Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 326 of 770
Found at i:99872171 original size:40 final size:40
Alignment explanation
Indices: 99872126--99872290 Score: 149
Period size: 40 Copynumber: 4.2 Consensus size: 40
99872116 CGGAATATAA
*
99872126 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
99872166 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
99872206 CCGG--ATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
99872244 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
99872283 CCGGATAT
1 CCGGATAT
99872291 CATTCAATTT
Statistics
Matches: 101, Mismatches: 21, Indels: 7
0.78 0.16 0.05
Matches are distributed among these distances:
38 30 0.30
39 13 0.13
40 57 0.56
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:99872274 original size:78 final size:77
Alignment explanation
Indices: 99872142--99872289 Score: 192
Period size: 78 Copynumber: 1.9 Consensus size: 77
99872132 ATAACCATGT
*
99872142 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGG-CTTAGCC
99872207 CGGATAGCCACTA
65 CGGATAGCCACTA
* * ** * *
99872220 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGCTTAGC
99872283 CCGGATA
64 CCGGATA
99872290 TCATTCAATT
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
77 16 0.26
78 45 0.74
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.26
Consensus pattern (77 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATAGCCACTA
Found at i:99879961 original size:29 final size:27
Alignment explanation
Indices: 99879927--99880029 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
99879917 TACTCAATCA
*
99879927 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
99879956 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
99879985 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
99880014 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
99880030 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:99887874 original size:29 final size:27
Alignment explanation
Indices: 99887840--99887942 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
99887830 TACTCAATCA
*
99887840 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
99887869 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
99887898 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
99887927 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
99887943 ATCTCGTCCC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:99903118 original size:27 final size:27
Alignment explanation
Indices: 99903066--99903120 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
99903056 TATTGTAAAA
*
99903066 TTAATTAAAATTCAATATGTTGATAAT
1 TTAATTAAAATTCAATATCTTGATAAT
* * *
99903093 TTAATTACAATTCAATTTCTTTATAAT
1 TTAATTAAAATTCAATATCTTGATAAT
99903120 T
1 T
99903121 ATATTGTGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (27 bp):
TTAATTAAAATTCAATATCTTGATAAT
Found at i:99903150 original size:17 final size:17
Alignment explanation
Indices: 99903130--99903163 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
99903120 TATATTGTGG
99903130 AAATAAA-ATAAAATAAA
1 AAATAAATA-AAAATAAA
99903147 AAATAAATAAAAATAAA
1 AAATAAATAAAAATAAA
99903164 GAACACAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.94
18 1 0.06
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (17 bp):
AAATAAATAAAAATAAA
Found at i:99904734 original size:36 final size:38
Alignment explanation
Indices: 99904689--99904767 Score: 126
Period size: 36 Copynumber: 2.1 Consensus size: 38
99904679 AATCTTTAAG
99904689 GATATGCAATCTTAGATATGATAT-AATCTT-AGATAT
1 GATATGCAATCTTAGATATGATATCAATCTTAAGATAT
99904725 GATATGCAATCTTAGATATGATATGCAATCTTGAAGATAT
1 GATATGCAATCTTAGATATGATAT-CAATCTT-AAGATAT
99904765 GAT
1 GAT
99904768 CTTGTAATCT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
36 24 0.62
38 6 0.15
40 9 0.23
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.37
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATCAATCTTAAGATAT
Found at i:99904737 original size:19 final size:19
Alignment explanation
Indices: 99904689--99904767 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
99904679 AATCTTTAAG
99904689 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
99904708 GATAT--AATCTTAGATAT
1 GATATGCAATCTTAGATAT
99904725 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
99904744 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
99904765 GAT
1 GAT
99904768 CTTGTAATCT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
21 9 0.16
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:99906528 original size:40 final size:41
Alignment explanation
Indices: 99906477--99906777 Score: 448
Period size: 41 Copynumber: 7.4 Consensus size: 41
99906467 CGTTTTTTAC
*
99906477 TAAAACGCCGCTAAAAA-CAGAGCATTAGCGGCGCTTTACG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGG
99906517 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGG
* * *
99906558 TAAAACGCCGGTAAAAACCAGAACATTAGCAGCGCTTTAGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGG
**
99906599 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCTG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGG
* * * *
99906640 TAAAACGCTGCTAAAAA-CAGGGCATTAACGGCGCTTTGGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGG
*
99906680 TAAAACGCCGCTAAAAA-CATG-GCATTAGCGGCGCTTTGGG
1 TAAAACGCCGCTAAAAACCA-GAGCATTAGCGGCGCTTTAGG
* *
99906720 TAAAACGCCGCTAAAAACCAGAGAATTAGCGGCGCTTTTGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGG
99906761 TAAAACGCCGCTAAAAA
1 TAAAACGCCGCTAAAAA
99906778 TCCCATAACC
Statistics
Matches: 239, Mismatches: 18, Indels: 7
0.91 0.07 0.03
Matches are distributed among these distances:
40 90 0.38
41 149 0.62
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (41 bp):
TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGG
Found at i:99906957 original size:14 final size:14
Alignment explanation
Indices: 99906935--99906974 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
99906925 TTAATTATCA
* *
99906935 TTATAGTTTAAGGT
1 TTATGGTTTAAGAT
99906949 TTATGGTTTAAGAT
1 TTATGGTTTAAGAT
*
99906963 ATATGGTTTAAG
1 TTATGGTTTAAG
99906975 TAGGTTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (14 bp):
TTATGGTTTAAGAT
Found at i:99907870 original size:15 final size:15
Alignment explanation
Indices: 99907850--99907881 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
99907840 TTTAATTTAG
*
99907850 AAGATAAATGTATAT
1 AAGATAAATATATAT
99907865 AAGATAAATATATAT
1 AAGATAAATATATAT
99907880 AA
1 AA
99907882 AATATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (15 bp):
AAGATAAATATATAT
Found at i:99909452 original size:9 final size:9
Alignment explanation
Indices: 99909438--99909497 Score: 50
Period size: 9 Copynumber: 6.7 Consensus size: 9
99909428 CCCAAGGTTA
*
99909438 TTGATGATT
1 TTGATGATG
*
99909447 TTGATGATC
1 TTGATGATG
*
99909456 TTAATGATG
1 TTGATGATG
*
99909465 ATGATGATG
1 TTGATGATG
99909474 TTGAT-ACTG
1 TTGATGA-TG
* *
99909483 ATGTTGATG
1 TTGATGATG
99909492 TTGATG
1 TTGATG
99909498 TTGATCTCGA
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
8 1 0.03
9 37 0.95
10 1 0.03
ACGTcount: A:0.25, C:0.03, G:0.27, T:0.45
Consensus pattern (9 bp):
TTGATGATG
Found at i:99909468 original size:6 final size:6
Alignment explanation
Indices: 99909463--99909502 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
99909453 ATCTTAATGA
* **
99909463 TGATGA TGATGT TGATAC TGATGT TGATGT TGATGT TGAT
1 TGATGT TGATGT TGATGT TGATGT TGATGT TGATGT TGAT
99909503 CTCGATGATT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.23, C:0.03, G:0.30, T:0.45
Consensus pattern (6 bp):
TGATGT
Found at i:99911541 original size:131 final size:131
Alignment explanation
Indices: 99911307--99911555 Score: 471
Period size: 131 Copynumber: 1.9 Consensus size: 131
99911297 TGGTGATTCC
*
99911307 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
1 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAATG
99911372 TGGACTTAGATTGATTTAAGAGTTTAACGCTGTCTTGTTGCTCACGTTTTATAATAAAATTGTTA
66 TGGACTTAGATTGATTTAAGAGTTTAACGCTGTCTTGTTGCTCACGTTTTATAATAAAATTGTTA
99911437 T
131 T
99911438 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAATG
1 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAATG
**
99911503 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATA
66 TGGACTTAGATTGATTTAAGAGTTTAACGCTGTCTTGTTGCTCACGTTTTATA
99911556 TTGTTGAATT
Statistics
Matches: 115, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
131 115 1.00
ACGTcount: A:0.20, C:0.11, G:0.18, T:0.51
Consensus pattern (131 bp):
ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAATG
TGGACTTAGATTGATTTAAGAGTTTAACGCTGTCTTGTTGCTCACGTTTTATAATAAAATTGTTA
T
Found at i:99913648 original size:21 final size:21
Alignment explanation
Indices: 99913619--99913658 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
99913609 GTTTTTATAT
*
99913619 TTTGGTTCAACTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
99913640 TTTGATTCAACTTAAGTAT
1 TTTGATTCAACTTAAGTAT
99913659 GAATTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Found at i:99919826 original size:21 final size:21
Alignment explanation
Indices: 99919800--99919847 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
99919790 TCAACTTAGA
99919800 GCGGAGGCAACAGCGAGGGAG
1 GCGGAGGCAACAGCGAGGGAG
*
99919821 GCGGAGGCAGCAGCGAGGGAG
1 GCGGAGGCAACAGCGAGGGAG
*
99919842 GTGGAG
1 GCGGAG
99919848 CAGAACAGGA
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:0.25, C:0.17, G:0.56, T:0.02
Consensus pattern (21 bp):
GCGGAGGCAACAGCGAGGGAG
Found at i:99920192 original size:43 final size:43
Alignment explanation
Indices: 99920145--99920231 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 43
99920135 CTGGGCAAAT
*
99920145 TAGCGACGTTTTTTAAAAAAGTGCCGCTAAAAGTACAGGTCTA
1 TAGCGACGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTA
* *
99920188 TAGCGGCGTTTTTTACAAAAGCGCCGCTAAAAGTACAGGTCTA
1 TAGCGACGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTA
99920231 T
1 T
99920232 TAAAGTTCTA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (43 bp):
TAGCGACGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTA
Found at i:99920311 original size:43 final size:43
Alignment explanation
Indices: 99920241--99920364 Score: 160
Period size: 43 Copynumber: 2.9 Consensus size: 43
99920231 TTAAAGTTCT
* * * *
99920241 AGGTCTATAGAGGCTTTTTTTACAAAAGCGTCGCTAAAAGTT-G
1 AGGTCTATAGCGGCGTTTTTTATAAAAGCGTCGCTAAAA-TTAC
*
99920284 AGGTCTATAGCGGCGTTTCTTATAAAAGCGTCGCTAAAATTAC
1 AGGTCTATAGCGGCGTTTTTTATAAAAGCGTCGCTAAAATTAC
* * *
99920327 AAGTCTATAGCGGTGTTTTTTATAAAAGCGCCGCTAAA
1 AGGTCTATAGCGGCGTTTTTTATAAAAGCGTCGCTAAA
99920365 GGTCCTAGTC
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
42 2 0.03
43 69 0.97
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (43 bp):
AGGTCTATAGCGGCGTTTTTTATAAAAGCGTCGCTAAAATTAC
Found at i:99920375 original size:43 final size:43
Alignment explanation
Indices: 99920233--99920426 Score: 153
Period size: 43 Copynumber: 4.5 Consensus size: 43
99920223 CAGGTCTATT
* * * *
99920233 AAAGTTCTAGGTCTATAGAGGCT-TTTTTTACAAAAGCGTCGCTA
1 AAAGTCCTA-GTCTATAGCGG-TGTTTTTTATAAAAGCGCCGCTA
* * *
99920277 AAAGT--TGAGGTCTATAGCGGCGTTTCTTATAAAAGCGTCGCTA
1 AAAGTCCT-A-GTCTATAGCGGTGTTTTTTATAAAAGCGCCGCTA
* * *
99920320 AAATTACAAGTCTATAGCGGTGTTTTTTATAAAAGCGCCGCTA
1 AAAGTCCTAGTCTATAGCGGTGTTTTTTATAAAAGCGCCGCTA
* * * * *
99920363 AAGGTCCTAGTCTTTGGCGGCGTTTTTT-TAAGAGCGCCGCTA
1 AAAGTCCTAGTCTATAGCGGTGTTTTTTATAAAAGCGCCGCTA
* * * *
99920405 AAGGTCCTGGTCTTTTGCGGTG
1 AAAGTCCTAGTCTATAGCGGTG
99920427 CTACATATAG
Statistics
Matches: 126, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
42 33 0.26
43 87 0.69
44 6 0.05
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (43 bp):
AAAGTCCTAGTCTATAGCGGTGTTTTTTATAAAAGCGCCGCTA
Found at i:99922957 original size:44 final size:44
Alignment explanation
Indices: 99922344--99922945 Score: 729
Period size: 44 Copynumber: 13.7 Consensus size: 44
99922334 TATCAAATTA
* ** * *
99922344 GCTATCTTTGATCTGCTCTCTCACAATAC-GAAGGTGCCAAACCT
1 GCTATCTTCGATCTGCTCTCTGGCAATACAG-AGATGCCAAATCT
* * * * * *
99922388 ACTATCTTCGATCTGCTCCCTGACAATATAGAGACGCCAAATAT
1 GCTATCTTCGATCTGCTCTCTGGCAATACAGAGATGCCAAATCT
* * * *
99922432 GCTATCTTTGATCTGCTCTCTGACAATATAGAGACGCCAAATCT
1 GCTATCTTCGATCTGCTCTCTGGCAATACAGAGATGCCAAATCT
* ** *
99922476 GTTATCTTCGATCTGCTCTCTGGCAATATGGAGATGCCAAATTT
1 GCTATCTTCGATCTGCTCTCTGGCAATACAGAGATGCCAAATCT
* * * *
99922520 GTTATCTTTGATCTGCTCTCTCGCAATACAGAAATGCCAAATCT
1 GCTATCTTCGATCTGCTCTCTGGCAATACAGAGATGCCAAATCT
* * *
99922564 GTTATCTTCGATCTGCTCTCTGGAAATATAGAGATGCCAAATCT
1 GCTATCTTCGATCTGCTCTCTGGCAATACAGAGATGCCAAATCT
* * * **
99922608 GTTATCTTTGATCTGCTTTCTGGCAATACAGAGACACCAAATCT
1 GCTATCTTCGATCTGCTCTCTGGCAATACAGAGATGCCAAATCT
99922652 GCTATCTTCGATCTGCTCTCTGGCAATACAGAGATGCCAAATCT
1 GCTATCTTCGATCTGCTCTCTGGCAATACAGAGATGCCAAATCT
**
99922696 GCTATCTTCGATCTGCTCTCTGGCAATACAGAGACACCAAATCT
1 GCTATCTTCGATCTGCTCTCTGGCAATACAGAGATGCCAAATCT
* * * **
99922740 GTTATCTTCGATCTGCTCTCCGACAATATGGAGATGCCAAATCT
1 GCTATCTTCGATCTGCTCTCTGGCAATACAGAGATGCCAAATCT
*
99922784 GCTATCTTTGATCTGCTCTCTGGCAATACAGAGATGCCAAATCT
1 GCTATCTTCGATCTGCTCTCTGGCAATACAGAGATGCCAAATCT
* * **
99922828 GTTATCTTCGATCTGCTCTCCGGCAATATGGAGATGCCAAATCT
1 GCTATCTTCGATCTGCTCTCTGGCAATACAGAGATGCCAAATCT
* * * * *
99922872 GCTGTTTTTGATCTGCTCTTTGGCAATACAGAGATTCCAAATCT
1 GCTATCTTCGATCTGCTCTCTGGCAATACAGAGATGCCAAATCT
* * *
99922916 GCTATCTTCAATCTGTTCTCTGACAATACA
1 GCTATCTTCGATCTGCTCTCTGGCAATACA
99922946 AAGACGTCAA
Statistics
Matches: 480, Mismatches: 77, Indels: 2
0.86 0.14 0.00
Matches are distributed among these distances:
44 479 1.00
45 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (44 bp):
GCTATCTTCGATCTGCTCTCTGGCAATACAGAGATGCCAAATCT
Found at i:99922972 original size:88 final size:88
Alignment explanation
Indices: 99922344--99922943 Score: 808
Period size: 88 Copynumber: 6.8 Consensus size: 88
99922334 TATCAAATTA
** * * ** *
99922344 GCTATCTTTGATCTGCTCTCTCACAATAC-GAAGGTGCCAAACCTACTATCTTCGATCTGCTCCC
1 GCTATCTTTGATCTGCTCTCTGGCAATACAG-AGATGCCAAATCTGTTATCTTCGATCTGCTCTC
* *
99922408 TGACAATATAGAGACGCCAAATAT
65 TGACAATATAGAGATGCCAAATCT
* * *
99922432 GCTATCTTTGATCTGCTCTCTGACAATATAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCT
1 GCTATCTTTGATCTGCTCTCTGGCAATACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCT
* * *
99922497 GGCAATATGGAGATGCCAAATTT
66 GACAATATAGAGATGCCAAATCT
* * *
99922520 GTTATCTTTGATCTGCTCTCTCGCAATACAGAAATGCCAAATCTGTTATCTTCGATCTGCTCTCT
1 GCTATCTTTGATCTGCTCTCTGGCAATACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCT
99922585 GGA-AATATAGAGATGCCAAATCT
66 -GACAATATAGAGATGCCAAATCT
* * ** *
99922608 GTTATCTTTGATCTGCTTTCTGGCAATACAGAGACACCAAATCTGCTATCTTCGATCTGCTCTCT
1 GCTATCTTTGATCTGCTCTCTGGCAATACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCT
* *
99922673 GGCAATACAGAGATGCCAAATCT
66 GACAATATAGAGATGCCAAATCT
* ** *
99922696 GCTATCTTCGATCTGCTCTCTGGCAATACAGAGACACCAAATCTGTTATCTTCGATCTGCTCTCC
1 GCTATCTTTGATCTGCTCTCTGGCAATACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCT
*
99922761 GACAATATGGAGATGCCAAATCT
66 GACAATATAGAGATGCCAAATCT
*
99922784 GCTATCTTTGATCTGCTCTCTGGCAATACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCC
1 GCTATCTTTGATCTGCTCTCTGGCAATACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCT
* *
99922849 GGCAATATGGAGATGCCAAATCT
66 GACAATATAGAGATGCCAAATCT
* * * * * * *
99922872 GCTGTTTTTGATCTGCTCTTTGGCAATACAGAGATTCCAAATCTGCTATCTTCAATCTGTTCTCT
1 GCTATCTTTGATCTGCTCTCTGGCAATACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCT
99922937 GACAATA
66 GACAATA
99922944 CAAAGACGTC
Statistics
Matches: 459, Mismatches: 50, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
87 1 0.00
88 456 0.99
89 2 0.00
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.33
Consensus pattern (88 bp):
GCTATCTTTGATCTGCTCTCTGGCAATACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCT
GACAATATAGAGATGCCAAATCT
Found at i:99923874 original size:55 final size:53
Alignment explanation
Indices: 99923790--99923893 Score: 127
Period size: 55 Copynumber: 1.9 Consensus size: 53
99923780 AACCCCTTTG
* * * *
99923790 GTCTCAAGGCGCCCTTTGCGAGTTTTCACCTTGGCCTCTCCATTTTTTTTATTAA
1 GTCTCAAAGCGCCCGTTGCGAGATTTCACCTT-GCCT-TCCATTTTCTTTATTAA
* * *
99923845 GTCTCAAAGCGCCCGTTGTGGGATTTCACCTTGCCTTCCCTTTTCTTTA
1 GTCTCAAAGCGCCCGTTGCGAGATTTCACCTTGCCTTCCATTTTCTTTA
99923894 GACAAAGTAC
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
53 11 0.26
54 4 0.10
55 27 0.64
ACGTcount: A:0.13, C:0.29, G:0.17, T:0.40
Consensus pattern (53 bp):
GTCTCAAAGCGCCCGTTGCGAGATTTCACCTTGCCTTCCATTTTCTTTATTAA
Found at i:99930985 original size:40 final size:39
Alignment explanation
Indices: 99930940--99931147 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
99930930 CGGAATACAA
*
99930940 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
99930980 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
99931020 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
99931060 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
99931100 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
99931140 CCGGATAT
1 CCGGATAT
99931148 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:99931080 original size:80 final size:80
Alignment explanation
Indices: 99930940--99931146 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
99930930 CGGAATACAA
* * *
99930940 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
99931004 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
99931020 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
99931084 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
99931100 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
99931147 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:99935820 original size:17 final size:19
Alignment explanation
Indices: 99935778--99935821 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
99935768 ATGAAATTTT
*
99935778 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
99935797 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
99935815 AA-TATTA
1 AATTATTA
99935822 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:99936472 original size:20 final size:22
Alignment explanation
Indices: 99936417--99936472 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 22
99936407 TTGGTGCCGA
*
99936417 TTTTTTCTTCCTCTCTTTTTCC
1 TTTTTTCTTCTTCTCTTTTTCC
99936439 TTCATTTTCTTTCTTC-CTTTTTCC
1 TT--TTTTC-TTCTTCTCTTTTTCC
99936463 -TTTTTCTTCT
1 TTTTTTCTTCT
99936473 AGCAGAAACC
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
20 4 0.13
21 5 0.17
22 2 0.07
23 1 0.03
24 13 0.43
25 5 0.17
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTTTTCTTCTTCTCTTTTTCC
Found at i:99941745 original size:17 final size:16
Alignment explanation
Indices: 99941720--99941809 Score: 66
Period size: 17 Copynumber: 5.8 Consensus size: 16
99941710 ATAATATAAG
99941720 AAATA-ATATATAATA
1 AAATATATATATAATA
* *
99941735 AAATATGATATGTGATA
1 AAATAT-ATATATAATA
* *
99941752 AAATATAAAATATAATG
1 AAATAT-ATATATAATA
99941769 AAATATA-A-ATAATA
1 AAATATATATATAATA
*
99941783 AAATA-ACATATAATTA
1 AAATATATATATAA-TA
99941799 AAA-ATA-ATATA
1 AAATATATATATA
99941810 CACTGTTTTT
Statistics
Matches: 61, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
13 1 0.02
14 11 0.18
15 16 0.26
16 7 0.11
17 26 0.43
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (16 bp):
AAATATATATATAATA
Found at i:99956507 original size:19 final size:18
Alignment explanation
Indices: 99956471--99956508 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
99956461 TTTAAAAAAA
99956471 TATAAAATTTGAAATTTT
1 TATAAAATTTGAAATTTT
*
99956489 TATAAATATTT-TAATTTT
1 TATAAA-ATTTGAAATTTT
99956507 TA
1 TA
99956509 ATTTTTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (18 bp):
TATAAAATTTGAAATTTT
Found at i:99961879 original size:35 final size:35
Alignment explanation
Indices: 99961831--99961903 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
99961821 GAGAATATAT
*
99961831 AAAGTACATTTGGGTGAGTACCAACGATGAGGGGC
1 AAAGTACAGTTGGGTGAGTACCAACGATGAGGGGC
*
99961866 AAAGTACAGTTGGGTGAGTACCAGCGATGAGGGGC
1 AAAGTACAGTTGGGTGAGTACCAACGATGAGGGGC
99961901 AAA
1 AAA
99961904 CCTTATAACG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.33, C:0.14, G:0.36, T:0.18
Consensus pattern (35 bp):
AAAGTACAGTTGGGTGAGTACCAACGATGAGGGGC
Found at i:99962158 original size:59 final size:59
Alignment explanation
Indices: 99961964--99962160 Score: 243
Period size: 59 Copynumber: 3.3 Consensus size: 59
99961954 TTGTATAAGT
* * * * * *
99961964 AAGCCTTTATAGCTATCTCTACTAAATGGAAGCCTTTGTGGTGAACTTTTTTAAAATGG
1 AAGCCTTTGTGGCTATCTCTATTAAATGGAAGCCTTTGTGGCGAACTCTGTTAAAATGG
* * * * *
99962023 AAGGCTTTGTAGCGATCTCTATTAAAATGGAAGCCTTTGTGGCTATCTCTGTT-AAATGG
1 AAGCCTTTGTGGCTATCTCTATT-AAATGGAAGCCTTTGTGGCGAACTCTGTTAAAATGG
* *
99962082 AAGCCTTTGTGGCTATCTCTATTAAATTGAAACCTTTGTGGCGAACTCTGTTAAAATGG
1 AAGCCTTTGTGGCTATCTCTATTAAATGGAAGCCTTTGTGGCGAACTCTGTTAAAATGG
* *
99962141 AAGCCTTTTTGGTTATCTCT
1 AAGCCTTTGTGGCTATCTCT
99962161 GTAACACCCC
Statistics
Matches: 118, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
58 25 0.21
59 69 0.58
60 24 0.20
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (59 bp):
AAGCCTTTGTGGCTATCTCTATTAAATGGAAGCCTTTGTGGCGAACTCTGTTAAAATGG
Found at i:99962161 original size:30 final size:30
Alignment explanation
Indices: 99961987--99962162 Score: 194
Period size: 30 Copynumber: 5.9 Consensus size: 30
99961977 TATCTCTACT
* * * *
99961987 AAATGGAAGCCTTTGTGGTGAACTTTTTTA
1 AAATGGAAGCCTTTGTGGCGATCTCTGTTA
* * *
99962017 AAATGGAAGGCTTTGTAGCGATCTCTATTA
1 AAATGGAAGCCTTTGTGGCGATCTCTGTTA
*
99962047 AAATGGAAGCCTTTGTGGCTATCTCTGTT-
1 AAATGGAAGCCTTTGTGGCGATCTCTGTTA
* *
99962076 AAATGGAAGCCTTTGTGGCTATCTCTATT-
1 AAATGGAAGCCTTTGTGGCGATCTCTGTTA
* * *
99962105 AAATTGAAACCTTTGTGGCGAACTCTGTTA
1 AAATGGAAGCCTTTGTGGCGATCTCTGTTA
* **
99962135 AAATGGAAGCCTTTTTGGTTATCTCTGT
1 AAATGGAAGCCTTTGTGGCGATCTCTGT
99962163 AACACCCCTT
Statistics
Matches: 123, Mismatches: 22, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
29 52 0.42
30 71 0.58
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.38
Consensus pattern (30 bp):
AAATGGAAGCCTTTGTGGCGATCTCTGTTA
Found at i:99964152 original size:29 final size:27
Alignment explanation
Indices: 99964118--99964220 Score: 89
Period size: 29 Copynumber: 3.6 Consensus size: 27
99964108 TACTCGATCA
*
99964118 CGCACACTTAGTGCCATGTGATTTAAGCC
1 CGCACACTTAGTGCCAT-T-ATTTAAGCT
* ** *
99964147 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTTAAGCT
*
99964176 CGCACACTTAGTGCCATACATTTCAAGCT
1 CGCACACTTAGTGCCAT-TATTT-AAGCT
*
99964205 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
99964221 ATCTCGTCAC
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
28 2 0.03
29 58 0.97
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTTAAGCT
Found at i:99965561 original size:17 final size:19
Alignment explanation
Indices: 99965527--99965564 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
99965517 TCCACACACA
99965527 TTTTTTTTCATCATTTTCTT
1 TTTTTTTTCA-CATTTTCTT
99965547 TTTTTTTTC-CA-TTTCTT
1 TTTTTTTTCACATTTTCTT
99965564 T
1 T
99965565 ATTCTCCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 2 0.11
20 9 0.50
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTTTTCACATTTTCTT
Found at i:99971879 original size:29 final size:29
Alignment explanation
Indices: 99971845--99971910 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
99971835 AAGCCGCACA
*
99971845 TAGTGCCATATAGTCCAAACTCGCACACT
1 TAGTGCCATACAGTCCAAACTCGCACACT
* * *
99971874 TAGTGCCATACATTTCAAGCTCGCACACT
1 TAGTGCCATACAGTCCAAACTCGCACACT
*
99971903 CAGTGCCA
1 TAGTGCCA
99971911 ATCTCGTCAC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.29, C:0.32, G:0.15, T:0.24
Consensus pattern (29 bp):
TAGTGCCATACAGTCCAAACTCGCACACT
Found at i:99974570 original size:40 final size:40
Alignment explanation
Indices: 99974464--99974647 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 40
99974454 TGCTGGAAAT
* * * * * **
99974464 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
*
99974504 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
99974544 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * * * * *
99974582 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * *
99974623 CATATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
99974648 GTTTGAACGA
Statistics
Matches: 115, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
38 1 0.01
39 29 0.25
40 85 0.74
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:99982660 original size:40 final size:40
Alignment explanation
Indices: 99982554--99982737 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 40
99982544 TGCTGGAAAT
* * * * * **
99982554 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
*
99982594 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
99982634 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * * * * *
99982672 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * *
99982713 CATATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
99982738 GTTTGAACGA
Statistics
Matches: 115, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
38 1 0.01
39 29 0.25
40 85 0.74
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:99993300 original size:41 final size:41
Alignment explanation
Indices: 99993254--99993350 Score: 151
Period size: 41 Copynumber: 2.4 Consensus size: 41
99993244 CCTAAATTTG
*
99993254 ACATACGTGCCCCTATTTGTACTTCGGTACCCTTGAATTGC-
1 ACATACGTGCCCCTATTTGTACTTCGGTACCCCTGAATT-CA
* *
99993295 ACATACGTGCCCCTGTTTGTACTTTGGTACCCCTGAATTCA
1 ACATACGTGCCCCTATTTGTACTTCGGTACCCCTGAATTCA
99993336 ACATACGTGCCCCTA
1 ACATACGTGCCCCTA
99993351 GTTACATTCT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 1 0.02
41 50 0.98
ACGTcount: A:0.21, C:0.31, G:0.16, T:0.32
Consensus pattern (41 bp):
ACATACGTGCCCCTATTTGTACTTCGGTACCCCTGAATTCA
Found at i:99996631 original size:33 final size:32
Alignment explanation
Indices: 99996582--99996645 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
99996572 CTCGTTGCAA
* *
99996582 TCTGGTGGCTTCGCCACACATATATATATCTGT
1 TCTGGTGGCCTAGCCACA-ATATATATATCTGT
* *
99996615 TCTGGTGGCCTAGCCACAATATCTGTATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
99996646 GTGACTTCGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.34
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:99996659 original size:27 final size:26
Alignment explanation
Indices: 99996607--99996666 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
99996597 ACACATATAT
*
99996607 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
99996633 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
99996660 ATATCTG
1 ATATCTG
99996667 GCAGCCTCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:100003689 original size:27 final size:26
Alignment explanation
Indices: 100003645--100003695 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
100003635 CTCGCTGCAA
*
100003645 TCTGGTGGCCTCGCCACATATATCTAT
1 TCTGGTGACCTCGCCACA-ATATCTAT
* *
100003672 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
100003696 GGCAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTAT
Found at i:100003764 original size:26 final size:27
Alignment explanation
Indices: 100003735--100003794 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
100003725 CCACATATAT
*
100003735 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
100003761 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
100003788 ATATCTG
1 ATATCTG
100003795 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:100008462 original size:12 final size:12
Alignment explanation
Indices: 100008445--100008560 Score: 115
Period size: 12 Copynumber: 9.7 Consensus size: 12
100008435 ATATGAAAAG
100008445 AAAATAAACATA
1 AAAATAAACATA
*
100008457 AAAATAAAAATA
1 AAAATAAACATA
*
100008469 AAAATAAACCTA
1 AAAATAAACATA
100008481 AAAATAAACATA
1 AAAATAAACATA
* * * *
100008493 AAGAGAAAGAGA
1 AAAATAAACATA
* * *
100008505 AATATAAAGATT
1 AAAATAAACATA
* *
100008517 AAGATAAAGATA
1 AAAATAAACATA
*
100008529 AAAATAAAAATA
1 AAAATAAACATA
100008541 AAAATAAACATA
1 AAAATAAACATA
*
100008553 AAGATAAA
1 AAAATAAA
100008561 TGGACTCAAT
Statistics
Matches: 86, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 86 1.00
ACGTcount: A:0.72, C:0.04, G:0.07, T:0.16
Consensus pattern (12 bp):
AAAATAAACATA
Found at i:100008463 original size:6 final size:6
Alignment explanation
Indices: 100008445--100008560 Score: 97
Period size: 6 Copynumber: 19.3 Consensus size: 6
100008435 ATATGAAAAG
* ** *
100008445 AAAATA AACATA AAAATA AAAATA AAAATA AACCTA AAAATA AACATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* * * * * * * * *
100008493 AAGAGA AAGAGA AATATA AAGATT AAGATA AAGATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* *
100008541 AAAATA AACATA AAGATA AA
1 AAAATA AAAATA AAAATA AA
100008561 TGGACTCAAT
Statistics
Matches: 93, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 93 1.00
ACGTcount: A:0.72, C:0.04, G:0.07, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:100009782 original size:13 final size:13
Alignment explanation
Indices: 100009764--100009788 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
100009754 GAGGAAAGAA
100009764 GAAAGGAGAAAAT
1 GAAAGGAGAAAAT
100009777 GAAAGGAGAAAA
1 GAAAGGAGAAAA
100009789 GGGAAAGAAA
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:0.64, C:0.00, G:0.32, T:0.04
Consensus pattern (13 bp):
GAAAGGAGAAAAT
Found at i:100013683 original size:40 final size:40
Alignment explanation
Indices: 100013605--100013828 Score: 274
Period size: 40 Copynumber: 5.5 Consensus size: 40
100013595 ACCCAAGTAT
* *
100013605 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * **
100013644 CTTCAGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
100013684 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
100013724 CTTCGAGACTTAGCCCGGGTATAG-CAACTACTCGTACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
100013767 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
100013807 CCTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
100013829 CATCCGAATA
Statistics
Matches: 159, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
39 11 0.07
40 113 0.71
41 1 0.01
43 34 0.21
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:100013790 original size:83 final size:80
Alignment explanation
Indices: 100013605--100013828 Score: 267
Period size: 83 Copynumber: 2.8 Consensus size: 80
100013595 ACCCAAGTAT
* * *
100013605 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCCTTC-AGGTCTTAGCCCGGATATA
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGA-GACTTAGCCCGGATATA
**
100013667 GTCACTAGCATGAATGC
64 GTCACTAGCACAAATGC
*
100013684 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGAGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGAGACTTAGCCCGGATATAGT
*
100013748 CAACTACTCGTACAAATGC
66 C-ACTA---GCACAAATGC
* * * *
100013767 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCCTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGAGACTTAGCCCGGATAT
100013829 CATCCGAATA
Statistics
Matches: 126, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
79 13 0.10
80 47 0.37
81 2 0.02
83 64 0.51
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGAGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:100014424 original size:2 final size:2
Alignment explanation
Indices: 100014419--100014446 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
100014409 ATTCACACAG
100014419 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
100014447 GCCATTTACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:100024184 original size:2 final size:2
Alignment explanation
Indices: 100024177--100024205 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
100024167 ATGATTTGTG
100024177 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
100024206 AGTTAAAATG
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:100029372 original size:27 final size:28
Alignment explanation
Indices: 100029342--100029441 Score: 121
Period size: 27 Copynumber: 3.5 Consensus size: 28
100029332 ATAGTGAGTC
100029342 CGCACACTTAGTGCTATAAAATC-AACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* *
100029369 CGCACACCTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
100029397 CGCACACTTAGTGCTGTACAAATTTAAAACC
1 CGCACACTTAGTGCTATA-AAA--TCAAACT
100029428 CGCACACTTAGTGC
1 CGCACACTTAGTGC
100029442 AATCTCATGA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
27 21 0.34
28 20 0.32
29 2 0.03
31 19 0.31
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:100030291 original size:7 final size:7
Alignment explanation
Indices: 100030281--100030305 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
100030271 TCATCACCAC
100030281 AACATCA
1 AACATCA
100030288 AACATCA
1 AACATCA
100030295 AACATCA
1 AACATCA
100030302 AACA
1 AACA
100030306 AGAAGACAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.28, G:0.00, T:0.12
Consensus pattern (7 bp):
AACATCA
Found at i:100037238 original size:27 final size:28
Alignment explanation
Indices: 100037208--100037307 Score: 121
Period size: 27 Copynumber: 3.5 Consensus size: 28
100037198 ATAGTGAGTC
100037208 CGCACACTTAGTGCTATAAAATC-AACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* *
100037235 CGCACACCTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
100037263 CGCACACTTAGTGCTGTACAAATTTAAAACC
1 CGCACACTTAGTGCTATA-AAA--TCAAACT
100037294 CGCACACTTAGTGC
1 CGCACACTTAGTGC
100037308 AATCTCATGA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
27 21 0.34
28 20 0.32
29 2 0.03
31 19 0.31
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:100038159 original size:7 final size:7
Alignment explanation
Indices: 100038149--100038173 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
100038139 TCATCACCAC
100038149 AACATCA
1 AACATCA
100038156 AACATCA
1 AACATCA
100038163 AACATCA
1 AACATCA
100038170 AACA
1 AACA
100038174 AGAAGACAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.28, G:0.00, T:0.12
Consensus pattern (7 bp):
AACATCA
Found at i:100042065 original size:2 final size:2
Alignment explanation
Indices: 100042058--100042087 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
100042048 TTCAGGCTAT
100042058 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
100042088 CTAGCTGATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:100042598 original size:2 final size:2
Alignment explanation
Indices: 100042591--100042623 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
100042581 ATGATTTGTG
100042591 AT AT 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 AT AT A
100042624 AGTTAAAATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:100044312 original size:2 final size:2
Alignment explanation
Indices: 100044300--100044328 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
100044290 TCAATCTCAC
100044300 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
100044329 CACATACCTG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:100046232 original size:68 final size:68
Alignment explanation
Indices: 100046095--100046251 Score: 201
Period size: 68 Copynumber: 2.3 Consensus size: 68
100046085 TTAACTGTGA
* * * *
100046095 AATC-AACAGATTCGGACAGCTACATTTACTAAATAAAACAGCATATATGGTAGTGCATCGAACA
1 AATCTAACACATTCGGACAGCTACATTTACCAAATAAAACAGCATAAATGATAGTGCATCGAACA
100046159 ATG
66 ATG
* * * *
100046162 AATTTAACACATTCGGACAGCTACATTTACCAAATAAAACAGCATAAATGAT-GATGCTTTGAAT
1 AATCTAACACATTCGGACAGCTACATTTACCAAATAAAACAGCATAAATGATAG-TGCATCGAAC
*
100046226 AGTG
65 AATG
*
100046230 AATCTAACACATTCGAACAGCT
1 AATCTAACACATTCGGACAGCT
100046252 TAATTTTAAG
Statistics
Matches: 77, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
67 4 0.05
68 73 0.95
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.25
Consensus pattern (68 bp):
AATCTAACACATTCGGACAGCTACATTTACCAAATAAAACAGCATAAATGATAGTGCATCGAACA
ATG
Found at i:100048679 original size:29 final size:29
Alignment explanation
Indices: 100048647--100048744 Score: 92
Period size: 29 Copynumber: 3.4 Consensus size: 29
100048637 ACCGATCCCA
* *
100048647 CACACATAGTGCTCGGTTAAAGGAATTCG
1 CACACACAGTGCTCGGTTAAAAGAATTCG
** **
100048676 CACACACAGTGCCTCAATT-ACCG-ATCTCG
1 CACACACAGTG-CTCGGTTAAAAGAAT-TCG
* *
100048705 CACACATAGTGCTCGGTTAAAAGAATTTG
1 CACACACAGTGCTCGGTTAAAAGAATTCG
100048734 CACACACAGTG
1 CACACACAGTG
100048745 ACTCTAATCA
Statistics
Matches: 53, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
28 7 0.13
29 39 0.74
30 7 0.13
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (29 bp):
CACACACAGTGCTCGGTTAAAAGAATTCG
Found at i:100048697 original size:58 final size:57
Alignment explanation
Indices: 100048590--100048744 Score: 220
Period size: 58 Copynumber: 2.7 Consensus size: 57
100048580 ACCGATTTGG
* * ** *
100048590 CACACATAGTGCTCGGTTGAATAGCTCGCACACACAATGCCTCAATTACCGATCCCA
1 CACACATAGTGCTCGGTTAAAGAATTCGCACACACAGTGCCTCAATTACCGATCCCA
* *
100048647 CACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATTACCGATCTCG
1 CACACATAGTGCTCGGTTAAA-GAATTCGCACACACAGTGCCTCAATTACCGATCCCA
*
100048705 CACACATAGTGCTCGGTTAAAAGAATTTGCACACACAGTG
1 CACACATAGTGCTCGGTT-AAAGAATTCGCACACACAGTG
100048745 ACTCTAATCA
Statistics
Matches: 88, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
57 20 0.23
58 65 0.74
59 3 0.03
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (57 bp):
CACACATAGTGCTCGGTTAAAGAATTCGCACACACAGTGCCTCAATTACCGATCCCA
Found at i:100048964 original size:43 final size:43
Alignment explanation
Indices: 100048916--100049032 Score: 198
Period size: 43 Copynumber: 2.7 Consensus size: 43
100048906 CGGCATTATG
* *
100048916 CTAGGCACGAAGACCCGAATACACATCACTGGCACGAAGCCTA
1 CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTA
*
100048959 CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTG
1 CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTA
*
100049002 CTAGGCACAAAGGCCCGAATACACATCACCG
1 CTAGGCACGAAGGCCCGAATACACATCACCG
100049033 AGTTTCATGC
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 70 1.00
ACGTcount: A:0.33, C:0.34, G:0.22, T:0.10
Consensus pattern (43 bp):
CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTA
Found at i:100054163 original size:43 final size:43
Alignment explanation
Indices: 100054102--100054279 Score: 176
Period size: 43 Copynumber: 4.0 Consensus size: 43
100054092 TGATATATGT
* * * *
100054102 AGCATTCGAGCTCGTTGAGCGGTCTGAGTTCATTATAGATGCA
1 AGCATCCGAGCTCATTGAGAGGTCTGAGTTCATTATGGATGCA
* * *
100054145 AGCATCCGAGCTCATTGAGAGGTCCGAGTTTATTATGGATGCG
1 AGCATCCGAGCTCATTGAGAGGTCTGAGTTCATTATGGATGCA
* * *
100054188 AGCATCCGAGCTCATTAAGTGGTCTGAGTTCATAATGGATGCGA
1 AGCATCCGAGCTCATTGAGAGGTCTGAGTTCATTATGGATGC-A
* *
100054232 TTCATGTAACATCCGAGCTCGTTGAGAGGTCGGAGTTCATTATGGATG
1 ---A-G---CATCCGAGCTCATTGAGAGGTCTGAGTTCATTATGGATG
100054280 TATACATGTT
Statistics
Matches: 109, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
43 73 0.67
47 1 0.01
48 1 0.01
51 34 0.31
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (43 bp):
AGCATCCGAGCTCATTGAGAGGTCTGAGTTCATTATGGATGCA
Found at i:100059338 original size:47 final size:47
Alignment explanation
Indices: 100059273--100059393 Score: 144
Period size: 47 Copynumber: 2.6 Consensus size: 47
100059263 GTAAGCCAAT
*
100059273 GTAAGA-CATGTCTAGAACAT-GCATC-AGTTATGAGATGAT-AG-TCAGA
1 GTAAGACCATGTCTGGAACATGGCATCGA-TT-TGAGAT-ATGAGCT-AGA
*
100059319 GTAAGACCATGTCTGGAACATGGCATCGATTTGAGATATGAGCTAGT
1 GTAAGACCATGTCTGGAACATGGCATCGATTTGAGATATGAGCTAGA
*
100059366 GTAAGACCATGTCTGGGACATGGCATCG
1 GTAAGACCATGTCTGGAACATGGCATCG
100059394 GCACCTTATC
Statistics
Matches: 67, Mismatches: 3, Indels: 9
0.85 0.04 0.11
Matches are distributed among these distances:
46 8 0.12
47 50 0.75
48 8 0.12
49 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (47 bp):
GTAAGACCATGTCTGGAACATGGCATCGATTTGAGATATGAGCTAGA
Found at i:100061324 original size:40 final size:40
Alignment explanation
Indices: 100061279--100061445 Score: 149
Period size: 40 Copynumber: 4.2 Consensus size: 40
100061269 CGGAATGTAA
*
100061279 CCGGATTTAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * * *
100061319 CCGGATAGAGTAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
100061359 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * ** *
100061399 CCGGATATAATTTCCAGCATAGTTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
100061438 CCGGATAT
1 CCGGATAT
100061446 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
39 14 0.14
40 89 0.86
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:100069326 original size:40 final size:40
Alignment explanation
Indices: 100069281--100069446 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
100069271 TCGGAATTAA
*
100069281 CCGGATTTAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
100069321 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
100069361 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
100069401 CCGGATATAATTTCCAGCA-TATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
100069439 CCGGATAT
1 CCGGATAT
100069447 CATTCAATTT
Statistics
Matches: 103, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
38 13 0.13
39 12 0.12
40 78 0.76
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:100072408 original size:40 final size:40
Alignment explanation
Indices: 100072353--100072562 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
100072343 AACATTGGAA
100072353 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
100072393 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
100072433 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
100072473 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
100072512 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
100072553 CTATATCCGG
1 ATATATCCGG
100072563 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:100080542 original size:40 final size:40
Alignment explanation
Indices: 100080487--100080696 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
100080477 AACATTGGAA
100080487 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
100080527 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
100080567 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
100080607 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
100080646 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
100080687 CTATATCCGG
1 ATATATCCGG
100080697 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:100082492 original size:48 final size:48
Alignment explanation
Indices: 100082421--100082604 Score: 235
Period size: 48 Copynumber: 3.8 Consensus size: 48
100082411 TAAATTTCTA
** * *
100082421 ATGCCATGTTTCAGACATGGTCTTACACTAGTTCACATGTCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGAGGCCG
* * *
100082469 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGAGGCCG
* * ** *
100082517 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAGGTGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGAGGCCG
*
100082565 ATGCCATGTCCTAGACATGGTCTTACACTAG-TGCACATAT
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCT-CACATAT
100082605 TACCCAATTG
Statistics
Matches: 116, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
47 1 0.01
48 115 0.99
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGAGGCCG
Found at i:100082585 original size:96 final size:96
Alignment explanation
Indices: 100082421--100082604 Score: 260
Period size: 96 Copynumber: 1.9 Consensus size: 96
100082411 TAAATTTCTA
** * **
100082421 ATGCCATGTTTCAGACATGGTCTTACACTAGTTCACATGTCGAGGCCGATGCCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAACGAGGCCGATGCCATGTCCCAGACA
100082486 TGGTCTTACACTAGCACACATATCAACGCCG
66 TGGTCTTACACTAGCACACATATCAACGCCG
* * * * *
100082517 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAGGTGGCCGATGCCATGTCCTAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAACGAGGCCGATGCCATGTCCCAGACA
**
100082582 TGGTCTTACACTAGTGCACATAT
66 TGGTCTTACACTAGCACACATAT
100082605 TACCCAATTG
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
96 76 1.00
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (96 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAACGAGGCCGATGCCATGTCCCAGACA
TGGTCTTACACTAGCACACATATCAACGCCG
Found at i:100086633 original size:20 final size:20
Alignment explanation
Indices: 100086608--100086649 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
100086598 TAATTAAAAG
100086608 ATGATAAAAGATATCATCTT
1 ATGATAAAAGATATCATCTT
100086628 ATGATAAAAGATATCATCTT
1 ATGATAAAAGATATCATCTT
100086648 AT
1 AT
100086650 TTTTTATGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.36
Consensus pattern (20 bp):
ATGATAAAAGATATCATCTT
Found at i:100087435 original size:15 final size:15
Alignment explanation
Indices: 100087415--100087446 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
100087405 GAAAAAGGGT
100087415 TAAATTTCATTCGAA
1 TAAATTTCATTCGAA
100087430 TAAATTTCATTCGAA
1 TAAATTTCATTCGAA
100087445 TA
1 TA
100087447 TTGAATTCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (15 bp):
TAAATTTCATTCGAA
Found at i:100090769 original size:43 final size:42
Alignment explanation
Indices: 100090699--100090840 Score: 128
Period size: 43 Copynumber: 3.3 Consensus size: 42
100090689 TAAGACAGTA
*
100090699 TCTGGGACATCGGGC-TCGAT-TGAGATTTACGTATAAGACCATG
1 TCTGGGACATC-GGCATCGATAT-TGATTT-CGTATAAGACCATG
*
100090742 TCTGGGACATCGGCATC-ATATCTGATTTCGTATAAGACCCTG
1 TCTGGGACATCGGCATCGATAT-TGATTTCGTATAAGACCATG
* ** * * * *
100090784 TATGGGACAGAGGCATCGATATTGAATTGCATGTAAGACCACG
1 TCTGGGACATCGGCATCGATATTG-ATTTCGTATAAGACCATG
*
100090827 TCTGGGACGTCGGC
1 TCTGGGACATCGGC
100090841 GTTGTACTTG
Statistics
Matches: 80, Mismatches: 15, Indels: 8
0.78 0.15 0.08
Matches are distributed among these distances:
42 34 0.43
43 46 0.57
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (42 bp):
TCTGGGACATCGGCATCGATATTGATTTCGTATAAGACCATG
Found at i:100090799 original size:42 final size:44
Alignment explanation
Indices: 100090722--100090805 Score: 118
Period size: 42 Copynumber: 2.0 Consensus size: 44
100090712 GCTCGATTGA
* **
100090722 GATTTACGTATAAGACCATGTCTGGGACATCGGCATC-ATATCT
1 GATTTACGTATAAGACCATGTATGGGACAGAGGCATCGATATCT
*
100090765 GATTT-CGTATAAGACCCTGTATGGGACAGAGGCATCGATAT
1 GATTTACGTATAAGACCATGTATGGGACAGAGGCATCGATAT
100090806 TGAATTGCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
42 27 0.75
43 9 0.25
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (44 bp):
GATTTACGTATAAGACCATGTATGGGACAGAGGCATCGATATCT
Found at i:100093973 original size:46 final size:46
Alignment explanation
Indices: 100093906--100094077 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 46
100093896 AACCCGCCCC
* *
100093906 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAATGAGTTCGGGCATTTGCATCCA
* * *
100093952 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAATGAGTTCGG--G-C-ATTTGCATCCA
* * * * *
100094000 TCA-CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGGATCCA
1 TAAGTGAACTCGGACTCAACTCAATGAGTTCGGGCATTTGCATCCA
*
100094045 TAGGTGAACTCGGACTCAACTCAATGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAATGAGTTCGG
100094078 ATGCTCAACC
Statistics
Matches: 103, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
43 4 0.04
44 2 0.02
45 1 0.01
46 59 0.57
47 27 0.26
48 3 0.03
49 2 0.02
50 5 0.05
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAATGAGTTCGGGCATTTGCATCCA
Found at i:100094018 original size:93 final size:93
Alignment explanation
Indices: 100093911--100094081 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
100093901 GCCCCTAAGT
* * *
100093911 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAATGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
100093976 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
100094004 GAACTCGGACTCAACTCAATGAGTTCGGACATTCGGATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAATGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
100094069 TGAGTTCGGATGC
66 CGAGTTCGGATGC
100094082 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAATGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:100094538 original size:30 final size:30
Alignment explanation
Indices: 100094504--100094563 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
100094494 ATTTAATACG
100094504 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
100094534 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
100094564 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:100098977 original size:29 final size:29
Alignment explanation
Indices: 100098943--100099002 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
100098933 TTGAATTGAT
100098943 ATAGCATAAATTGCTTGTTTGTGAAAATG
1 ATAGCATAAATTGCTTGTTTGTGAAAATG
*
100098972 ATAGCATAAATTGCTTGTTTGTGGAAATG
1 ATAGCATAAATTGCTTGTTTGTGAAAATG
100099001 AT
1 AT
100099003 TATGTATGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.38
Consensus pattern (29 bp):
ATAGCATAAATTGCTTGTTTGTGAAAATG
Found at i:100104232 original size:40 final size:41
Alignment explanation
Indices: 100104138--100104358 Score: 246
Period size: 40 Copynumber: 5.6 Consensus size: 41
100104128 TATTCGAATG
*
100104138 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTA-GTGACT
* * * *
100104179 ATAACCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAG-TGACT
*
100104219 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* *
100104259 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* * *
100104299 ATATCCGGGCTAAGA-CCCGAAGGC-CTTGTGCAAGT-AGTT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGA-CT
100104338 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGATCCCGAAG
100104359 ATTACTTGAG
Statistics
Matches: 154, Mismatches: 18, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
37 1 0.01
38 14 0.09
39 15 0.10
40 94 0.61
41 29 0.19
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
Found at i:100111625 original size:36 final size:36
Alignment explanation
Indices: 100111566--100111663 Score: 101
Period size: 37 Copynumber: 2.7 Consensus size: 36
100111556 CGTTTACTTG
* * * *
100111566 ATGCCATAGTCCAACTATTGTCTTACTCATATC-TCA-
1 ATGCCATAGCCCAGCTATGGTCTTA--CATATCGCCAC
*
100111602 ATGCCATAGCCCAGCTATGGTCTTACATGTCGCCAC
1 ATGCCATAGCCCAGCTATGGTCTTACATATCGCCAC
*
100111638 GATGCCATAGCCTAGCTATGGTCTTA
1 -ATGCCATAGCCCAGCTATGGTCTTA
100111664 AATGATGTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
34 5 0.09
35 2 0.04
36 22 0.42
37 24 0.45
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (36 bp):
ATGCCATAGCCCAGCTATGGTCTTACATATCGCCAC
Found at i:100111971 original size:52 final size:52
Alignment explanation
Indices: 100111863--100112048 Score: 161
Period size: 52 Copynumber: 3.7 Consensus size: 52
100111853 TCATATCAAC
* *
100111863 GCCATATCCCAGATATGGTCTTACAT--GAT-A-AGATATATC-GATGCCAAT
1 GCCATATCCCAGACATGGTCTTACATAGGATCACACATATATCAG-TGCCAAT
* * * * *
100111911 TCCATGTCCCAGACATGGTCTTACATAGGATCACATAAATATCAGTGCTAAT
1 GCCATATCCCAGACATGGTCTTACATAGGATCACACATATATCAGTGCCAAT
* * * * * * * *
100111963 GCCATGTCCTAAACATCGTCTTACATGGGACCACACATGT-TGA-TGCCAAT
1 GCCATATCCCAGACATGGTCTTACATAGGATCACACATATATCAGTGCCAAT
* *
100112013 GCCATATCCCAGATATAGTCTTACATAGGATCACAC
1 GCCATATCCCAGACATGGTCTTACATAGGATCACAC
100112049 GTACTACCAT
Statistics
Matches: 109, Mismatches: 24, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
48 23 0.21
50 38 0.35
51 3 0.03
52 44 0.40
53 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (52 bp):
GCCATATCCCAGACATGGTCTTACATAGGATCACACATATATCAGTGCCAAT
Found at i:100119145 original size:56 final size:56
Alignment explanation
Indices: 100119059--100119173 Score: 203
Period size: 56 Copynumber: 2.1 Consensus size: 56
100119049 TATCTTTTAC
* *
100119059 CTACCCCTAGCCTAGCCACGTTAAAACCTATTTAAAAGACCTATTGATTCAAGTTT
1 CTACCCCTAGCCTAGCCACATGAAAACCTATTTAAAAGACCTATTGATTCAAGTTT
*
100119115 CTACCCCTAGCCTAGCCACATGACAACCTATTTAAAAGACCTATTGATTCAAGTTT
1 CTACCCCTAGCCTAGCCACATGAAAACCTATTTAAAAGACCTATTGATTCAAGTTT
100119171 CTA
1 CTA
100119174 TGTTACCAAC
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.32, C:0.28, G:0.10, T:0.30
Consensus pattern (56 bp):
CTACCCCTAGCCTAGCCACATGAAAACCTATTTAAAAGACCTATTGATTCAAGTTT
Found at i:100119690 original size:22 final size:22
Alignment explanation
Indices: 100119659--100119702 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
100119649 AATTATTAAC
*
100119659 ATAATGAATTTTAAATAATTTT
1 ATAATAAATTTTAAATAATTTT
* *
100119681 ATAATAAATTTTTATTAATTTT
1 ATAATAAATTTTAAATAATTTT
100119703 TATCATTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
ATAATAAATTTTAAATAATTTT
Found at i:100127723 original size:49 final size:49
Alignment explanation
Indices: 100127651--100127872 Score: 199
Period size: 49 Copynumber: 4.6 Consensus size: 49
100127641 ATGTGTGTGT
* *
100127651 CAGTGTAAGACCTGTCTAGGACATGGCATCAACATAAATAAGTGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACATAAATAAGTGAGAGC
* * *
100127700 CAGTGTAAGACCTGTCTGGGACATGGCACCGGCCTCAAGAT-A-TGCA-AGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACAT-AA-ATAAGTG-AGAGC
* * * * * * * *
100127749 TAGCGTAAGACCTGTTTGGGACATGGCATCGGC-T---TGAG-GTGTGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACATAAATAAGTGAGAGC
* * * *
100127793 TAGTGTAAGACCTATCTGGGACATGGCATCGACACAGATAAGTGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACATAAATAAGTGAGAGC
*
100127842 CAGTGTAAGACTTGTCTGGGACATGGCATCG
1 CAGTGTAAGACCTGTCTGGGACATGGCATCG
100127873 GCCTCGATAT
Statistics
Matches: 138, Mismatches: 24, Indels: 22
0.75 0.13 0.12
Matches are distributed among these distances:
43 1 0.01
44 32 0.23
48 4 0.03
49 95 0.69
50 4 0.03
51 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACATAAATAAGTGAGAGC
Found at i:100127850 original size:93 final size:93
Alignment explanation
Indices: 100127701--100127874 Score: 228
Period size: 93 Copynumber: 1.9 Consensus size: 93
100127691 AGTGAGAGCC
* * * * *
100127701 AGTGTAAGACCTGTCTGGGACATGGCACCGGCCTCAAGATATGCAAGCTAGCGTAAGACCTGTTT
1 AGTGTAAGACCTATCTGGGACATGGCACCGGACACAAGATATGCAAGCCAGCGTAAGACCTGTCT
100127766 GGGACATGGCATCGGCTTGAGGTGTGTT
66 GGGACATGGCATCGGCTTGAGGTGTGTT
* * *
100127794 AGTGTAAGACCTATCTGGGACATGGCATC-GACAC-AGATAAGTG-AGAGCCAGTGTAAGACTTG
1 AGTGTAAGACCTATCTGGGACATGGCACCGGACACAAGAT-A-TGCA-AGCCAGCGTAAGACCTG
100127856 TCTGGGACATGGCATCGGC
63 TCTGGGACATGGCATCGGC
100127875 CTCGATATAC
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
91 4 0.06
92 5 0.07
93 61 0.87
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.23
Consensus pattern (93 bp):
AGTGTAAGACCTATCTGGGACATGGCACCGGACACAAGATATGCAAGCCAGCGTAAGACCTGTCT
GGGACATGGCATCGGCTTGAGGTGTGTT
Found at i:100127895 original size:49 final size:48
Alignment explanation
Indices: 100127649--100127917 Score: 187
Period size: 49 Copynumber: 5.6 Consensus size: 48
100127639 TGATGTGTGT
* ** * **
100127649 GTCAGTGTAAGACCTGTCTAGGACATGGCATCAACATAAATA-AGTGAGA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATAGT-A-A
* * *
100127698 GCCAGTGTAAGACCTGTCTGGGACATGGCACCGGCCTCAAGATAT-GCAA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTC--GATATAGTAA
* * * **
100127747 G-CTAGCGTAAGACCTGTTTGGGACATGGCATCGG-CTTGAGGT-GT--
1 GTC-AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATAGTAA
* * * *
100127791 GTTAGTGTAAGACCTATCTGGGACATGGCATCGACAC-AGATA-AGTGAGA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGGC-CTCGATATAGT-A-A
* * *
100127840 GCCAGTGTAAGACTTGTCTGGGACATGGCATCGGCCTCGATATACATAA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATA-GTAA
* *
100127889 GTCAGTGTAAGACATGTCTAGGACATGGC
1 GTCAGTGTAAGACCTGTCTGGGACATGGC
100127918 GTCGACTTAG
Statistics
Matches: 171, Mismatches: 34, Indels: 30
0.73 0.14 0.13
Matches are distributed among these distances:
44 28 0.16
45 4 0.02
46 5 0.03
48 4 0.02
49 122 0.71
50 3 0.02
51 5 0.03
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (48 bp):
GTCAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATAGTAA
Found at i:100127901 original size:142 final size:141
Alignment explanation
Indices: 100127645--100127917 Score: 379
Period size: 142 Copynumber: 1.9 Consensus size: 141
100127635 TGGGTGATGT
* *
100127645 GTGTGTCAGTGTAAGACCTGTCTAGGACATGGCATCAACATAAATAAGTGAGAGCCAGTGTAAGA
1 GTGTGTCAGTGTAAGACCTATCTAGGACATGGCATCAACACAAATAAGTGAGAGCCAGTGTAAGA
* * * *
100127710 CCTGTCTGGGACATGGCACCGGCCTCAAGATATGCAAGCTAGCGTAAGACCTGTTTGGGACATGG
66 CCTGTCTGGGACATGGCACCGGCCTC-AGATATACAAGCTAGCGTAAGACATGTCTAGGACATGG
100127775 CATCGGCTTGAG
130 CATCGGCTTGAG
* * * *
100127787 GTGTGTTAGTGTAAGACCTATCTGGGACATGGCATCGACACAGATAAGTGAGAGCCAGTGTAAGA
1 GTGTGTCAGTGTAAGACCTATCTAGGACATGGCATCAACACAAATAAGTGAGAGCCAGTGTAAGA
* * *
100127852 CTTGTCTGGGACATGGCATCGGCCTC-GATATACATAAG-TCAGTGTAAGACATGTCTAGGACAT
66 CCTGTCTGGGACATGGCACCGGCCTCAGATATAC--AAGCT-AGCGTAAGACATGTCTAGGACAT
100127915 GGC
128 GGC
100127918 GTCGACTTAG
Statistics
Matches: 115, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
140 6 0.05
141 1 0.01
142 108 0.94
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (141 bp):
GTGTGTCAGTGTAAGACCTATCTAGGACATGGCATCAACACAAATAAGTGAGAGCCAGTGTAAGA
CCTGTCTGGGACATGGCACCGGCCTCAGATATACAAGCTAGCGTAAGACATGTCTAGGACATGGC
ATCGGCTTGAG
Found at i:100140550 original size:53 final size:53
Alignment explanation
Indices: 100140438--100140578 Score: 138
Period size: 53 Copynumber: 2.6 Consensus size: 53
100140428 GGAAATCATG
* * * * * * * **
100140438 TAAGACCATGTCAAGACATGGCATTGATAAACTATGATAAGGCAAAGATCCCATG
1 TAAGACCATGCCAAGACATAGCAATGGT-AAGT-TCATAAGGCAAAGATACCACA
* * *
100140493 TAAGACCATGCCAAGGCATAGCAATGGTGAGTTCATAAGGCAAGGATACCACA
1 TAAGACCATGCCAAGACATAGCAATGGTAAGTTCATAAGGCAAAGATACCACA
* *
100140546 TAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 TAAGACCATGCCAAGACATAGCAATGGTAAGTT
100140579 TAAAAAGGAA
Statistics
Matches: 70, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
53 45 0.64
54 2 0.03
55 23 0.33
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.21
Consensus pattern (53 bp):
TAAGACCATGCCAAGACATAGCAATGGTAAGTTCATAAGGCAAAGATACCACA
Found at i:100146761 original size:56 final size:56
Alignment explanation
Indices: 100146600--100146735 Score: 247
Period size: 56 Copynumber: 2.4 Consensus size: 56
100146590 ACCATGGCAT
*
100146600 CGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
1 CGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACTC
100146656 C-AGTATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACTC
1 CGA-TATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACTC
100146712 CGATATATGTGTGCGAGTAAGACC
1 CGATATATGTGTGCGAGTAAGACC
100146736 CTGTCTGGGA
Statistics
Matches: 77, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
55 1 0.01
56 75 0.97
57 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (56 bp):
CGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACTC
Found at i:100149094 original size:63 final size:63
Alignment explanation
Indices: 100148848--100149097 Score: 211
Period size: 63 Copynumber: 3.8 Consensus size: 63
100148838 TACAGATAGT
** * * * *
100148848 ATGTAGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGTGTACAAGAGAGCTACAAGACATT
1 ATGTAGCTAGGTCACATGGGTGGTACTGAGTGTACACCATGTG-ACAAGAGAGCTAC--GAGA-T
*
100148913 ATG
62 A-A
* * * *
100148916 ATGTAGCTAGGTCGCATGGGTGATACT-ATGTGTACACCATGTGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCACATGGGTGGTACTGA-GTGTACACCATGTGACAAGAGAGCTACGAGATAA
* ** *
100148979 ATGTAGCTAGGTCGCATACGTGGTTCCAGTGAAG-G-ACACCATGTAGACAAGAGAGCTACGAGA
1 ATGTAGCTAGGTCACATGGGTGG-T--ACTG-AGTGTACACCATGT-GACAAGAGAGCTACGAGA
100149042 TAA
61 TAA
* *
100149045 AT-TGGCTAGGTCACATGGGTGGTACTGAGTGTTCACCATGTGTACAAGAGAGC
1 ATGTAGCTAGGTCACATGGGTGGTACTGAGTGTACACCATGTG-ACAAGAGAGC
100149098 CGAACTATAT
Statistics
Matches: 150, Mismatches: 22, Indels: 25
0.76 0.11 0.13
Matches are distributed among these distances:
61 2 0.01
62 5 0.03
63 38 0.25
64 4 0.03
65 27 0.18
66 24 0.16
67 15 0.10
68 35 0.23
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (63 bp):
ATGTAGCTAGGTCACATGGGTGGTACTGAGTGTACACCATGTGACAAGAGAGCTACGAGATAA
Found at i:100156905 original size:19 final size:19
Alignment explanation
Indices: 100156881--100156921 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
100156871 AATGTAACAT
100156881 CCGTAACCCATATCTGTCA
1 CCGTAACCCATATCTGTCA
**
100156900 CCGTAATTCATATCTGTCA
1 CCGTAACCCATATCTGTCA
100156919 CCG
1 CCG
100156922 AAACAAGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.24, C:0.34, G:0.12, T:0.29
Consensus pattern (19 bp):
CCGTAACCCATATCTGTCA
Found at i:100157752 original size:2 final size:2
Alignment explanation
Indices: 100157747--100157771 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
100157737 ATATAACCTC
100157747 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 A
100157772 CACTAAACAT
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:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:100159518 original size:27 final size:27
Alignment explanation
Indices: 100159481--100159572 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
100159471 ATTACCAAAG
* * *
100159481 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTTGATTTACAAAATTACTGTTT
*
100159508 TACGCTTGATTTACAAAATTACTGTTT
1 TACCCTTGATTTACAAAATTACTGTTT
**
100159535 TACCCTTGATTTACAAAATTACCATTT
1 TACCCTTGATTTACAAAATTACTGTTT
100159562 TACCCTTGATT
1 TACCCTTGATT
100159573 GTGAAATTAC
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.28, C:0.20, G:0.09, T:0.43
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACTGTTT
Found at i:100159707 original size:27 final size:27
Alignment explanation
Indices: 100159535--100159741 Score: 127
Period size: 27 Copynumber: 7.7 Consensus size: 27
100159525 ATTACTGTTT
* ** ***
100159535 TACCCTTGATTTACAAAATTACCATTT
1 TACCCCTGATTTGTAAAATTACCAAAA
* * *
100159562 TACCCTTGA-TTGTGAAATTACTAAAA
1 TACCCCTGATTTGTAAAATTACCAAAA
** *
100159588 TACCCCT-ATAGGGTAGAATTACCAAAA
1 TACCCCTGAT-TTGTAAAATTACCAAAA
* *
100159615 TACCCCT-AGTTTGTAAAATTAACGAAA
1 TACCCCTGA-TTTGTAAAATTACCAAAA
* * *
100159642 TACCACTGGTTTGTGAAATTACCAAAA
1 TACCCCTGATTTGTAAAATTACCAAAA
* *
100159669 TA-CCCTCAATTTTTAAAATTACCAAAA
1 TACCCCT-GATTTGTAAAATTACCAAAA
**
100159696 TACCCCTGATTTACAAAATTA-CAGAAA
1 TACCCCTGATTTGTAAAATTACCA-AAA
* *
100159723 TACCCTTGACTTTCTAAAA
1 TACCCCTGA-TTTGTAAAA
100159742 ATTATAGAAA
Statistics
Matches: 138, Mismatches: 34, Indels: 15
0.74 0.18 0.08
Matches are distributed among these distances:
25 1 0.01
26 21 0.15
27 104 0.75
28 12 0.09
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
TACCCCTGATTTGTAAAATTACCAAAA
Found at i:100159715 original size:54 final size:55
Alignment explanation
Indices: 100159604--100159784 Score: 147
Period size: 54 Copynumber: 3.3 Consensus size: 55
100159594 TATAGGGTAG
* * * ***
100159604 AATTACCAAAATACCC-CTAGTTTGTAAAATTAACGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCTCTAATTTGTAAAATTAACAAAATACCACTGATTTACAA
* * *
100159658 AATTACCAAAATACCCTC-AATTTTTAAAATTACCAAAATACCCCTGATTTACAA
1 AATTACCAAAATACCCTCTAATTTGTAAAATTAACAAAATACCACTGATTTACAA
* * * * *
100159712 AATTA-CAGAAATACCCT-TGACTTTCTAAAAATTATA-GAAATACCATTGGTTTACAA
1 AATTACCA-AAATACCCTCT-AATTTGT-AAAATTA-ACAAAATACCACTGATTTACAA
**
100159768 AATTACTGAAATACCCT
1 AATTACCAAAATACCCT
100159785 TGGTTTGTAG
Statistics
Matches: 102, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
53 2 0.02
54 57 0.56
55 6 0.06
56 37 0.36
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (55 bp):
AATTACCAAAATACCCTCTAATTTGTAAAATTAACAAAATACCACTGATTTACAA
Found at i:100159778 original size:27 final size:27
Alignment explanation
Indices: 100159683--100159790 Score: 103
Period size: 27 Copynumber: 3.9 Consensus size: 27
100159673 CTCAATTTTT
** * *
100159683 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACTGAAATACCCTTGGTTTAC
* *
100159710 AAAATTACAGAAATACCCTTGACTTT-C
1 AAAATTACTGAAATACCCTTG-GTTTAC
*
100159737 TAAAAATTA-TAGAAATACCATTGGTTTAC
1 --AAAATTACT-GAAATACCCTTGGTTTAC
100159766 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTGAAATACCCTTGGTTT
100159791 GTAGATTTAC
Statistics
Matches: 67, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
27 41 0.61
28 7 0.10
29 19 0.28
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (27 bp):
AAAATTACTGAAATACCCTTGGTTTAC
Found at i:100159908 original size:27 final size:27
Alignment explanation
Indices: 100159831--100159908 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
100159821 AAATGACTAA
* * *
100159831 AATACCCCT-AATAGGTAAAAAGACCTT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
100159858 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
100159885 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
100159909 GAATATGCCC
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
26 1 0.02
27 38 0.93
28 2 0.05
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:100160789 original size:24 final size:25
Alignment explanation
Indices: 100160718--100160794 Score: 84
Period size: 25 Copynumber: 3.1 Consensus size: 25
100160708 AGGAAGTGCT
* * ***
100160718 AAAAGGGCTATCCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATTA
**
100160743 AAAAGGGCTTTGCCTTAGTTTATTA
1 AAAAGGGCTTTGCCCCAGTTTATTA
100160768 AAAAGGGCTTTGCCCCAG-TTATTA
1 AAAAGGGCTTTGCCCCAGTTTATTA
100160792 AAA
1 AAA
100160795 GAGGCTAGGC
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
24 9 0.21
25 34 0.79
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATTA
Found at i:100160800 original size:24 final size:24
Alignment explanation
Indices: 100160743--100160814 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 24
100160733 CAGTTTACCG
**
100160743 AAAAG-GGCTTTGCCTTAGTTTATT
1 AAAAGAGGCTTTGCCCCAG-TTATT
100160767 AAAA-AGGGCTTTGCCCCAGTTATT
1 AAAAGA-GGCTTTGCCCCAGTTATT
**
100160791 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAGAGGCTTTGCC-CCAGTTAT
100160815 ATGACAAAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
24 20 0.50
25 20 0.50
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (24 bp):
AAAAGAGGCTTTGCCCCAGTTATT
Found at i:100162646 original size:28 final size:28
Alignment explanation
Indices: 100162614--100162682 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
100162604 GCGTAGATCA
100162614 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
100162642 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
100162670 CGATA-TACCCCTA
1 CGAAATTACCCCTA
100162683 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:100172408 original size:50 final size:50
Alignment explanation
Indices: 100172333--100172432 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
100172323 TTAAAATTTC
100172333 CTTGTTTTTGTGCATCTGATACAAGACCCCCTTCACCTATGGGTTCTTTT
1 CTTGTTTTTGTGCATCTGATACAAGACCCCCTTCACCTATGGGTTCTTTT
100172383 CTTGTTTTTGTGCATCTGATACAAGACCCCCTTCACCTATGGGTTCTTTT
1 CTTGTTTTTGTGCATCTGATACAAGACCCCCTTCACCTATGGGTTCTTTT
100172433 TCTTCTTGAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.16, C:0.26, G:0.16, T:0.42
Consensus pattern (50 bp):
CTTGTTTTTGTGCATCTGATACAAGACCCCCTTCACCTATGGGTTCTTTT
Found at i:100173824 original size:46 final size:46
Alignment explanation
Indices: 100173774--100173949 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
100173764 TGGTTGAGCA
100173774 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
100173820 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
100173865 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
100173913 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
100173950 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:100173930 original size:93 final size:93
Alignment explanation
Indices: 100173771--100173941 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
100173761 GGATGGTTGA
* *
100173771 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
100173836 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
100173864 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
100173929 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
100173942 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:100176904 original size:15 final size:15
Alignment explanation
Indices: 100176865--100176942 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
100176855 GTATCTTGGG
*
100176865 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
100176880 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
100176895 TTTCTTTATTC-GG-
1 TTTCTTTATTCTGGA
*
100176908 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
100176923 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
100176937 TTTCTT
1 TTTCTT
100176943 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
12 2 0.04
13 7 0.13
14 12 0.23
15 30 0.57
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.13, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:100176931 original size:28 final size:28
Alignment explanation
Indices: 100176856--100176938 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
100176846 CATAGTATCG
* * * *
100176856 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GG-TTTCTC
100176886 TAT-TCTGGATTTCTTTATTCGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGTTTCTC
100176914 TATCTTGGATTTCTTTATTCGGTTT
1 TATCTTGGATTTCTTTATTCGGTTT
100176939 TCTTGTTATC
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
28 27 0.57
29 4 0.09
30 16 0.34
ACGTcount: A:0.11, C:0.17, G:0.16, T:0.57
Consensus pattern (28 bp):
TATCTTGGATTTCTTTATTCGGTTTCTC
Found at i:100179432 original size:46 final size:46
Alignment explanation
Indices: 100179264--100179436 Score: 219
Period size: 46 Copynumber: 3.8 Consensus size: 46
100179254 GATGTGGCAT
*
100179264 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * * * *
100179309 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTA-AC-TAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATGGATGCGAACGC
100179353 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
100179401 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
100179437 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 13
0.81 0.10 0.10
Matches are distributed among these distances:
43 2 0.02
44 2 0.02
45 32 0.30
46 67 0.62
47 2 0.02
48 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:100188989 original size:6 final size:6
Alignment explanation
Indices: 100188978--100189036 Score: 54
Period size: 6 Copynumber: 10.2 Consensus size: 6
100188968 GGGATCACTA
* *
100188978 ACTAAT ACTAAT -CTAAT ACTAAT A-GAAT A-GAAT ACTAAT -CTAAT
1 ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT
100189022 ACTCTAAT ACTAAT A
1 A--CTAAT ACTAAT A
100189037 GAATAGAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
5 19 0.41
6 21 0.46
8 6 0.13
ACGTcount: A:0.49, C:0.15, G:0.03, T:0.32
Consensus pattern (6 bp):
ACTAAT
Found at i:100189050 original size:14 final size:14
Alignment explanation
Indices: 100189033--100189060 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
100189023 CTCTAATACT
100189033 AATAGAATAGAAAA
1 AATAGAATAGAAAA
100189047 AATAGAATAGAAAA
1 AATAGAATAGAAAA
100189061 TACTAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
AATAGAATAGAAAA
Found at i:100189570 original size:5 final size:5
Alignment explanation
Indices: 100189562--100189586 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
100189552 GATGGAAGGG
100189562 AATAA AATAA AATAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AATAA
100189587 GAAATCAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:100189638 original size:11 final size:9
Alignment explanation
Indices: 100189607--100189641 Score: 52
Period size: 9 Copynumber: 3.7 Consensus size: 9
100189597 AAAGAAGGGG
100189607 AAAAATAAT
1 AAAAATAAT
100189616 AAAAATAAT
1 AAAAATAAT
100189625 AAAAAGTAAAT
1 AAAAA-T-AAT
100189636 AAAAAT
1 AAAAAT
100189642 GAAGTAGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 14 0.58
10 2 0.08
11 8 0.33
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (9 bp):
AAAAATAAT
Found at i:100192602 original size:16 final size:16
Alignment explanation
Indices: 100192578--100192616 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
100192568 ATAGGTCCTT
*
100192578 TGAATGACAGAATGAA
1 TGAAAGACAGAATGAA
100192594 TGAAAGACAGAATGAA
1 TGAAAGACAGAATGAA
100192610 TGAAAGA
1 TGAAAGA
100192617 GAATTCTTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.54, C:0.05, G:0.26, T:0.15
Consensus pattern (16 bp):
TGAAAGACAGAATGAA
Found at i:100202711 original size:13 final size:15
Alignment explanation
Indices: 100202685--100202724 Score: 66
Period size: 13 Copynumber: 2.8 Consensus size: 15
100202675 CCTTAATTTA
100202685 TTAATATTTATTAAT
1 TTAATATTTATTAAT
100202700 TTAAT-TTT-TTAAT
1 TTAATATTTATTAAT
100202713 TTAATATTTATT
1 TTAATATTTATT
100202725 TAATAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.43
14 6 0.26
15 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTAATATTTATTAAT
Found at i:100205511 original size:14 final size:14
Alignment explanation
Indices: 100205492--100205520 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
100205482 ACAGATGGAT
100205492 TCGTATAATTCTTA
1 TCGTATAATTCTTA
100205506 TCGTATAATTCTTA
1 TCGTATAATTCTTA
100205520 T
1 T
100205521 ATATATTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.52
Consensus pattern (14 bp):
TCGTATAATTCTTA
Found at i:100209753 original size:20 final size:21
Alignment explanation
Indices: 100209687--100209755 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
100209677 TCACTTCGTT
100209687 TCTTTTTGTCCAAGTTACTTC
1 TCTTTTTGTCCAAGTTACTTC
*
100209708 TCTTTTTGTCCAAGTTGCTTC
1 TCTTTTTGTCCAAGTTACTTC
* * *
100209729 TCTTTTTGTCTAACTCACTTC
1 TCTTTTTGTCCAAGTTACTTC
100209750 -CTTTTT
1 TCTTTTT
100209756 TCTTTGTGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.12, C:0.25, G:0.09, T:0.55
Consensus pattern (21 bp):
TCTTTTTGTCCAAGTTACTTC
Found at i:100212154 original size:18 final size:18
Alignment explanation
Indices: 100212121--100212214 Score: 131
Period size: 18 Copynumber: 5.4 Consensus size: 18
100212111 AAGGTTTTCT
100212121 TATTGATGATA-T--CGA
1 TATTGATGATAGTGACGA
100212136 TATTGATGATAGTGACGA
1 TATTGATGATAGTGACGA
*
100212154 TATTGATGCTAGTGACGA
1 TATTGATGATAGTGACGA
* *
100212172 TATTGATGCTAGTGACGC
1 TATTGATGATAGTGACGA
*
100212190 TATTGATGATAGTGACGC
1 TATTGATGATAGTGACGA
100212208 TATTGAT
1 TATTGAT
100212215 CGTGACCTTG
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
15 11 0.15
16 1 0.01
18 61 0.84
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.36
Consensus pattern (18 bp):
TATTGATGATAGTGACGA
Found at i:100220480 original size:14 final size:14
Alignment explanation
Indices: 100220461--100220488 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
100220451 TATATTAGTA
100220461 TTTTCTATTCTATT
1 TTTTCTATTCTATT
100220475 TTTTCTATTCTATT
1 TTTTCTATTCTATT
100220489 AGTATTAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTCTATTCTATT
Found at i:100220496 original size:6 final size:6
Alignment explanation
Indices: 100220485--100220563 Score: 66
Period size: 5 Copynumber: 14.2 Consensus size: 6
100220475 TTTTCTATTC
* *
100220485 TATTAG TATTAGAG TATTAG -ATTAG TATT-C TATT-C TATTAG TATTAG
1 TATTAG TATT--AG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG
100220532 -ATTAG TATTAG --TTAG -ATTAG -ATTAG TATTAG T
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG T
100220564 TAGTGATCCC
Statistics
Matches: 64, Mismatches: 2, Indels: 14
0.80 0.03 0.17
Matches are distributed among these distances:
4 4 0.06
5 28 0.44
6 26 0.41
8 6 0.09
ACGTcount: A:0.33, C:0.03, G:0.16, T:0.48
Consensus pattern (6 bp):
TATTAG
Found at i:100220511 original size:11 final size:11
Alignment explanation
Indices: 100220486--100220567 Score: 50
Period size: 11 Copynumber: 7.5 Consensus size: 11
100220476 TTTCTATTCT
100220486 ATTAGTATTAG
1 ATTAGTATTAG
100220497 ---AGTATTAG
1 ATTAGTATTAG
**
100220505 ATTAGTATTCT
1 ATTAGTATTAG
*
100220516 ATT-CTATTAG
1 ATTAGTATTAG
100220526 TATTAG-ATTAG
1 -ATTAGTATTAG
100220537 TATTAGTTAGATTAG
1 -ATTAG-T--ATTAG
100220552 ATTAGTATTAG
1 ATTAGTATTAG
100220563 -TTAGT
1 ATTAGT
100220568 GATCCCGGCT
Statistics
Matches: 56, Mismatches: 6, Indels: 19
0.69 0.07 0.23
Matches are distributed among these distances:
8 8 0.14
10 9 0.16
11 28 0.50
13 1 0.02
14 5 0.09
15 5 0.09
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (11 bp):
ATTAGTATTAG
Found at i:100220552 original size:20 final size:21
Alignment explanation
Indices: 100220522--100220567 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
100220512 TTCTATTCTA
100220522 TTAGTATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
100220543 TTAG-ATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
100220563 TTAGT
1 TTAGT
100220568 GATCCCGGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.48
Consensus pattern (21 bp):
TTAGTATTAGATTAGTATTAG
Found at i:100228781 original size:32 final size:32
Alignment explanation
Indices: 100228740--100228801 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
100228730 CATCTATTTT
100228740 CATTGTTCAACTCTTTGACAACACGAAAAATC
1 CATTGTTCAACTCTTTGACAACACGAAAAATC
*
100228772 CATTGTTCAACTCTTTGACAACATGAAAAA
1 CATTGTTCAACTCTTTGACAACACGAAAAA
100228802 ACCAAAAGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.29
Consensus pattern (32 bp):
CATTGTTCAACTCTTTGACAACACGAAAAATC
Found at i:100232945 original size:22 final size:22
Alignment explanation
Indices: 100232919--100232962 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
100232909 TTATCTCTTT
100232919 TGATTGAAAAGGAGCAATAAAA
1 TGATTGAAAAGGAGCAATAAAA
100232941 TGATTGAAAAGGAGCAATAAAA
1 TGATTGAAAAGGAGCAATAAAA
100232963 AAATCGAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.55, C:0.05, G:0.23, T:0.18
Consensus pattern (22 bp):
TGATTGAAAAGGAGCAATAAAA
Found at i:100235218 original size:21 final size:21
Alignment explanation
Indices: 100235194--100235237 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
100235184 ACGACCTAAT
*
100235194 TAAATAGAAAGGATA-ATTAAA
1 TAAATA-AAAGGATACAATAAA
*
100235215 TAAATAAAATGATACAATAAA
1 TAAATAAAAGGATACAATAAA
100235236 TA
1 TA
100235238 CTAAAGATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.25
Consensus pattern (21 bp):
TAAATAAAAGGATACAATAAA
Found at i:100245160 original size:13 final size:13
Alignment explanation
Indices: 100245142--100245169 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
100245132 AATATAGGGG
100245142 AAAATGTACCATT
1 AAAATGTACCATT
100245155 AAAATGTACCATT
1 AAAATGTACCATT
100245168 AA
1 AA
100245170 CGAATTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (13 bp):
AAAATGTACCATT
Done.