Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 47 of 186
Found at i:14209381 original size:13 final size:13
Alignment explanation
Indices: 14209363--14209387 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14209353 ATAATAAAAA
14209363 CAAAGTAATTTAT
1 CAAAGTAATTTAT
14209376 CAAAGTAATTTA
1 CAAAGTAATTTA
14209388 AAATGTATAA
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:0.08, T:0.36
Consensus pattern (13 bp):
CAAAGTAATTTAT
Found at i:14210269 original size:4 final size:4
Alignment explanation
Indices: 14210262--14210289 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
14210252 TTTTATAGCC
14210262 AATA AATA AATA AATA AATA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA
14210290 CAAATTTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AATA
Found at i:14211392 original size:17 final size:18
Alignment explanation
Indices: 14211372--14211409 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
14211362 TAAATTTCAA
*
14211372 TTTAGTCATC-TATTTAT
1 TTTAGTCAGCATATTTAT
*
14211389 TTTATTCAGCATATTTAT
1 TTTAGTCAGCATATTTAT
14211407 TTT
1 TTT
14211410 TTTAAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.24, C:0.11, G:0.05, T:0.61
Consensus pattern (18 bp):
TTTAGTCAGCATATTTAT
Found at i:14219898 original size:6 final size:6
Alignment explanation
Indices: 14219887--14219926 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
14219877 AAGTGAACTT
* *
14219887 AATAAA AATAAA ATAAAAA AATGAA AATAAA AATAAA AAT
1 AATAAA AATAAA A-ATAAA AATAAA AATAAA AATAAA AAT
14219927 CAATTAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 24 0.83
7 5 0.17
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (6 bp):
AATAAA
Found at i:14219908 original size:13 final size:14
Alignment explanation
Indices: 14219890--14219919 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
14219880 TGAACTTAAT
14219890 AAAAAT-AAAATAA
1 AAAAATGAAAATAA
14219903 AAAAATGAAAATAA
1 AAAAATGAAAATAA
14219917 AAA
1 AAA
14219920 TAAAAATCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.13
Consensus pattern (14 bp):
AAAAATGAAAATAA
Found at i:14222317 original size:28 final size:28
Alignment explanation
Indices: 14222276--14222333 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
14222266 TAAGCTCGAC
*
14222276 TTACCTCTCCATTGAATGGTCATGGTGG
1 TTACCTATCCATTGAATGGTCATGGTGG
*
14222304 TTACCTATCTATTGAATGGTCATGGTGG
1 TTACCTATCCATTGAATGGTCATGGTGG
14222332 TT
1 TT
14222334 CGAGGAGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.19, C:0.17, G:0.24, T:0.40
Consensus pattern (28 bp):
TTACCTATCCATTGAATGGTCATGGTGG
Found at i:14239768 original size:61 final size:61
Alignment explanation
Indices: 14239649--14239769 Score: 170
Period size: 61 Copynumber: 2.0 Consensus size: 61
14239639 GTACATTTGT
* * ***
14239649 CATAATTAAACGGAGTTGATTGCGCGCCTAGAAATAAGATGACAAGATTTTGTTGGATTAC
1 CATAATTAAACGGAGTTGATTGCCCACCTAGAAATAAGATGACAAGATTTTACCGGATTAC
* * *
14239710 CATAATTAAGCGGAGTTGATTGCCCACCTAGAAATAGGGTGACAAGATTTTACCGGATTA
1 CATAATTAAACGGAGTTGATTGCCCACCTAGAAATAAGATGACAAGATTTTACCGGATTA
14239770 GGGTGAAATC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 52 1.00
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (61 bp):
CATAATTAAACGGAGTTGATTGCCCACCTAGAAATAAGATGACAAGATTTTACCGGATTAC
Found at i:14240823 original size:73 final size:73
Alignment explanation
Indices: 14240704--14240845 Score: 266
Period size: 73 Copynumber: 1.9 Consensus size: 73
14240694 GCCAAATTGA
14240704 CACGGCCGTGTGATCTGCCCGTGTGAGGAAGACTAGGCTGTGTTGATTTCGTACTTTGGCCCATT
1 CACGGCCGTGTGATCTGCCCGTGTGAGGAAGACTAGGCTGTGTTGATTTCGTACTTTGGCCCATT
14240769 ATCTTAGG
66 ATCTTAGG
* *
14240777 CACGGCCGTGTGATCTGCCCGTGTGAGGAAGACTAGGCTGTGTTGATTTTGTACTTTTGCCCATT
1 CACGGCCGTGTGATCTGCCCGTGTGAGGAAGACTAGGCTGTGTTGATTTCGTACTTTGGCCCATT
14240842 ATCT
66 ATCT
14240846 CCGTTTTTGG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 67 1.00
ACGTcount: A:0.16, C:0.22, G:0.29, T:0.33
Consensus pattern (73 bp):
CACGGCCGTGTGATCTGCCCGTGTGAGGAAGACTAGGCTGTGTTGATTTCGTACTTTGGCCCATT
ATCTTAGG
Found at i:14247978 original size:10 final size:10
Alignment explanation
Indices: 14247963--14247992 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
14247953 GTTTTATAGT
*
14247963 TAGGAGAGTA
1 TAGGAGAGCA
14247973 TAGGAGAGCA
1 TAGGAGAGCA
14247983 TAGGAGAGCA
1 TAGGAGAGCA
14247993 ATGAAAGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.40, C:0.07, G:0.40, T:0.13
Consensus pattern (10 bp):
TAGGAGAGCA
Found at i:14251088 original size:37 final size:34
Alignment explanation
Indices: 14251015--14251085 Score: 83
Period size: 36 Copynumber: 2.0 Consensus size: 34
14251005 CTAATAATAA
14251015 TAATAATAAATAAAAATAAAATAAAAAATAGTTT
1 TAATAATAAATAAAAATAAAATAAAAAATAGTTT
*
14251049 TAATAA-AAATTAAAAGCATAAAATGAATAAAT-GTTT
1 TAATAATAAA-TAAAA--ATAAAAT-AAAAAATAGTTT
14251085 T
1 T
14251086 TAAACATCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
33 3 0.09
34 11 0.34
36 12 0.38
37 6 0.19
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.31
Consensus pattern (34 bp):
TAATAATAAATAAAAATAAAATAAAAAATAGTTT
Found at i:14265293 original size:37 final size:37
Alignment explanation
Indices: 14265234--14265372 Score: 224
Period size: 37 Copynumber: 3.8 Consensus size: 37
14265224 AGCTCAGACG
* *
14265234 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
14265271 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
14265308 TAATCTCCACACATAGTCATCCGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
14265345 TAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
14265373 TAGAGCTCGG
Statistics
Matches: 95, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 95 1.00
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:14265562 original size:47 final size:47
Alignment explanation
Indices: 14265491--14265979 Score: 906
Period size: 47 Copynumber: 10.4 Consensus size: 47
14265481 CCCTTCAGGA
* * * *
14265491 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
14265538 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
14265585 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
14265632 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
14265679 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
14265726 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
14265773 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
14265820 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
14265867 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
14265914 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
14265961 CTTATCACATATATACACT
1 CTTATCACATATATACACT
14265980 ACATCGGCCA
Statistics
Matches: 430, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 430 1.00
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:14265569 original size:25 final size:25
Alignment explanation
Indices: 14265541--14265619 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
14265531 ACTCGGCCCT
14265541 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
14265566 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
14265588 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
14265613 ATCACAT
1 ATCACAT
14265620 CGGCTATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:14269765 original size:40 final size:39
Alignment explanation
Indices: 14269439--14269756 Score: 384
Period size: 40 Copynumber: 8.0 Consensus size: 39
14269429 GCCCGAATAC
* * * * *
14269439 ACATCACCAGCATGATTGCTCTTCGGGACCTAGCTCGGAT
1 ACATCACTAGCACGAATGCTCTTC-GGACTTAGCCCGGAT
* * * ** *
14269479 ATAACACCAGCATAAATGCTCTTCGGACTTAGCTCGGAT
1 ACATCACTAGCACGAATGCTCTTCGGACTTAGCCCGGAT
* *
14269518 ATATCACTAGCACGAATGCTCTTCGGGACTTAGCCTGGAT
1 ACATCACTAGCACGAATGCTCTTC-GGACTTAGCCCGGAT
* *
14269558 ATATCACTAGCACGAATGCTCTTCGGATCTTAGTCCGGAT
1 ACATCACTAGCACGAATGCTCTTCGGA-CTTAGCCCGGAT
* *
14269598 ACATCACTAGCACGAATGCTCTTCGGGATTTAGCCCAGAT
1 ACATCACTAGCACGAATGCTCTTC-GGACTTAGCCCGGAT
* *
14269638 ACATCACTAGCGCGAATGCTCTTCGGAACTTAGTCCGGAT
1 ACATCACTAGCACGAATGCTCTTCGG-ACTTAGCCCGGAT
*
14269678 ACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGAT
1 ACATCACTAGCACGAATGCTCTTCGG-ACTTAGCCCGGAT
*
14269718 ACATCACTAGCACGAATGCTCTTCGAGATTTAGCCCGGA
1 ACATCACTAGCACGAATGCTCTTCG-GACTTAGCCCGGA
14269757 CATTTCACTC
Statistics
Matches: 249, Mismatches: 24, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
39 39 0.16
40 206 0.83
41 4 0.02
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
ACATCACTAGCACGAATGCTCTTCGGACTTAGCCCGGAT
Found at i:14269765 original size:120 final size:119
Alignment explanation
Indices: 14269439--14269765 Score: 424
Period size: 120 Copynumber: 2.7 Consensus size: 119
14269429 GCCCGAATAC
* * * * * * * * **
14269439 ACATCACCAGCATGATTGCTCTTCGGGACCTAG-CTCGGATATAACACCAGCATAAATGCTCTTC
1 ACATCACTAGCACGAATGCTCTTCGGAACTTAGTC-CGGATACATCACTAGCACGAATGCTCTTC
* * *
14269503 GGACTTAGCTCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCTGGAT
65 GGATTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCTGGAT
* *
14269558 ATATCACTAGCACGAATGCTCTTCGGATCTTAGTCCGGATACATCACTAGCACGAATGCTCTTCG
1 ACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTC-
* * *
14269623 GGATTTAGCCCAGATACATCACTAGCGCGAATGCTCTTCGGAACTTAGTCC-GGAT
65 GGATTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG-CCTGGAT
14269678 ACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCG
1 ACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCG
* *
14269743 AGATTTAGCCCGGACATTTCACT
66 -GATTTAGCCCGGATATATCACT
14269766 CTCAATTCTC
Statistics
Matches: 180, Mismatches: 24, Indels: 7
0.85 0.11 0.03
Matches are distributed among these distances:
119 51 0.28
120 127 0.71
121 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.26
Consensus pattern (119 bp):
ACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCG
GATTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCTGGAT
Found at i:14270197 original size:47 final size:47
Alignment explanation
Indices: 14270140--14270233 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
14270130 CATTTTATCA
*
14270140 CTTTATGGCATGTATAAATAGACTCACGCGTGCTACGTTAGTCCTAG
1 CTTTACGGCATGTATAAATAGACTCACGCGTGCTACGTTAGTCCTAG
14270187 CTTTACGGCATGTATAAATAGACTCACGCGTGCTACGTTAGTCCTAG
1 CTTTACGGCATGTATAAATAGACTCACGCGTGCTACGTTAGTCCTAG
14270234 AATCGACTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (47 bp):
CTTTACGGCATGTATAAATAGACTCACGCGTGCTACGTTAGTCCTAG
Found at i:14278593 original size:53 final size:53
Alignment explanation
Indices: 14278478--14278594 Score: 126
Period size: 53 Copynumber: 2.2 Consensus size: 53
14278468 TACACAGGTA
* * * * * * **
14278478 CCTTTCCTTTTTAACTTACCATTGCCATGTCTTGACATGATTTTACGTGGTTT
1 CCTTTCCTTATGAACTCACCATTGCCATGCCTTGACATGATCTTACATGGGAT
* * *
14278531 CCTTGCCTTATGAACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGAT
1 CCTTTCCTTATGAACTCACCATTGCCATGCCTTGACATGATCTTACATGGGAT
*
14278584 CTTTTCCTTAT
1 CCTTTCCTTAT
14278595 ATTAGTTTAT
Statistics
Matches: 51, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.17, C:0.26, G:0.15, T:0.42
Consensus pattern (53 bp):
CCTTTCCTTATGAACTCACCATTGCCATGCCTTGACATGATCTTACATGGGAT
Found at i:14280535 original size:16 final size:17
Alignment explanation
Indices: 14280509--14280560 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 17
14280499 TGAAATTAAA
14280509 TTTA-TATTTTTATAAG
1 TTTATTATTTTTATAAG
*
14280525 TTTATTATTTTAAT-AG
1 TTTATTATTTTTATAAG
*
14280541 TTT-TTATTTTTATAAT
1 TTTATTATTTTTATAAG
14280557 TTTA
1 TTTA
14280561 AAAAAATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 9 0.30
16 13 0.43
17 8 0.27
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (17 bp):
TTTATTATTTTTATAAG
Found at i:14281377 original size:20 final size:21
Alignment explanation
Indices: 14281337--14281377 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
14281327 ATTTAATTTT
*
14281337 AATAATATATTTATCTTAATA
1 AATAATATATTAATCTTAATA
*
14281358 AATATTATATTAAT-TTAATA
1 AATAATATATTAATCTTAATA
14281378 TTAAAGTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
AATAATATATTAATCTTAATA
Found at i:14282767 original size:78 final size:78
Alignment explanation
Indices: 14282638--14282793 Score: 276
Period size: 78 Copynumber: 2.0 Consensus size: 78
14282628 CCCATTTAGT
*
14282638 TCCTATAGTTGGATGGTCACTAGGCCTATCAACTAAATTTCATACTTGATTTCTTTCAAATTGAT
1 TCCTATAGTTGGATGGTCACTAAGCCTATCAACTAAATTTCATACTTGATTTCTTTCAAATTGAT
14282703 TTAATCCTCTTGC
66 TTAATCCTCTTGC
* *
14282716 TCCTATAGTTGGATGGTTACTAAGCCTATCAACTAAATTTCATTCTTGATTTCTTTCAAATTGAT
1 TCCTATAGTTGGATGGTCACTAAGCCTATCAACTAAATTTCATACTTGATTTCTTTCAAATTGAT
*
14282781 TTAATCTTCTTGC
66 TTAATCCTCTTGC
14282794 ATAGTCATTA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 74 1.00
ACGTcount: A:0.26, C:0.19, G:0.12, T:0.43
Consensus pattern (78 bp):
TCCTATAGTTGGATGGTCACTAAGCCTATCAACTAAATTTCATACTTGATTTCTTTCAAATTGAT
TTAATCCTCTTGC
Found at i:14287151 original size:21 final size:20
Alignment explanation
Indices: 14287119--14287159 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
14287109 CGATAGAAGA
* *
14287119 CCAGGTTGTATCCATAGAAC
1 CCAGGTTATATCAATAGAAC
14287139 CCAGAGTTATATCAATAGAAC
1 CCAG-GTTATATCAATAGAAC
14287160 TCCCAACTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (20 bp):
CCAGGTTATATCAATAGAAC
Found at i:14291435 original size:89 final size:89
Alignment explanation
Indices: 14291284--14291640 Score: 687
Period size: 89 Copynumber: 4.0 Consensus size: 89
14291274 TAGGGACTAA
* *
14291284 ATTGTAAAGGTATAAATTTTAGGGATCTATTGTGAAATGATGATAAATGAGAGTAGTTTCAAGGT
1 ATTGTAAAGGTATAAAATCTAGGGATCTATTGTGAAATGATGATAAATGAGAGTAGTTTCAAGGT
14291349 CCCTTGCATGTTTGGTTAACATGG
66 CCCTTGCATGTTTGGTTAACATGG
14291373 ATTGTAAAGGTATAAAATCTAGGGATCTATTGTGAAATGATGATAAATGAGAGTAGTTTCAAGGT
1 ATTGTAAAGGTATAAAATCTAGGGATCTATTGTGAAATGATGATAAATGAGAGTAGTTTCAAGGT
14291438 CCCTTGCATGTTTGGTTAACATGG
66 CCCTTGCATGTTTGGTTAACATGG
14291462 ATTGTAAAGGTATAAAATCTAGGGATCTATTGTGAAATGATGATAAATGAGAGTAGTTTCAAGGT
1 ATTGTAAAGGTATAAAATCTAGGGATCTATTGTGAAATGATGATAAATGAGAGTAGTTTCAAGGT
14291527 CCCTTGCATGTTTGGTTAACATGG
66 CCCTTGCATGTTTGGTTAACATGG
14291551 ATTGTAAAGGTATAAAATCTAGGGATCTATTGTGAAATGATGATAAATGAGAGTAGTTTCAAGGT
1 ATTGTAAAGGTATAAAATCTAGGGATCTATTGTGAAATGATGATAAATGAGAGTAGTTTCAAGGT
*
14291616 CCCTTGCATGTTTAGTTAACATGG
66 CCCTTGCATGTTTGGTTAACATGG
14291640 A
1 A
14291641 ATTAGATTTA
Statistics
Matches: 265, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 265 1.00
ACGTcount: A:0.33, C:0.09, G:0.24, T:0.34
Consensus pattern (89 bp):
ATTGTAAAGGTATAAAATCTAGGGATCTATTGTGAAATGATGATAAATGAGAGTAGTTTCAAGGT
CCCTTGCATGTTTGGTTAACATGG
Found at i:14295442 original size:75 final size:75
Alignment explanation
Indices: 14295318--14295457 Score: 255
Period size: 75 Copynumber: 1.9 Consensus size: 75
14295308 TTAGACATTA
*
14295318 TTAGTCTTGAATAGGGATAATAACATAACTTAGGGATCTCTACAGAACAAGTTGAATGAATAAAT
1 TTAGTCTTGAATAGGGATAATAACATAACTTAGGGATCTCTACAGAACAAGTTAAATGAATAAAT
14295383 CGTCTGGTTC
66 CGTCTGGTTC
14295393 TTAGTCTTGAATAGGGATAATAACATAACTTAGGGATCTCTAC-GAAACAAGTTAAATGAATAAA
1 TTAGTCTTGAATAGGGATAATAACATAACTTAGGGATCTCTACAG-AACAAGTTAAATGAATAAA
14295457 T
65 T
14295458 TGTCCGATTC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
74 1 0.02
75 62 0.98
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (75 bp):
TTAGTCTTGAATAGGGATAATAACATAACTTAGGGATCTCTACAGAACAAGTTAAATGAATAAAT
CGTCTGGTTC
Found at i:14297044 original size:27 final size:27
Alignment explanation
Indices: 14297014--14297225 Score: 111
Period size: 27 Copynumber: 7.6 Consensus size: 27
14297004 CAAATTGTAA
14297014 AATTACCAAAGTACCCTCGATTTATAG
1 AATTACCAAAGTACCCTCGATTTATAG
*** * *
14297041 AATTACCATTTTACCCTCAACTTATAG
1 AATTACCAAAGTACCCTCGATTTATAG
**** *
14297068 AATTACCGTTTTACCCTCGATTTACAG
1 AATTACCAAAGTACCCTCGATTTATAG
****
14297095 AATTACCGTTTTACCCTCGATTTATAG
1 AATTACCAAAGTACCCTCGATTTATAG
* * * *
14297122 AATTACTATTACTGTTTTACCCTCGATTTACAA
1 AATTACCA--A-AG---TACCCTCGATTTATAG
* * * * * *
14297155 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACCAAAGTACCCTCGATTTATAG
* **
14297182 AATTACCAAAATACCCTCGATCAAT-G
1 AATTACCAAAGTACCCTCGATTTATAG
14297208 AAATTACCAAAGTACCCT
1 -AATTACCAAAGTACCCT
14297226 AGTCTGTAAA
Statistics
Matches: 150, Mismatches: 28, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
27 126 0.84
30 1 0.01
31 1 0.01
33 22 0.15
ACGTcount: A:0.34, C:0.24, G:0.08, T:0.34
Consensus pattern (27 bp):
AATTACCAAAGTACCCTCGATTTATAG
Found at i:14297058 original size:54 final size:54
Alignment explanation
Indices: 14297000--14297127 Score: 148
Period size: 54 Copynumber: 2.4 Consensus size: 54
14296990 TACTGAAATG
* *
14297000 CCCTCAAATTGTAAAATTACCAAAGTACCCTCGATTTATAGAATTACCATTTTA
1 CCCTCAAATTATAAAATTACCAAAGTACCCTCGATTTACAGAATTACCATTTTA
* * **** *
14297054 CCCTCAACTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCAAATTATAAAATTACCAAAGTACCCTCGATTTACAGAATTACCATTTTA
* * *
14297108 CCCTCGATTTATAGAATTAC
1 CCCTCAAATTATAAAATTAC
14297128 TATTACTGTT
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.32, C:0.24, G:0.09, T:0.35
Consensus pattern (54 bp):
CCCTCAAATTATAAAATTACCAAAGTACCCTCGATTTACAGAATTACCATTTTA
Found at i:14297133 original size:33 final size:33
Alignment explanation
Indices: 14297096--14297162 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
14297086 GATTTACAGA
* *
14297096 ATTACCGTTTTACCCTCGATTTATAGAATTACT
1 ATTACCGTTTTACCCTCGATTTACAAAATTACT
*
14297129 ATTACTGTTTTACCCTCGATTTACAAAATTACT
1 ATTACCGTTTTACCCTCGATTTACAAAATTACT
14297162 A
1 A
14297163 AAATACCCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.42
Consensus pattern (33 bp):
ATTACCGTTTTACCCTCGATTTACAAAATTACT
Found at i:14297139 original size:60 final size:54
Alignment explanation
Indices: 14297025--14297160 Score: 173
Period size: 54 Copynumber: 2.4 Consensus size: 54
14297015 ATTACCAAAG
*
14297025 TACCCTCGATTTATAGAATTACCATTTTACCCTCAACTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCAACTTATAGAATTACCGTTT
* * *
14297079 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCAACTTATAGAATTAC-----C-GTTT
*
14297139 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
14297161 TAAAATACCC
Statistics
Matches: 71, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
54 45 0.63
59 1 0.01
60 25 0.35
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACCATTTTACCCTCAACTTATAGAATTACCGTTT
Found at i:14297186 original size:60 final size:60
Alignment explanation
Indices: 14297069--14297187 Score: 139
Period size: 60 Copynumber: 2.0 Consensus size: 60
14297059 AACTTATAGA
* **** * *
14297069 ATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACT
1 ATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTACAAAATTACT
* * * *
14297129 ATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTAC
1 ATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTACAAAATTAC
14297188 CAAAATACCC
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
60 48 1.00
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (60 bp):
ATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTACAAAATTACT
Found at i:14297303 original size:54 final size:54
Alignment explanation
Indices: 14297153--14297365 Score: 223
Period size: 54 Copynumber: 4.0 Consensus size: 54
14297143 CTCGATTTAC
* * ** ***
14297153 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTCGATCAAT
1 AAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCT-GATTTGT
* * * * * *
14297207 GAAATTACCAAAGTACCC-TAGTCTGTAAAATTGCTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTGATTTGT
* *
14297260 AAAATTACCAAAATACCCTTAGTTTGTAAAATTACGAAAATACCACTGATTTGT
1 AAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTGATTTGT
* * * * *
14297314 GAAATTACCGAAATACTCTCAATTTGTAAAATTACCAAAATACCCCTGATTT
1 AAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTGATTT
14297366 ACAAAGTTAC
Statistics
Matches: 130, Mismatches: 27, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
53 36 0.28
54 94 0.72
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.30
Consensus pattern (54 bp):
AAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTGATTTGT
Found at i:14297365 original size:27 final size:26
Alignment explanation
Indices: 14297139--14297365 Score: 177
Period size: 27 Copynumber: 8.4 Consensus size: 26
14297129 ATTACTGTTT
** *
14297139 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCT-GATTTGTAAAATTACCAAAA
* **
14297166 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCC-TGATTTGTAAAATTACCAAAA
*** * *
14297193 TACCCTCGATCAATGAAATTACCAAAG
1 TACCCT-GATTTGTAAAATTACCAAAA
* * *
14297220 TACCCT-AGTCTGTAAAATTGCTAAAA
1 TACCCTGA-TTTGTAAAATTACCAAAA
*
14297246 TACCCCTGGTTTGTAAAATTACCAAAA
1 TA-CCCTGATTTGTAAAATTACCAAAA
* *
14297273 TACCCTTAGTTTGTAAAATTACGAAAA
1 TACCCTGA-TTTGTAAAATTACCAAAA
* *
14297300 TACCACTGATTTGTGAAATTACCGAAA
1 TACC-CTGATTTGTAAAATTACCAAAA
* *
14297327 TACTCTCAATTTGTAAAATTACCAAAA
1 TACCCT-GATTTGTAAAATTACCAAAA
14297354 TACCCCTGATTT
1 TA-CCCTGATTT
14297366 ACAAAGTTAC
Statistics
Matches: 160, Mismatches: 31, Indels: 18
0.77 0.15 0.09
Matches are distributed among these distances:
25 1 0.01
26 21 0.13
27 131 0.82
28 7 0.04
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (26 bp):
TACCCTGATTTGTAAAATTACCAAAA
Found at i:14297381 original size:54 final size:53
Alignment explanation
Indices: 14297230--14297384 Score: 152
Period size: 54 Copynumber: 2.9 Consensus size: 53
14297220 TACCCTAGTC
* * * * *
14297230 TGTAAAATTGCTAAAATACCCCTGGTTTGTA-AAATTACCA-AAATACCCTTAGTT
1 TGTAAAATTACCAAAATACCCCT-GATT-TACAAATTA-CAGAAATACCCTCAATT
* * ** * *
14297284 TGTAAAATTACGAAAATACCACTGATTTGTGAAATTACCGAAATACTCTCAATT
1 TGTAAAATTACCAAAATACCCCTGATTT-ACAAATTACAGAAATACCCTCAATT
14297338 TGTAAAATTACCAAAATACCCCTGATTTACAAAGTTACAGAAATACC
1 TGTAAAATTACCAAAATACCCCTGATTTACAAA-TTACAGAAATACC
14297385 GTTGACTTTC
Statistics
Matches: 82, Mismatches: 15, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
52 1 0.01
53 7 0.09
54 74 0.90
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (53 bp):
TGTAAAATTACCAAAATACCCCTGATTTACAAATTACAGAAATACCCTCAATT
Found at i:14297436 original size:27 final size:27
Alignment explanation
Indices: 14297397--14297448 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
14297387 TGACTTTCTA
14297397 AAAATTATAGAAATAC-CATTGGTTTAC
1 AAAATTATAGAAATACAC-TTGGTTTAC
14297424 AAAATTACT-GAAATACACTTGGTTT
1 AAAATTA-TAGAAATACACTTGGTTT
14297449 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTATAGAAATACACTTGGTTTAC
Found at i:14297566 original size:27 final size:27
Alignment explanation
Indices: 14297502--14297566 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
14297492 ACCCCTATTA
* *
14297502 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCACTGTAG
* *
14297529 GGTAAAGTGACCGTAATA-CCACTGTAT
1 GGTAAAATGACCGTAA-AGCCACTGTAG
14297556 GGTAAAATGAC
1 GGTAAAATGAC
14297567 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCACTGTAG
Found at i:14298175 original size:14 final size:14
Alignment explanation
Indices: 14298156--14298186 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
14298146 TTTAGTAAAA
14298156 TTACGAAAATACCC
1 TTACGAAAATACCC
14298170 TTACGAAAATACCC
1 TTACGAAAATACCC
14298184 TTA
1 TTA
14298187 TAATGTGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.26, G:0.06, T:0.26
Consensus pattern (14 bp):
TTACGAAAATACCC
Found at i:14298411 original size:26 final size:26
Alignment explanation
Indices: 14298382--14298556 Score: 255
Period size: 26 Copynumber: 6.8 Consensus size: 26
14298372 GAGGAAGTGC
*
14298382 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
14298408 AAAATGGCTTATGCCCCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
* * *
14298434 AAAAAGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
14298460 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
* *
14298486 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
14298512 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
14298537 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
14298557 ATTAAAGAGG
Statistics
Matches: 134, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
25 32 0.24
26 102 0.76
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATCG
Found at i:14298461 original size:52 final size:52
Alignment explanation
Indices: 14298382--14298556 Score: 291
Period size: 52 Copynumber: 3.4 Consensus size: 52
14298372 GAGGAAGTGC
* *
14298382 AAAAGGGCTTATGCCCCAGTTTATTGAAAATGGCTTATGCCCCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
* *
14298434 AAAAAGGCTTATGCCCTAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
14298486 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
14298537 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
14298557 ATTAAAGAGG
Statistics
Matches: 117, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
50 9 0.08
51 25 0.21
52 83 0.71
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
Found at i:14298760 original size:42 final size:42
Alignment explanation
Indices: 14298701--14298788 Score: 140
Period size: 42 Copynumber: 2.1 Consensus size: 42
14298691 TAGTCTCCCC
* ** *
14298701 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
14298743 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
14298785 AAAT
1 AAAT
14298789 AGGCCTAAGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:14302712 original size:17 final size:17
Alignment explanation
Indices: 14302692--14302730 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
14302682 CTGTGATTAA
*
14302692 GTTTTTAAGATTCATTT
1 GTTTTGAAGATTCATTT
14302709 GTTTTGAAGATTCATTT
1 GTTTTGAAGATTCATTT
14302726 GTTTT
1 GTTTT
14302731 CCTTTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.21, C:0.05, G:0.15, T:0.59
Consensus pattern (17 bp):
GTTTTGAAGATTCATTT
Found at i:14302994 original size:72 final size:71
Alignment explanation
Indices: 14302914--14303056 Score: 250
Period size: 72 Copynumber: 2.0 Consensus size: 71
14302904 TCTTAAGTGT
* *
14302914 GGGGGGTATTTATTTCATTATCAGAAAAATTCCTGAATGATTGCCTTATTCTCTTGAAAAAGCTC
1 GGGGGGTATTTATTTCATTATCAGAAAAATCCCTGAATGACTGCCTTATTCTCTTG-AAAAGCTC
14302979 TCATATA
65 TCATATA
*
14302986 GGGGGGTATTTATTTCATTATCAGAAAAATCCCTGAATGACTGCCTTGTTCTCTTGAAAAGCTCT
1 GGGGGGTATTTATTTCATTATCAGAAAAATCCCTGAATGACTGCCTTATTCTCTTGAAAAGCTCT
14303051 CATATA
66 CATATA
14303057 ATATTTAGGA
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
71 15 0.22
72 53 0.78
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.36
Consensus pattern (71 bp):
GGGGGGTATTTATTTCATTATCAGAAAAATCCCTGAATGACTGCCTTATTCTCTTGAAAAGCTCT
CATATA
Found at i:14305499 original size:26 final size:25
Alignment explanation
Indices: 14305458--14305508 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 25
14305448 TAAAAGGACA
14305458 GTCATTCTAATACTTTTAGTTCCTT
1 GTCATTCTAATACTTTTAGTTCCTT
*
14305483 GTCATTACTAGTACTTTTAGTTCCTT
1 GTCATT-CTAATACTTTTAGTTCCTT
14305509 TGGGTTCTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.20, C:0.20, G:0.10, T:0.51
Consensus pattern (25 bp):
GTCATTCTAATACTTTTAGTTCCTT
Found at i:14314304 original size:188 final size:188
Alignment explanation
Indices: 14313987--14314361 Score: 662
Period size: 188 Copynumber: 2.0 Consensus size: 188
14313977 TTTTTATTAT
14313987 CTAGCCTAAAAATAAAAGGGTTTTGTTTTAACTAACTAATTATCTAAACTAAGAATTCACAGAAA
1 CTAGCCTAAAAATAAAAGGGTTTTGTTTTAACTAACTAATTATCTAAACTAAGAATTCACAGAAA
* * *
14314052 GTAGAATTGGGGGATTACTGTTGGAAAATGATTGAGTTAAGACAATACCTAAGGAAAAATCCACC
66 GTAGAATTGGGGGATTACTGTTGGAAAACGATTGAGTTAAAAAAATACCTAAGGAAAAATCCACC
* * * *
14314117 TAGACTTTACTTGTTATTCTGGCTCTGAATCAGACGATTTATTCATTTAACTTGTTCC
131 TAAACTTTACTTGTTATTCTGGCCCCGAATCAGAAGATTTATTCATTTAACTTGTTCC
14314175 CTAGCCTAAAAATAAAAGGGTTTTGTTTTAACTAACTAATTATCTAAACTAAGAATTCACAGAAA
1 CTAGCCTAAAAATAAAAGGGTTTTGTTTTAACTAACTAATTATCTAAACTAAGAATTCACAGAAA
14314240 GTAGAATTGGGGGATTACCT-TTGGAAAACGATTGAGTTAAAAAAATACCTAAGGAAAAATCCAC
66 GTAGAATTGGGGGATTA-CTGTTGGAAAACGATTGAGTTAAAAAAATACCTAAGGAAAAATCCAC
*
14314304 CTAAACTTTACTTGTTATTCTGGCCCCGAATCGGAAGATTTATTCATTTAACTTGTTC
130 CTAAACTTTACTTGTTATTCTGGCCCCGAATCAGAAGATTTATTCATTTAACTTGTTC
14314362 TGTAGAAATC
Statistics
Matches: 178, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
188 176 0.99
189 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (188 bp):
CTAGCCTAAAAATAAAAGGGTTTTGTTTTAACTAACTAATTATCTAAACTAAGAATTCACAGAAA
GTAGAATTGGGGGATTACTGTTGGAAAACGATTGAGTTAAAAAAATACCTAAGGAAAAATCCACC
TAAACTTTACTTGTTATTCTGGCCCCGAATCAGAAGATTTATTCATTTAACTTGTTCC
Found at i:14315052 original size:13 final size:13
Alignment explanation
Indices: 14315031--14315069 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
14315021 GCTCGGTAGG
14315031 GACACGCTCGTGT
1 GACACGCTCGTGT
*
14315044 GATACGCTCGTGT
1 GACACGCTCGTGT
*
14315057 GACATGCTCGTGT
1 GACACGCTCGTGT
14315070 TCGATTACTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.15, C:0.26, G:0.31, T:0.28
Consensus pattern (13 bp):
GACACGCTCGTGT
Found at i:14324940 original size:34 final size:34
Alignment explanation
Indices: 14324897--14324961 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
14324887 AGTCAAATGC
14324897 AGTTTGGGCCTAAGCCCATTTCAATTTCAGTAGT
1 AGTTTGGGCCTAAGCCCATTTCAATTTCAGTAGT
* * *
14324931 AGTTTGGGCCTTAGTCCATTTCAGTTTCAGT
1 AGTTTGGGCCTAAGCCCATTTCAATTTCAGT
14324962 GCCAGATGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (34 bp):
AGTTTGGGCCTAAGCCCATTTCAATTTCAGTAGT
Found at i:14341934 original size:67 final size:67
Alignment explanation
Indices: 14341826--14341977 Score: 304
Period size: 67 Copynumber: 2.3 Consensus size: 67
14341816 AATCCCTGAA
14341826 TGATTGATTTATGATTTTTATACCTTGTTCTCTTGAAAATCTCTAATATCATATTTAGGATAAAT
1 TGATTGATTTATGATTTTTATACCTTGTTCTCTTGAAAATCTCTAATATCATATTTAGGATAAAT
14341891 TT
66 TT
14341893 TGATTGATTTATGATTTTTATACCTTGTTCTCTTGAAAATCTCTAATATCATATTTAGGATAAAT
1 TGATTGATTTATGATTTTTATACCTTGTTCTCTTGAAAATCTCTAATATCATATTTAGGATAAAT
14341958 TT
66 TT
14341960 TGATTGATTTATGATTTT
1 TGATTGATTTATGATTTT
14341978 GATTGATATA
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 85 1.00
ACGTcount: A:0.29, C:0.09, G:0.11, T:0.51
Consensus pattern (67 bp):
TGATTGATTTATGATTTTTATACCTTGTTCTCTTGAAAATCTCTAATATCATATTTAGGATAAAT
TT
Found at i:14342960 original size:15 final size:14
Alignment explanation
Indices: 14342940--14342969 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
14342930 TTGAATCAAA
14342940 GGTAATTACTTAGAT
1 GGTAATTACTT-GAT
14342955 GGTAATTACTTGAT
1 GGTAATTACTTGAT
14342969 G
1 G
14342970 AGGGTAGACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (14 bp):
GGTAATTACTTGAT
Found at i:14345192 original size:14 final size:14
Alignment explanation
Indices: 14345173--14345210 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
14345163 TTATTTCACT
14345173 GAAAATGACTTT-CG
1 GAAAATGA-TTTACG
*
14345187 GAAAATGATTTATG
1 GAAAATGATTTACG
14345201 GAAAATGATT
1 GAAAATGATT
14345211 ACTTTTCTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 3 0.14
14 19 0.86
ACGTcount: A:0.42, C:0.05, G:0.21, T:0.32
Consensus pattern (14 bp):
GAAAATGATTTACG
Found at i:14345694 original size:15 final size:15
Alignment explanation
Indices: 14345674--14345725 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
14345664 ACTACAAAAC
14345674 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
14345689 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
14345708 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
14345723 ATT
1 ATT
14345726 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:14345790 original size:16 final size:16
Alignment explanation
Indices: 14345758--14345797 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 16
14345748 ATGTGAATCA
14345758 TATTATTTAAAACTAT
1 TATTATTTAAAACTAT
14345774 TATT-TTTAAAA-T-T
1 TATTATTTAAAACTAT
14345787 TATTA-TTAAAA
1 TATTATTTAAAA
14345798 TAAAATTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 11 0.48
14 1 0.04
15 7 0.30
16 4 0.17
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
TATTATTTAAAACTAT
Found at i:14357785 original size:25 final size:25
Alignment explanation
Indices: 14357751--14357800 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
14357741 AATAAATAAC
14357751 ATTTTGCACCTAAAGAAGCATTTTT
1 ATTTTGCACCTAAAGAAGCATTTTT
14357776 ATTTTGCACCTAAAGAAGCATTTTT
1 ATTTTGCACCTAAAGAAGCATTTTT
14357801 TGTAAAATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (25 bp):
ATTTTGCACCTAAAGAAGCATTTTT
Found at i:14358042 original size:19 final size:20
Alignment explanation
Indices: 14357996--14358041 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
14357986 TTTATAGAAA
*
14357996 ATAAAAATTATAATTTTTAT
1 ATAAAAATTATAATTTTTAC
14358016 ATAAAAATT-TAAGTTTTTAC
1 ATAAAAATTATAA-TTTTTAC
14358036 ATAAAA
1 ATAAAA
14358042 TAAATTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 3 0.12
20 21 0.88
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAAAAATTATAATTTTTAC
Found at i:14361549 original size:23 final size:23
Alignment explanation
Indices: 14361518--14361581 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 23
14361508 CATTAGGATT
*
14361518 TTTAAGGTTAGGGTTTTTTATAA
1 TTTAGGGTTAGGGTTTTTTATAA
**
14361541 TTTAGGGTTAGGGTTTTTTATGT
1 TTTAGGGTTAGGGTTTTTTATAA
14361564 TTTAGGGTTTTAGGGTTT
1 TTTAGGG--TTAGGGTTT
14361582 ATAAAAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
23 27 0.75
25 9 0.25
ACGTcount: A:0.17, C:0.00, G:0.28, T:0.55
Consensus pattern (23 bp):
TTTAGGGTTAGGGTTTTTTATAA
Found at i:14362508 original size:126 final size:127
Alignment explanation
Indices: 14362231--14362604 Score: 506
Period size: 126 Copynumber: 3.0 Consensus size: 127
14362221 AGAATAATTT
* * * * * * * * *
14362231 TGAGTAGACATTTCTGAACAAATAATGTCGAAAATGCTTTAAGTAGAATGCAGTGCCAG-AAAAT
1 TGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAA
* * * *
14362295 TTTTGGAAAAAA-CTCCCACGTGGACGCTCTTTTGCTACAGT-GTTTGTAGAAAAATAAATCC
66 TTCT-GAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGCAGAAAAATGAATCC
* *
14362356 -GAGTAGACGTTTCTGAACAGATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAG
1 TGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAA
* *
14362420 TTCTGAAAAAAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTTCGCAGGAAAATGAA-CC
66 TTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGCAGAAAAATGAATCC
** *
14362481 TGAGTAGACGTTTCTGAACAAATAGTGTTAAAAACGCTTCAAGCAGGATGCACTGTCGGCAAAAA
1 TGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTCAGC-AAAA
*
14362546 ATTCTGAAAAAAGATCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGCAGAAAAATGA
65 ATTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGCAGAAAAATGA
14362605 GCCTACAAAT
Statistics
Matches: 220, Mismatches: 24, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
124 56 0.25
125 37 0.17
126 68 0.31
127 59 0.27
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.25
Consensus pattern (127 bp):
TGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAA
TTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGCAGAAAAATGAATCC
Found at i:14366101 original size:18 final size:18
Alignment explanation
Indices: 14366075--14366117 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
14366065 GACTAGAAAA
* *
14366075 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
14366093 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
14366111 AGGATAC
1 AGGATAC
14366118 GCATCTCGCG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.28, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:14366711 original size:7 final size:7
Alignment explanation
Indices: 14366699--14366723 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
14366689 TATTATTTAT
14366699 ATACATA
1 ATACATA
14366706 ATACATA
1 ATACATA
14366713 ATACATA
1 ATACATA
14366720 ATAC
1 ATAC
14366724 TAAATACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (7 bp):
ATACATA
Found at i:14366729 original size:14 final size:14
Alignment explanation
Indices: 14366699--14366743 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
14366689 TATTATTTAT
14366699 ATACATAATAC-ATA
1 ATACATAATACTA-A
14366713 ATACATAATACTAA
1 ATACATAATACTAA
14366727 ATAC-TAAATACTAA
1 ATACAT-AATACTAA
14366741 ATA
1 ATA
14366744 TTAAATATGG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.03
14 27 0.93
15 1 0.03
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (14 bp):
ATACATAATACTAA
Found at i:14366751 original size:7 final size:7
Alignment explanation
Indices: 14366719--14366750 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
14366709 CATAATACAT
14366719 AATACTA
1 AATACTA
14366726 AATACTA
1 AATACTA
14366733 AATACTA
1 AATACTA
*
14366740 AATATTA
1 AATACTA
14366747 AATA
1 AATA
14366751 TGGCTTGCGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.31
Consensus pattern (7 bp):
AATACTA
Found at i:14367136 original size:451 final size:451
Alignment explanation
Indices: 14366294--14367174 Score: 1501
Period size: 451 Copynumber: 2.0 Consensus size: 451
14366284 CTTCCGATAA
*
14366294 TAAATATGGCTTGCCATGGATCCTAAACCATGGCATGTATTCCGGTACGCACGCTAACTCTGAAA
1 TAAATATGGCTTGCCATGGATCCTAAACCATGACATGTATTCCGGTACGCACGCTAACTCTGAAA
** * * *
14366359 TGATGATCAGTTCCCGAGTTGGTATATAATCATACCGATTTTTCCATATTTCGATATAGTGTGAC
66 CAATGATCAGTTCCCGAGTTGGGATATAATCATACCGATTTTCCCACATTTCGATATAGTGTGAC
*
14366424 CAGAATCTCGGCCAATCCGTATGTAGTTACCGTAAGTCGACTTTGTGCTCATCATCAAACACCTC
131 CAGAATCTCGGCCAATCCGTATGCAGTTACCGTAAGTCGACTTTGTGCTCATCATCAAACACCTC
*
14366489 AGGTGCCACGGGAATCGGTTGTCTGAATCCAAATTGCCTCAATACTCTATCTGACTGGTGCATCT
196 AGGTGCCACGGGAATCGGTTGTCTGAATCCAAATTGCCTCAATACTCTATCTGACTAGTGCATCT
* *
14366554 CTACGGTAGCATAGTTCACCAATACGACCTTCACATGCCAAACATTTGGATTTTGAAAGAATTCA
261 CCACGGTAGCATAGTTCACCAATACAACCTTCACATGCCAAACATTTGGATTTTGAAAGAATTCA
* *
14366619 TCCGGAATTACTGCCCGAATTGCCAGATCCTCGTATGGTGTCTATTGACACTATATAAACATGAT
326 TCCGGAATCACTGCCCGAATTGCCAGATCCTCGTATGGTGTCTATTGAAACTATATAAACATGAT
14366684 AAAAATATTATTTATATACATAATACATAATACATAATACTAAATACTAAATACTAAATAT
391 AAAAATATTATTTATATACATAATACATAATACATAATACTAAATACTAAATACTAAATAT
** * *
14366745 TAAATATGGCTTGCGTTGGATCCTAAACCATGACATGTATTCCGGTACGCACGTTAACTCTGGAA
1 TAAATATGGCTTGCCATGGATCCTAAACCATGACATGTATTCCGGTACGCACGCTAACTCTGAAA
* * *
14366810 CAATGATCGGTTCTCGAGTTGGGATATAATCATACCGATTTTCCCACATTTTGATATAGTGTGAC
66 CAATGATCAGTTCCCGAGTTGGGATATAATCATACCGATTTTCCCACATTTCGATATAGTGTGAC
*
14366875 CAGAATCTCGGCCAATCCGTATGCAGTTGCCGTAAGTCGACTTTGTGCTCATCATCAAACACCTC
131 CAGAATCTCGGCCAATCCGTATGCAGTTACCGTAAGTCGACTTTGTGCTCATCATCAAACACCTC
*
14366940 AGGTGCCACGGGAATTGGTTGTCTGAATCCAAATTGCCTCAATACTCTATCTGACTAGTGCATCT
196 AGGTGCCACGGGAATCGGTTGTCTGAATCCAAATTGCCTCAATACTCTATCTGACTAGTGCATCT
* * * *
14367005 CCACGGTAGCATAGTTCACCAATGCAACCTTCACATGCCAAGCGTTTGGATTTTGGAAGAATTCA
261 CCACGGTAGCATAGTTCACCAATACAACCTTCACATGCCAAACATTTGGATTTTGAAAGAATTCA
*** *
14367070 TCCGGAATCACTGCCCGAATTGTTGGATCCTCGTATGGTGTCTATTGAAACTATATGAACATGAT
326 TCCGGAATCACTGCCCGAATTGCCAGATCCTCGTATGGTGTCTATTGAAACTATATAAACATGAT
14367135 AAAAATATTATTTATATACATAATACATAATACATAATAC
391 AAAAATATTATTTATATACATAATACATAATACATAATAC
14367175 ATAATACATA
Statistics
Matches: 401, Mismatches: 29, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
451 401 1.00
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (451 bp):
TAAATATGGCTTGCCATGGATCCTAAACCATGACATGTATTCCGGTACGCACGCTAACTCTGAAA
CAATGATCAGTTCCCGAGTTGGGATATAATCATACCGATTTTCCCACATTTCGATATAGTGTGAC
CAGAATCTCGGCCAATCCGTATGCAGTTACCGTAAGTCGACTTTGTGCTCATCATCAAACACCTC
AGGTGCCACGGGAATCGGTTGTCTGAATCCAAATTGCCTCAATACTCTATCTGACTAGTGCATCT
CCACGGTAGCATAGTTCACCAATACAACCTTCACATGCCAAACATTTGGATTTTGAAAGAATTCA
TCCGGAATCACTGCCCGAATTGCCAGATCCTCGTATGGTGTCTATTGAAACTATATAAACATGAT
AAAAATATTATTTATATACATAATACATAATACATAATACTAAATACTAAATACTAAATAT
Found at i:14367162 original size:7 final size:7
Alignment explanation
Indices: 14367150--14368000 Score: 1702
Period size: 7 Copynumber: 121.6 Consensus size: 7
14367140 TATTATTTAT
14367150 ATACATA
1 ATACATA
14367157 ATACATA
1 ATACATA
14367164 ATACATA
1 ATACATA
14367171 ATACATA
1 ATACATA
14367178 ATACATA
1 ATACATA
14367185 ATACATA
1 ATACATA
14367192 ATACATA
1 ATACATA
14367199 ATACATA
1 ATACATA
14367206 ATACATA
1 ATACATA
14367213 ATACATA
1 ATACATA
14367220 ATACATA
1 ATACATA
14367227 ATACATA
1 ATACATA
14367234 ATACATA
1 ATACATA
14367241 ATACATA
1 ATACATA
14367248 ATACATA
1 ATACATA
14367255 ATACATA
1 ATACATA
14367262 ATACATA
1 ATACATA
14367269 ATACATA
1 ATACATA
14367276 ATACATA
1 ATACATA
14367283 ATACATA
1 ATACATA
14367290 ATACATA
1 ATACATA
14367297 ATACATA
1 ATACATA
14367304 ATACATA
1 ATACATA
14367311 ATACATA
1 ATACATA
14367318 ATACATA
1 ATACATA
14367325 ATACATA
1 ATACATA
14367332 ATACATA
1 ATACATA
14367339 ATACATA
1 ATACATA
14367346 ATACATA
1 ATACATA
14367353 ATACATA
1 ATACATA
14367360 ATACATA
1 ATACATA
14367367 ATACATA
1 ATACATA
14367374 ATACATA
1 ATACATA
14367381 ATACATA
1 ATACATA
14367388 ATACATA
1 ATACATA
14367395 ATACATA
1 ATACATA
14367402 ATACATA
1 ATACATA
14367409 ATACATA
1 ATACATA
14367416 ATACATA
1 ATACATA
14367423 ATACATA
1 ATACATA
14367430 ATACATA
1 ATACATA
14367437 ATACATA
1 ATACATA
14367444 ATACATA
1 ATACATA
14367451 ATACATA
1 ATACATA
14367458 ATACATA
1 ATACATA
14367465 ATACATA
1 ATACATA
14367472 ATACATA
1 ATACATA
14367479 ATACATA
1 ATACATA
14367486 ATACATA
1 ATACATA
14367493 ATACATA
1 ATACATA
14367500 ATACATA
1 ATACATA
14367507 ATACATA
1 ATACATA
14367514 ATACATA
1 ATACATA
14367521 ATACATA
1 ATACATA
14367528 ATACATA
1 ATACATA
14367535 ATACATA
1 ATACATA
14367542 ATACATA
1 ATACATA
14367549 ATACATA
1 ATACATA
14367556 ATACATA
1 ATACATA
14367563 ATACATA
1 ATACATA
14367570 ATACATA
1 ATACATA
14367577 ATACATA
1 ATACATA
14367584 ATACATA
1 ATACATA
14367591 ATACATA
1 ATACATA
14367598 ATACATA
1 ATACATA
14367605 ATACATA
1 ATACATA
14367612 ATACATA
1 ATACATA
14367619 ATACATA
1 ATACATA
14367626 ATACATA
1 ATACATA
14367633 ATACATA
1 ATACATA
14367640 ATACATA
1 ATACATA
14367647 ATACATA
1 ATACATA
14367654 ATACATA
1 ATACATA
14367661 ATACATA
1 ATACATA
14367668 ATACATA
1 ATACATA
14367675 ATACATA
1 ATACATA
14367682 ATACATA
1 ATACATA
14367689 ATACATA
1 ATACATA
14367696 ATACATA
1 ATACATA
14367703 ATACATA
1 ATACATA
14367710 ATACATA
1 ATACATA
14367717 ATACATA
1 ATACATA
14367724 ATACATA
1 ATACATA
14367731 ATACATA
1 ATACATA
14367738 ATACATA
1 ATACATA
14367745 ATACATA
1 ATACATA
14367752 ATACATA
1 ATACATA
14367759 ATACATA
1 ATACATA
14367766 ATACATA
1 ATACATA
14367773 ATACATA
1 ATACATA
14367780 ATACATA
1 ATACATA
14367787 ATACATA
1 ATACATA
14367794 ATACATA
1 ATACATA
14367801 ATACATA
1 ATACATA
14367808 ATACATA
1 ATACATA
14367815 ATACATA
1 ATACATA
14367822 ATACATA
1 ATACATA
14367829 ATACATA
1 ATACATA
14367836 ATACATA
1 ATACATA
14367843 ATACATA
1 ATACATA
14367850 ATACATA
1 ATACATA
14367857 ATACATA
1 ATACATA
14367864 ATACATA
1 ATACATA
14367871 ATACATA
1 ATACATA
14367878 ATACATA
1 ATACATA
14367885 ATACATA
1 ATACATA
14367892 ATACATA
1 ATACATA
14367899 ATACATA
1 ATACATA
14367906 ATACATA
1 ATACATA
14367913 ATACATA
1 ATACATA
14367920 ATACATA
1 ATACATA
14367927 ATACATA
1 ATACATA
14367934 ATACATA
1 ATACATA
14367941 ATACATA
1 ATACATA
14367948 ATACATA
1 ATACATA
14367955 ATACATA
1 ATACATA
14367962 ATACATA
1 ATACATA
14367969 ATACATA
1 ATACATA
14367976 ATACATA
1 ATACATA
14367983 ATACATA
1 ATACATA
14367990 ATACATA
1 ATACATA
14367997 ATAC
1 ATAC
14368001 TAAATACTAA
Statistics
Matches: 844, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 844 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (7 bp):
ATACATA
Found at i:14369077 original size:48 final size:48
Alignment explanation
Indices: 14368990--14369125 Score: 159
Period size: 48 Copynumber: 2.8 Consensus size: 48
14368980 ATGCAAACAT
* ** *
14368990 CATAAATGAAAAAAAAAATCAAGCAGTATTG-AAATTTTAATTATAATTG
1 CATAAATG-AAAAAAATATCAAATAGTATTGCAAA-TTTAATTAAAATTG
14369039 CATAAATGAAAAAAATATCAAATAGTATTGCAAATTTAATTAAAATTG
1 CATAAATGAAAAAAATATCAAATAGTATTGCAAATTTAATTAAAATTG
* * * *
14369087 CAAAAATTAAGAAAATATCGAATAGTATT-CAAAATTTAA
1 CATAAATGAAAAAAATATCAAATAGTATTGC-AAATTTAA
14369126 AATTATTACT
Statistics
Matches: 77, Mismatches: 8, Indels: 5
0.86 0.09 0.06
Matches are distributed among these distances:
47 1 0.01
48 65 0.84
49 11 0.14
ACGTcount: A:0.54, C:0.07, G:0.09, T:0.30
Consensus pattern (48 bp):
CATAAATGAAAAAAATATCAAATAGTATTGCAAATTTAATTAAAATTG
Found at i:14369279 original size:11 final size:11
Alignment explanation
Indices: 14369265--14369322 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
14369255 ACAAATAAAA
14369265 TTGATAGAATT
1 TTGATAGAATT
14369276 TTGATAGAATT
1 TTGATAGAATT
* *
14369287 TTGAGAAAATT
1 TTGATAGAATT
** *
14369298 TCAAT-GAAAT
1 TTGATAGAATT
*
14369308 TTGATAGATTT
1 TTGATAGAATT
14369319 TTGA
1 TTGA
14369323 AGGGAATATT
Statistics
Matches: 35, Mismatches: 11, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
10 6 0.17
11 29 0.83
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.43
Consensus pattern (11 bp):
TTGATAGAATT
Found at i:14377794 original size:40 final size:40
Alignment explanation
Indices: 14377748--14377896 Score: 246
Period size: 40 Copynumber: 3.7 Consensus size: 40
14377738 GCTACTTGCT
*
14377748 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
14377788 CCAATGCCTTCGGGACTTAGCCCGGGTT-TGGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GGTTATAGTAACTCGCA
*
14377828 CAAATGCCTTCGGGACTTAGCCCGGTTTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
14377868 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
14377897 CATCCGAATA
Statistics
Matches: 101, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
39 4 0.04
40 93 0.92
41 4 0.04
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:14392388 original size:13 final size:13
Alignment explanation
Indices: 14392370--14392394 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14392360 AAAATGACTA
14392370 AATAAATAAAAAG
1 AATAAATAAAAAG
14392383 AATAAATAAAAA
1 AATAAATAAAAA
14392395 ATAACAAACA
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:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (13 bp):
AATAAATAAAAAG
Found at i:14401078 original size:29 final size:29
Alignment explanation
Indices: 14401031--14401097 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
14401021 TGGCCCAAGA
* * *
14401031 GTAAATACTCAAAATTTGAGGGATTAAAGT
1 GTAAATA-TCAAAAGTTGAAGGACTAAAGT
* *
14401061 GTAAATATGAAAAGTTGAAGGACTATAGT
1 GTAAATATCAAAAGTTGAAGGACTAAAGT
*
14401090 GCAAATAT
1 GTAAATAT
14401098 TTTAAGGGTG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
29 24 0.77
30 7 0.23
ACGTcount: A:0.45, C:0.06, G:0.21, T:0.28
Consensus pattern (29 bp):
GTAAATATCAAAAGTTGAAGGACTAAAGT
Found at i:14403191 original size:42 final size:43
Alignment explanation
Indices: 14403019--14403201 Score: 210
Period size: 43 Copynumber: 4.3 Consensus size: 43
14403009 TTTATTTAAA
* * * * *
14403019 AAACGCCGCTAAAGACCATGACTTTTAGTGGCTCTTTTTTTAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTCAC
* *
14403062 AAGCGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTC-CAAA
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTC-AC
* * * * *
14403105 AAACGCCGCTAAAAATCATAACCTTTAGCCGCGCTTTTCACAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTCAC
* *
14403148 AAACGCCACTAAAGA-CATGACTTTTAGCGGCGCTTTTCTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTCAC
14403190 AAACG-CGCTAAA
1 AAACGCCGCTAAA
14403202 AATCACGAAC
Statistics
Matches: 118, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
41 6 0.05
42 28 0.24
43 83 0.70
44 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTCAC
Found at i:14403259 original size:22 final size:22
Alignment explanation
Indices: 14403221--14403274 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
14403211 CTTTAAAAAA
*
14403221 ATTATTTTATTTTAAATAATAT
1 ATTATTTTATGTTAAATAATAT
*
14403243 -TTATTTCTATGTTAAATATTAT
1 ATTATTT-TATGTTAAATAATAT
14403265 ATTATGTTTA
1 ATTAT-TTTA
14403275 ATTTTTGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 6 0.22
22 13 0.48
23 6 0.22
24 2 0.07
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (22 bp):
ATTATTTTATGTTAAATAATAT
Found at i:14412222 original size:27 final size:27
Alignment explanation
Indices: 14412185--14412351 Score: 230
Period size: 27 Copynumber: 6.2 Consensus size: 27
14412175 AGCATGGCTG
* * *
14412185 CCAGAACAGATA-ATGTGACAGAGTCA
1 CCAGATCAGATATATGTGGCAGAGCCA
14412211 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGAT-CAGATATAT-GTGGCAGAGCCA
*
14412239 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGATCAGATATATGTGGCAGAGCCA
*
14412266 CCAGATCAGATATTTGTGGCAGAGCCA
1 CCAGATCAGATATATGTGGCAGAGCCA
*
14412293 CCAGATCAGATATTTGTGGCAGAGCCA
1 CCAGATCAGATATATGTGGCAGAGCCA
* *
14412320 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGATCAGATATATGTGGCAGAGCCA
14412347 CCAGA
1 CCAGA
14412352 ACGCTTCCTC
Statistics
Matches: 131, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
26 5 0.04
27 109 0.83
28 17 0.13
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.19
Consensus pattern (27 bp):
CCAGATCAGATATATGTGGCAGAGCCA
Found at i:14412244 original size:54 final size:54
Alignment explanation
Indices: 14412185--14412353 Score: 259
Period size: 54 Copynumber: 3.1 Consensus size: 54
14412175 AGCATGGCTG
* * * *
14412185 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATATTTGTGGCAGAGCCA
14412239 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCAGAGCCA
* * *
14412293 CCAGATCAGATATTTGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCAGAGCCA
14412347 CCAGAAC
1 CCAGAAC
14412354 GCTTCCTCCA
Statistics
Matches: 106, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
54 88 0.83
55 18 0.17
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCAGAGCCA
Found at i:14414013 original size:26 final size:26
Alignment explanation
Indices: 14413971--14414054 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
14413961 CATGAAATTC
* *
14413971 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
*
14413997 TTATCATGGAACGTTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
14414023 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
14414049 TTATCA
1 TTATCA
14414055 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:14416057 original size:40 final size:40
Alignment explanation
Indices: 14416020--14416189 Score: 252
Period size: 40 Copynumber: 4.2 Consensus size: 40
14416010 TGAGGAATTG
*
14416020 TATCCGGGCTTAAAGACCTGCAGGCTATATGCTGGAATGT
1 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATGT
14416060 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATGT
1 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATGT
* *
14416100 TATCCGGGCTTAAAGACCCACAGGCTATCTGCTGGAATGT
1 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATGT
* * * * *
14416140 TATCCGGGCTTAAAGACCCACAAGCT-TCGTGCTAGAATGC
1 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAATGT
14416180 TATCCGGGCT
1 TATCCGGGCT
14416190 GGAGACTCGC
Statistics
Matches: 122, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
39 1 0.01
40 121 0.99
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATGT
Found at i:14423841 original size:40 final size:41
Alignment explanation
Indices: 14423797--14423902 Score: 137
Period size: 40 Copynumber: 2.7 Consensus size: 41
14423787 TGAGGAATTG
*
14423797 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTAGAATGT
1 TATCCGGGCTTAAAGACCCGCAGGCTATCATGCTAGAATGC
** *
14423837 TATCCGGGCTTAAAGACTTGCAGGCT-TCGTGCTAGAATGC
1 TATCCGGGCTTAAAGACCCGCAGGCTATCATGCTAGAATGC
* *
14423877 TATCCGAGC-TAGAGACCCGCAGGCTA
1 TATCCGGGCTTAAAGACCCGCAGGCTA
14423903 CGAGCTGGTA
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
39 14 0.25
40 42 0.75
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.24
Consensus pattern (41 bp):
TATCCGGGCTTAAAGACCCGCAGGCTATCATGCTAGAATGC
Found at i:14425263 original size:19 final size:18
Alignment explanation
Indices: 14425239--14425282 Score: 79
Period size: 19 Copynumber: 2.4 Consensus size: 18
14425229 AATATGAATA
14425239 AAATTTATCTACCTAAAT
1 AAATTTATCTACCTAAAT
14425257 AAGATTTATCTACCTAAAT
1 AA-ATTTATCTACCTAAAT
14425276 AAATTTA
1 AAATTTA
14425283 AAATATATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.45, C:0.14, G:0.02, T:0.39
Consensus pattern (18 bp):
AAATTTATCTACCTAAAT
Found at i:14429466 original size:46 final size:46
Alignment explanation
Indices: 14429409--14429544 Score: 175
Period size: 47 Copynumber: 2.9 Consensus size: 46
14429399 ACACACCGAA
* ** *
14429409 GCCATAGCCTAGCCATGGTCTTACATGGACCACATATCACACTAAT
1 GCCATATCCTAGATATGGTCTTACATGGAGCACATATCACACTAAT
*
14429455 GCCATATCCTAGATATGGTCTTATACA-GTAGCACATATCACACTAAT
1 GCCATATCCTAGATATGGTC-T-TACATGGAGCACATATCACACTAAT
*
14429502 GCCATATCCTAGATATGGTCTTATATGGAAGCACATAATCACA
1 GCCATATCCTAGATATGGTCTTACATGG-AGCACAT-ATCACA
14429545 TGTCTCCGAT
Statistics
Matches: 78, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
45 3 0.04
46 19 0.24
47 46 0.59
48 10 0.13
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (46 bp):
GCCATATCCTAGATATGGTCTTACATGGAGCACATATCACACTAAT
Found at i:14429505 original size:47 final size:47
Alignment explanation
Indices: 14429439--14429544 Score: 176
Period size: 47 Copynumber: 2.2 Consensus size: 47
14429429 TTACATGGAC
*
14429439 CACATATCACACTAATGCCATATCCTAGATATGGTCTTATACAGTAG
1 CACATATCACACTAATGCCATATCCTAGATATGGTCTTATACAGAAG
**
14429486 CACATATCACACTAATGCCATATCCTAGATATGGTCTTATATGGAAG
1 CACATATCACACTAATGCCATATCCTAGATATGGTCTTATACAGAAG
14429533 CACATAATCACA
1 CACAT-ATCACA
14429545 TGTCTCCGAT
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
47 49 0.89
48 6 0.11
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.28
Consensus pattern (47 bp):
CACATATCACACTAATGCCATATCCTAGATATGGTCTTATACAGAAG
Found at i:14429611 original size:54 final size:53
Alignment explanation
Indices: 14429491--14429652 Score: 200
Period size: 54 Copynumber: 3.0 Consensus size: 53
14429481 AGTAGCACAT
** * * * * *
14429491 ATCACACTAATGCCATATCCTAGATATGGTCTTATATGG-AAGCACATAATCAC
1 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAATCACAT-ATCAC
** *
14429544 ATGTCTCCGATGCCATAGCCCAGCTATGGTCTTATACGGAAATCACATGATCAC
1 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAATCACAT-ATCAC
*
14429598 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGAAAATCACATATCAC
1 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAATCACATATCAC
14429651 AT
1 AT
14429653 GTTGCCATGG
Statistics
Matches: 93, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
53 37 0.40
54 56 0.60
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.26
Consensus pattern (53 bp):
ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAATCACATATCAC
Found at i:14438936 original size:26 final size:26
Alignment explanation
Indices: 14438890--14438945 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
14438880 AATGAAAATT
* **
14438890 AAACATAGGTACCAATTTGAAAAAGA
1 AAACATAGATACCAAAATGAAAAAGA
* *
14438916 AAACATAGATACCAAAATGAATATGA
1 AAACATAGATACCAAAATGAAAAAGA
14438942 AAAC
1 AAAC
14438946 TAAATATAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.57, C:0.12, G:0.12, T:0.18
Consensus pattern (26 bp):
AAACATAGATACCAAAATGAAAAAGA
Found at i:14441544 original size:19 final size:19
Alignment explanation
Indices: 14441522--14441563 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
14441512 ATTCTACTGC
14441522 CATGGTGAAATCAATAATA
1 CATGGTGAAATCAATAATA
14441541 CATGGTGAAATCAATAATA
1 CATGGTGAAATCAATAATA
14441560 CATG
1 CATG
14441564 TTTATTTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.45, C:0.12, G:0.17, T:0.26
Consensus pattern (19 bp):
CATGGTGAAATCAATAATA
Found at i:14442859 original size:31 final size:30
Alignment explanation
Indices: 14442800--14442860 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 30
14442790 AGTTTCATTT
*
14442800 CAGTCACTCAACTTTCAAAAAGCTACAAAA
1 CAGTCACTCAACTTTAAAAAAGCTACAAAA
14442830 CAGTCAC-CAACGTTATAAAAAAG-TAACAAAA
1 CAGTCACTCAAC-TT-TAAAAAAGCT-ACAAAA
14442861 TAGTTACTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
29 4 0.15
30 10 0.37
31 13 0.48
ACGTcount: A:0.51, C:0.23, G:0.08, T:0.18
Consensus pattern (30 bp):
CAGTCACTCAACTTTAAAAAAGCTACAAAA
Found at i:14443418 original size:18 final size:18
Alignment explanation
Indices: 14443395--14443459 Score: 85
Period size: 18 Copynumber: 3.6 Consensus size: 18
14443385 AACTAGGGTT
* *
14443395 ATTTCGGTTTTAATTTTA
1 ATTTCGATTTTAATTTTG
*
14443413 ATTTCGATTTTGATTTTG
1 ATTTCGATTTTAATTTTG
*
14443431 ATTTCTATTTTAATTTTG
1 ATTTCGATTTTAATTTTG
*
14443449 ATTTCAATTTT
1 ATTTCGATTTT
14443460 GAAACACTCA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.22, C:0.06, G:0.09, T:0.63
Consensus pattern (18 bp):
ATTTCGATTTTAATTTTG
Found at i:14443452 original size:12 final size:12
Alignment explanation
Indices: 14443402--14443461 Score: 59
Period size: 12 Copynumber: 5.0 Consensus size: 12
14443392 GTTATTTCGG
*
14443402 TTTTAATTTTAA
1 TTTTAATTTTGA
**
14443414 TTTCGATTTTGA
1 TTTTAATTTTGA
*
14443426 TTTTGATTTCT-A
1 TTTTAATTT-TGA
14443438 TTTTAATTTTGA
1 TTTTAATTTTGA
*
14443450 TTTCAATTTTGA
1 TTTTAATTTTGA
14443462 AACACTCACT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
11 1 0.03
12 38 0.95
13 1 0.03
ACGTcount: A:0.23, C:0.05, G:0.08, T:0.63
Consensus pattern (12 bp):
TTTTAATTTTGA
Found at i:14443500 original size:18 final size:18
Alignment explanation
Indices: 14443479--14443555 Score: 77
Period size: 18 Copynumber: 4.3 Consensus size: 18
14443469 ACTGATTCTG
14443479 ATTTAGATTTTGATTTCA
1 ATTTAGATTTTGATTTCA
* *
14443497 ATTTCGATTTTGATCTCA
1 ATTTAGATTTTGATTTCA
* *
14443515 ATTTGGA-TTTGAATTT-G
1 ATTTAGATTTTG-ATTTCA
* *
14443532 ATTTTGATTTTGATTTCG
1 ATTTAGATTTTGATTTCA
14443550 ATTTAG
1 ATTTAG
14443556 GGTTATTTTG
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
17 14 0.29
18 35 0.71
ACGTcount: A:0.23, C:0.06, G:0.16, T:0.55
Consensus pattern (18 bp):
ATTTAGATTTTGATTTCA
Found at i:14443569 original size:6 final size:6
Alignment explanation
Indices: 14443471--14443574 Score: 61
Period size: 6 Copynumber: 17.8 Consensus size: 6
14443461 AAACACTCAC
* * ** * * **
14443471 TGATTC TGATTT AGATTT TGATTT CAATTT CGATTT TGATCT CAATTT
1 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
* * * * **
14443519 GGA-TT TGAATT TGATTT TGATTT TGATTT CGATTT AG-GGT T-ATTT
1 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
14443564 TGATTT TGATT
1 TGATTT TGATT
14443575 GTATTTGTTA
Statistics
Matches: 73, Mismatches: 22, Indels: 6
0.72 0.22 0.06
Matches are distributed among these distances:
5 7 0.10
6 66 0.90
ACGTcount: A:0.21, C:0.06, G:0.17, T:0.56
Consensus pattern (6 bp):
TGATTT
Found at i:14443746 original size:64 final size:64
Alignment explanation
Indices: 14443666--14443798 Score: 230
Period size: 64 Copynumber: 2.1 Consensus size: 64
14443656 CATGATGTTT
* * * *
14443666 ATTGTTTGTATTTGCCATTGTATGAATGCTATTATCAAACTGATGTTTATTTTGTATATTTGCC
1 ATTGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATGTTTATTGTGTATATCTGCC
14443730 ATTGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATGTTTATTGTGTATATCTGCC
1 ATTGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATGTTTATTGTGTATATCTGCC
14443794 ATTGT
1 ATTGT
14443799 ATGAATACTA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.23, C:0.13, G:0.17, T:0.47
Consensus pattern (64 bp):
ATTGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATGTTTATTGTGTATATCTGCC
Found at i:14443790 original size:48 final size:48
Alignment explanation
Indices: 14443738--14443846 Score: 173
Period size: 48 Copynumber: 2.3 Consensus size: 48
14443728 CCATTGTTTG
* * *
14443738 TATCTGCCATTGTATGAATGCCATTATCAAACTGATGTTTATTGTGTA
1 TATCTGCCATTGTATGAATACCAGTATCAAACTGATGATTATTGTGTA
*
14443786 TATCTGCCATTGTATGAATACTAGTATCAAACTGATGATTATTGTGTA
1 TATCTGCCATTGTATGAATACCAGTATCAAACTGATGATTATTGTGTA
*
14443834 TATTTGCCATTGT
1 TATCTGCCATTGT
14443847 TTGTATCCAA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 56 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.42
Consensus pattern (48 bp):
TATCTGCCATTGTATGAATACCAGTATCAAACTGATGATTATTGTGTA
Found at i:14444259 original size:40 final size:41
Alignment explanation
Indices: 14444215--14444373 Score: 171
Period size: 41 Copynumber: 3.9 Consensus size: 41
14444205 TAAAACACAT
*
14444215 AGCAATAGCGGCG-TTTTACCAAAAACGCCACTAAAAATAG
1 AGCAATAGCGGCGCTTTTACCAAAAACGCCGCTAAAAATAG
* *
14444255 AGCAATAGCAGCGTTTTTACCAAAAACGCCGCTAAAAATCAG
1 AGCAATAGCGGCGCTTTTACCAAAAACGCCGCTAAAAAT-AG
* ** * *
14444297 AGCATTAGCGGCGCTTTT-GGAAAAGCGCCGCTAAAAACCAG
1 AGCAATAGCGGCGCTTTTACCAAAAACGCCGCTAAAAA-TAG
* ** *
14444338 AGCATTAGCGGCGCTTTT-GGAAAAACGCCGTTAAAA
1 AGCAATAGCGGCGCTTTTACCAAAAACGCCGCTAAAA
14444374 GTCATATAAC
Statistics
Matches: 105, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
40 12 0.11
41 76 0.72
42 17 0.16
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (41 bp):
AGCAATAGCGGCGCTTTTACCAAAAACGCCGCTAAAAATAG
Found at i:14444356 original size:41 final size:41
Alignment explanation
Indices: 14444235--14444373 Score: 172
Period size: 41 Copynumber: 3.4 Consensus size: 41
14444225 GCGTTTTACC
* * * * * **
14444235 AAAAACGCCACTAAAAA-TAGAGCAATAGCAGCGTTTTTACC
1 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTT-GG
*
14444276 AAAAACGCCGCTAAAAATCAGAGCATTAGCGGCGCTTTTGG
1 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
*
14444317 AAAAGCGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
1 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
*
14444358 AAAAACGCCGTTAAAA
1 AAAAACGCCGCTAAAA
14444374 GTCATATAAC
Statistics
Matches: 86, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
41 69 0.80
42 17 0.20
ACGTcount: A:0.39, C:0.22, G:0.21, T:0.18
Consensus pattern (41 bp):
AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
Found at i:14444545 original size:7 final size:7
Alignment explanation
Indices: 14444530--14444627 Score: 63
Period size: 7 Copynumber: 13.4 Consensus size: 7
14444520 TTAATTATCA
*
14444530 TTATAGT
1 TTATGGT
14444537 TTATGGT
1 TTATGGT
14444544 TTATGGT
1 TTATGGT
*
14444551 TTAAT-AT
1 TT-ATGGT
*
14444558 ATATGGT
1 TTATGGT
*
14444565 TTAGGGT
1 TTATGGT
14444572 TTATGGT
1 TTATGGT
14444579 TTATGAGT
1 TTATG-GT
14444587 TAACTATGGT
1 T---TATGGT
* *
14444597 TTAAGAT
1 TTATGGT
*
14444604 ATATGGT
1 TTATGGT
*
14444611 TTAGGGT
1 TTATGGT
*
14444618 TTAAGGT
1 TTATGGT
14444625 TTA
1 TTA
14444628 GGAGTTAACT
Statistics
Matches: 70, Mismatches: 15, Indels: 12
0.72 0.15 0.12
Matches are distributed among these distances:
6 2 0.03
7 56 0.80
8 5 0.07
10 3 0.04
11 4 0.06
ACGTcount: A:0.26, C:0.01, G:0.24, T:0.49
Consensus pattern (7 bp):
TTATGGT
Found at i:14444599 original size:46 final size:46
Alignment explanation
Indices: 14444545--14444638 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
14444535 GTTTATGGTT
* * *
14444545 TATGGTTTAATATATATGGTTTAGGGTTTATGGTTTATGAGTTAAC
1 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAAC
14444591 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAAC
1 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAAC
14444637 TA
1 TA
14444639 GTATTTGAAG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.28, C:0.02, G:0.26, T:0.45
Consensus pattern (46 bp):
TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAAC
Found at i:14444747 original size:21 final size:21
Alignment explanation
Indices: 14444687--14444753 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
14444677 TATGATTTAA
* *
14444687 GGTTTAGGGGTTAGGG-TTGG
1 GGTTAAGGGGTAAGGGTTTGG
* *
14444707 AGTTTAAGGTGTAAGGGTTTGG
1 -GGTTAAGGGGTAAGGGTTTGG
*
14444729 GGTTAAGGGGTAAGGGTTTAG
1 GGTTAAGGGGTAAGGGTTTGG
14444750 GGTT
1 GGTT
14444754 TAGTGTTTAT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
21 34 0.89
22 4 0.11
ACGTcount: A:0.18, C:0.00, G:0.48, T:0.34
Consensus pattern (21 bp):
GGTTAAGGGGTAAGGGTTTGG
Found at i:14444751 original size:7 final size:7
Alignment explanation
Indices: 14444665--14444793 Score: 66
Period size: 7 Copynumber: 18.1 Consensus size: 7
14444655 GATGAATTAT
14444665 GGGTTTA
1 GGGTTTA
*
14444672 GGGATTA
1 GGGTTTA
* *
14444679 TGATTTA
1 GGGTTTA
*
14444686 AGGTTTA
1 GGGTTTA
*
14444693 GGGGTTA
1 GGGTTTA
14444700 GGG-TT-
1 GGGTTTA
14444705 GGAGTTTA
1 GG-GTTTA
* *
14444713 AGGTGTAA
1 GGGT-TTA
*
14444721 GGGTTTG
1 GGGTTTA
*
14444728 GGGTTAA
1 GGGTTTA
* *
14444735 GGGGTAA
1 GGGTTTA
14444742 GGGTTTA
1 GGGTTTA
14444749 GGGTTTA
1 GGGTTTA
*
14444756 GTGTTTA
1 GGGTTTA
*
14444763 TGGG-ATA
1 -GGGTTTA
*
14444770 GGAGTTAA
1 GG-GTTTA
14444778 GAGGTTTA
1 G-GGTTTA
14444786 GGGTTTA
1 GGGTTTA
14444793 G
1 G
14444794 ATTAATTAGT
Statistics
Matches: 90, Mismatches: 24, Indels: 16
0.69 0.18 0.12
Matches are distributed among these distances:
5 2 0.02
6 5 0.06
7 67 0.74
8 15 0.17
9 1 0.01
ACGTcount: A:0.22, C:0.00, G:0.42, T:0.36
Consensus pattern (7 bp):
GGGTTTA
Found at i:14445974 original size:25 final size:25
Alignment explanation
Indices: 14445946--14446009 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
14445936 ATTCAAAACT
14445946 CACCGTTTCAATTG-TTCCTACCACG
1 CACCGTTTCAATTGTTTCC-ACCACG
*
14445971 CACCGTTTCAATTGTTTCCACCATG
1 CACCGTTTCAATTGTTTCCACCACG
*
14445996 CACCATTTCAATTG
1 CACCGTTTCAATTG
14446010 ATTTTACAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 32 0.89
26 4 0.11
ACGTcount: A:0.22, C:0.33, G:0.11, T:0.34
Consensus pattern (25 bp):
CACCGTTTCAATTGTTTCCACCACG
Found at i:14447630 original size:37 final size:37
Alignment explanation
Indices: 14447554--14447632 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 37
14447544 TTATTACGAA
* * *
14447554 GTCTTACCCGGACATAATCTCCACACGAAGTTATTGG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
* *
14447591 GTCTTACCCGGACAAAAT-TCCCACATGTAGTCATCGG
1 GTCTTACCCGGACAAAATCT-CCACACGAAGTCATCGG
14447628 GTCTT
1 GTCTT
14447633 TAGAGCTCGG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
36 1 0.03
37 35 0.97
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
Found at i:14448113 original size:49 final size:49
Alignment explanation
Indices: 14447751--14448623 Score: 1504
Period size: 49 Copynumber: 18.1 Consensus size: 49
14447741 CCCTTCGGGA
* * * * * *
14447751 CTTATCACAT-T-TATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
***
14447798 CCCGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
14447845 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCGATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
14447892 CTTATTAC--ATATATACACTTTCACATTCATCACATCGGCGATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
14447939 CTTATTAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
14447986 CTTATCAC--ACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
14448033 CTTATTAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14448080 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14448129 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14448178 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14448227 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14448276 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14448325 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14448374 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14448423 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14448472 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14448521 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14448570 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14448619 CTTAT
1 CTTAT
14448624 TATCATTTCA
Statistics
Matches: 801, Mismatches: 21, Indels: 6
0.97 0.03 0.01
Matches are distributed among these distances:
46 1 0.00
47 266 0.33
49 534 0.67
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:14453192 original size:17 final size:17
Alignment explanation
Indices: 14453170--14453217 Score: 96
Period size: 17 Copynumber: 2.8 Consensus size: 17
14453160 TTTACGAAAA
14453170 CAAAATAAAATTTTGTC
1 CAAAATAAAATTTTGTC
14453187 CAAAATAAAATTTTGTC
1 CAAAATAAAATTTTGTC
14453204 CAAAATAAAATTTT
1 CAAAATAAAATTTT
14453218 CATGCTTACG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.35
Consensus pattern (17 bp):
CAAAATAAAATTTTGTC
Found at i:14456110 original size:26 final size:26
Alignment explanation
Indices: 14456081--14456134 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
14456071 TCACCATGAT
*
14456081 TATGATTGGTTGATGGAAAAGAACCC
1 TATGATTGGTTGAAGGAAAAGAACCC
*
14456107 TATGATTGGTTGAAGGAAAAGAGCCC
1 TATGATTGGTTGAAGGAAAAGAACCC
14456133 TA
1 TA
14456135 CTCACTGGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (26 bp):
TATGATTGGTTGAAGGAAAAGAACCC
Found at i:14456616 original size:39 final size:40
Alignment explanation
Indices: 14456521--14456621 Score: 150
Period size: 40 Copynumber: 2.5 Consensus size: 40
14456511 TTAGTGAATG
* *
14456521 TTTTTTAATATACATGCATTGATTATTGGTGTGTTGACTA
1 TTTTTTAATATACATGCAGTGATTATCGGTGTGTTGACTA
* * *
14456561 TTTTTTAATATGCATGCAGTGATTGTCGGTGTGTTGCCT-
1 TTTTTTAATATACATGCAGTGATTATCGGTGTGTTGACTA
14456600 TTTTTTAATATACATGCAGTGA
1 TTTTTTAATATACATGCAGTGA
14456622 GTATTTTTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
39 21 0.38
40 34 0.62
ACGTcount: A:0.23, C:0.10, G:0.20, T:0.48
Consensus pattern (40 bp):
TTTTTTAATATACATGCAGTGATTATCGGTGTGTTGACTA
Found at i:14456685 original size:38 final size:38
Alignment explanation
Indices: 14456643--14456731 Score: 135
Period size: 38 Copynumber: 2.3 Consensus size: 38
14456633 ATAATATGCA
14456643 TGTTGGTGGGGCTAT-TTTTTTAGGGGTGTGTGTATCAT
1 TGTTGGTGGGGCTATGTTTTTT-GGGGTGTGTGTATCAT
*
14456681 TGTTGGTGGGGCTATGTTTTTTTGGGTGTGTGTATCAT
1 TGTTGGTGGGGCTATGTTTTTTGGGGTGTGTGTATCAT
* *
14456719 TGTTAGTGAGGCT
1 TGTTGGTGGGGCT
14456732 GTTCACAATG
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
38 41 0.87
39 6 0.13
ACGTcount: A:0.10, C:0.06, G:0.37, T:0.47
Consensus pattern (38 bp):
TGTTGGTGGGGCTATGTTTTTTGGGGTGTGTGTATCAT
Found at i:14457966 original size:18 final size:17
Alignment explanation
Indices: 14457933--14457971 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
14457923 CTTTTCTAGC
*
14457933 AAATGTGTGACTATTGA
1 AAATGTGTGACAATTGA
*
14457950 GAAATGTGTGAGAATTGA
1 -AAATGTGTGACAATTGA
14457968 AAAT
1 AAAT
14457972 TGAGAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.41, C:0.03, G:0.26, T:0.31
Consensus pattern (17 bp):
AAATGTGTGACAATTGA
Found at i:14460192 original size:49 final size:50
Alignment explanation
Indices: 14460138--14460239 Score: 152
Period size: 49 Copynumber: 2.0 Consensus size: 50
14460128 TTTTTATTAT
*
14460138 TATTAATAATATTAAGTTTAAACATACTCTC-ATACATATACCCTTTCCC
1 TATTAATAATATTAAGTTTAAACATACTCTCGATACATATACCCATTCCC
* * *
14460187 TATTAATAATATTGAGTTTGAACATACTCTCGTATACATATACTCATTCCC
1 TATTAATAATATTAAGTTTAAACATACTCTCG-ATACATATACCCATTCCC
14460238 TA
1 TA
14460240 CAAAAATTCC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
49 29 0.62
51 18 0.38
ACGTcount: A:0.35, C:0.21, G:0.05, T:0.39
Consensus pattern (50 bp):
TATTAATAATATTAAGTTTAAACATACTCTCGATACATATACCCATTCCC
Found at i:14479297 original size:33 final size:32
Alignment explanation
Indices: 14479239--14479301 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 32
14479229 ATTATTTAAT
14479239 TAATAAATATCTCTTAATTATAATAATAATAAA
1 TAATAAATATCTCTTAATTATAATAA-AATAAA
14479272 TAATAAATATCTAC-TAATT-TAAATAAAATA
1 TAATAAATATCT-CTTAATTAT-AATAAAATA
14479302 TTATAATTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
32 5 0.18
33 22 0.79
34 1 0.04
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (32 bp):
TAATAAATATCTCTTAATTATAATAAAATAAA
Found at i:14483401 original size:13 final size:13
Alignment explanation
Indices: 14483385--14483409 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14483375 CTTTTTCCTT
14483385 TTTCTTTATTTCA
1 TTTCTTTATTTCA
14483398 TTTCTTTATTTC
1 TTTCTTTATTTC
14483410 TTTTATTTTA
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:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTCTTTATTTCA
Found at i:14485041 original size:19 final size:19
Alignment explanation
Indices: 14485017--14485055 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
14485007 ATATCTGATA
14485017 ATTCTTCCCATGTGACTTT
1 ATTCTTCCCATGTGACTTT
14485036 ATTCTTCCCATGTGACTTT
1 ATTCTTCCCATGTGACTTT
14485055 A
1 A
14485056 ACTTTCAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.18, C:0.26, G:0.10, T:0.46
Consensus pattern (19 bp):
ATTCTTCCCATGTGACTTT
Found at i:14488643 original size:6 final size:6
Alignment explanation
Indices: 14488634--14488660 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
14488624 CACTGTAAGT
14488634 GTAACA GTAACA GTAACA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTA
14488661 GCGGTACACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:14488701 original size:54 final size:51
Alignment explanation
Indices: 14488642--14488759 Score: 130
Period size: 51 Copynumber: 2.3 Consensus size: 51
14488632 GTGTAACAGT
14488642 AACAGTAACAGTAACAGT-AGCGGTACACAAAGTACCTCATCGAAACAAATCCGG
1 AACAGTAACAGTAACAGTCA--GGT--ACAAAGTACCTCATCGAAACAAATCCGG
* * * * * *
14488696 AACAGTAACAGTAATAGTCAGGTACGAAGTACCTCTTCGGAACGAATCTGG
1 AACAGTAACAGTAACAGTCAGGTACAAAGTACCTCATCGAAACAAATCCGG
*
14488747 AACAGTTACAGTA
1 AACAGTAACAGTA
14488760 GTCAACACAT
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
51 35 0.62
53 3 0.05
54 17 0.30
55 1 0.02
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.19
Consensus pattern (51 bp):
AACAGTAACAGTAACAGTCAGGTACAAAGTACCTCATCGAAACAAATCCGG
Found at i:14493262 original size:60 final size:61
Alignment explanation
Indices: 14493162--14493324 Score: 165
Period size: 60 Copynumber: 2.7 Consensus size: 61
14493152 AACTGTGTTA
* * * *
14493162 ATATGGGCAAGGCCCAATATA-TCTTGA-CTTGTAATAGGGCTACGACCCAGATTGATACTG
1 ATATGGGCTAGGCCCAGTATACTC-TGATATTGTAATAGGGCTACGACCCAGATTAATACTG
* * * *
14493222 ATATGGGCTAGGCCCAGTATACTCTGATATTGTAA-GGGGCTATGGCCCAGATTAATAGTG
1 ATATGGGCTAGGCCCAGTATACTCTGATATTGTAATAGGGCTACGACCCAGATTAATACTG
* *
14493282 ATATGGGCTAAGGCCTAG-ATAACTCTGAT-TTCTGAATAGGGCT
1 ATATGGGCT-AGGCCCAGTAT-ACTCTGATATTGT-AATAGGGCT
14493325 TAGACCTAGT
Statistics
Matches: 86, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
60 56 0.65
61 25 0.29
62 5 0.06
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (61 bp):
ATATGGGCTAGGCCCAGTATACTCTGATATTGTAATAGGGCTACGACCCAGATTAATACTG
Found at i:14497741 original size:13 final size:13
Alignment explanation
Indices: 14497723--14497751 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
14497713 TTCTTTCCTT
14497723 TTTCTTTATTTCA
1 TTTCTTTATTTCA
14497736 TTTCTTTATTTCA
1 TTTCTTTATTTCA
14497749 TTT
1 TTT
14497752 ATTTTACTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTCTTTATTTCA
Found at i:14501423 original size:18 final size:19
Alignment explanation
Indices: 14501402--14501461 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 19
14501392 AATCGGTTAA
*
14501402 TCAGTAAT-ATTCATTTAT
1 TCAGTAATCAGTCATTTAT
14501420 TCAGT-ATCAGTCATTTAT
1 TCAGTAATCAGTCATTTAT
* **
14501438 TCTGTAA-CAGTCAACTAT
1 TCAGTAATCAGTCATTTAT
14501456 TCAGTA
1 TCAGTA
14501462 GCAAACAGTC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
17 2 0.06
18 32 0.91
19 1 0.03
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.42
Consensus pattern (19 bp):
TCAGTAATCAGTCATTTAT
Found at i:14505994 original size:17 final size:18
Alignment explanation
Indices: 14505969--14506002 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
14505959 TTTCTTTCCT
14505969 TTTTCTTTATTTCATTTC
1 TTTTCTTTATTTCATTTC
*
14505987 TTTT-TTTATTTTATTT
1 TTTTCTTTATTTCATTT
14506003 TAATTACTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTCTTTATTTCATTTC
Found at i:14507164 original size:8 final size:8
Alignment explanation
Indices: 14507151--14507175 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
14507141 TAATTGTTGT
14507151 TATCTTTA
1 TATCTTTA
14507159 TATCTTTA
1 TATCTTTA
14507167 TATCTTTA
1 TATCTTTA
14507175 T
1 T
14507176 TAATTAAATT
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:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (8 bp):
TATCTTTA
Found at i:14517245 original size:15 final size:17
Alignment explanation
Indices: 14517222--14517265 Score: 60
Period size: 15 Copynumber: 2.8 Consensus size: 17
14517212 ATAATTATTA
14517222 AATAATATAATAAAG-T
1 AATAATATAATAAAGTT
14517238 AA-AATATAAT--AGTT
1 AATAATATAATAAAGTT
14517252 AATAATATAATAAA
1 AATAATATAATAAA
14517266 AGAATAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 2 0.08
14 3 0.12
15 16 0.67
16 2 0.08
17 1 0.04
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.32
Consensus pattern (17 bp):
AATAATATAATAAAGTT
Found at i:14517246 original size:12 final size:15
Alignment explanation
Indices: 14517204--14517263 Score: 54
Period size: 15 Copynumber: 3.9 Consensus size: 15
14517194 AAATAAGAAA
14517204 TAATAATTATAATTA-T
1 TAATAA-TATAA-TAGT
14517220 TAAATAATATAATAAAG-
1 T-AATAATATAAT--AGT
14517237 TAA-AATATAATAGT
1 TAATAATATAATAGT
14517251 TAATAATATAATA
1 TAATAATATAATA
14517264 AAAGAATAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 2 0.05
14 3 0.08
15 18 0.47
16 8 0.21
17 7 0.18
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.38
Consensus pattern (15 bp):
TAATAATATAATAGT
Found at i:14521371 original size:34 final size:34
Alignment explanation
Indices: 14521327--14521394 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
14521317 ATAAATAGTT
* **
14521327 TATTTAAAAGAAGTAATATTTCAACATAACAATC
1 TATTCAAAAGAAACAATATTTCAACATAACAATC
* *
14521361 TATTCAAAAGAAACAATATTTCAATATTACAATC
1 TATTCAAAAGAAACAATATTTCAACATAACAATC
14521395 GATTTAAACA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.50, C:0.13, G:0.04, T:0.32
Consensus pattern (34 bp):
TATTCAAAAGAAACAATATTTCAACATAACAATC
Found at i:14523685 original size:40 final size:40
Alignment explanation
Indices: 14523502--14523671 Score: 225
Period size: 40 Copynumber: 4.3 Consensus size: 40
14523492 TCCTCGTTCA
* * * * *
14523502 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
14523541 AATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
14523581 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
14523621 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
14523661 AAGGCCTTCGG
1 AATGCCTTCGG
14523672 ATCTTAGTCC
Statistics
Matches: 116, Mismatches: 14, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 33 0.28
40 83 0.72
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:14523724 original size:40 final size:40
Alignment explanation
Indices: 14523500--14523724 Score: 109
Period size: 40 Copynumber: 5.7 Consensus size: 40
14523490 GCTCCTCGTT
* * * * * *
14523500 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACT--CA
1 CAAAGGCCTTCGGGACTTATCCCGGATATAGTAGCTAGCA
* * * * ** * *
14523538 CACAATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCA
1 CA-AAGGCCTTCGGGACTTATCCCGGATATAGTAGCTAGCA
* * * * * * * *
14523579 CGAATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCA
1 CAAAGGCCTTCGGGACTTATCCCGGATATAGTAGCTAGCA
* * * * * *
14523619 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAAGGCCTTCGGGACTTATCCCGGATATAGTAGCTAGCA
* *
14523659 CAAAGGCCTTC-GGATCTTAGT-CCGGATATATTCGCTTAGCA
1 CAAAGGCCTTCGGGA-CTTA-TCCCGGATATAGTAGC-TAGCA
14523700 CAAA-GCCTTCGGGACTTATCCCGGA
1 CAAAGGCCTTCGGGACTTATCCCGGA
14523725 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 20, Indels: 14
0.82 0.10 0.07
Matches are distributed among these distances:
38 2 0.01
39 33 0.21
40 110 0.69
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAAGGCCTTCGGGACTTATCCCGGATATAGTAGCTAGCA
Found at i:14535350 original size:15 final size:16
Alignment explanation
Indices: 14535323--14535359 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
14535313 TAAAAATATA
14535323 ATTTTATTATTTTAAT
1 ATTTTATTATTTTAAT
*
14535339 ATTTTA-TATTTTTAT
1 ATTTTATTATTTTAAT
14535354 ATTTTA
1 ATTTTA
14535360 AAAAAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
ATTTTATTATTTTAAT
Found at i:14535428 original size:37 final size:36
Alignment explanation
Indices: 14535361--14535441 Score: 85
Period size: 37 Copynumber: 2.2 Consensus size: 36
14535351 TATATTTTAA
14535361 AAAAATTAAATTAAATTTTTATAATTTTTAATAA-ATT
1 AAAAATTAAATTAAATTTTTATAA-TTTTAA-AATATT
** *
14535398 AAAAATTATAATTTTATTTTTACTAA-TTTAAAATTTT
1 AAAAATTA-AATTAAATTTTTA-TAATTTTAAAATATT
14535435 AAAAATT
1 AAAAATT
14535442 TTAAAAATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
36 2 0.05
37 22 0.58
38 11 0.29
39 3 0.08
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (36 bp):
AAAAATTAAATTAAATTTTTATAATTTTAAAATATT
Found at i:14538509 original size:43 final size:43
Alignment explanation
Indices: 14538449--14538605 Score: 201
Period size: 43 Copynumber: 3.7 Consensus size: 43
14538439 ATTTATTGGA
* *
14538449 AAAAAGCACCGCTAAAGGTCAAGGTTTTTAGCGGCGTTTCTAG
1 AAAAAGCACCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTAG
* *
14538492 AAAAAGCGCCACTAAAGGTCAAGGCTTTTAGCGGCGTTTGTAGG
1 AAAAAGCACCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTA-G
* * *
14538536 AAAAA-TACC-CTAAAGGTCAAGGCTTTTAGCGGCGCTTGTGG
1 AAAAAGCACCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTAG
* * *
14538577 GAAAACCGCCGCTAAAGGTCAAGGCTTTT
1 AAAAAGCACCGCTAAAGGTCAAGGCTTTT
14538606 GGCGCGGGTT
Statistics
Matches: 100, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
41 5 0.05
42 31 0.31
43 58 0.58
44 6 0.06
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.24
Consensus pattern (43 bp):
AAAAAGCACCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTAG
Found at i:14540834 original size:14 final size:14
Alignment explanation
Indices: 14540799--14540826 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
14540789 ATACATATGG
14540799 CTCGTCCATCAATT
1 CTCGTCCATCAATT
14540813 CTCGTCCATCAATT
1 CTCGTCCATCAATT
14540827 GTTGTCCAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.36, G:0.07, T:0.36
Consensus pattern (14 bp):
CTCGTCCATCAATT
Found at i:14544472 original size:9 final size:9
Alignment explanation
Indices: 14544458--14544569 Score: 127
Period size: 9 Copynumber: 12.6 Consensus size: 9
14544448 TATTTAAGTA
14544458 TTATGTAAG
1 TTATGTAAG
14544467 TTATGTAAG
1 TTATGTAAG
*
14544476 TTATGT-AT
1 TTATGTAAG
*
14544484 TTATCTAAG
1 TTATGTAAG
*
14544493 TTATATAAG
1 TTATGTAAG
*
14544502 TTATATAAG
1 TTATGTAAG
*
14544511 TTATGTATG
1 TTATGTAAG
*
14544520 TTATATAAG
1 TTATGTAAG
14544529 TTATGTAAG
1 TTATGTAAG
* *
14544538 TTATATATG
1 TTATGTAAG
*
14544547 TTATATAAG
1 TTATGTAAG
*
14544556 TTATGTAAA
1 TTATGTAAG
14544565 TTATG
1 TTATG
14544570 ATATCAAATA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
8 6 0.07
9 82 0.93
ACGTcount: A:0.36, C:0.01, G:0.15, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:14544694 original size:15 final size:15
Alignment explanation
Indices: 14544674--14544729 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
14544664 AAGTAGCGGG
14544674 ATTAAATAATATTTA
1 ATTAAATAATATTTA
14544689 ATTAAATAATATTT-
1 ATTAAATAATATTTA
14544703 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
*
14544718 ATTAAGTAATAT
1 ATTAAATAATAT
14544730 ACATGTCGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.46
16 5 0.14
17 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:14544934 original size:24 final size:24
Alignment explanation
Indices: 14544906--14544973 Score: 102
Period size: 24 Copynumber: 2.8 Consensus size: 24
14544896 ACTTAAATGG
14544906 TAAAACGGACGATAATATTTGTAA
1 TAAAACGGACGATAATATTTGTAA
*
14544930 TAAAACGGA-GAATAATATTTGTGA
1 TAAAACGGACG-ATAATATTTGTAA
*
14544954 TAAAACGGACGAGAATATTT
1 TAAAACGGACGATAATATTT
14544974 CAATAATAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.03
24 38 0.95
25 1 0.03
ACGTcount: A:0.46, C:0.07, G:0.19, T:0.28
Consensus pattern (24 bp):
TAAAACGGACGATAATATTTGTAA
Done.