Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 54 of 425
Found at i:14567357 original size:80 final size:80
Alignment explanation
Indices: 14567223--14567372 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
14567213 ATAATCACGT
*
14567223 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
14567287 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
14567303 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
14567366 CCCGGAT
64 CCCGGAT
14567373 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:14573561 original size:16 final size:16
Alignment explanation
Indices: 14573540--14573571 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14573530 TCATCGTAGC
14573540 ATAGATACATTTATAT
1 ATAGATACATTTATAT
*
14573556 ATAGATTCATTTATAT
1 ATAGATACATTTATAT
14573572 TAAAAGCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (16 bp):
ATAGATACATTTATAT
Found at i:14578448 original size:16 final size:17
Alignment explanation
Indices: 14578427--14578460 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
14578417 TTTACTTTAG
*
14578427 TTTTATCTTT-ATTATT
1 TTTTATATTTAATTATT
14578443 TTTTATATTTAATTATT
1 TTTTATATTTAATTATT
14578460 T
1 T
14578461 CATGTTGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTATATTTAATTATT
Found at i:14583387 original size:40 final size:40
Alignment explanation
Indices: 14583328--14583535 Score: 236
Period size: 40 Copynumber: 5.2 Consensus size: 40
14583318 CAATTGAATG
* * *
14583328 ATATCCGGGCTAAGTCCCGAAGACATTTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
14583368 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
14583408 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
14583448 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
14583488 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
14583528 ATATCCGG
1 ATATCCGG
14583536 TTGTAATCCG
Statistics
Matches: 145, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 145 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:14583466 original size:80 final size:80
Alignment explanation
Indices: 14583330--14583535 Score: 261
Period size: 80 Copynumber: 2.6 Consensus size: 80
14583320 ATTGAATGAT
* * * * * *
14583330 ATCCGGGCTAAGTCCCGAAGACATTTGTGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
*
14583395 TGTGCTAGT-GACTAC
66 TGTGCAAGTCG-CTAC
* * * *
14583410 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
* *
14583475 TGTGCAAGTCGTTAT
66 TGTGCAAGTCGCTAC
* *
14583490 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
14583536 TTGTAATCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
80 108 0.99
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
TGTGCAAGTCGCTAC
Found at i:14591407 original size:40 final size:40
Alignment explanation
Indices: 14591348--14591555 Score: 227
Period size: 40 Copynumber: 5.2 Consensus size: 40
14591338 CAATTGAATG
* * *
14591348 ATATCCGGGCTAAGTCCCGAAGACATTTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
14591388 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
14591428 ACATCTGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
14591468 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
14591508 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
14591548 ATATCCGG
1 ATATCCGG
14591556 TTGTAATCCG
Statistics
Matches: 143, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 143 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:14591488 original size:80 final size:80
Alignment explanation
Indices: 14591350--14591555 Score: 252
Period size: 80 Copynumber: 2.6 Consensus size: 80
14591340 ATTGAATGAT
* * * * * *
14591350 ATCCGGGCTAAGTCCCGAAGACATTTGTGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
*
14591415 TGTGCTAGT-GACTAC
66 TGTGCAAGTCG-CTAC
* * * * *
14591430 ATCTGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
* *
14591495 TGTGCAAGTCGTTAT
66 TGTGCAAGTCGCTAC
* *
14591510 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
14591556 TTGTAATCCG
Statistics
Matches: 107, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
80 106 0.99
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
TGTGCAAGTCGCTAC
Found at i:14594699 original size:27 final size:28
Alignment explanation
Indices: 14594639--14594729 Score: 103
Period size: 27 Copynumber: 3.2 Consensus size: 28
14594629 ATTGCATGAC
*
14594639 TATGAATGTGATTAGGCCTAACGGGCCA
1 TATGAATGTGATTGGGCCTAACGGGCCA
* *
14594667 TATGAAAGTGATTGGGCC-AATGGGCCA
1 TATGAATGTGATTGGGCCTAACGGGCCA
* * *
14594694 TATGAATGAGATTGGGCTTAAAGGGGCCA
1 TATGAATGTGATTGGGCCT-AACGGGCCA
*
14594723 AATGAAT
1 TATGAAT
14594730 AAGTATGGAT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
27 23 0.43
28 16 0.30
29 14 0.26
ACGTcount: A:0.32, C:0.13, G:0.31, T:0.24
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTAACGGGCCA
Found at i:14599365 original size:28 final size:27
Alignment explanation
Indices: 14599332--14599392 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
14599322 ATTGCATGAC
* *
14599332 TATGAATGTGATTATGCCTAACGGGCCA
1 TATGAAAGTGATTAGGCC-AACGGGCCA
* *
14599360 TATGAAAGTGATTGGGCCAATGGGCCA
1 TATGAAAGTGATTAGGCCAACGGGCCA
14599387 TATGAA
1 TATGAA
14599393 GATTGGGCCT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 14 0.48
28 15 0.52
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (27 bp):
TATGAAAGTGATTAGGCCAACGGGCCA
Found at i:14599417 original size:26 final size:24
Alignment explanation
Indices: 14599369--14599418 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
14599359 ATATGAAAGT
* *
14599369 GATTGGGCCAATGGGCCATATGAA
1 GATTGGGCCAAGGGGCCAAATGAA
14599393 GATTGGGCCTAAAGGGGCCAAATGAA
1 GATTGGGCC--AAGGGGCCAAATGAA
14599419 TAAGTATGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 9 0.41
26 13 0.59
ACGTcount: A:0.32, C:0.16, G:0.34, T:0.18
Consensus pattern (24 bp):
GATTGGGCCAAGGGGCCAAATGAA
Found at i:14601183 original size:45 final size:46
Alignment explanation
Indices: 14601020--14601194 Score: 216
Period size: 45 Copynumber: 3.8 Consensus size: 46
14601010 TGGTTGAGCA
*
14601020 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
14601066 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
14601111 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
14601159 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
14601195 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 37 0.33
46 29 0.26
47 29 0.26
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:14606178 original size:17 final size:18
Alignment explanation
Indices: 14606136--14606184 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
14606126 AGTTGAAAAG
14606136 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
14606155 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
14606172 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
14606185 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:14607073 original size:40 final size:40
Alignment explanation
Indices: 14607007--14607173 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
14606997 AAATTGAATG
* * *
14607007 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
14607046 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
14607086 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
14607126 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
14607166 ATATCCGG
1 ATATCCGG
14607174 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:14609115 original size:21 final size:22
Alignment explanation
Indices: 14609083--14609138 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
14609073 TGCAGGGCTC
*
14609083 ACACACCCGTGTGGT-CAAAGG
1 ACACGCCCGTGTGGTCCAAAGG
*
14609104 ACACGCCTGTGTGGTCCAAAGG
1 ACACGCCCGTGTGGTCCAAAGG
14609126 ACACGCCCGTGTG
1 ACACGCCCGTGTG
14609139 ACCTTGGGAC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
21 13 0.42
22 18 0.58
ACGTcount: A:0.23, C:0.30, G:0.30, T:0.16
Consensus pattern (22 bp):
ACACGCCCGTGTGGTCCAAAGG
Found at i:14610883 original size:20 final size:20
Alignment explanation
Indices: 14610858--14610903 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
14610848 CAGCACATGA
* *
14610858 TTTCATAAAATTTTATAATT
1 TTTCATAAAATTTTACAACT
*
14610878 TTTCATCAAATTTTACAACT
1 TTTCATAAAATTTTACAACT
14610898 TTTCAT
1 TTTCAT
14610904 TTTAGTCCCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.35, C:0.13, G:0.00, T:0.52
Consensus pattern (20 bp):
TTTCATAAAATTTTACAACT
Found at i:14619789 original size:13 final size:13
Alignment explanation
Indices: 14619767--14619799 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
14619757 AAGGGTTTAT
14619767 TTAT-TAAACTAA
1 TTATCTAAACTAA
14619779 TTATCTAAACTAA
1 TTATCTAAACTAA
*
14619792 TTAACTAA
1 TTATCTAA
14619800 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:14635279 original size:34 final size:34
Alignment explanation
Indices: 14635226--14635294 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
14635216 GCATGATTGA
* * *
14635226 TACTGATACTGAGATGGGCTAAGGCCCAA-ACTGT
1 TACTGATACTAAAAGGGGCTAAGG-CCAAGACTGT
*
14635260 TACTGATACTAAAAGGGGCTTAGGCCAAGACTGT
1 TACTGATACTAAAAGGGGCTAAGGCCAAGACTGT
14635294 T
1 T
14635295 TGACTGTGCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 4 0.13
34 26 0.87
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (34 bp):
TACTGATACTAAAAGGGGCTAAGGCCAAGACTGT
Found at i:14639066 original size:20 final size:20
Alignment explanation
Indices: 14639024--14639069 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
14639014 CAGCACATGA
*
14639024 TTTCATAAAATTTTAGAATT
1 TTTCATAAAATTTTAGAACT
*
14639044 TTTCATCAAATTTT-GAAACT
1 TTTCATAAAATTTTAG-AACT
14639064 TTTCAT
1 TTTCAT
14639070 TTTAGTCCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 1 0.04
20 22 0.96
ACGTcount: A:0.35, C:0.11, G:0.04, T:0.50
Consensus pattern (20 bp):
TTTCATAAAATTTTAGAACT
Found at i:14648302 original size:21 final size:21
Alignment explanation
Indices: 14648276--14648325 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
14648266 CTTCTCCCAT
14648276 GCCCGTGTGTTAGGGTACCAC
1 GCCCGTGTGTTAGGGTACCAC
* **
14648297 GCCCGTATGTTAGGGTACCGG
1 GCCCGTGTGTTAGGGTACCAC
14648318 GCCCGTGT
1 GCCCGTGT
14648326 ATTATTGTCC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.12, C:0.28, G:0.36, T:0.24
Consensus pattern (21 bp):
GCCCGTGTGTTAGGGTACCAC
Found at i:14663930 original size:21 final size:22
Alignment explanation
Indices: 14663904--14663944 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
14663894 CTTCTTCTTC
14663904 TTTTCTTTC-TCTTCTTTTGAG
1 TTTTCTTTCTTCTTCTTTTGAG
*
14663925 TTTTCTTTCTTTTTCTTTTG
1 TTTTCTTTCTTCTTCTTTTG
14663945 TGGTTGATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.02, C:0.17, G:0.07, T:0.73
Consensus pattern (22 bp):
TTTTCTTTCTTCTTCTTTTGAG
Found at i:14668180 original size:128 final size:128
Alignment explanation
Indices: 14667947--14668336 Score: 577
Period size: 128 Copynumber: 3.0 Consensus size: 128
14667937 ATAGAAAAAT
* * *
14667947 CAAGGGGCTCCTTACTATTAGAAATAGAGAGGCATTTAATCTCCATTTCATTCATCCCTCACTCA
1 CAAGAGGCTCCTCACTATTAGAAATAGAGAGGCATTTGATCTCCATTTCATTCATCCCTCACTCA
* * *
14668012 CCATCTCTTCTCCATTTTCTCTCTTATTTCACTTCCCTTTTTCCATTCTTCAATA-AGTGTTTG
66 CCATCTTTTCTCCCTTTTCTCTCTTCTTTCACTTCCCTTTTTCCATTCTTCAA-AGAGTGTTTG
* * * *
14668075 CAAGAGGCTCCTCACTATTACAAATAAAGAGACATTTGATCTCTATTTCATTCATCCCTCACTCA
1 CAAGAGGCTCCTCACTATTAGAAATAGAGAGGCATTTGATCTCCATTTCATTCATCCCTCACTCA
*
14668140 CCATCTTTTCTCCCTTTTCTCTCTTCTTTCACTTCCCTTTTTTTCCATTCTTCAAAGTGTGTTTG
66 CCATCTTTTCTCCCTTTTCTCTCTTCTTTCACTTCCC--TTTTTCCATTCTTCAAAGAGTGTTTG
*
14668205 CAA-AGAGCTCCTCACTATTAGAAATAGAGAGGCATTTGATCTCCATTTCATTCATCCCTCATTC
1 CAAGAG-GCTCCTCACTATTAGAAATAGAGAGGCATTTGATCTCCATTTCATTCATCCCTCACTC
** * * *
14668269 AAGATCTTTTCTCCCTTTTCTCTCTTCTTTCACTTTCATTTTTCTATTCTTCAAAGAGTGTTTG
65 ACCATCTTTTCTCCCTTTTCTCTCTTCTTTCACTTCCCTTTTTCCATTCTTCAAAGAGTGTTTG
14668333 CAAG
1 CAAG
14668337 GCTTTGAGAG
Statistics
Matches: 235, Mismatches: 22, Indels: 9
0.88 0.08 0.03
Matches are distributed among these distances:
128 119 0.51
129 3 0.01
130 113 0.48
ACGTcount: A:0.22, C:0.27, G:0.09, T:0.41
Consensus pattern (128 bp):
CAAGAGGCTCCTCACTATTAGAAATAGAGAGGCATTTGATCTCCATTTCATTCATCCCTCACTCA
CCATCTTTTCTCCCTTTTCTCTCTTCTTTCACTTCCCTTTTTCCATTCTTCAAAGAGTGTTTG
Found at i:14674303 original size:220 final size:221
Alignment explanation
Indices: 14673907--14674314 Score: 619
Period size: 220 Copynumber: 1.9 Consensus size: 221
14673897 TCATGACAGG
* * *
14673907 TTTTAAATATTTATAATGAATCGTTCTTGAAACTAACTATTATCACGATGAAGGCAAGTGTACTT
1 TTTTAAATATTTATAATGAATCGTTCTCGAAACTAACTATTATCACAATGAAGGCAAGTGTACCT
*
14673972 ATCGAACAGTAGTATAGCTTTAGCAAGACCGGATTATCGAACCCAAAGGAACTAAAAGTACTAGT
66 ATCGAACAGTAGTATAGCTTTAGCAAGACCGGATTATCAAACCCAAAGGAACTAAAAGTACTAGT
* *
14674037 ATCAACTTTTTTTTATTATCCAGCCTAAAAAATAAAAGGGTTTTG-TTTATCTAACTAATAAACT
131 ATCAACTTTTTTTTATTATCCAGCCTAAAAAATAAAAGGATTTTGTTTTAACTAACTAATAAACT
14674101 AAATGATCGCTTGATTTCGTGATAGC
196 AAATGATCGCTTGATTTCGTGATAGC
* * *
14674127 TTTTAAATATTTATAATTAATCGTTCTCGAAACTAACTATTATCGCAATGTAGGCAAGTGTACCT
1 TTTTAAATATTTATAATGAATCGTTCTCGAAACTAACTATTATCACAATGAAGGCAAGTGTACCT
* *
14674192 ATCGAACAGTAGTATAGTTTTAGCAAGACCGGATTGTCAAACCCAAAGGAACTAAAAGTACTAGT
66 ATCGAACAGTAGTATAGCTTTAGCAAGACCGGATTATCAAACCCAAAGGAACTAAAAGTACTAGT
* * *
14674257 AAT-GA-TTGTCTTTTTATTATCTAGCCT-AAGAAT-AAAGAGATTTTGTTTTAACTAACTA
131 -ATCAACTT-T-TTTTTATTATCCAGCCTAAAAAATAAAAG-GATTTTGTTTTAACTAACTA
14674315 GTTATCTAAA
Statistics
Matches: 169, Mismatches: 14, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
219 6 0.04
220 134 0.79
221 29 0.17
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (221 bp):
TTTTAAATATTTATAATGAATCGTTCTCGAAACTAACTATTATCACAATGAAGGCAAGTGTACCT
ATCGAACAGTAGTATAGCTTTAGCAAGACCGGATTATCAAACCCAAAGGAACTAAAAGTACTAGT
ATCAACTTTTTTTTATTATCCAGCCTAAAAAATAAAAGGATTTTGTTTTAACTAACTAATAAACT
AAATGATCGCTTGATTTCGTGATAGC
Found at i:14682792 original size:40 final size:40
Alignment explanation
Indices: 14682690--14682801 Score: 134
Period size: 40 Copynumber: 2.8 Consensus size: 40
14682680 AAATTGAATG
* * * * *
14682690 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGAAACT
* ***
14682730 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGAAACT
*
14682770 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
14682802 ACATGCTTAT
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGAAACT
Found at i:14682813 original size:40 final size:41
Alignment explanation
Indices: 14682690--14682817 Score: 131
Period size: 40 Copynumber: 3.2 Consensus size: 41
14682680 AAATTGAATG
* * * **
14682690 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-G-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGCG-GCTT
*
14682730 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGC-T
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGCGGCTT
* *
14682770 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-A-CATGCTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGC-GGCTT
14682810 ATATCCGG
1 ATATCCGG
14682818 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
38 1 0.01
39 3 0.04
40 69 0.92
41 1 0.01
42 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGCGGCTT
Found at i:14684795 original size:19 final size:19
Alignment explanation
Indices: 14684771--14684808 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
14684761 AATGGTCATG
14684771 GTGGTTCGAGGAGTTTATA
1 GTGGTTCGAGGAGTTTATA
14684790 GTGGTTCGAGGAGTTTATA
1 GTGGTTCGAGGAGTTTATA
14684809 CTTCTCATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.05, G:0.37, T:0.37
Consensus pattern (19 bp):
GTGGTTCGAGGAGTTTATA
Found at i:14688760 original size:40 final size:39
Alignment explanation
Indices: 14688715--14688922 Score: 229
Period size: 40 Copynumber: 5.2 Consensus size: 39
14688705 CGGAATACAA
14688715 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
14688755 CCGGATTTAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
14688795 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* ** *
14688835 CCGGATGTAGTCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
** ** * *
14688875 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACGAATGCCTTCGGGTCTTAGC
14688915 CCGGATAT
1 CCGGATAT
14688923 CATTCAATTG
Statistics
Matches: 149, Mismatches: 16, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
39 3 0.02
40 144 0.97
41 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:14688862 original size:80 final size:80
Alignment explanation
Indices: 14688715--14688920 Score: 254
Period size: 80 Copynumber: 2.6 Consensus size: 80
14688705 CGGAATACAA
* * * *
14688715 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAACGACTTGCACGAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAACGACTAGCACGAATG
*
14688780 CCTTCGGGTCTTAGC
66 CCTTCGGGTCTTAAC
* *
14688795 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCAC-AAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTA-ACGACTAGCACGAA-
14688858 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTCTTAAC
** * ** * *
14688875 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
14688921 ATCATTCAAT
Statistics
Matches: 109, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
79 2 0.02
80 106 0.97
81 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAACGACTAGCACGAATG
CCTTCGGGTCTTAAC
Found at i:14696798 original size:40 final size:39
Alignment explanation
Indices: 14696753--14696961 Score: 222
Period size: 40 Copynumber: 5.2 Consensus size: 39
14696743 CGGAATACAA
14696753 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
14696793 CCGGATTTAACGACTTGCACGAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACG-AATGCCTTCGGGTCTTAGC
* *
14696834 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* ** *
14696874 CCGGATGTAGTCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
** ** * *
14696914 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACGAATGCCTTCGGGTCTTAGC
14696954 CCGGATAT
1 CCGGATAT
14696962 CATTCAATTG
Statistics
Matches: 149, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.02
40 105 0.70
41 41 0.28
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:14699504 original size:49 final size:51
Alignment explanation
Indices: 14699378--14699510 Score: 164
Period size: 51 Copynumber: 2.6 Consensus size: 51
14699368 TCTATTGTAA
* * * *
14699378 GGTCGCATGTGTAGCACTAAGTGTAGGCTACTATGTGTACCTGATAACTTC
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACATGATAACTTC
* * *
14699429 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-ATGGATAA-TT-
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAT-GATAACTTC
*
14699478 GGTCGCATGTGTAGTACTATGTGCAGGCTACTA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
14699511 TGCGTACCAG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
49 29 0.41
50 3 0.04
51 38 0.54
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (51 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACATGATAACTTC
Found at i:14699524 original size:49 final size:51
Alignment explanation
Indices: 14699378--14699525 Score: 174
Period size: 49 Copynumber: 2.9 Consensus size: 51
14699368 TCTATTGTAA
* * *
14699378 GGTCGCATGTGTAGCACTAAGTGTAGGCTACTATGTGTACCTGATAACTTC
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAACTTC
* * * * ***
14699429 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAATGGATAA-TT-
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAACTTC
* *
14699478 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAAC
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAAC
14699526 CTTGTCTACA
Statistics
Matches: 78, Mismatches: 18, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
49 38 0.49
50 2 0.03
51 38 0.49
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (51 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAACTTC
Found at i:14716389 original size:24 final size:24
Alignment explanation
Indices: 14716343--14716399 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
14716333 CAATTTTATC
14716343 TTTATTTATCTTCTTTAAGTACT-T
1 TTTATTT-TCTTCTTTAAGTACTAT
14716367 TTTATTTTCTTTCCTTTAA-TACTAT
1 TTTATTTTC-TT-CTTTAAGTACTAT
*
14716392 TTCATTTT
1 TTTATTTT
14716400 TAGGTTTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 2 0.07
24 13 0.45
25 14 0.48
ACGTcount: A:0.19, C:0.14, G:0.02, T:0.65
Consensus pattern (24 bp):
TTTATTTTCTTCTTTAAGTACTAT
Found at i:14726983 original size:43 final size:42
Alignment explanation
Indices: 14726934--14727102 Score: 162
Period size: 43 Copynumber: 4.0 Consensus size: 42
14726924 TAGGATTTCT
* *
14726934 GATATGTGTTCTCGTGTAAGACCACATCTGGGACATTGGCATC
1 GATATGTGAT-TCGTGTAAGACCACATCTAGGACATTGGCATC
** * *
14726977 GATATGTGATTACGTGTAAGACCATGTCTAGGACATCGACATC
1 GATATGTGATT-CGTGTAAGACCACATCTAGGACATTGGCATC
* * *
14727020 G-TATTTGATTCGTGTAAAACC-CTATCTAGGACAGTGGCATC
1 GATATGTGATTCGTGTAAGACCAC-ATCTAGGACATTGGCATC
* * * * *
14727061 GATATGTAATAGCATGTAAGACCACGTCTGGGACATTGGCAT
1 GATATGTGAT-TCGTGTAAGACCACATCTAGGACATTGGCAT
14727103 TGTACGATAT
Statistics
Matches: 100, Mismatches: 21, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
41 25 0.25
42 15 0.15
43 59 0.59
44 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (42 bp):
GATATGTGATTCGTGTAAGACCACATCTAGGACATTGGCATC
Found at i:14728897 original size:48 final size:47
Alignment explanation
Indices: 14728777--14728991 Score: 206
Period size: 46 Copynumber: 4.6 Consensus size: 47
14728767 GTGATTGTGT
*
14728777 GCTAGTGTAAAACATGTCTGGGACATGCATCGGCCA-C-A-ATATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-CATCGAGATATGA-A
* * *
14728823 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCGTCGAGATATTTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGATA-TGAA
* * * * * *
14728871 TCTAGTGTAAGCCATGTCTGGGACATGCATCAGCATTGAGACA-GGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGATATGAA
* * *
14728917 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGCGATA-GACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGATATG--AA
* * *
14728965 GCTAATGTAAGACCTATCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
14728992 GCGTCAGCTT
Statistics
Matches: 140, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
45 1 0.01
46 71 0.51
47 1 0.01
48 65 0.46
49 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.23
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGATATGAA
Found at i:14728974 original size:94 final size:94
Alignment explanation
Indices: 14728821--14728991 Score: 236
Period size: 94 Copynumber: 1.8 Consensus size: 94
14728811 CACAATATGA
* * *** * *
14728821 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCGTCGAGATATTTAATCTAGTGTAAG-CCA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATAGACAAGCTAATGTAAGACC-
*
14728885 TGTCTGGGACATGCATCAGCATTGAGACAG
65 TATCTGGGACATGCATCAGCATTGAGACAG
* *
14728915 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGCGATAGACAAGCTAATGTAAGACCT
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATAGACAAGCTAATGTAAGACCT
14728980 ATCTGGGACATG
66 ATCTGGGACATG
14728992 GCGTCAGCTT
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
94 64 0.97
95 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (94 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATAGACAAGCTAATGTAAGACCT
ATCTGGGACATGCATCAGCATTGAGACAG
Found at i:14731157 original size:2 final size:2
Alignment explanation
Indices: 14731150--14731175 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14731140 GTTGATGGAC
14731150 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
14731176 TTCAGTTGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14733221 original size:13 final size:13
Alignment explanation
Indices: 14733203--14733227 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14733193 GAAGTAATCG
14733203 CACACGGGCGTGC
1 CACACGGGCGTGC
14733216 CACACGGGCGTG
1 CACACGGGCGTG
14733228 TCCTTGCCGA
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:0.16, C:0.36, G:0.40, T:0.08
Consensus pattern (13 bp):
CACACGGGCGTGC
Found at i:14739370 original size:6 final size:6
Alignment explanation
Indices: 14739354--14739405 Score: 68
Period size: 6 Copynumber: 8.7 Consensus size: 6
14739344 TTTAATTCAA
* * * *
14739354 TTTTAT CTTTAT TTTTAT TTTTCT TTCTAC TTTTAT TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
14739402 TTTT
1 TTTT
14739406 TTAAGTTTTT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.13, C:0.08, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:14744377 original size:13 final size:13
Alignment explanation
Indices: 14744359--14744385 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14744349 GCTCGACAGG
14744359 GACACGCCCGTGT
1 GACACGCCCGTGT
14744372 GACACGCCCGTGT
1 GACACGCCCGTGT
14744385 G
1 G
14744386 CGATTGCTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:14748333 original size:17 final size:17
Alignment explanation
Indices: 14748311--14748343 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14748301 TACATCATAA
*
14748311 TTTAATCACTATGTTCC
1 TTTAATCACAATGTTCC
14748328 TTTAATCACAATGTTC
1 TTTAATCACAATGTTC
14748344 GGAACTAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.21, G:0.06, T:0.45
Consensus pattern (17 bp):
TTTAATCACAATGTTCC
Found at i:14749833 original size:27 final size:26
Alignment explanation
Indices: 14749770--14749842 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 26
14749760 TAATAGGGTT
*
14749770 TTCAATTCACATTTCAAT--TTCCAA
1 TTCAATACACATTTCAATCATTCCAA
*
14749794 AT-AATATCA-ATTTCAATCGATTCCAA
1 TTCAATA-CACATTTCAATC-ATTCCAA
14749820 TTCAATACACATTTCAATCATTC
1 TTCAATACACATTTCAATCATTC
14749843 TTATGTTTCA
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
23 11 0.28
24 3 0.08
26 13 0.32
27 13 0.32
ACGTcount: A:0.37, C:0.23, G:0.01, T:0.38
Consensus pattern (26 bp):
TTCAATACACATTTCAATCATTCCAA
Found at i:14756206 original size:46 final size:47
Alignment explanation
Indices: 14756078--14756336 Score: 225
Period size: 46 Copynumber: 5.5 Consensus size: 47
14756068 AGGCCGACAC
* * *
14756078 CATGTCCCAGACATAGTCTTACACTAGCTATCACATATCCGT-GCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCT-T-ACATCT-CGTAGCCGATG
* *
14756127 CCATGTCTCAGACATGGTCTTACACTGAC--ACATCTCGTAGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGTAGCCGATG
*
14756173 CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCG-AGGCCGATA
1 CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGTA-GCCGATG
* * * * *
14756219 CATGTCCCAGACAT-GTCTTACACTAG-TTCTCGTCTC-AATGCTGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTT-ACATCTCGTA-GCCGATG
* * *
14756265 CCATGTCCTAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCT-TACAT-CTCGTAGCCGATG
14756313 CATGTCCCAGACAT-GTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
14756337 AGCATACAAA
Statistics
Matches: 175, Mismatches: 22, Indels: 28
0.78 0.10 0.12
Matches are distributed among these distances:
44 12 0.07
45 19 0.11
46 72 0.41
47 26 0.15
48 19 0.11
49 2 0.01
50 25 0.14
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGTAGCCGATG
Found at i:14756285 original size:94 final size:92
Alignment explanation
Indices: 14756169--14756338 Score: 254
Period size: 94 Copynumber: 1.8 Consensus size: 92
14756159 TCTCGTAGCC
*
14756169 GATGCATGTCCCAGACATGTCTTACACTGGCT-TACAT-CTCGAGGCCGATACATGTCCCAGACA
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATAAT-GAGGCCGATACATGTCCCAGACA
14756232 TGTCTTACACTAGTTCTCGTCTCAATGCT
64 TGTCTTACACTAGTTCTCGTCTCAATGCT
* * *
14756261 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACA
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATAATGAGGCCGATACATGTCCCAGACA
14756326 TGTCTTACACTAG
64 TGTCTTACACTAG
14756339 CATACAAATA
Statistics
Matches: 70, Mismatches: 4, Indels: 6
0.88 0.05 0.08
Matches are distributed among these distances:
92 4 0.06
93 13 0.19
94 51 0.73
95 2 0.03
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGAGGCCGATACATGTCCCAGACATG
TCTTACACTAGTTCTCGTCTCAATGCT
Found at i:14756322 original size:140 final size:142
Alignment explanation
Indices: 14756067--14756336 Score: 363
Period size: 140 Copynumber: 1.9 Consensus size: 142
14756057 TATCGAAATT
**
14756067 GAGGCCGACACCATGTCCCAGACATAGTCTTACACTAGCTATCACATATCCGTGCCGATGCCATG
1 GAGGCCGACACCATGTCCCAGACATAGTCTTACACTAGCTATCACATATCAATGCCGATGCCATG
14756132 TCTCAGACATGGTCTTACACTGACACATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACT
66 TCTCAGACATGGTCTTACACTGACACATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACT
14756197 GGCTTACATCTC
131 GGCTTACATCTC
* * * * *
14756209 GAGGCCGATA-CATGTCCCAGACAT-GTCTTACACTAG-T-TCTCGTCTCAATGCTGATGCCATG
1 GAGGCCGACACCATGTCCCAGACATAGTCTTACACTAGCTATCACATATCAATGCCGATGCCATG
* * * *
14756270 TC-CTAGACATGGTCTTACACTGGCTC-TCATAATGTGGCCGATGCATGTCCCAGACATGTCTTA
66 TCTC-AGACATGGTCTTACACTGACACATC-T--CGTAGCCGATGCATGTCCCAGACATGTCTTA
14756333 CACT
127 CACT
14756337 AGCATACAAA
Statistics
Matches: 113, Mismatches: 11, Indels: 10
0.84 0.08 0.07
Matches are distributed among these distances:
137 3 0.03
138 41 0.36
139 1 0.01
140 45 0.40
141 14 0.12
142 9 0.08
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (142 bp):
GAGGCCGACACCATGTCCCAGACATAGTCTTACACTAGCTATCACATATCAATGCCGATGCCATG
TCTCAGACATGGTCTTACACTGACACATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACT
GGCTTACATCTC
Found at i:14758091 original size:20 final size:20
Alignment explanation
Indices: 14758066--14758104 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
14758056 GCGTTTACTC
14758066 TTTTTTTT-TCCATTTTGGCA
1 TTTTTTTTGT-CATTTTGGCA
14758086 TTTTTTTTGTCATTTTGGC
1 TTTTTTTTGTCATTTTGGC
14758105 TCTCAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.08, C:0.13, G:0.13, T:0.67
Consensus pattern (20 bp):
TTTTTTTTGTCATTTTGGCA
Found at i:14765453 original size:65 final size:65
Alignment explanation
Indices: 14765349--14765481 Score: 203
Period size: 65 Copynumber: 2.0 Consensus size: 65
14765339 TAAATAAACA
* * * *
14765349 AACAAACATGATCAGAAATTTATCTATTCTGTTCAATAATAATTCTCTTCCAATTTGCAACCATT
1 AACAAACATAATCAGAAATTTACCTATTCTGTTCAATAATAATCCTCCTCCAATTTGCAACCATT
* * *
14765414 AACAAACATAATCAGAAATTTACCTGTTCTGTTCAATAATAATCCTCCTCTAATTTGCAACCGTT
1 AACAAACATAATCAGAAATTTACCTATTCTGTTCAATAATAATCCTCCTCCAATTTGCAACCATT
14765479 AAC
1 AAC
14765482 TATTGGGGGT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
65 61 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.35
Consensus pattern (65 bp):
AACAAACATAATCAGAAATTTACCTATTCTGTTCAATAATAATCCTCCTCCAATTTGCAACCATT
Found at i:14768413 original size:17 final size:19
Alignment explanation
Indices: 14768391--14768426 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
14768381 ACTTAATTGT
14768391 TTTCATCT-TCTC-CTTCA
1 TTTCATCTCTCTCTCTTCA
14768408 TTTCATCTCTCTCTCTTCA
1 TTTCATCTCTCTCTCTTCA
14768427 ATAATAAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 4 0.24
19 5 0.29
ACGTcount: A:0.11, C:0.36, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTCATCTCTCTCTCTTCA
Found at i:14784755 original size:18 final size:18
Alignment explanation
Indices: 14784728--14784764 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
14784718 AGTAAAAATA
*
14784728 TAATAGAATAAAAAGAAT
1 TAATAAAATAAAAAGAAT
*
14784746 TAATAAAATAATAAGAAT
1 TAATAAAATAAAAAGAAT
14784764 T
1 T
14784765 TTATAACTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (18 bp):
TAATAAAATAAAAAGAAT
Found at i:14785329 original size:19 final size:19
Alignment explanation
Indices: 14785279--14785331 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
14785269 AGAATTTCAA
*
14785279 AAAAAAACAAAAAGAATTAT
1 AAAAATACAAAAA-AATTAT
* ** *
14785299 AAATATTTAAAAAAGTTAT
1 AAAAATACAAAAAAATTAT
14785318 AAAAATACAAAAAA
1 AAAAATACAAAAAA
14785332 TTCCCAAAAA
Statistics
Matches: 25, Mismatches: 8, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.72, C:0.04, G:0.04, T:0.21
Consensus pattern (19 bp):
AAAAATACAAAAAAATTAT
Found at i:14787303 original size:5 final size:5
Alignment explanation
Indices: 14787295--14787354 Score: 120
Period size: 5 Copynumber: 12.0 Consensus size: 5
14787285 TCTTTATGTT
14787295 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
14787345 TATAA TATAA
1 TATAA TATAA
14787355 CGTTATTTAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 55 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:14789116 original size:9 final size:9
Alignment explanation
Indices: 14789102--14789149 Score: 96
Period size: 9 Copynumber: 5.3 Consensus size: 9
14789092 TCTTCCCTAC
14789102 ATTCTTGAA
1 ATTCTTGAA
14789111 ATTCTTGAA
1 ATTCTTGAA
14789120 ATTCTTGAA
1 ATTCTTGAA
14789129 ATTCTTGAA
1 ATTCTTGAA
14789138 ATTCTTGAA
1 ATTCTTGAA
14789147 ATT
1 ATT
14789150 AAAGGCGAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 39 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.46
Consensus pattern (9 bp):
ATTCTTGAA
Found at i:14790675 original size:2 final size:2
Alignment explanation
Indices: 14790668--14790703 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
14790658 TCACTAGGCC
14790668 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14790704 CTCAAAACAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14791843 original size:42 final size:44
Alignment explanation
Indices: 14791743--14791901 Score: 154
Period size: 43 Copynumber: 3.7 Consensus size: 44
14791733 AGCTCGTACA
* *
14791743 ATGCCAACGTCCTAGAC-GTGGTCTTAC-C-TATAATCAAATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACACGTA-AATCAAATATCG
* * *
14791786 ATGTCACTGTCCCAGATAGGGTCTTACACG-AAATCAAATA-CG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGTAAATCAAATATCG
*
14791828 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCACAA-ATCG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGTAAATCA-AATATCG
*
14791872 ATGCCAACT-TCCCGGAC-GTGGTCTTACACG
1 ATGCCAA-TGTCCCAGACAG-GGTCTTACACG
14791902 GTAATACATA
Statistics
Matches: 97, Mismatches: 11, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
42 28 0.29
43 36 0.37
44 32 0.33
45 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (44 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACGTAAATCAAATATCG
Found at i:14799455 original size:15 final size:15
Alignment explanation
Indices: 14799435--14799480 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 15
14799425 ACTAACCATT
14799435 AATTCAATTAATTAA
1 AATTCAATTAATTAA
* *
14799450 AATTC-ATCAAATAA
1 AATTCAATTAATTAA
14799464 AATTCAA-T-ATTAA
1 AATTCAATTAATTAA
14799477 AATT
1 AATT
14799481 ATTATTGACT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 8 0.31
14 12 0.46
15 6 0.23
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (15 bp):
AATTCAATTAATTAA
Found at i:14805660 original size:16 final size:16
Alignment explanation
Indices: 14805631--14805665 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
14805621 TTTTAAAAAC
* *
14805631 TTTTATAATGCTAATA
1 TTTTAAAATACTAATA
14805647 TTTTAAAATACTAATA
1 TTTTAAAATACTAATA
14805663 TTT
1 TTT
14805666 ATGATTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.51
Consensus pattern (16 bp):
TTTTAAAATACTAATA
Found at i:14827534 original size:36 final size:36
Alignment explanation
Indices: 14827492--14827569 Score: 147
Period size: 36 Copynumber: 2.2 Consensus size: 36
14827482 AGAAATTTAA
14827492 TCTTTTGATGCCATCCTTTACTTTATTGTTTTTCAT
1 TCTTTTGATGCCATCCTTTACTTTATTGTTTTTCAT
*
14827528 TCTTTTGATGCCATCCTTTACTTTGTTGTTTTTCAT
1 TCTTTTGATGCCATCCTTTACTTTATTGTTTTTCAT
14827564 TCTTTT
1 TCTTTT
14827570 CATTCTTGTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.12, C:0.19, G:0.09, T:0.60
Consensus pattern (36 bp):
TCTTTTGATGCCATCCTTTACTTTATTGTTTTTCAT
Found at i:14830445 original size:31 final size:31
Alignment explanation
Indices: 14830410--14830477 Score: 127
Period size: 31 Copynumber: 2.2 Consensus size: 31
14830400 TTAATATGAG
14830410 TTAATACAAAACATCTATTATTTTAACTGTA
1 TTAATACAAAACATCTATTATTTTAACTGTA
*
14830441 TTAATACAAAACATCTATTGTTTTAACTGTA
1 TTAATACAAAACATCTATTATTTTAACTGTA
14830472 TTAATA
1 TTAATA
14830478 TGATTTTATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.41, C:0.12, G:0.04, T:0.43
Consensus pattern (31 bp):
TTAATACAAAACATCTATTATTTTAACTGTA
Found at i:14834034 original size:14 final size:15
Alignment explanation
Indices: 14834015--14834043 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
14834005 ATTTAACCTT
14834015 ATTTTAAT-ATAAAA
1 ATTTTAATCATAAAA
14834029 ATTTTAATCATAAAA
1 ATTTTAATCATAAAA
14834044 CTTAATAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTTTAATCATAAAA
Found at i:14835132 original size:15 final size:15
Alignment explanation
Indices: 14835112--14835146 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
14835102 AAGATTAACT
14835112 AGTTAAGGTTAATTA
1 AGTTAAGGTTAATTA
*
14835127 AGTTAAGTTTAATTA
1 AGTTAAGGTTAATTA
14835142 A-TTAA
1 AGTTAA
14835147 ATATTAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (15 bp):
AGTTAAGGTTAATTA
Found at i:14836176 original size:37 final size:37
Alignment explanation
Indices: 14836109--14836184 Score: 100
Period size: 38 Copynumber: 2.1 Consensus size: 37
14836099 CCTTGTAATA
* *
14836109 TCCCTTAAGATTTCTACCCCAAATCATAAGATTACAAC
1 TCCCTTAAGATTTCTACCCCAAACCATAAGACT-CAAC
* *
14836147 TCCCTTAAGGTTTCTA-CCCAAACCTTAAGACTCAAC
1 TCCCTTAAGATTTCTACCCCAAACCATAAGACTCAAC
14836183 TC
1 TC
14836185 TCTCAAAGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 6 0.18
37 13 0.38
38 15 0.44
ACGTcount: A:0.33, C:0.32, G:0.07, T:0.29
Consensus pattern (37 bp):
TCCCTTAAGATTTCTACCCCAAACCATAAGACTCAAC
Found at i:14838453 original size:2 final size:2
Alignment explanation
Indices: 14838446--14838475 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14838436 TGGGGTAAAA
14838446 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14838476 TATGGTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14839177 original size:14 final size:16
Alignment explanation
Indices: 14839151--14839182 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
14839141 GAATAAGAAC
14839151 AAGTACAATAAT-AGA
1 AAGTACAATAATAAGA
14839166 AAGTAC-ATAATAAGA
1 AAGTACAATAATAAGA
14839181 AA
1 AA
14839183 TAATTCAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.62, C:0.06, G:0.12, T:0.19
Consensus pattern (16 bp):
AAGTACAATAATAAGA
Found at i:14840137 original size:5 final size:5
Alignment explanation
Indices: 14840129--14840165 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
14840119 AAGTAAAAGA
14840129 AAAAT AAAA- AAACA- AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAA-AT AAAAT AAAAT AAAAT AAAAT AAA
14840166 TGAACTCAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.84, C:0.03, G:0.00, T:0.14
Consensus pattern (5 bp):
AAAAT
Found at i:14840140 original size:14 final size:13
Alignment explanation
Indices: 14840123--14840165 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
14840113 AAAAACAAGT
*
14840123 AAAAGAAAAATAA
1 AAAAAAAAAATAA
14840136 AAAAACAAAAATAA
1 AAAAA-AAAAATAA
14840150 AATAAAATAAAATAA
1 AA-AAAA-AAAATAA
14840165 A
1 A
14840166 TGAACTCAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 4 0.15
14 11 0.42
15 11 0.42
ACGTcount: A:0.84, C:0.02, G:0.02, T:0.12
Consensus pattern (13 bp):
AAAAAAAAAATAA
Found at i:14840146 original size:15 final size:14
Alignment explanation
Indices: 14840128--14840165 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
14840118 CAAGTAAAAG
14840128 AAAAATAAAA-AAA
1 AAAAATAAAATAAA
14840141 CAAAAATAAAATAAA
1 -AAAAATAAAATAAA
14840156 ATAAAATAAA
1 A-AAAATAAA
14840166 TGAACTCAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.84, C:0.03, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAAATAAAATAAA
Found at i:14850870 original size:29 final size:29
Alignment explanation
Indices: 14850825--14850897 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
14850815 ATTATTATTA
* *
14850825 TTATTTTTTTTAT-TTTTT-ATTTAC-TT
1 TTATTTTATTTATCTTTTTAAATTACTTT
14850851 TTATCTTTATTTATCTTTTTAAATTACTTT
1 TTAT-TTTATTTATCTTTTTAAATTACTTT
*
14850881 TTATTTTATTTCTCTTT
1 TTATTTTATTTATCTTT
14850898 AATACTATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
26 4 0.10
27 8 0.20
28 5 0.12
29 17 0.43
30 6 0.15
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (29 bp):
TTATTTTATTTATCTTTTTAAATTACTTT
Found at i:14861068 original size:33 final size:33
Alignment explanation
Indices: 14861025--14861132 Score: 126
Period size: 33 Copynumber: 3.3 Consensus size: 33
14861015 TGAATAACAC
* * * *
14861025 AGTATAAGTACAATCTGGGCGAAAGCTCTATTT
1 AGTATCAGTACAGTCTGGGCGAAAGCCCTATAT
**
14861058 AGTATCAGTACAGTCTGGGCTTAAGCCCTATAT
1 AGTATCAGTACAGTCTGGGCGAAAGCCCTATAT
** *
14861091 AGTATCAGTACAGTCTGGGCCTAAGCCCTATAC
1 AGTATCAGTACAGTCTGGGCGAAAGCCCTATAT
*
14861124 AGTAGCAGT
1 AGTATCAGT
14861133 GTGGGCCTAA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 66 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (33 bp):
AGTATCAGTACAGTCTGGGCGAAAGCCCTATAT
Found at i:14861137 original size:28 final size:27
Alignment explanation
Indices: 14861063--14861155 Score: 87
Period size: 28 Copynumber: 3.2 Consensus size: 27
14861053 TATTTAGTAT
*
14861063 CAGTACAGTCTGGGCTTAAGCCCTATATAGTA
1 CAGTACAGTCTGGGCCTAAGCCC---A-A-TA
*
14861095 TCAGTACAGTCTGGGCCTAAGCCCTATA
1 -CAGTACAGTCTGGGCCTAAGCCCAATA
* *
14861123 CAGTAGCAGTGTGGGCCTAAGCCCAATG
1 CAGTA-CAGTCTGGGCCTAAGCCCAATA
14861151 CAGTA
1 CAGTA
14861156 ACAATATAGT
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
27 5 0.09
28 26 0.48
29 1 0.02
33 22 0.41
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.24
Consensus pattern (27 bp):
CAGTACAGTCTGGGCCTAAGCCCAATA
Found at i:14861298 original size:23 final size:25
Alignment explanation
Indices: 14861272--14861322 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
14861262 CCAGTACACC
14861272 AATATCGCAGCAAAGCTGCCAGAAAT
1 AATA-CGCAGCAAAGCTGCCAGAAAT
* *
14861298 AATGATGCAGCATAGCTGCCAGAAA
1 AAT-ACGCAGCAAAGCTGCCAGAAA
14861323 CAGTAATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 21 0.95
27 1 0.05
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.16
Consensus pattern (25 bp):
AATACGCAGCAAAGCTGCCAGAAAT
Found at i:14861546 original size:27 final size:27
Alignment explanation
Indices: 14861516--14861595 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 27
14861506 GGGCATAATC
*
14861516 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGCATTACG
* *
14861543 GTCACTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCATACAGGGGCATTACG
* *
14861570 GTCTTTTTACC-TATTAGGGGCATTAC
1 GTCATTTTACCATA-CAGGGGCATTAC
14861596 AGTGTTTTGG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
26 2 0.04
27 44 0.96
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGCATTACG
Found at i:14861645 original size:27 final size:27
Alignment explanation
Indices: 14861615--14861691 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
14861605 GTAAATCTAT
*
14861615 AAACCAAGGGTATTTCAGTAA-TTATGC
1 AAACCAAGGGTATTTCAGTAATTTA-GA
*
14861642 AAACCAATGGTATTTCTA-TAATTTAGA
1 AAACCAAGGGTATTTC-AGTAATTTAGA
* *
14861669 AAATCAAGGGTATTTCTGTAATT
1 AAACCAAGGGTATTTCAGTAATT
14861692 GTAATAGTCC
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
27 38 0.90
28 4 0.10
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.35
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTAGA
Found at i:14863348 original size:68 final size:67
Alignment explanation
Indices: 14863275--14863424 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
14863265 CATCATGTGT
* * * *
14863275 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
14863337 ATGTAG
62 ATGTAG
** * *
14863343 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
14863408 AG
66 AG
14863410 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
14863425 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:14863380 original size:64 final size:64
Alignment explanation
Indices: 14863299--14863478 Score: 186
Period size: 67 Copynumber: 2.8 Consensus size: 64
14863289 AGACATTATG
* *
14863299 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
14863363 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
14863428 AA
63 AA
* * * *
14863430 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGA
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGA
14863479 CAGCCGAACT
Statistics
Matches: 94, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 15 0.16
64 21 0.22
65 8 0.09
66 16 0.17
67 31 0.33
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:14864575 original size:2 final size:2
Alignment explanation
Indices: 14864568--14864600 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
14864558 TCATGACATG
14864568 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14864601 GACTAGTCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14865332 original size:27 final size:27
Alignment explanation
Indices: 14865285--14865521 Score: 167
Period size: 27 Copynumber: 8.9 Consensus size: 27
14865275 GTAATTATGT
*
14865285 AAATT-AGGGTATTTCTA-TAATTTTCC
1 AAATTAAGGGTATTTC-AGTAATTTTAC
*
14865311 AAATTAAGGGTATTTCAGTAATTTTCC
1 AAATTAAGGGTATTTCAGTAATTTTAC
* **
14865338 AAATTAGGGGTATTTTGGTAATTTTAC
1 AAATTAAGGGTATTTCAGTAATTTTAC
*
14865365 AAATTAAGGGTATTTCAATAATTTTAC
1 AAATTAAGGGTATTTCAGTAATTTTAC
* * * *
14865392 AAGTCAGGGGTATTTC-GATAATTTTAT
1 AAATTAAGGGTATTTCAG-TAATTTTAC
** * * *
14865419 AGGTTGAGGGTATTTCGGTAATTTCAC
1 AAATTAAGGGTATTTCAGTAATTTTAC
** * ** *
14865446 AAACCAGGGGTATTTTGGTAATTTTAG
1 AAATTAAGGGTATTTCAGTAATTTTAC
* * ** **
14865473 AAACTAATGGTATTTTGGTAATTTTGT
1 AAATTAAGGGTATTTCAGTAATTTTAC
**
14865500 AAACCAAGGGTA-TTCAGTAATT
1 AAATTAAGGGTATTTCAGTAATT
14865522 CTACCCTACA
Statistics
Matches: 170, Mismatches: 37, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
26 14 0.08
27 155 0.91
28 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (27 bp):
AAATTAAGGGTATTTCAGTAATTTTAC
Found at i:14865430 original size:81 final size:80
Alignment explanation
Indices: 14865285--14865448 Score: 188
Period size: 81 Copynumber: 2.0 Consensus size: 80
14865275 GTAATTATGT
* * * *
14865285 AAATTAGGGTATTTCTATAATTTTCCAAATTAAGGGTATTTCAGTAATTTTCCAAATTAGGGGTA
1 AAATTAGGGTATTTCAATAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAAATTAGGGGTA
* *
14865350 TTTTGGTAATTTTAC
66 TTTCGGTAATTTCAC
* * * **
14865365 AAATTAAGGGTATTTCAATAATTTTACAAGTCAGGGGTATTTC-GATAATTTTATAGGTT-GAGG
1 AAATT-AGGGTATTTCAATAATTTTACAAATCAAGGGTATTTCAG-TAATTTTACAAATTAG-GG
14865428 GTATTTCGGTAATTTCAC
63 GTATTTCGGTAATTTCAC
14865446 AAA
1 AAA
14865449 CCAGGGGTAT
Statistics
Matches: 70, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
80 7 0.10
81 63 0.90
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (80 bp):
AAATTAGGGTATTTCAATAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAAATTAGGGGTA
TTTCGGTAATTTCAC
Found at i:14865504 original size:54 final size:54
Alignment explanation
Indices: 14865302--14865513 Score: 217
Period size: 54 Copynumber: 3.9 Consensus size: 54
14865292 GGTATTTCTA
* * * **
14865302 TAATTTTCCAAATTAAGGGTATTTCAGTAATTTTCCAAATTAGGGGTATTTTGG
1 TAATTTTACAAATTAAGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTGG
** ** * *
14865356 TAATTTTACAAATTAAGGGTATTTCAATAATTTTACAAGTCAGGGGTATTTCGA
1 TAATTTTACAAATTAAGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTGG
* ** * *
14865410 TAATTTTATAGGTTGAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTTGG
1 TAATTTTACAAATTAAGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTGG
* * * * ** *
14865464 TAATTTTAGAAACTAATGGTATTTTGGTAATTTTGTAAACCAAGGGTATT
1 TAATTTTACAAATTAAGGGTATTTCGGTAATTTTACAAACCAGGGGTATT
14865514 CAGTAATTCT
Statistics
Matches: 129, Mismatches: 29, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 129 1.00
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (54 bp):
TAATTTTACAAATTAAGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTGG
Found at i:14865553 original size:27 final size:27
Alignment explanation
Indices: 14865511--14865586 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
14865501 AACCAAGGGT
*
14865511 ATTCAGTAATTCTACCCTACATGGGCA
1 ATTCAGTAATTCTACCCTACAGGGGCA
* * *
14865538 TTTTAGTAATTCTACCCTATAGGGGCA
1 ATTCAGTAATTCTACCCTACAGGGGCA
* *
14865565 ATTCAGTAATACTAACCTACAG
1 ATTCAGTAATTCTACCCTACAG
14865587 AAATGAGATT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (27 bp):
ATTCAGTAATTCTACCCTACAGGGGCA
Found at i:14869983 original size:22 final size:22
Alignment explanation
Indices: 14869953--14870000 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
14869943 TCATTTAATC
*
14869953 ATTA-TTATTCAGTATCAGTCA
1 ATTATTTATTCAGTAACAGTCA
*
14869974 TTTATTTATTCAGTAACAGTCA
1 ATTATTTATTCAGTAACAGTCA
14869996 ATTAT
1 ATTAT
14870001 AGCAGTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.46
Consensus pattern (22 bp):
ATTATTTATTCAGTAACAGTCA
Found at i:14871343 original size:3 final size:3
Alignment explanation
Indices: 14871271--14871331 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
14871261 TTTGTTTTAT
14871271 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14871319 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
14871332 CAACTTAATA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:14875798 original size:26 final size:25
Alignment explanation
Indices: 14875753--14875817 Score: 62
Period size: 26 Copynumber: 2.5 Consensus size: 25
14875743 AGAAATCTGA
14875753 CATCAATCATATAGTATTATCTCATG
1 CATCAATCATATAGTATTAT-TCATG
14875779 CATCAAT-ATATA-TAATTTATTCATG
1 CATCAATCATATAGT-A-TTATTCATG
*
14875804 TCATAAACTCATAT
1 -CATCAA-TCATAT
14875818 GCTAACACAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
24 1 0.03
25 11 0.33
26 16 0.48
27 1 0.03
28 4 0.12
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.40
Consensus pattern (25 bp):
CATCAATCATATAGTATTATTCATG
Found at i:14879225 original size:49 final size:49
Alignment explanation
Indices: 14879150--14879274 Score: 133
Period size: 49 Copynumber: 2.5 Consensus size: 49
14879140 GATACCGACG
* * * * *
14879150 CCATGTCCCAGACATGATCTTACACTGGCTTTCATATAGCTAGGCCGCTA
1 CCATGTCCCAAACA-GGTCTTACACTGGCTCTCATATAGCGAGGCCGATA
* * * ** *
14879200 CCATGTCCCAAACAGGTCTTACACTGGCTCTCATCTATCGATGTTGATG
1 CCATGTCCCAAACAGGTCTTACACTGGCTCTCATATAGCGAGGCCGATA
*
14879249 CCATGTTCCAAACAGGTCTTACACTG
1 CCATGTCCCAAACAGGTCTTACACTG
14879275 ACACACCACA
Statistics
Matches: 63, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
49 50 0.79
50 13 0.21
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.29
Consensus pattern (49 bp):
CCATGTCCCAAACAGGTCTTACACTGGCTCTCATATAGCGAGGCCGATA
Found at i:14879311 original size:44 final size:44
Alignment explanation
Indices: 14879248--14879449 Score: 314
Period size: 44 Copynumber: 4.6 Consensus size: 44
14879238 CGATGTTGAT
* * *
14879248 GCCATGTTCCAAACAGGTCTTACACTGACACACCACAACCTGAC
1 GCCATGTCCCAGACAGGTCTTACACTGACACACCACAAGCTGAC
* *
14879292 GCCATGTCCCAAACAGGTCTTACACTGACACACCACAAGCTAAC
1 GCCATGTCCCAGACAGGTCTTACACTGACACACCACAAGCTGAC
* *
14879336 ACCATGTCCCAGACAGGTCTTACACTGACACACCACAAGTTGAC
1 GCCATGTCCCAGACAGGTCTTACACTGACACACCACAAGCTGAC
* *
14879380 ACCATGTCCCAGACAGGTCTTACACTGACACACTACAAGCTGAC
1 GCCATGTCCCAGACAGGTCTTACACTGACACACCACAAGCTGAC
*
14879424 GCCATGTCCCAGACATGTCTTACACT
1 GCCATGTCCCAGACAGGTCTTACACT
14879450 AGCTCTCGTC
Statistics
Matches: 147, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 147 1.00
ACGTcount: A:0.31, C:0.35, G:0.15, T:0.19
Consensus pattern (44 bp):
GCCATGTCCCAGACAGGTCTTACACTGACACACCACAAGCTGAC
Found at i:14881025 original size:19 final size:19
Alignment explanation
Indices: 14881001--14881040 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
14880991 TTCATGTGAG
14881001 TTTAATTCTTGCCTTTTTC
1 TTTAATTCTTGCCTTTTTC
14881020 TTTAATTCTTGCCTTTTTC
1 TTTAATTCTTGCCTTTTTC
14881039 TT
1 TT
14881041 GAAATTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.10, C:0.20, G:0.05, T:0.65
Consensus pattern (19 bp):
TTTAATTCTTGCCTTTTTC
Found at i:14881157 original size:20 final size:23
Alignment explanation
Indices: 14881132--14881172 Score: 61
Period size: 20 Copynumber: 1.9 Consensus size: 23
14881122 AAAATTACCA
14881132 TTTATGA-AT-AC-TGGATTTTT
1 TTTATGACATAACATGGATTTTT
14881152 TTTATGACATAACATGGATTT
1 TTTATGACATAACATGGATTT
14881173 AGAGCTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 2 0.11
22 2 0.11
23 7 0.39
ACGTcount: A:0.29, C:0.07, G:0.15, T:0.49
Consensus pattern (23 bp):
TTTATGACATAACATGGATTTTT
Found at i:14885506 original size:46 final size:46
Alignment explanation
Indices: 14885456--14885631 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
14885446 TGGTTGAGCA
14885456 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
14885502 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
14885547 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
14885595 -CTCGAGCTCGTTGATTTGAGTCCGAGTTCGCTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
14885632 GCGAGTTACA
Statistics
Matches: 110, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 4 0.04
46 62 0.56
47 30 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:14885614 original size:93 final size:93
Alignment explanation
Indices: 14885453--14885623 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
14885443 GGATGGTTGA
*
14885453 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
14885518 TGAGTCCGAGTTCATGAAATGTAACTAG
66 TGAGTCCGAGTTCATGAAATGTAACTAG
* *
14885546 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CTCGAGCTCGTTGAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTC-CGAACTCGTTGAG
14885610 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
14885624 GCTTATGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 1 0.01
93 73 0.99
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCATGAAATGTAACTAG
Found at i:14896145 original size:17 final size:18
Alignment explanation
Indices: 14896123--14896158 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
14896113 CACATTAAAG
14896123 TGTTTT-ATCGAAAACCT
1 TGTTTTAATCGAAAACCT
*
14896140 TGTTTTAATTGAAAACCT
1 TGTTTTAATCGAAAACCT
14896158 T
1 T
14896159 TCTTTAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (18 bp):
TGTTTTAATCGAAAACCT
Found at i:14897470 original size:29 final size:28
Alignment explanation
Indices: 14897404--14897477 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
14897394 AAGTCTACAT
* *
14897404 ACATGCATATGGCCCACTAGGCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
*
14897432 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCC-AATC
*
14897461 ACATTCATATGACCCAT
1 ACATTCATATGGCCCAT
14897478 CCAGCTTGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 21 0.52
29 19 0.47
ACGTcount: A:0.30, C:0.32, G:0.14, T:0.24
Consensus pattern (28 bp):
ACATTCATATGGCCCATTAGGCCCAATC
Found at i:14903935 original size:25 final size:26
Alignment explanation
Indices: 14903881--14903937 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
14903871 TTTTGGGCTG
* * * *
14903881 TTTATTGTTTTTGTTTTTTTATTATT
1 TTTATTATTTTGGTTTTTTTATAATA
14903907 TTTATTATTTTGGTTTTTTT-TAATA
1 TTTATTATTTTGGTTTTTTTATAATA
14903932 TTTATT
1 TTTATT
14903938 TTGGTTTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
25 9 0.33
26 18 0.67
ACGTcount: A:0.16, C:0.00, G:0.07, T:0.77
Consensus pattern (26 bp):
TTTATTATTTTGGTTTTTTTATAATA
Found at i:14904587 original size:43 final size:45
Alignment explanation
Indices: 14904516--14904787 Score: 119
Period size: 43 Copynumber: 6.2 Consensus size: 45
14904506 ACTATTTAGG
* **
14904516 GAGATAAGATCTTCAATTTTCAGTCTGCT-TCCTTGCTACCTCAG-
1 GAGATAAGATCTTCAATCTTCAACCTGCTCT-CTTGCTACCTCAGA
14904560 GAAGATAAGA-C-TCAATCTTCAACCTGCTCTCTTGCTACCTCAGA
1 G-AGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCAGA
* ***** * * * *
14904604 GAGATAAG-GCTTGGGGATTAAATCTGCTC-CAT--TACCGATACATA
1 GAGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACC--T-CAGA
* * * * * *
14904648 GAGATAAGAT-TTGCCATCTTCGATCTGCTC-C--GCTACTGTTTAGG
1 GAGATAAGATCTT-CAATCTTCAACCTGCTCTCTTGCTAC--CTCAGA
* **
14904692 GAGATAAGGTCTTCAATTCTT-AGTCTGCT-TCCTTGCTACCTCAG-
1 GAGATAAGATCTTCAA-TCTTCAACCTGCTCT-CTTGCTACCTCAGA
*
14904736 GAAGATAAGA-C-TCAATCTTCAACCTGCTCTCTTACTACCTCAGA
1 G-AGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCAGA
14904780 GAGATAAG
1 GAGATAAG
14904788 GCTTGGGGCT
Statistics
Matches: 170, Mismatches: 34, Indels: 49
0.67 0.13 0.19
Matches are distributed among these distances:
41 4 0.02
42 4 0.02
43 67 0.39
44 50 0.29
45 40 0.24
47 5 0.03
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (45 bp):
GAGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCAGA
Found at i:14904719 original size:176 final size:177
Alignment explanation
Indices: 14904179--14905219 Score: 1344
Period size: 176 Copynumber: 5.8 Consensus size: 177
14904169 AGATCTACAA
* * * *
14904179 TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAAT-TGCCAATCAGCTCTCTTGCTTC
1 TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACT-CAATCT-TCAACCTGCTCTCTTGCTAC
* * * * * * *
14904243 CTCAAAAAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCAATACATGGAGATAAGATTCGCC
64 CTCAGAGAGATAAGGCTTGGGGATTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCC
* ** *
14904308 -TCTTTTGATCTGCTCTACTACT-TCTTTGGGAGATAAGATCTTCAA-TCT
129 ATC-TTCGATCTGCTCCGCTACTAT-TTAGGGAGATAAGATCTTCAATTCT
* * * *
14904356 TCAGTCTGCTTTCTTGCTACCTCAGAAAGACAAGACTCAATCTTTAACCTGCTCTCTTGCTACCT
1 TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCT
* * ** *
14904421 CAGAGAGATAAGGCTAGTGGTACTTTAAATCTGCTCCATTGTTGATACATGGAGATAAGATTCAC
66 CAGAGAGATAAGGCTTG-GGGA--TTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGC
*
14904486 TATCTTCGATCTGCTCCGCTACTATTTAGGGAGATAAGATCTTCAATT-T
128 CATCTTCGATCTGCTCCGCTACTATTTAGGGAGATAAGATCTTCAATTCT
14904535 TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCT
1 TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCT
* * *
14904600 CAGAGAGATAAGGCTTGGGGATTAAATCTGCTCCATTACCGATACATAGAGATAAGATTTGCCAT
66 CAGAGAGATAAGGCTTGGGGATTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCAT
* *
14904665 CTTCGATCTGCTCCGCTACTGTTTAGGGAGATAAGGTCTTCAATTCT
131 CTTCGATCTGCTCCGCTACTATTTAGGGAGATAAGATCTTCAATTCT
*
14904712 T-AGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAATCTTCAACCTGCTCTCTTACTACCT
1 TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCT
* * *
14904776 CAGAGAGATAAGGCTTGGGGCTTAAATCTGCTCCATTGTCGATACATGGAGATAAGATTTGCCAT
66 CAGAGAGATAAGGCTTGGGGATTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCAT
* *
14904841 CTTCGATCTGCTCCACTACTGTTTAGGGAGATAAGATCTTCAA-TCT
131 CTTCGATCTGCTCCGCTACTATTTAGGGAGATAAGATCTTCAATTCT
* * * *
14904887 TCAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTCAATATTTAACCTGCTCTCTTGCTACTT
1 TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCT
* *
14904952 CAGAAAGATAAGGCTTGGGGCATAAATCTGCTCATAAATCTGCTCCATTTCCGATACATGGAGAT
66 CAGAGAGATAAGGCTTGGGG-----A-----T--TAAATCTGCTCCATTGCCGATACATGGAGAT
* * *
14905017 AAGATTCGCCATCTTTGATCTGCTCTGCTACTATTTAGGGAGATAAGATCTTCAA-TAT
119 AAGATTCGCCATCTTCGATCTGCTCCGCTACTATTTAGGGAGATAAGATCTTCAATTCT
* * **
14905075 TCAGTCTACTTCTTTGCTACCTCAGGAAGATAAGACTACAATCGCCAACCTGCTCTCTTGCTACC
1 TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACT-CAATCTTCAACCTGCTCTCTTGCTACC
* * * *
14905140 TCAGAGAGATAAGGC-TGGTGGCTAAAATCTGCTCCATTGCTGATACATGGAGAAAAGATTCGCC
65 TCAGAGAGATAAGGCTTGG-GGATTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCC
*
14905204 ATCTTCGATCTACTCC
129 ATCTTCGATCTGCTCC
14905220 ACTGCAACTT
Statistics
Matches: 766, Mismatches: 75, Indels: 46
0.86 0.08 0.05
Matches are distributed among these distances:
175 4 0.01
176 357 0.47
177 88 0.11
178 3 0.00
179 151 0.20
180 4 0.01
186 1 0.00
188 120 0.16
189 38 0.05
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (177 bp):
TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCT
CAGAGAGATAAGGCTTGGGGATTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCAT
CTTCGATCTGCTCCGCTACTATTTAGGGAGATAAGATCTTCAATTCT
Found at i:14904918 original size:89 final size:87
Alignment explanation
Indices: 14904473--14904921 Score: 239
Period size: 89 Copynumber: 5.1 Consensus size: 87
14904463 TGATACATGG
** * * * *
14904473 AGATAAGATTCACTATCTTCGATCTGCTCCGCTACTATTTAGGGAGATAAGATCTTCAATTTTCA
1 AGATAAGATTTGCCATCTTCGATCTGCTCCACTACTGTTTAGGGAGATAAG-TCTTCAATCTT-A
14904538 GTCTGCTTCCTTGCTACCTCAGGA
64 GTCTGCTTCCTTGCTACCTCAGGA
* * * * * * * * * **
14904562 AGATAAGA-CT-CAATCTTCAACCTGCTCTCTTGCTAC--CTCAGAGAGATAAGGCTTGGGGAT-
1 AGATAAGATTTGCCATCTTCGATCTGCTC-C--ACTACTGTTTAGGGAGATAAGTCTT--CAATC
* * * *
14904622 TAAATCTGC-TCCAT--TACCGATACA-TA
61 TTAGTCTGCTTCCTTGCTACC--T-CAGGA
*
14904648 GAGATAAGATTTGCCATCTTCGATCTGCTCCGCTACTGTTTAGGGAGATAAGGTCTTCAATTCTT
1 -AGATAAGATTTGCCATCTTCGATCTGCTCCACTACTGTTTAGGGAGATAA-GTCTTCAA-TCTT
14904713 AGTCTGCTTCCTTGCTACCTCAGGA
63 AGTCTGCTTCCTTGCTACCTCAGGA
* * * * * * * * ****
14904738 AGATAAGA-CT-CAATCTTCAACCTGCTCTCTTACTAC--CTCAGAGAGATAAGGCTTGGGGCTT
1 AGATAAGATTTGCCATCTTCGATCTGCTC-C--ACTACTGTTTAGGGAGATAAGTCTTCAATCTT
* *
14904799 AAATCTGC-TCCATTG-T-CGATACATGG-
63 -AGTCTGCTTCC-TTGCTAC-CT-CA-GGA
14904825 AGATAAGATTTGCCATCTTCGATCTGCTCCACTACTGTTTAGGGAGATAAGATCTTCAATCTTCA
1 AGATAAGATTTGCCATCTTCGATCTGCTCCACTACTGTTTAGGGAGATAAG-TCTTCAATCTT-A
*
14904890 GTCTACTTCCTTGCTACCTCAGGA
64 GTCTGCTTCCTTGCTACCTCAGGA
14904914 AGATAAGA
1 AGATAAGA
14904922 CTCAATATTT
Statistics
Matches: 263, Mismatches: 60, Indels: 74
0.66 0.15 0.19
Matches are distributed among these distances:
84 4 0.02
85 1 0.00
86 24 0.09
87 71 0.27
88 55 0.21
89 83 0.32
90 20 0.08
91 1 0.00
92 4 0.02
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (87 bp):
AGATAAGATTTGCCATCTTCGATCTGCTCCACTACTGTTTAGGGAGATAAGTCTTCAATCTTAGT
CTGCTTCCTTGCTACCTCAGGA
Found at i:14904989 original size:12 final size:12
Alignment explanation
Indices: 14904972--14904996 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14904962 AGGCTTGGGG
14904972 CATAAATCTGCT
1 CATAAATCTGCT
14904984 CATAAATCTGCT
1 CATAAATCTGCT
14904996 C
1 C
14904997 CATTTCCGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (12 bp):
CATAAATCTGCT
Found at i:14906104 original size:21 final size:21
Alignment explanation
Indices: 14906078--14906121 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
14906068 TTGAAAAAGA
14906078 AAGAATAATTCAAAGATATCC
1 AAGAATAATTCAAAGATATCC
*
14906099 AAGAATAATTCAAAGCTATCC
1 AAGAATAATTCAAAGATATCC
14906120 AA
1 AA
14906122 TTTGTTGGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.52, C:0.16, G:0.09, T:0.23
Consensus pattern (21 bp):
AAGAATAATTCAAAGATATCC
Found at i:14906516 original size:61 final size:64
Alignment explanation
Indices: 14906364--14906525 Score: 181
Period size: 61 Copynumber: 2.6 Consensus size: 64
14906354 AATCCCCTTT
* ** * *
14906364 GGTCTCAAGGCGCCCTTTGCAGGTTTTCACCTTGGCCTCTCCATTTTTCCTTTTATTTTTATTGA
1 GGTCTCAAAGCGCCCTTTGTGGGTTTTCACTTTGG-CTCTCCATTTTTCCTTTTATTTTTATAGA
* ** *
14906429 -GTCTCAAAGTGCCCTTTGTGATTTTTCACTTTGGC-C-CC-TTTTTCCTTTTTTTTTTA-AGAA
1 GGTCTCAAAGCGCCCTTTGTGGGTTTTCACTTTGGCTCTCCATTTTTCCTTTTATTTTTATAG-A
*
14906489 GGTCTCAAAGCACCCTTTGTGGGTTTTCACTTTGGCT
1 GGTCTCAAAGCGCCCTTTGTGGGTTTTCACTTTGGCT
14906526 TCTTCCCCTC
Statistics
Matches: 81, Mismatches: 13, Indels: 9
0.79 0.13 0.09
Matches are distributed among these distances:
59 1 0.01
60 18 0.22
61 33 0.41
62 1 0.01
63 1 0.01
64 27 0.33
ACGTcount: A:0.14, C:0.24, G:0.17, T:0.45
Consensus pattern (64 bp):
GGTCTCAAAGCGCCCTTTGTGGGTTTTCACTTTGGCTCTCCATTTTTCCTTTTATTTTTATAGA
Found at i:14909620 original size:42 final size:42
Alignment explanation
Indices: 14909566--14909687 Score: 129
Period size: 42 Copynumber: 2.9 Consensus size: 42
14909556 AGCTCTCACA
* *
14909566 AGCTTCTATTTAACTCATATGAGTTTTC-GCTCAGCTCTATTG
1 AGCTTCTATTTAACTCTTATG-GTTTTCTACTCAGCTCTATTG
* * * *
14909608 AGCTTCTTTTTAACCCTTATGGGTTTCTATTCAGCTCTATTG
1 AGCTTCTATTTAACTCTTATGGTTTTCTACTCAGCTCTATTG
* * * * *
14909650 AGCTTCTCTTTATCTCTTATGGGTTTCTATTCAACTCT
1 AGCTTCTATTTAACTCTTATGGTTTTCTACTCAGCTCT
14909688 TACGAGCTTC
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
41 5 0.07
42 64 0.93
ACGTcount: A:0.18, C:0.22, G:0.13, T:0.47
Consensus pattern (42 bp):
AGCTTCTATTTAACTCTTATGGTTTTCTACTCAGCTCTATTG
Found at i:14909687 original size:21 final size:21
Alignment explanation
Indices: 14909623--14909689 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
14909613 CTTTTTAACC
*
14909623 CTTATGGGTTTCTATTCAGCT
1 CTTATGGGTTTCTATTCAACT
* * * * *
14909644 C-TATTGAGCTTCTCTTTATCT
1 CTTA-TGGGTTTCTATTCAACT
14909665 CTTATGGGTTTCTATTCAACT
1 CTTATGGGTTTCTATTCAACT
14909686 CTTA
1 CTTA
14909690 CGAGCTTCTG
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
20 2 0.06
21 30 0.88
22 2 0.06
ACGTcount: A:0.16, C:0.21, G:0.13, T:0.49
Consensus pattern (21 bp):
CTTATGGGTTTCTATTCAACT
Found at i:14909719 original size:42 final size:42
Alignment explanation
Indices: 14909600--14909711 Score: 136
Period size: 42 Copynumber: 2.7 Consensus size: 42
14909590 TTTCGCTCAG
* * *
14909600 CTCTATTGAGCTTCTTTTTAACCCTTATGGGTTTCTATTCAG
1 CTCTATCGAGCTTCTCTTTAACCCTTATGGGTTTCTATTCAA
* * *
14909642 CTCTATTGAGCTTCTCTTTATCTCTTATGGGTTTCTATTCAA
1 CTCTATCGAGCTTCTCTTTAACCCTTATGGGTTTCTATTCAA
* *
14909684 CTCT-TACGAGCTTCTGTTAAACCCTTAT
1 CTCTAT-CGAGCTTCTCTTTAACCCTTAT
14909712 ATGTTTCTGT
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
41 1 0.02
42 59 0.98
ACGTcount: A:0.18, C:0.23, G:0.12, T:0.46
Consensus pattern (42 bp):
CTCTATCGAGCTTCTCTTTAACCCTTATGGGTTTCTATTCAA
Found at i:14910288 original size:23 final size:24
Alignment explanation
Indices: 14910262--14910308 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
14910252 TGGTTAAGTG
14910262 ATGAAT-AGTT-TATAGGTATGTTA
1 ATGAATGAGTTGTATA-GTATGTTA
14910285 ATGAATGAGTTGGTATAGTATGTT
1 ATGAATGAGTT-GTATAGTATGTT
14910309 TGATATAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 6 0.29
24 4 0.19
25 7 0.33
26 4 0.19
ACGTcount: A:0.32, C:0.00, G:0.26, T:0.43
Consensus pattern (24 bp):
ATGAATGAGTTGTATAGTATGTTA
Found at i:14912068 original size:137 final size:139
Alignment explanation
Indices: 14911722--14912138 Score: 658
Period size: 137 Copynumber: 3.0 Consensus size: 139
14911712 CTATAAAGGT
* * * **
14911722 TTTGAGATATCAAGGTTGTATAAACTTTTTCATAAAATTAAGTCATTGAAATTGCTATGATAGGT
1 TTTGAGATATCAAGGTTGTATAGACTTGTTCATAAAATGAAGTGGTTGAAATTGCTATGATAGGT
* * *
14911787 TATTAGCTTGATGGATAGAATAGTATGGTTGATGAGATTATCGAGTAGTTGAACTTGTGATTATT
66 TATTAGCTTGATGGATAGAATAGTATGCTTGATGAGATTATCAAGTAGTTGAACTTGTGATTGTT
14911852 GAATTTGAATG
131 -AA-TTGAATG
*
14911863 TTTGAGATATCAAGGTTGTATAGACTTGTTCATAAAATGAAGTGGTTAAAATTGCTATGATAGGT
1 TTTGAGATATCAAGGTTGTATAGACTTGTTCATAAAATGAAGTGGTTGAAATTGCTATGATAGGT
* *
14911928 TATTAGCTTGATGGATAGAATAGCATGTTTGATGAGATTATCAAGTAGTTGAACTTGTGATTGTT
66 TATTAGCTTGATGGATAGAATAGTATGCTTGATGAGATTATCAAGTAGTTGAACTTGTGATTGTT
14911993 -A-TGAATG
131 AATTGAATG
*
14912000 TTTGAGATATCAAGGTTGTATAGACTTGTTCATAGAATGAAGTGGTTGAAATTGCTATGATAGGT
1 TTTGAGATATCAAGGTTGTATAGACTTGTTCATAAAATGAAGTGGTTGAAATTGCTATGATAGGT
* *
14912065 TATTAGCTTGATGGATGGAATAGTATGCTTGATAAGATTATCAAGTAGTTGAACTTGTGATTGTT
66 TATTAGCTTGATGGATAGAATAGTATGCTTGATGAGATTATCAAGTAGTTGAACTTGTGATTG-T
14912130 TAATATGAA
130 TAAT-TGAA
14912139 CTTAGTTTGA
Statistics
Matches: 256, Mismatches: 16, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
137 128 0.50
138 2 0.01
139 2 0.01
141 124 0.48
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.39
Consensus pattern (139 bp):
TTTGAGATATCAAGGTTGTATAGACTTGTTCATAAAATGAAGTGGTTGAAATTGCTATGATAGGT
TATTAGCTTGATGGATAGAATAGTATGCTTGATGAGATTATCAAGTAGTTGAACTTGTGATTGTT
AATTGAATG
Found at i:14913412 original size:28 final size:31
Alignment explanation
Indices: 14913354--14913413 Score: 72
Period size: 32 Copynumber: 2.0 Consensus size: 31
14913344 TATCTAGTTG
*
14913354 TTTATGACATAATTGAATGTTTGAATGATTTA
1 TTTATGACATAATTGAA-GTTTGAATAATTTA
*
14913386 TTTATGACATACTTG-A-TTTGAA-AATTTA
1 TTTATGACATAATTGAAGTTTGAATAATTTA
14913414 AAATTGTTGC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 5 0.19
29 6 0.23
31 1 0.04
32 14 0.54
ACGTcount: A:0.35, C:0.05, G:0.13, T:0.47
Consensus pattern (31 bp):
TTTATGACATAATTGAAGTTTGAATAATTTA
Found at i:14914768 original size:24 final size:23
Alignment explanation
Indices: 14914724--14914796 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 23
14914714 GAAACCTTAT
* * **
14914724 AATATATATAATTTATAAATATCT
1 AATATAAATATTTTAT-AATATAA
14914748 AATAATAAATATTTTATAATATAA
1 AAT-ATAAATATTTTATAATATAA
*
14914772 AATATGAATATTTTAATAATATAA
1 AATATAAATATTTT-ATAATATAA
14914796 A
1 A
14914797 TTAATCTACT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
23 10 0.24
24 21 0.50
25 11 0.26
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (23 bp):
AATATAAATATTTTATAATATAA
Found at i:14923772 original size:51 final size:49
Alignment explanation
Indices: 14923688--14923941 Score: 310
Period size: 49 Copynumber: 5.1 Consensus size: 49
14923678 GATCCCATCA
* * *
14923688 GAACAAAGTAAAAAGATAAAACTTCGATTGAAAATGGGTTCTCGGCTCG
1 GAACAAAGTAAAAAGATAAAACCTCGATCGAAAACGGGTTCTCGGCTCG
* *
14923737 GAACAAAGTAAAATGATATAAAACCTCGATCGAAAACGAGTTCTCGGCTCG
1 GAACAAAGTAAAA--AGATAAAACCTCGATCGAAAACGGGTTCTCGGCTCG
*
14923788 GAACAAAGTAAAAAGATAAAACCTCGATCGAAAACAGGTTCTCGGCTCG
1 GAACAAAGTAAAAAGATAAAACCTCGATCGAAAACGGGTTCTCGGCTCG
* * * * ** *
14923837 AAACGAAGTAAAATGATATAAAACCTCGATCGAAAATGAATTTTCGGCTCG
1 GAACAAAGTAAAA--AGATAAAACCTCGATCGAAAACGGGTTCTCGGCTCG
* * ** *
14923888 AAATAAAGTAAAAAGATAAAACCTAAATCGAAAACAGGTTCTCGGCTCG
1 GAACAAAGTAAAAAGATAAAACCTCGATCGAAAACGGGTTCTCGGCTCG
14923937 GAACA
1 GAACA
14923942 TGATAAAAGG
Statistics
Matches: 173, Mismatches: 28, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
49 88 0.51
51 85 0.49
ACGTcount: A:0.44, C:0.17, G:0.19, T:0.20
Consensus pattern (49 bp):
GAACAAAGTAAAAAGATAAAACCTCGATCGAAAACGGGTTCTCGGCTCG
Found at i:14923861 original size:100 final size:100
Alignment explanation
Indices: 14923688--14923941 Score: 382
Period size: 100 Copynumber: 2.5 Consensus size: 100
14923678 GATCCCATCA
* * ** *
14923688 GAACAAAGTAAAAAGATAAAACTTCGATTGAAAATGGGTTCTCGGCTCGGAACAAAGTAAAATGA
1 GAACAAAGTAAAAAGATAAAACCTCGATCGAAAACAGGTTCTCGGCTCGAAACAAAGTAAAATGA
*
14923753 TATAAAACCTCGATCGAAAACGAGTTCTCGGCTCG
66 TATAAAACCTCGATCGAAAACGAATTCTCGGCTCG
*
14923788 GAACAAAGTAAAAAGATAAAACCTCGATCGAAAACAGGTTCTCGGCTCGAAACGAAGTAAAATGA
1 GAACAAAGTAAAAAGATAAAACCTCGATCGAAAACAGGTTCTCGGCTCGAAACAAAGTAAAATGA
* *
14923853 TATAAAACCTCGATCGAAAATGAATTTTCGGCTCG
66 TATAAAACCTCGATCGAAAACGAATTCTCGGCTCG
* * ** *
14923888 AAATAAAGTAAAAAGATAAAACCTAAATCGAAAACAGGTTCTCGGCTCGGAACA
1 GAACAAAGTAAAAAGATAAAACCTCGATCGAAAACAGGTTCTCGGCTCGAAACA
14923942 TGATAAAAGG
Statistics
Matches: 139, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
100 139 1.00
ACGTcount: A:0.44, C:0.17, G:0.19, T:0.20
Consensus pattern (100 bp):
GAACAAAGTAAAAAGATAAAACCTCGATCGAAAACAGGTTCTCGGCTCGAAACAAAGTAAAATGA
TATAAAACCTCGATCGAAAACGAATTCTCGGCTCG
Found at i:14924194 original size:12 final size:12
Alignment explanation
Indices: 14924165--14924203 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
14924155 GAAGAAGAGA
14924165 GAAGAGAGAAGAG
1 GAAGAGAGAA-AG
14924178 AGAAGAGAGAAAG
1 -GAAGAGAGAAAG
*
14924191 GAAGAGGGAAAG
1 GAAGAGAGAAAG
14924203 G
1 G
14924204 GGGCAAAGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 12 0.50
13 2 0.08
14 10 0.42
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAAG
Found at i:14924200 original size:7 final size:7
Alignment explanation
Indices: 14924157--14924196 Score: 66
Period size: 7 Copynumber: 6.0 Consensus size: 7
14924147 AAATATGAGA
14924157 AGAAGAG
1 AGAAGAG
14924164 AGAAGAG
1 AGAAGAG
14924171 AGAAGAG
1 AGAAGAG
14924178 AGAAGAG
1 AGAAGAG
14924185 AGAA-AG
1 AGAAGAG
14924191 -GAAGAG
1 AGAAGAG
14924197 GGAAAGGGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 3 0.09
6 4 0.12
7 25 0.78
ACGTcount: A:0.57, C:0.00, G:0.42, T:0.00
Consensus pattern (7 bp):
AGAAGAG
Found at i:14925464 original size:3 final size:3
Alignment explanation
Indices: 14925456--14925492 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
14925446 AAGGTAAAGA
14925456 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
14925493 TATGTTGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:14930252 original size:2 final size:2
Alignment explanation
Indices: 14930245--14930308 Score: 78
Period size: 2 Copynumber: 32.0 Consensus size: 2
14930235 TTATTATAAC
14930245 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
* *
14930287 AGT TT AC AT AT A- AT AT AT AT AT
1 A-T AT AT AT AT AT AT AT AT AT AT
14930309 TACTCCTTAA
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
1 2 0.04
2 50 0.93
3 2 0.04
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:14933761 original size:26 final size:28
Alignment explanation
Indices: 14933718--14933773 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 28
14933708 AAATAAAAAT
*
14933718 ATTATCATAAATAAAAATA-TTAT-TTA
1 ATTATCATAAAGAAAAATATTTATCTTA
* *
14933744 ATTATCATTAAGATAAATATTTATCTTA
1 ATTATCATAAAGAAAAATATTTATCTTA
14933772 AT
1 AT
14933774 ATTTAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 16 0.64
27 4 0.16
28 5 0.20
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (28 bp):
ATTATCATAAAGAAAAATATTTATCTTA
Found at i:14933826 original size:23 final size:24
Alignment explanation
Indices: 14933785--14933829 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
14933775 TTTAAATTTG
**
14933785 TTATCATTAATTTTTTTTAAAAAA
1 TTATCATTAATTTAATTTAAAAAA
14933809 TTATCA-TAATTTAATTTAAAA
1 TTATCATTAATTTAATTTAAAA
14933830 TTATTTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (24 bp):
TTATCATTAATTTAATTTAAAAAA
Found at i:14935458 original size:23 final size:22
Alignment explanation
Indices: 14935408--14935450 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
14935398 TATTTTCATT
14935408 TAAAT-TTAATTATAAAAATATG
1 TAAATATTAA-TATAAAAATATG
14935430 TAAATATTAATATAAAAATAT
1 TAAATATTAATATAAAAATAT
14935451 TTTTAATACT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
TAAATATTAATATAAAAATATG
Found at i:14935772 original size:18 final size:19
Alignment explanation
Indices: 14935749--14935785 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
14935739 AAACTTTTTT
*
14935749 CTTTTACTTTCCC-AAAAA
1 CTTTTACTTCCCCTAAAAA
14935767 CTTTTACTTCCCCTAAAAA
1 CTTTTACTTCCCCTAAAAA
14935786 AAAATTACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.32, C:0.30, G:0.00, T:0.38
Consensus pattern (19 bp):
CTTTTACTTCCCCTAAAAA
Found at i:14940292 original size:25 final size:25
Alignment explanation
Indices: 14940243--14940295 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
14940233 CTAGCAAAAT
**
14940243 TTTGATGATTTTACCTCGGTGAAAC
1 TTTGATGATTTTACCTAAGTGAAAC
14940268 TTTGATGATTTTACCTTAAGT-AAAC
1 TTTGATGATTTTACC-TAAGTGAAAC
14940293 TTT
1 TTT
14940296 TGAGAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 22 0.88
26 3 0.12
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.45
Consensus pattern (25 bp):
TTTGATGATTTTACCTAAGTGAAAC
Found at i:14949555 original size:14 final size:14
Alignment explanation
Indices: 14949532--14949561 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14949522 TATTAAAACT
14949532 TAACTAAAAGCTGA
1 TAACTAAAAGCTGA
*
14949546 TAACTGAAAGCTGA
1 TAACTAAAAGCTGA
14949560 TA
1 TA
14949562 TGTGTAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.17, T:0.23
Consensus pattern (14 bp):
TAACTAAAAGCTGA
Found at i:14952347 original size:40 final size:40
Alignment explanation
Indices: 14952135--14952340 Score: 308
Period size: 40 Copynumber: 5.2 Consensus size: 40
14952125 AACCCAAGTA
* * * * *
14952135 CCTTCGGAATTTAG-CCGGATAT-AGCAACTTGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAATC-ACTAGCACAAATG
* * *
14952174 CCTTCGGGACTTAGCCCAGACATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
*
14952214 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
14952254 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
14952294 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
14952334 CCTTCGG
1 CCTTCGG
14952341 ATCTTAGTCC
Statistics
Matches: 154, Mismatches: 11, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
39 12 0.08
40 141 0.92
41 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
Found at i:14956085 original size:48 final size:48
Alignment explanation
Indices: 14956014--14956233 Score: 199
Period size: 48 Copynumber: 4.5 Consensus size: 48
14956004 AGAGCTAGTG
* *
14956014 GACCATGTCTGGGACATGGCATCGGCCGCGATATGTGAGCCAGTGTAA
1 GACCATGTCTGGGACATGGCATCGGCCTCGATATGAGAGCCAGTGTAA
* * * * * ** *
14956062 GACCATGTTTGGAATATGGCATCGACATTTATATGAGAGCTAGTGTAA
1 GACCATGTCTGGGACATGGCATCGGCCTCGATATGAGAGCCAGTGTAA
* ** * * * *
14956110 GACAATGTCTGGGACATGGCATTAGCCTCGACATGTGGGCTAGTGTAA
1 GACCATGTCTGGGACATGGCATCGGCCTCGATATGAGAGCCAGTGTAA
* * * *
14956158 GACCATGTTTGGAACATGGCATTGGCAC-CAATATATGAGAGCCAGTGTAA
1 GACCATGTCTGGGACATGGCATCGGC-CTC--GATATGAGAGCCAGTGTAA
* *
14956208 GACCATGTCTGGGATATGACATCGGC
1 GACCATGTCTGGGACATGGCATCGGC
14956234 ATCTTACCCT
Statistics
Matches: 132, Mismatches: 37, Indels: 4
0.76 0.21 0.02
Matches are distributed among these distances:
48 96 0.73
49 1 0.01
50 35 0.27
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (48 bp):
GACCATGTCTGGGACATGGCATCGGCCTCGATATGAGAGCCAGTGTAA
Found at i:14956163 original size:96 final size:98
Alignment explanation
Indices: 14956002--14956230 Score: 290
Period size: 96 Copynumber: 2.4 Consensus size: 98
14955992 ACTAGGGTTT
* *
14956002 TGAGAGCTAGTG---GACCATGTCTGGGACATGGCATCGGCCGCGATATGTGAGCCAGTGTAAGA
1 TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCGCGACATGTGAGCCAGTGTAAGA
* *
14956064 CCATGTTTGGAATATGGCA-TCG-A-CATTTATA
66 CCATGTTTGGAACATGGCATTCGCACCA-ATATA
* * * * *
14956095 TGAGAGCTAGTGTAAGACAATGTCTGGGACATGGCATTAGCCTCGACATGTGGGCTAGTGTAAGA
1 TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCGCGACATGTGAGCCAGTGTAAGA
*
14956160 CCATGTTTGGAACATGGCATTGGCACCAATATA
66 CCATGTTTGGAACATGGCATTCGCACCAATATA
* * *
14956193 TGAGAGCCAGTGTAAGACCATGTCTGGGATATGACATC
1 TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
14956231 GGCATCTTAC
Statistics
Matches: 115, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
93 12 0.10
96 61 0.53
97 2 0.02
98 38 0.33
99 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (98 bp):
TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCGCGACATGTGAGCCAGTGTAAGA
CCATGTTTGGAACATGGCATTCGCACCAATATA
Found at i:14959272 original size:22 final size:22
Alignment explanation
Indices: 14959244--14959286 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
14959234 AGGGTCAGCG
14959244 TGTCCCTTAGACCACACGGGCC
1 TGTCCCTTAGACCACACGGGCC
* *
14959266 TGTCCCTTGGACCGCACGGGC
1 TGTCCCTTAGACCACACGGGC
14959287 GTGTGAGCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.14, C:0.40, G:0.28, T:0.19
Consensus pattern (22 bp):
TGTCCCTTAGACCACACGGGCC
Found at i:14960209 original size:29 final size:27
Alignment explanation
Indices: 14960177--14960232 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 27
14960167 TTCTTTTACA
*
14960177 ATCACTTATTCCTTTTTTTTATTTTCTTT
1 ATCACTTATT-CTTTTTTTT-GTTTCTTT
* *
14960206 ATCATTTATTGTTTTTTTTGTTTCTTT
1 ATCACTTATTCTTTTTTTTGTTTCTTT
14960233 CTTTTACACT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 7 0.29
28 8 0.33
29 9 0.38
ACGTcount: A:0.12, C:0.12, G:0.04, T:0.71
Consensus pattern (27 bp):
ATCACTTATTCTTTTTTTTGTTTCTTT
Found at i:14960588 original size:25 final size:26
Alignment explanation
Indices: 14960560--14960609 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
14960550 TGGAGATGAC
* *
14960560 TAGTTTTC-TTTTTTCTTTTTTTTTT
1 TAGTTTTCATTTGTTATTTTTTTTTT
14960585 TAGTTTTCATTTGTTATTTTTTTTT
1 TAGTTTTCATTTGTTATTTTTTTTT
14960610 GGTTGTTGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.08, C:0.06, G:0.06, T:0.80
Consensus pattern (26 bp):
TAGTTTTCATTTGTTATTTTTTTTTT
Done.