Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 263 of 333
Found at i:86996615 original size:13 final size:13
Alignment explanation
Indices: 86996597--86996622 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
86996587 CTCTGCATTC
86996597 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
86996610 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
86996623 AGCAAATCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:86999860 original size:6 final size:6
Alignment explanation
Indices: 86999851--86999925 Score: 78
Period size: 6 Copynumber: 11.7 Consensus size: 6
86999841 TTTTTCGTTT
* *
86999851 TTTTTA TTTTTTA TTTTTTA TTTTTA TTTTTA TCTTTA TCTTTA TTTTTA
1 TTTTTA -TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
86999901 TTTGTA GTTGCTTTA TTTTTA TTTT
1 TTTTTA -TT--TTTA TTTTTA TTTT
86999926 CTTAGACTTA
Statistics
Matches: 61, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
6 41 0.67
7 15 0.25
8 2 0.03
9 3 0.05
ACGTcount: A:0.15, C:0.04, G:0.04, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:86999860 original size:7 final size:7
Alignment explanation
Indices: 86999850--86999881 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
86999840 CTTTTTCGTT
86999850 TTTTTTA
1 TTTTTTA
86999857 TTTTTTA
1 TTTTTTA
86999864 TTTTTTA
1 TTTTTTA
86999871 -TTTTTA
1 TTTTTTA
86999877 TTTTT
1 TTTTT
86999882 ATCTTTATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:86999899 original size:44 final size:45
Alignment explanation
Indices: 86999828--86999925 Score: 112
Period size: 45 Copynumber: 2.2 Consensus size: 45
86999818 TATCATTAAG
* * * *
86999828 TTTATTTCTTTTCTTTTTCGTTTTTTTTATTTTTTA-TT-TTTTATT
1 TTTATTT-TTATCTTTATCGTTTTTTTTA-TTTGTAGTTGCTTTATT
86999873 TTTATTTTTATCTTTATC-TTTATTTTTATTTGTAGTTGCTTTATT
1 TTTATTTTTATCTTTATCGTTT-TTTTTATTTGTAGTTGCTTTATT
86999918 TTTATTTT
1 TTTATTTT
86999926 CTTAGACTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
43 8 0.17
44 17 0.37
45 21 0.46
ACGTcount: A:0.12, C:0.06, G:0.04, T:0.78
Consensus pattern (45 bp):
TTTATTTTTATCTTTATCGTTTTTTTTATTTGTAGTTGCTTTATT
Found at i:87006517 original size:23 final size:23
Alignment explanation
Indices: 87006448--87006534 Score: 72
Period size: 23 Copynumber: 3.8 Consensus size: 23
87006438 TACCGGTATA
* *
87006448 TCAACTCGTAAGAGCTTATTGTTT
1 TCAACTCATATGAGCTTATTG-TT
* * *
87006472 TCAGCTCAT-TAGAGCATACTGTT
1 TCAACTCATAT-GAGCTTATTGTT
87006495 TCAACTCATATGAGCTTATTG-T
1 TCAACTCATATGAGCTTATTGTT
*
87006517 TCAGCTCGATA-GAGCTTA
1 TCAACTC-ATATGAGCTTA
87006535 CCATTTCAGC
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
22 14 0.27
23 21 0.41
24 16 0.31
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (23 bp):
TCAACTCATATGAGCTTATTGTT
Found at i:87006542 original size:45 final size:44
Alignment explanation
Indices: 87006448--87006581 Score: 119
Period size: 45 Copynumber: 2.9 Consensus size: 44
87006438 TACCGGTATA
* * * **
87006448 TCAACTCGTAAGAGCTTATTGTTTTCAGCTCATTAGAGCATACTGTT
1 TCAACTCATATGAGCTTATTG--TTCAGCTCA-TAGAGCTTACCATT
87006495 TCAACTCATATGAGCTTATTGTTCAGCTCGATAGAGCTTACCATT
1 TCAACTCATATGAGCTTATTGTTCAGCTC-ATAGAGCTTACCATT
* *
87006540 TCAGCTCA-ATAGAGCTTACTAT-TTCAGCTAAATAGAGCTTAC
1 TCAACTCATAT-GAGCTTA-T-TGTTCAGCT-CATAGAGCTTAC
87006582 TATTCATCAA
Statistics
Matches: 75, Mismatches: 7, Indels: 11
0.81 0.08 0.12
Matches are distributed among these distances:
44 2 0.03
45 33 0.44
46 20 0.27
47 20 0.27
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (44 bp):
TCAACTCATATGAGCTTATTGTTCAGCTCATAGAGCTTACCATT
Found at i:87006582 original size:23 final size:23
Alignment explanation
Indices: 87006470--87006585 Score: 130
Period size: 23 Copynumber: 5.1 Consensus size: 23
87006460 AGCTTATTGT
* * *
87006470 TTTCAGCTCATTAGAGCATACTG
1 TTTCAGCTCAATAGAGCTTACTA
*
87006493 TTTCAACTC-ATATGAGCTTA-T-
1 TTTCAGCTCAATA-GAGCTTACTA
* *
87006514 TGTTCAGCTCGATAGAGCTTACCA
1 T-TTCAGCTCAATAGAGCTTACTA
87006538 TTTCAGCTCAATAGAGCTTACTA
1 TTTCAGCTCAATAGAGCTTACTA
*
87006561 TTTCAGCTAAATAGAGCTTACTA
1 TTTCAGCTCAATAGAGCTTACTA
87006584 TT
1 TT
87006586 CATCAACTAA
Statistics
Matches: 80, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
21 1 0.01
22 17 0.21
23 61 0.76
24 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (23 bp):
TTTCAGCTCAATAGAGCTTACTA
Found at i:87016696 original size:40 final size:39
Alignment explanation
Indices: 87016652--87016836 Score: 228
Period size: 40 Copynumber: 4.7 Consensus size: 39
87016642 GCCACTAGCT
*
87016652 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
*
87016692 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
*
87016731 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* * * * ** * *
87016771 CGAATGCCTTTGGGACTTAGCCTGGAATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
87016811 CAAATG-CTCTCGGGACTTAGCCCGGT
1 CAAATGCCT-TCGGGACTTAGCCCGGT
87016837 TATCATCCGA
Statistics
Matches: 125, Mismatches: 17, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
39 40 0.32
40 85 0.68
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:87016750 original size:79 final size:80
Alignment explanation
Indices: 87016645--87016839 Score: 250
Period size: 79 Copynumber: 2.5 Consensus size: 80
87016635 GGATATAGCC
* *
87016645 ACTAGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTT
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTT
* *
87016710 AGCCCGGTA-TAATA
66 AGCCCGGAATTAACA
* * * * *
87016724 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACGAATGCCTTTGGGACTT
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTT
* * *
87016789 AGCCTGGAATTAGCC
66 AGCCCGGAATTAACA
*
87016804 ACTAGCTCAAATG-CTCTCGGGACTTAGCCCGGTTAT
1 ACTAGCACAAATGCCT-TCGGGACTTAGCCCGGTTAT
87016840 CATCCGAACA
Statistics
Matches: 99, Mismatches: 15, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
79 67 0.68
80 32 0.32
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (80 bp):
ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTT
AGCCCGGAATTAACA
Found at i:87023527 original size:49 final size:49
Alignment explanation
Indices: 87023455--87023552 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
87023445 CCAAGCCTAG
87023455 CTGATTCATAAATTATCTCATATCAGCCCATATTTTTCTTTATTTCACC
1 CTGATTCATAAATTATCTCATATCAGCCCATATTTTTCTTTATTTCACC
*
87023504 CTGATTCATATATTATCTCATATCAGCCCATATTTTTCTTTATTTCACC
1 CTGATTCATAAATTATCTCATATCAGCCCATATTTTTCTTTATTTCACC
87023553 TTTCTACTAC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.26, C:0.24, G:0.04, T:0.46
Consensus pattern (49 bp):
CTGATTCATAAATTATCTCATATCAGCCCATATTTTTCTTTATTTCACC
Found at i:87026757 original size:23 final size:24
Alignment explanation
Indices: 87026680--87026814 Score: 115
Period size: 23 Copynumber: 5.8 Consensus size: 24
87026670 GGACTCATCA
87026680 CAGCTCATAT-GAGCTTACCGATATAT
1 CAGCTCATATAGAGCTTACCG-T-T-T
* * *
87026706 CATCTCGTA-AGAGCTTACTGTTTT
1 CAGCTCATATAGAGCTTACCG-TTT
*
87026730 CAGCTCAT-TGGAGCTTACCGTTT
1 CAGCTCATATAGAGCTTACCGTTT
*
87026753 CAGCTCGTAT-GAGCTTA-C-TATT
1 CAGCTCATATAGAGCTTACCGT-TT
87026775 CAGCTC-TATAGAGCTTACCGTTT
1 CAGCTCATATAGAGCTTACCGTTT
*
87026798 CATCTCA-ATAGAGCTTA
1 CAGCTCATATAGAGCTTA
87026815 TTGTTCATCA
Statistics
Matches: 91, Mismatches: 10, Indels: 19
0.76 0.08 0.16
Matches are distributed among these distances:
21 4 0.04
22 16 0.18
23 35 0.38
24 18 0.20
25 1 0.01
26 17 0.19
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (24 bp):
CAGCTCATATAGAGCTTACCGTTT
Found at i:87026812 original size:45 final size:44
Alignment explanation
Indices: 87026680--87026814 Score: 137
Period size: 45 Copynumber: 2.9 Consensus size: 44
87026670 GGACTCATCA
*
87026680 CAGCTCATATGAGCTTACCGATATATCATCTCGTAAGAGCTTACTGTTTT
1 CAGCTCATA-GAGCTTACCG-T-T-TCATCTCGT-AGAGCTTAC-GTATT
* *
87026730 CAGCTCATTGGAGCTTACCGTTTCAGCTCGTATGAGCTTAC-TATT
1 CAGCTCA-TAGAGCTTACCGTTTCATCTCGTA-GAGCTTACGTATT
*
87026775 CAGCTCTATAGAGCTTACCGTTTCATCTCAATAGAGCTTA
1 CAGCTC-ATAGAGCTTACCGTTTCATCTC-GTAGAGCTTA
87026815 TTGTTCATCA
Statistics
Matches: 75, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
45 35 0.47
46 4 0.05
47 16 0.21
48 1 0.01
49 1 0.01
50 17 0.23
51 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (44 bp):
CAGCTCATAGAGCTTACCGTTTCATCTCGTAGAGCTTACGTATT
Found at i:87031364 original size:40 final size:40
Alignment explanation
Indices: 87031293--87031429 Score: 168
Period size: 40 Copynumber: 3.4 Consensus size: 40
87031283 TTCTGAATCT
*
87031293 ATGAAAAGGTTGAAAAGGAAGTTATCTGAAAAGGATAACAA
1 ATGAAAAGGTTGAAAAGGAAG-TATCCGAAAAGGATAACAA
87031334 ATGAAAAGGTTG-AAAGGAAGCTATCCGAAAAGGATAACAA
1 ATGAAAAGGTTGAAAAGGAAG-TATCCGAAAAGGATAACAA
* * * * *
87031374 CTGAAAAGGTTGAAAATGATGTATTCGAAAAGGATATCAA
1 ATGAAAAGGTTGAAAAGGAAGTATCCGAAAAGGATAACAA
* * *
87031414 AGGAATAGATTGAAAA
1 ATGAAAAGGTTGAAAA
87031430 AAATAGCAAT
Statistics
Matches: 84, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
40 66 0.79
41 18 0.21
ACGTcount: A:0.50, C:0.07, G:0.24, T:0.20
Consensus pattern (40 bp):
ATGAAAAGGTTGAAAAGGAAGTATCCGAAAAGGATAACAA
Found at i:87035148 original size:21 final size:21
Alignment explanation
Indices: 87035124--87035163 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
87035114 ACCTTTTCTA
*
87035124 AAGTTAAAAATCAAAACTATT
1 AAGTTAAAAAGCAAAACTATT
*
87035145 AAGTTAAAAGGCAAAACTA
1 AAGTTAAAAAGCAAAACTA
87035164 CGTTATTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.10, G:0.10, T:0.23
Consensus pattern (21 bp):
AAGTTAAAAAGCAAAACTATT
Found at i:87039066 original size:36 final size:35
Alignment explanation
Indices: 87038964--87039068 Score: 165
Period size: 35 Copynumber: 3.0 Consensus size: 35
87038954 TCAATTAGAC
* *
87038964 TAGCTCTTATGAGCACTAGTCTGTTTTGGATGGAT
1 TAGCTCTTATGAGCACTGGTGTGTTTTGGATGGAT
*
87038999 TAGCTCTTACGAGCACTGGTGTGTTTTGGATGGAT
1 TAGCTCTTATGAGCACTGGTGTGTTTTGGATGGAT
*
87039034 TAGCTCTTATGAGCATCTGGTGTGTTTCGGATGGA
1 TAGCTCTTATGAGCA-CTGGTGTGTTTTGGATGGA
87039069 ATATGGATGT
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
35 46 0.72
36 18 0.28
ACGTcount: A:0.18, C:0.14, G:0.30, T:0.38
Consensus pattern (35 bp):
TAGCTCTTATGAGCACTGGTGTGTTTTGGATGGAT
Found at i:87040896 original size:18 final size:18
Alignment explanation
Indices: 87040875--87040911 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
87040865 TTGATTTCGG
* *
87040875 AATTCGAATAACTCGAAT
1 AATTCAAATAAATCGAAT
87040893 AATTCAAATAAATCGAAT
1 AATTCAAATAAATCGAAT
87040911 A
1 A
87040912 CCAAACTATA
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:0.51, C:0.14, G:0.08, T:0.27
Consensus pattern (18 bp):
AATTCAAATAAATCGAAT
Found at i:87041153 original size:20 final size:20
Alignment explanation
Indices: 87041128--87041167 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
87041118 CAACCCTCAA
* *
87041128 AAACTTTTACTTTTCTCCCT
1 AAACTTTTAATTTTCACCCT
87041148 AAACTTTTAATTTTCACCCT
1 AAACTTTTAATTTTCACCCT
87041168 TTACCCCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.25, C:0.28, G:0.00, T:0.47
Consensus pattern (20 bp):
AAACTTTTAATTTTCACCCT
Found at i:87042228 original size:16 final size:17
Alignment explanation
Indices: 87042195--87042227 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
87042185 ATTAATGATA
87042195 TAATTAATTTTCATTTT
1 TAATTAATTTTCATTTT
87042212 TAATT-ATTTT-ATTTT
1 TAATTAATTTTCATTTT
87042227 T
1 T
87042228 TCCAATTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 5 0.31
17 5 0.31
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (17 bp):
TAATTAATTTTCATTTT
Found at i:87042359 original size:7 final size:7
Alignment explanation
Indices: 87042349--87042388 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
87042339 TTTTGGTTGC
87042349 TTTTTTA
1 TTTTTTA
87042356 TTTTTTA
1 TTTTTTA
87042363 TTTTTTA
1 TTTTTTA
*
87042370 TTTTTCA
1 TTTTTTA
*
87042377 TTCTTTA
1 TTTTTTA
87042384 TTTTT
1 TTTTT
87042389 CTTCTTCCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.12, C:0.05, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTTA
Found at i:87043406 original size:16 final size:15
Alignment explanation
Indices: 87043385--87043414 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
87043375 ATGTTTAGTT
87043385 GGAAAGAAAAGTAAAA
1 GGAAAGAAAA-TAAAA
87043401 GGAAAGAAAATAAA
1 GGAAAGAAAATAAA
87043415 TGATAATCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.70, C:0.00, G:0.23, T:0.07
Consensus pattern (15 bp):
GGAAAGAAAATAAAA
Found at i:87055241 original size:19 final size:19
Alignment explanation
Indices: 87055217--87055253 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
87055207 CAATGCAAAT
* *
87055217 AAAACAATAAATCGAATAA
1 AAAACAACAAATCCAATAA
87055236 AAAACAACAAATCCAATA
1 AAAACAACAAATCCAATA
87055254 CACCTCTAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.68, C:0.16, G:0.03, T:0.14
Consensus pattern (19 bp):
AAAACAACAAATCCAATAA
Found at i:87057988 original size:2 final size:2
Alignment explanation
Indices: 87057981--87058009 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
87057971 CCTTTTACTT
87057981 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
87058010 ATAAGTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:87059866 original size:37 final size:37
Alignment explanation
Indices: 87059809--87059879 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
87059799 TTTAACCTTA
* *
87059809 CAACTCCCTTAAGATCTCTACCTAAATCTTAAGATTG
1 CAACTCCCTTAAGATCTCTACCCAAACCTTAAGATTG
* *
87059846 CAACTCCCTTAAGGTTTCTACCCAAACCTTAAGA
1 CAACTCCCTTAAGATCTCTACCCAAACCTTAAGA
87059880 CTCAACCCTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.32, C:0.30, G:0.08, T:0.30
Consensus pattern (37 bp):
CAACTCCCTTAAGATCTCTACCCAAACCTTAAGATTG
Found at i:87060317 original size:20 final size:20
Alignment explanation
Indices: 87060289--87060337 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
87060279 TCGTTGGAGC
* **
87060289 TATCAATACCAAAGAAAATT
1 TATCGATACCAAAGAAAAGG
*
87060309 TATCGATACCAAATAAAAGG
1 TATCGATACCAAAGAAAAGG
87060329 TATCGATAC
1 TATCGATAC
87060338 TGGATCGATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.49, C:0.16, G:0.10, T:0.24
Consensus pattern (20 bp):
TATCGATACCAAAGAAAAGG
Found at i:87062922 original size:54 final size:52
Alignment explanation
Indices: 87062742--87062955 Score: 259
Period size: 53 Copynumber: 4.0 Consensus size: 52
87062732 ATATATTATA
* * * * * *
87062742 CCGATGCCATATCCCGGATATGGTCTTTTACGGAAGCACTTATCACTTTTCT
1 CCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACTTATCACTTTTTT
* * **
87062794 CCGATGCCATAGCCCAACTATGGTCTTATACGG-ATCACTTGTATCAATTTAAT
1 CCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCAC-T-TATCACTTTTTT
*
87062847 CCGAAGCCATAGCCCAGCTATGGTCTTATACGGAAATCACTTATCACTTGTTTT
1 CCGATGCCATAGCCCAGCTATGGTCTTATACGG-AATCACTTATCACTT-TTTT
* *
87062901 CCGATGCCATAGCCCAGCTATGGTCTTATACGGATATCACTTTTCACTTGTTT
1 CCGATGCCATAGCCCAGCTATGGTCTTATACGGA-ATCACTTATCACTTTTTT
87062954 CC
1 CC
87062956 ATGTTCCAAC
Statistics
Matches: 139, Mismatches: 17, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
51 4 0.03
52 29 0.21
53 53 0.38
54 48 0.35
55 5 0.04
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.33
Consensus pattern (52 bp):
CCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACTTATCACTTTTTT
Found at i:87062931 original size:107 final size:105
Alignment explanation
Indices: 87062742--87062935 Score: 298
Period size: 107 Copynumber: 1.8 Consensus size: 105
87062732 ATATATTATA
* * * *
87062742 CCGATGCCATATCCCGGATATGGTCTTTTACGGAAGCACTTATCACTTTTCTCCGATGCCATAGC
1 CCGAAGCCATAGCCCAGATATGGTCTTATACGGAAGCACTTATCACTTTTCTCCGATGCCATAGC
87062807 CCAACTATGGTCTTATACGGATCACTTGTATCAATTTAAT
66 CCAACTATGGTCTTATACGGATCACTTGTATCAATTTAAT
* * *
87062847 CCGAAGCCATAGCCCAGCTATGGTCTTATACGGAAATCACTTATCACTTGTTTTCCGATGCCATA
1 CCGAAGCCATAGCCCAGATATGGTCTTATACGG-AAGCACTTATCACTT-TTCTCCGATGCCATA
*
87062912 GCCCAGCTATGGTCTTATACGGAT
64 GCCCAACTATGGTCTTATACGGAT
87062936 ATCACTTTTC
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
105 28 0.35
106 14 0.18
107 37 0.47
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (105 bp):
CCGAAGCCATAGCCCAGATATGGTCTTATACGGAAGCACTTATCACTTTTCTCCGATGCCATAGC
CCAACTATGGTCTTATACGGATCACTTGTATCAATTTAAT
Found at i:87066059 original size:27 final size:26
Alignment explanation
Indices: 87066029--87066205 Score: 149
Period size: 27 Copynumber: 6.5 Consensus size: 26
87066019 AAATTGTTCA
* *
87066029 GCACTAAGTGTGCGATTCGACTTTGTT
1 GCACTAAGTGTGCGATT-GACTATGTG
* *
87066056 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCG-ATTGACTATG-TG
* *
87066083 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTG
* *
87066110 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGA-T-TGACTATGTG
* *
87066138 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGA-TTGACTATGTG
* * *
87066165 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGA-TTGACTATGTG
*
87066192 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
87066206 GGCTCAATAT
Statistics
Matches: 124, Mismatches: 21, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
26 1 0.01
27 98 0.79
28 25 0.20
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTG
Found at i:87066152 original size:82 final size:81
Alignment explanation
Indices: 87066029--87066184 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
87066019 AAATTGTTCA
* * * * *
87066029 GCACTAAGTGTGCGATTCGACTTTGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
87066093 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
87066110 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
87066175 TGCGAGTTGA
65 TGCGAATTGA
87066185 TTATATAGCA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 18 0.28
82 46 0.72
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:87066196 original size:82 final size:81
Alignment explanation
Indices: 87066027--87066205 Score: 198
Period size: 82 Copynumber: 2.2 Consensus size: 81
87066017 TTAAATTGTT
* * * * *
87066027 CAGCACTAAGTGTGCGATTCGACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGT
1 CAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGT
*
87066092 GTGCGAATTGACCATG
66 GTGCGAATTGACCATA
* ** *
87066108 CGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAA
1 CAGCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAA
* **
87066172 GTGTGCGAGTTGATTATA
64 GTGTGCGAATTGACCATA
* *
87066190 TAGCACTGAGTGTGCG
1 CAGCACTAAGTGTGCG
87066206 GGCTCAATAT
Statistics
Matches: 80, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 19 0.24
82 61 0.76
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
CAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGT
GTGCGAATTGACCATA
Found at i:87085796 original size:10 final size:10
Alignment explanation
Indices: 87085781--87085815 Score: 52
Period size: 10 Copynumber: 3.3 Consensus size: 10
87085771 AAAACCCTAT
87085781 TTTTTCTTTC
1 TTTTTCTTTC
87085791 TTTTTCTTTCCC
1 TTTTTCTTT--C
87085803 TTTTTCTTTC
1 TTTTTCTTTC
87085813 TTT
1 TTT
87085816 CTTTCCCTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 13 0.57
12 10 0.43
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:87085806 original size:22 final size:20
Alignment explanation
Indices: 87085781--87085828 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 20
87085771 AAAACCCTAT
87085781 TTTTTCTTTCTTTTTCTTTCCC
1 TTTTTCTTTC--TTTCTTTCCC
87085803 TTTTTCTTTCTTTCTTTCCC
1 TTTTTCTTTCTTTCTTTCCC
87085823 TGTTTT
1 T-TTTT
87085829 GTACGTGCCC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.44
21 4 0.16
22 10 0.40
ACGTcount: A:0.00, C:0.25, G:0.02, T:0.73
Consensus pattern (20 bp):
TTTTTCTTTCTTTCTTTCCC
Found at i:87086368 original size:21 final size:21
Alignment explanation
Indices: 87086295--87086370 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 21
87086285 AACACTCACA
* *
87086295 ATCGGAGCACCCACAACCCCT
1 ATCGGAGCAACCACAACCCCC
** *
87086316 GCCGGAGCAACCACAATCCCC
1 ATCGGAGCAACCACAACCCCC
* * *
87086337 GTTGGATCAACCACAACCCCC
1 ATCGGAGCAACCACAACCCCC
87086358 ATCGGAGCAACCA
1 ATCGGAGCAACCA
87086371 ATAAGGAATC
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.30, C:0.43, G:0.17, T:0.09
Consensus pattern (21 bp):
ATCGGAGCAACCACAACCCCC
Found at i:87090925 original size:26 final size:25
Alignment explanation
Indices: 87090888--87090946 Score: 59
Period size: 27 Copynumber: 2.3 Consensus size: 25
87090878 AAAGACTTTC
* *
87090888 ATTTCATT-TTTG-GTTTTCTTTTTT
1 ATTTTATTGTTTGAGTTTT-TTTTTA
87090912 ATTTATATTGTTTGAAGTTTTTTTTTA
1 ATTT-TATTGTTTG-AGTTTTTTTTTA
87090939 ATTTTATT
1 ATTTTATT
87090947 TTTAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 4 0.14
25 3 0.10
26 8 0.28
27 9 0.31
28 5 0.17
ACGTcount: A:0.17, C:0.03, G:0.08, T:0.71
Consensus pattern (25 bp):
ATTTTATTGTTTGAGTTTTTTTTTA
Found at i:87098595 original size:51 final size:51
Alignment explanation
Indices: 87098516--87098617 Score: 177
Period size: 51 Copynumber: 2.0 Consensus size: 51
87098506 TCTCGAAACC
*
87098516 TTAAATGTCTCAAATTAAAGAATCCGTGAGCTGTTTATAATATTTGTATCT
1 TTAAATGTCTCAAATTAAAGAATCCGTGAACTGTTTATAATATTTGTATCT
* *
87098567 TTAAATGTCTCAAATTAAAGAGTTCGTGAACTGTTTATAATATTTGTATCT
1 TTAAATGTCTCAAATTAAAGAATCCGTGAACTGTTTATAATATTTGTATCT
87098618 GGCACCATTC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (51 bp):
TTAAATGTCTCAAATTAAAGAATCCGTGAACTGTTTATAATATTTGTATCT
Found at i:87098858 original size:16 final size:16
Alignment explanation
Indices: 87098834--87098867 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
87098824 ATTAAGTAAA
*
87098834 AATATATAAATTTTAT
1 AATAAATAAATTTTAT
87098850 AATAAATAAATTTTAT
1 AATAAATAAATTTTAT
87098866 AA
1 AA
87098868 AAAAATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AATAAATAAATTTTAT
Found at i:87100200 original size:11 final size:11
Alignment explanation
Indices: 87100184--87100214 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
87100174 AAGTATGGGT
87100184 AGGTATGGGAA
1 AGGTATGGGAA
*
87100195 AGGTATGGGCA
1 AGGTATGGGAA
87100206 AGGTATGGG
1 AGGTATGGG
87100215 GTATGGGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.48, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:87104291 original size:18 final size:18
Alignment explanation
Indices: 87104268--87104324 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
87104258 CCCAACTACT
*
87104268 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
87104286 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
87104304 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
87104322 GTA
1 GTA
87104325 AACGGTCGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:87104885 original size:11 final size:11
Alignment explanation
Indices: 87104869--87104899 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
87104859 AAGTATGGGT
87104869 AGGTATGGGAA
1 AGGTATGGGAA
*
87104880 AGGTATGGGCA
1 AGGTATGGGAA
87104891 AGGTATGGG
1 AGGTATGGG
87104900 GTATGGGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.48, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:87109560 original size:19 final size:19
Alignment explanation
Indices: 87109511--87109557 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
87109501 GTTAAAAAAA
87109511 TATACTTTTTAAAATTAATT
1 TATA-TTTTTAAAATTAATT
*
87109531 TATATTTTTAAAA-TACTT
1 TATATTTTTAAAATTAATT
*
87109549 TTTATTTTT
1 TATATTTTT
87109558 TAATTTATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 12 0.48
19 9 0.36
20 4 0.16
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (19 bp):
TATATTTTTAAAATTAATT
Found at i:87113109 original size:50 final size:50
Alignment explanation
Indices: 87113031--87113278 Score: 300
Period size: 50 Copynumber: 4.8 Consensus size: 50
87113021 GATAATAACA
* *
87113031 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-ATAGG
* * * * *
87113081 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* * * *
87113131 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* *
87113181 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A---T-AGG
*
87113236 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
87113279 TTACCCAAAT
Statistics
Matches: 171, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
49 1 0.01
50 128 0.75
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.21, C:0.30, G:0.24, T:0.25
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
Found at i:87113204 original size:100 final size:104
Alignment explanation
Indices: 87113030--87113278 Score: 382
Period size: 100 Copynumber: 2.4 Consensus size: 104
87113020 TGATAATAAC
87113030 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
* *
87113095 CCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
66 CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
87113131 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
87113194 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
87113236 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
87113279 TTACCCAAAT
Statistics
Matches: 135, Mismatches: 6, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
99 1 0.01
100 88 0.65
103 3 0.02
104 1 0.01
105 2 0.01
106 40 0.30
ACGTcount: A:0.21, C:0.30, G:0.24, T:0.25
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:87113394 original size:13 final size:13
Alignment explanation
Indices: 87113373--87113404 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
87113363 GCTTGGATCA
*
87113373 TCATCAAATAAAT
1 TCATAAAATAAAT
87113386 TCATAAAATAAAT
1 TCATAAAATAAAT
87113399 TCATAA
1 TCATAA
87113405 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:87113651 original size:30 final size:30
Alignment explanation
Indices: 87113616--87113673 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
87113606 CCTCGACTCT
*
87113616 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
87113646 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
87113674 AAGGTCGGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:87115885 original size:4 final size:4
Alignment explanation
Indices: 87115878--87115955 Score: 52
Period size: 4 Copynumber: 19.5 Consensus size: 4
87115868 CTTTTGTTTG
* * * * *
87115878 TTTA TTTA TTTA TTCA TCTA TTTA TTTG TTTA TATA TATA TTTA -TTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * *
87115925 -TTC TTTA GTTTTA TTTA TTCA TTCA TTTA TT
1 TTTA TTTA --TTTA TTTA TTTA TTTA TTTA TT
87115956 AGTAAATATT
Statistics
Matches: 59, Mismatches: 12, Indels: 6
0.77 0.16 0.08
Matches are distributed among these distances:
3 5 0.08
4 50 0.85
6 4 0.07
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.67
Consensus pattern (4 bp):
TTTA
Found at i:87115903 original size:20 final size:20
Alignment explanation
Indices: 87115878--87115923 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
87115868 CTTTTGTTTG
*
87115878 TTTATTTATTTAT-TCATCTA
1 TTTATTTATTTATAT-ATATA
*
87115898 TTTATTTGTTTATATATATA
1 TTTATTTATTTATATATATA
87115918 TTTATT
1 TTTATT
87115924 ATTCTTTAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTATTTATTTATATATATA
Found at i:87116144 original size:21 final size:21
Alignment explanation
Indices: 87116111--87116162 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
87116101 CATTAATTAC
87116111 TCATT-TTATTTATCA-TCATCA
1 TCATTATTA-TTATCACT-ATCA
* *
87116132 TCATTATTATTATTACTATTA
1 TCATTATTATTATCACTATCA
87116153 TCATTATTAT
1 TCATTATTAT
87116163 ACTATTACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.31, C:0.13, G:0.00, T:0.56
Consensus pattern (21 bp):
TCATTATTATTATCACTATCA
Found at i:87116783 original size:27 final size:28
Alignment explanation
Indices: 87116753--87116811 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
87116743 GTATTATTTT
87116753 AATTT-ATTTAACATATTA-TTTATTTAA
1 AATTTGATTT-ACATATTACTTTATTTAA
* * *
87116780 AATTTGCTTTATATATTACTTTATTTCA
1 AATTTGATTTACATATTACTTTATTTAA
87116808 AATT
1 AATT
87116812 GTTTATATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 12 0.44
28 15 0.56
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.56
Consensus pattern (28 bp):
AATTTGATTTACATATTACTTTATTTAA
Found at i:87116818 original size:24 final size:26
Alignment explanation
Indices: 87116765--87116828 Score: 76
Period size: 28 Copynumber: 2.4 Consensus size: 26
87116755 TTTATTTAAC
87116765 ATATTATTTATTTAAAATTTGCTTTAT
1 ATATTATTTATTTAAAATTTGC-TTAT
* *
87116792 ATATTACTTTATTTCAAA-TTGTTTAT
1 ATATTA-TTTATTTAAAATTTGCTTAT
*
87116818 ATTTTATTTAT
1 ATATTATTTAT
87116829 GTTGAATCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 5 0.15
26 9 0.27
27 9 0.27
28 10 0.30
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (26 bp):
ATATTATTTATTTAAAATTTGCTTAT
Found at i:87119790 original size:46 final size:46
Alignment explanation
Indices: 87119740--87120140 Score: 570
Period size: 46 Copynumber: 8.7 Consensus size: 46
87119730 GATAGAAAAT
87119740 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
*
87119786 GTGTAAGACCATGGTTGAAATATACCATGGCAACCTGATATGAAAC
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
87119832 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
* *
87119878 GTGTAAAACCATGGTTGAAAGATACCATGGCAACTTGATATGAAAC
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
* *
87119924 GTGTAAAACCATGGTTGAAAGATACCATGGCAACTTGATATGAAAC
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
* * *
87119970 GTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
* *** *
87120016 GTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACGGGGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA-TATGAAAC
** * * * *
87120063 GAATAAGACCATGGTTGAATGATACCATGGCAACATGACA-GAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAAC
* * * *
87120109 GAGTAAGACCATAGTTGAAAGACACTATGGCA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCA
87120141 TCATGTCGAA
Statistics
Matches: 331, Mismatches: 22, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
45 1 0.00
46 291 0.88
47 39 0.12
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (46 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
Found at i:87122074 original size:30 final size:31
Alignment explanation
Indices: 87122030--87122088 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
87122020 CAATTCATAT
* *
87122030 ATATCTCATGTCACATAGCATGTTTCATTCC
1 ATATCTCATATCACATAGCATGTATCATTCC
*
87122061 ATAT-TCATATCACATATCATGTATCATT
1 ATATCTCATATCACATAGCATGTATCATT
87122089 TATATCACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.41
Consensus pattern (31 bp):
ATATCTCATATCACATAGCATGTATCATTCC
Found at i:87124693 original size:19 final size:18
Alignment explanation
Indices: 87124651--87124693 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
87124641 TATTTAATGG
*
87124651 TTATATTTAAATATATTT
1 TTATATTTAAATAAATTT
*
87124669 TATATATTCTAATTAAATTT
1 T-TATATT-TAAATAAATTT
87124689 TTATA
1 TTATA
87124694 AATAATTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 10 0.48
20 10 0.48
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (18 bp):
TTATATTTAAATAAATTT
Found at i:87124736 original size:30 final size:30
Alignment explanation
Indices: 87124697--87124753 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
87124687 TTTTATAAAT
87124697 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
87124727 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
87124754 AATAACAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:87126300 original size:35 final size:35
Alignment explanation
Indices: 87126254--87126320 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
87126244 TAAGCTTTTT
87126254 CGGTTACTTGTGCATTAGATCAGAATGGATCTTTC
1 CGGTTACTTGTGCATTAGATCAGAATGGATCTTTC
87126289 CGGTTACTTGTGCATTAGATCAGAATGGATCT
1 CGGTTACTTGTGCATTAGATCAGAATGGATCT
87126321 CTCATGGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (35 bp):
CGGTTACTTGTGCATTAGATCAGAATGGATCTTTC
Found at i:87128424 original size:25 final size:25
Alignment explanation
Indices: 87128394--87128443 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
87128384 TTGTGGAAGT
87128394 GACAGAAATTCAGTGAACTTATGGA
1 GACAGAAATTCAGTGAACTTATGGA
87128419 GACAGAAATTCAGTGAACTTATGGA
1 GACAGAAATTCAGTGAACTTATGGA
87128444 AAAAAGTTAT
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:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (25 bp):
GACAGAAATTCAGTGAACTTATGGA
Found at i:87131235 original size:18 final size:19
Alignment explanation
Indices: 87131212--87131247 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
87131202 TCCATGTTGC
87131212 AAAATAAACG-AGAAAAAA
1 AAAATAAACGAAGAAAAAA
*
87131230 AAAATAAAGGAAGAAAAA
1 AAAATAAACGAAGAAAAA
87131248 GAAGAGGATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.78, C:0.03, G:0.14, T:0.06
Consensus pattern (19 bp):
AAAATAAACGAAGAAAAAA
Found at i:87133754 original size:59 final size:59
Alignment explanation
Indices: 87133644--87133758 Score: 142
Period size: 59 Copynumber: 1.9 Consensus size: 59
87133634 CTTAATATAA
* * * * *
87133644 AATTTGGTATTTGAACTTAACACTTTTTCTTAATTTGGCATCTAATTTTTTTTTTGCTT
1 AATTTGGTACTTGAACTTAACACTTTTTCCTAATTTGACACCTAATATTTTTTTTGCTT
* * *
87133703 AATTTGGTACTTGAACTTGACATTTTTTTCCTAATTTGATACCTAA-ATTTTTTTTG
1 AATTTGGTACTTGAACTTAACA-CTTTTTCCTAATTTGACACCTAATATTTTTTTTG
87133759 GGCCCACTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
59 29 0.62
60 18 0.38
ACGTcount: A:0.23, C:0.12, G:0.10, T:0.54
Consensus pattern (59 bp):
AATTTGGTACTTGAACTTAACACTTTTTCCTAATTTGACACCTAATATTTTTTTTGCTT
Found at i:87138046 original size:38 final size:38
Alignment explanation
Indices: 87137995--87138073 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
87137985 CATGAGGCAT
87137995 TTATGTTAACTTGCTATCTTGTTTTTACTTCCTTACGC
1 TTATGTTAACTTGCTATCTTGTTTTTACTTCCTTACGC
87138033 TTATGTTAACTTGCTATCTTGTTTTTACTTCCTTACGC
1 TTATGTTAACTTGCTATCTTGTTTTTACTTCCTTACGC
87138071 TTA
1 TTA
87138074 GACATAATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.16, C:0.20, G:0.10, T:0.53
Consensus pattern (38 bp):
TTATGTTAACTTGCTATCTTGTTTTTACTTCCTTACGC
Found at i:87149678 original size:42 final size:42
Alignment explanation
Indices: 87149617--87149698 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
87149607 CGTGCAGGGG
*
87149617 ACACACGGCCAGACAACACGCCCATGAGGCTAGCCGTGTGTC
1 ACACACGGCCAGACAACACGCCCATGAGGCTACCCGTGTGTC
* *
87149659 ACACACGGCCTAGAC-ACACGCCCATGTGTCTACCCGTGTG
1 ACACACGGCC-AGACAACACGCCCATGAGGCTACCCGTGTG
87149699 GATAATATAG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 32 0.89
43 4 0.11
ACGTcount: A:0.24, C:0.37, G:0.24, T:0.15
Consensus pattern (42 bp):
ACACACGGCCAGACAACACGCCCATGAGGCTACCCGTGTGTC
Found at i:87150621 original size:46 final size:46
Alignment explanation
Indices: 87150478--87150739 Score: 153
Period size: 46 Copynumber: 5.6 Consensus size: 46
87150468 AGGCCTACGC
* * * * *
87150478 CATGTCCCAGACATGGTCTTACACTAGCTCTCTCATATCTGTGCCAATG
1 CATGTCCCAGACAT-GTCATACACTAGCTCT-ACATCTC-GAGCCGATG
* * * * *
87150527 CCATCTCCCAGACATGGTCTTATACT-G-AC-ACATCTCGTAGCCGGTG
1 -CATGTCCCAGACAT-GTCATACACTAGCTCTACATCTCG-AGCCGATG
** *
87150573 CATGTCCCAGACATGTTTTACACTGGCT-TACATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCATACACTAGCTCTACATCTCGA-GCCGATG
* * *
87150619 CATGTCCCAGACATGTCATACACTAGCTCT-CAACTCCATGCCAATG
1 CATGTCCCAGACATGTCATACACTAGCTCTACATCTCGA-GCCGATG
* * * * *
87150665 CCATGTCCCAGACATGGTCTTACATTAGCTCT-CGTAAT-TTG-GCTGATC
1 -CATGTCCCAGACAT-GTCATACACTAGCTCTAC---ATCTCGAGCCGATG
*
87150713 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCATACACTAGC
87150740 ACACAAATGA
Statistics
Matches: 172, Mismatches: 29, Indels: 26
0.76 0.13 0.11
Matches are distributed among these distances:
44 8 0.05
45 16 0.09
46 73 0.42
47 29 0.17
48 20 0.12
49 1 0.01
50 24 0.14
51 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCATACACTAGCTCTACATCTCGAGCCGATG
Found at i:87150665 original size:138 final size:143
Alignment explanation
Indices: 87150429--87150686 Score: 350
Period size: 138 Copynumber: 1.8 Consensus size: 143
87150419 ATGCCGATGC
*
87150429 CATGTCCCAGACATGGTCTTACACTGATTATCGAAATCGAGGCCTACGCCATGTCCCAGACATGG
1 CATGTCCCAGACATGGTCTTACACTGATTATCGAAATCGAGGCCGACGCCATGTCCCAGACATGG
* **
87150494 TCTTACACTAGCTCTCTCATATCTGTGCCAATGCCATCTCCCAGACATGGTCTTATACTGACACA
66 TCATACACTAGC-CTCTCATATCCATGCCAATGCCATCTCCCAGACATGGTCTTATACTGACACA
87150559 TCTCGTAGCCGGTG
130 TCTCGTAGCCGGTG
* * ** *
87150573 CATGTCCCAGACAT-GTTTTACACTGGCTTA-C-ATCTCGAGGCCGATG-CATGTCCCAGACAT-
1 CATGTCCCAGACATGGTCTTACACT-GATTATCGAAATCGAGGCCGACGCCATGTCCCAGACATG
*
87150633 GTCATACACTAG-CTCTCA-ACTCCATGCCAATGCCATGTCCCAGACATGGTCTTA
65 GTCATACACTAGCCTCTCATA-TCCATGCCAATGCCATCTCCCAGACATGGTCTTA
87150687 CATTAGCTCT
Statistics
Matches: 102, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
137 1 0.01
138 37 0.36
140 11 0.11
141 14 0.14
142 11 0.11
143 10 0.10
144 18 0.18
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (143 bp):
CATGTCCCAGACATGGTCTTACACTGATTATCGAAATCGAGGCCGACGCCATGTCCCAGACATGG
TCATACACTAGCCTCTCATATCCATGCCAATGCCATCTCCCAGACATGGTCTTATACTGACACAT
CTCGTAGCCGGTG
Found at i:87150735 original size:140 final size:142
Alignment explanation
Indices: 87150421--87150736 Score: 335
Period size: 138 Copynumber: 2.2 Consensus size: 142
87150411 AGGGTGTAAT
*
87150421 GCCGATGCCATGTCCCAGACATGGTCTTACACTGATTATCGAAATCGAGGCCTACGCCATGTCCC
1 GCCGAT-CCATGTCCCAGACAT-GTCTTACACTGATTATCGAAATCGAGGCCGACGCCATGTCCC
* ** *
87150486 AGACATGGTCTTACACTAGCTCTCTCATATCTGTGCCAATGCCATCTCCCAGACATGGTCTTATA
64 AGACATGGTCATACACTAGC-CTCTCATATCCATGCCAATGCCATCTCCCAGACATGGTCTTACA
87150551 CTGACACATCTCGTA
128 CTGACACATCTCGTA
* * * * ** *
87150566 GCCGGTGCATGTCCCAGACATGTTTTACACTGGCTTA-C-ATCTCGAGGCCGATG-CATGTCCCA
1 GCCGATCCATGTCCCAGACATGTCTTACACT-GATTATCGAAATCGAGGCCGACGCCATGTCCCA
*
87150628 GACAT-GTCATACACTAG-CTCTCA-ACTCCATGCCAATGCCATGTCCCAGACATGGTCTTACA-
65 GACATGGTCATACACTAGCCTCTCATA-TCCATGCCAATGCCATCTCCCAGACATGGTCTTACAC
* *
87150689 TTA-GC-TCTCGTAA
129 TGACACATCTCGT-A
*
87150702 TTTGGCTGATCCATGTCCCAGACATGTCTTACACT
1 ----GCCGATCCATGTCCCAGACATGTCTTACACT
87150737 AGCACACAAA
Statistics
Matches: 145, Mismatches: 19, Indels: 19
0.79 0.10 0.10
Matches are distributed among these distances:
135 6 0.04
136 2 0.01
137 3 0.02
138 38 0.26
140 38 0.26
141 14 0.10
142 11 0.08
143 10 0.07
144 18 0.12
145 5 0.03
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (142 bp):
GCCGATCCATGTCCCAGACATGTCTTACACTGATTATCGAAATCGAGGCCGACGCCATGTCCCAG
ACATGGTCATACACTAGCCTCTCATATCCATGCCAATGCCATCTCCCAGACATGGTCTTACACTG
ACACATCTCGTA
Found at i:87154785 original size:21 final size:22
Alignment explanation
Indices: 87154740--87154787 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
87154730 TGCAGGGCTC
*
87154740 ACACGCCCGTGTGGTCCAAGGG
1 ACACGCCCGTGTGGACCAAGGG
**
87154762 ACACGCCCGTGT-GACCCTGGG
1 ACACGCCCGTGTGGACCAAGGG
87154783 ACACG
1 ACACG
87154788 TCTATGCTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.19, C:0.35, G:0.33, T:0.12
Consensus pattern (22 bp):
ACACGCCCGTGTGGACCAAGGG
Found at i:87159346 original size:43 final size:44
Alignment explanation
Indices: 87159299--87159431 Score: 116
Period size: 43 Copynumber: 3.1 Consensus size: 44
87159289 AAAGAAAAGC
*
87159299 TACTGGTACACATAGTGCATCATCAG-GC-AAGCTGAAGCAATTA
1 TACTGGTACACATAGTGCATCATCAGAACGAA-CTGAAGCAATTA
* * *
87159342 TACT-G-ACACACGAGGTGCATTA-CCGAACGAACTGAAGCAATTA
1 TACTGGTACACA-TA-GTGCATCATCAGAACGAACTGAAGCAATTA
* * ** *
87159385 TACTGGTACACATGGTGCATCAT-TGAATAAATTGAAGCAATTA
1 TACTGGTACACATAGTGCATCATCAGAACGAACTGAAGCAATTA
87159428 TACT
1 TACT
87159432 AACACACGAG
Statistics
Matches: 72, Mismatches: 11, Indels: 14
0.74 0.11 0.14
Matches are distributed among these distances:
41 5 0.07
42 4 0.06
43 55 0.76
44 3 0.04
45 5 0.07
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.25
Consensus pattern (44 bp):
TACTGGTACACATAGTGCATCATCAGAACGAACTGAAGCAATTA
Found at i:87159447 original size:43 final size:42
Alignment explanation
Indices: 87159330--87159448 Score: 114
Period size: 43 Copynumber: 2.8 Consensus size: 42
87159320 ATCAGGCAAG
* * *
87159330 CTGAAGCAATTATACTGACACACGAGGTGCATTACCGAACGAA
1 CTGAAGCAATTATACTAACACACGA-GTGCATCACCGAACAAA
* * ** *
87159373 CTGAAGCAATTATACTGGTACACATG-GTGCATCATTGAATAAA
1 CTGAAGCAATTATACT--AACACACGAGTGCATCACCGAACAAA
*
87159416 TTGAAGCAATTATACTAACACACGAGATGCATC
1 CTGAAGCAATTATACTAACACACGAG-TGCATC
87159449 GTTAGACGAA
Statistics
Matches: 62, Mismatches: 10, Indels: 8
0.77 0.12 0.10
Matches are distributed among these distances:
41 6 0.10
42 1 0.02
43 49 0.79
45 6 0.10
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (42 bp):
CTGAAGCAATTATACTAACACACGAGTGCATCACCGAACAAA
Found at i:87171496 original size:216 final size:216
Alignment explanation
Indices: 87171122--87171525 Score: 808
Period size: 216 Copynumber: 1.9 Consensus size: 216
87171112 TCGAGGTCGT
87171122 GACGAGCTCCTGATTATTTGAACAATCAACCTTTGGTCTCGGTTCGACCTTTGGCCACTTAAAAA
1 GACGAGCTCCTGATTATTTGAACAATCAACCTTTGGTCTCGGTTCGACCTTTGGCCACTTAAAAA
87171187 GCTTTCGTAAGCTTGTGTAGATCTCAAAATAGTTCATAAATCTTATTTGCAATGTATTTTGGGAT
66 GCTTTCGTAAGCTTGTGTAGATCTCAAAATAGTTCATAAATCTTATTTGCAATGTATTTTGGGAT
87171252 TGATAACTTGAATAAAATGCTTAATTGACTTTTGAGAGATTGTAGTTGCTTTGGCAACTTCACCA
131 TGATAACTTGAATAAAATGCTTAATTGACTTTTGAGAGATTGTAGTTGCTTTGGCAACTTCACCA
87171317 TGTGGGAGACCCTGAGGTTGC
196 TGTGGGAGACCCTGAGGTTGC
87171338 GACGAGCTCCTGATTATTTGAACAATCAACCTTTGGTCTCGGTTCGACCTTTGGCCACTTAAAAA
1 GACGAGCTCCTGATTATTTGAACAATCAACCTTTGGTCTCGGTTCGACCTTTGGCCACTTAAAAA
87171403 GCTTTCGTAAGCTTGTGTAGATCTCAAAATAGTTCATAAATCTTATTTGCAATGTATTTTGGGAT
66 GCTTTCGTAAGCTTGTGTAGATCTCAAAATAGTTCATAAATCTTATTTGCAATGTATTTTGGGAT
87171468 TGATAACTTGAATAAAATGCTTAATTGACTTTTGAGAGATTGTAGTTGCTTTGGCAAC
131 TGATAACTTGAATAAAATGCTTAATTGACTTTTGAGAGATTGTAGTTGCTTTGGCAAC
87171526 GAATGTGACA
Statistics
Matches: 188, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
216 188 1.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (216 bp):
GACGAGCTCCTGATTATTTGAACAATCAACCTTTGGTCTCGGTTCGACCTTTGGCCACTTAAAAA
GCTTTCGTAAGCTTGTGTAGATCTCAAAATAGTTCATAAATCTTATTTGCAATGTATTTTGGGAT
TGATAACTTGAATAAAATGCTTAATTGACTTTTGAGAGATTGTAGTTGCTTTGGCAACTTCACCA
TGTGGGAGACCCTGAGGTTGC
Found at i:87172765 original size:58 final size:58
Alignment explanation
Indices: 87172553--87172766 Score: 143
Period size: 58 Copynumber: 3.7 Consensus size: 58
87172543 TTTTTGTAAA
* * *
87172553 TTATCCAAATAAGGATTTTTAGCTTAACAAGCTTTTTTTTTTGCTCTAACTTTT-ACTTTA-
1 TTATCCAAAGAAGGATTTTTAGCTTAACGAGC--TTTTTTTT-CTCTAACTTTTGA-TTAAG
* * * * * * * * *
87172613 TTCATCTAATGAA-AAATTTCAGCTTAACGAGC-TTTTTTACCCTAACTTTTGCTTATG
1 TT-ATCCAAAGAAGGATTTTTAGCTTAACGAGCTTTTTTTTCTCTAACTTTTGATTAAG
* * ** * **
87172670 TCATCCTACTAAAGATTTTCTA-CTTAAC-AGGGGTTTTTTTCTCTAACTTTTGATTAAG
1 TTATCCAAAGAAGGATTTT-TAGCTTAACGA-GCTTTTTTTTCTCTAACTTTTGATTAAG
*
87172728 TTTTCCAAAGAAGGATTTTTAGCTTAACGAGCTTTTTTT
1 TTATCCAAAGAAGGATTTTTAGCTTAACGAGCTTTTTTT
87172767 GTGTAGTTTA
Statistics
Matches: 112, Mismatches: 33, Indels: 20
0.68 0.20 0.12
Matches are distributed among these distances:
56 19 0.17
57 20 0.18
58 48 0.43
59 1 0.01
60 17 0.15
61 7 0.06
ACGTcount: A:0.27, C:0.16, G:0.11, T:0.46
Consensus pattern (58 bp):
TTATCCAAAGAAGGATTTTTAGCTTAACGAGCTTTTTTTTCTCTAACTTTTGATTAAG
Found at i:87173028 original size:9 final size:9
Alignment explanation
Indices: 87173014--87173039 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
87173004 GAAAAAGGGT
87173014 TGAAAATGG
1 TGAAAATGG
87173023 TGAAAATGG
1 TGAAAATGG
87173032 TGAAAATG
1 TGAAAATG
87173040 ACCTAAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.23
Consensus pattern (9 bp):
TGAAAATGG
Found at i:87176975 original size:25 final size:25
Alignment explanation
Indices: 87176947--87176995 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
87176937 CTATTTTTGA
* *
87176947 TAGTATATCCTGAAACTGCTATAGG
1 TAGTATATACTGAAACTACTATAGG
*
87176972 TAGTATATACTGAGACTACTATAG
1 TAGTATATACTGAAACTACTATAG
87176996 ATAGATTGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (25 bp):
TAGTATATACTGAAACTACTATAGG
Found at i:87184932 original size:12 final size:12
Alignment explanation
Indices: 87184915--87184985 Score: 50
Period size: 12 Copynumber: 6.4 Consensus size: 12
87184905 AATATATGTA
87184915 TATATAATAAAT
1 TATATAATAAAT
87184927 TATATAAT-AAT
1 TATATAATAAAT
87184938 GTAT-T--TAAAT
1 -TATATAATAAAT
87184948 TAT-TAA-ATAA-
1 TATATAATA-AAT
*
87184958 TATAT-TTAAAT
1 TATATAATAAAT
*
87184969 TAAATAATAAAT
1 TATATAATAAAT
87184981 TATAT
1 TATAT
87184986 TTATTTATGT
Statistics
Matches: 46, Mismatches: 4, Indels: 18
0.68 0.06 0.26
Matches are distributed among these distances:
9 5 0.11
10 9 0.20
11 12 0.26
12 20 0.43
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (12 bp):
TATATAATAAAT
Found at i:87184947 original size:21 final size:21
Alignment explanation
Indices: 87184922--87184988 Score: 82
Period size: 21 Copynumber: 3.1 Consensus size: 21
87184912 GTATATATAA
*
87184922 TAAATTATATAATAATGTATT
1 TAAATTATATAATAATATATT
87184943 TAAATTAT-TAAATAATATATT
1 TAAATTATAT-AATAATATATT
*
87184964 TAAATTAAATAATAAATTATATT
1 TAAATTATATAAT-AA-TATATT
87184987 TA
1 TA
87184989 TTTATGTTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
20 1 0.03
21 28 0.70
22 3 0.08
23 8 0.20
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (21 bp):
TAAATTATATAATAATATATT
Found at i:87186998 original size:25 final size:25
Alignment explanation
Indices: 87186914--87186998 Score: 61
Period size: 25 Copynumber: 3.4 Consensus size: 25
87186904 AAACAAATAA
* *
87186914 AGAAAG-AATAAATAAATAGAAAAAG
1 AGAAAGAAAGAAAGAAA-AGAAAAAG
* * *
87186939 AAAAAGAAAGCCAAAG--CAGAAACAG
1 AGAAAGAAAG--AAAGAAAAGAAAAAG
87186964 AG-AAGAAAAGAAAGAAAAGAAAAAG
1 AGAAAG-AAAGAAAGAAAAGAAAAAG
87186989 AGAAAGAAAG
1 AGAAAGAAAG
87186999 GCGAAAAAGC
Statistics
Matches: 45, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
23 4 0.09
24 3 0.07
25 30 0.67
26 5 0.11
28 3 0.07
ACGTcount: A:0.71, C:0.05, G:0.21, T:0.04
Consensus pattern (25 bp):
AGAAAGAAAGAAAGAAAAGAAAAAG
Found at i:87187903 original size:5 final size:6
Alignment explanation
Indices: 87187888--87187912 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
87187878 GTTAAAATGA
87187888 AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT A
87187913 TTGAGTTGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:87189861 original size:55 final size:54
Alignment explanation
Indices: 87189766--87189915 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
87189756 CTACTTTGTT
* ** * *
87189766 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
87189820 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
87189875 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
87189916 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:87189878 original size:27 final size:27
Alignment explanation
Indices: 87189738--87189915 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
87189728 TAAATTGTAC
87189738 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
87189765 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
87189791 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
87189819 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
87189847 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
87189874 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
87189901 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
87189916 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:87189879 original size:82 final size:81
Alignment explanation
Indices: 87189739--87189894 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
87189729 AAATTGTACA
* * * *
87189739 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
87189804 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
87189820 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
87189883 TGTGCGAGTTGA
63 TGTGCGAATTGA
87189895 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:87208949 original size:55 final size:54
Alignment explanation
Indices: 87208854--87209003 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
87208844 CTACTTTGTT
* ** * *
87208854 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
87208908 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
87208963 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
87209004 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:87208966 original size:27 final size:27
Alignment explanation
Indices: 87208826--87209003 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
87208816 TAAATTGTAC
87208826 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
87208853 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
87208879 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
87208907 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
87208935 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
87208962 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
87208989 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
87209004 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:87208967 original size:82 final size:81
Alignment explanation
Indices: 87208827--87208982 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
87208817 AAATTGTACA
* * * *
87208827 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
87208892 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
87208908 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
87208971 TGTGCGAGTTGA
63 TGTGCGAATTGA
87208983 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:87216076 original size:17 final size:18
Alignment explanation
Indices: 87216054--87216098 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
87216044 TCCTCTTTCA
87216054 TTTATTTT-CTTTATTTT
1 TTTATTTTACTTTATTTT
*
87216071 TTTATTTTATTTTATTTT
1 TTTATTTTACTTTATTTT
*
87216089 AATTATTTTA
1 -TTTATTTTA
87216099 TTTGAATTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 8 0.33
18 8 0.33
19 8 0.33
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTATTTTACTTTATTTT
Found at i:87216080 original size:5 final size:5
Alignment explanation
Indices: 87216054--87216101 Score: 50
Period size: 5 Copynumber: 10.4 Consensus size: 5
87216044 TCCTCTTTCA
* *
87216054 TTTAT TTT-C TTTA- TTT-T TTTAT TTTAT TTTAT TTTA- ATTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
87216100 TT
1 TT
87216102 GAATTCTTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
4 12 0.33
5 24 0.67
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:87216096 original size:14 final size:14
Alignment explanation
Indices: 87216077--87216106 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
87216067 TTTTTTTATT
*
87216077 TTATTTTATTTTAA
1 TTATTTTATTTGAA
87216091 TTATTTTATTTGAA
1 TTATTTTATTTGAA
87216105 TT
1 TT
87216107 CTTGAAATTT
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:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (14 bp):
TTATTTTATTTGAA
Found at i:87216096 original size:19 final size:18
Alignment explanation
Indices: 87216063--87216101 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
87216053 ATTTATTTTC
*
87216063 TTTATTTTTTTATTTTAT
1 TTTATTTTATTATTTTAT
87216081 TTTATTTTAATTATTTTAT
1 TTTATTTT-ATTATTTTAT
87216100 TT
1 TT
87216102 GAATTCTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTATTTTATTATTTTAT
Found at i:87226522 original size:21 final size:20
Alignment explanation
Indices: 87226498--87226537 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
87226488 CATGTATTTT
*
87226498 AATGATTTATGATAGATTATG
1 AATGATTGATGATAG-TTATG
87226519 AATGATTGATGATAGTTAT
1 AATGATTGATGATAGTTAT
87226538 ACAAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (20 bp):
AATGATTGATGATAGTTATG
Found at i:87232042 original size:18 final size:18
Alignment explanation
Indices: 87231976--87232065 Score: 65
Period size: 20 Copynumber: 4.6 Consensus size: 18
87231966 GAGGGGTGTT
*
87231976 ACAGAGATGCCAAATAGGGC
1 ACAGAG-TG-CAAACAGGGC
* *
87231996 ACAAATGTGCATACAGGAGC
1 ACAGA-GTGCAAACAGG-GC
*
87232016 ACCGAAGTGCAAA-AGGGC
1 ACAG-AGTGCAAACAGGGC
87232034 ACTAGAGTGCATAACAGGGC
1 AC-AGAGTGCA-AACAGGGC
87232054 ACAGATGTGCAA
1 ACAGA-GTGCAA
87232066 TTAGGGATAC
Statistics
Matches: 56, Mismatches: 7, Indels: 15
0.72 0.09 0.19
Matches are distributed among these distances:
18 10 0.18
19 16 0.29
20 28 0.50
21 2 0.04
ACGTcount: A:0.39, C:0.20, G:0.29, T:0.12
Consensus pattern (18 bp):
ACAGAGTGCAAACAGGGC
Found at i:87232084 original size:40 final size:40
Alignment explanation
Indices: 87232039--87232130 Score: 100
Period size: 40 Copynumber: 2.3 Consensus size: 40
87232029 AGGGCACTAG
* *
87232039 AGTGCATAACAGGGCACAGATGTGCAATTAGG-GATACCAT
1 AGTGCATAACAGGGCACAAATGTGCAATTAGGAG-CACCAT
* * *
87232079 AGTGCA-AACAAGAGCACAAATTTGCTATTAGGAGCACCAT
1 AGTGCATAAC-AGGGCACAAATGTGCAATTAGGAGCACCAT
87232119 AGTGC-TAACAGG
1 AGTGCATAACAGG
87232131 AGTATGAAAG
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
39 5 0.12
40 37 0.86
41 1 0.02
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (40 bp):
AGTGCATAACAGGGCACAAATGTGCAATTAGGAGCACCAT
Found at i:87236007 original size:93 final size:93
Alignment explanation
Indices: 87235901--87236073 Score: 265
Period size: 93 Copynumber: 1.9 Consensus size: 93
87235891 CGCCCATAAG
* * * *
87235901 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
87235966 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGAATGCCTAGTTACATCTCA
* * *
87235994 CGAACTCAGACTCAACTCATCGAGTTCAGATGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
87236059 ACGAGTTCGAATGCC
66 ACGAGCTCGAATGCC
87236074 CAAATATCCG
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGAATGCCTAGTTACATCTCA
Found at i:87236066 original size:46 final size:46
Alignment explanation
Indices: 87235894--87236063 Score: 184
Period size: 46 Copynumber: 3.7 Consensus size: 46
87235884 TGTAACCCGC
**
87235894 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGTTTGCAT
* *
87235940 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATG--T--TTGCAT
* * * * * *
87235990 -C-TCA-CGAACTCAGACTCAACTCATCGAGTTCAGATGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGTTTGCAT
*
87236033 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGCGAACTCGGACTCAACTCAACGAG
87236064 TTCGAATGCC
Statistics
Matches: 101, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
43 4 0.04
44 1 0.01
45 3 0.03
46 57 0.56
47 27 0.27
48 3 0.03
49 1 0.01
50 5 0.05
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGTTTGCAT
Found at i:87239292 original size:27 final size:26
Alignment explanation
Indices: 87239234--87239320 Score: 81
Period size: 25 Copynumber: 3.3 Consensus size: 26
87239224 AATTCATATT
*
87239234 CAGGAATGCTCAT-ACAAGCACATA-AA
1 CAGGAA-GCTCATCTCAAGC-CATATAA
* *
87239260 CGGGAAGCTCCCTCTCAAGCCATATAA
1 CAGGAAGCT-CATCTCAAGCCATATAA
* *
87239287 CAGGAAGCTCATGT-GAGCCATATAA
1 CAGGAAGCTCATCTCAAGCCATATAA
87239312 CAGGAAGCT
1 CAGGAAGCT
87239321 TATCCGGGCT
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
25 22 0.43
26 14 0.27
27 15 0.29
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.17
Consensus pattern (26 bp):
CAGGAAGCTCATCTCAAGCCATATAA
Found at i:87239309 original size:25 final size:25
Alignment explanation
Indices: 87239277--87239385 Score: 114
Period size: 25 Copynumber: 4.4 Consensus size: 25
87239267 CTCCCTCTCA
*
87239277 AGCCATATAACAGGAAGCTCATGTG
1 AGCCATATAACAGGAAGCTCATGAG
* **
87239302 AGCCATATAACAGGAAGCTTATCCG
1 AGCCATATAACAGGAAGCTCATGAG
* ** * *
87239327 GGCTGTATAACGGGAAGCTCATAAG
1 AGCCATATAACAGGAAGCTCATGAG
*
87239352 AGCCATAT-TCAGGAAGCTCATGAG
1 AGCCATATAACAGGAAGCTCATGAG
87239376 AGCCA-ATAAC
1 AGCCATATAAC
87239386 GAGTAGCTCC
Statistics
Matches: 66, Mismatches: 17, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
23 2 0.03
24 19 0.29
25 45 0.68
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (25 bp):
AGCCATATAACAGGAAGCTCATGAG
Found at i:87240219 original size:20 final size:21
Alignment explanation
Indices: 87240189--87240227 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
87240179 ATAACAACCC
87240189 ATTTATTTCATAAAATTTAGA
1 ATTTATTTCATAAAATTTAGA
*
87240210 ATTT-TTTCATAAATTTTA
1 ATTTATTTCATAAAATTTA
87240228 CAGCTTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (21 bp):
ATTTATTTCATAAAATTTAGA
Found at i:87242357 original size:35 final size:35
Alignment explanation
Indices: 87242314--87242388 Score: 98
Period size: 35 Copynumber: 2.1 Consensus size: 35
87242304 AACTCAAAGA
* * * *
87242314 AATAAATAAAAGT-ACACAAATATTTTCAATATAAT
1 AATAAATAAAAATAAAAAAAATATTTCCAA-ATAAT
87242349 AATAAATAAAAATAAAAAAAATATTTCCAAATAAT
1 AATAAATAAAAATAAAAAAAATATTTCCAAATAAT
87242384 AATAA
1 AATAA
87242389 TTTTAAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 22 0.63
36 13 0.37
ACGTcount: A:0.64, C:0.07, G:0.01, T:0.28
Consensus pattern (35 bp):
AATAAATAAAAATAAAAAAAATATTTCCAAATAAT
Found at i:87242455 original size:7 final size:7
Alignment explanation
Indices: 87242445--87242486 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
87242435 AATAAAATAA
*
87242445 AATCCCC
1 AATCCCT
87242452 AAT-CCT
1 AATCCCT
87242458 CAATCCCT
1 -AATCCCT
87242466 AATCCCT
1 AATCCCT
87242473 AATCCCT
1 AATCCCT
87242480 AATCCCT
1 AATCCCT
87242487 CCCTCACCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
6 2 0.06
7 27 0.84
8 3 0.09
ACGTcount: A:0.29, C:0.45, G:0.00, T:0.26
Consensus pattern (7 bp):
AATCCCT
Found at i:87242716 original size:6 final size:6
Alignment explanation
Indices: 87242705--87242746 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
87242695 CATTGGTAGT
87242705 GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA
1 GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA
87242747 CATGGGATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (6 bp):
GAGGGA
Found at i:87242933 original size:30 final size:29
Alignment explanation
Indices: 87242892--87242948 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
87242882 TGTTTAAATT
87242892 TATTATTATATTTATTGAAATTATTTATA
1 TATTATTATATTTATTGAAATTATTTATA
* * *
87242921 TATTATTTATATTTCTTTAAATTTTTTA
1 TATTA-TTATATTTATTGAAATTATTTA
87242949 AAATTAAGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (29 bp):
TATTATTATATTTATTGAAATTATTTATA
Found at i:87243031 original size:51 final size:51
Alignment explanation
Indices: 87242940--87243043 Score: 120
Period size: 51 Copynumber: 2.0 Consensus size: 51
87242930 TATTTCTTTA
* * * * * *
87242940 AATTTTTTAAAATTAAGATCAAATTGAGTTCATTTGTAAAATTTGAAGGTT
1 AATTTTTAAAAATTAAAATCAAATTGAGTTAATCTATAAAAGTTGAAGGTT
* *
87242991 AATTTTTAAAAATTAAAATTAAATTGA-TATAATCTATAAAAGTTGAGGGTT
1 AATTTTTAAAAATTAAAATCAAATTGAGT-TAATCTATAAAAGTTGAAGGTT
87243042 AA
1 AA
87243044 ATTTATTGTA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
50 1 0.02
51 43 0.98
ACGTcount: A:0.44, C:0.03, G:0.12, T:0.40
Consensus pattern (51 bp):
AATTTTTAAAAATTAAAATCAAATTGAGTTAATCTATAAAAGTTGAAGGTT
Found at i:87243959 original size:3 final size:3
Alignment explanation
Indices: 87243951--87243985 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
87243941 CCTCTTTCAC
*
87243951 TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
87243986 GAGTTGGTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:87245709 original size:25 final size:25
Alignment explanation
Indices: 87245675--87245724 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
87245665 CTTAAAATAA
87245675 TACATGTATATATATTGCATTCTTT
1 TACATGTATATATATTGCATTCTTT
87245700 TACATGTATATATATTGCATTCTTT
1 TACATGTATATATATTGCATTCTTT
87245725 CTCAATCGAT
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:0.28, C:0.12, G:0.08, T:0.52
Consensus pattern (25 bp):
TACATGTATATATATTGCATTCTTT
Found at i:87253605 original size:40 final size:40
Alignment explanation
Indices: 87253550--87253679 Score: 181
Period size: 40 Copynumber: 3.2 Consensus size: 40
87253540 CACAAGGCCG
* * *
87253550 TCGGGTCTTAGCCCGG-ATATGGTCACTAGCGCAAATGCCT
1 TCGGGACTTAGCCCGGAAT-TAGTCACTAGCACAAATGCCT
* *
87253590 TCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCT
1 TCGGGACTTAGCCCGGAATTAGTCACTAGCACAAATGCCT
* *
87253630 TCGGGACTTAGCCCGGAATTAATCACTAGCACAAATGTCT
1 TCGGGACTTAGCCCGGAATTAGTCACTAGCACAAATGCCT
87253670 TCGGGACTTA
1 TCGGGACTTA
87253680 ACCCCGTTAG
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
40 78 0.98
41 2 0.03
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
TCGGGACTTAGCCCGGAATTAGTCACTAGCACAAATGCCT
Found at i:87256477 original size:47 final size:47
Alignment explanation
Indices: 87256418--87256861 Score: 699
Period size: 47 Copynumber: 9.4 Consensus size: 47
87256408 CAGCCAAGAC
* *
87256418 AGTGTACATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
87256465 AGTGTATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
87256512 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
87256559 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
87256606 AGTGTATATATGTGATAAGGCATAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
87256653 AGTGTATATATATGTCATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
87256702 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
87256749 AGTGTATATATGTGGTAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
87256796 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
87256843 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
87256862 TCCCGAAGGG
Statistics
Matches: 367, Mismatches: 28, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
47 323 0.88
49 44 0.12
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:87256727 original size:143 final size:143
Alignment explanation
Indices: 87256418--87256806 Score: 692
Period size: 143 Copynumber: 2.7 Consensus size: 143
87256408 CAGCCAAGAC
* *
87256418 AGTGTACATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* * *
87256483 GGCCTAATGGTCGATGTGATGAATGTGAAAGTG--TATATGTGTGATAAGGCCTAATAGCCGATG
66 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTCATAAGGCCTAATAGCCGATG
87256546 TGATGAATGTGAA
131 TGATGAATGTGAA
87256559 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
87256624 GGCATAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTCATAAGGCCTAATAGCCGATG
66 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTCATAAGGCCTAATAGCCGATG
87256689 TGATGAATGTGAA
131 TGATGAATGTGAA
* *
87256702 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGGTAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
87256767 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
66 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
87256807 GTGACAGGGC
Statistics
Matches: 237, Mismatches: 9, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
141 94 0.40
143 143 0.60
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (143 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTCATAAGGCCTAATAGCCGATG
TGATGAATGTGAA
Found at i:87256858 original size:237 final size:237
Alignment explanation
Indices: 87256425--87256861 Score: 739
Period size: 237 Copynumber: 1.8 Consensus size: 237
87256415 GACAGTGTAC
* *
87256425 ATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
1 ATATGTCATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAA
* *
87256490 TGGTCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATG
66 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATG
* * * * * *
87256555 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
131 TGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGCATAAATGTG
87256620 ATAAGGCATAATGGCCGATGTGATGAATGTGAAAGTGTATAT
196 ATAAGGCATAATGGCCGATGTGATGAATGTGAAAGTGTATAT
87256662 ATATGTCATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAA
1 ATATGTCATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAA
* *
87256727 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGGTAAGGCCTAATGGCCGATGTGATGAATG
66 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATG
* * *
87256792 TGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTG
131 TGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGCATAAATGTG
87256857 ATAAG
196 ATAAG
87256862 TCCCGAAGGG
Statistics
Matches: 185, Mismatches: 15, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
237 185 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (237 bp):
ATATGTCATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAA
TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATG
TGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGCATAAATGTG
ATAAGGCATAATGGCCGATGTGATGAATGTGAAAGTGTATAT
Found at i:87257036 original size:37 final size:37
Alignment explanation
Indices: 87256980--87257058 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
87256970 CCGAGCTCTA
* *
87256980 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
87257017 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
87257054 AAGAC
1 AAGAC
87257059 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:87258974 original size:42 final size:43
Alignment explanation
Indices: 87258922--87259024 Score: 199
Period size: 42 Copynumber: 2.4 Consensus size: 43
87258912 GTTGGTTTTC
87258922 GGCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATT
1 GGCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATT
87258965 GGCAC-AAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATT
1 GGCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATT
87259007 GGCACTAAGTGTGCGGGC
1 GGCACTAAGTGTGCGGGC
87259025 TTGAAATGCA
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
42 42 0.71
43 17 0.29
ACGTcount: A:0.22, C:0.16, G:0.37, T:0.25
Consensus pattern (43 bp):
GGCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATT
Found at i:87259555 original size:40 final size:40
Alignment explanation
Indices: 87259362--87259543 Score: 190
Period size: 40 Copynumber: 4.6 Consensus size: 40
87259352 TTGAATGATG
* *
87259362 TCCGGGCTAAGTCCC-AA-AGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
** * *
87259401 TCCGAACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
87259441 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* * ** * *
87259481 TTCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
87259521 TCCGGGCTAGGTCCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCA
87259544 ATCATGCTGG
Statistics
Matches: 119, Mismatches: 21, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
39 12 0.10
40 92 0.77
41 8 0.07
42 7 0.06
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:87263206 original size:47 final size:47
Alignment explanation
Indices: 87263088--87263389 Score: 453
Period size: 47 Copynumber: 6.4 Consensus size: 47
87263078 CAGCCAAGAC
87263088 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG-ATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
87263134 AGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 A--GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
87263183 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
87263230 AGTGTATATATGTAATAAGGCCTAATAGCCGATGTGATGATTGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
87263277 AGTGTATATATGTGGTAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
87263324 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
87263371 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
87263390 TCCCGAAGGG
Statistics
Matches: 234, Mismatches: 19, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
46 1 0.00
47 187 0.80
48 38 0.16
49 8 0.03
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:87263564 original size:37 final size:37
Alignment explanation
Indices: 87263508--87263586 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
87263498 CCGAGCTCTA
* *
87263508 AAGACCCGATGACTACGTGT-GAGAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
87263545 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
87263582 AAGAC
1 AAGAC
87263587 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 35 0.92
38 3 0.08
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:87272701 original size:40 final size:40
Alignment explanation
Indices: 87272611--87272780 Score: 175
Period size: 40 Copynumber: 4.3 Consensus size: 40
87272601 ACCCACTTAT
* ** * *
87272611 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * **
87272649 CGTCGGGTCTTAGCCCGGATATGGTCACTAGCGTAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
87272689 CTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
87272729 CTTCGGGACTTAGCCCGGA-ATTAATCACTAGCACAAATGT
1 CTTCGGGACTTAGCCCGGATA-TAGTCACTAGCACAAATGC
87272769 CTTCGGGACTTA
1 CTTCGGGACTTA
87272781 ACCCCGTTAG
Statistics
Matches: 106, Mismatches: 23, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
38 10 0.09
39 15 0.14
40 81 0.76
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:87277936 original size:21 final size:21
Alignment explanation
Indices: 87277901--87277941 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
87277891 TAATTGCAGA
** *
87277901 AGAAGAAAGGGAGAAGAAAAG
1 AGAAGAAAGAAAGAAAAAAAG
87277922 AGAAGAAAGAAAGAAAAAAA
1 AGAAGAAAGAAAGAAAAAAA
87277942 ATCAGTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (21 bp):
AGAAGAAAGAAAGAAAAAAAG
Found at i:87277973 original size:50 final size:51
Alignment explanation
Indices: 87277915--87278024 Score: 172
Period size: 50 Copynumber: 2.2 Consensus size: 51
87277905 GAAAGGGAGA
87277915 AGAA-AAGAGAAGAAAGAA-AGAAAAAAAATCAGTAAAAAAAGAAGATTAC
1 AGAAGAAGAGAAGAAAGAAGAGAAAAAAAATCAGTAAAAAAAGAAGATTAC
** *
87277964 AGAAGAAGAG-AGGGAGAAGAGAAAAAAATTCAGTAAAAAAAGAAGATTAC
1 AGAAGAAGAGAAGAAAGAAGAGAAAAAAAATCAGTAAAAAAAGAAGATTAC
87278014 AGAAGAAGAGA
1 AGAAGAAGAGA
87278025 GGGAGAAGAG
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
49 10 0.18
50 45 0.82
ACGTcount: A:0.65, C:0.04, G:0.24, T:0.08
Consensus pattern (51 bp):
AGAAGAAGAGAAGAAAGAAGAGAAAAAAAATCAGTAAAAAAAGAAGATTAC
Found at i:87278025 original size:50 final size:50
Alignment explanation
Indices: 87277929--87278036 Score: 200
Period size: 50 Copynumber: 2.2 Consensus size: 50
87277919 AAGAGAAGAA
87277929 AGAA-AGAAAAAAAATCAGTAAAAAAAGAAGATTACAGAAGAAGAGAGGG
1 AGAAGAGAAAAAAAATCAGTAAAAAAAGAAGATTACAGAAGAAGAGAGGG
*
87277978 AGAAGAGAAAAAAATTCAGTAAAAAAAGAAGATTACAGAAGAAGAGAGGG
1 AGAAGAGAAAAAAAATCAGTAAAAAAAGAAGATTACAGAAGAAGAGAGGG
87278028 AGAAGAGAA
1 AGAAGAGAA
87278037 GAAATAAAAT
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
49 4 0.07
50 53 0.93
ACGTcount: A:0.62, C:0.04, G:0.26, T:0.08
Consensus pattern (50 bp):
AGAAGAGAAAAAAAATCAGTAAAAAAAGAAGATTACAGAAGAAGAGAGGG
Found at i:87284741 original size:151 final size:150
Alignment explanation
Indices: 87284509--87285164 Score: 891
Period size: 150 Copynumber: 4.5 Consensus size: 150
87284499 AAAAATTTTC
* * * *
87284509 GTATTTTTAAAATTTTCGGATCTTATTTTTT-AAATATA-T-TATT--T-TTGT-TTTTTTATAT
1 GTATTTTTAAAATTTTCGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATAT
*
87284567 TATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAAT
66 TATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTG-TTTTTATATTAATTTAGTAAATAAC
* *
87284632 CCTGATTTTGGCCCTTTGTTT
130 CCTAATTTTGGCCATTTGTTT
* * * * *
87284653 GTATTTTTTAAATTTTTGGATTTTATTTTTTAAAATATACTATTTCCGTATTTTATTTTTTATCT
1 GTATTTTTAAAATTTTCGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATAT
* * *
87284718 TATTTTAGTACATAATGTTTCAAA--TA-TA--TTA---TTTTAATATT--TTT--CACATAACC
66 TATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTATATTAATTTAGTAAATAACC
*
87284771 CTAATTTTGGCCCTTTGTTT
131 CTAATTTTGGCCATTTGTTT
* *
87284791 GTATTTTTAAAATTTTCAAATTTTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTTATA
1 GTATTTTTAAAATTTTCGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATA
** *
87284856 TTATTTTAGTGGATAATGTTTCAAATATATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAA
65 TTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTG-TTTTTATATTAATTTAGTAAATAA
*
87284921 CCCTGATTTTGGCCATTTGTTT
129 CCCTAATTTTGGCCATTTGTTT
** *
87284943 GTATTTTTAAAATTTTAAAATTTTATTTTTTAAAATATACTATTTTTGTATTTTATTTTTTATAT
1 GTATTTTTAAAATTTTCGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATAT
*
87285008 TATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTATATTAATTTAATAAATAACC
66 TATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTATATTAATTTAGTAAATAACC
*
87285073 CTAATTTTGTCCATTTGTTT
131 CTAATTTTGGCCATTTGTTT
**
87285093 GTATTTTTAAAATTTTCGAATTTTATTTTTTAAAATATACTATTTTAATATTTTATTTTTTATAT
1 GTATTTTTAAAATTTTCGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATAT
87285158 TATTTTA
66 TATTTTA
87285165 AAAAAAACCC
Statistics
Matches: 452, Mismatches: 39, Indels: 36
0.86 0.07 0.07
Matches are distributed among these distances:
138 74 0.16
139 31 0.07
140 3 0.01
141 2 0.00
142 11 0.02
144 31 0.07
145 7 0.02
146 4 0.01
147 2 0.00
148 11 0.02
149 3 0.01
150 117 0.26
151 79 0.17
152 77 0.17
ACGTcount: A:0.29, C:0.06, G:0.07, T:0.58
Consensus pattern (150 bp):
GTATTTTTAAAATTTTCGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATAT
TATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTATATTAATTTAGTAAATAACC
CTAATTTTGGCCATTTGTTT
Found at i:87284893 original size:290 final size:294
Alignment explanation
Indices: 87284509--87285164 Score: 933
Period size: 290 Copynumber: 2.2 Consensus size: 294
87284499 AAAAATTTTC
* * *
87284509 GTATTTTTAAAATTTTCGGATCTTATTTTTT-AAATATATTA----T-TTTTGTTTTTTTATATT
1 GTATTTTTAAAATTTTCGAATTTTATTTTTTAAAATATATTATTTTTATTTTATTTTTTTATATT
* *
87284568 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAATC
66 ATTTTAGTACATAATGTTTCAAATATATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACC
* * ***
87284633 CTGATTTTGGCCCTTTGTTTGTATTTTTTAAATTTTTGGATTTTATTTTTTAAAATATACTATTT
131 CTGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTAAAATTTTATTTTTTAAAATATACTATTT
*
87284698 CCGTATTTTATTTTTTATCTTATTTTAGTACATAATGTTTCAAA-TA-TA-TTA-TTTTAATATT
196 CCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAAGTATTATTTAGTTTTAATATT
* *
87284759 -TTT-CACATAACCCTAATTTTGGCCCTTTGTTT
261 ATTTACAAATAACCCTAATTTTGGCCATTTGTTT
*
87284791 GTATTTTTAAAATTTTCAAATTTTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTTATA
1 GTATTTTTAAAATTTTCGAATTTTATTTTTTAAAATATATTATTTT--TATTTTATTTTTTTATA
**
87284856 TTATTTTAGTGGATAATGTTTCAAATATATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAA
64 TTATTTTAGTACATAATGTTTCAAATATATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAA
87284921 CCCTGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTAAAATTTTATTTTTTAAAATATACTAT
129 CCCTGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTAAAATTTTATTTTTTAAAATATACTAT
**
87284986 TTTTGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTT
194 TTCCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAA-GTATTA-TTTA--GTTTT
* * *
87285051 TATATTAATTTAATAAATAACCCTAATTTTGTCCATTTGTTT
255 AATATT-ATTT-ACAAATAACCCTAATTTTGGCCATTTGTTT
*
87285093 GTATTTTTAAAATTTTCGAATTTTATTTTTTAAAATATACTATTTTAATATTTTA-TTTTTTATA
1 GTATTTTTAAAATTTTCGAATTTTATTTTTTAAAATATATTATTTT--TATTTTATTTTTTTATA
87285157 TTATTTTA
64 TTATTTTA
87285165 AAAAAAACCC
Statistics
Matches: 329, Mismatches: 25, Indels: 21
0.88 0.07 0.06
Matches are distributed among these distances:
282 28 0.09
283 10 0.03
289 1 0.00
290 178 0.54
292 2 0.01
293 2 0.01
295 3 0.01
298 9 0.03
300 3 0.01
301 17 0.05
302 76 0.23
ACGTcount: A:0.29, C:0.06, G:0.07, T:0.58
Consensus pattern (294 bp):
GTATTTTTAAAATTTTCGAATTTTATTTTTTAAAATATATTATTTTTATTTTATTTTTTTATATT
ATTTTAGTACATAATGTTTCAAATATATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACC
CTGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTAAAATTTTATTTTTTAAAATATACTATTT
CCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAAGTATTATTTAGTTTTAATATT
ATTTACAAATAACCCTAATTTTGGCCATTTGTTT
Found at i:87285222 original size:17 final size:17
Alignment explanation
Indices: 87285202--87285234 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
87285192 CCAAATTTTT
87285202 TTTTCATATTTTATTTC
1 TTTTCATATTTTATTTC
*
87285219 TTTTCTTATTTTATTT
1 TTTTCATATTTTATTT
87285235 TTTCATTAAG
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:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTCATATTTTATTTC
Found at i:87285268 original size:17 final size:17
Alignment explanation
Indices: 87285198--87285279 Score: 55
Period size: 17 Copynumber: 4.9 Consensus size: 17
87285188 TCCCCCAAAT
*
87285198 TTTTTTTTCATATTTTA
1 TTTTTTTTAATATTTTA
* **
87285215 TTTCTTTTCTTATTTTA
1 TTTTTTTTAATATTTTA
*
87285232 TTTTTTCATTAAGA---TA
1 TTTTTT--TTAATATTTTA
87285248 -TTTTTTTAATATTTTA
1 TTTTTTTTAATATTTTA
* *
87285264 TTTTTTATACTATTTT
1 TTTTTTTTAATATTTT
87285280 TGTAAAATAG
Statistics
Matches: 50, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
13 5 0.10
15 5 0.10
16 4 0.08
17 33 0.66
19 3 0.06
ACGTcount: A:0.21, C:0.06, G:0.01, T:0.72
Consensus pattern (17 bp):
TTTTTTTTAATATTTTA
Found at i:87285672 original size:10 final size:10
Alignment explanation
Indices: 87285653--87285686 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
87285643 AAAAAATTAC
87285653 CCTT-TTTTT
1 CCTTCTTTTT
87285662 CCTTCTTTTT
1 CCTTCTTTTT
*
87285672 CTTTCTTTTT
1 CCTTCTTTTT
87285682 CCTTC
1 CCTTC
87285687 CCTTCCTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (10 bp):
CCTTCTTTTT
Found at i:87285769 original size:12 final size:11
Alignment explanation
Indices: 87285751--87285830 Score: 53
Period size: 11 Copynumber: 7.5 Consensus size: 11
87285741 TGCTTTTCCT
87285751 TCTTCTCCTTC
1 TCTTCTCCTTC
87285762 TCCTTCTCCTTC
1 T-CTTCTCCTTC
*
87285774 TCTTCTTCTT-
1 TCTTCTCCTTC
*
87285784 T-TTCT-CTTT
1 TCTTCTCCTTC
* *
87285793 TTTTCTTCTTC
1 TCTTCTCCTTC
87285804 TCTTCT--TTC
1 TCTTCTCCTTC
* *
87285813 TTTTCTTCTTC
1 TCTTCTCCTTC
87285824 TCCTTCT
1 T-CTTCT
87285831 TTTTTCCCAA
Statistics
Matches: 57, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
8 3 0.05
9 13 0.23
10 5 0.09
11 21 0.37
12 15 0.26
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (11 bp):
TCTTCTCCTTC
Found at i:87285782 original size:3 final size:3
Alignment explanation
Indices: 87285749--87285831 Score: 68
Period size: 3 Copynumber: 29.0 Consensus size: 3
87285739 CCTGCTTTTC
* * * *
87285749 CTT CTT CTC CTT CTC CTT CTC CTT C-T CTT CTT CTT TTT C-T CTT -TT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
* *
87285794 TTT CTT CTT C-T CTT CTTT CTT -TT CTT CTT CTC CTT CTT
1 CTT CTT CTT CTT CTT C-TT CTT CTT CTT CTT CTT CTT CTT
87285832 TTTTCCCAAA
Statistics
Matches: 63, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
2 10 0.16
3 50 0.79
4 3 0.05
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:87285804 original size:16 final size:18
Alignment explanation
Indices: 87285758--87285832 Score: 73
Period size: 20 Copynumber: 4.0 Consensus size: 18
87285748 CCTTCTTCTC
*
87285758 CTTCTCCTTCTCCTTCTCTT
1 CTTCTTCTTCT-CTTCT-TT
*
87285778 CTTCTTTTTCTCTT-TTT
1 CTTCTTCTTCTCTTCTTT
87285795 -TTCTTCTTCTCTTCTTT
1 CTTCTTCTTCTCTTCTTT
87285812 CTTTTCTTCTTCTCCTTCTTT
1 C--TTCTTCTTCT-CTTCTTT
87285833 TTTCCCAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
16 12 0.26
17 5 0.11
18 1 0.02
19 3 0.06
20 19 0.40
21 7 0.15
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (18 bp):
CTTCTTCTTCTCTTCTTT
Found at i:87286337 original size:24 final size:23
Alignment explanation
Indices: 87286303--87286347 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
87286293 GTGACATGGT
* *
87286303 TTTTTTTAATATTAATTTTTAATA
1 TTTTTTAAATAAT-ATTTTTAATA
87286327 TTTTTTAAATAATATTTTTAA
1 TTTTTTAAATAATATTTTTAA
87286348 AATATAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTTTTAAATAATATTTTTAATA
Found at i:87286357 original size:16 final size:14
Alignment explanation
Indices: 87286322--87286351 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
87286312 TATTAATTTT
*
87286322 TAATATTTTTTAAA
1 TAATATTTTTAAAA
87286336 TAATATTTTTAAAA
1 TAATATTTTTAAAA
87286350 TA
1 TA
87286352 TAATATCAGT
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:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TAATATTTTTAAAA
Done.