Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 45 of 141
Found at i:14163118 original size:66 final size:67
Alignment explanation
Indices: 14163011--14163140 Score: 244
Period size: 66 Copynumber: 2.0 Consensus size: 67
14163001 GCATTAAATT
14163011 TTTTTTTTAAAATTAAATATTTGGCAATCATGATTCTCGAGAAAGATCGTGTCCTAACTTACTGC
1 TTTTTTTTAAAATTAAATATTTGGCAATCATGATTCTCGAGAAAGATCGTGTCCTAACTTACTGC
14163076 TG
66 TG
*
14163078 TTTTTTTT-AAATTAAATATTTGGCAATCATGATTCTCGAGAAAGATCGTGTCCTAATTTACTG
1 TTTTTTTTAAAATTAAATATTTGGCAATCATGATTCTCGAGAAAGATCGTGTCCTAACTTACTG
14163141 GATCGTGATC
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
66 54 0.87
67 8 0.13
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.42
Consensus pattern (67 bp):
TTTTTTTTAAAATTAAATATTTGGCAATCATGATTCTCGAGAAAGATCGTGTCCTAACTTACTGC
TG
Found at i:14164074 original size:23 final size:24
Alignment explanation
Indices: 14164047--14164092 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
14164037 AAAAAGAAAG
14164047 AAAGAAAAAGAA-TGTGTATTTAA
1 AAAGAAAAAGAATTGTGTATTTAA
*
14164070 AAAGAAGAAGAATTTGTGTATTT
1 AAAGAAAAAGAA-TTGTGTATTT
14164093 GTATTATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 11 0.55
25 9 0.45
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (24 bp):
AAAGAAAAAGAATTGTGTATTTAA
Found at i:14167491 original size:44 final size:44
Alignment explanation
Indices: 14167428--14167516 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
14167418 ATCTTTATTT
*
14167428 AGTTTTAAAGGTCTTTCTTATCTCCTTATAATGTTCAATATTGC
1 AGTTTTAAAGGTCTTTCTTATCTCCTTATAATGTACAATATTGC
14167472 AGTTTTAAAGGTCTTTCTTATCTCCTTATAATGTACAATATTGC
1 AGTTTTAAAGGTCTTTCTTATCTCCTTATAATGTACAATATTGC
14167516 A
1 A
14167517 TTCATGGGAG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.27, C:0.16, G:0.11, T:0.46
Consensus pattern (44 bp):
AGTTTTAAAGGTCTTTCTTATCTCCTTATAATGTACAATATTGC
Found at i:14190036 original size:45 final size:45
Alignment explanation
Indices: 14189972--14190099 Score: 188
Period size: 45 Copynumber: 2.9 Consensus size: 45
14189962 TACTGAGTAT
**
14189972 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGGTAC
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGAATAC
* *
14190017 CATTGACTATAAAGGTGGTTGCTATGTGCTGATTCCACCGAATAT
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGAATAC
* *
14190062 AATTGATTATAAGGGTGG-TGCTATGTGCTGA-TCCACCG
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCG
14190100 TGTAACGATT
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
43 7 0.09
44 13 0.17
45 56 0.74
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (45 bp):
CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGAATAC
Found at i:14192104 original size:50 final size:50
Alignment explanation
Indices: 14192045--14192189 Score: 193
Period size: 50 Copynumber: 2.9 Consensus size: 50
14192035 TATTGAGGTT
**
14192045 ATGAGAGGTCCCACGTAAGATAATGTCTGGGACATGGCATTGGCACCGAG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
* *
14192095 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCA-TGGACACCGAT
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGG-CACCGAG
** * * *
14192145 ATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA
14192190 GTACAGGAAA
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
49 3 0.04
50 77 0.93
51 3 0.04
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.21
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
Found at i:14192465 original size:20 final size:20
Alignment explanation
Indices: 14192440--14192478 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
14192430 TGAGTTATTT
14192440 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
14192460 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
14192479 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:14197522 original size:20 final size:20
Alignment explanation
Indices: 14197497--14197535 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
14197487 TACTTTTTTC
14197497 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
14197517 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
14197536 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:14197879 original size:50 final size:50
Alignment explanation
Indices: 14197825--14197972 Score: 143
Period size: 50 Copynumber: 2.8 Consensus size: 50
14197815 ACATAAGAGT
* * * *
14197825 TCTCATATCGGTGCCCATGCCATGTCCCGGACATGGTCTTACGGGGGACC
1 TCTCATATCGGTGCCAATGCCATGTCCCAGACATGATCTTACGGAGGACC
* * * *
14197875 TCTCATCTCGGTGCCAATGCCTTGTCCCATACATGATCTTACGTAGGACC
1 TCTCATATCGGTGCCAATGCCATGTCCCAGACATGATCTTACGGAGGACC
** *
14197925 TCTCATAACCTCAATAATGCCAATGCCATGTCCCAGACATGGTCTTAC
1 TCTCAT-A--TC---GGTGCCAATGCCATGTCCCAGACATGATCTTAC
14197973 ATGGGGTCTC
Statistics
Matches: 78, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
50 48 0.62
53 2 0.03
56 28 0.36
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.27
Consensus pattern (50 bp):
TCTCATATCGGTGCCAATGCCATGTCCCAGACATGATCTTACGGAGGACC
Found at i:14213602 original size:83 final size:84
Alignment explanation
Indices: 14213479--14213645 Score: 327
Period size: 83 Copynumber: 2.0 Consensus size: 84
14213469 AAACCATTAA
14213479 TATCTCAAATTTCCTTTTTTTTTTCTTTTCATTCAACATTCATCACTTTTCTCTCAAAATTTTTT
1 TATCTCAAATTTCCTTTTTTTTTTCTTTTCATTCAACATTCATCACTTTTCTCTCAAAATTTTTT
14213544 TAATTATGTCATACATTCT
66 TAATTATGTCATACATTCT
14213563 TATCTCAAA-TTCCTTTTTTTTTTCTTTTCATTCAACATTCATCACTTTTCTCTCAAAATTTTTT
1 TATCTCAAATTTCCTTTTTTTTTTCTTTTCATTCAACATTCATCACTTTTCTCTCAAAATTTTTT
14213627 TAATTATGTCATACATTCT
66 TAATTATGTCATACATTCT
14213646 CTCTTTAATT
Statistics
Matches: 83, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
83 74 0.89
84 9 0.11
ACGTcount: A:0.24, C:0.20, G:0.01, T:0.54
Consensus pattern (84 bp):
TATCTCAAATTTCCTTTTTTTTTTCTTTTCATTCAACATTCATCACTTTTCTCTCAAAATTTTTT
TAATTATGTCATACATTCT
Found at i:14213643 original size:42 final size:42
Alignment explanation
Indices: 14213514--14213644 Score: 112
Period size: 42 Copynumber: 3.1 Consensus size: 42
14213504 TTTTCATTCA
14213514 ACATTCATCACTTTTCTCTCAAAATTTTTTTAATTATGTCAT
1 ACATTCATCACTTTTCTCTCAAAATTTTTTTAATTATGTCAT
* ** ** **
14213556 ACATTCTTATCTCAAATTC-CT---TTTTTTTTTCTTTTCAT-TCA-
1 ACATTC--ATCAC-TTTTCTCTCAAAATTTTTTT-AATT-ATGTCAT
14213597 ACATTCATCACTTTTCTCTCAAAATTTTTTTAATTATGTCAT
1 ACATTCATCACTTTTCTCTCAAAATTTTTTTAATTATGTCAT
14213639 ACATTC
1 ACATTC
14213645 TCTCTTTAAT
Statistics
Matches: 64, Mismatches: 14, Indels: 22
0.64 0.14 0.22
Matches are distributed among these distances:
38 3 0.05
39 6 0.09
40 2 0.03
41 18 0.28
42 24 0.38
43 2 0.03
44 6 0.09
45 3 0.05
ACGTcount: A:0.26, C:0.21, G:0.02, T:0.52
Consensus pattern (42 bp):
ACATTCATCACTTTTCTCTCAAAATTTTTTTAATTATGTCAT
Found at i:14217817 original size:16 final size:18
Alignment explanation
Indices: 14217781--14217823 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 18
14217771 ATGTGTAATC
14217781 TTTTTTCTTCACTAGGAT
1 TTTTTTCTTCACTAGGAT
*
14217799 TTTTTTC-TCAC-AGGGT
1 TTTTTTCTTCACTAGGAT
*
14217815 TTTTATCTT
1 TTTTTTCTT
14217824 AGTAAGGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 10 0.45
17 5 0.23
18 7 0.32
ACGTcount: A:0.14, C:0.16, G:0.12, T:0.58
Consensus pattern (18 bp):
TTTTTTCTTCACTAGGAT
Found at i:14224830 original size:17 final size:17
Alignment explanation
Indices: 14224808--14224871 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
14224798 ATTTTTATTA
*
14224808 TTTATTTTTTATTTTAT
1 TTTATTTTTTAATTTAT
14224825 TTTATTTTCTTTAATTTA-
1 TTTA-TTT-TTTAATTTAT
*
14224843 TTTATTACTTTAATTTAT
1 TTTATT-TTTTAATTTAT
*
14224861 TTTATTATTTA
1 TTTATTTTTTA
14224872 TTACTTATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
17 19 0.47
18 13 0.32
19 8 0.20
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTATTTTTTAATTTAT
Found at i:14225010 original size:23 final size:22
Alignment explanation
Indices: 14224963--14225011 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
14224953 GAAAAATAGA
*
14224963 ACCAAACAGCCCTATCCATGGT
1 ACCAAACAGCCCTATCCATGAT
14224985 ACCAAACAGCCTCTATTCCA-GAT
1 ACCAAACAGCC-CTA-TCCATGAT
14225008 ACCA
1 ACCA
14225012 TTCCAGCTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 11 0.46
23 9 0.38
24 4 0.17
ACGTcount: A:0.35, C:0.37, G:0.10, T:0.18
Consensus pattern (22 bp):
ACCAAACAGCCCTATCCATGAT
Found at i:14225055 original size:22 final size:23
Alignment explanation
Indices: 14225027--14225090 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 23
14225017 GCTCAGAATG
* *
14225027 CCTGCAGCCAAACTACCC-TATT
1 CCTGCAGCCAAACCACCCTTATC
14225049 CCTGCAGCC-AACCACCCTTATC
1 CCTGCAGCCAAACCACCCTTATC
*
14225071 CCTGCATCCAAGCACCACCC
1 CCTGCAGCCAA--ACCACCC
14225091 CTCAGCACAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 7 0.20
22 20 0.57
23 1 0.03
25 7 0.20
ACGTcount: A:0.25, C:0.48, G:0.09, T:0.17
Consensus pattern (23 bp):
CCTGCAGCCAAACCACCCTTATC
Found at i:14226834 original size:15 final size:15
Alignment explanation
Indices: 14226809--14226843 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
14226799 GACTCTATTT
*
14226809 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
14226823 TAATTAATATTAAGA
1 TAATTAATATTAAGA
14226838 TAATTA
1 TAATTA
14226844 TTAATGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:14245337 original size:17 final size:17
Alignment explanation
Indices: 14245312--14245345 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14245302 ACACAAAAGG
* *
14245312 GTTTTTTTTTTTTTAAA
1 GTTTCTTTTTTATTAAA
14245329 GTTTCTTTTTTATTAAA
1 GTTTCTTTTTTATTAAA
14245346 AAAAATCCAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.03, G:0.06, T:0.71
Consensus pattern (17 bp):
GTTTCTTTTTTATTAAA
Found at i:14245421 original size:23 final size:23
Alignment explanation
Indices: 14245367--14245421 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
14245357 TCTTTCTTTT
* *
14245367 TGACGTTTTAGTTCATTTTTTTG
1 TGACGTTTTAGTTAATTTTATTG
* *
14245390 TAACGTTTTGGTTAATTTTATTG
1 TGACGTTTTAGTTAATTTTATTG
*
14245413 TGACATTTT
1 TGACGTTTT
14245422 CTAAAACTCA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.18, C:0.07, G:0.16, T:0.58
Consensus pattern (23 bp):
TGACGTTTTAGTTAATTTTATTG
Found at i:14245559 original size:49 final size:49
Alignment explanation
Indices: 14245461--14245564 Score: 122
Period size: 49 Copynumber: 2.1 Consensus size: 49
14245451 GGGACTTTTT
* **
14245461 TTTTGTCTAATTTTTTGAGACATTTTTAAACATCAAACATTTCATAACA
1 TTTTGTCTAATTTTTTGAGACATTTTTAAACATCAAAAATGACATAACA
* * *
14245510 TTTTGTCTAA-TTTTTGTGACATTTTTAGATATCACAAAATAGACA-AACA
1 TTTTGTCTAATTTTTTGAGACATTTTTAAACATCA-AAAAT-GACATAACA
14245559 TTTTGT
1 TTTTGT
14245565 GATGTTTTCC
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
48 21 0.45
49 24 0.51
50 2 0.04
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.45
Consensus pattern (49 bp):
TTTTGTCTAATTTTTTGAGACATTTTTAAACATCAAAAATGACATAACA
Found at i:14245936 original size:6 final size:6
Alignment explanation
Indices: 14245893--14245933 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
14245883 AACATAGGTT
* * *
14245893 ATTTTC ATTTTC ATTTTC ATTTTC GTTTTC GTTTTT ATTTT
1 ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATTTT
14245934 TATGGAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.12, C:0.12, G:0.05, T:0.71
Consensus pattern (6 bp):
ATTTTC
Found at i:14246195 original size:27 final size:27
Alignment explanation
Indices: 14246162--14246230 Score: 138
Period size: 27 Copynumber: 2.6 Consensus size: 27
14246152 TTTAACAAAA
14246162 TTTCAAATATTATATCTAGTACCCTAG
1 TTTCAAATATTATATCTAGTACCCTAG
14246189 TTTCAAATATTATATCTAGTACCCTAG
1 TTTCAAATATTATATCTAGTACCCTAG
14246216 TTTCAAATATTATAT
1 TTTCAAATATTATAT
14246231 AGGAAAAATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.43
Consensus pattern (27 bp):
TTTCAAATATTATATCTAGTACCCTAG
Found at i:14247558 original size:22 final size:22
Alignment explanation
Indices: 14247531--14247584 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
14247521 TTCAATGTTG
14247531 TGTCTCGAGAAAAGGAACTCTT
1 TGTCTCGAGAAAAGGAACTCTT
**
14247553 TGTCTCGAGACGAGGAACTCTT
1 TGTCTCGAGAAAAGGAACTCTT
*
14247575 TGTCTTGAGA
1 TGTCTCGAGA
14247585 TGGACCTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (22 bp):
TGTCTCGAGAAAAGGAACTCTT
Found at i:14258305 original size:137 final size:137
Alignment explanation
Indices: 14258009--14258405 Score: 661
Period size: 137 Copynumber: 2.9 Consensus size: 137
14257999 TTAGGGTTTT
* * * * * * *
14258009 CATGTTTTGGGTGCTGGTCCTAAATGTTCTACCGATGGCTGAGGTTT-GACATTTTTTGTGGATA
1 CATGTTTAGGGTGCTGGTCCTGAATGTCCTACCGATAGCTGA-GTTTCAACATTTGTTGCGGATA
* * * *
14258073 CTTATTAGCTTGTGTGAGCAACATCGTGTAGCTTACATTCCGACCGTCAGCTTGTGTGAGTAGAC
65 CTCATCAACTTGTGTGAGCAGCATCGTGTAGC-TACATTCCGACCGTCAGCTTGTGTGAGTAGAC
14258138 CGAGGTTAC
129 CGAGGTTAC
14258147 CATGTTTAGGGTGCTGGTCCTGAATGTCCTACCGATAGCTGAGTTTCAACATTTGTTGCGGATAC
1 CATGTTTAGGGTGCTGGTCCTGAATGTCCTACCGATAGCTGAGTTTCAACATTTGTTGCGGATAC
14258212 TCATCAACTTGTGTGAGCAGCATCGTGTAGCTACATTCCGACCGTCAGCTTGTGTGAGTAGACCG
66 TCATCAACTTGTGTGAGCAGCATCGTGTAGCTACATTCCGACCGTCAGCTTGTGTGAGTAGACCG
14258277 AGGTTAC
131 AGGTTAC
14258284 CATGTTTAGGGTGCTGGTCCTGAATGTCCTACCGATAGCTGAGTTTCAACATTTGTTGCGGATAC
1 CATGTTTAGGGTGCTGGTCCTGAATGTCCTACCGATAGCTGAGTTTCAACATTTGTTGCGGATAC
*
14258349 TCATCAACTTGTGTGAGCAGCATCGTGTAGCTACATTCCGACCGTCAACTTGTGTGA
66 TCATCAACTTGTGTGAGCAGCATCGTGTAGCTACATTCCGACCGTCAGCTTGTGTGA
14258406 ACATACCCAT
Statistics
Matches: 246, Mismatches: 12, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
137 166 0.67
138 80 0.33
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.33
Consensus pattern (137 bp):
CATGTTTAGGGTGCTGGTCCTGAATGTCCTACCGATAGCTGAGTTTCAACATTTGTTGCGGATAC
TCATCAACTTGTGTGAGCAGCATCGTGTAGCTACATTCCGACCGTCAGCTTGTGTGAGTAGACCG
AGGTTAC
Found at i:14260195 original size:12 final size:12
Alignment explanation
Indices: 14260176--14260205 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
14260166 TCAGACAATT
14260176 ACACGGCCTAGC
1 ACACGGCCTAGC
*
14260188 ATACGGCCTAGC
1 ACACGGCCTAGC
14260200 ACACGG
1 ACACGG
14260206 GCTTGTGAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.27, C:0.37, G:0.27, T:0.10
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:14260327 original size:42 final size:42
Alignment explanation
Indices: 14260281--14260370 Score: 153
Period size: 42 Copynumber: 2.1 Consensus size: 42
14260271 AATTCAGAGA
* *
14260281 GTTACACGGGCTGGGAGACGACCGTGTGTCCCTATTTCGAAT
1 GTTACACGAGCTGGGACACGACCGTGTGTCCCTATTTCGAAT
*
14260323 GTTACACGAGCTGGGACACGGCCGTGTGTCCCTATTTCGAAT
1 GTTACACGAGCTGGGACACGACCGTGTGTCCCTATTTCGAAT
14260365 GTTACA
1 GTTACA
14260371 TGGCCTAAGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (42 bp):
GTTACACGAGCTGGGACACGACCGTGTGTCCCTATTTCGAAT
Found at i:14260391 original size:42 final size:42
Alignment explanation
Indices: 14260302--14260394 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 42
14260292 TGGGAGACGA
**
14260302 CCGTGTGTCCCTATTTCGAATGTTACACGAGCTGGGACACGG
1 CCGTGTGTCCCTATTTCGAATGTTACACGAGCTAAGACACGG
* *
14260344 CCGTGTGTCCCTATTTCGAATGTTACATG-GCCTAAGACATGG
1 CCGTGTGTCCCTATTTCGAATGTTACACGAG-CTAAGACACGG
*
14260386 GCGTGTGTC
1 CCGTGTGTC
14260395 TCAGCCATGC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
41 1 0.02
42 44 0.98
ACGTcount: A:0.18, C:0.25, G:0.28, T:0.29
Consensus pattern (42 bp):
CCGTGTGTCCCTATTTCGAATGTTACACGAGCTAAGACACGG
Found at i:14271829 original size:9 final size:9
Alignment explanation
Indices: 14271815--14271848 Score: 68
Period size: 9 Copynumber: 3.8 Consensus size: 9
14271805 TTTTAGGGAC
14271815 TAAATTGAA
1 TAAATTGAA
14271824 TAAATTGAA
1 TAAATTGAA
14271833 TAAATTGAA
1 TAAATTGAA
14271842 TAAATTG
1 TAAATTG
14271849 TAAATTTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.35
Consensus pattern (9 bp):
TAAATTGAA
Found at i:14277368 original size:20 final size:20
Alignment explanation
Indices: 14277340--14277378 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14277330 ATTATATCCG
*
14277340 AAAATGTATTTTAAAAATAA
1 AAAAAGTATTTTAAAAATAA
*
14277360 AAAAAGTATTTTACAAATA
1 AAAAAGTATTTTAAAAATA
14277379 CTTTACAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (20 bp):
AAAAAGTATTTTAAAAATAA
Found at i:14277422 original size:13 final size:13
Alignment explanation
Indices: 14277404--14277428 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14277394 TAAAAAATAT
14277404 ATTTATTATATAC
1 ATTTATTATATAC
14277417 ATTTATTATATA
1 ATTTATTATATA
14277429 AATACTAAAT
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:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (13 bp):
ATTTATTATATAC
Found at i:14292254 original size:36 final size:36
Alignment explanation
Indices: 14292203--14292276 Score: 121
Period size: 36 Copynumber: 2.1 Consensus size: 36
14292193 CATCATTTCC
*
14292203 ACATCATGACATCGCAAAGTAGTTTGTCACGTCACG
1 ACATCATGACATCGCAAAATAGTTTGTCACGTCACG
* *
14292239 ACATCATGACGTCGCAAAATAGTTTGTCATGTCACG
1 ACATCATGACATCGCAAAATAGTTTGTCACGTCACG
14292275 AC
1 AC
14292277 GTTAGGCCAC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (36 bp):
ACATCATGACATCGCAAAATAGTTTGTCACGTCACG
Found at i:14293495 original size:29 final size:29
Alignment explanation
Indices: 14293419--14293495 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
14293409 ATGATTAGGG
* *
14293419 TTGCTTACACAAGCTAACA-TTTATGAAT
1 TTGCTCACACAAGTTAACATTTTATGAAT
* *
14293447 TTGCTCACACAAATTGACATTTTATGAAT
1 TTGCTCACACAAGTTAACATTTTATGAAT
*
14293476 TTGTTCACACAAGTTAACAT
1 TTGCTCACACAAGTTAACAT
14293496 CGTATCGAGG
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 15 0.37
29 26 0.63
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.36
Consensus pattern (29 bp):
TTGCTCACACAAGTTAACATTTTATGAAT
Found at i:14294109 original size:15 final size:14
Alignment explanation
Indices: 14294063--14294108 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
14294053 ACATATACAG
*
14294063 AAACTTAATTAATC
1 AAACTTAATTAATA
* *
14294077 AAATTTAATTAGTTA
1 AAACTTAATTA-ATA
14294092 AAACTTAATTAATA
1 AAACTTAATTAATA
14294106 AAA
1 AAA
14294109 ATTTAAGCTC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (14 bp):
AAACTTAATTAATA
Found at i:14294114 original size:15 final size:14
Alignment explanation
Indices: 14294067--14294114 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
14294057 ATACAGAAAC
*
14294067 TTAATTAATCAAAT
1 TTAATTAATAAAAT
* *
14294081 TTAATTAGTTAAAAC
1 TTAATTA-ATAAAAT
14294096 TTAATTAATAAAAAT
1 TTAATTAAT-AAAAT
14294111 TTAA
1 TTAA
14294115 GCTCAGTTAG
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
14 8 0.30
15 19 0.70
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (14 bp):
TTAATTAATAAAAT
Found at i:14301149 original size:45 final size:45
Alignment explanation
Indices: 14301058--14301234 Score: 135
Period size: 45 Copynumber: 4.0 Consensus size: 45
14301048 GCTATATGCC
* ** *
14301058 TAAAAATGAA-TAAGACCATAGCTTAAAGATGTTATGGTGTTATGA
1 TAAAAAT-AAGTAAGACCATAGCTAAAAGATGTTATGGCATCATGA
* *
14301103 TAAAAATAAGTAAGACCATAGCTAAAATATGTTATGGCATCGTGA
1 TAAAAATAAGTAAGACCATAGCTAAAAGATGTTATGGCATCATGA
* * * *** **
14301148 TAAAAATGAGTAAG-CTCATAGTTGAAAGAAACTATGGCGCCATGA
1 TAAAAATAAGTAAGAC-CATAGCTAAAAGATGTTATGGCATCATGA
** * ***
14301193 T-AAAATGTGTAAGACCATAGCTGAAAGACACTATGGCATCAT
1 TAAAAATAAGTAAGACCATAGCTAAAAGATGTTATGGCATCAT
14301235 ATGAAAGTGT
Statistics
Matches: 108, Mismatches: 21, Indels: 7
0.79 0.15 0.05
Matches are distributed among these distances:
44 37 0.34
45 71 0.66
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.26
Consensus pattern (45 bp):
TAAAAATAAGTAAGACCATAGCTAAAAGATGTTATGGCATCATGA
Found at i:14301218 original size:44 final size:45
Alignment explanation
Indices: 14301145--14301229 Score: 120
Period size: 44 Copynumber: 1.9 Consensus size: 45
14301135 TATGGCATCG
*
14301145 TGATAAAAATGAGTAAGCTCATAGTTGAAAGAAACTATGGCGCCA
1 TGATAAAAATGAGTAAGCTCATAGCTGAAAGAAACTATGGCGCCA
* *
14301190 TGAT-AAAATGTGTAAGAC-CATAGCTGAAAGACACTATGGC
1 TGATAAAAATGAGTAAG-CTCATAGCTGAAAGAAACTATGGC
14301230 ATCATATGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
44 31 0.86
45 5 0.14
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.22
Consensus pattern (45 bp):
TGATAAAAATGAGTAAGCTCATAGCTGAAAGAAACTATGGCGCCA
Found at i:14301331 original size:27 final size:27
Alignment explanation
Indices: 14301300--14301360 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
14301290 AACATCATTT
*
14301300 GGTAGTCCACCGAGACACTAAACATGG
1 GGTAGTCCACCGAGACACTAAACATAG
* * *
14301327 GGTAGTCCGCTGGGACACTAAACATAG
1 GGTAGTCCACCGAGACACTAAACATAG
*
14301354 GATAGTC
1 GGTAGTC
14301361 TGTTAAGACG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.31, C:0.23, G:0.28, T:0.18
Consensus pattern (27 bp):
GGTAGTCCACCGAGACACTAAACATAG
Found at i:14303911 original size:30 final size:29
Alignment explanation
Indices: 14303871--14303928 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
14303861 TACTAGATCC
*
14303871 AATACCATTTTCG-TAATTAATTAGTTTTTT
1 AATACCATTTT-GATAAATAATT-GTTTTTT
*
14303901 AATACTATTTTGATAAATAATTGTTTTT
1 AATACCATTTTGATAAATAATTGTTTTT
14303929 ATGTTTTGGC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (29 bp):
AATACCATTTTGATAAATAATTGTTTTTT
Found at i:14304489 original size:17 final size:19
Alignment explanation
Indices: 14304469--14304506 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
14304459 ATTATATTCG
*
14304469 ATTTAAA-ATA-ATTAAAC
1 ATTTAAATATACATAAAAC
14304486 ATTTAAATATACATAAAAC
1 ATTTAAATATACATAAAAC
14304505 AT
1 AT
14304507 GTATATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 3 0.17
19 8 0.44
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (19 bp):
ATTTAAATATACATAAAAC
Found at i:14306040 original size:2 final size:2
Alignment explanation
Indices: 14306035--14306061 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14306025 TATATATATA
14306035 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
14306062 ATGGGAGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:14312721 original size:26 final size:26
Alignment explanation
Indices: 14312685--14312736 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
14312675 ACCCTTGGTA
* *
14312685 AAATGTGCCTGCTGACACGAGCTGTG
1 AAATGGGCCTGCTCACACGAGCTGTG
*
14312711 AAATGGGCCTGCTCACATGAGCTGTG
1 AAATGGGCCTGCTCACACGAGCTGTG
14312737 GGTCGGCATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (26 bp):
AAATGGGCCTGCTCACACGAGCTGTG
Found at i:14316974 original size:21 final size:21
Alignment explanation
Indices: 14316925--14316964 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
14316915 CCCTAAAACT
*
14316925 CAAATACAAATATAATCTTTA
1 CAAATAAAAATATAATCTTTA
14316946 CAAATAAAAATATAATCTT
1 CAAATAAAAATATAATCTT
14316965 AGATATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (21 bp):
CAAATAAAAATATAATCTTTA
Found at i:14317166 original size:155 final size:155
Alignment explanation
Indices: 14316980--14317277 Score: 375
Period size: 155 Copynumber: 1.9 Consensus size: 155
14316970 TTAAACCTAA
* * * * *
14316980 AAATTAACAATAATTTAAAGTCTAAATATATATAATATACAAATTATTATTACAAACAATATAAA
1 AAATTAACAATAATTGAAAGTATAAACATATATAATATACAAATTATTATAACAAACAATAAAAA
* * * * * * * *
14317045 CATATCTTAAAACTATTACACTTTCTCCCTAAAAC-TCTAACACAAACAAATTTTTCCTCCCAAA
66 CAGACCTTAAAAATATCACACTTTATCCCTAAAACTTC-AACACAAACAAACTTTCCCCCCCAAA
14317109 ATTCCAACAACCAACTACAATAAAAG
130 ATTCCAACAACCAACTACAATAAAAG
* *
14317135 AAATTAACAATAAATTGAAA-TATAAACATATATAATATACAAATTATTATAACAGATAATAAAA
1 AAATTAACAAT-AATTGAAAGTATAAACATATATAATATACAAATTATTATAACAAACAATAAAA
** * *
14317199 ACAGACCTTAAAAATATCACACTTTATCTGTAAAACTTCAATACAAACATACTTTCCCCCCCAAA
65 ACAGACCTTAAAAATATCACACTTTATCCCTAAAACTTCAACACAAACAAACTTTCCCCCCCAAA
* *
14317264 ATTTCAACAGCCAA
130 ATTCCAACAACCAA
14317278 GACAAAAAAA
Statistics
Matches: 120, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
155 111 0.93
156 9 0.08
ACGTcount: A:0.50, C:0.19, G:0.02, T:0.29
Consensus pattern (155 bp):
AAATTAACAATAATTGAAAGTATAAACATATATAATATACAAATTATTATAACAAACAATAAAAA
CAGACCTTAAAAATATCACACTTTATCCCTAAAACTTCAACACAAACAAACTTTCCCCCCCAAAA
TTCCAACAACCAACTACAATAAAAG
Found at i:14319726 original size:20 final size:20
Alignment explanation
Indices: 14319701--14319742 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
14319691 TATAATGCGG
14319701 TCATAGTCTCTATGTCATCA
1 TCATAGTCTCTATGTCATCA
14319721 TCATAGTCTCTATGTCATCA
1 TCATAGTCTCTATGTCATCA
14319741 TC
1 TC
14319743 CTCTACAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.26, G:0.10, T:0.40
Consensus pattern (20 bp):
TCATAGTCTCTATGTCATCA
Found at i:14324061 original size:17 final size:18
Alignment explanation
Indices: 14324041--14324074 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14324031 AATATTAAGA
*
14324041 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAAATATAT
14324058 ATTTTAATTAAAATATA
1 ATTTTAATTAAAATATA
14324075 GTTAATAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTTAATTAAAATATAT
Found at i:14324288 original size:16 final size:16
Alignment explanation
Indices: 14324263--14324316 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
14324253 CAAGAATACT
*
14324263 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
14324279 ATTACACCTCTATTCT
1 ATTACACCTCTATTCC
* *
14324295 ATTACGCCTCTGTTCC
1 ATTACACCTCTATTCC
*
14324311 AATACA
1 ATTACA
14324317 GCGAACCAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.24, C:0.33, G:0.06, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:14335836 original size:33 final size:32
Alignment explanation
Indices: 14335733--14335849 Score: 117
Period size: 33 Copynumber: 3.5 Consensus size: 32
14335723 TTTTAAAAAA
* *
14335733 TAAATTAAGGTTTAGAGTTTTTTTTAAAAATTAAT
1 TAAATTAGGGTTTAGAG---TTTTAAAAAATTAAT
*** * *
14335768 TAAATTACATTTTAGGTGTTTTAAATAAATAAAT
1 TAAATTAGGGTTTA-GAGTTTTAAA-AAATTAAT
14335802 TAAATTAGGGTTTAGAGTTTTAAGAAAATTAAT
1 TAAATTAGGGTTTAGAGTTTTAA-AAAATTAAT
14335835 TAAATTAGGGTTTAG
1 TAAATTAGGGTTTAG
14335850 TTTTTTTAAA
Statistics
Matches: 68, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
33 36 0.53
34 19 0.28
35 11 0.16
36 2 0.03
ACGTcount: A:0.41, C:0.01, G:0.15, T:0.44
Consensus pattern (32 bp):
TAAATTAGGGTTTAGAGTTTTAAAAAATTAAT
Found at i:14335849 original size:67 final size:65
Alignment explanation
Indices: 14335726--14335859 Score: 153
Period size: 67 Copynumber: 2.0 Consensus size: 65
14335716 TTAAAAATTT
* *
14335726 TAAAAAATAAATTAAGGTTTAGAGTTTTTTTTAAAAATTAATTAAATTACATTTTAGGTGTTTTA
1 TAAAAAATAAATTAAGGTTTAGAG--TTTTTAAAAAATTAATTAAATTACAGTTTAGGTGTTTTA
14335791 AA
64 AA
* ** * *
14335793 TAAATAAATTAAATTAGGGTTTAGAG-TTTTAAGAAAATTAATTAAATTAGGGTTTAGTTTTTTT
1 TAAA-AAA-TAAATTAAGGTTTAGAGTTTTTAA-AAAATTAATTAAATTACAGTTTAGGTGTTTT
14335857 AAA
63 AAA
14335860 ATAATTTTGT
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
66 5 0.09
67 33 0.58
68 3 0.05
69 16 0.28
ACGTcount: A:0.43, C:0.01, G:0.13, T:0.44
Consensus pattern (65 bp):
TAAAAAATAAATTAAGGTTTAGAGTTTTTAAAAAATTAATTAAATTACAGTTTAGGTGTTTTAAA
Found at i:14340820 original size:30 final size:29
Alignment explanation
Indices: 14340784--14340957 Score: 204
Period size: 30 Copynumber: 5.8 Consensus size: 29
14340774 ATCCAATGCT
*
14340784 CAAATCAATTCGGTAATATATATACATATA
1 CAAATCAATTCGGCAATATATAT-CATATA
* *
14340814 CAAATCAATTCAGCAATGTATATCTATATA
1 CAAATCAATTCGGCAATATATATC-ATATA
*
14340844 CAAATCAATTCGGCAATGTATATCCATATA
1 CAAATCAATTCGGCAATATATAT-CATATA
* *
14340874 CAAATCAATTCAGCTATATATATCTATATA
1 CAAATCAATTCGGCAATATATATC-ATATA
* * *
14340904 TAAATAAATTCGGAAATATATATATCCATATA
1 CAAATCAATTCGG-CA-ATATATAT-CATATA
14340936 CAAATCAATTCGGCAATATATA
1 CAAATCAATTCGGCAATATATA
14340958 AAACATGTAC
Statistics
Matches: 123, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
29 2 0.02
30 94 0.76
31 2 0.02
32 24 0.20
33 1 0.01
ACGTcount: A:0.45, C:0.16, G:0.07, T:0.33
Consensus pattern (29 bp):
CAAATCAATTCGGCAATATATATCATATA
Found at i:14340877 original size:60 final size:60
Alignment explanation
Indices: 14340784--14340957 Score: 249
Period size: 60 Copynumber: 2.9 Consensus size: 60
14340774 ATCCAATGCT
* * *
14340784 CAAATCAATTCGGTAATATATATACATATACAAATCAATTCAGCAATGTATATCTATATA
1 CAAATCAATTCGGAAATATATATCCATATACAAATCAATTCAGCAATATATATCTATATA
* * *
14340844 CAAATCAATTCGGCAATGTATATCCATATACAAATCAATTCAGCTATATATATCTATATA
1 CAAATCAATTCGGAAATATATATCCATATACAAATCAATTCAGCAATATATATCTATATA
* * *
14340904 TAAATAAATTCGGAAATATATATATCCATATACAAATCAATTCGGCAATATATA
1 CAAATCAATTCGG-AA-ATATATATCCATATACAAATCAATTCAGCAATATATA
14340958 AAACATGTAC
Statistics
Matches: 101, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
60 66 0.65
61 1 0.01
62 34 0.34
ACGTcount: A:0.45, C:0.16, G:0.07, T:0.33
Consensus pattern (60 bp):
CAAATCAATTCGGAAATATATATCCATATACAAATCAATTCAGCAATATATATCTATATA
Found at i:14347333 original size:31 final size:29
Alignment explanation
Indices: 14347298--14347371 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
14347288 ACTGCTCAAG
* * *
14347298 GACTAAAATGTTACAATTTGATAACGTAAGT
1 GACTAAAATGTAAC-ATTTCA-AACATAAGT
*
14347329 GACTAAAACGTAACATTTCAAACATAAGT
1 GACTAAAATGTAACATTTCAAACATAAGT
*
14347358 GACTAAAATCTAAC
1 GACTAAAATGTAAC
14347372 CTAAGATATT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 20 0.54
30 5 0.14
31 12 0.32
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.27
Consensus pattern (29 bp):
GACTAAAATGTAACATTTCAAACATAAGT
Found at i:14370737 original size:3 final size:3
Alignment explanation
Indices: 14370731--14370791 Score: 95
Period size: 3 Copynumber: 20.3 Consensus size: 3
14370721 AACTAATAAG
* * *
14370731 TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TGA TTA TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
14370779 TTA TTA TTA TTA T
1 TTA TTA TTA TTA T
14370792 CTATGTCTTG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:14371748 original size:109 final size:107
Alignment explanation
Indices: 14371629--14371827 Score: 310
Period size: 109 Copynumber: 1.8 Consensus size: 107
14371619 AAAAATAATA
*
14371629 AAGGCAATGTTTTACGTTTGGAGATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTC
1 AAGGCAATGTTTTACGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGA--TTTC
*
14371694 TCGTTCT-ATCAAATAGCCAAATATCCTTTTTAAAATTTCGAAGT
64 TCGTT-TGACCAAATAGCCAAATATCCTTTTTAAAATTTCGAAGT
* * * *
14371738 AAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAATGTGCCCTAATGTGTTGGGTTTCGATTTCTT
1 AAGGCAATGTTTTACGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTCTC
14371803 GTTTGACCAAATAGCCAAATATCCT
66 GTTTGACCAAATAGCCAAATATCCT
14371828 CTTAAATCTT
Statistics
Matches: 83, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
106 1 0.01
107 27 0.33
109 55 0.66
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (107 bp):
AAGGCAATGTTTTACGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTCTC
GTTTGACCAAATAGCCAAATATCCTTTTTAAAATTTCGAAGT
Found at i:14375881 original size:6 final size:6
Alignment explanation
Indices: 14375872--14375905 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
14375862 AAGAAGAAAA
* *
14375872 AAAATC AAAATC AAAATC AAAGTC AAAAGC AAAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
14375906 AGAGAAATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.68, C:0.15, G:0.06, T:0.12
Consensus pattern (6 bp):
AAAATC
Found at i:14376340 original size:14 final size:13
Alignment explanation
Indices: 14376322--14376356 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
14376312 AAAAGATGAT
14376322 GAAAAATGAAAAA
1 GAAAAATGAAAAA
*
14376335 GAAAAATGAAAGA
1 GAAAAATGAAAAA
14376348 GTAAAAATG
1 G-AAAAATG
14376357 GAGAGGCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 13 0.65
14 7 0.35
ACGTcount: A:0.69, C:0.00, G:0.20, T:0.11
Consensus pattern (13 bp):
GAAAAATGAAAAA
Found at i:14377732 original size:87 final size:87
Alignment explanation
Indices: 14377586--14378265 Score: 1110
Period size: 87 Copynumber: 7.8 Consensus size: 87
14377576 AGATCAGTGA
*
14377586 AGATCGAAAACAAAGCCTTACCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
*
14377651 CTTCCTGCGTTAACAGTGAAGC
66 CTTCCTGCGTTAACAGCGAAGC
*
14377673 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
14377738 CTTCCTGCGTTAACAGCGAAGC
66 CTTCCTGCGTTAACAGCGAAGC
* * * *
14377760 AGATCGAAAATAAAGCCTTGCCTCCATCGGTTGTAGTGGAGTTGGTTAAAGATAGTAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
*
14377825 CTTTCTGCGTTAACAGCGAAGC
66 CTTCCTGCGTTAACAGCGAAGC
* *
14377847 AGAACGAAAACAAAGCCTTTCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
14377912 CTTCCTGCGTTAACAGCGAAGC
66 CTTCCTGCGTTAACAGCGAAGC
* * *
14377934 AGATCGAAAACAAAGCATTGCCTCCAAT-GGTTGCAGTGGAGCTTGTTAAAGATAACAGATCTTG
1 AGATCGAAAACAAAGCCTTGCCTCC-ATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTG
* *
14377998 TCTTCCTGCGTTAACAGTGAAGC
65 CCTTCCTGCGTTAACAGCGAAGC
* * *
14378021 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTACAGTGGATCTGGTTAAAGATAACAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
14378086 CTTCCTGCGTTAACAGCGAAGC
66 CTTCCTGCGTTAACAGCGAAGC
* * * *
14378108 AGACCGAAAATAAAGCCTTGCCTCCATCGCTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* *
14378173 TTTCCTGCGTTAACAGCGAAGT
66 CTTCCTGCGTTAACAGCGAAGC
* *
14378195 AGATCGAAAACAAAGCCTTGCCTCTATCGGTTGCAGTGGTGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
14378260 CTTCCT
66 CTTCCT
14378266 AAGCACTAGC
Statistics
Matches: 548, Mismatches: 43, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
86 2 0.00
87 544 0.99
88 2 0.00
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (87 bp):
AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
CTTCCTGCGTTAACAGCGAAGC
Found at i:14378086 original size:44 final size:44
Alignment explanation
Indices: 14377606--14378172 Score: 170
Period size: 42 Copynumber: 13.0 Consensus size: 44
14377596 CAAAGCCTTA
* *
14377606 CCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTG
1 CCTCCATCGGTTACAGTGGAGCTGGTTAAAGATAACAGATCTTG
* * * * * * *
14377650 CCTTCC-T-GCGTTAACAGTGAAGCAGATCAAAAACAA-AG-CCTTG
1 CC-TCCATCG-GTT-ACAGTGGAGCTGGTTAAAGATAACAGATCTTG
* *
14377693 CCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTG
1 CCTCCATCGGTTACAGTGGAGCTGGTTAAAGATAACAGATCTTG
* * * * * *
14377737 CCTTCC-T-GCGTTAACAGCGAAGCAGATCGAAA-ATAA-AG-CCTTG
1 CC-TCCATCG-GTT-ACAGTGGAGCTGGT-TAAAGATAACAGATCTTG
** * **
14377780 CCTCCATCGGTTGTAGTGGAGTTGGTTAAAGATAGTAGATCTTG
1 CCTCCATCGGTTACAGTGGAGCTGGTTAAAGATAACAGATCTTG
* * * * * * * * *
14377824 CCT--TTCTGCGTTAACAGCGAAGC-AG--AACGAAAACAAAGCCTTT
1 CCTCCATC-G-GTT-ACAGTGGAGCTGGTTAAAGATAACAGA-TCTTG
* *
14377867 CCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTG
1 CCTCCATCGGTTACAGTGGAGCTGGTTAAAGATAACAGATCTTG
* * * * * *
14377911 CCTTCC-T-GCGTTAACAGCGAAGCAGATCGAAA-ACAA-AG--CATTG
1 CC-TCCATCG-GTT-ACAGTGGAGCTGGT-TAAAGATAACAGATC-TTG
* *
14377954 CCTCCAAT-GGTTGCAGTGGAGCTTGTTAAAGATAACAGATCTTG
1 CCTCC-ATCGGTTACAGTGGAGCTGGTTAAAGATAACAGATCTTG
* * * * * * *
14377998 TCTTCC-T-GCGTTAACAGTGAAGCAGATCGAAA-ACAA-AG-CCTTG
1 -CCTCCATCG-GTT-ACAGTGGAGCTGGT-TAAAGATAACAGATCTTG
*
14378041 CCTCCATCGGTTACAGTGGATCTGGTTAAAGATAACAGATCTTG
1 CCTCCATCGGTTACAGTGGAGCTGGTTAAAGATAACAGATCTTG
* * * *** *
14378085 CCTTCC-T-GCGTTAACAGCGAAGCAGACCGAAA-ATAA-AG-CCTTG
1 CC-TCCATCG-GTT-ACAGTGGAGCTG-GTTAAAGATAACAGATCTTG
* *
14378128 CCTCCATCGCTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTG
1 CCTCCATCGGTTACAGTGGAGCTGGTTAAAGATAACAGATCTTG
14378172 C
1 C
14378173 TTTCCTGCGT
Statistics
Matches: 358, Mismatches: 111, Indels: 108
0.62 0.19 0.19
Matches are distributed among these distances:
41 12 0.03
42 94 0.26
43 72 0.20
44 74 0.21
45 94 0.26
46 12 0.03
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (44 bp):
CCTCCATCGGTTACAGTGGAGCTGGTTAAAGATAACAGATCTTG
Found at i:14380036 original size:3 final size:3
Alignment explanation
Indices: 14380030--14380084 Score: 83
Period size: 3 Copynumber: 18.3 Consensus size: 3
14380020 AACTAATAAG
* * *
14380030 TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TGA TTA TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
14380078 TTA TTA T
1 TTA TTA T
14380085 CTATGTCTTG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:14380288 original size:3 final size:3
Alignment explanation
Indices: 14380282--14380336 Score: 83
Period size: 3 Copynumber: 18.3 Consensus size: 3
14380272 AACTAATAAG
* * *
14380282 TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TGA TTA TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
14380330 TTA TTA T
1 TTA TTA T
14380337 CTATGTCTTG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:14380321 original size:252 final size:252
Alignment explanation
Indices: 14379904--14380409 Score: 1003
Period size: 252 Copynumber: 2.0 Consensus size: 252
14379894 TTTGGTCCCT
14379904 CTTTGTTAGTCGCGCATTTAATGGGGTCCTTCTCCTTTAATTTATTTGTGATTTGTCCCCAAATT
1 CTTTGTTAGTCGCGCATTTAATGGGGTCCTTCTCCTTTAATTTATTTGTGATTTGTCCCCAAATT
14379969 TTTTTTATTCAATTTAGCCCTCTGTTTATATCTTGGTTATTTTATTATTAAAACTAATAAGTTAT
66 TTTTTTATTCAATTTAGCCCTCTGTTTATATCTTGGTTATTTTATTATTAAAACTAATAAGTTAT
14380034 TATTATTATTATTATCATTATTATTATGATTATTATTAATATTATTATTATCTATGTCTTGTTAA
131 TATTATTATTATTATCATTATTATTATGATTATTATTAATATTATTATTATCTATGTCTTGTTAA
*
14380099 TTTCAAATTTTATTATATATATATGCTTGCATTTTTTTTTTATAATGTACATACACG
196 TTTCAAATTTTATTATATATATATGCTTACATTTTTTTTTTATAATGTACATACACG
14380156 CTTTGTTAGTCGCGCATTTAATGGGGTCCTTCTCCTTTAATTTATTTGTGATTTGTCCCCAAATT
1 CTTTGTTAGTCGCGCATTTAATGGGGTCCTTCTCCTTTAATTTATTTGTGATTTGTCCCCAAATT
14380221 TTTTTTATTCAATTTAGCCCTCTGTTTATATCTTGGTTATTTTATTATTAAAACTAATAAGTTAT
66 TTTTTTATTCAATTTAGCCCTCTGTTTATATCTTGGTTATTTTATTATTAAAACTAATAAGTTAT
14380286 TATTATTATTATTATCATTATTATTATGATTATTATTAATATTATTATTATCTATGTCTTGTTAA
131 TATTATTATTATTATCATTATTATTATGATTATTATTAATATTATTATTATCTATGTCTTGTTAA
14380351 TTTCAAATTTTATTATATATATATGCTTACATTTTTTTTTTATAATGTACATACACG
196 TTTCAAATTTTATTATATATATATGCTTACATTTTTTTTTTATAATGTACATACACG
14380408 CT
1 CT
14380410 CATAGATTTT
Statistics
Matches: 253, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
252 253 1.00
ACGTcount: A:0.27, C:0.12, G:0.09, T:0.53
Consensus pattern (252 bp):
CTTTGTTAGTCGCGCATTTAATGGGGTCCTTCTCCTTTAATTTATTTGTGATTTGTCCCCAAATT
TTTTTTATTCAATTTAGCCCTCTGTTTATATCTTGGTTATTTTATTATTAAAACTAATAAGTTAT
TATTATTATTATTATCATTATTATTATGATTATTATTAATATTATTATTATCTATGTCTTGTTAA
TTTCAAATTTTATTATATATATATGCTTACATTTTTTTTTTATAATGTACATACACG
Found at i:14386766 original size:28 final size:27
Alignment explanation
Indices: 14386734--14386832 Score: 112
Period size: 28 Copynumber: 3.6 Consensus size: 27
14386724 TTAATAAGTA
* *
14386734 CGCACACTTAGTGCTTAATAATCACACT
1 CGCACACTTAGTGCTT-ATAATTAAACT
*
14386762 CGCACACTTAGTGCTT-TACCATTATACT
1 CGCACACTTAGTGCTTATA--ATTAAACT
14386790 CGCACACTTAGTGCATT-TCAATTAAACT
1 CGCACACTTAGTGC-TTAT-AATTAAACT
14386818 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
14386833 AATCTCATTA
Statistics
Matches: 64, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
26 2 0.03
27 1 0.02
28 57 0.89
29 3 0.05
30 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.31
Consensus pattern (27 bp):
CGCACACTTAGTGCTTATAATTAAACT
Found at i:14390031 original size:21 final size:21
Alignment explanation
Indices: 14390007--14390048 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
14389997 GATAAATATT
14390007 GTATT-AATTTAATAAGATTTA
1 GTATTAAATTT-ATAAGATTTA
*
14390028 GTATTAAATTTATAATATTTA
1 GTATTAAATTTATAAGATTTA
14390049 TCTTGATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (21 bp):
GTATTAAATTTATAAGATTTA
Found at i:14392098 original size:18 final size:18
Alignment explanation
Indices: 14392061--14392098 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
14392051 GAGTTAAACG
*
14392061 AATCGAGTTATGCGAGTT
1 AATCGAGTTATGCGAATT
*
14392079 AATCGAGTTATTCGAATT
1 AATCGAGTTATGCGAATT
14392097 AA
1 AA
14392099 CTCAAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (18 bp):
AATCGAGTTATGCGAATT
Found at i:14392176 original size:9 final size:9
Alignment explanation
Indices: 14392147--14392183 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
14392137 TGAGTTTTTG
14392147 AATTCGAAT
1 AATTCGAAT
*
14392156 AACTCGAAT
1 AATTCGAAT
14392165 AATTCGAAT
1 AATTCGAAT
*
14392174 AATTTGAAT
1 AATTCGAAT
14392183 A
1 A
14392184 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:14395404 original size:26 final size:26
Alignment explanation
Indices: 14395379--14395451 Score: 94
Period size: 25 Copynumber: 2.8 Consensus size: 26
14395369 ATTTTATTTC
*
14395379 CTTTTCTCTCTTTTTTTTTTCT-TTT
1 CTTTTCTTTCTTTTTTTTTTCTCTTT
* *
14395404 CTTTTCTTTCTTTGTTTTTTCTCCTT
1 CTTTTCTTTCTTTTTTTTTTCTCTTT
*
14395430 CTTTTCTTTCTTTATTTCTTTC
1 CTTTTCTTTCTTT-TTTTTTTC
14395452 CTTATCATTG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
25 20 0.49
26 15 0.37
27 6 0.15
ACGTcount: A:0.01, C:0.22, G:0.01, T:0.75
Consensus pattern (26 bp):
CTTTTCTTTCTTTTTTTTTTCTCTTT
Found at i:14395407 original size:25 final size:25
Alignment explanation
Indices: 14395370--14395451 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 25
14395360 CATAGAAAAA
* * *
14395370 TTTTATTTCCTTTTCTCTCTTTTTT
1 TTTTCTTTTCTTTTCTTTCTTTTTT
*
14395395 TTTTCTTTTCTTTTCTTTCTTTGTT
1 TTTTCTTTTCTTTTCTTTCTTTTTT
*
14395420 TTTTCTCCTTCTTTTCTTTCTTTATTT
1 TTTTCT-TTTCTTTTCTTTCTTT-TTT
*
14395447 CTTTC
1 TTTTC
14395452 CTTATCATTG
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
25 27 0.56
26 15 0.31
27 6 0.12
ACGTcount: A:0.02, C:0.21, G:0.01, T:0.76
Consensus pattern (25 bp):
TTTTCTTTTCTTTTCTTTCTTTTTT
Found at i:14397186 original size:10 final size:10
Alignment explanation
Indices: 14397171--14397234 Score: 57
Period size: 9 Copynumber: 6.8 Consensus size: 10
14397161 AATTGTGAAA
14397171 AAAATTATAT
1 AAAATTATAT
*
14397181 AAAATTATTT
1 AAAATTATAT
*
14397191 AAAAACTAT-T
1 -AAAATTATAT
14397201 AAAATT-TAT
1 AAAATTATAT
*
14397210 AAAA-AATAT
1 AAAATTATAT
14397219 AAAATT-T-T
1 AAAATTATAT
14397227 AAAATTAT
1 AAAATTAT
14397235 TCAAAAAAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
8 8 0.18
9 19 0.43
10 10 0.23
11 7 0.16
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (10 bp):
AAAATTATAT
Found at i:14397194 original size:21 final size:19
Alignment explanation
Indices: 14397170--14397230 Score: 65
Period size: 18 Copynumber: 3.2 Consensus size: 19
14397160 TAATTGTGAA
*
14397170 AAAAATTATATAAAATTATTT
1 AAAAA-TATATAAAATT-TAT
14397191 AAAAACTAT-TAAAATTTAT
1 AAAAA-TATATAAAATTTAT
14397210 AAAAA-ATATAAAATTT-T
1 AAAAATATATAAAATTTAT
14397227 AAAA
1 AAAA
14397231 TTATTCAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
17 7 0.19
18 8 0.22
19 7 0.19
20 7 0.19
21 8 0.22
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAAATATATAAAATTTAT
Found at i:14397517 original size:20 final size:20
Alignment explanation
Indices: 14397492--14397544 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 20
14397482 ATGGTTGTTG
*
14397492 TTTTAAATAATTTTTAATAC
1 TTTTAAATAATTTTTAATAA
14397512 TTTTAAAT--TTTTT-ATAA
1 TTTTAAATAATTTTTAATAA
14397529 TTCTT-AATAATTTTTA
1 TT-TTAAATAATTTTTA
14397545 TGTTTTTTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
17 8 0.29
18 7 0.25
19 5 0.18
20 8 0.29
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTAAATAATTTTTAATAA
Found at i:14399639 original size:26 final size:26
Alignment explanation
Indices: 14399610--14399663 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
14399600 AAATTTTCTT
14399610 TTTTCAGACCCAATTCAAAATTTCAA
1 TTTTCAGACCCAATTCAAAATTTCAA
*
14399636 TTTTCAGACCCAATTCAAATTTTCAA
1 TTTTCAGACCCAATTCAAAATTTCAA
14399662 TT
1 TT
14399664 CATTTAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.39
Consensus pattern (26 bp):
TTTTCAGACCCAATTCAAAATTTCAA
Found at i:14401946 original size:26 final size:26
Alignment explanation
Indices: 14401917--14401973 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
14401907 TACCAAGGGC
* * *
14401917 AAAATTGTTAAAATTTTATCAGGGAT
1 AAAATCGTCAAAATTTTATAAGGGAT
* *
14401943 AAAATCGTCAAAATTTTGTAAGGGGT
1 AAAATCGTCAAAATTTTATAAGGGAT
14401969 AAAAT
1 AAAAT
14401974 AAGGATGAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.44, C:0.05, G:0.18, T:0.33
Consensus pattern (26 bp):
AAAATCGTCAAAATTTTATAAGGGAT
Found at i:14413131 original size:120 final size:121
Alignment explanation
Indices: 14412981--14413223 Score: 479
Period size: 120 Copynumber: 2.0 Consensus size: 121
14412971 ATAAAATTAT
14412981 CTTTATATATAAAAATTAAAATTAAATAAAAAAGAATAACCACGTCAATCGCTTTAATTCAAGTT
1 CTTTATATATAAAAATTAAAATTAAATAAAAAAGAATAACCACGTCAATCGCTTTAATTCAAGTT
14413046 AAATTTCAAAATTTATTTTTCAGCCCTAATTAATTGGAGCTGAGAGGAGGACAACG
66 AAATTTCAAAATTTATTTTTCAGCCCTAATTAATTGGAGCTGAGAGGAGGACAACG
14413102 CTTTATATAT-AAAATTAAAATTAAATAAAAAAGAATAACCACGTCAATCGCTTTAATTCAAGTT
1 CTTTATATATAAAAATTAAAATTAAATAAAAAAGAATAACCACGTCAATCGCTTTAATTCAAGTT
14413166 AAATTTCAAAATTTATTTTTCAGCCCTAATTAATTGGAGCTGAGAGGAGGACAACG
66 AAATTTCAAAATTTATTTTTCAGCCCTAATTAATTGGAGCTGAGAGGAGGACAACG
14413222 CT
1 CT
14413224 GAAACATACA
Statistics
Matches: 122, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
120 112 0.92
121 10 0.08
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (121 bp):
CTTTATATATAAAAATTAAAATTAAATAAAAAAGAATAACCACGTCAATCGCTTTAATTCAAGTT
AAATTTCAAAATTTATTTTTCAGCCCTAATTAATTGGAGCTGAGAGGAGGACAACG
Found at i:14415793 original size:16 final size:18
Alignment explanation
Indices: 14415767--14415799 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
14415757 ATAAACATCA
14415767 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
14415784 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
14415800 CCTTATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:14418059 original size:4 final size:4
Alignment explanation
Indices: 14418047--14418077 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
14418037 TAAAATTAGT
14418047 TAAA T-AA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
14418078 AAGGATAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:14418418 original size:31 final size:31
Alignment explanation
Indices: 14418380--14418469 Score: 153
Period size: 32 Copynumber: 2.9 Consensus size: 31
14418370 AGGCAAATTA
14418380 CAAGAGTAATTGAATCCTAATAAAACTATTT
1 CAAGAGTAATTGAATCCTAATAAAACTATTT
*
14418411 CAAGAGTAATTGAATCCTAATAAAAACTCTTT
1 CAAGAGTAATTGAATCCTAAT-AAAACTATTT
*
14418443 AAAGAGTAATTGAATCCTAATAAAACT
1 CAAGAGTAATTGAATCCTAATAAAACT
14418470 CTTTAAAATT
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
31 27 0.48
32 29 0.52
ACGTcount: A:0.47, C:0.13, G:0.10, T:0.30
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTATTT
Found at i:14418471 original size:31 final size:31
Alignment explanation
Indices: 14418381--14418476 Score: 165
Period size: 31 Copynumber: 3.1 Consensus size: 31
14418371 GGCAAATTAC
* *
14418381 AAGAGTAATTGAATCCTAATAAAACTATTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
14418412 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
14418444 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
14418475 AA
1 AA
14418477 ATTATCTAAG
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
31 33 0.53
32 29 0.47
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.31
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:14427820 original size:31 final size:31
Alignment explanation
Indices: 14427727--14427822 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
14427717 GGCAAATTAC
*
14427727 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
14427758 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
14427790 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
14427821 AA
1 AA
14427823 ATTATTCAAA
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:14428986 original size:40 final size:40
Alignment explanation
Indices: 14428936--14429169 Score: 432
Period size: 40 Copynumber: 5.8 Consensus size: 40
14428926 ATCTTCAAGG
*
14428936 ATATGTAATCTTAGATATGATATGCAATCTTAGATTTGAT
1 ATATGCAATCTTAGATATGATATGCAATCTTAGATTTGAT
***
14428976 ATATGCAATCTTAGATATGATATGCAATCTTAGAAGAGAT
1 ATATGCAATCTTAGATATGATATGCAATCTTAGATTTGAT
14429016 ATATGCAATCTTAGATATGATATGCAATCTTAGATTTGAT
1 ATATGCAATCTTAGATATGATATGCAATCTTAGATTTGAT
14429056 ATATGCAATCTTAGATATGATATGCAATCTTAGATTTGAT
1 ATATGCAATCTTAGATATGATATGCAATCTTAGATTTGAT
14429096 ATATGCAATCTTAGATATGATATGCAATCTTAGATTTGAT
1 ATATGCAATCTTAGATATGATATGCAATCTTAGATTTGAT
14429136 ATATGCAATCTTAGATATGATATGCAATCTTAGA
1 ATATGCAATCTTAGATATGATATGCAATCTTAGA
14429170 AGATATGATT
Statistics
Matches: 187, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 187 1.00
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.38
Consensus pattern (40 bp):
ATATGCAATCTTAGATATGATATGCAATCTTAGATTTGAT
Found at i:14429205 original size:21 final size:23
Alignment explanation
Indices: 14429148--14429205 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 23
14429138 ATGCAATCTT
* *
14429148 AGATATG-ATATGCAATCTTAGA
1 AGATATGAATTTGTAATCTTAGA
*
14429170 AGATATGATTTTGTAATCTTA-A
1 AGATATGAATTTGTAATCTTAGA
*
14429192 AGAT-TTAATTTGTA
1 AGATATGAATTTGTA
14429206 GATACCCTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 8 0.27
22 12 0.40
23 10 0.33
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.41
Consensus pattern (23 bp):
AGATATGAATTTGTAATCTTAGA
Found at i:14433944 original size:21 final size:22
Alignment explanation
Indices: 14433919--14433967 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
14433909 AATTTCATTC
14433919 TATTTTGATC-ATTTAACTATTA
1 TATTTT-ATCAATTTAACTATTA
* *
14433941 -ATTTTTTCAATTTAATTATTA
1 TATTTTATCAATTTAACTATTA
14433962 TATTTT
1 TATTTT
14433968 TTAAAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 2 0.09
21 16 0.70
22 5 0.22
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (22 bp):
TATTTTATCAATTTAACTATTA
Found at i:14433968 original size:21 final size:21
Alignment explanation
Indices: 14433929--14433969 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
14433919 TATTTTGATC
14433929 ATTTAACTATTAATTTTTTCA
1 ATTTAACTATTAATTTTTTCA
*
14433950 ATTTAATTATTATATTTTTT
1 ATTTAACTATTA-ATTTTTT
14433970 AAAATTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (21 bp):
ATTTAACTATTAATTTTTTCA
Found at i:14433977 original size:22 final size:21
Alignment explanation
Indices: 14433931--14433982 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
14433921 TTTTGATCAT
* * *
14433931 TTAACTATTAATTTTTTCAAT
1 TTAAATATTAATTTTTTAAAA
*
14433952 TTAATTATTATATTTTTTAAAA
1 TTAAATATTA-ATTTTTTAAAA
14433974 TTAAATATT
1 TTAAATATT
14433983 TTAGTTAATC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 9 0.35
22 17 0.65
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (21 bp):
TTAAATATTAATTTTTTAAAA
Found at i:14457966 original size:26 final size:26
Alignment explanation
Indices: 14457897--14457970 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
14457887 ACATATTTTC
* * *
14457897 TCAAAATTTTACCAGGAGAAAAATCA
1 TCAAAATTTTACTAGGGGTAAAATCA
* *
14457923 TCAAAATTTTATTAGGGGTAAAATCG
1 TCAAAATTTTACTAGGGGTAAAATCA
* *
14457949 TTAAAATTTTACTGGGGGTAAA
1 TCAAAATTTTACTAGGGGTAAA
14457971 TATAAATATT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (26 bp):
TCAAAATTTTACTAGGGGTAAAATCA
Found at i:14476625 original size:26 final size:25
Alignment explanation
Indices: 14476577--14476627 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
14476567 TCTATTACAT
14476577 TATTTCTCCTTTTTTATTTCTTTTC
1 TATTTCTCCTTTTTTATTTCTTTTC
* *
14476602 TATTTGCT-CTTTTTTTTTTCCTTTC
1 TATTT-CTCCTTTTTTATTTCTTTTC
14476627 T
1 T
14476628 TCTTATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 21 0.91
26 2 0.09
ACGTcount: A:0.06, C:0.20, G:0.02, T:0.73
Consensus pattern (25 bp):
TATTTCTCCTTTTTTATTTCTTTTC
Found at i:14476933 original size:16 final size:18
Alignment explanation
Indices: 14476903--14476940 Score: 62
Period size: 16 Copynumber: 2.2 Consensus size: 18
14476893 ATCAGTTTTC
14476903 TTTATTTTTTAAATATTT
1 TTTATTTTTTAAATATTT
14476921 TTTA-TTTTT-AATATTT
1 TTTATTTTTTAAATATTT
14476937 TTTA
1 TTTA
14476941 AGAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 11 0.55
17 5 0.25
18 4 0.20
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTATTTTTTAAATATTT
Found at i:14479623 original size:13 final size:13
Alignment explanation
Indices: 14479605--14479641 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
14479595 AAATAATAAA
*
14479605 AATATTTTTAATT
1 AATATTTATAATT
14479618 AATATTTATAATT
1 AATATTTATAATT
14479631 AA-ATTTA-AATT
1 AATATTTATAATT
14479642 TAAAAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 4 0.17
12 5 0.22
13 14 0.61
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
AATATTTATAATT
Found at i:14486267 original size:3 final size:3
Alignment explanation
Indices: 14486259--14486311 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
14486249 GGAGAACTTA
*
14486259 GAT GAT GAT GAT GAT GAT GAT GAT GAT GGT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
14486307 GAT GA
1 GAT GA
14486312 AGCTCCAGAG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:14493538 original size:70 final size:70
Alignment explanation
Indices: 14493425--14493569 Score: 281
Period size: 70 Copynumber: 2.1 Consensus size: 70
14493415 TTTGAATAAC
14493425 ACAAAGATTTACTAATAGCAACCCCACTAACAAAGTAGATATGGGCCTATATTATAGTTTCTCTA
1 ACAAAGATTTACTAATAGCAACCCCACTAACAAAGTAGATATGGGCCTATATTATAGTTTCTCTA
14493490 AGCTT
66 AGCTT
14493495 ACAAAGATTTACTAATAGCAACCCCACTAACAAAGTAGATATGGGCCTATATTATAGTTTCTCTA
1 ACAAAGATTTACTAATAGCAACCCCACTAACAAAGTAGATATGGGCCTATATTATAGTTTCTCTA
14493560 AGCTT
66 AGCTT
*
14493565 TCAAA
1 ACAAA
14493570 TCAACTAAGT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 74 1.00
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (70 bp):
ACAAAGATTTACTAATAGCAACCCCACTAACAAAGTAGATATGGGCCTATATTATAGTTTCTCTA
AGCTT
Found at i:14498395 original size:13 final size:13
Alignment explanation
Indices: 14498356--14498398 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
14498346 TATTTGAGTT
*
14498356 TATTTTATATCTA
1 TATTTTATATTTA
*
14498369 TAAATTTATATTTA
1 T-ATTTTATATTTA
*
14498383 TATTTTATGTTTA
1 TATTTTATATTTA
14498396 TAT
1 TAT
14498399 ATATTGCAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (13 bp):
TATTTTATATTTA
Found at i:14499252 original size:22 final size:23
Alignment explanation
Indices: 14499227--14499286 Score: 90
Period size: 22 Copynumber: 2.7 Consensus size: 23
14499217 TTTGTATAAA
*
14499227 TTGATAATTGAAT-GTGAATTGG
1 TTGATTATTGAATAGTGAATTGG
14499249 TTGATTATTG-ATAGTGAATTGG
1 TTGATTATTGAATAGTGAATTGG
14499271 TTGATTATTG-ATAGTG
1 TTGATTATTGAATAGTG
14499287 CTATATATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
21 2 0.06
22 34 0.94
ACGTcount: A:0.28, C:0.00, G:0.27, T:0.45
Consensus pattern (23 bp):
TTGATTATTGAATAGTGAATTGG
Found at i:14500236 original size:21 final size:21
Alignment explanation
Indices: 14500196--14500236 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
14500186 CTTATTTATA
**
14500196 TTTTAATTAATCATGTTTTAG
1 TTTTAATTAATCATAATTTAG
*
14500217 TTTTAATTAATCTTAATTTA
1 TTTTAATTAATCATAATTTA
14500237 CTCAATTAAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (21 bp):
TTTTAATTAATCATAATTTAG
Found at i:14511077 original size:20 final size:20
Alignment explanation
Indices: 14511052--14511096 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
14511042 TATCAATCCA
*
14511052 GTATCGATACATTTTAT-TTG
1 GTATCGATA-ATTATATCTTG
14511072 GTATCGATAATTATATCTTG
1 GTATCGATAATTATATCTTG
14511092 GTATC
1 GTATC
14511097 AATCTTATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.47
Consensus pattern (20 bp):
GTATCGATAATTATATCTTG
Found at i:14516902 original size:11 final size:11
Alignment explanation
Indices: 14516879--14516913 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
14516869 CTAGCTTTGG
14516879 TCTTTCTCTTTT
1 TCTTTC-CTTTT
14516891 TCTTTCCTTTT
1 TCTTTCCTTTT
14516902 TCTTT-CTTTT
1 TCTTTCCTTTT
14516912 TC
1 TC
14516914 CCTTCTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 7 0.30
11 10 0.43
12 6 0.26
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (11 bp):
TCTTTCCTTTT
Found at i:14518746 original size:20 final size:21
Alignment explanation
Indices: 14518721--14518763 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
14518711 ATTATTTTTA
* *
14518721 AATAAACTTATAAAA-CTTAT
1 AATAAAATAATAAAACCTTAT
14518741 AATAAAATAATAAAACCTTAT
1 AATAAAATAATAAAACCTTAT
14518762 AA
1 AA
14518764 ATATTTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.30
Consensus pattern (21 bp):
AATAAAATAATAAAACCTTAT
Found at i:14519393 original size:19 final size:20
Alignment explanation
Indices: 14519371--14519424 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
14519361 GTTTAAATGA
14519371 TTTTTATAATTTTTAATA-T
1 TTTTTATAATTTTTAATAGT
*
14519390 TTTTTAT-ATTGTTTATTAGT
1 TTTTTATAATT-TTTAATAGT
14519410 TTTTT-TAAGTTTTTA
1 TTTTTATAA-TTTTTA
14519425 TAGAATTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 3 0.10
19 14 0.47
20 11 0.37
21 2 0.07
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (20 bp):
TTTTTATAATTTTTAATAGT
Found at i:14523517 original size:22 final size:22
Alignment explanation
Indices: 14523491--14523532 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
14523481 GTATAAAAAA
14523491 ATATCAACGG-TATAGATTAATT
1 ATATCAACGGCTA-AGATTAATT
14523513 ATATCAACGGCTAAGATTAA
1 ATATCAACGGCTAAGATTAA
14523533 AAGGTATCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (22 bp):
ATATCAACGGCTAAGATTAATT
Found at i:14523576 original size:22 final size:21
Alignment explanation
Indices: 14523551--14523626 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 21
14523541 TACAAATTAA
*
14523551 ATCTCTAATATTGCAAAATCAT
1 ATCTCTAAGATTGC-AAATCAT
*
14523573 ATCTTCTAAGATTGCATATCAT
1 ATC-TCTAAGATTGCAAATCAT
* *
14523595 A--TCTAAGATTACATATCAT
1 ATCTCTAAGATTGCAAATCAT
14523614 A--TCTAAGATTGCA
1 ATCTCTAAGATTGCA
14523627 TATCCTTGAA
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
19 29 0.59
22 10 0.20
23 10 0.20
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.37
Consensus pattern (21 bp):
ATCTCTAAGATTGCAAATCAT
Found at i:14523586 original size:23 final size:22
Alignment explanation
Indices: 14523554--14523598 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
14523544 AAATTAAATC
*
14523554 TCTAATATTGCAAAATCATATCT
1 TCTAAGATTGC-AAATCATATCT
*
14523577 TCTAAGATTGCATATCATATCT
1 TCTAAGATTGCAAATCATATCT
14523599 AAGATTACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.40
Consensus pattern (22 bp):
TCTAAGATTGCAAATCATATCT
Found at i:14523601 original size:19 final size:19
Alignment explanation
Indices: 14523577--14523630 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
14523567 AATCATATCT
14523577 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
14523596 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
14523615 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
14523631 CTTGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:14524242 original size:45 final size:45
Alignment explanation
Indices: 14524143--14524648 Score: 241
Period size: 44 Copynumber: 11.6 Consensus size: 45
14524133 TTCTAATCCA
* * * * * * *
14524143 CTCCACTACAACTTTAGGGAGATGAGATTTG-TTTATTTAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTGAGTCTG
* * * *
14524187 CCCCACTGCAATTTCAGGGGGATAAGACTTGATTTCTTGAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTGAGTCTG
* * *
14524232 CTCCATTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGGGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTGAGTCTG
* * *
14524277 CTCCACTACAACTTCAGGGAGATAAGACCCGA-TGC--GA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTGAGTCTG
* * * * **
14524318 CT-CTCTGCAACTTCAGAGAGATAAGATCTGTGA-TT-TT-AATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-CGATTTCTTGAGTCTG
* * * * * * **
14524361 CTCCACTGCAATTTCAAGGAGATAGGA-T-TATTGGCTTTAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTCGATT-TCTTGAGTCTG
* *** *
14524405 CTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTGAGTCTG
* * * * * *
14524450 C-CTCACTACAAATTCA-GGAGGATAAGGCTTGCTTACTT-AGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTCGATTTCTTGAGTCTG
* * *
14524494 CTCCATTGCAACTTCAGGGAGATAAGACTAGA-TGC--GA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTGAGTCTG
* * * * * *
14524535 CT-CTCTACAACTTCAGAGAGATAAGA-TCTG-TTAT-TTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGACTC-GATT-TCTTGAGTCTG
* * * * * * * *
14524578 CTCCACTACGACTTTAGGGAGAT-AGAAT-TATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTCGATT-TCTTGAGTCTG
14524622 CTCCACTGCAACTTCAGGGAGATAAGA
1 CTCCACTGCAACTTCAGGGAGATAAGA
14524649 TTCGCCATCT
Statistics
Matches: 348, Mismatches: 85, Indels: 57
0.71 0.17 0.12
Matches are distributed among these distances:
39 1 0.00
40 44 0.13
41 14 0.04
42 8 0.02
43 18 0.05
44 147 0.42
45 116 0.33
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (45 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTGAGTCTG
Found at i:14524537 original size:217 final size:217
Alignment explanation
Indices: 14524272--14524665 Score: 664
Period size: 217 Copynumber: 1.8 Consensus size: 217
14524262 GCTTTCTTGG
* *
14524272 GTCTGCTCCACTACAACTTCAGGGAGATAAGACCCGATGCGATCTGCTCTCTGCAACTTCAGAGA
1 GTCTGCTCCACTACAACTTCAGGGAGATAAGACCAGATGCGATCTGCTCTCTACAACTTCAGAGA
* *
14524337 GATAAGATCTGTGATTTTAATCCACTCCACTGC-AATTTCAAGGAGATAGGATTATTGGCTTTAA
66 GATAAGATCTGTGATTTTAATCCACTCCACTACGAATTT-AAGGAGATAGAATTATTGGCTTTAA
14524401 CCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTACAAATTCA
130 CCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTACAAATTCA
14524466 GGAGGATAAGGCTTGCTTACTTA
195 GGAGGATAAGGCTTGCTTACTTA
* * *
14524489 GTCTGCTCCATTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTACAACTTCAGAGA
1 GTCTGCTCCACTACAACTTCAGGGAGATAAGACCAGATGCGATCTGCTCTCTACAACTTCAGAGA
* * * * *
14524554 GATAAGATCTGTTATTTTAATCCGCTCCACTACGACTTTAGGGAGATAGAATTATTGGCTTTAAT
66 GATAAGATCTGTGATTTTAATCCACTCCACTACGAATTTAAGGAGATAGAATTATTGGCTTTAAC
14524619 CTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCT
131 CTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCT
14524666 TTTAAATTGC
Statistics
Matches: 164, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
217 160 0.98
218 4 0.02
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (217 bp):
GTCTGCTCCACTACAACTTCAGGGAGATAAGACCAGATGCGATCTGCTCTCTACAACTTCAGAGA
GATAAGATCTGTGATTTTAATCCACTCCACTACGAATTTAAGGAGATAGAATTATTGGCTTTAAC
CTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTACAAATTCAG
GAGGATAAGGCTTGCTTACTTA
Found at i:14531923 original size:12 final size:12
Alignment explanation
Indices: 14531908--14531977 Score: 65
Period size: 12 Copynumber: 6.0 Consensus size: 12
14531898 AATATGTATG
*
14531908 TATATAAATGTA
1 TATATAAATATA
14531920 TATATAAATATA
1 TATATAAATATA
14531932 TATAT--ATATA
1 TATATAAATATA
*
14531942 TATATAAAGA-A
1 TATATAAATATA
* * *
14531953 AATGTAAGTATA
1 TATATAAATATA
14531965 TATATAAACTATA
1 TATATAAA-TATA
14531978 AAAACAATAT
Statistics
Matches: 45, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
10 10 0.22
11 7 0.16
12 24 0.53
13 4 0.09
ACGTcount: A:0.54, C:0.01, G:0.06, T:0.39
Consensus pattern (12 bp):
TATATAAATATA
Found at i:14531966 original size:2 final size:2
Alignment explanation
Indices: 14531879--14531947 Score: 57
Period size: 2 Copynumber: 34.5 Consensus size: 2
14531869 AACCATGAAG
* * * * * * * *
14531879 AT AT AT AT AT AT GT GT AA AA AT AT GT AT GT AT AT AA AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
14531921 AT AT AA AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
14531948 AAGAAAATGT
Statistics
Matches: 53, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.43
Consensus pattern (2 bp):
AT
Found at i:14532035 original size:3 final size:3
Alignment explanation
Indices: 14532027--14532078 Score: 54
Period size: 3 Copynumber: 18.0 Consensus size: 3
14532017 ATGCATGGTT
* * * *
14532027 ATA ATA ATA ATT ATT ATA ATA ATA ATA ATA AT- TTA A-A ACA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14532073 ATA ATA
1 ATA ATA
14532079 GTGTAAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
2 3 0.07
3 39 0.93
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:14532085 original size:22 final size:22
Alignment explanation
Indices: 14532027--14532086 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
14532017 ATGCATGGTT
** *
14532027 ATAATAATAAT-TATTATAATA
1 ATAATAATAATGTAAAACAATA
*
14532048 ATAATAATAATTTAAAACAATA
1 ATAATAATAATGTAAAACAATA
*
14532070 ATAATAATAGTGTAAAA
1 ATAATAATAATGTAAAA
14532087 ATAACAGAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
21 11 0.33
22 22 0.67
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (22 bp):
ATAATAATAATGTAAAACAATA
Found at i:14533610 original size:42 final size:41
Alignment explanation
Indices: 14533504--14533610 Score: 117
Period size: 42 Copynumber: 2.6 Consensus size: 41
14533494 CTTCAGTCTA
* * *
14533504 CTCCGCTGCAACCTCAGGGAGATAAGACTGCATGCGATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGACTGCATGCAATCCG
* ** **
14533545 CTCTACTGCAACTTCAGAAAGATAAGATCTG-ATTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CTGCA-TGCAATCCG
14533587 CTCCACTGCAACTTCAGGGAGATA
1 CTCCACTGCAACTTCAGGGAGATA
14533611 GGATTATTTT
Statistics
Matches: 53, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
41 23 0.43
42 30 0.57
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (41 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTGCATGCAATCCG
Found at i:14533750 original size:50 final size:50
Alignment explanation
Indices: 14533632--14534032 Score: 257
Period size: 50 Copynumber: 8.0 Consensus size: 50
14533622 TTCAATTTGC
* * * * *
14533632 TTAACTGCAATGTC-GAGGAAACAAGATTCGTCGTTGTGACTTCAATTTGT
1 TTAACTGCAATGTCAG-GGAAACAAGATCCGCCGTTGTGGCTTCAATCTAT
** * **** ** * *
14533682 TCCACTACACCACCAGGGAGGCAAGATTCGCCATTGTGGCTTCAATCTAT
1 TTAACTGCAATGTCAGGGAAACAAGATCCGCCGTTGTGGCTTCAATCTAT
* * * *
14533732 TTAACTGCAATGTTAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTAT
1 TTAACTGCAATGTCAGGGAAACAAGATCCGCCGTTGTGGCTTCAATCTAT
** ** * ** * *
14533782 TCCACTGCACCGCCAGGGAAGTAAGATCAGCCGTTGTGGCTTCAATCTTT
1 TTAACTGCAATGTCAGGGAAACAAGATCCGCCGTTGTGGCTTCAATCTAT
* * * *
14533832 TTAATTGCAATGTCGGGGAAACTAGATCCGCCGTTGTGGCTTCAATCTGT
1 TTAACTGCAATGTCAGGGAAACAAGATCCGCCGTTGTGGCTTCAATCTAT
** * * * * * * *
14533882 TCCACTACAACGCCAGGGAAATAAGATCCGCCGTTGTGGCTTTAATATTT
1 TTAACTGCAATGTCAGGGAAACAAGATCCGCCGTTGTGGCTTCAATCTAT
* * * * * * * *
14533932 TTAATTGCAATATCGGGGAAACCAGATCTGCTGTTGTAGCTTCAATCTGT
1 TTAACTGCAATGTCAGGGAAACAAGATCCGCCGTTGTGGCTTCAATCTAT
** * ** **
14533982 TCCACTACACCG-CTAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTAT
1 TTAACTGCAATGTC-AGGGAAACAAGATCCGCCGTTGTGGCTTCAATCTAT
14534032 T
1 T
14534033 CTACTGTAAT
Statistics
Matches: 252, Mismatches: 97, Indels: 4
0.71 0.27 0.01
Matches are distributed among these distances:
49 1 0.00
50 250 0.99
51 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.29
Consensus pattern (50 bp):
TTAACTGCAATGTCAGGGAAACAAGATCCGCCGTTGTGGCTTCAATCTAT
Found at i:14533775 original size:100 final size:100
Alignment explanation
Indices: 14533632--14534032 Score: 516
Period size: 100 Copynumber: 4.0 Consensus size: 100
14533622 TTCAATTTGC
* * * * * *
14533632 TTAACTGCAATGTCGAGGAAACAAGATTCGTCGTTGT-GACTTCAATTTGTTCCACTACACCACC
1 TTAACTGCAATGTCGGGGAAACCAGATCCGCCGTTGTAG-CTTCAATCTGTTCCACTACACCGCC
* * * *
14533696 AGGGAGGCAAGATTCGCCATTGTGGCTTCAATCTAT
65 AGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTAT
** * * *
14533732 TTAACTGCAATGTTAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTATTCCACTGCACCGCCA
1 TTAACTGCAATGTCGGGGAAACCAGATCCGCCGTTGTAGCTTCAATCTGTTCCACTACACCGCCA
* *
14533797 GGGAAGTAAGATCAGCCGTTGTGGCTTCAATCTTT
66 GGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTAT
* * * *
14533832 TTAATTGCAATGTCGGGGAAACTAGATCCGCCGTTGTGGCTTCAATCTGTTCCACTACAACGCCA
1 TTAACTGCAATGTCGGGGAAACCAGATCCGCCGTTGTAGCTTCAATCTGTTCCACTACACCGCCA
* * * *
14533897 GGGAAATAAGATCCGCCGTTGTGGCTTTAATATTT
66 GGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTAT
* * * * *
14533932 TTAATTGCAATATCGGGGAAACCAGATCTGCTGTTGTAGCTTCAATCTGTTCCACTACACCGCTA
1 TTAACTGCAATGTCGGGGAAACCAGATCCGCCGTTGTAGCTTCAATCTGTTCCACTACACCGCCA
14533997 GGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTAT
66 GGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTAT
14534032 T
1 T
14534033 CTACTGTAAT
Statistics
Matches: 259, Mismatches: 41, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
100 258 1.00
101 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.29
Consensus pattern (100 bp):
TTAACTGCAATGTCGGGGAAACCAGATCCGCCGTTGTAGCTTCAATCTGTTCCACTACACCGCCA
GGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTAT
Found at i:14535597 original size:13 final size:13
Alignment explanation
Indices: 14535581--14535618 Score: 67
Period size: 13 Copynumber: 2.8 Consensus size: 13
14535571 CCATTTTTAC
14535581 TTTTTCATTTTCA
1 TTTTTCATTTTCA
14535594 TTTTTCATTTTCA
1 TTTTTCATTTTCA
14535607 TCTTTTCATTTT
1 T-TTTTCATTTT
14535619 TTCACATCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 14 0.58
14 10 0.42
ACGTcount: A:0.13, C:0.16, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTTCATTTTCA
Found at i:14535622 original size:8 final size:7
Alignment explanation
Indices: 14535572--14535619 Score: 57
Period size: 7 Copynumber: 7.0 Consensus size: 7
14535562 TTAGCCTCTC
14535572 CATTTTT
1 CATTTTT
14535579 -ACTTTTT
1 CA-TTTTT
14535586 CA-TTTT
1 CATTTTT
14535592 CATTTTT
1 CATTTTT
14535599 CA-TTTT
1 CATTTTT
14535605 CATCTTTT
1 CAT-TTTT
14535613 CATTTTT
1 CATTTTT
14535620 TCACATCACT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
6 13 0.36
7 15 0.42
8 8 0.22
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:14540860 original size:12 final size:12
Alignment explanation
Indices: 14540845--14540914 Score: 65
Period size: 12 Copynumber: 6.0 Consensus size: 12
14540835 AATATGTATG
*
14540845 TATATAAATGTA
1 TATATAAATATA
14540857 TATATAAATATA
1 TATATAAATATA
14540869 TATAT--ATATA
1 TATATAAATATA
*
14540879 TATATAAAGA-A
1 TATATAAATATA
* * *
14540890 AATGTAAGTATA
1 TATATAAATATA
14540902 TATATAAACTATA
1 TATATAAA-TATA
14540915 AAAACAATAT
Statistics
Matches: 45, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
10 10 0.22
11 7 0.16
12 24 0.53
13 4 0.09
ACGTcount: A:0.54, C:0.01, G:0.06, T:0.39
Consensus pattern (12 bp):
TATATAAATATA
Found at i:14540903 original size:2 final size:2
Alignment explanation
Indices: 14540816--14540884 Score: 57
Period size: 2 Copynumber: 34.5 Consensus size: 2
14540806 AACCATGAAG
* * * * * * * *
14540816 AT AT AT AT AT AT GT GT AA AA AT AT GT AT GT AT AT AA AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
14540858 AT AT AA AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
14540885 AAGAAAATGT
Statistics
Matches: 53, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.43
Consensus pattern (2 bp):
AT
Found at i:14540972 original size:3 final size:3
Alignment explanation
Indices: 14540964--14541018 Score: 51
Period size: 3 Copynumber: 19.0 Consensus size: 3
14540954 ATGCATGGTT
* * * * *
14540964 ATA ATA ATA ATT ATT ATA GTA ATA ATA ATA AT- TTA A-A ACA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14541010 ATA ATA ATA
1 ATA ATA ATA
14541019 GTGTAAAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
2 3 0.07
3 40 0.93
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:14541663 original size:15 final size:16
Alignment explanation
Indices: 14541643--14541679 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
14541633 TTTTATGCAT
*
14541643 AAAAAT-ATAAACATA
1 AAAAATGATAAACACA
14541658 AAAAATGATAAACACA
1 AAAAATGATAAACACA
14541674 AAAAAT
1 AAAAAT
14541680 CACCTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.73, C:0.08, G:0.03, T:0.16
Consensus pattern (16 bp):
AAAAATGATAAACACA
Found at i:14542486 original size:108 final size:107
Alignment explanation
Indices: 14542317--14542758 Score: 602
Period size: 108 Copynumber: 4.2 Consensus size: 107
14542307 GGCACCAGAG
* * * * ***
14542317 TACGAAAAAAGT-AAAAAAAAATTTTGAGG-GCTGGCCTGTTAATGGCTGGCACCCAGTATAGTA
1 TACGAAAAAAGTAAAAAAAAAAATTTG-GGTGCTGGCTTGTCAATCGCCAACACCCAG-ATAGTA
** * *
14542380 AAAAATTATTTTACTTTTTTTCGTGTCAGTATCAGGTATCAGTA
64 AAATTTTTTTTTACTTTTTTTCGTGTTAGTATCAGGTATCAGTA
14542424 TACGAAAAAAGTAAAAAAAAAAATTTGGGTGCTGGCTTGTCAATCGCCAACACCCAGGATAGTAA
1 TACGAAAAAAGTAAAAAAAAAAATTTGGGTGCTGGCTTGTCAATCGCCAACACCCA-GATAGTAA
** *
14542489 TTTTTTTTTTTACTTTTTTTCTTGTTAGTATCAGGTATCAGTA
65 AATTTTTTTTTACTTTTTTTCGTGTTAGTATCAGGTATCAGTA
14542532 TACGAAAAAAGTAAAAAAAAAAATTTGGGTGCTGGCTTGTCAATCGCC--CA--C----AGT--A
1 TACGAAAAAAGTAAAAAAAAAAATTTGGGTGCTGGCTTGTCAATCGCCAACACCCAGATAGTAAA
14542587 ATTTTTTTTTACTTTTTTTTCGTGTTAGTATCAGGTATCAGTA
66 ATTTTTTTTTAC-TTTTTTTCGTGTTAGTATCAGGTATCAGTA
14542630 TACGAAAAAAGTAAAAAAAAAAATTTGGGTGCTGGCTTGTCAATCGCCAACACCCAGCATAGTAA
1 TACGAAAAAAGTAAAAAAAAAAATTTGGGTGCTGGCTTGTCAATCGCCAACACCCAG-ATAGTAA
** *
14542695 TTTTTTTTTTTACTTTTTTTCTTGTTAGTATCAGGTATCAGTA
65 AATTTTTTTTTACTTTTTTTCGTGTTAGTATCAGGTATCAGTA
14542738 TACGAAAAAAGTAAAAAAAAA
1 TACGAAAAAAGTAAAAAAAAA
14542759 TTTGTGTCAT
Statistics
Matches: 300, Mismatches: 20, Indels: 29
0.86 0.06 0.08
Matches are distributed among these distances:
97 11 0.04
98 77 0.26
99 3 0.01
100 2 0.01
102 1 0.00
104 1 0.00
106 2 0.01
107 17 0.06
108 174 0.58
109 12 0.04
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (107 bp):
TACGAAAAAAGTAAAAAAAAAAATTTGGGTGCTGGCTTGTCAATCGCCAACACCCAGATAGTAAA
ATTTTTTTTTACTTTTTTTCGTGTTAGTATCAGGTATCAGTA
Found at i:14542638 original size:206 final size:205
Alignment explanation
Indices: 14542388--14542758 Score: 715
Period size: 206 Copynumber: 1.8 Consensus size: 205
14542378 TAAAAAATTA
14542388 TTTTACTTTTTTTCGTGTCAGTATCAGGTATCAGTATACGAAAAAAGTAAAAAAAAAAATTTGGG
1 TTTTACTTTTTTTCGTGTCAGTATCAGGTATCAGTATACGAAAAAAGTAAAAAAAAAAATTTGGG
*
14542453 TGCTGGCTTGTCAATCGCCAACACCCAGGATAGTAATTTTTTTTTTTACTTTTTTTCTTGTTAGT
66 TGCTGGCTTGTCAATCGCCAACACCCAGCATAGTAATTTTTTTTTTTACTTTTTTTCTTGTTAGT
14542518 ATCAGGTATCAGTATACGAAAAAAGTAAAAAAAAAAATTTGGGTGCTGGCTTGTCAATCGCCCAC
131 ATCAGGTATCAGTATACGAAAAAAGTAAAAAAAAAAATTTGGGTGCTGGCTTGTCAATCGCCCAC
14542583 AGTAATTTTT
196 AGTAATTTTT
*
14542593 TTTTACTTTTTTTTCGTGTTAGTATCAGGTATCAGTATACGAAAAAAGTAAAAAAAAAAATTTGG
1 TTTTAC-TTTTTTTCGTGTCAGTATCAGGTATCAGTATACGAAAAAAGTAAAAAAAAAAATTTGG
14542658 GTGCTGGCTTGTCAATCGCCAACACCCAGCATAGTAATTTTTTTTTTTACTTTTTTTCTTGTTAG
65 GTGCTGGCTTGTCAATCGCCAACACCCAGCATAGTAATTTTTTTTTTTACTTTTTTTCTTGTTAG
14542723 TATCAGGTATCAGTATACGAAAAAAGTAAAAAAAAA
130 TATCAGGTATCAGTATACGAAAAAAGTAAAAAAAAA
14542759 TTTGTGTCAT
Statistics
Matches: 163, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
205 6 0.04
206 157 0.96
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.37
Consensus pattern (205 bp):
TTTTACTTTTTTTCGTGTCAGTATCAGGTATCAGTATACGAAAAAAGTAAAAAAAAAAATTTGGG
TGCTGGCTTGTCAATCGCCAACACCCAGCATAGTAATTTTTTTTTTTACTTTTTTTCTTGTTAGT
ATCAGGTATCAGTATACGAAAAAAGTAAAAAAAAAAATTTGGGTGCTGGCTTGTCAATCGCCCAC
AGTAATTTTT
Found at i:14543154 original size:13 final size:13
Alignment explanation
Indices: 14543136--14543160 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14543126 GATCACGACA
14543136 ATTTTAATTTTTT
1 ATTTTAATTTTTT
14543149 ATTTTAATTTTT
1 ATTTTAATTTTT
14543161 ACTTTCTTAA
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
ATTTTAATTTTTT
Found at i:14543205 original size:17 final size:17
Alignment explanation
Indices: 14543185--14543218 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14543175 TATTATGTAA
14543185 ATATTTCTTTTATTTTT
1 ATATTTCTTTTATTTTT
* *
14543202 ATATTTTTTTTCTTTTT
1 ATATTTCTTTTATTTTT
14543219 TTAATATTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (17 bp):
ATATTTCTTTTATTTTT
Found at i:14543705 original size:108 final size:106
Alignment explanation
Indices: 14543483--14543828 Score: 464
Period size: 108 Copynumber: 3.2 Consensus size: 106
14543473 TTATAGATAT
*
14543483 AAATTTTTTTTTACTTTTTTCGTATATTGATACCTGATACTGACACGAAAAAAAGT--AAAAAAA
1 AAATTTTTTTTTACTTTTTTCGTATACTGATACCTGATACTGACACGAAAAAAAGTAAAAAAAAA
* * *
14543546 ATTTACTGTGCTGGGTGCTGGCCATTGACAGACCAGCAACA
66 ATTTACTGTGCTGGGTGCCGGCCATTGACAGGCCAGCACCA
* *
14543587 AAATTATTTTTTACTTTTTTCGTATACTGATACCTGATATTGACACGAAAAAAAGTAAAAAAAAA
1 AAATTTTTTTTTACTTTTTTCGTATACTGATACCTGATACTGACACGAAAAAAAGT--AAAAAAA
*
14543652 AAATTTACTGTGCTGGGTGCCGGCCATTGACAGGCCAGTACCA
64 AAATTTACTGTGCTGGGTGCCGGCCATTGACAGGCCAGCACCA
* * *
14543695 AATTTTTTTTTTTACTTTTTTTGTATACTGATACCTGATACTGACAC-AAAAAAAGTAAAAAAAC
1 AA-ATTTTTTTTTACTTTTTTCGTATACTGATACCTGATACTGACACGAAAAAAAGTAAAAAAAA
** * * *
14543759 TTTTTACTGTACTGGGTGCCGACCATTGACAGGCTAGCACCCAAA
65 AATTTACTGTGCTGGGTGCCGGCCATTGACAGGCCAGCA-CC--A
*
14543804 AAATTTTTTTTTCCTTCTTTTCGTA
1 AAATTTTTTTTTACTT-TTTTCGTA
14543829 CTGGGTGCCG
Statistics
Matches: 212, Mismatches: 21, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
104 53 0.25
106 40 0.19
107 2 0.01
108 67 0.32
109 50 0.24
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (106 bp):
AAATTTTTTTTTACTTTTTTCGTATACTGATACCTGATACTGACACGAAAAAAAGTAAAAAAAAA
ATTTACTGTGCTGGGTGCCGGCCATTGACAGGCCAGCACCA
Found at i:14543833 original size:59 final size:55
Alignment explanation
Indices: 14543767--14543879 Score: 172
Period size: 59 Copynumber: 2.0 Consensus size: 55
14543757 ACTTTTTACT
*
14543767 GTACTGGGTGCCGACCATTGACAGGCTAGCACCCAAAAAATTTTTTTTTCCTTCTTTTC
1 GTACTGGGTGCCGACCATTGACAGGCCAGCACCC--AAAA-TTTTTTTT-CTTCTTTTC
*
14543826 GTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTCTTCTTTT
1 GTACTGGGTGCCGACCATTGACAGGCCAGCACCCAAAATTTTTTTTCTTCTTTT
14543880 TTGTATATCA
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
55 8 0.15
56 8 0.15
57 4 0.08
59 32 0.62
ACGTcount: A:0.20, C:0.26, G:0.19, T:0.35
Consensus pattern (55 bp):
GTACTGGGTGCCGACCATTGACAGGCCAGCACCCAAAATTTTTTTTCTTCTTTTC
Found at i:14546428 original size:87 final size:87
Alignment explanation
Indices: 14546236--14546491 Score: 291
Period size: 87 Copynumber: 2.9 Consensus size: 87
14546226 AGATACCTCA
* * * * *
14546236 CTTTCTCAAGCATCGAGCCTTTCAAAGCTCTTGACATTTTCAGGTCACATG-CTTTTAAGGTATC
1 CTTT-TCAAGCGTCAAGCTTTTCAAAGCTCTTGACCTTTTCAGGTCACATGCCTATTAAGGTATC
* * *
14546300 GTATCTTTTAATATATACATTGC
65 ATATCTTTTAAGATACACATTGC
* * * *
14546323 CTTTTCAAGCGTCGAGCTTTTCAAAGCTCTTGACCTTTTTATGACACATGCCTATTAAGGTATCA
1 CTTTTCAAGCGTCAAGCTTTTCAAAGCTCTTGACCTTTTCAGGTCACATGCCTATTAAGGTATCA
14546388 TATCTTTTAAGATACACATTGC
66 TATCTTTTAAGATACACATTGC
* * * * * * *
14546410 CTTTTCACGCGTTAAGCTTTTTAAAGCT-TTTAGCCTTTTCAGGTCACGTACCTCTTAAGGTATC
1 CTTTTCAAGCGTCAAGCTTTTCAAAGCTCTTGA-CCTTTTCAGGTCACATGCCTATTAAGGTATC
* *
14546474 ATATCTCTCAAGATACAC
65 ATATCTTTTAAGATACAC
14546492 CTCGCCTTCT
Statistics
Matches: 144, Mismatches: 23, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
86 43 0.30
87 101 0.70
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (87 bp):
CTTTTCAAGCGTCAAGCTTTTCAAAGCTCTTGACCTTTTCAGGTCACATGCCTATTAAGGTATCA
TATCTTTTAAGATACACATTGC
Found at i:14546499 original size:87 final size:87
Alignment explanation
Indices: 14546272--14546581 Score: 255
Period size: 87 Copynumber: 3.6 Consensus size: 87
14546262 GCTCTTGACA
* * * * * * * * * * *
14546272 TTTTCAGGTCACAT-GCTTTTAAGGTATCGTATCTTTTAATATATACATTGCCTTTTCAAGCGTC
1 TTTTCAAGTCACATACCTCTTAAGGTATCATATCTCTTAAGATACACCTCGCCTTCTCAAGCGTT
* * *
14546336 GAGCTTTTCAAAGCTCTT-GACC
66 AAGCTTTTGAAAGCTGTTAG-CC
* * * * * * * * * *
14546358 TTTTTATGACACATGCCTATTAAGGTATCATATCTTTTAAGATACACATTGCCTTTTCACGCGTT
1 TTTTCAAGTCACATACCTCTTAAGGTATCATATCTCTTAAGATACACCTCGCCTTCTCAAGCGTT
* *
14546423 AAGCTTTTTAAAGCTTTTAGCC
66 AAGCTTTTGAAAGCTGTTAGCC
* * * * *
14546445 TTTTCAGGTCACGTACCTCTTAAGGTATCATATCTCTCAAGATACACCTCGCCTTCTGAAGTGTT
1 TTTTCAAGTCACATACCTCTTAAGGTATCATATCTCTTAAGATACACCTCGCCTTCTCAAGCGTT
* *
14546510 GAGCTTTTGAAAGCTGTTAGCT
66 AAGCTTTTGAAAGCTGTTAGCC
* * ** *
14546532 TTTTCAAGTCATATACCTTTTAAGGTATTGTGTCTCTTAAGATACACCTC
1 TTTTCAAGTCACATACCTCTTAAGGTATCATATCTCTTAAGATACACCTC
14546582 ATATCTTTTA
Statistics
Matches: 183, Mismatches: 39, Indels: 3
0.81 0.17 0.01
Matches are distributed among these distances:
86 11 0.06
87 171 0.93
88 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.40
Consensus pattern (87 bp):
TTTTCAAGTCACATACCTCTTAAGGTATCATATCTCTTAAGATACACCTCGCCTTCTCAAGCGTT
AAGCTTTTGAAAGCTGTTAGCC
Done.