at i:14604450 original size:69 final size:67
Alignment explanation
Indices: 14604377--14604575 Score: 236
Period size: 71 Copynumber: 2.9 Consensus size: 67
14604367 CTTGTTACAC
* * *
14604377 GCCATGTACAAAAACCTGTGACAAGTCGTGGTTAGCGTGCTACACGCTATATACAAAAATATGTG
1 GCCATGTACAAAAACCTGTGACAAG-CATGGTTAG-GTGTTACACGCTATGTACAAAAATATGTG
*
14604442 ACAT
64 ACAA
* * *
14604446 GCCATGTACAAAAACCTGTGACAAGCCATGGTTAGTTTATTTTTCACGCTATGTACAAAAATATG
1 GCCATGTACAAAAACCTGTGACAAG-CATGGTTAG---GTGTTACACGCTATGTACAAAAATATG
14604511 TGACAA
62 TGACAA
* * *
14604517 GCCAAGTACAAAATCCTGTGACAAGCTATGGTTAGGTTGTTACACGCCATGTACAAAAA
1 GCCATGTACAAAAACCTGTGACAAGC-ATGGTTAGG-TGTTACACGCTATGTACAAAAA
14604576 CTTGTAACAA
Statistics
Matches: 111, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
69 52 0.47
70 1 0.01
71 58 0.52
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (67 bp):
GCCATGTACAAAAACCTGTGACAAGCATGGTTAGGTGTTACACGCTATGTACAAAAATATGTGAC
AA
Found at i:14604455 original size:114 final size:114
Alignment explanation
Indices: 14604255--14604479 Score: 362
Period size: 114 Copynumber: 2.0 Consensus size: 114
14604245 CACACTATGA
* * *
14604255 TGTTACACGCCATGTACAAAAACCTGTGACAAGCTATGGTTAGTGTGTTACACGCTATGTACAAA
1 TGTTACACGCCATGTACAAAAACCTGTGACAAGCTATGGTTAGCGTGCTACACGCTATATACAAA
* *
14604320 AATATGTGACACGCCATGTACAAAAATCTATGACAAGCTATGGTTAACT
66 AATATGTGACACGCCATGTACAAAAACCTATGACAAGCCATGGTTAACT
*
14604369 TGTTACACGCCATGTACAAAAACCTGTGACAAG-TCGTGGTTAGCGTGCTACACGCTATATACAA
1 TGTTACACGCCATGTACAAAAACCTGTGACAAGCT-ATGGTTAGCGTGCTACACGCTATATACAA
* *
14604433 AAATATGTGACATGCCATGTACAAAAACCTGTGACAAGCCATGGTTA
65 AAATATGTGACACGCCATGTACAAAAACCTATGACAAGCCATGGTTA
14604480 GTTTATTTTT
Statistics
Matches: 102, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
113 1 0.01
114 101 0.99
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (114 bp):
TGTTACACGCCATGTACAAAAACCTGTGACAAGCTATGGTTAGCGTGCTACACGCTATATACAAA
AATATGTGACACGCCATGTACAAAAACCTATGACAAGCCATGGTTAACT
Found at i:14604465 original size:24 final size:24
Alignment explanation
Indices: 14604428--14604475 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
14604418 ACACGCTATA
* *
14604428 TACAAAAATATGTGACATGCCATG
1 TACAAAAACATGTGACAAGCCATG
*
14604452 TACAAAAACCTGTGACAAGCCATG
1 TACAAAAACATGTGACAAGCCATG
14604476 GTTAGTTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.21
Consensus pattern (24 bp):
TACAAAAACATGTGACAAGCCATG
Found at i:14604572 original size:45 final size:45
Alignment explanation
Indices: 14604517--14604613 Score: 149
Period size: 45 Copynumber: 2.2 Consensus size: 45
14604507 TATGTGACAA
* * *
14604517 GCCAAGTACAAAATCCTGTGACAAGCTATGGTTAGGTTGTTACAC
1 GCCATGTACAAAAACCTGTAACAAGCTATGGTTAGGTTGTTACAC
* *
14604562 GCCATGTACAAAAACTTGTAACAAGTTATGGTTAGGTTGTTACAC
1 GCCATGTACAAAAACCTGTAACAAGCTATGGTTAGGTTGTTACAC
14604607 GCCATGT
1 GCCATGT
14604614 TGAAAAGAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (45 bp):
GCCATGTACAAAAACCTGTAACAAGCTATGGTTAGGTTGTTACAC
Found at i:14604683 original size:26 final size:25
Alignment explanation
Indices: 14604629--14604702 Score: 87
Period size: 26 Copynumber: 2.9 Consensus size: 25
14604619 AGAAATACTA
14604629 TTGTTACACGCCATG-TAAAAAACC
1 TTGTTACACGCCATGTTAAAAAACC
* * **
14604653 ATGTTACACGTCATGGTTAAAAAAGG
1 TTGTTACACGCCAT-GTTAAAAAACC
14604679 TTGTTACACGCCATGTTGAAAAAA
1 TTGTTACACGCCATGTT-AAAAAA
14604703 AAATATTGTT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
24 12 0.29
25 4 0.10
26 25 0.61
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.27
Consensus pattern (25 bp):
TTGTTACACGCCATGTTAAAAAACC
Found at i:14604719 original size:32 final size:32
Alignment explanation
Indices: 14604678--14604744 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
14604668 GTTAAAAAAG
14604678 GTTGTTACACGCCATGTTGAAAAAAAAATATT
1 GTTGTTACACGCCATGTTGAAAAAAAAATATT
* *
14604710 GTTGTTACACGCCATGTTGAAAAAATATTATT
1 GTTGTTACACGCCATGTTGAAAAAAAAATATT
14604742 GTT
1 GTT
14604745 ACACGACATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (32 bp):
GTTGTTACACGCCATGTTGAAAAAAAAATATT
Found at i:14604732 original size:29 final size:28
Alignment explanation
Indices: 14604597--14604749 Score: 115
Period size: 29 Copynumber: 5.4 Consensus size: 28
14604587 TTATGGTTAG
14604597 GTTGTTACACGCCATGTTGAAAAGAAATACT
1 GTTGTTACACGCCATGTTG-AAA-AAATA-T
* *
14604628 ATTGTTACACGCCATG-T-AAAAAACCA-
1 GTTGTTACACGCCATGTTGAAAAAA-TAT
* *
14604654 --TGTTACACGTCATGGTT--AAAAA-AG
1 GTTGTTACACGCCAT-GTTGAAAAAATAT
14604678 GTTGTTACACGCCATGTTGAAAAAAAAATATT
1 GTTGTTACACGCCATGTTG---AAAAAATA-T
14604710 GTTGTTACACGCCATGTTGAAAAAATATT
1 GTTGTTACACGCCATGTTGAAAAAATA-T
*
14604739 ATTGTTACACG
1 GTTGTTACACG
14604750 ACATATTCAA
Statistics
Matches: 103, Mismatches: 6, Indels: 28
0.75 0.04 0.20
Matches are distributed among these distances:
23 1 0.01
24 12 0.12
25 9 0.09
26 13 0.13
27 3 0.03
28 4 0.04
29 20 0.19
30 6 0.06
31 16 0.16
32 19 0.18
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (28 bp):
GTTGTTACACGCCATGTTGAAAAAATAT
Found at i:14604772 original size:27 final size:29
Alignment explanation
Indices: 14604700--14604762 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
14604690 CATGTTGAAA
* * *
14604700 AAAAAATATTGTTGTTACACGCCATGTTG
1 AAAAAATATTATTGTTACACGACATATTG
*
14604729 AAAAAATATTATTGTTACACGACATATTC
1 AAAAAATATTATTGTTACACGACATATTG
14604758 AAAAA
1 AAAAA
14604763 CATTTTGTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.32
Consensus pattern (29 bp):
AAAAAATATTATTGTTACACGACATATTG
Found at i:14605597 original size:22 final size:21
Alignment explanation
Indices: 14605550--14605597 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
14605540 ACCTAGGTGG
* *
14605550 AAAAATTCAAGGAAAAAGTGT
1 AAAAATTCAAAGAAAAAGTGA
* *
14605571 GAAAATTCAAAGAATCAAGTGA
1 AAAAATTCAAAGAA-AAAGTGA
14605593 AAAAA
1 AAAAA
14605598 GGTAAGATTT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.60, C:0.06, G:0.17, T:0.17
Consensus pattern (21 bp):
AAAAATTCAAAGAAAAAGTGA
Found at i:14613664 original size:13 final size:13
Alignment explanation
Indices: 14613646--14613670 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14613636 ATTTTCAAAA
14613646 ATTTTATAAAATT
1 ATTTTATAAAATT
14613659 ATTTTATAAAAT
1 ATTTTATAAAAT
14613671 CCCATTTTCC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTTTATAAAATT
Found at i:14617465 original size:74 final size:72
Alignment explanation
Indices: 14617345--14617490 Score: 265
Period size: 74 Copynumber: 2.0 Consensus size: 72
14617335 TTATTTTATC
*
14617345 AAGATTTCTAAATGATAATTAAAGAATTAAATTATTTAGTCTTTAATTTTAATTTTGATAATTAT
1 AAGATTTCTAAATGAAAATTAAAGAATTAAATTATTTAGTCTTTAATTTTAATTTTGATAATTAT
14617410 GGAGCAT
66 GGAGCAT
14617417 NAAGATTTCTAAATGTAAAATTAAAGAATTAAATTATTTAGTCTTTAATTTTAATTTTGATAATT
1 -AAGATTTCTAAATG-AAAATTAAAGAATTAAATTATTTAGTCTTTAATTTTAATTTTGATAATT
14617482 ATGGAGCAT
64 ATGGAGCAT
14617491 GTTTGATGCT
Statistics
Matches: 71, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
73 14 0.20
74 57 0.80
ACGTcount: A:0.40, C:0.04, G:0.11, T:0.44
Consensus pattern (72 bp):
AAGATTTCTAAATGAAAATTAAAGAATTAAATTATTTAGTCTTTAATTTTAATTTTGATAATTAT
GGAGCAT
Found at i:14618707 original size:35 final size:36
Alignment explanation
Indices: 14618668--14618784 Score: 123
Period size: 35 Copynumber: 3.3 Consensus size: 36
14618658 CTTACTCAGC
* * *
14618668 TCATGTGAACTCCCTACACGCACAAGGT-AATATTA
1 TCATGTGCACTCTCTACACGCACAAGGTCAATATCA
**
14618703 TCATGTGCACTCTCTACACGCAC-ATTTCAATATCA
1 TCATGTGCACTCTCTACACGCACAAGGTCAATATCA
* **
14618738 TCATGTGCACTCTCTACATGCAC-ATTTCAATATCA
1 TCATGTGCACTCTCTACACGCACAAGGTCAATATCA
**
14618773 TCACATGCACTC
1 TCATGTGCACTC
14618785 CCACCCACAT
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
34 2 0.03
35 71 0.97
ACGTcount: A:0.30, C:0.30, G:0.10, T:0.30
Consensus pattern (36 bp):
TCATGTGCACTCTCTACACGCACAAGGTCAATATCA
Found at i:14628246 original size:35 final size:35
Alignment explanation
Indices: 14628188--14628276 Score: 135
Period size: 35 Copynumber: 2.6 Consensus size: 35
14628178 TCACAAGGCG
14628188 ATATCATCATGT-CACTCCCTACACGCACATTTCA
1 ATATCATCATGTGCACTCCCTACACGCACATTTCA
* *
14628222 ATATCATCATGTGCACTCTCTACACGTACATTTCA
1 ATATCATCATGTGCACTCCCTACACGCACATTTCA
**
14628257 ATATCATCACATGCACTCCC
1 ATATCATCATGTGCACTCCC
14628277 GCCCACATCA
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
34 12 0.24
35 37 0.76
ACGTcount: A:0.29, C:0.34, G:0.07, T:0.30
Consensus pattern (35 bp):
ATATCATCATGTGCACTCCCTACACGCACATTTCA
Found at i:14629687 original size:21 final size:21
Alignment explanation
Indices: 14629661--14629703 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
14629651 TTCTTAAAGT
14629661 AAATTAAAGC-AAAATAAATTA
1 AAATTAAA-CTAAAATAAATTA
*
14629682 AAATTAAACTAAAATAACTTA
1 AAATTAAACTAAAATAAATTA
14629703 A
1 A
14629704 TTTAACTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.65, C:0.07, G:0.02, T:0.26
Consensus pattern (21 bp):
AAATTAAACTAAAATAAATTA
Found at i:14632060 original size:40 final size:39
Alignment explanation
Indices: 14631965--14632069 Score: 124
Period size: 38 Copynumber: 2.7 Consensus size: 39
14631955 TGATACTGCC
* *
14631965 CATGTGCACAATGTGGGGGGATGCACACGATGGCATTAA
1 CATGTGCACGATGTGGGGGGATGCACACGATGACATTAA
* **
14632004 C-TGTGCATGATGTGGGGGGATGCACACGATGAC-TCTGG
1 CATGTGCACGATGTGGGGGGATGCACACGATGACAT-TAA
*
14632042 CTATGTGCACGATGTGGGGGGATACACA
1 C-ATGTGCACGATGTGGGGGGATGCACA
14632070 TGAATTGGTT
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
37 1 0.02
38 31 0.55
39 1 0.02
40 23 0.41
ACGTcount: A:0.24, C:0.18, G:0.36, T:0.22
Consensus pattern (39 bp):
CATGTGCACGATGTGGGGGGATGCACACGATGACATTAA
Found at i:14647483 original size:63 final size:63
Alignment explanation
Indices: 14647292--14647598 Score: 472
Period size: 63 Copynumber: 4.9 Consensus size: 63
14647282 AATTGATGCA
*
14647292 ACCGTGCATGTGCGGAGTGGGAAGTGCAATGCCAGTTGAATGACAAAGGATGTGATAATTACG
1 ACCGTGCATGTGCGGAGTGGGAAGTGCAATGCCGGTTGAATGACAAAGGATGTGATAATTACG
* * * * *
14647355 ACCATGCATGTGAC-GAGTGGGAAGTGCAGATGCCGATTTAATGATAAAGGTTGTGATAATTACG
1 ACCGTGCATGTG-CGGAGTGGGAAGTGCA-ATGCCGGTTGAATGACAAAGGATGTGATAATTACG
*
14647419 ACCGTGCATGTGCGGAGTGGGAAGTACAATGCCGGTTGAATGACAAAGGATGTGATAATTACG
1 ACCGTGCATGTGCGGAGTGGGAAGTGCAATGCCGGTTGAATGACAAAGGATGTGATAATTACG
* *
14647482 ACCGTGCATGTGTGGAGTGGGAAGTGCAATGCCAGTTGAATGACAAAGGATGTGATAATTACG
1 ACCGTGCATGTGCGGAGTGGGAAGTGCAATGCCGGTTGAATGACAAAGGATGTGATAATTACG
* * * *
14647545 ACCGTGCATGTGTGGAGTGGGAAGTGCAATGCCGGTTTAATGATAAAGGTTGTG
1 ACCGTGCATGTGCGGAGTGGGAAGTGCAATGCCGGTTGAATGACAAAGGATGTG
14647599 GGGACGGCGA
Statistics
Matches: 222, Mismatches: 19, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
63 167 0.75
64 55 0.25
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.24
Consensus pattern (63 bp):
ACCGTGCATGTGCGGAGTGGGAAGTGCAATGCCGGTTGAATGACAAAGGATGTGATAATTACG
Found at i:14647491 original size:127 final size:126
Alignment explanation
Indices: 14647292--14647598 Score: 481
Period size: 127 Copynumber: 2.4 Consensus size: 126
14647282 AATTGATGCA
*
14647292 ACCGTGCATGTGCGGAGTGGGAAGTGCAATGCCAGTTGAATGACAAAGGATGTGATAATTACGAC
1 ACCGTGCATGTGCGGAGTGGGAAGTGCAATGCCGGTTGAATGACAAAGGATGTGATAATTACGAC
* * *
14647357 CATGCATGTGACGAGTGGGAAGTGCAGATGCC-GATTTAATGATAAAGGTTGTGATAATTACG
66 CATGCATGTGACGAGTGGGAAGTGCA-ATGCCAG-TTGAATGACAAAGGATGTGATAATTACG
*
14647419 ACCGTGCATGTGCGGAGTGGGAAGTACAATGCCGGTTGAATGACAAAGGATGTGATAATTACGAC
1 ACCGTGCATGTGCGGAGTGGGAAGTGCAATGCCGGTTGAATGACAAAGGATGTGATAATTACGAC
* **
14647484 CGTGCATGTGTGGAGTGGGAAGTGCAATGCCAGTTGAATGACAAAGGATGTGATAATTACG
66 CATGCATGTGACGAGTGGGAAGTGCAATGCCAGTTGAATGACAAAGGATGTGATAATTACG
* * * *
14647545 ACCGTGCATGTGTGGAGTGGGAAGTGCAATGCCGGTTTAATGATAAAGGTTGTG
1 ACCGTGCATGTGCGGAGTGGGAAGTGCAATGCCGGTTGAATGACAAAGGATGTG
14647599 GGGACGGCGA
Statistics
Matches: 166, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
126 79 0.48
127 87 0.52
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.24
Consensus pattern (126 bp):
ACCGTGCATGTGCGGAGTGGGAAGTGCAATGCCGGTTGAATGACAAAGGATGTGATAATTACGAC
CATGCATGTGACGAGTGGGAAGTGCAATGCCAGTTGAATGACAAAGGATGTGATAATTACG
Found at i:14650628 original size:17 final size:18
Alignment explanation
Indices: 14650589--14650622 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14650579 ACGATTAATA
*
14650589 AAAACTAAATTTAATTAC
1 AAAACTAAATCTAATTAC
14650607 AAAACTAAA-CTAATTA
1 AAAACTAAATCTAATTA
14650623 ATAAACACTA
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:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAACTAAATCTAATTAC
Found at i:14650638 original size:17 final size:17
Alignment explanation
Indices: 14650582--14650638 Score: 53
Period size: 19 Copynumber: 3.2 Consensus size: 17
14650572 TTTGTAGACG
14650582 ATTAATAAAAACT-AAA
1 ATTAATAAAAACTAAAA
*
14650598 TTTAATTACAAAACTAAACTA
1 ATTAA-TA-AAAACTAAA--A
*
14650619 ATTAATAAACACTAAAA
1 ATTAATAAAAACTAAAA
14650636 ATT
1 ATT
14650639 GACTAGAGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
16 4 0.12
17 6 0.18
18 6 0.18
19 10 0.30
20 2 0.06
21 5 0.15
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.30
Consensus pattern (17 bp):
ATTAATAAAAACTAAAA
Found at i:14654732 original size:67 final size:67
Alignment explanation
Indices: 14654605--14654734 Score: 163
Period size: 67 Copynumber: 1.9 Consensus size: 67
14654595 AAAAGTTAGT
* * * ** *
14654605 TTTGGGTTTTGGTTGATCCCTTGAAAAACCATTATTAAAGGTTATGGTTGGGCTTTTGAAAAGAC
1 TTTGGGTTTCGGTTGATCCCATGAAAAACCATTATTAAAGGTTATGGCTAAGCTTGTGAAAAGAC
14654670 AC
66 AC
* * *
14654672 TTTGGGTTTCGGTTGATCCCGAT-AAAAACTATTGTTAAAGGTTGTGGCTAAGCTTGTGAAAAG
1 TTTGGGTTTCGGTTGATCCC-ATGAAAAACCATTATTAAAGGTTATGGCTAAGCTTGTGAAAAG
14654735 CCATTGTAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
67 52 0.98
68 1 0.02
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.36
Consensus pattern (67 bp):
TTTGGGTTTCGGTTGATCCCATGAAAAACCATTATTAAAGGTTATGGCTAAGCTTGTGAAAAGAC
AC
Found at i:14656270 original size:45 final size:44
Alignment explanation
Indices: 14656206--14656473 Score: 251
Period size: 45 Copynumber: 5.9 Consensus size: 44
14656196 CCTCATTCGA
*
14656206 AGTAATCTCCCAACGAATGGTAGCATAAACATTATCATCATCTAG
1 AGTAATCT-CCAATGAATGGTAGCATAAACATTATCATCATCTAG
* * *
14656251 AGTAATCTCCAATCAAATGGTATCATAAACATTATCATCAT-TCAA
1 AGTAATCTCCAAT-GAATGGTAGCATAAACATTATCATCATCT-AG
* * *
14656296 AGTAATCTCGCAATGGATAGTAGCATAAACATTATCATCAT-TTG
1 AGTAATCTC-CAATGAATGGTAGCATAAACATTATCATCATCTAG
** **
14656340 AAGTAATCTTCTTAT-AGATGGTAGCATAAACATTATCATCATCCGG
1 -AGTAATC-TCCAATGA-ATGGTAGCATAAACATTATCATCATCTAG
* *
14656386 AGTAATCTCTCAATGGATGGTAGCCATATGCACAATTATCAT--TC-AG
1 AGTAATCTC-CAATGAATGGTAG-CATA--AAC-ATTATCATCATCTAG
*
14656432 AGTAATCTCCCAATGAATGGTACCATAAACATTATCATCATC
1 AGTAATCT-CCAATGAATGGTAGCATAAACATTATCATCATC
14656474 CAGTGTGGCA
Statistics
Matches: 183, Mismatches: 24, Indels: 33
0.76 0.10 0.14
Matches are distributed among these distances:
42 8 0.04
43 2 0.01
44 9 0.05
45 120 0.66
46 31 0.17
47 3 0.02
48 2 0.01
49 8 0.04
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (44 bp):
AGTAATCTCCAATGAATGGTAGCATAAACATTATCATCATCTAG
Found at i:14656361 original size:90 final size:90
Alignment explanation
Indices: 14656198--14656472 Score: 301
Period size: 90 Copynumber: 3.0 Consensus size: 90
14656188 AAATCAAGCC
* *
14656198 TCATTCGAAGTAATCTCCCAACGAATGGTAGCATAAACATTATCATCATCTAGAGTAATCTCCAA
1 TCATTCGAAGTAATCTCCCAATGGATGGTAGCATAAACATTATCATCATCTAGAGTAATCTCCAA
*
14656263 TCAAATGGTATCATAAACATTATCA
66 TCAAATGGTAGCATAAACATTATCA
* * * * *
14656288 TCATTCAAAGTAATCTCGCAATGGATAGTAGCATAAACATTATCATCAT-TTGAAGTAATCTTCT
1 TCATTCGAAGTAATCTCCCAATGGATGGTAGCATAAACATTATCATCATCTAG-AGTAATC-TCC
* *
14656352 TAT-AGATGGTAGCATAAACATTATCA
64 AATCAAATGGTAGCATAAACATTATCA
* * * *
14656378 TCATCCGGAGTAATCTCTCAATGGATGGTAGCCATATGCACAATTATCAT--TC-AGAGTAATCT
1 TCATTCGAAGTAATCTCCCAATGGATGGTAG-CATA--AAC-ATTATCATCATCTAGAGTAATCT
* *
14656440 CCCAAT-GAATGGTACCATAAACATTATCA
62 -CCAATCAAATGGTAGCATAAACATTATCA
14656469 TCAT
1 TCAT
14656473 CCAGTGTGGC
Statistics
Matches: 155, Mismatches: 22, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
89 2 0.01
90 99 0.64
91 42 0.27
92 2 0.01
93 2 0.01
94 8 0.05
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.31
Consensus pattern (90 bp):
TCATTCGAAGTAATCTCCCAATGGATGGTAGCATAAACATTATCATCATCTAGAGTAATCTCCAA
TCAAATGGTAGCATAAACATTATCA
Found at i:14657013 original size:45 final size:45
Alignment explanation
Indices: 14656964--14657098 Score: 146
Period size: 45 Copynumber: 3.0 Consensus size: 45
14656954 ATGCTAGGAA
*
14656964 AAACATTTTCATCATCCAAAGTAATCTCCCAACGGATAGTAGCAT
1 AAACATTATCATCATCCAAAGTAATCTCCCAACGGATAGTAGCAT
** * *
14657009 AAACATTATCATCATCCCGAGTAATCT-CCAAGCGAATTGTAGCCAT
1 AAACATTATCATCATCCAAAGTAATCTCCCAA-CGGATAGTAG-CAT
* ** * * *
14657055 ATACACAACCATCATCTAAAGTAATCTCCCAACGGATGGTAGCA
1 AAACATTATCATCATCCAAAGTAATCTCCCAACGGATAGTAGCA
14657099 CAACTCTGTA
Statistics
Matches: 73, Mismatches: 14, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
44 4 0.05
45 34 0.47
46 31 0.42
47 4 0.05
ACGTcount: A:0.37, C:0.26, G:0.13, T:0.24
Consensus pattern (45 bp):
AAACATTATCATCATCCAAAGTAATCTCCCAACGGATAGTAGCAT
Found at i:14657097 original size:46 final size:46
Alignment explanation
Indices: 14656973--14657097 Score: 137
Period size: 46 Copynumber: 2.7 Consensus size: 46
14656963 AAAACATTTT
** *
14656973 CATCATCCAAAGTAATCTCCCAACGGATAGTAG-CATAAACATTAT
1 CATCATCCAAAGTAATCTCCCAACGGATAGTAGCCATAAACACAAC
** * * *
14657018 CATCATCCCGAGTAATCT-CCAAGCGAATTGTAGCCATATACACAAC
1 CATCATCCAAAGTAATCTCCCAA-CGGATAGTAGCCATAAACACAAC
* *
14657064 CATCATCTAAAGTAATCTCCCAACGGATGGTAGC
1 CATCATCCAAAGTAATCTCCCAACGGATAGTAGC
14657098 ACAACTCTGT
Statistics
Matches: 64, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
44 4 0.06
45 24 0.38
46 32 0.50
47 4 0.06
ACGTcount: A:0.36, C:0.27, G:0.14, T:0.23
Consensus pattern (46 bp):
CATCATCCAAAGTAATCTCCCAACGGATAGTAGCCATAAACACAAC
Found at i:14663873 original size:20 final size:21
Alignment explanation
Indices: 14663829--14663873 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
14663819 AGGTATATAT
*
14663829 ATGAATATATGTTGTGTATTG
1 ATGAATATATGTTGTGTATTA
14663850 ATGAATA-ATGTTGTGTGA-TA
1 ATGAATATATGTTGTGT-ATTA
14663870 ATGA
1 ATGA
14663874 TGACCCAGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.33, C:0.00, G:0.24, T:0.42
Consensus pattern (21 bp):
ATGAATATATGTTGTGTATTA
Found at i:14664309 original size:40 final size:40
Alignment explanation
Indices: 14664247--14664361 Score: 133
Period size: 40 Copynumber: 2.9 Consensus size: 40
14664237 GCTTTGTTTC
* * * *
14664247 TTGCTGTAGGGAAAAA-GAATTCTTGCTGCAGTGAGGAATT
1 TTGCTGTA-GCAAAAATGGATTCTCGCTGCAGCGAGGAATT
* *
14664287 TTGCTGTAGCAAAAATGGATTCTCACTGTAGCGAGGAATT
1 TTGCTGTAGCAAAAATGGATTCTCGCTGCAGCGAGGAATT
* * *
14664327 TCGCTGTAACGAAAATGGATTCTCGCTGCAGCGAG
1 TTGCTGTAGCAAAAATGGATTCTCGCTGCAGCGAG
14664362 AAACTCTCGG
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
39 6 0.10
40 57 0.90
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.28
Consensus pattern (40 bp):
TTGCTGTAGCAAAAATGGATTCTCGCTGCAGCGAGGAATT
Found at i:14668481 original size:80 final size:80
Alignment explanation
Indices: 14668389--14668599 Score: 243
Period size: 80 Copynumber: 2.6 Consensus size: 80
14668379 TGTTCTAACT
* **
14668389 TTTCCCATTTTGTATATTAGCTCTAGTCCTAGTGTGGGGGTTGGAATACCACAAG-GTTAAGCTT
1 TTTCCCTTTTTGTATATTAGCTCTAGTCCTAGTGTGGGGGTAAGAATACCAC-AGTGTTAAGCTT
* * *
14668453 CACCAACCTGTCATCA
65 CACCAACATGCCACCA
* * * *
14668469 TTT-CCTCTTTTGT-TCATTGGCTCTACTCCTGGTATGGGGGTAAGAATACCACAGTGTTAAGCT
1 TTTCCCT-TTTTGTAT-ATTAGCTCTAGTCCTAGTGTGGGGGTAAGAATACCACAGTGTTAAGCT
*
14668532 TCACCAACATGCCACCT
64 TCACCAACATGCCACCA
14668549 TTTCCCTTTTTGTATATTAGCTCTAGTACC-A-TAGTGGGGGTAAGAATACCA
1 TTTCCCTTTTTGTATATTAGCTCTAGT-CCTAGT-GTGGGGGTAAGAATACCA
14668600 TTGCGTTAAG
Statistics
Matches: 109, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
79 6 0.06
80 97 0.89
81 6 0.06
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (80 bp):
TTTCCCTTTTTGTATATTAGCTCTAGTCCTAGTGTGGGGGTAAGAATACCACAGTGTTAAGCTTC
ACCAACATGCCACCA
Found at i:14671122 original size:43 final size:43
Alignment explanation
Indices: 14671041--14671204 Score: 215
Period size: 43 Copynumber: 3.8 Consensus size: 43
14671031 TTATGTGATA
** *
14671041 ATGATGACCCAACCGTGTGC-GTGTGGGAGTTCACATGAGCTG
1 ATGATGACCCAACTATGTGCGGTGTGGGAGTGCACATGAGCTG
*
14671083 ATGATGACCCAACTATGTGCGGTGTGGGAGTGGACATGAGCTG
1 ATGATGACCCAACTATGTGCGGTGTGGGAGTGCACATGAGCTG
* *
14671126 ATGATGACCCAGCTATGTGTGGTGTGGGAGTGCACATGAGCTG
1 ATGATGACCCAACTATGTGCGGTGTGGGAGTGCACATGAGCTG
*** *
14671169 ATGATGACCTGGCTATGTGCGAGT-AGGGAGTGCACA
1 ATGATGACCCAACTATGTGCG-GTGTGGGAGTGCACA
14671205 AGATGATGAT
Statistics
Matches: 109, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
42 18 0.17
43 89 0.82
44 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.36, T:0.24
Consensus pattern (43 bp):
ATGATGACCCAACTATGTGCGGTGTGGGAGTGCACATGAGCTG
Found at i:14672056 original size:14 final size:14
Alignment explanation
Indices: 14672037--14672067 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
14672027 GAGATTATAC
*
14672037 TCATGTTTTCAACT
1 TCATGTTTTCAAAT
14672051 TCATGTTTTCAAAT
1 TCATGTTTTCAAAT
14672065 TCA
1 TCA
14672068 GGGGTGGTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.19, G:0.06, T:0.48
Consensus pattern (14 bp):
TCATGTTTTCAAAT
Found at i:14682153 original size:13 final size:13
Alignment explanation
Indices: 14682135--14682159 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14682125 TTTCAGAAAA
14682135 TTTATAAAATCAT
1 TTTATAAAATCAT
14682148 TTTATAAAATCA
1 TTTATAAAATCA
14682160 CAATTTCTCT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:14683027 original size:10 final size:10
Alignment explanation
Indices: 14683012--14683040 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
14683002 ATGCTTGATT
14683012 TCTTGATTTC
1 TCTTGATTTC
14683022 TCTTGATTTC
1 TCTTGATTTC
14683032 TCTTGATTT
1 TCTTGATTT
14683041 TCCCCAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.10, C:0.17, G:0.10, T:0.62
Consensus pattern (10 bp):
TCTTGATTTC
Found at i:14686766 original size:241 final size:241
Alignment explanation
Indices: 14686336--14687058 Score: 1428
Period size: 241 Copynumber: 3.0 Consensus size: 241
14686326 TGAAGGATGC
*
14686336 TCGACTCCTATAGTACTACACAAGGTGGTAGGTGGAGGAAGGTTGCAATGCTGAAGAGCAAGGTT
1 TCGACTGCTATAGTACTACACAAGGTGGTAGGTGGAGGAAGGTTGCAATGCTGAAGAGCAAGGTT
*
14686401 GCAACGCTAATGAAAGGAAGCACACCTGTTGTTGAATTTTCTACTCACGTAAGTGCATGTATCAT
66 GCAACGCTAGTGAAAGGAAGCACACCTGTTGTTGAATTTTCTACTCACGTAAGTGCATGTATCAT
14686466 TAACAAGTAATATAGTAATGAAGTAGAGTATCGTTCCCATGGAGAATTGTTTAATTCCTACTGTT
131 TAACAAGTAATATAGTAATGAAGTAGAGTATCGTTCCCATGGAGAATTGTTTAATTCCTACTGTT
14686531 AACTACTAAAATTATAGCACCCTAATTTTATCCAAACAATTAAAAA
196 AACTACTAAAATTATAGCACCCTAATTTTATCCAAACAATTAAAAA
14686577 TCGACTGCTATAGTACTACACAAGGTGGTAGGTGGAGGAAGGTTGCAATGCTGAAGAGCAAGGTT
1 TCGACTGCTATAGTACTACACAAGGTGGTAGGTGGAGGAAGGTTGCAATGCTGAAGAGCAAGGTT
14686642 GCAACGCTAGTGAAAGGAAGCACACCTGTTGTTGAATTTTCTACTCACGTAAGTGCATGTATCAT
66 GCAACGCTAGTGAAAGGAAGCACACCTGTTGTTGAATTTTCTACTCACGTAAGTGCATGTATCAT
14686707 TAACAAGTAATATAGTAATGAAGTAGAGTATCGTTCCCATGGAGAATTGTTTAATTCCTACTGTT
131 TAACAAGTAATATAGTAATGAAGTAGAGTATCGTTCCCATGGAGAATTGTTTAATTCCTACTGTT
14686772 AACTACTAAAATTATAGCACCCTAATTTTATCCAAACAATTAAAAA
196 AACTACTAAAATTATAGCACCCTAATTTTATCCAAACAATTAAAAA
14686818 TCGACTGCTATAGTACTACACAAGGTGGTAGGTGGAGGAAGGTTGCAATGCTGAAGAGCAAGGTT
1 TCGACTGCTATAGTACTACACAAGGTGGTAGGTGGAGGAAGGTTGCAATGCTGAAGAGCAAGGTT
14686883 GCAACGCTAGTGAAAGGAAGCACACCTGTTGTTGAATTTTCTACTCACGTAAGTGCATGTATCAT
66 GCAACGCTAGTGAAAGGAAGCACACCTGTTGTTGAATTTTCTACTCACGTAAGTGCATGTATCAT
14686948 TAACAAGTAATATAGTAATGAAGTAGAGTATCGTTCCCATGGAGAATTGTTTAATTCCTACTGTT
131 TAACAAGTAATATAGTAATGAAGTAGAGTATCGTTCCCATGGAGAATTGTTTAATTCCTACTGTT
14687013 AACTACTAAAATTATAGCACCCTAATTTTATCCAAACAATTAAAAA
196 AACTACTAAAATTATAGCACCCTAATTTTATCCAAACAATTAAAAA
14687059 AAATTAAAAC
Statistics
Matches: 480, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
241 480 1.00
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (241 bp):
TCGACTGCTATAGTACTACACAAGGTGGTAGGTGGAGGAAGGTTGCAATGCTGAAGAGCAAGGTT
GCAACGCTAGTGAAAGGAAGCACACCTGTTGTTGAATTTTCTACTCACGTAAGTGCATGTATCAT
TAACAAGTAATATAGTAATGAAGTAGAGTATCGTTCCCATGGAGAATTGTTTAATTCCTACTGTT
AACTACTAAAATTATAGCACCCTAATTTTATCCAAACAATTAAAAA
Found at i:14696897 original size:79 final size:79
Alignment explanation
Indices: 14696758--14696905 Score: 169
Period size: 79 Copynumber: 1.9 Consensus size: 79
14696748 ATGTTGACTT
* *
14696758 TAGTCCTGGTGTGCGGGTAAGAATACCATAGGGTTAAGCTTAGCCAACATGCCACCTTTTCGC-C
1 TAGTCCTAGTGTGCGGGTAAGAATACCATAGGGTTAAGCTTAGCCAACATACCACCTTTTC-CTC
14696822 TTTATATGCTAGCTC
65 TTTATATGCTAGCTC
* * * * *
14696837 TAGTCCTAGTGTGGGGGTAAGAATATCGC-TA-GGTTAAG-TTAGGCATCTTACCACTTTTTTCC
1 TAGTCCTAGTGTGCGGGTAAGAATA-C-CATAGGGTTAAGCTTAGCCAACATACCAC-CTTTTCC
14696899 TCTTTAT
63 TCTTTAT
14696906 GAGTCCTAGT
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
78 13 0.22
79 41 0.71
80 3 0.05
81 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.34
Consensus pattern (79 bp):
TAGTCCTAGTGTGCGGGTAAGAATACCATAGGGTTAAGCTTAGCCAACATACCACCTTTTCCTCT
TTATATGCTAGCTC
Found at i:14698955 original size:2 final size:2
Alignment explanation
Indices: 14698948--14698976 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
14698938 TCTATCTATC
14698948 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14698977 GGTTTGAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14699273 original size:15 final size:15
Alignment explanation
Indices: 14699253--14699285 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
14699243 GTTTAGAGTT
*
14699253 CACTTCACGTCGAAC
1 CACTTCACGCCGAAC
14699268 CACTTCACGCCGAAC
1 CACTTCACGCCGAAC
14699283 CAC
1 CAC
14699286 CACGTGAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.27, C:0.45, G:0.12, T:0.15
Consensus pattern (15 bp):
CACTTCACGCCGAAC
Found at i:14699899 original size:12 final size:12
Alignment explanation
Indices: 14699882--14699906 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14699872 AAGAAAATAG
14699882 AATATTTTATTT
1 AATATTTTATTT
14699894 AATATTTTATTT
1 AATATTTTATTT
14699906 A
1 A
14699907 GTTTGATTAG
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
AATATTTTATTT
Done.