Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 378 of 425
Found at i:116212192 original size:11 final size:11
Alignment explanation
Indices: 116212178--116212222 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
116212168 AGATAAATAT
116212178 TATTTTATTAA
1 TATTTTATTAA
*
116212189 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
116212202 TATTTTATTAT
1 TATTTTATTAA
116212213 TATTTTATTA
1 TATTTTATTA
116212223 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:116214401 original size:46 final size:46
Alignment explanation
Indices: 116214349--116214668 Score: 489
Period size: 46 Copynumber: 7.0 Consensus size: 46
116214339 AGTGTGCTAT
116214349 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
116214395 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
116214441 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
116214487 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
116214533 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
116214579 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * * *
116214625 ATGACA-GAAAATGAGTAAGAGCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
116214669 TCACGTCAAA
Statistics
Matches: 255, Mismatches: 18, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 254 1.00
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:116229907 original size:25 final size:25
Alignment explanation
Indices: 116229878--116229927 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
116229868 TGGTAAGGAG
*
116229878 TTAGCTTGCTGGAGGTTTTGTGTTT
1 TTAGCTTGCTAGAGGTTTTGTGTTT
116229903 TTAGCTTGCTAGAGGTTTTGTGTTT
1 TTAGCTTGCTAGAGGTTTTGTGTTT
116229928 GAATCCTTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.10, C:0.08, G:0.30, T:0.52
Consensus pattern (25 bp):
TTAGCTTGCTAGAGGTTTTGTGTTT
Found at i:116240695 original size:3 final size:3
Alignment explanation
Indices: 116240677--116240718 Score: 61
Period size: 3 Copynumber: 14.3 Consensus size: 3
116240667 AAATAGAAGA
116240677 TAT TAT T-T TAT T-T TAT TAT TAT TATT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT T
116240719 TTAATTTAGC
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
2 4 0.11
3 29 0.81
4 3 0.08
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TAT
Found at i:116240695 original size:13 final size:14
Alignment explanation
Indices: 116240677--116240721 Score: 65
Period size: 16 Copynumber: 3.1 Consensus size: 14
116240667 AAATAGAAGA
116240677 TATTATT-TTATTT
1 TATTATTATTATTT
116240690 TATTATTATTATTTAT
1 TATTATTATTA-TT-T
116240706 TATTATTATTATTT
1 TATTATTATTATTT
116240720 TA
1 TA
116240722 ATTTAGCTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
13 7 0.24
14 6 0.21
15 4 0.14
16 12 0.41
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TATTATTATTATTT
Found at i:116240698 original size:16 final size:16
Alignment explanation
Indices: 116240677--116240726 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 16
116240667 AAATAGAAGA
116240677 TATTATTTTATTTTAT
1 TATTATTTTATTTTAT
116240693 TATTATTATTTATTATTAT
1 TATTA-T-TTTATT-TTAT
*
116240712 TATTATTTTAATTTA
1 TATTATTTTATTTTA
116240727 GCTTTAGCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
16 8 0.27
17 6 0.20
18 7 0.23
19 9 0.30
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TATTATTTTATTTTAT
Found at i:116241418 original size:25 final size:25
Alignment explanation
Indices: 116241384--116241433 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
116241374 GGTAAGGGTT
116241384 GGTTTGCAGGTCGTACTGGGACCAG
1 GGTTTGCAGGTCGTACTGGGACCAG
116241409 GGTTTGCAGGTCGTACTGGGACCAG
1 GGTTTGCAGGTCGTACTGGGACCAG
116241434 CTACGAGAGG
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:0.16, C:0.20, G:0.40, T:0.24
Consensus pattern (25 bp):
GGTTTGCAGGTCGTACTGGGACCAG
Found at i:116257044 original size:49 final size:49
Alignment explanation
Indices: 116256986--116257082 Score: 176
Period size: 49 Copynumber: 2.0 Consensus size: 49
116256976 TTCGTCGTTC
*
116256986 TGGTTGAAAGGGCTTGTAAAGCCGAAGATCTCAGTAAAGAAAAGAGAAT
1 TGGTTGAAAGGGCTTGTAAAGCCGAAGATCTCAGTAAAGAAAAAAGAAT
*
116257035 TGGTTGAAAGGGCTTGTAAAGCCGAAGATCTCGGTAAAGAAAAAAGAA
1 TGGTTGAAAGGGCTTGTAAAGCCGAAGATCTCAGTAAAGAAAAAAGAA
116257083 AAACAGACTC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.41, C:0.10, G:0.29, T:0.20
Consensus pattern (49 bp):
TGGTTGAAAGGGCTTGTAAAGCCGAAGATCTCAGTAAAGAAAAAAGAAT
Found at i:116259325 original size:29 final size:27
Alignment explanation
Indices: 116259281--116259370 Score: 108
Period size: 29 Copynumber: 3.1 Consensus size: 27
116259271 CCCAATCTTG
*
116259281 TTCATATGGCCTATTAGGCTCAATTCACA
1 TTCATATGGCCCATTAGGC-CAA-TCACA
116259310 TTCATATGGCCCATTAGGACCAAATCACA
1 TTCATATGGCCCATTAGG-CC-AATCACA
* *
116259339 TTCATATGGCCCACTAGGCCCAATCACT
1 TTCATATGGCCCATTAGG-CCAATCACA
116259367 TTCA
1 TTCA
116259371 CAGTCATACT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
28 10 0.18
29 42 0.76
30 3 0.05
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (27 bp):
TTCATATGGCCCATTAGGCCAATCACA
Found at i:116259604 original size:16 final size:16
Alignment explanation
Indices: 116259583--116259618 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
116259573 GTAGCCAAAC
*
116259583 TTTCGGCTTTTCGGCA
1 TTTCGGCTTTTCGACA
116259599 TTTCGGCTTTTCGACA
1 TTTCGGCTTTTCGACA
116259615 TTTC
1 TTTC
116259619 AGGATTTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.08, C:0.25, G:0.19, T:0.47
Consensus pattern (16 bp):
TTTCGGCTTTTCGACA
Found at i:116268907 original size:21 final size:21
Alignment explanation
Indices: 116268881--116268928 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
116268871 AAGCCCCCCC
*
116268881 AAAAAAACCTAACCCCCAAAA
1 AAAAAAAACTAACCCCCAAAA
*
116268902 AAAAAAAACTAACCCCCCAAA
1 AAAAAAAACTAACCCCCAAAA
116268923 AAAAAA
1 AAAAAA
116268929 CCACGAAACC
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:0.67, C:0.29, G:0.00, T:0.04
Consensus pattern (21 bp):
AAAAAAAACTAACCCCCAAAA
Found at i:116269793 original size:2 final size:2
Alignment explanation
Indices: 116269788--116269820 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
116269778 TAAATACTAT
*
116269788 TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
116269821 TTTAAATACC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:116271855 original size:16 final size:16
Alignment explanation
Indices: 116271834--116271886 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 16
116271824 AGACAAATCT
116271834 CGAAATGCCGAAAAGC
1 CGAAATGCCGAAAAGC
**
116271850 CGAAATGCCGAAAATT
1 CGAAATGCCGAAAAGC
* *
116271866 CGAAATGTCGAAAGGC
1 CGAAATGCCGAAAAGC
116271882 CGAAA
1 CGAAA
116271887 GTTTGGCTAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.43, C:0.21, G:0.25, T:0.11
Consensus pattern (16 bp):
CGAAATGCCGAAAAGC
Found at i:116271887 original size:8 final size:8
Alignment explanation
Indices: 116271834--116271886 Score: 54
Period size: 8 Copynumber: 6.6 Consensus size: 8
116271824 AGACAAATCT
116271834 CGAAATGC
1 CGAAATGC
*
116271842 CGAAAAGC
1 CGAAATGC
116271850 CGAAATGC
1 CGAAATGC
*
116271858 CGAAAAT-T
1 CG-AAATGC
*
116271866 CGAAATGT
1 CGAAATGC
*
116271874 CGAAAGGC
1 CGAAATGC
116271882 CGAAA
1 CGAAA
116271887 GTTTGGCTAC
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
7 4 0.11
8 30 0.79
9 4 0.11
ACGTcount: A:0.43, C:0.21, G:0.25, T:0.11
Consensus pattern (8 bp):
CGAAATGC
Found at i:116272164 original size:28 final size:28
Alignment explanation
Indices: 116272092--116272170 Score: 86
Period size: 29 Copynumber: 2.8 Consensus size: 28
116272082 CTGTGAAAGT
* ***
116272092 GATTGGGCTTAGTGGGCCATATGAATGT
1 GATTGGGCCTAGTGGGCCATATGAACAA
* * *
116272120 GAATTGAGCCTAATGGGCTATATGAACAA
1 G-ATTGGGCCTAGTGGGCCATATGAACAA
116272149 GATTGGGCCTAGTGGGCCATAT
1 GATTGGGCCTAGTGGGCCATAT
116272171 ACATGTATGT
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
28 19 0.47
29 21 0.52
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.28
Consensus pattern (28 bp):
GATTGGGCCTAGTGGGCCATATGAACAA
Found at i:116276548 original size:18 final size:18
Alignment explanation
Indices: 116276518--116276552 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
116276508 GCTTGTTCTG
116276518 GTGTAGTTCTGGTTTATC
1 GTGTAGTTCTGGTTTATC
116276536 GTGT-GTTCTTGGTTTAT
1 GTGTAGTTC-TGGTTTAT
116276553 GCTTCCCCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.09, C:0.09, G:0.29, T:0.54
Consensus pattern (18 bp):
GTGTAGTTCTGGTTTATC
Found at i:116284810 original size:17 final size:17
Alignment explanation
Indices: 116284785--116284821 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
116284775 TAGCAAACCC
*
116284785 CCAAAATTAGTCTAAAA
1 CCAAAATTAATCTAAAA
*
116284802 CCAAGATTAATCTAAAA
1 CCAAAATTAATCTAAAA
116284819 CCA
1 CCA
116284822 TGAAACCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.22, G:0.05, T:0.22
Consensus pattern (17 bp):
CCAAAATTAATCTAAAA
Found at i:116286874 original size:6 final size:6
Alignment explanation
Indices: 116286863--116286905 Score: 68
Period size: 6 Copynumber: 7.0 Consensus size: 6
116286853 TAGATACAGT
*
116286863 TTCAGA TTCAGA TTTAGA TTCAGA TTCAGA TTCAGA TTACAGA
1 TTCAGA TTCAGA TTCAGA TTCAGA TTCAGA TTCAGA TT-CAGA
116286906 AGTAGATATG
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
6 30 0.88
7 4 0.12
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (6 bp):
TTCAGA
Found at i:116286881 original size:12 final size:12
Alignment explanation
Indices: 116286853--116286900 Score: 62
Period size: 12 Copynumber: 4.0 Consensus size: 12
116286843 CAGTCAAAAA
*
116286853 TAGATACAG-TT
1 TAGATTCAGATT
116286864 TCAGATTCAGATT
1 T-AGATTCAGATT
116286877 TAGATTCAGATT
1 TAGATTCAGATT
*
116286889 CAGATTCAGATT
1 TAGATTCAGATT
116286901 ACAGAAGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
11 1 0.03
12 29 0.88
13 3 0.09
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (12 bp):
TAGATTCAGATT
Found at i:116289756 original size:18 final size:18
Alignment explanation
Indices: 116289733--116289800 Score: 63
Period size: 18 Copynumber: 4.0 Consensus size: 18
116289723 TGACAAATAT
116289733 TATATATAATAATAAAAA
1 TATATATAATAATAAAAA
* *
116289751 TATATATAATTAT-TAAA
1 TATATATAATAATAAAAA
*
116289768 TAT-TA-AATAA-AAAAT
1 TATATATAATAATAAAAA
* *
116289783 TATATTTAAGAATAAAAA
1 TATATATAATAATAAAAA
116289801 AATGTGAATG
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
15 9 0.24
16 3 0.08
17 10 0.26
18 16 0.42
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (18 bp):
TATATATAATAATAAAAA
Found at i:116293905 original size:3 final size:3
Alignment explanation
Indices: 116293897--116293949 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
116293887 ACGGTTTAAA
* * * * **
116293897 AAT AAT AAT ATT AAT GAT AAT GAT AAT AAT ATT AAT AAT AAT ACG AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
116293945 AAT AA
1 AAT AA
116293950 ATAACCCAGA
Statistics
Matches: 38, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:116293924 original size:21 final size:21
Alignment explanation
Indices: 116293898--116293938 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
116293888 CGGTTTAAAA
*
116293898 ATAATAATATTAATGATAATG
1 ATAATAATATTAATAATAATG
116293919 ATAATAATATTAATAATAAT
1 ATAATAATATTAATAATAAT
116293939 ACGAATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (21 bp):
ATAATAATATTAATAATAATG
Found at i:116293945 original size:21 final size:21
Alignment explanation
Indices: 116293900--116293948 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
116293890 GTTTAAAAAT
* *
116293900 AATAATATTAATGATAATGAT
1 AATAATATTAATAATAATGAG
116293921 AATAATATTAATAATAAT-ACG
1 AATAATATTAATAATAATGA-G
116293942 AATAATA
1 AATAATA
116293949 AATAACCCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 1 0.04
21 24 0.96
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (21 bp):
AATAATATTAATAATAATGAG
Found at i:116294090 original size:33 final size:34
Alignment explanation
Indices: 116294050--116294117 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 34
116294040 TATATTTTAA
* *
116294050 AAATGAT-AATAAATAAAACAATAAT-AATAAAAG
1 AAATGATAAAAAAATAAAA-AAAAATAAATAAAAG
116294083 AAATGATAAAAAAATAAAAAAAAATAAATAAAAG
1 AAATGATAAAAAAATAAAAAAAAATAAATAAAAG
116294117 A
1 A
116294118 GTGTAATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
33 12 0.39
34 19 0.61
ACGTcount: A:0.75, C:0.01, G:0.06, T:0.18
Consensus pattern (34 bp):
AAATGATAAAAAAATAAAAAAAAATAAATAAAAG
Found at i:116295522 original size:44 final size:45
Alignment explanation
Indices: 116295345--116295625 Score: 168
Period size: 44 Copynumber: 6.2 Consensus size: 45
116295335 ATTTGCTATT
* * * *
116295345 TTCACTCTGCTCCACTGCAACTTCAAGGAGATAA-GATT-TATAG-
1 TTCAATCTACTCCACTGCAACTTCAGGGAGATAAGGCTTGT-TAGC
* * * * * * *
116295388 TTCAATCTACTCTAATGCAACTTTAGGGATATAAGATTTGCCATGATAGA
1 TTCAATCTACTCCACTGCAACTTCAGGGAGATAAG----G-CTTGTTAGC
* * *
116295438 TTTAATCCAAC-CCACTGCAACCTCAGGG-G-TATAGGACTTGTTA-C
1 TTCAAT-CTACTCCACTGCAACTTCAGGGAGATA-AGG-CTTGTTAGC
* *
116295482 TTCAATCTATTCCACTGCAACTTCAGGGAGATAAGGCTTG-TCGC
1 TTCAATCTACTCCACTGCAACTTCAGGGAGATAAGGCTTGTTAGC
* * * * *
116295526 TTTAATCTGCTCCACTGTAATTTCAGGGAGATAA-GATT-TATAGC
1 TTCAATCTACTCCACTGCAACTTCAGGGAGATAAGGCTTGT-TAGC
* * ** *
116295570 TTCAATCTACTCTACTGCAACTTCAGAGAGATAAGATTTGTTATC
1 TTCAATCTACTCCACTGCAACTTCAGGGAGATAAGGCTTGTTAGC
116295615 TTCAATCTACT
1 TTCAATCTACT
116295626 TTAATCTGCT
Statistics
Matches: 178, Mismatches: 42, Indels: 34
0.70 0.17 0.13
Matches are distributed among these distances:
43 33 0.19
44 86 0.48
45 26 0.15
46 3 0.02
48 3 0.02
49 6 0.03
50 18 0.10
51 3 0.02
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (45 bp):
TTCAATCTACTCCACTGCAACTTCAGGGAGATAAGGCTTGTTAGC
Found at i:116295576 original size:88 final size:88
Alignment explanation
Indices: 116295310--116296150 Score: 524
Period size: 88 Copynumber: 9.3 Consensus size: 88
116295300 TTTGATCTGT
* * * * * * *
116295310 TCCACTGCAAATTCAGAGAAATAAGATTTGCTA-TTTTCACTCTGCTCCACTGCAACTTCAAGGA
1 TCCACTGCAACTTCAGGGAGATAAGACTTG-TAGCTTT-AATCTGCTCCACTGCAACTTCAGGGA
116295374 GATAAGATTTATAG-TTCAATCTAC
64 GATAAGATTTATAGCTTCAATCTAC
* * * * * * ** *
116295398 TCTAATGCAACTTTAGGGATATAAGATTTGCCATGATAGATTTAATCCAAC-CCACTGCAACCTC
1 TCCACTGCAACTTCAGGGAGATAAGA-----CTTG-TAGCTTTAAT-CTGCTCCACTGCAACTTC
* *
116295462 AGGG-GTATAGGACTTGT-TA-CTTCAATCTAT
59 AGGGAG-ATAAGA-TT-TATAGCTTCAATCTAC
* * * *
116295492 TCCACTGCAACTTCAGGGAGATAAGGCTTGTCGCTTTAATCTGCTCCACTGTAATTTCAGGGAGA
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
116295557 TAAGATTTATAGCTTCAATCTAC
66 TAAGATTTATAGCTTCAATCTAC
* * * *
116295580 TCTACTGCAACTTCAGAGAGATAAGATTTGTTATCTTCAATCTACTTTAATCTGCTCCACTGCAA
1 TCCACTGCAACTTCAGGGAGATAAGACTTG------T--A---GCTTTAATCTGCTCCACTGCAA
* * * * * **
116295645 CCTCAAGGAGAAAAGATTTGCAATTTGCAGCTTTAATATGT
55 CTTCAGGGAGATAAGATTT---A--T--AGCTTCAATCTAC
* * * * *
116295686 TCCACTG---CTTCAGGGAAATAACA-TTCGCTA-TTTTCAGTCTGCTCCACTACAACTTCAGGG
1 TCCACTGCAACTTCAGGGAGATAAGACTT-G-TAGCTTT-AATCTGCTCCACTGCAACTTCAGGG
* * * * *
116295746 AGATAAGACTTGTAACTTCAATATGC
63 AGATAAGATTTATAGCTTCAATCTAC
* * * * * ** *
116295772 TTCACTGCAACTTCAGGGAGATAAGATTTATAGCTTTAATCTACTCTACTATAACTTCAGAGAGA
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
* * *
116295837 TAAGATTTGCTATCTTCAGTCTAC
66 TAAGATTT-ATAGCTTCAATCTAC
* * * *
116295861 TCCACTGCAACTTCAGGGAGATAAGACTTGTAGCTTTAATCTGTTCCTCTGCAAATTCAGGGAAA
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
* *
116295926 TAAGATTCATAGCTTTAATCTAC
66 TAAGATTTATAGCTTCAATCTAC
* * * * *
116295949 TCTACTGCAACTTCAGAGAGATAAGA-TTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
1 TCCACTGCAACTTCAGGGAGATAAGACTTG-TAGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * * *
116296013 ATAAG-GTT-TGGCTTTAATCTGC
65 ATAAGATTTATAGCTTCAATCTAC
* ** * * *
116296035 TCCACTGCAACTTCAGGGAGATAAGATTTGTTTATTTTTAA-CTTGCTCCACTACAATTTTAGGG
1 TCCACTGCAACTTCAGGGAGATAAGACTTG--TAGCTTTAATC-TGCTCCACTGCAACTTCAGGG
* * *
116296099 AGATAAGTTTTATGGCTTTAATCTAC
63 AGATAAGATTTATAGCTTCAATCTAC
*
116296125 TTCACTGCAACTTCAGGGAGATAAGA
1 TCCACTGCAACTTCAGGGAGATAAGA
116296151 TTCGCCATGA
Statistics
Matches: 585, Mismatches: 121, Indels: 92
0.73 0.15 0.12
Matches are distributed among these distances:
86 53 0.09
87 14 0.02
88 214 0.37
89 93 0.16
90 40 0.07
92 4 0.01
93 56 0.10
94 40 0.07
95 1 0.00
96 1 0.00
98 1 0.00
99 35 0.06
102 3 0.01
103 14 0.02
104 1 0.00
106 15 0.03
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.33
Consensus pattern (88 bp):
TCCACTGCAACTTCAGGGAGATAAGACTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
TAAGATTTATAGCTTCAATCTAC
Found at i:116295828 original size:44 final size:44
Alignment explanation
Indices: 116295723--116296152 Score: 359
Period size: 44 Copynumber: 9.8 Consensus size: 44
116295713 CTATTTTCAG
* * * * * *
116295723 TCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTCAA
1 TCTGCTCTACTGCAACTTCAGGGAGATAAGATTTATAGCTTTAA
*
116295767 TATGCT-TCACTGCAACTTCAGGGAGATAAGATTTATAGCTTTAA
1 TCTGCTCT-ACTGCAACTTCAGGGAGATAAGATTTATAGCTTTAA
* ** * * * * *
116295811 TCTACTCTACTATAACTTCAGAGAGATAAGATTTGCTATCTTCAG
1 TCTGCTCTACTGCAACTTCAGGGAGATAAGATTT-ATAGCTTTAA
* * * *
116295856 TCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAGCTTTAA
1 TCTGCTCTACTGCAACTTCAGGGAGATAAGATTTATAGCTTTAA
* * * *
116295900 TCTGTTCCT-CTGCAAATTCAGGGAAATAAGATTCATAGCTTTAA
1 TCTGCT-CTACTGCAACTTCAGGGAGATAAGATTTATAGCTTTAA
* * ** * * *
116295944 TCTACTCTACTGCAACTTCAGAGAGATAAGATTGCTATCTTCAG
1 TCTGCTCTACTGCAACTTCAGGGAGATAAGATTTATAGCTTTAA
* * *
116295988 TCTGCTCCACTGCAACTTCAGGGAGATAAG-GTT-TGGCTTTAA
1 TCTGCTCTACTGCAACTTCAGGGAGATAAGATTTATAGCTTTAA
* * **
116296030 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTTTATTTTTAA
1 TCTGCTCTACTGCAACTTCAGGGAGATAAGA-TT-TATAGCTTTAA
* * * * * *
116296076 -CTTGCTCCACTACAATTTTAGGGAGATAAGTTTTATGGCTTTAA
1 TC-TGCTCTACTGCAACTTCAGGGAGATAAGATTTATAGCTTTAA
*
116296120 TCTACT-TCACTGCAACTTCAGGGAGATAAGATT
1 TCTGCTCT-ACTGCAACTTCAGGGAGATAAGATT
116296153 CGCCATGATA
Statistics
Matches: 304, Mismatches: 70, Indels: 24
0.76 0.18 0.06
Matches are distributed among these distances:
42 35 0.12
43 3 0.01
44 193 0.63
45 42 0.14
46 31 0.10
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.33
Consensus pattern (44 bp):
TCTGCTCTACTGCAACTTCAGGGAGATAAGATTTATAGCTTTAA
Found at i:116295879 original size:133 final size:133
Alignment explanation
Indices: 116295693--116296063 Score: 534
Period size: 133 Copynumber: 2.8 Consensus size: 133
116295683 TGTTCCACTG
* * * * * *
116295693 CTTCAGGGAAATAACATTCGCTATTTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTTG
1 CTTCAGAGAGATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG
* * *
116295758 TAACTTCAATATGCTTCACTGCAACTTCAGGGAGATAAGATTTATAGCTTTAATCTACTCTACTA
66 TAGCTTTAATCTGCTTCACTGCAACTTCAGGGAGATAAGATTTATAGCTTTAATCTACTCTACTA
*
116295823 TAA
131 CAA
*
116295826 CTTCAGAGAGATAAGATTTGCTATCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTG
1 CTTCAGAGAGATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG
* * * *
116295891 TAGCTTTAATCTG-TTCCTCTGCAAATTCAGGGAAATAAGATTCATAGCTTTAATCTACTCTACT
66 TAGCTTTAATCTGCTT-CACTGCAACTTCAGGGAGATAAGATTTATAGCTTTAATCTACTCTACT
*
116295955 GCAA
130 ACAA
*
116295959 CTTCAGAGAGATAAGA-TTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAG-GTT-
1 CTTCAGAGAGATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG
* *
116296021 TGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTT
66 TAGCTTTAATCTGCTTCACTGCAACTTCAGGGAGATAAGATTT
116296064 GTTTATTTTT
Statistics
Matches: 212, Mismatches: 24, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
130 35 0.17
131 3 0.01
132 44 0.21
133 130 0.61
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (133 bp):
CTTCAGAGAGATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG
TAGCTTTAATCTGCTTCACTGCAACTTCAGGGAGATAAGATTTATAGCTTTAATCTACTCTACTA
CAA
Found at i:116297825 original size:18 final size:18
Alignment explanation
Indices: 116297802--116297837 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
116297792 TTCATGTGTG
116297802 CAGTTAAGTGCCAAGATA
1 CAGTTAAGTGCCAAGATA
116297820 CAGTTAAGTGCCAAGATA
1 CAGTTAAGTGCCAAGATA
116297838 TGTGTGATCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (18 bp):
CAGTTAAGTGCCAAGATA
Found at i:116304162 original size:22 final size:23
Alignment explanation
Indices: 116304137--116304201 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 23
116304127 TCAACCAAAT
116304137 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
116304159 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
** *
116304182 ACGTCATCACATATCTATAA
1 AATTCAT-ACATATTTATAA
116304202 CCAGGTTTGT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 6 0.17
23 18 0.51
24 11 0.31
ACGTcount: A:0.43, C:0.15, G:0.06, T:0.35
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:116311908 original size:22 final size:23
Alignment explanation
Indices: 116311883--116311947 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 23
116311873 CAACCAAATC
116311883 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
116311905 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
** *
116311928 ACGTCATCACATATCTATAA
1 AATTCAT-ACATATTTATAA
116311948 CCAGGTTTGT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 6 0.17
23 18 0.51
24 11 0.31
ACGTcount: A:0.43, C:0.15, G:0.06, T:0.35
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:116321475 original size:3 final size:3
Alignment explanation
Indices: 116321467--116321524 Score: 53
Period size: 3 Copynumber: 19.0 Consensus size: 3
116321457 ATGGTTTAAA
* * * * **
116321467 AAT AAT AAT ATT AAT GAT AAT GAT AAT AAT ATT AAT AAT AAT ACG AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
116321515 AAT AAAT AAT
1 AAT -AAT AAT
116321525 CCAAAGTTTT
Statistics
Matches: 42, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:116321492 original size:21 final size:21
Alignment explanation
Indices: 116321468--116321508 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
116321458 TGGTTTAAAA
*
116321468 ATAATAATATTAATGATAATG
1 ATAATAATATTAATAATAATG
116321489 ATAATAATATTAATAATAAT
1 ATAATAATATTAATAATAAT
116321509 ACGAATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (21 bp):
ATAATAATATTAATAATAATG
Found at i:116321515 original size:21 final size:21
Alignment explanation
Indices: 116321470--116321518 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
116321460 GTTTAAAAAT
* *
116321470 AATAATATTAATGATAATGAT
1 AATAATATTAATAATAATGAG
116321491 AATAATATTAATAATAAT-ACG
1 AATAATATTAATAATAATGA-G
116321512 AATAATA
1 AATAATA
116321519 AATAATCCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 1 0.04
21 24 0.96
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (21 bp):
AATAATATTAATAATAATGAG
Found at i:116321659 original size:12 final size:12
Alignment explanation
Indices: 116321644--116321670 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
116321634 ATAAAACAAT
116321644 AATGATAAATAA
1 AATGATAAATAA
116321656 AATGATAAATAA
1 AATGATAAATAA
116321668 AAT
1 AAT
116321671 AAATAAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (12 bp):
AATGATAAATAA
Found at i:116321663 original size:18 final size:18
Alignment explanation
Indices: 116321623--116321657 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
116321613 TATTTTTAAA
116321623 AATAATAATAAATAAAAC
1 AATAATAATAAATAAAAC
*
116321641 AATAATGATAAATAAAA
1 AATAATAATAAATAAAA
116321658 TGATAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (18 bp):
AATAATAATAAATAAAAC
Found at i:116333007 original size:21 final size:20
Alignment explanation
Indices: 116332983--116333025 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
116332973 AGTATATTTA
*
116332983 TTATTACTATTATTATTATCG
1 TTATTACTATTATCATTA-CG
116333004 TTATTACTATTATCATTACG
1 TTATTACTATTATCATTACG
116333024 TT
1 TT
116333026 TCCACATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.28, C:0.12, G:0.05, T:0.56
Consensus pattern (20 bp):
TTATTACTATTATCATTACG
Found at i:116333119 original size:3 final size:3
Alignment explanation
Indices: 116333111--116333177 Score: 89
Period size: 3 Copynumber: 21.7 Consensus size: 3
116333101 GTATTTCTAT
*
116333111 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* *
116333157 TTT TTA CTTA CTA TTA TTA TT
1 TTA TTA -TTA TTA TTA TTA TT
116333178 TTTTTTTGTT
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
3 52 0.91
4 5 0.09
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:116333185 original size:29 final size:27
Alignment explanation
Indices: 116333112--116333198 Score: 104
Period size: 27 Copynumber: 3.1 Consensus size: 27
116333102 TATTTCTATT
* *
116333112 TATTATTATTATTATTAT-TATTATTAT
1 TATTATTATTATTATT-TGTTTTATTAC
116333139 TATTATTATTATTATTTGTTTTTACTTAC
1 TATTATTATTATTATTTG-TTTTA-TTAC
* *
116333168 TATTATTATTTTTTTTTGTTTTATTAC
1 TATTATTATTATTATTTGTTTTATTAC
116333195 TATT
1 TATT
116333199 TTACTGTTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
26 1 0.02
27 24 0.45
28 9 0.17
29 19 0.36
ACGTcount: A:0.25, C:0.03, G:0.02, T:0.69
Consensus pattern (27 bp):
TATTATTATTATTATTTGTTTTATTAC
Found at i:116333266 original size:3 final size:3
Alignment explanation
Indices: 116333258--116333304 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
116333248 TTACCTTTCG
* * *
116333258 TTA TTA TTA TTA TTA TCA TTA TTA CTA TCT- TTA TTA TTA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
116333303 TT
1 TT
116333305 TTTTGCTATC
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
2 1 0.03
3 34 0.94
4 1 0.03
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:116333472 original size:23 final size:23
Alignment explanation
Indices: 116333431--116333505 Score: 89
Period size: 24 Copynumber: 3.2 Consensus size: 23
116333421 TCTTAACCGT
* *
116333431 TTTTCTATGTTATTCATTTTAAAA
1 TTTT-TATATTATTTATTTTAAAA
*
116333455 TTTTTATATTATTTATTTTTAAAC
1 TTTTTATATTATTTA-TTTTAAAA
116333479 TCTTTT-TATTATTTATTTTAAAA
1 T-TTTTATATTATTTATTTTAAAA
116333502 TTTT
1 TTTT
116333506 ATTCATTATT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
22 3 0.07
23 17 0.38
24 21 0.47
25 4 0.09
ACGTcount: A:0.28, C:0.05, G:0.01, T:0.65
Consensus pattern (23 bp):
TTTTTATATTATTTATTTTAAAA
Found at i:116333513 original size:24 final size:22
Alignment explanation
Indices: 116333440--116333515 Score: 89
Period size: 24 Copynumber: 3.2 Consensus size: 22
116333430 TTTTTCTATG
*
116333440 TTATTCATTTTAAAATTTTTATA
1 TTATTTATTTTAAAATTTTT-TA
*
116333463 TTATTTATTTTTAAACTCTTTTTA
1 TTATTTA-TTTTAAAAT-TTTTTA
116333487 TTATTTATTTTAAAATTTTATTCA
1 TTATTTATTTTAAAATTTT-TT-A
116333511 TTATT
1 TTATT
116333516 CATTCGAAAC
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
22 3 0.07
23 16 0.35
24 23 0.50
25 4 0.09
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.64
Consensus pattern (22 bp):
TTATTTATTTTAAAATTTTTTA
Found at i:116334124 original size:24 final size:24
Alignment explanation
Indices: 116334097--116334143 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
116334087 TTTAAAAAAT
*
116334097 TTTGTGTTTACGTTTTGAGGGTTC
1 TTTGTGTTTACGTTTTCAGGGTTC
* **
116334121 TTTGTTTTTGGGTTTTCAGGGTT
1 TTTGTGTTTACGTTTTCAGGGTT
116334144 TAGTTTTTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.06, C:0.06, G:0.30, T:0.57
Consensus pattern (24 bp):
TTTGTGTTTACGTTTTCAGGGTTC
Found at i:116334944 original size:22 final size:23
Alignment explanation
Indices: 116334919--116334964 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
116334909 CAACCAAACC
116334919 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
116334941 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
116334964 A
1 A
116334965 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:116334970 original size:23 final size:23
Alignment explanation
Indices: 116334926--116334970 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
116334916 ACCAATTCAA
*
116334926 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
116334949 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
116334971 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:116338152 original size:28 final size:28
Alignment explanation
Indices: 116338129--116338319 Score: 258
Period size: 28 Copynumber: 6.8 Consensus size: 28
116338119 CAAAATAGAA
** * *
116338129 AGCTCGCACGAAGCAAAGCTAAATAGAA
1 AGCTCGCATAAAGCAAAGCTAAACAGAG
116338157 AGCTCGCATAAAG-AAGAGCTAAACAGAG
1 AGCTCGCATAAAGCAA-AGCTAAACAGAG
* *
116338185 AGCTCGCATAAAGTAGAGCTAAACAGAG
1 AGCTCGCATAAAGCAAAGCTAAACAGAG
116338213 AGCTCGCATAAAGCAAAGCTAAACAGAG
1 AGCTCGCATAAAGCAAAGCTAAACAGAG
* *
116338241 AGCTCGCATAAAGTAGAGCTAAACAGAG
1 AGCTCGCATAAAGCAAAGCTAAACAGAG
* *
116338269 AGCTCGCATAAAGTAGAGCTAAACAGAG
1 AGCTCGCATAAAGCAAAGCTAAACAGAG
* *
116338297 AGTTCGCATAAAGCAGAGCTAAA
1 AGCTCGCATAAAGCAAAGCTAAA
116338320 ACATTTGTTT
Statistics
Matches: 150, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
27 2 0.01
28 147 0.98
29 1 0.01
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.13
Consensus pattern (28 bp):
AGCTCGCATAAAGCAAAGCTAAACAGAG
Found at i:116338191 original size:56 final size:56
Alignment explanation
Indices: 116338129--116338319 Score: 285
Period size: 56 Copynumber: 3.4 Consensus size: 56
116338119 CAAAATAGAA
** * * *
116338129 AGCTCGCACGAAGCAAAGCTAAATAGAAAGCTCGCATAAAGAAGAGCTAAACAGAG
1 AGCTCGCATAAAGCAGAGCTAAACAGAGAGCTCGCATAAAGAAGAGCTAAACAGAG
*
116338185 AGCTCGCATAAAGTAGAGCTAAACAGAGAGCTCGCATAAAGCAA-AGCTAAACAGAG
1 AGCTCGCATAAAGCAGAGCTAAACAGAGAGCTCGCATAAAG-AAGAGCTAAACAGAG
* *
116338241 AGCTCGCATAAAGTAGAGCTAAACAGAGAGCTCGCATAAAGTAGAGCTAAACAGAG
1 AGCTCGCATAAAGCAGAGCTAAACAGAGAGCTCGCATAAAGAAGAGCTAAACAGAG
*
116338297 AGTTCGCATAAAGCAGAGCTAAA
1 AGCTCGCATAAAGCAGAGCTAAA
116338320 ACATTTGTTT
Statistics
Matches: 124, Mismatches: 9, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
55 1 0.01
56 121 0.98
57 2 0.02
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.13
Consensus pattern (56 bp):
AGCTCGCATAAAGCAGAGCTAAACAGAGAGCTCGCATAAAGAAGAGCTAAACAGAG
Found at i:116338270 original size:84 final size:84
Alignment explanation
Indices: 116338129--116338319 Score: 319
Period size: 84 Copynumber: 2.3 Consensus size: 84
116338119 CAAAATAGAA
** *
116338129 AGCTCGCACGAAGCAAAGCTAAATAGAAAGCTCGCATAAAGAAGAGCTAAACAGAGAGCTCGCAT
1 AGCTCGCATAAAGCAAAGCTAAACAGAAAGCTCGCATAAAGAAGAGCTAAACAGAGAGCTCGCAT
116338194 AAAGTAGAGCTAAACAGAG
66 AAAGTAGAGCTAAACAGAG
* *
116338213 AGCTCGCATAAAGCAAAGCTAAACAGAGAGCTCGCATAAAGTAGAGCTAAACAGAGAGCTCGCAT
1 AGCTCGCATAAAGCAAAGCTAAACAGAAAGCTCGCATAAAGAAGAGCTAAACAGAGAGCTCGCAT
116338278 AAAGTAGAGCTAAACAGAG
66 AAAGTAGAGCTAAACAGAG
* *
116338297 AGTTCGCATAAAGCAGAGCTAAA
1 AGCTCGCATAAAGCAAAGCTAAA
116338320 ACATTTGTTT
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 100 1.00
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.13
Consensus pattern (84 bp):
AGCTCGCATAAAGCAAAGCTAAACAGAAAGCTCGCATAAAGAAGAGCTAAACAGAGAGCTCGCAT
AAAGTAGAGCTAAACAGAG
Found at i:116339166 original size:57 final size:58
Alignment explanation
Indices: 116339062--116339177 Score: 153
Period size: 57 Copynumber: 2.0 Consensus size: 58
116339052 TAGGAATGTA
* * * *
116339062 AAAATGGAGAAATGAGAAATATTTGGAAATGATTATGATTTTATCCAAAATGAAAATG
1 AAAATAGAGAAATGAGAAATATTTGAAAATGAATATGATTTTATCCAAAATAAAAATG
* * * *
116339120 AAAATAGAGAAATG-GAACTATTTGAAAATGAATGTGGTTTTCTCCAAAATAAAAATG
1 AAAATAGAGAAATGAGAAATATTTGAAAATGAATATGATTTTATCCAAAATAAAAATG
116339177 A
1 A
116339178 CCTGTAAACG
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
57 37 0.74
58 13 0.26
ACGTcount: A:0.48, C:0.05, G:0.18, T:0.28
Consensus pattern (58 bp):
AAAATAGAGAAATGAGAAATATTTGAAAATGAATATGATTTTATCCAAAATAAAAATG
Found at i:116342788 original size:23 final size:23
Alignment explanation
Indices: 116342738--116342789 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
116342728 CAAGATAACT
* *
116342738 TTTATATTTTCTTAAAAATATTA
1 TTTATTTTTTCTTAAAAATATCA
*
116342761 CTTATTTTTTACTTAAAAATA-CA
1 TTTATTTTTT-CTTAAAAATATCA
116342784 TTTATT
1 TTTATT
116342790 AATTAATAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.56
Consensus pattern (23 bp):
TTTATTTTTTCTTAAAAATATCA
Found at i:116344122 original size:15 final size:15
Alignment explanation
Indices: 116344102--116344155 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
116344092 ATACTACAAA
116344102 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
116344117 ATATTTATAATTGTAAT
1 ATATTTATTA-T-TAAT
*
116344134 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
116344151 ATATT
1 ATATT
116344156 AATATTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.44
16 1 0.03
17 7 0.22
18 1 0.03
19 9 0.28
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:116344219 original size:16 final size:16
Alignment explanation
Indices: 116344188--116344224 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
116344178 ATGTGAATAA
116344188 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
116344204 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
116344220 TATTA
1 TATTA
116344225 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:116344276 original size:22 final size:22
Alignment explanation
Indices: 116344236--116344291 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
116344226 AATAAAATTG
*
116344236 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
116344256 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
116344278 TATTAATAATTTAT
1 AAATAATAAATTAT
116344292 TATATGAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:116344291 original size:16 final size:16
Alignment explanation
Indices: 116344270--116344302 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
116344260 AATAAATTAT
*
116344270 ATTTATTATATTAATA
1 ATTTATTATATGAATA
116344286 ATTTATTATATGAATA
1 ATTTATTATATGAATA
116344302 A
1 A
116344303 ATATAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (16 bp):
ATTTATTATATGAATA
Found at i:116356257 original size:15 final size:15
Alignment explanation
Indices: 116356187--116356293 Score: 68
Period size: 15 Copynumber: 7.4 Consensus size: 15
116356177 ATTTCAATTT
116356187 TATTTTAATAATAAA
1 TATTTTAATAATAAA
*
116356202 T-TTTTTA-AAT-AA
1 TATTTTAATAATAAA
*
116356214 TATTTT--GAA-AAA
1 TATTTTAATAATAAA
* *
116356226 TA-TTCAAT-ATTAA
1 TATTTTAATAATAAA
116356239 TATTTTAATAATAAA
1 TATTTTAATAATAAA
*
116356254 TATTTATTACATTTATAAA
1 TA-TT-TTA-A-TAATAAA
*
116356273 TATATTAATAATAAA
1 TATTTTAATAATAAA
116356288 TATTTT
1 TATTTT
116356294 GTAGTATAAA
Statistics
Matches: 70, Mismatches: 10, Indels: 24
0.67 0.10 0.23
Matches are distributed among these distances:
11 2 0.03
12 10 0.14
13 11 0.16
14 10 0.14
15 18 0.26
16 3 0.04
17 6 0.09
18 2 0.03
19 8 0.11
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.50
Consensus pattern (15 bp):
TATTTTAATAATAAA
Found at i:116356705 original size:23 final size:22
Alignment explanation
Indices: 116356670--116356716 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
116356660 CCTAGTATAA
116356670 AAATATGAATATTTTAATTAAAT
1 AAATATGAATA-TTTAATTAAAT
* * *
116356693 AAATTTGAGTATTTATTTAAAT
1 AAATATGAATATTTAATTAAAT
116356715 AA
1 AA
116356717 TGCTTAGCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (22 bp):
AAATATGAATATTTAATTAAAT
Found at i:116364114 original size:19 final size:19
Alignment explanation
Indices: 116364078--116364114 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
116364068 CTGGGCATTT
*
116364078 TCACACGGGCTAGTCACAC
1 TCACACGGGCTAGCCACAC
*
116364097 TCACACGGGCTGGCCACA
1 TCACACGGGCTAGCCACA
116364115 AGCCCATGTG
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:0.24, C:0.38, G:0.24, T:0.14
Consensus pattern (19 bp):
TCACACGGGCTAGCCACAC
Found at i:116365337 original size:19 final size:19
Alignment explanation
Indices: 116365301--116365337 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
116365291 TAATTAGGCT
* *
116365301 TTAATTAAGTGAATTTAGC
1 TTAATTAAGAGAAATTAGC
116365320 TTAATTAAGAGAAATTAG
1 TTAATTAAGAGAAATTAG
116365338 AAAAAAAGGC
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:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (19 bp):
TTAATTAAGAGAAATTAGC
Found at i:116374109 original size:26 final size:26
Alignment explanation
Indices: 116374078--116374185 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
116374068 TGAAATGCCC
*
116374078 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
116374104 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
116374130 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
116374156 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
116374182 ATCA
1 ATCA
116374186 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:116374675 original size:70 final size:75
Alignment explanation
Indices: 116374601--116374776 Score: 211
Period size: 70 Copynumber: 2.3 Consensus size: 75
116374591 ATGTGAACAA
*
116374601 ATTGGAAATTAAAAGTGATTTGAATT-AAGT-AATTGAATT-AT-G-AATTATGTGAATATTTGA
1 ATTGGAAATTAAAAGTGATTTGAATTGAA-TAAATTGAATTAATAGAAAATATGTGAATATTTGA
116374661 AA-GTATATTG
65 AATGTATATTG
*
116374671 ATTGGAAATTAAAAGTGATTTGAATTGAATCAAATTGAATTGAATGAAGAAAATATGTGAGTATT
1 ATTGGAAATTAAAAGTGATTTGAATTGAAT-AAATTGAATT-AAT--AGAAAATATGTGAATATT
116374736 TGAAATGTATATTG
62 TGAAATGTATATTG
* * *
116374750 ATTGAAAAGTAATTAGTGATTTGAATT
1 ATTGGAAATTAA-AAGTGATTTGAATT
116374777 TGACTGGAAA
Statistics
Matches: 90, Mismatches: 5, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
70 27 0.30
71 2 0.02
72 9 0.10
74 2 0.02
77 1 0.01
78 18 0.20
79 18 0.20
80 13 0.14
ACGTcount: A:0.42, C:0.01, G:0.19, T:0.38
Consensus pattern (75 bp):
ATTGGAAATTAAAAGTGATTTGAATTGAATAAATTGAATTAATAGAAAATATGTGAATATTTGAA
ATGTATATTG
Found at i:116374805 original size:13 final size:14
Alignment explanation
Indices: 116374784--116374823 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
116374774 ATTTGACTGG
116374784 AAAATGAATTAAA-
1 AAAATGAATTAAAT
*
116374797 AATATGAATTAAAT
1 AAAATGAATTAAAT
116374811 AAAAGTGAATTAA
1 AAAA-TGAATTAA
116374824 TTTTTGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 3 0.13
15 8 0.35
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (14 bp):
AAAATGAATTAAAT
Found at i:116374811 original size:86 final size:78
Alignment explanation
Indices: 116374646--116374796 Score: 194
Period size: 79 Copynumber: 1.9 Consensus size: 78
116374636 AATTATGAAT
* * *
116374646 TATGTGAATATTTGAAAGTATATTGATTGGAAATTAAAAGTGATTTGAATTGAATCAAATTGAAT
1 TATGTGAATATTTGAAAGTATATTGATTGAAAAGTAAAAGTGATTTGAATTGAATCAAAATGAAT
*
116374711 TGAATGAAGAAAA
66 TAAATGAAGAAAA
* * * *
116374724 TATGTGAGTATTTGAAATGTATATTGATTGAAAAGTAATTAGTGATTTGAATTTGACTGGAAAAT
1 TATGTGAATATTTGAAA-GTATATTGATTGAAAAGTAA-AAGTGATTTGAA-TTGAAT-CAAAAT
116374789 GAATTAAA
62 GAATTAAA
116374797 AATATGAATT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
78 16 0.26
79 18 0.30
80 11 0.18
81 5 0.08
82 11 0.18
ACGTcount: A:0.42, C:0.01, G:0.20, T:0.36
Consensus pattern (78 bp):
TATGTGAATATTTGAAAGTATATTGATTGAAAAGTAAAAGTGATTTGAATTGAATCAAAATGAAT
TAAATGAAGAAAA
Found at i:116375166 original size:23 final size:23
Alignment explanation
Indices: 116375136--116375188 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
116375126 ATTGGCATGC
116375136 CAGGCACTTTACGTGTCGTATAT
1 CAGGCACTTTACGTGTCGTATAT
*
116375159 CAGGCACTTTACGTGTCGTATTT
1 CAGGCACTTTACGTGTCGTATAT
116375182 CAGGCAC
1 CAGGCAC
116375189 CTCGTGTGTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.32
Consensus pattern (23 bp):
CAGGCACTTTACGTGTCGTATAT
Found at i:116375197 original size:23 final size:23
Alignment explanation
Indices: 116375136--116375222 Score: 81
Period size: 23 Copynumber: 3.9 Consensus size: 23
116375126 ATTGGCATGC
* * *
116375136 CAGGCACTTTACGTGTCGTATAT
1 CAGGCACCTTATGTGTCGTATTT
* *
116375159 CAGGCACTTTACGTGTCGTATTT
1 CAGGCACCTTATGTGTCGTATTT
**
116375182 CAGGCACCTCGTGTGTC--ATTT
1 CAGGCACCTTATGTGTCGTATTT
*
116375203 TAGGCA-CTTATGTGTCGTAT
1 CAGGCACCTTATGTGTCGTAT
116375223 ATTGATAGGT
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
20 8 0.15
21 9 0.17
22 2 0.04
23 35 0.65
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (23 bp):
CAGGCACCTTATGTGTCGTATTT
Found at i:116378104 original size:134 final size:137
Alignment explanation
Indices: 116377919--116378202 Score: 520
Period size: 134 Copynumber: 2.1 Consensus size: 137
116377909 TATTGGGCCT
**
116377919 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
116377984 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
116378048 CATATGC
131 CATATGC
116378055 AAGCCCATTTGGGTAACAGT-GTACTGGGCCA-AGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
116378118 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
116378183 CATATGC
131 CATATGC
116378190 AAGCCCATTTGGG
1 AAGCCCATTTGGG
116378203 GAGACTACTC
Statistics
Matches: 144, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
134 93 0.65
135 33 0.23
136 18 0.12
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Found at i:116378482 original size:25 final size:27
Alignment explanation
Indices: 116378445--116378497 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
116378435 TCAAACATGC
116378445 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
116378471 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
116378497 A
1 A
116378498 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:116380012 original size:26 final size:26
Alignment explanation
Indices: 116379976--116380109 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
116379966 ACATGAATTC
116379976 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
116380002 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
116380028 TTATCATGGAACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
*
116380053 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
116380078 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
116380104 TTATCA
1 TTATCA
116380110 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 2, Indels: 4
0.95 0.02 0.04
Matches are distributed among these distances:
24 13 0.12
25 21 0.20
26 70 0.67
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:116380084 original size:50 final size:51
Alignment explanation
Indices: 116379976--116380109 Score: 225
Period size: 50 Copynumber: 2.6 Consensus size: 51
116379966 ACATGAATTC
*
116379976 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAA-CCATTATCATGAAACATTTACCTAACCCA
*
116380028 TTATCATGGAACATTTACCTAACCATTATCATG-AACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCATTATCATGAAACATTTACCTAACCCA
116380078 TTATCATGGAACATTTACCTAACCTATTATCA
1 TTATCATGGAACATTTACCTAACC-ATTATCA
116380110 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
50 40 0.51
51 18 0.23
52 21 0.27
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (51 bp):
TTATCATGGAACATTTACCTAACCATTATCATGAAACATTTACCTAACCCA
Found at i:116384101 original size:136 final size:137
Alignment explanation
Indices: 116383857--116384142 Score: 520
Period size: 136 Copynumber: 2.1 Consensus size: 137
116383847 TATTGGGCCT
** * *
116383857 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
116383922 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
116383986 CATATGC
131 CATATGC
116383993 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
116384058 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
116384123 CATATGC
131 CATATGC
116384130 AAGCCCATTTGGG
1 AAGCCCATTTGGG
116384143 GAGACTACTC
Statistics
Matches: 144, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 122 0.85
137 22 0.15
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Found at i:116385954 original size:26 final size:26
Alignment explanation
Indices: 116385918--116386053 Score: 245
Period size: 26 Copynumber: 5.2 Consensus size: 26
116385908 CATGATATTC
116385918 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
116385944 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
116385970 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
116385996 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
116386022 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
116386048 TTATCA
1 TTATCA
116386054 ATTTGTATCA
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 106 1.00
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:116390742 original size:13 final size:14
Alignment explanation
Indices: 116390707--116390746 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
116390697 TATTACAAAA
116390707 TGTCTTTGTTTTTCT
1 TGTCTTTG-TTTTCT
*
116390722 TTTCTTTGTTTT-T
1 TGTCTTTGTTTTCT
116390735 TGTCTTTGTTTT
1 TGTCTTTGTTTT
116390747 GTAGGTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 4 0.17
15 7 0.30
ACGTcount: A:0.00, C:0.10, G:0.12, T:0.78
Consensus pattern (14 bp):
TGTCTTTGTTTTCT
Found at i:116396262 original size:3 final size:3
Alignment explanation
Indices: 116396254--116396279 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
116396244 TAGCATTCAA
116396254 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
116396280 AAGCCCCTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:116402133 original size:16 final size:16
Alignment explanation
Indices: 116402112--116402167 Score: 85
Period size: 16 Copynumber: 3.5 Consensus size: 16
116402102 TGAATTGCTG
*
116402112 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
*
116402128 ATTACAACTCTATTCC
1 ATTACAGCTCTATTCC
*
116402144 GTTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
116402160 ATTACAGC
1 ATTACAGC
116402168 GAACCAAACG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.27, C:0.29, G:0.07, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:116437172 original size:6 final size:6
Alignment explanation
Indices: 116437161--116437195 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
116437151 TTTCAACTTG
116437161 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
116437196 GCGTTTCTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTC
Found at i:116437202 original size:18 final size:18
Alignment explanation
Indices: 116437163--116437206 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
116437153 TCAACTTGTT
*
116437163 TTTCTTTTTCTTTTTCTT
1 TTTCTTTTTCTTTTTCTG
116437181 TTTCTTTTTCTTTTTGC-G
1 TTTCTTTTTCTTTTT-CTG
116437199 TTTCTTTT
1 TTTCTTTT
116437207 GCACTTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 23 0.96
19 1 0.04
ACGTcount: A:0.00, C:0.16, G:0.05, T:0.80
Consensus pattern (18 bp):
TTTCTTTTTCTTTTTCTG
Found at i:116441426 original size:9 final size:9
Alignment explanation
Indices: 116441412--116441455 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
116441402 ATAATCAAAA
116441412 TGAGAGAGT
1 TGAGAGAGT
*
116441421 TGAGAGACT
1 TGAGAGAGT
* *
116441430 TAAGAGGGTT
1 TGAGAGAG-T
116441440 TGAGAGAGT
1 TGAGAGAGT
116441449 TGAGAGA
1 TGAGAGA
116441456 AGGATGTGAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
9 21 0.75
10 7 0.25
ACGTcount: A:0.34, C:0.02, G:0.41, T:0.23
Consensus pattern (9 bp):
TGAGAGAGT
Found at i:116442967 original size:124 final size:124
Alignment explanation
Indices: 116442747--116442977 Score: 372
Period size: 124 Copynumber: 1.9 Consensus size: 124
116442737 TTCCATTAAG
* *
116442747 AGTGTTCTTGTAATTATAATACTCTAAAATTTGTATGTTATGAGCTCATTAAGAGTACATTACTC
1 AGTGTTCTCGTAATTATAACACTCTAAAATTTGTATGTTATGAGCTCATTAAGAGTACATTACTC
* *
116442812 ATCATTCCCTTATCATTACATGTATCTAGCACTTTAATCTTAGGATGAAATTATTTTAT
66 ATCATTCCCTTATCATTACAGGTACCTAGCACTTTAATCTTAGGATGAAATTATTTTAT
* * *
116442871 AGTGTTCTCGTAATTATAACACTCTAAAATTTTTATGTTATGAGTTCATTAAGAGTATATTACTC
1 AGTGTTCTCGTAATTATAACACTCTAAAATTTGTATGTTATGAGCTCATTAAGAGTACATTACTC
* **
116442936 ATCCTTCCCTTATTGTTACAGGTACCTAGCACTTTAATCTTA
66 ATCATTCCCTTATCATTACAGGTACCTAGCACTTTAATCTTA
116442978 AGTTTCCATC
Statistics
Matches: 97, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
124 97 1.00
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.42
Consensus pattern (124 bp):
AGTGTTCTCGTAATTATAACACTCTAAAATTTGTATGTTATGAGCTCATTAAGAGTACATTACTC
ATCATTCCCTTATCATTACAGGTACCTAGCACTTTAATCTTAGGATGAAATTATTTTAT
Found at i:116444412 original size:16 final size:16
Alignment explanation
Indices: 116444391--116444445 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
116444381 GACCTTTTAG
116444391 ATTTTTGAATATTTTT
1 ATTTTTGAATATTTTT
** ** *
116444407 ATTTTTCTACCTTTTAG
1 ATTTTTGAATATTTT-T
116444424 ATTTTTGAATATTTTT
1 ATTTTTGAATATTTTT
116444440 ATTTTT
1 ATTTTT
116444446 CTATCTTTAT
Statistics
Matches: 28, Mismatches: 10, Indels: 2
0.70 0.25 0.05
Matches are distributed among these distances:
16 17 0.61
17 11 0.39
ACGTcount: A:0.22, C:0.05, G:0.05, T:0.67
Consensus pattern (16 bp):
ATTTTTGAATATTTTT
Found at i:116444424 original size:33 final size:33
Alignment explanation
Indices: 116444382--116444453 Score: 135
Period size: 33 Copynumber: 2.2 Consensus size: 33
116444372 ACGTATAAAG
116444382 ACCTTTTAGATTTTTGAATATTTTTATTTTTCT
1 ACCTTTTAGATTTTTGAATATTTTTATTTTTCT
116444415 ACCTTTTAGATTTTTGAATATTTTTATTTTTCT
1 ACCTTTTAGATTTTTGAATATTTTTATTTTTCT
*
116444448 ATCTTT
1 ACCTTT
116444454 ATTTTGAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.21, C:0.10, G:0.06, T:0.64
Consensus pattern (33 bp):
ACCTTTTAGATTTTTGAATATTTTTATTTTTCT
Found at i:116444438 original size:17 final size:17
Alignment explanation
Indices: 116444385--116444438 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
116444375 TATAAAGACC
116444385 TTTTAGATTTTTGAATA
1 TTTTAGATTTTTGAATA
* ** **
116444402 TTTT-TATTTTTCTACC
1 TTTTAGATTTTTGAATA
116444418 TTTTAGATTTTTGAATA
1 TTTTAGATTTTTGAATA
116444435 TTTT
1 TTTT
116444439 TATTTTTCTA
Statistics
Matches: 26, Mismatches: 10, Indels: 2
0.68 0.26 0.05
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.22, C:0.06, G:0.07, T:0.65
Consensus pattern (17 bp):
TTTTAGATTTTTGAATA
Found at i:116449685 original size:30 final size:30
Alignment explanation
Indices: 116449649--116449713 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
116449639 CAACTTAACA
*
116449649 AACAAATGTCTCT-AAAATAATAAAAAAATT
1 AACAAATGCCT-TAAAAATAATAAAAAAATT
*
116449679 AACAAATGCCTTAAAAATAATAACAAAATT
1 AACAAATGCCTTAAAAATAATAAAAAAATT
116449709 AACAA
1 AACAA
116449714 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 1 0.03
30 31 0.97
ACGTcount: A:0.62, C:0.12, G:0.03, T:0.23
Consensus pattern (30 bp):
AACAAATGCCTTAAAAATAATAAAAAAATT
Found at i:116451646 original size:28 final size:29
Alignment explanation
Indices: 116451596--116451652 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
116451586 TTCTTCAGAT
* *
116451596 TTTGCCACGAAGGCGTTCTTTTAACAAAG
1 TTTGCCACGAAGGCATTCCTTTAACAAAG
*
116451625 TTTGCCAC-AAGGCATTCCTTTAATAAAG
1 TTTGCCACGAAGGCATTCCTTTAACAAAG
116451653 ATGGCAATAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (29 bp):
TTTGCCACGAAGGCATTCCTTTAACAAAG
Found at i:116451705 original size:29 final size:29
Alignment explanation
Indices: 116451663--116451762 Score: 103
Period size: 29 Copynumber: 3.5 Consensus size: 29
116451653 ATGGCAATAG
*
116451663 AGATAGCCACAAAGGCATTCATTTAACTT
1 AGATAGCCACAAAGACATTCATTTAACTT
* *
116451692 AGATAGCCACAAAGATATTCATTTAACTG
1 AGATAGCCACAAAGACATTCATTTAACTT
* * * * *
116451721 AGATTGCCAAAAACACA-TCCTTTAACAT
1 AGATAGCCACAAAGACATTCATTTAACTT
* *
116451749 AAATCGCCACAAAG
1 AGATAGCCACAAAG
116451763 GCTTTCCTAT
Statistics
Matches: 57, Mismatches: 14, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
28 18 0.32
29 39 0.68
ACGTcount: A:0.42, C:0.22, G:0.12, T:0.24
Consensus pattern (29 bp):
AGATAGCCACAAAGACATTCATTTAACTT
Found at i:116451775 original size:29 final size:29
Alignment explanation
Indices: 116451751--116451853 Score: 111
Period size: 29 Copynumber: 3.6 Consensus size: 29
116451741 TTTAACATAA
*
116451751 ATCGCCACAAAGGCTTTCCTATAACAGGG
1 ATCGCCACAAAGGCTTTCCTATAACAGAG
* * *
116451780 ATTGCCACAAAGG-TTTCTTAATAATAGAG
1 ATCGCCACAAAGGCTTTCCT-ATAACAGAG
* *
116451809 ATCGCCACAAA-GATTTCCATTTAACAGAG
1 ATCGCCACAAAGGCTTTCC-TATAACAGAG
*
116451838 ATCGCTACAAAGGCTT
1 ATCGCCACAAAGGCTT
116451854 CATTTCAAAG
Statistics
Matches: 60, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
28 6 0.10
29 50 0.83
30 4 0.07
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.25
Consensus pattern (29 bp):
ATCGCCACAAAGGCTTTCCTATAACAGAG
Found at i:116452604 original size:46 final size:46
Alignment explanation
Indices: 116452539--116452816 Score: 380
Period size: 46 Copynumber: 6.0 Consensus size: 46
116452529 TTATCTTTGA
* * * * * ** *
116452539 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
*
116452585 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
*
116452631 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATAT
*
116452677 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTGATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
* **
116452723 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
* *
116452769 CAGGTTGCCATGGTATCTTTCAACCATGGTCTT-TCACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTAT-TCATTTCATAT
116452815 CA
1 CA
116452817 GAGAGCACAC
Statistics
Matches: 210, Mismatches: 19, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
45 4 0.02
46 202 0.96
47 4 0.02
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
Found at i:116454955 original size:3 final size:3
Alignment explanation
Indices: 116454941--116454987 Score: 55
Period size: 3 Copynumber: 16.3 Consensus size: 3
116454931 TTTTATACTA
*
116454941 AAT AATT AAT AAT AA- AAT AAT AAT GA- AAT AAT AAT AAT AAT AA-
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
116454984 AAT A
1 AAT A
116454988 TCTCATTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
2 5 0.13
3 30 0.79
4 3 0.08
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:116454963 original size:11 final size:11
Alignment explanation
Indices: 116454947--116454987 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
116454937 ACTAAATAAT
116454947 TAATAATAAAA
1 TAATAATAAAA
*
116454958 TAATAATGAAA
1 TAATAATAAAA
116454969 TAATAATAATAA
1 TAATAATAA-AA
116454981 TAA-AATA
1 TAATAATA
116454988 TCTCATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 22 0.81
12 5 0.19
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:116454964 original size:14 final size:14
Alignment explanation
Indices: 116454940--116454987 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
116454930 CTTTTATACT
116454940 AAATAATTAATAATA
1 AAATAA-TAATAATA
116454955 AAATAATAATGAA-A
1 AAATAATAAT-AATA
*
116454969 TAATAATAATAATA
1 AAATAATAATAATA
116454983 AAATA
1 AAATA
116454988 TCTCATTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
13 2 0.07
14 19 0.66
15 8 0.28
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (14 bp):
AAATAATAATAATA
Found at i:116454978 original size:17 final size:16
Alignment explanation
Indices: 116454941--116454987 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
116454931 TTTTATACTA
116454941 AATAATTAATAATAAAAT
1 AATAA-TAA-AATAAAAT
*
116454959 AATAATGAAATAATAAT
1 AATAATAAAATAA-AAT
116454976 AATAATAAAATA
1 AATAATAAAATA
116454988 TCTCATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 5 0.19
17 16 0.62
18 5 0.19
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (16 bp):
AATAATAAAATAAAAT
Found at i:116456442 original size:56 final size:56
Alignment explanation
Indices: 116456380--116456493 Score: 228
Period size: 56 Copynumber: 2.0 Consensus size: 56
116456370 TTATCATTCT
116456380 CAAGTACTATAAAACATTTATCCGTACTTTTACGAGTTCTACTTCATCATAACTAA
1 CAAGTACTATAAAACATTTATCCGTACTTTTACGAGTTCTACTTCATCATAACTAA
116456436 CAAGTACTATAAAACATTTATCCGTACTTTTACGAGTTCTACTTCATCATAACTAA
1 CAAGTACTATAAAACATTTATCCGTACTTTTACGAGTTCTACTTCATCATAACTAA
116456492 CA
1 CA
116456494 TTTTTACTCA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.35
Consensus pattern (56 bp):
CAAGTACTATAAAACATTTATCCGTACTTTTACGAGTTCTACTTCATCATAACTAA
Found at i:116457982 original size:46 final size:46
Alignment explanation
Indices: 116457917--116458178 Score: 316
Period size: 46 Copynumber: 5.7 Consensus size: 46
116457907 TTATCTTTGA
* * * * *
116457917 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGT
* *
116457963 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
*
116458009 CACGTTGCCATGGTATC-TTCAACCATGGTCTTATTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGT
** * *
116458054 CATGTTATCATGGTATCTTTCAACCATGGTCTTATTGATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* **
116458100 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAG-
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT-GT
* *
116458146 CAAGTTGCCATGATATCTTTCAACCATGGTCTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTT
116458179 TCACATTTCA
Statistics
Matches: 187, Mismatches: 24, Indels: 10
0.85 0.11 0.05
Matches are distributed among these distances:
45 43 0.23
46 144 0.77
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
Found at i:116458054 original size:91 final size:91
Alignment explanation
Indices: 116457922--116458193 Score: 370
Period size: 91 Copynumber: 3.0 Consensus size: 91
116457912 TTTGACATGA
* * *
116457922 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
116457987 CATGGTCTTGTTCATTTCATATCACGT
66 CATGGTCTT-TTCATTTCATATCACGT
* **
116458014 TGCCATGGTATC-TTCAACCATGGTCTTATTCATTTTCTGTCATGTTATCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
* *
116458078 CATGGTCTTATTGATTTCATATCAGGT
66 CATGGTCTT-TTCATTTCATATCACGT
* * *
116458105 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAG-CAAGTTGCCATGATATCTTTCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTC-T-GTCATGTTGCCATGGTATCTTTCA
*
116458168 ACCATGGTCTTTCACATTTCATATCA
64 ACCATGGTCTTT-TCATTTCATATCA
116458194 GAGAGCACAC
Statistics
Matches: 159, Mismatches: 17, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
91 89 0.56
92 69 0.43
93 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.42
Consensus pattern (91 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTTTCATTTCATATCACGT
Found at i:116460317 original size:3 final size:3
Alignment explanation
Indices: 116460303--116460351 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
116460293 TTTTATACTA
*
116460303 AAT AATT AAT AAT AA- AAT AAT AAT GA- AAT AAT AAT AA- AAT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
116460346 AA- AAT A
1 AAT AAT A
116460352 TCTCATTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 7 0.18
3 29 0.74
4 3 0.08
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:116460325 original size:11 final size:11
Alignment explanation
Indices: 116460309--116460347 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
116460299 ACTAAATAAT
116460309 TAATAATAAAA
1 TAATAATAAAA
*
116460320 TAATAATGAAA
1 TAATAATAAAA
116460331 TAATAATAAAA
1 TAATAATAAAA
116460342 TAATAA
1 TAATAA
116460348 AATATCTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:116460334 original size:19 final size:19
Alignment explanation
Indices: 116460310--116460351 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
116460300 CTAAATAATT
*
116460310 AATAATAAAATAATAATGA
1 AATAATAAAATAATAATAA
116460329 AATAATAATAA-AATAATAA
1 AATAATAA-AATAATAATAA
116460348 AATA
1 AATA
116460352 TCTCATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (19 bp):
AATAATAAAATAATAATAA
Found at i:116460374 original size:20 final size:21
Alignment explanation
Indices: 116460321--116460396 Score: 68
Period size: 20 Copynumber: 3.7 Consensus size: 21
116460311 ATAATAAAAT
* *
116460321 AATAATGAAATA-ATAA-TAA
1 AATAATAAAATATCTAATTAA
*
116460340 AATAATAAAATATCTCATTAA
1 AATAATAAAATATCTAATTAA
*
116460361 AATAAT-ATATATCTAATTAAA
1 AATAATAAAATATCTAATT-AA
*
116460382 TAATCATAAAATATC
1 -AATAATAAAATATC
116460397 ATCAACATCA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
19 11 0.24
20 12 0.27
21 11 0.24
22 5 0.11
23 6 0.13
ACGTcount: A:0.59, C:0.07, G:0.01, T:0.33
Consensus pattern (21 bp):
AATAATAAAATATCTAATTAA
Found at i:116466768 original size:13 final size:13
Alignment explanation
Indices: 116466750--116466774 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
116466740 AATCACAAAT
116466750 AAATACACATATC
1 AAATACACATATC
116466763 AAATACACATAT
1 AAATACACATAT
116466775 TTTTTTTTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.20, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATACACATATC
Found at i:116468127 original size:14 final size:14
Alignment explanation
Indices: 116468108--116468161 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
116468098 CATAACTTAT
116468108 ATTATATACATATA
1 ATTATATACATATA
* *
116468122 ATTATATACATTTT
1 ATTATATACATATA
116468136 ATTATTATAACATATA
1 ATTA-TAT-ACATATA
116468152 TATATATATA
1 -AT-TATATA
116468162 TATTGTACAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
14 16 0.50
15 3 0.09
16 6 0.19
17 5 0.16
18 2 0.06
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTATATACATATA
Found at i:116474830 original size:13 final size:13
Alignment explanation
Indices: 116474812--116474836 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
116474802 AATCACAAAT
116474812 AAATACACATATC
1 AAATACACATATC
116474825 AAATACACATAT
1 AAATACACATAT
116474837 TTTTTTCTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.20, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATACACATATC
Found at i:116478385 original size:20 final size:21
Alignment explanation
Indices: 116478360--116478425 Score: 80
Period size: 21 Copynumber: 3.2 Consensus size: 21
116478350 TCAAGCAGAT
* *
116478360 AAGGGC-ACATGCCCGTGTGG
1 AAGGGCGACACGCCCGTGTAG
*
116478380 AAGGGCGACACGACCGTGTAG
1 AAGGGCGACACGCCCGTGTAG
* *
116478401 AAGGACGACACGCCCGTGTTG
1 AAGGGCGACACGCCCGTGTAG
116478422 AAGG
1 AAGG
116478426 CCTGTGTGGC
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
20 6 0.15
21 33 0.85
ACGTcount: A:0.26, C:0.24, G:0.38, T:0.12
Consensus pattern (21 bp):
AAGGGCGACACGCCCGTGTAG
Found at i:116479692 original size:48 final size:48
Alignment explanation
Indices: 116479620--116479994 Score: 337
Period size: 48 Copynumber: 7.8 Consensus size: 48
116479610 GTAAACTGCG
* *
116479620 GATGCCATGTCCAAGACATGGTCTTACACTGGCTCACATGTCGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCGAGGCT
* *
116479668 AATGCCATATCCCAGACATGGTCTTACACTAGCTCACATGTCGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCGAGGCT
* * * *
116479716 GATGCCATGTCCTAGACATGGTCTTACACTAGCTCACATGTTGAGACC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCGAGGCT
* * * * *
116479764 GATGCCATGCCCCAGACATGGTCTTACACTAGCTCTCGTTTCGATGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCGAGGCT
* * * ** *
116479812 GATGCCATGTCCCAGACATGGTCTTACTCTGGCTCTCATAAC-ATTG-T
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCGA-GGCT
* * * * * * *
116479859 CGATGCCATGTTCCAAACATGGTCTTATACTGGCTCTCATAAT-GTGG-T
1 -GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT-GTCGAGGCT
* * * * * * *
116479907 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAAT-GTGGCC
1 -GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT-GTCGAGGCT
* * * *
116479956 GATGCCTTGTTCCAAACATGGTCTTACACTAGCACACAT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT
116479995 ATCACCTGAA
Statistics
Matches: 284, Mismatches: 38, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
47 2 0.01
48 281 0.99
49 1 0.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCGAGGCT
Found at i:116479880 original size:144 final size:144
Alignment explanation
Indices: 116479620--116479995 Score: 373
Period size: 144 Copynumber: 2.6 Consensus size: 144
116479610 GTAAACTGCG
* *
116479620 GATGCCATGTCCAAGACATGGTCTTACACTGGCTCACATGTCGAGGCTAATGCCATATCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGTCGAGGCTAATGCCATATCCCAGAC
** *
116479685 ATGGTCTTACACTAGCTCACATGTCGAGGCTGATGCCATGTCCTAGACATGGTCTTACACTAGCT
66 ATGGTCTTACACTAGCTCACATAACGAGGCTGATGCCATGTCCTAAACATGGTCTTACACTAGCT
**
116479750 CACATGTTGAGACC
131 CACATAATGAGACC
* * * * * * *
116479764 GATGCCATGCCCCAGACATGGTCTTACACTAGCTCTCGTTTCGATGCTGATGCCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGTCGAGGCTAATGCCATATCCCAGAC
* * * * * *
116479829 ATGGTCTTACTCTGGCTCTCATAAC-ATTG-TCGATGCCATGTTCC-AAACATGGTCTTATACTG
66 ATGGTCTTACACTAGCTCACATAACGA-GGCT-GATGCCATG-TCCTAAACATGGTCTTACACTA
* * **
116479891 GCTCTCATAATGTGGTC
128 GCTCACATAATGAGACC
* * * * ** * * * *
116479908 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATGCCTTGTTCCAAA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-GTCGAGGCTAATGCCATATCCCAGA
*
116479972 CATGGTCTTACACTAGCACACATA
65 CATGGTCTTACACTAGCTCACATA
116479996 TCACCTGAAT
Statistics
Matches: 188, Mismatches: 40, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
143 2 0.01
144 182 0.97
145 4 0.02
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (144 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGTCGAGGCTAATGCCATATCCCAGAC
ATGGTCTTACACTAGCTCACATAACGAGGCTGATGCCATGTCCTAAACATGGTCTTACACTAGCT
CACATAATGAGACC
Found at i:116479930 original size:23 final size:23
Alignment explanation
Indices: 116479851--116479930 Score: 56
Period size: 23 Copynumber: 3.4 Consensus size: 23
116479841 TGGCTCTCAT
*
116479851 AACATTGTCGATGCCATGTTCCA
1 AACATGGTCGATGCCATGTTCCA
* * *
116479874 AACATGGTCTTAT-AC-TGGCTCTCA
1 AACATGGTC-GATGCCAT-GTTC-CA
**
116479898 TAATGTGGTCGATGCCATGTTCCA
1 -AACATGGTCGATGCCATGTTCCA
116479922 AACATGGTC
1 AACATGGTC
116479931 TTACACTGGC
Statistics
Matches: 40, Mismatches: 11, Indels: 12
0.63 0.17 0.19
Matches are distributed among these distances:
22 1 0.03
23 19 0.47
24 8 0.20
25 11 0.28
26 1 0.03
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (23 bp):
AACATGGTCGATGCCATGTTCCA
Found at i:116485142 original size:21 final size:21
Alignment explanation
Indices: 116485116--116485162 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
116485106 CTGAGAATAT
116485116 ATGATGAATCAAGGCAGTGCC
1 ATGATGAATCAAGGCAGTGCC
116485137 ATGATGAATCAAGGCAGTGCC
1 ATGATGAATCAAGGCAGTGCC
116485158 ATGAT
1 ATGAT
116485163 AAATTTAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (21 bp):
ATGATGAATCAAGGCAGTGCC
Found at i:116498223 original size:27 final size:26
Alignment explanation
Indices: 116498175--116498226 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
116498165 GCGAGGCTGC
*
116498175 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
116498201 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
116498227 TTGTAGTGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:116498512 original size:19 final size:19
Alignment explanation
Indices: 116498488--116498533 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
116498478 TGGGCCCGTT
116498488 GGCCCATTGGCCCGTTTTC
1 GGCCCATTGGCCCGTTTTC
116498507 GGCCCATTGGCCCGTTTTC
1 GGCCCATTGGCCCGTTTTC
*
116498526 GGCTCATT
1 GGCCCATT
116498534 AAGCCCAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.07, C:0.35, G:0.26, T:0.33
Consensus pattern (19 bp):
GGCCCATTGGCCCGTTTTC
Found at i:116506949 original size:2 final size:2
Alignment explanation
Indices: 116506942--116506966 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
116506932 AAATCAAATT
116506942 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
116506967 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:116506971 original size:2 final size:2
Alignment explanation
Indices: 116506966--116506994 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
116506956 ACACACACAC
116506966 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
116506995 ACTTTTCATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:116508434 original size:43 final size:42
Alignment explanation
Indices: 116508384--116508505 Score: 113
Period size: 42 Copynumber: 2.8 Consensus size: 42
116508374 TCCCAGACGT
* *
116508384 GGTCTTACATGTAATCACATATCGATGCCACTGTCCCAAATAG
1 GGTCTTACACGTAATCACATATCGATGCCA-TGTCCCAAACAG
* * * *
116508427 GGTCTTACACG-AACTTATATAT-GATGCCGATGTCCCAGACAT
1 GGTCTTACACGTAA-TCACATATCGATGCC-ATGTCCCAAACAG
* *
116508469 GATCTTACACGTAAATCACAAATCGATGCCAGTGTCC
1 GGTCTTACACGT-AATCACATATCGATGCCA-TGTCC
116508506 TAGACGTGGT
Statistics
Matches: 63, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
42 27 0.43
43 23 0.37
44 13 0.21
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (42 bp):
GGTCTTACACGTAATCACATATCGATGCCATGTCCCAAACAG
Found at i:116508505 original size:44 final size:44
Alignment explanation
Indices: 116508373--116508535 Score: 147
Period size: 43 Copynumber: 3.8 Consensus size: 44
116508363 CAAAACCAAC
* * *
116508373 GTCCCAGACGTGGTCTTACATGT-AATCACATATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGTAAATCACATATCGATGCCAGT
* * * * * *
116508416 GTCCCAAATAGGGTCTTACACG-AACTTATATAT-GATGCC-GAT
1 GTCCCAGACATGGTCTTACACGTAAATCACATATCGATGCCAG-T
* *
116508458 GTCCCAGACATGATCTTACACGTAAATCACAAATCGATGCCAGT
1 GTCCCAGACATGGTCTTACACGTAAATCACATATCGATGCCAGT
* * * *
116508502 GTCCTAGACGTGGTCTTACATG-AAATTACATATC
1 GTCCCAGACATGGTCTTACACGTAAATCACATATC
116508536 TGAATCCTAT
Statistics
Matches: 92, Mismatches: 23, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
42 25 0.27
43 41 0.45
44 25 0.27
45 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.28
Consensus pattern (44 bp):
GTCCCAGACATGGTCTTACACGTAAATCACATATCGATGCCAGT
Found at i:116508874 original size:12 final size:12
Alignment explanation
Indices: 116508857--116508881 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
116508847 AAATTAAACT
116508857 TATTTAATCAAA
1 TATTTAATCAAA
116508869 TATTTAATCAAA
1 TATTTAATCAAA
116508881 T
1 T
116508882 TCATCCAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TATTTAATCAAA
Found at i:116509664 original size:13 final size:13
Alignment explanation
Indices: 116509646--116509672 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
116509636 CACAAACGAT
116509646 AAAATTTTCACAC
1 AAAATTTTCACAC
116509659 AAAATTTTCACAC
1 AAAATTTTCACAC
116509672 A
1 A
116509673 TATAAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:116519180 original size:30 final size:30
Alignment explanation
Indices: 116519146--116519206 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
116519136 TCCTTAACTC
116519146 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
116519176 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
116519206 A
1 A
116519207 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:116523628 original size:30 final size:30
Alignment explanation
Indices: 116523594--116523654 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
116523584 TCCTTAACTC
116523594 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
116523624 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
116523654 A
1 A
116523655 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:116526242 original size:31 final size:31
Alignment explanation
Indices: 116526201--116526264 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
116526191 CCTTTTCATA
*
116526201 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
116526232 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
116526263 TT
1 TT
116526265 ACTGTAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:116526548 original size:24 final size:24
Alignment explanation
Indices: 116526456--116526620 Score: 257
Period size: 23 Copynumber: 7.0 Consensus size: 24
116526446 GCTTTATCAT
*
116526456 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
116526481 ACAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
116526504 ATAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
116526527 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
116526550 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
116526574 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
116526598 ATAACTAGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
116526621 TGCACTTCCT
Statistics
Matches: 133, Mismatches: 4, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
23 63 0.47
24 63 0.47
25 7 0.05
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:116526567 original size:47 final size:48
Alignment explanation
Indices: 116526456--116526620 Score: 257
Period size: 47 Copynumber: 3.5 Consensus size: 48
116526446 GCTTTATCAT
* *
116526456 ATAACTGGAGGCCT-AGCCTCTTTTAACAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTA
116526504 ATAACTGGGGCA-AAGCCCTTTTAATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
116526550 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
*
116526598 ATAACTAGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
116526621 TGCACTTCCT
Statistics
Matches: 110, Mismatches: 3, Indels: 8
0.91 0.02 0.07
Matches are distributed among these distances:
46 33 0.30
47 43 0.39
48 34 0.31
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
Found at i:116526693 original size:9 final size:9
Alignment explanation
Indices: 116526679--116526755 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
116526669 ATCTCGTGTG
116526679 CATATCATA
1 CATATCATA
*
116526688 CATATCATGTT
1 CATATCA--TA
116526699 CATATCATA
1 CATATCATA
* *
116526708 CATGTCATGTG
1 CATATCA--TA
116526719 CATATCATA
1 CATATCATA
*
116526728 CATATCATGTG
1 CATATCA--TA
116526739 CATATCATA
1 CATATCATA
116526748 CATATCAT
1 CATATCAT
116526756 GTTTATCAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.36
Consensus pattern (9 bp):
CATATCATA
Found at i:116526702 original size:20 final size:20
Alignment explanation
Indices: 116526675--116526757 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
116526665 GAACATCTCG
116526675 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
* *
116526695 TGTTCATATCATACATGTCA
1 TGTGCATATCATACATATCA
116526715 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
116526735 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
116526755 TGT
1 TGT
116526758 TTATCAAAAT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:116526704 original size:11 final size:11
Alignment explanation
Indices: 116526686--116526757 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
116526676 GTGCATATCA
116526686 TACATATCATG
1 TACATATCATG
*
116526697 TTCATATCA--
1 TACATATCATG
*
116526706 TACATGTCATG
1 TACATATCATG
*
116526717 TGCATATCA--
1 TACATATCATG
116526726 TACATATCATG
1 TACATATCATG
*
116526737 TGCATATCA--
1 TACATATCATG
116526746 TACATATCATG
1 TACATATCATG
116526757 T
1 T
116526758 TTATCAAAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (11 bp):
TACATATCATG
Done.