Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 345 of 444
Found at i:99953651 original size:20 final size:20
Alignment explanation
Indices: 99953626--99953663 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
99953616 GTTTATTTGC
*
99953626 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
99953646 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
99953664 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:99955324 original size:28 final size:28
Alignment explanation
Indices: 99955292--99955360 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
99955282 GCGTAGATCA
99955292 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
99955320 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
99955348 CGATA-TACCCCTA
1 CGAAATTACCCCTA
99955361 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:99961659 original size:20 final size:20
Alignment explanation
Indices: 99961634--99961671 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
99961624 GTTTATTCGC
*
99961634 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
99961654 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
99961672 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:99963327 original size:28 final size:28
Alignment explanation
Indices: 99963295--99963363 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
99963285 GCGTAGATCA
99963295 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
99963323 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
99963351 CGATA-TACCCCTA
1 CGAAATTACCCCTA
99963364 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:99964965 original size:26 final size:26
Alignment explanation
Indices: 99964936--99964986 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
99964926 AATAAAAGAA
99964936 AACATTCAATATTTCAGTTTAATTAT
1 AACATTCAATATTTCAGTTTAATTAT
99964962 AACATTCAATATTTCAGTTTAATTA
1 AACATTCAATATTTCAGTTTAATTA
99964987 GCATTAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.39, C:0.12, G:0.04, T:0.45
Consensus pattern (26 bp):
AACATTCAATATTTCAGTTTAATTAT
Found at i:99967073 original size:26 final size:26
Alignment explanation
Indices: 99967044--99967094 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
99967034 CAATAAAAGA
99967044 AACATTCAATATTTCTA-TTTAATTAT
1 AACATTCAATATTTC-AGTTTAATTAT
99967070 AACATTCAATATTTCAGTTTAATTA
1 AACATTCAATATTTCAGTTTAATTA
99967095 GCATTAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.39, C:0.12, G:0.02, T:0.47
Consensus pattern (26 bp):
AACATTCAATATTTCAGTTTAATTAT
Found at i:99967215 original size:20 final size:20
Alignment explanation
Indices: 99967190--99967227 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
99967180 GTTTATTCGC
*
99967190 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
99967210 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
99967228 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:99968880 original size:28 final size:28
Alignment explanation
Indices: 99968848--99968916 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
99968838 GCGTAGATCA
99968848 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
99968876 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
99968904 CGATA-TACCCCTA
1 CGAAATTACCCCTA
99968917 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:99975204 original size:20 final size:20
Alignment explanation
Indices: 99975179--99975216 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
99975169 GTTTATTCGC
*
99975179 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
99975199 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
99975217 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:99976873 original size:28 final size:28
Alignment explanation
Indices: 99976841--99976909 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
99976831 GCGTAGATCA
99976841 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
99976869 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
99976897 CGATA-TACCCCTA
1 CGAAATTACCCCTA
99976910 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:99978130 original size:30 final size:30
Alignment explanation
Indices: 99978096--99978156 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
99978086 TCCTTAACTC
99978096 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
99978126 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
99978156 A
1 A
99978157 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:99980776 original size:14 final size:15
Alignment explanation
Indices: 99980736--99980769 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
99980726 TGGCTTTTTC
99980736 TAAACCCCTAAACCCT
1 TAAA-CCCTAAACCCT
99980752 TAAACCCTAAA-CCT
1 TAAACCCTAAACCCT
99980766 TAAA
1 TAAA
99980770 TTCTAAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 7 0.39
16 4 0.22
ACGTcount: A:0.44, C:0.35, G:0.00, T:0.21
Consensus pattern (15 bp):
TAAACCCTAAACCCT
Found at i:99981044 original size:21 final size:21
Alignment explanation
Indices: 99981020--99981059 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
99981010 TAAGTTTATA
*
99981020 GTTTATGGTTT-GTTATTTTGG
1 GTTTAGGGTTTAGTT-TTTTGG
99981041 GTTTAGGGTTTAGTTTTTT
1 GTTTAGGGTTTAGTTTTTT
99981060 AAATTTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.10, C:0.00, G:0.28, T:0.62
Consensus pattern (21 bp):
GTTTAGGGTTTAGTTTTTTGG
Found at i:99981337 original size:7 final size:7
Alignment explanation
Indices: 99981322--99981378 Score: 66
Period size: 7 Copynumber: 8.1 Consensus size: 7
99981312 AAGGTTTAAA
99981322 GTTTAGG
1 GTTTAGG
99981329 GTATT-GG
1 GT-TTAGG
99981336 GTTTAGG
1 GTTTAGG
99981343 GTTTAGG
1 GTTTAGG
99981350 GTATT-GG
1 GT-TTAGG
99981357 GTTTAGG
1 GTTTAGG
99981364 GTATTA-G
1 GT-TTAGG
99981371 GTTTAGG
1 GTTTAGG
99981378 G
1 G
99981379 CTTAATTATA
Statistics
Matches: 44, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
6 7 0.16
7 30 0.68
8 7 0.16
ACGTcount: A:0.16, C:0.00, G:0.42, T:0.42
Consensus pattern (7 bp):
GTTTAGG
Found at i:99981338 original size:21 final size:21
Alignment explanation
Indices: 99981314--99981361 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
99981304 TAGGGGTTAA
99981314 GGTTTAAAGTTTAGGGTATTG
1 GGTTTAAAGTTTAGGGTATTG
**
99981335 GGTTTAGGGTTTAGGGTATTG
1 GGTTTAAAGTTTAGGGTATTG
99981356 GGTTTA
1 GGTTTA
99981362 GGGTATTAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.19, C:0.00, G:0.38, T:0.44
Consensus pattern (21 bp):
GGTTTAAAGTTTAGGGTATTG
Found at i:99981362 original size:21 final size:21
Alignment explanation
Indices: 99981322--99981371 Score: 91
Period size: 21 Copynumber: 2.3 Consensus size: 21
99981312 AAGGTTTAAA
99981322 GTTTAGGGTATTGGGTTTAGG
1 GTTTAGGGTATTGGGTTTAGG
99981343 GTTTAGGGTATTGGGTTTAGG
1 GTTTAGGGTATTGGGTTTAGG
99981364 GTATTAGG
1 GT-TTAGG
99981372 TTTAGGGCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 23 0.82
22 5 0.18
ACGTcount: A:0.16, C:0.00, G:0.42, T:0.42
Consensus pattern (21 bp):
GTTTAGGGTATTGGGTTTAGG
Found at i:99981794 original size:123 final size:122
Alignment explanation
Indices: 99981560--99981869 Score: 428
Period size: 123 Copynumber: 2.5 Consensus size: 122
99981550 GGTAGTGGAC
* * * * *
99981560 TTAGCAGCGCTTATTTA-AAAACACCGC-AAAAAAATGATAAATTGAATGAAAACGACATCGTTT
1 TTAGCAGCGCTTA-TTAGAAAACGCCGCTAAAAATATGAGAAATTGAATGGAAACGGCATCGTTT
* *
99981623 TAGTTGGTGGGTAGTGTACTTAGTGGCCCTAGGCAATAAACGCTGCAATAGATCAGAA
65 TAGTTGGGGGGTAGTGGACTTAGTGGCCCTAGGCAATAAACGCTGCAATAGATCAGAA
* * *
99981681 TTAGCGGTGCTTATTAGAAAACGCCGCTAAAAATATGAGAAATTGAATGGAAACGGCGTCGTTTT
1 TTAGCAGCGCTTATTAGAAAACGCCGCTAAAAATATGAGAAATTGAATGGAAACGGCATCGTTTT
* * * * *
99981746 TGTTGGCGGGGTAGTGGATTTAGTGGCGCTAGGTAATAAACG-TCGCAATAGATCAGCA
66 AGTTGG-GGGGTAGTGGACTTAGTGGCCCTAGGCAATAAACGCT-GCAATAGATCAGAA
*
99981804 TTAGCAGCGCTTATTAGAAAACGCCTCTAAAAATATGAGAAATTGAATGGAAACGGCATCGTTTT
1 TTAGCAGCGCTTATTAGAAAACGCCGCTAAAAATATGAGAAATTGAATGGAAACGGCATCGTTTT
99981869 A
66 A
99981870 TGTGGCTCGG
Statistics
Matches: 165, Mismatches: 20, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
120 3 0.02
121 20 0.12
122 38 0.23
123 104 0.63
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (122 bp):
TTAGCAGCGCTTATTAGAAAACGCCGCTAAAAATATGAGAAATTGAATGGAAACGGCATCGTTTT
AGTTGGGGGGTAGTGGACTTAGTGGCCCTAGGCAATAAACGCTGCAATAGATCAGAA
Found at i:99981927 original size:123 final size:123
Alignment explanation
Indices: 99981560--99981929 Score: 345
Period size: 123 Copynumber: 3.0 Consensus size: 123
99981550 GGTAGTGGAC
* * * * *
99981560 TTAGCAGCGCTTATTTA-AAAACACCGC-AAAAAAATGATAAATTGAATGAAAACGACATCGTTT
1 TTAGCAGCGCTTA-TTAGAAAACGCCGCTAAAAATATGAGAAATTGAATGGAAACGGCATCGTTT
* * * * ** * * * * * * *
99981623 TAGTTGGTG-GGTAGTGTACTTAGTGGCCCTAGGCAATAAACGCTGCAATAGATCAGAA
65 TTGTTGGCGCGGTAGTGGAATTAGCAGCGCTAGGTAAGAAACGCCGCAAAAAATCAGCA
* * *
99981681 TTAGCGGTGCTTATTAGAAAACGCCGCTAAAAATATGAGAAATTGAATGGAAACGGCGTCGTTTT
1 TTAGCAGCGCTTATTAGAAAACGCCGCTAAAAATATGAGAAATTGAATGGAAACGGCATCGTTTT
* * ** * * * *
99981746 TGTTGGCGGGGTAGTGGATTTAGTGGCGCTAGGTAATAAACGTCGCAATAGATCAGCA
66 TGTTGGCGCGGTAGTGGAATTAGCAGCGCTAGGTAAGAAACGCCGCAAAAAATCAGCA
*
99981804 TTAGCAGCGCTTATTAGAAAACGCCTCTAAAAATATGAGAAATTGAATGGAAACGGCATCGTTTT
1 TTAGCAGCGCTTATTAGAAAACGCCGCTAAAAATATGAGAAATTGAATGGAAACGGCATCGTTTT
* * * ** * *
99981869 ATG-TGGCTCGGT-TTAGGAATTAGCAGCGCTATGTTGGAAATGCCGCAAAAAATTAGCA
66 -TGTTGGCGCGGTAGT-GGAATTAGCAGCGCTAGGTAAGAAACGCCGCAAAAAATCAGCA
99981927 TTA
1 TTA
99981930 TTGGTGCTTA
Statistics
Matches: 208, Mismatches: 36, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
120 3 0.01
121 20 0.10
122 39 0.19
123 144 0.69
124 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.27
Consensus pattern (123 bp):
TTAGCAGCGCTTATTAGAAAACGCCGCTAAAAATATGAGAAATTGAATGGAAACGGCATCGTTTT
TGTTGGCGCGGTAGTGGAATTAGCAGCGCTAGGTAAGAAACGCCGCAAAAAATCAGCA
Found at i:99983231 original size:5 final size:5
Alignment explanation
Indices: 99983221--99983252 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
99983211 ATTTTGTCCT
99983221 TATAC TATAC TATAC TATAC TATAC TATAC TA
1 TATAC TATAC TATAC TATAC TATAC TATAC TA
99983253 GACTGCATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAC
Found at i:99984834 original size:105 final size:105
Alignment explanation
Indices: 99984642--99985009 Score: 576
Period size: 110 Copynumber: 3.4 Consensus size: 105
99984632 TTTTTAAGTA
*
99984642 TTTTATTTTATTTTTAAATTACCTAATTGAATTAAATTGTATTTAAAGTTTTATTTTGAATAAGT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTT--A-AA--
99984707 TATTTTATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTAC
61 TATTTTATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTAC
*
99984752 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTTTTTAAAGTTTTATTTTAAATATTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
* *
99984817 TATTTTATTTTATTTTAATCACGAAAAATACTTTGTCTGC
66 TATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTAC
99984857 TTTTATTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAA
1 -----TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAA
* *
99984922 TATTTTATTTTATTTTAATTTAATCACGAAAAATATTTTGTTTAC
61 TATTTTATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTAC
*
99984967 TTTTATTTTATTGTTAAATTACCTAATTAAATT-AATTGTATTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTT
99985010 TTAAATATTG
Statistics
Matches: 243, Mismatches: 10, Indels: 16
0.90 0.04 0.06
Matches are distributed among these distances:
104 10 0.04
105 75 0.31
107 2 0.01
108 1 0.00
110 155 0.64
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (105 bp):
TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
TATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTAC
Found at i:99985308 original size:18 final size:18
Alignment explanation
Indices: 99985282--99985397 Score: 84
Period size: 18 Copynumber: 6.8 Consensus size: 18
99985272 AAATATATAT
*
99985282 CATATCTTACATAATTTA
1 CATAACTTACATAATTTA
*
99985300 CATAACTTACA-AA-ATA
1 CATAACTTACATAATTTA
* *
99985316 CATAA---AAAT-ATAT-
1 CATAACTTACATAATTTA
*
99985329 CATATCTTACATAATTTA
1 CATAACTTACATAATTTA
** * *
99985347 CATAAGATAAACAATTTA
1 CATAACTTACATAATTTA
* *
99985365 CATAATTTACATAACTTA
1 CATAACTTACATAATTTA
99985383 CATAACTTACATAAT
1 CATAACTTACATAAT
99985398 ACATAAATAT
Statistics
Matches: 73, Mismatches: 18, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
13 7 0.10
14 2 0.03
16 10 0.14
17 5 0.07
18 49 0.67
ACGTcount: A:0.48, C:0.16, G:0.01, T:0.35
Consensus pattern (18 bp):
CATAACTTACATAATTTA
Found at i:99985351 original size:9 final size:9
Alignment explanation
Indices: 99985335--99985397 Score: 72
Period size: 9 Copynumber: 7.0 Consensus size: 9
99985325 ATATCATATC
99985335 TTACATAAT
1 TTACATAAT
*
99985344 TTACATAAG
1 TTACATAAT
* * *
99985353 ATAAACAAT
1 TTACATAAT
99985362 TTACATAAT
1 TTACATAAT
*
99985371 TTACATAAC
1 TTACATAAT
*
99985380 TTACATAAC
1 TTACATAAT
99985389 TTACATAAT
1 TTACATAAT
99985398 ACATAAATAT
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 44 1.00
ACGTcount: A:0.48, C:0.14, G:0.02, T:0.37
Consensus pattern (9 bp):
TTACATAAT
Found at i:99985423 original size:45 final size:45
Alignment explanation
Indices: 99985276--99985436 Score: 126
Period size: 45 Copynumber: 3.7 Consensus size: 45
99985266 CAACATAAAT
* * *
99985276 ATATATCATATCTTA-CATAATTTACATAACTTACAAAATACATAA
1 ATATAT-ATATCATATCATAACTTACATAACTTACATAATACATAA
* *
99985321 A-A-ATATATC--AT-AT--CTTACATAATTTACAT-A-AGATAA
1 ATATATATATCATATCATAACTTACATAACTTACATAATACATAA
* * * * *
99985357 ACAATTTACATAATTTACATAACTTACATAACTTACATAATACATAA
1 A-TATATATATCATAT-CATAACTTACATAACTTACATAATACATAA
*
99985404 ATATATATATCATATCATAACTTACACAACTTA
1 ATATATATATCATATCATAACTTACATAACTTA
99985437 ATCATACTTA
Statistics
Matches: 88, Mismatches: 16, Indels: 24
0.69 0.12 0.19
Matches are distributed among these distances:
36 6 0.07
37 1 0.01
38 14 0.16
39 4 0.05
40 3 0.03
41 1 0.01
42 5 0.06
43 4 0.05
44 1 0.01
45 33 0.38
46 10 0.11
47 6 0.07
ACGTcount: A:0.48, C:0.16, G:0.01, T:0.35
Consensus pattern (45 bp):
ATATATATATCATATCATAACTTACATAACTTACATAATACATAA
Found at i:99991140 original size:93 final size:93
Alignment explanation
Indices: 99991028--99991199 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
99991018 CGCCCATAAG
*
99991028 CGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
99991093 ACGAGCTCAGATGCCTAGTTACATCTCT
66 ACGAGCTCAGATGCCTAGTTACATCTCT
*
99991121 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
99991186 ACGAGTTCGGATGC
66 ACGAGCTCAGATGC
99991200 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCAGATGCCTAGTTACATCTCT
Found at i:99991196 original size:46 final size:46
Alignment explanation
Indices: 99991021--99991196 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
99991011 TGTAACCCGC
* *
99991021 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
99991067 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC--AGATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
99991113 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
99991160 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
99991197 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
46 67 0.62
47 30 0.28
49 5 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:99992800 original size:13 final size:14
Alignment explanation
Indices: 99992782--99992810 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
99992772 TTATAAATAT
99992782 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
99992795 TTATAATGGTTTAA
1 TTATAATGGTTTAA
99992809 TT
1 TT
99992811 CTTTGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:99993262 original size:21 final size:21
Alignment explanation
Indices: 99993224--99993264 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
99993214 AGAGCGGATA
*
99993224 CAGCAGCGAGGGAGGCAGAGG
1 CAGCAGCGAGGCAGGCAGAGG
99993245 CAGCAGCGATGGCA-GCAGAG
1 CAGCAGCGA-GGCAGGCAGAG
99993265 CAGAGCAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.29, C:0.22, G:0.46, T:0.02
Consensus pattern (21 bp):
CAGCAGCGAGGCAGGCAGAGG
Found at i:99993672 original size:43 final size:43
Alignment explanation
Indices: 99993609--99993725 Score: 144
Period size: 43 Copynumber: 2.7 Consensus size: 43
99993599 GGTGTTTTTA
* * **
99993609 CCACAAATGTCACTAAAAGCCATGACTTTTAGTGGTGCTTTCC
1 CCACAAATGCCACTAAAAGCCATGACTTTTAGCGGAACTTTCC
* *
99993652 CCACAAATGCCACTACAAGCCATGACTTTTAGCGGAACTTTTC
1 CCACAAATGCCACTAAAAGCCATGACTTTTAGCGGAACTTTCC
* **
99993695 TCACAAATGCTGCTAAAAGCCATGATCTTTT
1 CCACAAATGCCACTAAAAGCCATGA-CTTTT
99993726 GTAGCATTTT
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
43 58 0.92
44 5 0.08
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (43 bp):
CCACAAATGCCACTAAAAGCCATGACTTTTAGCGGAACTTTCC
Found at i:99994801 original size:2 final size:2
Alignment explanation
Indices: 99994796--99994831 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
99994786 AAATATATGC
99994796 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
99994832 GTGAATCTTG
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:99995086 original size:2 final size:2
Alignment explanation
Indices: 99995026--99995068 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
99995016 ATATGTATGT
99995026 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
99995068 T
1 T
99995069 GTTTGCGTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:99995459 original size:2 final size:2
Alignment explanation
Indices: 99995452--99995490 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
99995442 ATGATTGTTG
99995452 TA TA TA 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 TA TA TA T
99995491 TTGATGACTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:100000278 original size:25 final size:25
Alignment explanation
Indices: 100000241--100000293 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
100000231 TGGCATCTTA
* **
100000241 TTATGTATAGTAATTTTGAGTATCC
1 TTATATATAGTAATTCCGAGTATCC
*
100000266 TTATATATGGTAATTCCGAGTATCC
1 TTATATATAGTAATTCCGAGTATCC
100000291 TTA
1 TTA
100000294 GTATTTCAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.45
Consensus pattern (25 bp):
TTATATATAGTAATTCCGAGTATCC
Found at i:100002385 original size:125 final size:124
Alignment explanation
Indices: 100002163--100002661 Score: 719
Period size: 125 Copynumber: 4.0 Consensus size: 124
100002153 GGCCAATCAT
* * * * * * * * *
100002163 GAACTACTTTTGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGATGAGATTACATC
1 GAACTACTATAGAAAAAGAGCGTCCACAT-GGAGCTTTTTTCTGTAATTTTGCTGACAGTGCATC
*
100002228 CTGCTTGAAGCGTTTTTGACACTATTTGTTTAGAAACATCTTCTCAAAATTATTTTTTAG
65 CTGCTTGAAGCATTTTTGACACTATTTGTTTAGAAACATCTTCTCAAAATTATTTTTTAG
* * *
100002288 GAACTACTATAGAAAAAGAGCGTCTACATAGGAGCTTTTTTCTTTAATTTTGCTGACACTGCATC
1 GAACTACTATAGAAAAAGAGCGTCCACAT-GGAGCTTTTTTCTGTAATTTTGCTGACAGTGCATC
100002353 CTGCTTGAAGCATTTTTGACACTATTTGTTTAGAAACATCTTCTCAAAATTATTTTTTAG
65 CTGCTTGAAGCATTTTTGACACTATTTGTTTAGAAACATCTTCTCAAAATTATTTTTTAG
* * *
100002413 GAATTACTATAGAAAAAAAGCGTCCACGTGAGAGCTTTTTTCTGTAATTTTGCTGACAGTGCATC
1 GAACTACTATAGAAAAAGAGCGTCCACATG-GAGCTTTTTTCTGTAATTTTGCTGACAGTGCATC
* *
100002478 CTGCTTGAAGCATTTTTGACACTATTTTTTTAGAAACGTCTTCTCAAAATTATTTTTTCAG
65 CTGCTTGAAGCATTTTTGACACTATTTGTTTAGAAACATCTTCTCAAAATTATTTTTT-AG
* * *
100002539 GAACTACTGTAGAAAAAGAGTGTCCACATGGAAGCTTTTTTCTGTAATTTTGCTGACAGTGCGTC
1 GAACTACTATAGAAAAAGAGCGTCCACATGG-AGCTTTTTTCTGTAATTTTGCTGACAGTGCATC
** * * *
100002604 CTGCTTGAAGTGTTTTTGACACTAATTGTTCAGAAACGTCTTCTCAAAATTATTTTTT
65 CTGCTTGAAGCATTTTTGACACTATTTGTTTAGAAACATCTTCTCAAAATTATTTTTT
100002662 CAGAGTACAA
Statistics
Matches: 339, Mismatches: 32, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
124 1 0.00
125 226 0.67
126 112 0.33
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (124 bp):
GAACTACTATAGAAAAAGAGCGTCCACATGGAGCTTTTTTCTGTAATTTTGCTGACAGTGCATCC
TGCTTGAAGCATTTTTGACACTATTTGTTTAGAAACATCTTCTCAAAATTATTTTTTAG
Found at i:100002660 original size:251 final size:250
Alignment explanation
Indices: 100002174--100002661 Score: 753
Period size: 251 Copynumber: 1.9 Consensus size: 250
100002164 AACTACTTTT
* * * *
100002174 GAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGATGAGATTACATCCTGCTTGAAGC
1 GAAAAAAAGCGTCCACGTGAGAGCTTTTTTCAGAAATTTTGATGACAGTACATCCTGCTTGAAGC
*
100002239 GTTTTTGACACTATTTGTTTAGAAACATCTTCTCAAAATTATTTTTTAGGAACTACTATAGAAAA
66 ATTTTTGACACTATTTGTTTAGAAACATCTTCTCAAAATTATTTTTTAGGAACTACTATAGAAAA
* *
100002304 AGAGCGTCTACATAGGAGCTTTTTTCTTTAATTTTGCTGACACTGCATCCTGCTTGAAGCATTTT
131 AGAGCGTCCACATAGGAGCTTTTTTCTGTAATTTTGCTGACACTGCATCCTGCTTGAAGCATTTT
* *
100002369 TGACACTATTTGTTTAGAAACATCTTCTCAAAATTATTTTTTAGGAATTACTATA
196 TGACACTAATTGTTCAGAAACATCTTCTCAAAATTATTTTTTAGGAATTACTATA
* * * *
100002424 GAAAAAAAGCGTCCACGTGAGAGCTTTTTTCTGTAATTTTGCTGACAGTGCATCCTGCTTGAAGC
1 GAAAAAAAGCGTCCACGTGAGAGCTTTTTTCAGAAATTTTGATGACAGTACATCCTGCTTGAAGC
* * *
100002489 ATTTTTGACACTATTTTTTTAGAAACGTCTTCTCAAAATTATTTTTTCAGGAACTACTGTAGAAA
66 ATTTTTGACACTATTTGTTTAGAAACATCTTCTCAAAATTATTTTTT-AGGAACTACTATAGAAA
* * * **
100002554 AAGAGTGTCCACAT-GGAAGCTTTTTTCTGTAATTTTGCTGACAGTGCGTCCTGCTTGAAGTGTT
130 AAGAGCGTCCACATAGG-AGCTTTTTTCTGTAATTTTGCTGACACTGCATCCTGCTTGAAGCATT
*
100002618 TTTGACACTAATTGTTCAGAAACGTCTTCTCAAAATTATTTTTT
194 TTTGACACTAATTGTTCAGAAACATCTTCTCAAAATTATTTTTT
100002662 CAGAGTACAA
Statistics
Matches: 214, Mismatches: 22, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
250 103 0.48
251 111 0.52
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (250 bp):
GAAAAAAAGCGTCCACGTGAGAGCTTTTTTCAGAAATTTTGATGACAGTACATCCTGCTTGAAGC
ATTTTTGACACTATTTGTTTAGAAACATCTTCTCAAAATTATTTTTTAGGAACTACTATAGAAAA
AGAGCGTCCACATAGGAGCTTTTTTCTGTAATTTTGCTGACACTGCATCCTGCTTGAAGCATTTT
TGACACTAATTGTTCAGAAACATCTTCTCAAAATTATTTTTTAGGAATTACTATA
Found at i:100002839 original size:240 final size:237
Alignment explanation
Indices: 100002525--100003005 Score: 854
Period size: 240 Copynumber: 2.0 Consensus size: 237
100002515 GTCTTCTCAA
* *
100002525 AATTATTTTTTCAGGAACTACTGTAGAAAAAGAGTGTCCACATGGAAGCTTTTTTCTGTAATTTT
1 AATTATTTTTTCAGGAACTACTGTAGAAAAAGAGCGCCCACATGGAAGCTTTTTTCTGTAATTTT
* *
100002590 GCTGACAGTGCGTCCTGCTTGAAGTGTTTTTGACACTAATTGTTCAGAAACGTCTTCTCAAAATT
66 GCTGACAGTGCATCCTGCTTGAAGGGTTTTTGACACTAATTGTTCAGAAACGTCTTCTCAAAATT
100002655 ATTTTTTCAGAGTACAAAATAGACAATTTTGTTAAAAAAATAAACACAATGTTATTTTTAAAAAA
131 ATTTTTTCAGAGTACAAAATAGACAATTTTGTT--AAAAA-AAACACAATGTTATTTTTAAAAAA
100002720 TCCTAAACCCTAATTTAATTAAACTTAACCTAAACCTTACACCAT
193 TCCTAAACCCTAATTTAATTAAACTTAACCTAAACCTTACACCAT
* * * *
100002765 AATTATTTTTTCAGGAACTACTGTCGAAAAAGAGCGCCCACGTGGAAGTTTTTTTCTGTATTTTT
1 AATTATTTTTTCAGGAACTACTGTAGAAAAAGAGCGCCCACATGGAAGCTTTTTTCTGTAATTTT
*
100002830 GCTGACAGTGCATCCTGCTTGAAGGGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATT
66 GCTGACAGTGCATCCTGCTTGAAGGGTTTTTGACACTAATTGTTCAGAAACGTCTTCTCAAAATT
100002895 ATTTTTTCAGAGTACAAAATAGACAATTTTGTTAAAAAAAACACAATGTTATTTTTAAAAAATCC
131 ATTTTTTCAGAGTACAAAATAGACAATTTTGTTAAAAAAAACACAATGTTATTTTTAAAAAATCC
100002960 TAAACCCTAATTTAATTAAACTTAACCTAAACCTTACACCAT
196 TAAACCCTAATTTAATTAAACTTAACCTAAACCTTACACCAT
100003002 AATT
1 AATT
100003006 TAATTTATTT
Statistics
Matches: 232, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
237 73 0.31
238 5 0.02
240 154 0.66
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (237 bp):
AATTATTTTTTCAGGAACTACTGTAGAAAAAGAGCGCCCACATGGAAGCTTTTTTCTGTAATTTT
GCTGACAGTGCATCCTGCTTGAAGGGTTTTTGACACTAATTGTTCAGAAACGTCTTCTCAAAATT
ATTTTTTCAGAGTACAAAATAGACAATTTTGTTAAAAAAAACACAATGTTATTTTTAAAAAATCC
TAAACCCTAATTTAATTAAACTTAACCTAAACCTTACACCAT
Found at i:100003107 original size:22 final size:22
Alignment explanation
Indices: 100003079--100003120 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
100003069 CCCTAAATCC
100003079 TAATTTATTTAAAACCCTAACT
1 TAATTTATTTAAAACCCTAACT
100003101 TAATTTATTTAAAACCCTAA
1 TAATTTATTTAAAACCCTAA
100003121 AAACCCTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (22 bp):
TAATTTATTTAAAACCCTAACT
Found at i:100003174 original size:34 final size:35
Alignment explanation
Indices: 100003101--100003175 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 35
100003091 AACCCTAACT
* * *
100003101 TAATTTATTTAAAACCCTAAAAACCCTAATTTAAT
1 TAATTTATTTAAAACACTAAAAACCCTAAATTAAA
**
100003136 TAATTTATTTAAAA-ACTTTAAACCCTAAATTAAA
1 TAATTTATTTAAAACACTAAAAACCCTAAATTAAA
100003170 TAATTT
1 TAATTT
100003176 TAAAAAAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
34 21 0.60
35 14 0.40
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (35 bp):
TAATTTATTTAAAACACTAAAAACCCTAAATTAAA
Found at i:100003284 original size:35 final size:34
Alignment explanation
Indices: 100003226--100003304 Score: 86
Period size: 35 Copynumber: 2.3 Consensus size: 34
100003216 ACTAAAATTC
*
100003226 TAAACCATAACTTTTTTAACAAAAACCTAAACAT
1 TAAACCCTAACTTTTTTAACAAAAACCTAAACAT
** * * *
100003260 TAAACCCTAACTTATTTTGGCAAAATCCTAACCCT
1 TAAACCCTAACTT-TTTTAACAAAAACCTAAACAT
*
100003295 AAAACCCTAA
1 TAAACCCTAA
100003305 AAAACCCTAG
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
34 12 0.32
35 25 0.68
ACGTcount: A:0.44, C:0.25, G:0.03, T:0.28
Consensus pattern (34 bp):
TAAACCCTAACTTTTTTAACAAAAACCTAAACAT
Found at i:100009134 original size:30 final size:30
Alignment explanation
Indices: 100009079--100009140 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
100009069 CACTAAGCAA
100009079 GTTTCATATACATGTATCATCCATTTC-AT
1 GTTTCATATACATGTATCATCCATTTCTAT
100009108 GTTTCAATATATCATGTAAT-AT-CATTTCTAT
1 GTTTC-ATATA-CATGT-ATCATCCATTTCTAT
100009139 GT
1 GT
100009141 ATTTCATGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 5 0.17
30 11 0.38
31 11 0.38
32 2 0.07
ACGTcount: A:0.29, C:0.16, G:0.08, T:0.47
Consensus pattern (30 bp):
GTTTCATATACATGTATCATCCATTTCTAT
Found at i:100013039 original size:42 final size:42
Alignment explanation
Indices: 100012990--100013116 Score: 141
Period size: 42 Copynumber: 3.0 Consensus size: 42
100012980 TTAAGGCTGC
* * *
100012990 ACAGAAGCACATAAGTGCTAAACAGAAACCCATAAGGGTTGA
1 ACAGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTGA
* * * *
100013032 ACGGAAGCTCATAAGAGCTGAA-TGAAAACCCATAAAGGTTAA
1 ACAGAAGCTCATAAGAGCTGAACAG-AAACCCATAAGGGTTGA
* *
100013074 ACAGAAGCTCA-ATAGAGCTGAACGGAAACCCATTAGGGTTGA
1 ACAGAAGCTCATA-AGAGCTGAACAGAAACCCATAAGGGTTGA
100013116 A
1 A
100013117 TTAAAACTCA
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
41 2 0.03
42 67 0.96
43 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.23, T:0.16
Consensus pattern (42 bp):
ACAGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTGA
Found at i:100013053 original size:21 final size:21
Alignment explanation
Indices: 100012981--100013053 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 21
100012971 TTAGAAATCT
*
100012981 TAAG-GCTGCACAGAAGCACA
1 TAAGAGCTGAACAGAAGCACA
* * * *
100013001 TAAGTGCTAAACAGAAACCCA
1 TAAGAGCTGAACAGAAGCACA
* * * *
100013022 TAAGGGTTGAACGGAAGCTCA
1 TAAGAGCTGAACAGAAGCACA
100013043 TAAGAGCTGAA
1 TAAGAGCTGAA
100013054 TGAAAACCCA
Statistics
Matches: 40, Mismatches: 12, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
20 4 0.10
21 36 0.90
ACGTcount: A:0.41, C:0.19, G:0.25, T:0.15
Consensus pattern (21 bp):
TAAGAGCTGAACAGAAGCACA
Found at i:100013251 original size:24 final size:24
Alignment explanation
Indices: 100013219--100013285 Score: 107
Period size: 24 Copynumber: 2.8 Consensus size: 24
100013209 GGATAATTTG
*
100013219 CCGTCAATTCATCCTTTTCATATA
1 CCGTCAATTCATCCTTTGCATATA
* *
100013243 CCGTCAATTTATCCTTTGCATTTA
1 CCGTCAATTCATCCTTTGCATATA
100013267 CCGTCAATTCATCCTTTGC
1 CCGTCAATTCATCCTTTGC
100013286 CATAGAACGA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.21, C:0.30, G:0.07, T:0.42
Consensus pattern (24 bp):
CCGTCAATTCATCCTTTGCATATA
Found at i:100022706 original size:24 final size:25
Alignment explanation
Indices: 100022679--100022725 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
100022669 GCGTTACGAT
100022679 TGTA-AACCAAGTGATTTCCCTTCA
1 TGTAGAACCAAGTGATTTCCCTTCA
* *
100022703 TGTAGCATCAAGTGATTTCCCTT
1 TGTAGAACCAAGTGATTTCCCTT
100022726 GTCTTTGGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (25 bp):
TGTAGAACCAAGTGATTTCCCTTCA
Found at i:100023009 original size:61 final size:61
Alignment explanation
Indices: 100022914--100023038 Score: 250
Period size: 61 Copynumber: 2.0 Consensus size: 61
100022904 TGAGGGGGCT
100022914 TTTAGCATTTTAGCAATTCATATTCAGTTAAACACTTTTTAAAGTTCTCTCAACATGTTCC
1 TTTAGCATTTTAGCAATTCATATTCAGTTAAACACTTTTTAAAGTTCTCTCAACATGTTCC
100022975 TTTAGCATTTTAGCAATTCATATTCAGTTAAACACTTTTTAAAGTTCTCTCAACATGTTCC
1 TTTAGCATTTTAGCAATTCATATTCAGTTAAACACTTTTTAAAGTTCTCTCAACATGTTCC
100023036 TTT
1 TTT
100023039 TCTCAAGTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.29, C:0.19, G:0.08, T:0.44
Consensus pattern (61 bp):
TTTAGCATTTTAGCAATTCATATTCAGTTAAACACTTTTTAAAGTTCTCTCAACATGTTCC
Found at i:100023671 original size:20 final size:18
Alignment explanation
Indices: 100023628--100023668 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
100023618 GTAGATGAGG
*
100023628 CCGTGTGGTCACACACGC
1 CCGTGGGGTCACACACGC
*
100023646 CCGTGGGGTCACACACTC
1 CCGTGGGGTCACACACGC
100023664 CCGTG
1 CCGTG
100023669 TGGCTTGGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.15, C:0.39, G:0.29, T:0.17
Consensus pattern (18 bp):
CCGTGGGGTCACACACGC
Found at i:100032271 original size:11 final size:11
Alignment explanation
Indices: 100032255--100032281 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
100032245 CTTAGATGAG
100032255 CTCATATTAAT
1 CTCATATTAAT
100032266 CTCATATTAAT
1 CTCATATTAAT
100032277 CTCAT
1 CTCAT
100032282 TGAGTTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.44
Consensus pattern (11 bp):
CTCATATTAAT
Found at i:100037848 original size:20 final size:21
Alignment explanation
Indices: 100037823--100037870 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
100037813 TTGTGTGATT
*
100037823 AATTAGGTTTTAGTT-AGGTG
1 AATTAGGTTTGAGTTAAGGTG
*
100037843 AATTA-GTTTGAGTTAAGGTT
1 AATTAGGTTTGAGTTAAGGTG
100037863 AATTAGGT
1 AATTAGGT
100037871 GAGAGGACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 8 0.33
20 14 0.58
21 2 0.08
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (21 bp):
AATTAGGTTTGAGTTAAGGTG
Found at i:100038062 original size:5 final size:5
Alignment explanation
Indices: 100038054--100038154 Score: 175
Period size: 5 Copynumber: 19.6 Consensus size: 5
100038044 TAAAATAATA
100038054 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATTAT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATA-T-T ATATT ATATT
100038106 ATATT ATATT ATATT ATATT ATATT ATATT ATATAT ATATT ATATT ATA
1 ATATT ATATT ATATT ATATT ATATT ATATT ATAT-T ATATT ATATT ATA
100038155 ATAGTTTAAT
Statistics
Matches: 93, Mismatches: 0, Indels: 6
0.94 0.00 0.06
Matches are distributed among these distances:
5 82 0.88
6 7 0.08
7 4 0.04
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATATT
Found at i:100055912 original size:15 final size:15
Alignment explanation
Indices: 100055886--100055922 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
100055876 ATTGAGGTGA
100055886 GTATTGGTATTGAATT
1 GTATT-GTATTGAATT
100055902 GTATTGTATTGAATT
1 GTATTGTATTGAATT
*
100055917 GAATTG
1 GTATTG
100055923 GATTATGAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (15 bp):
GTATTGTATTGAATT
Found at i:100058755 original size:40 final size:40
Alignment explanation
Indices: 100058710--100058839 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
100058700 CGGAATACAA
100058710 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
100058750 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
100058790 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
100058830 CCGGATATAA
1 CCGGATATAA
100058840 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:100058854 original size:40 final size:40
Alignment explanation
Indices: 100058710--100058877 Score: 153
Period size: 40 Copynumber: 4.2 Consensus size: 40
100058700 CGGAATACAA
* **
100058710 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
100058750 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
100058790 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
100058830 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
100058870 CCGGATAT
1 CCGGATAT
100058878 CATTCAATTT
Statistics
Matches: 104, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 2 0.02
40 102 0.98
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:100066799 original size:40 final size:40
Alignment explanation
Indices: 100066754--100066883 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
100066744 CGGAATACAA
100066754 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
100066794 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
100066834 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
100066874 CCGGATATAA
1 CCGGATATAA
100066884 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:100066898 original size:40 final size:40
Alignment explanation
Indices: 100066754--100066921 Score: 153
Period size: 40 Copynumber: 4.2 Consensus size: 40
100066744 CGGAATACAA
* **
100066754 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
100066794 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
100066834 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
100066874 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
100066914 CCGGATAT
1 CCGGATAT
100066922 CATTCAATTT
Statistics
Matches: 104, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 2 0.02
40 102 0.98
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:100075177 original size:40 final size:40
Alignment explanation
Indices: 100075132--100075261 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
100075122 CGGAATACAA
100075132 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
100075172 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
100075212 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
100075252 CCGGATATAA
1 CCGGATATAA
100075262 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:100075276 original size:40 final size:40
Alignment explanation
Indices: 100075132--100075295 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
100075122 CGGAATACAA
* **
100075132 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
100075172 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
100075212 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
100075252 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
100075292 CCGG
1 CCGG
100075296 GTATCATTCA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:100077270 original size:19 final size:20
Alignment explanation
Indices: 100077233--100077271 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
100077223 AAAGGGACAT
*
100077233 TATGATTAAATTGTGATGTG
1 TATGATTAAATTATGATGTG
*
100077253 TATGA-TAAATTATTATGTG
1 TATGATTAAATTATGATGTG
100077272 ATTGTTCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
TATGATTAAATTATGATGTG
Found at i:100088564 original size:40 final size:40
Alignment explanation
Indices: 100088509--100088781 Score: 424
Period size: 40 Copynumber: 6.8 Consensus size: 40
100088499 TTATTTGATG
*
100088509 TGGAATGGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATCGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
100088549 TGGAATCGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATCGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
* *
100088589 TGGAATTGTATCCGGGCTTAAAGACTCGCAGGCTTCGTGC
1 TGGAATCGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
*
100088629 TGGAATCATATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATCGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
*
100088669 TGGAATCGTATCCGGGCTTAAAGACCCGCAGGCTTCATGC
1 TGGAATCGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
* * *
100088709 TGGAATTGTATCCAGGCTTAAAAACCCGCAGGCTTCGTGC
1 TGGAATCGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
* * *
100088749 TGGAAT-GACATCCGGG-TTAAAAACCTGCAGGCT
1 TGGAATCG-TATCCGGGCTTAAAGACCCGCAGGCT
100088782 GTGCTAGATA
Statistics
Matches: 217, Mismatches: 15, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
39 17 0.08
40 200 0.92
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.23
Consensus pattern (40 bp):
TGGAATCGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
Found at i:100098405 original size:13 final size:13
Alignment explanation
Indices: 100098378--100098410 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
100098368 TGCCAGAAGC
100098378 AATTAAAAAGAAA
1 AATTAAAAAGAAA
100098391 AATTAGAAAAGAAA
1 AATTA-AAAAGAAA
100098405 AATTAA
1 AATTAA
100098411 GCTAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (13 bp):
AATTAAAAAGAAA
Found at i:100099829 original size:27 final size:27
Alignment explanation
Indices: 100099791--100099858 Score: 127
Period size: 27 Copynumber: 2.5 Consensus size: 27
100099781 TGGTTTATCA
100099791 GGTATTTTGGTCATTTTACCCTATGGG
1 GGTATTTTGGTCATTTTACCCTATGGG
*
100099818 GGTATTTCGGTCATTTTACCCTATGGG
1 GGTATTTTGGTCATTTTACCCTATGGG
100099845 GGTATTTTGGTCAT
1 GGTATTTTGGTCAT
100099859 CACTTTAGCC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.15, C:0.15, G:0.26, T:0.44
Consensus pattern (27 bp):
GGTATTTTGGTCATTTTACCCTATGGG
Found at i:100107736 original size:10 final size:10
Alignment explanation
Indices: 100107720--100107758 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
100107710 CGAAAATAAC
100107720 TAAAATTAAT
1 TAAAATTAAT
*
100107730 CAAAATTAATT
1 TAAAATTAA-T
100107741 ATAAAATTAAT
1 -TAAAATTAAT
100107752 TAAAATT
1 TAAAATT
100107759 CAACATGTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 15 0.60
11 2 0.08
12 8 0.32
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (10 bp):
TAAAATTAAT
Found at i:100109066 original size:15 final size:15
Alignment explanation
Indices: 100109046--100109077 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
100109036 GACGATTTTA
*
100109046 TTTATTTTTTATATT
1 TTTATTTTTAATATT
100109061 TTTATTTTTAATATT
1 TTTATTTTTAATATT
100109076 TT
1 TT
100109078 GAACAATTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTATTTTTAATATT
Found at i:100110746 original size:14 final size:14
Alignment explanation
Indices: 100110714--100110745 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
100110704 CTTTTTTTAC
100110714 TAAAATAATAAATA
1 TAAAATAATAAATA
100110728 TAAAATAA-AAATA
1 TAAAATAATAAATA
100110741 TAAAA
1 TAAAA
100110746 AGCAAAACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (14 bp):
TAAAATAATAAATA
Found at i:100121301 original size:17 final size:17
Alignment explanation
Indices: 100121262--100121304 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
100121252 AATTCAAAAT
100121262 AAATTT-TAAAAGTTCA
1 AAATTTATAAAAGTTCA
*
100121278 AATATTTATAAAATTTCA
1 AA-ATTTATAAAAGTTCA
100121296 AAATTTATA
1 AAATTTATA
100121305 TTTTTTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 2 0.08
17 11 0.46
18 11 0.46
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (17 bp):
AAATTTATAAAAGTTCA
Found at i:100122171 original size:13 final size:13
Alignment explanation
Indices: 100122131--100122168 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
100122121 GAATACAATG
100122131 CTCTC-TCAAAAA
1 CTCTCATCAAAAA
*
100122143 CTCTCCTCAAAAA
1 CTCTCATCAAAAA
100122156 CTCTTCATCAAAA
1 CTC-TCATCAAAA
100122169 CTCAAATAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 5 0.22
13 10 0.43
14 8 0.35
ACGTcount: A:0.39, C:0.34, G:0.00, T:0.26
Consensus pattern (13 bp):
CTCTCATCAAAAA
Found at i:100123186 original size:93 final size:93
Alignment explanation
Indices: 100123027--100123213 Score: 365
Period size: 93 Copynumber: 2.0 Consensus size: 93
100123017 ATTATTCACT
*
100123027 TATCATTTGTGTCATTAGACCTTGAGCATTCAAGTTCAATCGACATCATTATCTTTTTTTTTTTC
1 TATCATTTGTGTCATTAGACCTTGAGCATTCAAGTTCAATCAACATCATTATCTTTTTTTTTTTC
100123092 TTCTATATCATGCATTTTCTCATAGCAA
66 TTCTATATCATGCATTTTCTCATAGCAA
100123120 TATCATTTGTGTCATTAGACCTTGAGCATTCAAGTTCAATCAACATCATTATCTTTTTTTTTTTC
1 TATCATTTGTGTCATTAGACCTTGAGCATTCAAGTTCAATCAACATCATTATCTTTTTTTTTTTC
100123185 TTCTATATCATGCATTTTCTCATAGCAA
66 TTCTATATCATGCATTTTCTCATAGCAA
100123213 T
1 T
100123214 GGCCGGTTCG
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 93 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (93 bp):
TATCATTTGTGTCATTAGACCTTGAGCATTCAAGTTCAATCAACATCATTATCTTTTTTTTTTTC
TTCTATATCATGCATTTTCTCATAGCAA
Found at i:100125098 original size:17 final size:17
Alignment explanation
Indices: 100125076--100125118 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
100125066 ATTTTATTTA
**
100125076 AAATGTCAATTTCCATC
1 AAATGTCAATTAACATC
*
100125093 AAATGTCCATTAACATC
1 AAATGTCAATTAACATC
100125110 AAAT-TCAAT
1 AAATGTCAAT
100125119 ACAATCATAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.33
Consensus pattern (17 bp):
AAATGTCAATTAACATC
Found at i:100129882 original size:19 final size:20
Alignment explanation
Indices: 100129850--100129889 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
100129840 ATATAATAAC
100129850 AAAACAAATAAGAAAAAGAA
1 AAAACAAATAAGAAAAAGAA
* *
100129870 AAAAGAAAT-AGAAATAGAA
1 AAAACAAATAAGAAAAAGAA
100129889 A
1 A
100129890 GCCAAAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.78, C:0.03, G:0.12, T:0.07
Consensus pattern (20 bp):
AAAACAAATAAGAAAAAGAA
Found at i:100130076 original size:17 final size:18
Alignment explanation
Indices: 100130054--100130087 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
100130044 CATGTCGGAA
100130054 TTTT-AACTATTATTAAG
1 TTTTAAACTATTATTAAG
*
100130071 TTTTAAACTATTGTTAA
1 TTTTAAACTATTATTAA
100130088 TGTTGAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (18 bp):
TTTTAAACTATTATTAAG
Found at i:100131913 original size:19 final size:21
Alignment explanation
Indices: 100131889--100131931 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
100131879 GCACGTAGGA
100131889 TGATTGT-TTTGA-CATGTTT
1 TGATTGTATTTGATCATGTTT
*
100131908 TGATTGTATTTGATCGTGTTT
1 TGATTGTATTTGATCATGTTT
100131929 TGA
1 TGA
100131932 ACTAGTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.33
20 5 0.24
21 9 0.43
ACGTcount: A:0.16, C:0.05, G:0.23, T:0.56
Consensus pattern (21 bp):
TGATTGTATTTGATCATGTTT
Found at i:100136705 original size:20 final size:20
Alignment explanation
Indices: 100136668--100136704 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
100136658 GACTAAATTG
*
100136668 AAAACTTAAGGAAATTTTAC
1 AAAACTTAAGAAAATTTTAC
100136688 AAAACTT-AGAAAATTTT
1 AAAACTTAAGAAAATTTT
100136705 TGCAATAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.32
Consensus pattern (20 bp):
AAAACTTAAGAAAATTTTAC
Found at i:100145418 original size:25 final size:24
Alignment explanation
Indices: 100145390--100145444 Score: 78
Period size: 22 Copynumber: 2.3 Consensus size: 24
100145380 CGGTCATATT
100145390 TTCTTATTTAAGCTCTAGAAATTCC
1 TTCTT-TTTAAGCTCTAGAAATTCC
*
100145415 TTC--TTTAAGCTCTAGAAATTCT
1 TTCTTTTTAAGCTCTAGAAATTCC
100145437 TTCTTTTT
1 TTCTTTTT
100145445 CTAATCCATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 21 0.78
24 3 0.11
25 3 0.11
ACGTcount: A:0.24, C:0.18, G:0.07, T:0.51
Consensus pattern (24 bp):
TTCTTTTTAAGCTCTAGAAATTCC
Found at i:100145422 original size:22 final size:22
Alignment explanation
Indices: 100145396--100145442 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
100145386 TATTTTCTTA
100145396 TTTAAGCTCTAGAAATTCCTTC
1 TTTAAGCTCTAGAAATTCCTTC
*
100145418 TTTAAGCTCTAGAAATTCTTTC
1 TTTAAGCTCTAGAAATTCCTTC
100145440 TTT
1 TTT
100145443 TTCTAATCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.26, C:0.19, G:0.09, T:0.47
Consensus pattern (22 bp):
TTTAAGCTCTAGAAATTCCTTC
Found at i:100149289 original size:21 final size:22
Alignment explanation
Indices: 100149265--100149306 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
100149255 TTATTCAATA
*
100149265 AAAATTATAA-AAACTAAAATT
1 AAAATAATAATAAACTAAAATT
*
100149286 AAAATAATAATAAAGTAAAAT
1 AAAATAATAATAAACTAAAAT
100149307 GAAATAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.26
Consensus pattern (22 bp):
AAAATAATAATAAACTAAAATT
Found at i:100158216 original size:29 final size:29
Alignment explanation
Indices: 100158182--100158259 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
100158172 GTGACGAGAT
* *
100158182 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
* *
100158211 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
**
100158240 CGGCACTGGGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
100158260 CGGAGGGTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:100165921 original size:29 final size:29
Alignment explanation
Indices: 100165887--100165964 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
100165877 GTGACGAGAT
* *
100165887 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
* *
100165916 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
**
100165945 CGGCACTGGGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
100165965 CGGAGGGTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:100168335 original size:7 final size:6
Alignment explanation
Indices: 100168302--100168406 Score: 75
Period size: 6 Copynumber: 17.0 Consensus size: 6
100168292 AAGGAAGAAG
* * *
100168302 AATAAA AATTAAA AATTAAA AATAAA AGTAAA AATAAA TAATAAT AATAAT
1 AATAAA AA-TAAA AA-TAAA AATAAA AATAAA AATAAA -AATAAA AATAAA
* * * * * ** * *
100168353 AATAAT AATAAT AATAAT AATAAT AATAAT AATAGT AATAAT AATAAT
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA
100168401 AATAAA
1 AATAAA
100168407 TAATTAAACT
Statistics
Matches: 91, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
6 73 0.80
7 18 0.20
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.29
Consensus pattern (6 bp):
AATAAA
Found at i:100168346 original size:3 final size:3
Alignment explanation
Indices: 100168338--100168410 Score: 128
Period size: 3 Copynumber: 24.0 Consensus size: 3
100168328 AGTAAAAATA
100168338 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
100168386 AGT AAT AAT AAT AAT AAT AAAT AAT
1 AAT AAT AAT AAT AAT AAT -AAT AAT
100168411 TAAACTAAAC
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
3 64 0.96
4 3 0.04
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:100175716 original size:46 final size:46
Alignment explanation
Indices: 100175609--100175780 Score: 143
Period size: 46 Copynumber: 3.7 Consensus size: 46
100175599 GGTCATTTGT
* * *
100175609 GAGAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAC
1 GAGAGCCAATGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGAC
* * * *
100175657 GAGTGCTATTGTAAGACATGTCTGGGACATGCATCAGTC-TCGAGAC
1 GAGAGCCAATGTAAGACATGTCTGGGACATGCATC-GGCATCGAGAC
* * *
100175703 GTA-AGCCAATGTAAGACATGTCTGGGACATGCGTTGGC-TACGAGAT
1 G-AGAGCCAATGTAAGACATGTCTGGGACATGCATCGGCAT-CGAGAC
* * * *
100175749 GATAGTCAGTGTAAGACAATGTCTAGGACATG
1 GAGAGCCAATGTAAGAC-ATGTCTGGGACATG
100175781 GCTTCAACTT
Statistics
Matches: 103, Mismatches: 16, Indels: 11
0.79 0.12 0.08
Matches are distributed among these distances:
45 4 0.04
46 57 0.55
47 30 0.29
48 12 0.12
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.24
Consensus pattern (46 bp):
GAGAGCCAATGTAAGACATGTCTGGGACATGCATCGGCATCGAGAC
Found at i:100183702 original size:29 final size:28
Alignment explanation
Indices: 100183668--100183770 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
100183658 TACTCAATCA
*
100183668 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
100183697 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
100183726 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
100183755 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
100183771 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:100189482 original size:15 final size:15
Alignment explanation
Indices: 100189462--100189492 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
100189452 TGACTGCCAT
100189462 GTCCTAATCAACCAC
1 GTCCTAATCAACCAC
100189477 GTCCTAATCAACCAC
1 GTCCTAATCAACCAC
100189492 G
1 G
100189493 ACCATAGCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.39, G:0.10, T:0.19
Consensus pattern (15 bp):
GTCCTAATCAACCAC
Found at i:100193455 original size:40 final size:40
Alignment explanation
Indices: 100193347--100193556 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
100193337 CGGGATTTAA
* * * * *
100193347 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
100193387 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
100193427 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
100193467 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
100193507 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
100193547 CCGGATATAT
1 CCGGATATAT
100193557 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:100198259 original size:93 final size:92
Alignment explanation
Indices: 100198101--100198270 Score: 313
Period size: 93 Copynumber: 1.8 Consensus size: 92
100198091 GCCCATAAGT
*
100198101 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCGCTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
100198166 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
*
100198193 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
100198258 CGAGTTCGGATGC
65 CGAGTTCGGATGC
100198271 TCAACCATCC
Statistics
Matches: 75, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
92 27 0.36
93 48 0.64
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCGCTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:100198286 original size:46 final size:46
Alignment explanation
Indices: 100198093--100198272 Score: 233
Period size: 45 Copynumber: 3.9 Consensus size: 46
100198083 TGTAACCCGC
* *
100198093 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
100198138 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
100198188 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
100198231 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
100198273 AACCATCCTA
Statistics
Matches: 116, Mismatches: 11, Indels: 15
0.82 0.08 0.11
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 37 0.32
46 37 0.32
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:100198721 original size:29 final size:29
Alignment explanation
Indices: 100198688--100198744 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
100198678 CAAAATCATA
100198688 TTTTGAAAAATTACAATTTTGCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCAAAC
* * * *
100198717 TTTTGCATATTTACACTTTTGCCCCAAA
1 TTTTGAAAAATTACAATTTTGCCCCAAA
100198745 GCTCGTAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.39
Consensus pattern (29 bp):
TTTTGAAAAATTACAATTTTGCCCCAAAC
Found at i:100199884 original size:96 final size:96
Alignment explanation
Indices: 100199761--100199940 Score: 274
Period size: 96 Copynumber: 1.9 Consensus size: 96
100199751 ACTTGTCGAG
* *
100199761 GCCGATGCCATGTCCCAAACATGGTCTTACACTAG-CTCTTATCTCAGT-GCCGATACCATGTCC
1 GCCGATGCCATGTCCCAAACATGGTCTTACACT-GTCTCTTATATC-GTGGCCAATACCATGTCC
*
100199824 CAGACATGGTCTTACACTGGCTCTCACAACATC
64 CAAACATGGTCTTACACTGGCTCTCACAACATC
* * *
100199857 GCCGATGCCATGTTCCAACCATGGTCTTACACTGTCTCTTATATCGTGGCCAATGCCATGTCCCA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGTCTCTTATATCGTGGCCAATACCATGTCCCA
100199922 AACATGGTCTTACACTGGC
66 AACATGGTCTTACACTGGC
100199941 ACACATATCA
Statistics
Matches: 76, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
95 3 0.04
96 73 0.96
ACGTcount: A:0.23, C:0.32, G:0.18, T:0.27
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTGTCTCTTATATCGTGGCCAATACCATGTCCCA
AACATGGTCTTACACTGGCTCTCACAACATC
Found at i:100199949 original size:48 final size:48
Alignment explanation
Indices: 100199716--100199949 Score: 245
Period size: 48 Copynumber: 4.9 Consensus size: 48
100199706 GTGAATTGCT
* * * * * * *
100199716 GATGCCATGTTCCAAACATGGACTTACATTGGCTCACTTGTCGAGGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCGTGGCC
* * *
100199764 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTTATCTCAGT-GCC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATC-GTGGCC
* * * * * *
100199812 GATACCATGTCCCAGACATGGTCTTACACTGGCTCTCACAACATCGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCGTGGCC
* * * *
100199860 GATGCCATGTTCCAACCATGGTCTTACACTGTCTCTTATATCGTGGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCGTGGCC
* * *
100199908 AATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATC
100199950 ACCCAAATTT
Statistics
Matches: 150, Mismatches: 34, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
47 1 0.01
48 148 0.99
49 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCGTGGCC
Found at i:100202014 original size:23 final size:23
Alignment explanation
Indices: 100201966--100202014 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
100201956 TGCTAAAGTC
* **
100201966 TAACTTTTTCCCAAAGCCTGTTG
1 TAACTTTTTCCCAAAACCTGAAG
100201989 TAACTTTTT-CCAAAACCTCGAAG
1 TAACTTTTTCCCAAAACCT-GAAG
100202012 TAA
1 TAA
100202015 ACCTTAGATC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.35
Consensus pattern (23 bp):
TAACTTTTTCCCAAAACCTGAAG
Found at i:100205266 original size:27 final size:27
Alignment explanation
Indices: 100205228--100205283 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
100205218 TGGCCATATC
100205228 ATAAAATTATTTACACAAAATAGGTAT
1 ATAAAATTATTTACACAAAATAGGTAT
100205255 ATAAAATTATTTACACAAAATAGGTAT
1 ATAAAATTATTTACACAAAATAGGTAT
100205282 AT
1 AT
100205284 TGCTATACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.34
Consensus pattern (27 bp):
ATAAAATTATTTACACAAAATAGGTAT
Found at i:100205532 original size:19 final size:20
Alignment explanation
Indices: 100205508--100205545 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
100205498 GGTACCACCA
100205508 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
100205527 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
100205546 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:100205837 original size:46 final size:45
Alignment explanation
Indices: 100205770--100205940 Score: 159
Period size: 46 Copynumber: 3.7 Consensus size: 45
100205760 AACCCGCCCC
* *
100205770 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT-CA
* * * *
100205816 TAAGTGAACTCGGACTCAACTCAAAGAGTTCGGATGCCTAGTTACAT-T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-ATTTGCATCA
* * * ** *
100205864 TCA-CGAACTCGGACTCAACTCAACGAGTTTGAACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT-CA
100205909 TAAGTGAA-TCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
100205941 ATGCTCAACC
Statistics
Matches: 98, Mismatches: 20, Indels: 15
0.74 0.15 0.11
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 24 0.24
46 34 0.35
47 25 0.26
48 3 0.03
49 1 0.01
50 5 0.05
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.23
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCA
Found at i:100205883 original size:93 final size:92
Alignment explanation
Indices: 100205775--100205944 Score: 259
Period size: 93 Copynumber: 1.8 Consensus size: 92
100205765 GCCCCTAAGT
** * *
100205775 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATACATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATACATAAGTGAA-TCGGACTCAACTCAA
100205840 AGAGTTCGGATGCCTAGTTACATTTCAC
65 AGAGTTCGGATGCCTAGTTACATTTCAC
* * * *
100205868 GAACTCGGACTCAACTCAACGAGTTTGAACATTCGCATCCATAAGTGAATCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATACATAAGTGAATCGGACTCAACTCAAA
100205933 GAGTTCGGATGC
66 GAGTTCGGATGC
100205945 TCAACCATCC
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
92 27 0.39
93 42 0.61
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATACATAAGTGAATCGGACTCAACTCAAA
GAGTTCGGATGCCTAGTTACATTTCAC
Found at i:100209476 original size:40 final size:39
Alignment explanation
Indices: 100209406--100209543 Score: 181
Period size: 40 Copynumber: 3.5 Consensus size: 39
100209396 AAACCAAGTA
* * *
100209406 CCTTTGGGATTTAG-CCGGATATAGCTACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCGCACAAATG
100209445 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATG
* *
100209485 CCTTCGGGGCTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGT-ACTCGCACAAATG
100209525 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
100209544 TTATCATCCG
Statistics
Matches: 89, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
39 14 0.16
40 75 0.84
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.25
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATG
Found at i:100217431 original size:40 final size:40
Alignment explanation
Indices: 100217354--100217612 Score: 389
Period size: 40 Copynumber: 6.5 Consensus size: 40
100217344 AAACCAAGTA
* *
100217354 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
100217393 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
100217433 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
100217473 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
100217513 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
100217553 CCTTTCGGGGCTTAGCCC-GAAATTAGTCACTAGCACAAATG
1 CC-TTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
100217594 CCTTCGGAACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
100217613 TTATCATCCG
Statistics
Matches: 203, Mismatches: 12, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
39 14 0.07
40 156 0.77
41 33 0.16
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:100224337 original size:19 final size:20
Alignment explanation
Indices: 100224313--100224350 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
100224303 GGTACCACCA
100224313 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
100224332 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
100224351 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:100224691 original size:92 final size:92
Alignment explanation
Indices: 100224580--100224749 Score: 313
Period size: 92 Copynumber: 1.8 Consensus size: 92
100224570 GCCCCTAAGT
* *
100224580 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
100224645 CGAGTTCGGATGCCTAGTTACATTCAC
66 CGAGTTCGGATGCCTAGTTACATTCAC
*
100224672 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
100224737 CGAGTTCGGATGC
66 CGAGTTCGGATGC
100224750 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTCAC
Found at i:100224746 original size:46 final size:46
Alignment explanation
Indices: 100224575--100224746 Score: 217
Period size: 46 Copynumber: 3.7 Consensus size: 46
100224565 AACCCGCCCC
* * *
100224575 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
100224621 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CTAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--TCCA
* *
100224667 TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
100224713 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
100224747 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 95 0.88
47 2 0.02
48 4 0.04
49 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:100224765 original size:46 final size:46
Alignment explanation
Indices: 100224577--100224765 Score: 151
Period size: 46 Copynumber: 4.1 Consensus size: 46
100224567 CCCGCCCCTA
* ** * *
100224577 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC-T
*
100224622 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATTC-
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCCT
* * * * *
100224670 A-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCCT
100224715 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
100224761 AGTGA
1 AGTGA
100224766 CATGTCACTT
Statistics
Matches: 116, Mismatches: 13, Indels: 28
0.74 0.08 0.18
Matches are distributed among these distances:
44 9 0.08
45 2 0.02
46 95 0.82
47 1 0.01
48 4 0.03
49 1 0.01
50 4 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
Found at i:100228343 original size:30 final size:29
Alignment explanation
Indices: 100228286--100228343 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
100228276 AACCTACACA
* *
100228286 ACATTAACCAAAACCAATCCAAGCATAAC
1 ACATTAACCAAAACCAACCCAACCATAAC
100228315 ACATATAACCAAAA-CAACCACAACCATAA
1 ACAT-TAACCAAAACCAACC-CAACCATAA
100228344 GAAATTTGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 8 0.32
30 17 0.68
ACGTcount: A:0.55, C:0.31, G:0.02, T:0.12
Consensus pattern (29 bp):
ACATTAACCAAAACCAACCCAACCATAAC
Found at i:100229054 original size:48 final size:48
Alignment explanation
Indices: 100228978--100229212 Score: 256
Period size: 48 Copynumber: 4.9 Consensus size: 48
100228968 GATGAATTGT
* * * *
100228978 CGATACCATGTTCCAAACATGGTCTTACACTAGCTCACATGTCGAGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATCGAGGC
* * *
100229026 CAATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATCGAGGC
* * * * * *
100229074 CGATGCCATGTCCCAAATATGGTCTTACACTGGCTCTCACAAC-ATCGT
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATCGA-GGC
* * * * *
100229122 CGATGCCATGTTCAAAACATGGTCTTACATTGGCTCTCATATCGTGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATCGAGGC
* * * *
100229170 TGATGCCATGTCCTAGACATGGTCTTACACTGGCACACATATC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATC
100229213 ACCCAAATGT
Statistics
Matches: 155, Mismatches: 30, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
47 1 0.01
48 154 0.99
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.27
Consensus pattern (48 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATCGAGGC
Found at i:100233617 original size:31 final size:31
Alignment explanation
Indices: 100233582--100233647 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
100233572 ACAATTTGGC
* *
100233582 CACTAAACTATTTAGAAATTTTCATTTAAGT
1 CACTAAACTATTCAGAAATTTTCATTTAAGA
* * *
100233613 CACTAAACTATTCATAAGTTTTTATTTAAGA
1 CACTAAACTATTCAGAAATTTTCATTTAAGA
100233644 CACT
1 CACT
100233648 TGGCTATTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.41
Consensus pattern (31 bp):
CACTAAACTATTCAGAAATTTTCATTTAAGA
Found at i:100242388 original size:117 final size:117
Alignment explanation
Indices: 100242209--100242467 Score: 464
Period size: 117 Copynumber: 2.2 Consensus size: 117
100242199 ACAGTTGGGT
100242209 ACACGGGCGTGTGTCTAGGCCGTGTGTGACACACAGGCCACAGCCGTGGGCGTGTGGCATGGTCG
1 ACACGGGCGTGTGTCTAGGCCGTGTGTGACACACAGGCCACAGCCGTGGGCGTGTGGCATGGTCG
*
100242274 TGTGTCCCCTGCATCTAAAATGGTAAGTCTGTTAAATAAACACGGGCTAGAC
66 TGTGTCCCCTGCATCTAAAATGGTAAGTATGTTAAATAAACACGGGCTAGAC
* * *
100242326 ACACGGGCGTGTGTCTAGGCCGTGTGTGACACACGGGCCACAGCCTTGGGTGTGTGGCATGGTCG
1 ACACGGGCGTGTGTCTAGGCCGTGTGTGACACACAGGCCACAGCCGTGGGCGTGTGGCATGGTCG
100242391 TGTGTCCCCTGCATCTAAAATGGTAAGTATGTTAAATAAACACGGGCTAGAC
66 TGTGTCCCCTGCATCTAAAATGGTAAGTATGTTAAATAAACACGGGCTAGAC
* *
100242443 ACACGGGCGTGTGTCTTGACCGTGT
1 ACACGGGCGTGTGTCTAGGCCGTGT
100242468 AGATTTAACA
Statistics
Matches: 136, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
117 136 1.00
ACGTcount: A:0.21, C:0.23, G:0.32, T:0.24
Consensus pattern (117 bp):
ACACGGGCGTGTGTCTAGGCCGTGTGTGACACACAGGCCACAGCCGTGGGCGTGTGGCATGGTCG
TGTGTCCCCTGCATCTAAAATGGTAAGTATGTTAAATAAACACGGGCTAGAC
Found at i:100256750 original size:13 final size:15
Alignment explanation
Indices: 100256732--100256765 Score: 54
Period size: 13 Copynumber: 2.4 Consensus size: 15
100256722 AATACCAATA
100256732 AATAAATAAAA-T-T
1 AATAAATAAAAGTCT
100256745 AATAAATAAAAGTCT
1 AATAAATAAAAGTCT
100256760 AATAAA
1 AATAAA
100256766 CAGTCTAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.58
14 1 0.05
15 7 0.37
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (15 bp):
AATAAATAAAAGTCT
Found at i:100257709 original size:12 final size:11
Alignment explanation
Indices: 100257696--100257729 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
100257686 ACTTCATTAT
100257696 TTTTATTTTTA
1 TTTTATTTTTA
*
100257707 TTTTATTATTTC
1 TTTTATT-TTTA
100257719 TTTTATTTTTA
1 TTTTATTTTTA
100257730 ATGCTTTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:100258006 original size:17 final size:17
Alignment explanation
Indices: 100257947--100257988 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
100257937 GATTAGTACC
100257947 ATTATTATAAAATCGAT
1 ATTATTATAAAATCGAT
*
100257964 ATTATTATAAAATTGAT
1 ATTATTATAAAATCGAT
*
100257981 GTTATTAT
1 ATTATTAT
100257989 TATTATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (17 bp):
ATTATTATAAAATCGAT
Found at i:100258013 original size:23 final size:23
Alignment explanation
Indices: 100257964--100258017 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
100257954 TAAAATCGAT
* *
100257964 ATTATTATAAAATTGATGTTATT
1 ATTATTATAAAATTGATATTATC
* *
100257987 ATTATTATAAAATTGGTATTCTC
1 ATTATTATAAAATTGATATTATC
100258010 ATTATTAT
1 ATTATTAT
100258018 TGTAGTTGCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (23 bp):
ATTATTATAAAATTGATATTATC
Found at i:100275166 original size:61 final size:62
Alignment explanation
Indices: 100275085--100275208 Score: 205
Period size: 61 Copynumber: 2.0 Consensus size: 62
100275075 CACACTTCAG
* *
100275085 ACTTCAAACTCTTTCTGTTTGGCCCATTTTACTATTTAAAAATAATCATAAATATTTAAAACA
1 ACTTCAAACTC-TTCAGTTTGGCCCATTTTACTATTTAAAAACAATCATAAATATTTAAAACA
*
100275148 ACTTCAAACTC-TCAGTTTGGTCCATTTTACTATTTAAAAACAATCATAAATATTTAAAACA
1 ACTTCAAACTCTTCAGTTTGGCCCATTTTACTATTTAAAAACAATCATAAATATTTAAAACA
100275209 TATACTTTAT
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
61 47 0.81
63 11 0.19
ACGTcount: A:0.40, C:0.18, G:0.05, T:0.38
Consensus pattern (62 bp):
ACTTCAAACTCTTCAGTTTGGCCCATTTTACTATTTAAAAACAATCATAAATATTTAAAACA
Found at i:100276803 original size:21 final size:21
Alignment explanation
Indices: 100276738--100276803 Score: 69
Period size: 25 Copynumber: 3.0 Consensus size: 21
100276728 TATCCAACCA
*
100276738 AATAAATTTAATATCTAACAT
1 AATAAATTCAATATCTAACAT
* *
100276759 AATAAATTCAACAAGCTTAAAACAT
1 AATAAATTCAA-TATC-T--AACAT
100276784 AATAAATTCAATATCTAACA
1 AATAAATTCAATATCTAACA
100276804 AATTCAAGAC
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
21 14 0.39
22 2 0.06
23 2 0.06
24 2 0.06
25 16 0.44
ACGTcount: A:0.55, C:0.14, G:0.02, T:0.30
Consensus pattern (21 bp):
AATAAATTCAATATCTAACAT
Found at i:100276804 original size:32 final size:32
Alignment explanation
Indices: 100276777--100276837 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
100276767 CAACAAGCTT
* *
100276777 AAAACATAATAAATTCAATATCTAACAAATTC
1 AAAACATAATAAATTCAAAATCCAACAAATTC
* *
100276809 AAGACATAATAATTTCAAAATCCAACAAA
1 AAAACATAATAAATTCAAAATCCAACAAA
100276838 CTAAAATTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.57, C:0.16, G:0.02, T:0.25
Consensus pattern (32 bp):
AAAACATAATAAATTCAAAATCCAACAAATTC
Found at i:100280625 original size:24 final size:25
Alignment explanation
Indices: 100280579--100280628 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
100280569 AGTAACGAAC
**
100280579 AAGAAGAAAAAAAAAGAGTTTTAAA
1 AAGAAGAAAAAAAAAGAACTTTAAA
*
100280604 AAGAAG-AAAAAACAGAACTTTAAA
1 AAGAAGAAAAAAAAAGAACTTTAAA
100280628 A
1 A
100280629 TGAACATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.68, C:0.04, G:0.14, T:0.14
Consensus pattern (25 bp):
AAGAAGAAAAAAAAAGAACTTTAAA
Found at i:100291503 original size:1 final size:1
Alignment explanation
Indices: 100291497--100291521 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
100291487 CTCGTCTTTC
100291497 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
100291522 GAACCATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:100292606 original size:56 final size:56
Alignment explanation
Indices: 100292523--100292636 Score: 210
Period size: 56 Copynumber: 2.0 Consensus size: 56
100292513 TTATTTTCAA
*
100292523 TCACAAGAATGGGTTAAAGAGATAAATTTACTGCCATGATGAGTACTGCACTGTTT
1 TCACAAGAATGGGTTAAAGAGATAAATTTACTGCCATGATGAGTACTGCACTATTT
*
100292579 TCACAAGAATGGGTTAAAGGGATAAATTTACTGCCATGATGAGTACTGCACTATTT
1 TCACAAGAATGGGTTAAAGAGATAAATTTACTGCCATGATGAGTACTGCACTATTT
100292635 TC
1 TC
100292637 CCACCAATCT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (56 bp):
TCACAAGAATGGGTTAAAGAGATAAATTTACTGCCATGATGAGTACTGCACTATTT
Found at i:100296350 original size:20 final size:21
Alignment explanation
Indices: 100296327--100296365 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
100296317 ATTACTTACC
*
100296327 ATAAACATTAA-AATTAAAAT
1 ATAAAAATTAATAATTAAAAT
100296347 ATAAAAATTAATAATTAAA
1 ATAAAAATTAATAATTAAA
100296366 TTCGGATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAAAAATTAATAATTAAAAT
Found at i:100296521 original size:23 final size:24
Alignment explanation
Indices: 100296467--100296521 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 24
100296457 TAGCTACGGA
100296467 AATTAAA-ACAATTAAAATTTATC
1 AATTAAATACAATTAAAATTTATC
100296490 AA-TACAATACAATT-AAATTT-TC
1 AATTA-AATACAATTAAAATTTATC
100296512 ACATTAAATA
1 A-ATTAAATA
100296522 TTTCAATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
22 5 0.18
23 15 0.54
24 8 0.29
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.35
Consensus pattern (24 bp):
AATTAAATACAATTAAAATTTATC
Found at i:100297056 original size:5 final size:5
Alignment explanation
Indices: 100297046--100297093 Score: 96
Period size: 5 Copynumber: 9.6 Consensus size: 5
100297036 TATTATTATA
100297046 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
100297094 TATTCTTAAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 43 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:100297158 original size:19 final size:20
Alignment explanation
Indices: 100297121--100297159 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
100297111 TAGTATAATT
*
100297121 TATTATTTTATACATATGTA
1 TATTATTTTATACACATGTA
100297141 TATTATTTT-TACACATGTA
1 TATTATTTTATACACATGTA
100297160 AACACCAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.33, C:0.08, G:0.05, T:0.54
Consensus pattern (20 bp):
TATTATTTTATACACATGTA
Found at i:100298255 original size:325 final size:324
Alignment explanation
Indices: 100297666--100298281 Score: 934
Period size: 325 Copynumber: 1.9 Consensus size: 324
100297656 ACACATCCTG
* * *
100297666 TTGATACAGTGATACAACGAGGGAATACGTAAGAAGATGTGGTGGAGCTAATGGAGGTCGGTTCA
1 TTGATACAGTGATACAACGAAGGAATACATAAGAAGATGTGGTGGAGCTAATAGAGGTCGGTTCA
* * * *
100297731 CCCAATCGGAGTGAGAGCCGAAGTTTGCAAAGAGTGAAAGTGGAGAAAGTATGAAGGCTAAGTGT
66 CCCAATCGGAGTGAGAGCCGAAGATTACAAAGAGTGAAAGTGGAGAAAGTATGAAGGATAAGTGC
* *
100297796 TGAGGGTCAACTAGCAGAGTATAGGTAAGTATATCTCGGAGAGTCGATCAATTGATCATCGTTTT
131 TGAGGGTCAACTAGCAGAGTATAGGCAAGTATATCTCGGAGAGTCGATCAATTGATCATCATTTT
*
100297861 GGAGGCTATTTATGGGCAAGGTCCCATGTAGGATGATGTTAACGTGTTGAGCCCGTAACTAGGCC
196 GGAGGCTATTTATGGGCAAGGTCCCATGTAGGATGACGTTAACGTGTTGAGCCCGTAACTAGGCC
**
100297926 ATCATTGTGGGACGTGTGGGGCGAATGTCTTCTATAGGACAAGTGGCTAGAAGTACATACCTTC
261 ATCATTGTGGGACGTGTAAGGCGAATGTCTTCTATAGGACAAGTGGCTAGAAGTACATACCTTC
* * * *
100297990 TTGATACATTGATACAATGAAGGAATACATAGGAAGATGTGGTGGAGCTAATAGAGGTCGGTTTA
1 TTGATACAGTGATACAACGAAGGAATACATAAGAAGATGTGGTGGAGCTAATAGAGGTCGGTTCA
** *
100298055 CCCAATCAGG-GTGGAGAGTTGAAGATTACAAAGAGTGAAAGTGGAGAAAGTATGAATGATAAGT
66 CCCAATC-GGAGT-GAGAGCCGAAGATTACAAAGAGTGAAAGTGGAGAAAGTATGAAGGATAAGT
* * **
100298119 GCTGAGGGTCAACT-GACAGAGTGTAGGCAAGTATATCTCTGAGAGTCGATCCCTTGATCATCAT
129 GCTGAGGGTCAACTAG-CAGAGTATAGGCAAGTATATCTCGGAGAGTCGATCAATTGATCATCAT
100298183 TTTGGAGGCTATTTATGGGCAAGGT-CC-TGTACAGGATGACGTTAACGTGTTGAGCCCGTAACT
193 TTTGGAGGCTATTTATGGGCAAGGTCCCATGT--AGGATGACGTTAACGTGTTGAGCCCGTAACT
* *
100298246 AGGCCATCATTGTTGGACGTGTAAGGTGAATGTCTT
256 AGGCCATCATTGTGGGACGTGTAAGGCGAATGTCTT
100298282 TGATGGGATG
Statistics
Matches: 262, Mismatches: 25, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
323 3 0.01
324 70 0.27
325 189 0.72
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.26
Consensus pattern (324 bp):
TTGATACAGTGATACAACGAAGGAATACATAAGAAGATGTGGTGGAGCTAATAGAGGTCGGTTCA
CCCAATCGGAGTGAGAGCCGAAGATTACAAAGAGTGAAAGTGGAGAAAGTATGAAGGATAAGTGC
TGAGGGTCAACTAGCAGAGTATAGGCAAGTATATCTCGGAGAGTCGATCAATTGATCATCATTTT
GGAGGCTATTTATGGGCAAGGTCCCATGTAGGATGACGTTAACGTGTTGAGCCCGTAACTAGGCC
ATCATTGTGGGACGTGTAAGGCGAATGTCTTCTATAGGACAAGTGGCTAGAAGTACATACCTTC
Found at i:100301145 original size:25 final size:25
Alignment explanation
Indices: 100301111--100301160 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
100301101 GGTACTCACA
100301111 ACAAGTGGCAATAATTGCAAAAGTT
1 ACAAGTGGCAATAATTGCAAAAGTT
100301136 ACAAGTGGCAATAATTGCAAAAGTT
1 ACAAGTGGCAATAATTGCAAAAGTT
100301161 TTCATCTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.12, G:0.20, T:0.24
Consensus pattern (25 bp):
ACAAGTGGCAATAATTGCAAAAGTT
Found at i:100306091 original size:20 final size:19
Alignment explanation
Indices: 100306055--100306105 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
100306045 AAGGGCTATT
*
100306055 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTGAAATAA
100306074 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTGAAATAA
100306094 TTG-AAAT-TGTGA
1 TTGTAAATGTGTGA
100306106 GTTGCTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 3 0.10
20 16 0.55
21 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (19 bp):
TTGTAAATGTGTGAAATAA
Found at i:100306818 original size:47 final size:44
Alignment explanation
Indices: 100306755--100306876 Score: 138
Period size: 47 Copynumber: 2.6 Consensus size: 44
100306745 TATGTGTGCT
* * *
100306755 AGTGTAAAACATGTCTGGGACATGCATTGGCTACATT-ATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-T--ATTGACGAGAGCC
*
100306801 AGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGTATT--GACGAGAGCC
100306849 AGTGTAAGACATGTCTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
100306877 AGCCTCGAGA
Statistics
Matches: 67, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
45 3 0.04
46 13 0.19
47 29 0.43
48 22 0.33
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.25
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGTATTGACGAGAGCC
Found at i:100307068 original size:49 final size:47
Alignment explanation
Indices: 100306791--100307068 Score: 176
Period size: 49 Copynumber: 5.8 Consensus size: 47
100306781 TTGGCTACAT
** *
100306791 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTAT-TGA
1 TATGAGAG-CAGTGTAAGACC-TGTCTGGGACATGGCATCGGCCTCGGA
* * * *
100306839 GACGAGAGCTAGTGTAAGACATGTCTGGGACAT-GCATCAGCCTCGAGA
1 TATGAGAGC-AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCG-GA
* * * * * *
100306887 TAT-ACAAGCTAGTGTAAGACTTGTCTGAGACATGGCGTCAG-CT-TGA
1 TATGA-GAGC-AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGGA
* * * * * *
100306933 TGTGTG-TCAGTGTAAGACCTGTCTAGGACATGGCATTGACAC-C-GA
1 TATGAGAGCAGTGTAAGACCTGTCTGGGACATGGCATCGGC-CTCGGA
* * * *
100306978 TAGATGAGAGCCAGTGTAAGACTTGTTTGGGACACGACATCGGCCTCGGTA
1 T--ATGAGAG-CAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGG-A
*
100307029 TATGAAAGTCAGTGTAAGACCTGTCTGGGACATGGCATCG
1 TATGAGAG-CAGTGTAAGACCTGTCTGGGACATGGCATCG
100307069 ACTTTAATGT
Statistics
Matches: 173, Mismatches: 41, Indels: 31
0.71 0.17 0.13
Matches are distributed among these distances:
44 24 0.14
45 4 0.02
46 12 0.07
47 17 0.10
48 47 0.27
49 66 0.38
50 1 0.01
51 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (47 bp):
TATGAGAGCAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGGA
Done.