Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 5 of 320
Found at i:1286653 original size:8 final size:9
Alignment explanation
Indices: 1286637--1286666 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
1286627 AACAATAACT
1286637 AAATAAAAA
1 AAATAAAAA
1286646 AAATAAAAA
1 AAATAAAAA
1286655 AAATAAAAA
1 AAATAAAAA
1286664 AAA
1 AAA
1286667 GCTGATCACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (9 bp):
AAATAAAAA
Found at i:1292110 original size:11 final size:11
Alignment explanation
Indices: 1292072--1292110 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
1292062 TAATAATAAT
1292072 AAAATAGTAGC
1 AAAATAGTAGC
* * *
1292083 AACATAATAGT
1 AAAATAGTAGC
1292094 AAAATAGTAGC
1 AAAATAGTAGC
1292105 AAAATA
1 AAAATA
1292111 TAGAGAAAAC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.59, C:0.08, G:0.13, T:0.21
Consensus pattern (11 bp):
AAAATAGTAGC
Found at i:1292110 original size:19 final size:22
Alignment explanation
Indices: 1292064--1292106 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1292054 TATCCAAATA
1292064 ATAATAATAAAATAGTAGCAAC
1 ATAATAATAAAATAGTAGCAAC
*
1292086 ATAATAGTAAAATAGTAGCAA
1 ATAATAATAAAATAGTAGCAA
1292107 AATATAGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.58, C:0.07, G:0.12, T:0.23
Consensus pattern (22 bp):
ATAATAATAAAATAGTAGCAAC
Found at i:1292119 original size:22 final size:22
Alignment explanation
Indices: 1292063--1292119 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
1292053 ATATCCAAAT
**
1292063 AATAATAATAAAATAGTAGCAA
1 AATAATAGGAAAATAGTAGCAA
* *
1292085 CATAATAGTAAAATAGTAGCAA
1 AATAATAGGAAAATAGTAGCAA
1292107 AAT-ATAGAGAAAA
1 AATAATAG-GAAAA
1292120 CAACAAGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 4 0.13
22 26 0.87
ACGTcount: A:0.61, C:0.05, G:0.12, T:0.21
Consensus pattern (22 bp):
AATAATAGGAAAATAGTAGCAA
Found at i:1292605 original size:16 final size:16
Alignment explanation
Indices: 1292584--1292635 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
1292574 TTTGGTTCGC
*
1292584 TGTATTGGATTAGAAG
1 TGTATTGGATTAGAGG
1292600 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
1292616 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
1292632 TGTA
1 TGTA
1292636 ATAGCAAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.27, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:1292959 original size:157 final size:157
Alignment explanation
Indices: 1292765--1293074 Score: 539
Period size: 157 Copynumber: 2.0 Consensus size: 157
1292755 CCCTTAGCAT
*
1292765 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAA
1 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* *
1292830 TAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
1292895 TTTAATAAAATTCTTAATAATTACCAG
131 TTTAATAAAATTCTTAATAATTACCAG
* * * *
1292922 AAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTGATAAGATTATTAATATGAA
1 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* *
1292987 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATACTTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
1293052 TTTAATAAAATTCTTAATAATTA
131 TTTAATAAAATTCTTAATAATTA
1293075 ATATTCTTAT
Statistics
Matches: 144, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
157 144 1.00
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (157 bp):
AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
TTTAATAAAATTCTTAATAATTACCAG
Found at i:1293071 original size:82 final size:81
Alignment explanation
Indices: 1292828--1293077 Score: 186
Period size: 76 Copynumber: 3.1 Consensus size: 81
1292818 TATTATTATC
* * *
1292828 AATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAATATAT
1 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTAT-ATTAAAATATAT
1292893 AATTTAATAAAATTCTT
65 AATTTAATAAAATTCTT
* * * * *
1292910 AATAATTACCAGA-AATTT-GT--T-TTGGT-AA-ATTATTATTGTT--AT-TGTTAT-TTAAAT
1 AATAA-TA--A-ATAATTTAATCATATT--TAAACATAATTATTATTAAATATATTATATTAAAA
* * * * *
1292964 TTTGATAAGATT-AT-TAA-TATG
60 TAT-ATAA-TTTAATAAAATTCTT
1292985 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATACTTAAAATATAT
1 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATA-TTAAAATATAT
1293050 AATTTAATAAAATTCTT
65 AATTTAATAAAATTCTT
*
1293067 AATAATTAATA
1 AATAATAAATA
1293078 TTCTTATATG
Statistics
Matches: 121, Mismatches: 24, Indels: 46
0.63 0.13 0.24
Matches are distributed among these distances:
71 1 0.01
72 6 0.05
73 1 0.01
74 3 0.02
75 10 0.08
76 21 0.17
77 6 0.05
78 8 0.07
79 8 0.07
80 6 0.05
81 21 0.17
82 20 0.17
83 3 0.02
84 1 0.01
85 5 0.04
86 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (81 bp):
AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATATTAAAATATATA
ATTTAATAAAATTCTT
Found at i:1293148 original size:157 final size:155
Alignment explanation
Indices: 1292811--1293132 Score: 349
Period size: 157 Copynumber: 2.0 Consensus size: 155
1292801 TTAAATTTTA
* * * *
1292811 ATAAGATTATTATTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATA
1 ATAAGATTATGAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATA
* * * * * ** *
1292876 TTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTACCAGAAATTTGTTTTGGTAAATT
66 TTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACACAAATATGATTTACTAAATC
* * * * *
1292941 ATTATTGTTATTGTTATTTAAATTTTG
131 ATAATTATTATTGATATATAAA--TAG
* *
1292968 ATAAGATTATTAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATA
1 ATAAGATTATGAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATA
* * **
1293033 TTATACTTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCA
66 TTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACA--CAAATATG-ATTTACT-A
1293098 AATCATAATATATTATATGATACTATAAA-AG
127 AATCATAAT-TATTAT-TGATA-TATAAATAG
1293129 ATAA
1 ATAA
1293133 TTTGAAATAA
Statistics
Matches: 137, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
157 102 0.74
159 4 0.03
160 4 0.03
161 13 0.09
162 5 0.04
163 4 0.03
164 5 0.04
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (155 bp):
ATAAGATTATGAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATA
TTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACACAAATATGATTTACTAAATC
ATAATTATTATTGATATATAAATAG
Found at i:1297507 original size:37 final size:37
Alignment explanation
Indices: 1297466--1297641 Score: 298
Period size: 37 Copynumber: 4.8 Consensus size: 37
1297456 TTTGAGTACT
1297466 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
1297503 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
1297540 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
1297577 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
1297614 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
1297642 TAGGTTCAGC
Statistics
Matches: 134, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:1297677 original size:83 final size:85
Alignment explanation
Indices: 1297569--1297772 Score: 265
Period size: 91 Copynumber: 2.4 Consensus size: 85
1297559 GATAAGTGGT
*
1297569 TACACTTATCTGATCAAGAGACAAAGTGATAAGT-G-G-C-TACACTTATCTGATCAAGTGATAA
1 TACACTTATCTGATCAAG-GACAAAGTGATAAGTGGAGCCTTACACTTATCTGATCAAGTGACAA
**
1297630 AGTGATAAGTGGTAGGTTCAGC
65 AGTGATAAGTGGTAGCCT-AGC
*
1297652 TACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCTAGTTACACTTATCTGATCAAGTG
1 TACACTTATCTGATCAAG-GACAAAGTGATAAGTGG-AGCC---TTACACTTATCTGATCAAGTG
*
1297717 GCAAAGTGATAAGTGGTAGCCTAGC
61 ACAAAGTGATAAGTGGTAGCCTAGC
1297742 TACACTTATCTGATCAAGGAC-AAGTGATAAG
1 TACACTTATCTGATCAAGGACAAAGTGATAAG
1297773 AGGTCATATG
Statistics
Matches: 106, Mismatches: 7, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
83 32 0.30
84 1 0.01
86 1 0.01
87 1 0.01
88 10 0.09
89 2 0.02
90 21 0.20
91 38 0.36
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (85 bp):
TACACTTATCTGATCAAGGACAAAGTGATAAGTGGAGCCTTACACTTATCTGATCAAGTGACAAA
GTGATAAGTGGTAGCCTAGC
Found at i:1297716 original size:45 final size:45
Alignment explanation
Indices: 1297604--1297772 Score: 261
Period size: 45 Copynumber: 3.8 Consensus size: 45
1297594 GTGATAAGTG
* **
1297604 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGGTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCT-A
*
1297650 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCTA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTA
* *
1297695 GTTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCTA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTA
1297740 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
1297773 AGGTCATATG
Statistics
Matches: 116, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
43 10 0.09
44 2 0.02
45 64 0.55
46 40 0.34
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.28
Consensus pattern (45 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTA
Found at i:1305236 original size:37 final size:37
Alignment explanation
Indices: 1305195--1305370 Score: 298
Period size: 37 Copynumber: 4.8 Consensus size: 37
1305185 TTTGAGTACT
1305195 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
1305232 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
1305269 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
1305306 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
1305343 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
1305371 TAGGTTCAGC
Statistics
Matches: 134, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:1305465 original size:45 final size:44
Alignment explanation
Indices: 1305333--1305499 Score: 248
Period size: 45 Copynumber: 3.8 Consensus size: 44
1305323 GTGATAAGTG
* **
1305333 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGGTTCA
1 GCTACACTTATCTGATCAAGTGA-CAAGTGATAAGTGGTAGCCT-A
*
1305379 GCTACACTTATCTGATC-AGTGGCAAGTGATAAGTGGTAGCCTA
1 GCTACACTTATCTGATCAAGTGACAAGTGATAAGTGGTAGCCTA
*
1305422 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCTA
1 GCTACACTTATCTGATCAAGTGAC-AAGTGATAAGTGGTAGCCTA
1305467 GCTACACTTATCTGATCAAG-GACAAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAGTGATAAG
1305500 AGGTCATATG
Statistics
Matches: 114, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
43 28 0.25
44 25 0.22
45 44 0.39
46 17 0.15
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.28
Consensus pattern (44 bp):
GCTACACTTATCTGATCAAGTGACAAGTGATAAGTGGTAGCCTA
Found at i:1305497 original size:88 final size:89
Alignment explanation
Indices: 1305333--1305499 Score: 266
Period size: 89 Copynumber: 1.9 Consensus size: 89
1305323 GTGATAAGTG
* **
1305333 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGGTTCAGCTACACTTATCTGATCAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAG
*
1305398 TGGCAAGTGATAAGTGGTAGCCTA
66 TGACAAGTGATAAGTGGTAGCCTA
*
1305422 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-AGCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATC-A
1305486 G-GACAAGTGATAAG
65 GTGACAAGTGATAAG
1305500 AGGTCATATG
Statistics
Matches: 72, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
88 30 0.42
89 42 0.58
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.28
Consensus pattern (89 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAG
TGACAAGTGATAAGTGGTAGCCTA
Found at i:1318118 original size:16 final size:16
Alignment explanation
Indices: 1318099--1318131 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1318089 TATAAATATT
1318099 ATGT-AAAAAAATTAAA
1 ATGTGAAAAAAA-TAAA
1318115 ATGTGAAAAAAATAAA
1 ATGTGAAAAAAATAAA
1318131 A
1 A
1318132 AAATTAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (16 bp):
ATGTGAAAAAAATAAA
Found at i:1318132 original size:17 final size:16
Alignment explanation
Indices: 1318099--1318132 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
1318089 TATAAATATT
*
1318099 ATGTAAAAAAATTAAA
1 ATGTAAAAAAATAAAA
1318115 ATGTGAAAAAAATAAAA
1 ATGT-AAAAAAATAAAA
1318132 A
1 A
1318133 AATTAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.21
Consensus pattern (16 bp):
ATGTAAAAAAATAAAA
Found at i:1320725 original size:16 final size:16
Alignment explanation
Indices: 1320704--1320752 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
1320694 AATATTTATT
1320704 TTTTATTAATATTAAA
1 TTTTATTAATATTAAA
* *
1320720 TTTTATTAAAACT--A
1 TTTTATTAATATTAAA
1320734 TTTT-TT-ATATTAAA
1 TTTTATTAATATTAAA
1320748 TTTTA
1 TTTTA
1320753 ATTTGATTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
12 3 0.12
13 2 0.08
14 10 0.38
16 11 0.42
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTTATTAATATTAAA
Found at i:1322605 original size:40 final size:40
Alignment explanation
Indices: 1322560--1322639 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
1322550 TGAGGATGTT
1322560 AAACCTTGTTGAGTTTGAATTTTAAGTAATTATTAAGGTA
1 AAACCTTGTTGAGTTTGAATTTTAAGTAATTATTAAGGTA
* *
1322600 AAACCTTGTTGATTTTGAATTTTAAGTAATTGTTAAGGTA
1 AAACCTTGTTGAGTTTGAATTTTAAGTAATTATTAAGGTA
1322640 GGGGAGACAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.34, C:0.05, G:0.17, T:0.44
Consensus pattern (40 bp):
AAACCTTGTTGAGTTTGAATTTTAAGTAATTATTAAGGTA
Found at i:1324657 original size:22 final size:22
Alignment explanation
Indices: 1324632--1324675 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1324622 TAGTCATATA
1324632 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
1324654 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
1324676 TATTTAATAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:1324735 original size:16 final size:17
Alignment explanation
Indices: 1324699--1324735 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
1324689 AATTTTATTT
*
1324699 TAATAATAAATTTTAAA
1 TAATAATAAATTTCAAA
1324716 -AATAAT-AATTTCAAA
1 TAATAATAAATTTCAAA
1324731 TAATA
1 TAATA
1324736 TTATTCACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
TAATAATAAATTTCAAA
Found at i:1324788 original size:15 final size:15
Alignment explanation
Indices: 1324768--1324823 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
1324758 ATTCAATATT
1324768 AATATTTTAATAATA
1 AATATTTTAATAATA
*
1324783 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
1324802 AATATATTAATAATA
1 AATATTTTAATAATA
1324817 AAT-TTTT
1 AATATTTT
1324824 TGTAGTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
14 3 0.09
15 13 0.39
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:1326257 original size:12 final size:12
Alignment explanation
Indices: 1326242--1326292 Score: 57
Period size: 12 Copynumber: 3.8 Consensus size: 12
1326232 AAACCGAATC
1326242 ATAAATATTTTT
1 ATAAATATTTTT
1326254 ATAAATATTTATGGAGT
1 ATAAATATTT-T----T
1326271 ATAAATATTTTT
1 ATAAATATTTTT
1326283 ATAAATATTT
1 ATAAATATTT
1326293 ATGGAGTGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
12 21 0.62
13 1 0.03
16 1 0.03
17 11 0.32
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (12 bp):
ATAAATATTTTT
Found at i:1326275 original size:17 final size:17
Alignment explanation
Indices: 1326253--1326299 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 17
1326243 TAAATATTTT
1326253 TATAAATATTTATGGAG
1 TATAAATATTTATGGAG
1326270 TATAAATATTT-T----
1 TATAAATATTTATGGAG
1326282 TATAAATATTTATGGAG
1 TATAAATATTTATGGAG
1326299 T
1 T
1326300 GTTATTAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
12 11 0.44
13 1 0.04
16 1 0.04
17 12 0.48
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (17 bp):
TATAAATATTTATGGAG
Found at i:1326284 original size:29 final size:29
Alignment explanation
Indices: 1326242--1326299 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
1326232 AAACCGAATC
1326242 ATAAATATTTTTATAAATATTTATGGAGT
1 ATAAATATTTTTATAAATATTTATGGAGT
1326271 ATAAATATTTTTATAAATATTTATGGAGT
1 ATAAATATTTTTATAAATATTTATGGAGT
1326300 GTTATTAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.48
Consensus pattern (29 bp):
ATAAATATTTTTATAAATATTTATGGAGT
Found at i:1327496 original size:35 final size:35
Alignment explanation
Indices: 1327427--1327625 Score: 285
Period size: 35 Copynumber: 5.7 Consensus size: 35
1327417 TGGAAAAATG
1327427 TGAAACGTAGGTATGGTA-TTTCCATACTGAGTTA
1 TGAAACGTAGGTATGGTATTTTCCATACTGAGTTA
* * *
1327461 TGATACGTAGGCATGGTATTTTCTATACTGAGTTA
1 TGAAACGTAGGTATGGTATTTTCCATACTGAGTTA
* * *
1327496 TGAAATGTAGGTATGGTA-TTTCCATACCGAGCTA
1 TGAAACGTAGGTATGGTATTTTCCATACTGAGTTA
* * * *
1327530 TGATACATAGGTATGGTATTTTCCATACCGAGTTG
1 TGAAACGTAGGTATGGTATTTTCCATACTGAGTTA
*
1327565 TGAAACGTAGGTATGGTATTTTCCATACTGAGTTG
1 TGAAACGTAGGTATGGTATTTTCCATACTGAGTTA
1327600 TGAAACGTAGGTATGGTATTTTCCAT
1 TGAAACGTAGGTATGGTATTTTCCAT
1327626 GAGGAAAACC
Statistics
Matches: 146, Mismatches: 17, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
34 44 0.30
35 102 0.70
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.37
Consensus pattern (35 bp):
TGAAACGTAGGTATGGTATTTTCCATACTGAGTTA
Found at i:1327514 original size:69 final size:69
Alignment explanation
Indices: 1327427--1327625 Score: 299
Period size: 69 Copynumber: 2.9 Consensus size: 69
1327417 TGGAAAAATG
* * *
1327427 TGAAACGTAGGTATGGTATTTCCATACTGAGTTATGATACGTAGGCATGGTATTTTCTATACTGA
1 TGAAACGTAGGTATGGTATTTCCATACTGAGTTATGATACGTAGGTATGGTATTTTCCATACCGA
1327492 GTTA
66 GTTA
* * * *
1327496 TGAAATGTAGGTATGGTATTTCCATACCGAGCTATGATACATAGGTATGGTATTTTCCATACCGA
1 TGAAACGTAGGTATGGTATTTCCATACTGAGTTATGATACGTAGGTATGGTATTTTCCATACCGA
*
1327561 GTTG
66 GTTA
* *
1327565 TGAAACGTAGGTATGGTATTTTCCATACTGAGTTGTGAAACGTAGGTATGGTATTTTCCAT
1 TGAAACGTAGGTATGGTA-TTTCCATACTGAGTTATGATACGTAGGTATGGTATTTTCCAT
1327626 GAGGAAAACC
Statistics
Matches: 115, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
69 78 0.68
70 37 0.32
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.37
Consensus pattern (69 bp):
TGAAACGTAGGTATGGTATTTCCATACTGAGTTATGATACGTAGGTATGGTATTTTCCATACCGA
GTTA
Found at i:1327584 original size:104 final size:104
Alignment explanation
Indices: 1327434--1327625 Score: 305
Period size: 104 Copynumber: 1.8 Consensus size: 104
1327424 ATGTGAAACG
* * *
1327434 TAGGTATGGTATTTCCATACTGAGTTATGATACGTAGGCATGGTATTTTCTATACTGAGTTATGA
1 TAGGTATGGTATTTCCATACCGAGTTATGAAACGTAGGCATGGTATTTTCCATACTGAGTTATGA
*
1327499 AATGTAGGTATGGTA-TTTCCATACCGAGCTATGATACA
66 AACGTAGGTATGGTATTTTCCATACCGAGCTATGATACA
* * *
1327537 TAGGTATGGTATTTTCCATACCGAGTTGTGAAACGTAGGTATGGTATTTTCCATACTGAGTTGTG
1 TAGGTATGGTA-TTTCCATACCGAGTTATGAAACGTAGGCATGGTATTTTCCATACTGAGTTATG
1327602 AAACGTAGGTATGGTATTTTCCAT
65 AAACGTAGGTATGGTATTTTCCAT
1327626 GAGGAAAACC
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
103 11 0.14
104 62 0.77
105 7 0.09
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.38
Consensus pattern (104 bp):
TAGGTATGGTATTTCCATACCGAGTTATGAAACGTAGGCATGGTATTTTCCATACTGAGTTATGA
AACGTAGGTATGGTATTTTCCATACCGAGCTATGATACA
Found at i:1336512 original size:12 final size:12
Alignment explanation
Indices: 1336495--1336528 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
1336485 CAGCCTGCCC
1336495 ATATTAATTTTT
1 ATATTAATTTTT
*
1336507 ATATTATTTTTT
1 ATATTAATTTTT
1336519 ATA-TAATTTT
1 ATATTAATTTT
1336529 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:1336686 original size:30 final size:30
Alignment explanation
Indices: 1336652--1336714 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
1336642 ACTTAACAAG
1336652 CAAATACCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
** *
1336682 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
1336712 CAA
1 CAA
1336715 CAAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.59, C:0.14, G:0.02, T:0.25
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:1338332 original size:26 final size:26
Alignment explanation
Indices: 1338295--1338359 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
1338285 TGATCTTTTA
*
1338295 TATATATGTATATGTATTTA-ATATACT
1 TATATAT-TATAT-TATATATATATACT
**
1338322 TATATATTATATTATATATATATTTT
1 TATATATTATATTATATATATATACT
*
1338348 TATATGTTATAT
1 TATATATTATAT
1338360 ACGCTTTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 5 0.15
26 21 0.64
27 7 0.21
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.57
Consensus pattern (26 bp):
TATATATTATATTATATATATATACT
Found at i:1344881 original size:27 final size:27
Alignment explanation
Indices: 1344840--1344929 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 27
1344830 ATACATACAT
*
1344840 GTTGTGCCTACCTGACAGGCTCAACTA
1 GTTGTGCCTACCTGACAGGCACAACTA
* * *
1344867 GTTGAGCCTATCTGACAGGCACGACTA
1 GTTGTGCCTACCTGACAGGCACAACTA
* * ** *
1344894 GTTGTGCCTTCTTGGTAGGCACGACTA
1 GTTGTGCCTACCTGACAGGCACAACTA
1344921 GTTGTGCCT
1 GTTGTGCCT
1344930 TCTTGGTAGG
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.19, C:0.26, G:0.27, T:0.29
Consensus pattern (27 bp):
GTTGTGCCTACCTGACAGGCACAACTA
Found at i:1344930 original size:27 final size:27
Alignment explanation
Indices: 1344883--1344942 Score: 120
Period size: 27 Copynumber: 2.2 Consensus size: 27
1344873 CCTATCTGAC
1344883 AGGCACGACTAGTTGTGCCTTCTTGGT
1 AGGCACGACTAGTTGTGCCTTCTTGGT
1344910 AGGCACGACTAGTTGTGCCTTCTTGGT
1 AGGCACGACTAGTTGTGCCTTCTTGGT
1344937 AGGCAC
1 AGGCAC
1344943 AACTGATGGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.17, C:0.23, G:0.30, T:0.30
Consensus pattern (27 bp):
AGGCACGACTAGTTGTGCCTTCTTGGT
Found at i:1348611 original size:33 final size:33
Alignment explanation
Indices: 1348574--1348669 Score: 113
Period size: 33 Copynumber: 2.9 Consensus size: 33
1348564 AGAATATGGT
*
1348574 GGTGGATATGGGTCGGGAGGAGTAGAGTACA-G
1 GGTGGATACGGGTCGGGAGGAGTAGAGTACATG
* ** *
1348606 CGGTGGATACGGCTTTGGAGGAGTTGAGTACATG
1 -GGTGGATACGGGTCGGGAGGAGTAGAGTACATG
* *
1348640 GGTGGATACGGGCCGGAAGGAGTAGAGTAC
1 GGTGGATACGGGTCGGGAGGAGTAGAGTAC
1348670 TGAGATAAAT
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
33 50 0.98
34 1 0.02
ACGTcount: A:0.24, C:0.10, G:0.46, T:0.20
Consensus pattern (33 bp):
GGTGGATACGGGTCGGGAGGAGTAGAGTACATG
Found at i:1351021 original size:114 final size:114
Alignment explanation
Indices: 1350812--1351143 Score: 513
Period size: 114 Copynumber: 2.9 Consensus size: 114
1350802 ATACTAACAC
* *
1350812 AAAATAACTATAAAATTA-TTTTTTTAAATACATTACTAAAAAAAATCACAATACACTAATACAC
1 AAAATAGCTATAAAATTATTTTTTTTAAATATATTACT-AAAAAAATCACAATACACTAAT--AC
1350876 ACTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
63 ACTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
* * * * *
1350928 AAAATAGCTATAAAAATATTTTTTTTAAATATATTACTAAAAAAATTACAATTCGCTAATATACT
1 AAAATAGCTATAAAATTATTTTTTTTAAATATATTACTAAAAAAATCACAATACACTAATACACT
1350993 AAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
66 AAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
**
1351042 AAAATAGCTATAAAATTATTTTTTAAAAAATATATTACTAAAAAAATCACAATACACTAATACAC
1 AAAATAGCTATAAAATTATTTTTT-TTAAATATATTACTAAAAAAATCACAATACACTAATACAC
** *
1351107 TAAATTACTAAACACTAACAATTTATATAACCAAATC
65 TAAACCACTAAACACTAACAATTTATATAACCTAATC
1351144 AACTATAAAA
Statistics
Matches: 197, Mismatches: 17, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
114 76 0.39
115 68 0.35
116 35 0.18
117 18 0.09
ACGTcount: A:0.52, C:0.15, G:0.01, T:0.32
Consensus pattern (114 bp):
AAAATAGCTATAAAATTATTTTTTTTAAATATATTACTAAAAAAATCACAATACACTAATACACT
AAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
Found at i:1351172 original size:115 final size:112
Alignment explanation
Indices: 1350823--1351219 Score: 348
Period size: 115 Copynumber: 3.6 Consensus size: 112
1350813 AAATAACTAT
*
1350823 AAAATTATTTTTTTAAATACATTACTAAAAAAAATCACAATACACTAATACACACTAAACCACTA
1 AAAATTATTTTTTTAAATATATTACT-AAAAAAATCACAATACACTAAT--ACACTAAACCACTA
*
1350888 AACACTAACAATTTATATAACCTAAT---CTT-AAATTACTAATAAAATAGCTATA
63 AACACTAACAATTTATATAACCTAATCAACTTAAAATT-CT--T-ATATA--TATA
* * * *
1350940 AAAA-TATTTTTTTTAAATATATTACTAAAAAAATTACAATTCGCTAATATACTAAACCACTAAA
1 AAAATTA-TTTTTTTAAATATATTACTAAAAAAATCACAATACACTAATACACTAAACCACTAAA
* *
1351004 CACTAACAATTTATATAACCTAAT---CTT-AAATTACTAATAAAATAGCTA
65 CACTAACAATTTATATAACCTAATCAACTTAAAATT-CTTAT-ATATA--TA
* **
1351052 TAAAATTATTTTTTAAAAAATATATTACTAAAAAAATCACAATACACTAATACACTAAATTACTA
1 -AAAATTATTTTTT--TAAATATATTACTAAAAAAATCACAATACACTAATACACTAAACCACTA
* * * * *
1351117 AACACTAACAATTTATATAACCAAATCAACTATAAAATTCTTTTTTTTTTA
63 AACACTAACAATTTATATAACCTAATCAACT-TAAAATTCTTATATATATA
1351168 AAAA-TA------T--AT-TATTACTAAAAAAATCACAATACACTAATACACTAAA-CACTAA
1 AAAATTATTTTTTTAAATATATTACTAAAAAAATCACAATACACTAATACACTAAACCACTAA
1351220 CAATTTGTAA
Statistics
Matches: 243, Mismatches: 24, Indels: 41
0.79 0.08 0.13
Matches are distributed among these distances:
102 5 0.02
103 37 0.15
104 2 0.01
110 2 0.01
111 1 0.00
112 4 0.02
113 10 0.04
114 54 0.22
115 71 0.29
116 23 0.09
117 22 0.09
118 3 0.01
119 4 0.02
120 5 0.02
ACGTcount: A:0.51, C:0.15, G:0.01, T:0.33
Consensus pattern (112 bp):
AAAATTATTTTTTTAAATATATTACTAAAAAAATCACAATACACTAATACACTAAACCACTAAAC
ACTAACAATTTATATAACCTAATCAACTTAAAATTCTTATATATATA
Found at i:1351422 original size:3 final size:3
Alignment explanation
Indices: 1351416--1351450 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
1351406 CCTTTTTTTT
*
1351416 TTC TTC TTC TTC TTC TTCC TTC TTC TTC TCC TTC T
1 TTC TTC TTC TTC TTC TT-C TTC TTC TTC TTC TTC T
1351451 CCTTTCTCTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:1351439 original size:16 final size:16
Alignment explanation
Indices: 1351418--1351449 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1351408 TTTTTTTTTT
*
1351418 CTTCTTCTTCTTCTTC
1 CTTCTTCTTCTCCTTC
1351434 CTTCTTCTTCTCCTTC
1 CTTCTTCTTCTCCTTC
1351450 TCCTTTCTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (16 bp):
CTTCTTCTTCTCCTTC
Found at i:1351457 original size:16 final size:19
Alignment explanation
Indices: 1351416--1351454 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
1351406 CCTTTTTTTT
*
1351416 TTCTTCTTCTTCTTCTTCC
1 TTCTTCTTCTCCTTCTTCC
1351435 TTCTTCTTCTCCTTC-TCC
1 TTCTTCTTCTCCTTCTTCC
1351453 TT
1 TT
1351455 TCTCTCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (19 bp):
TTCTTCTTCTCCTTCTTCC
Found at i:1353544 original size:17 final size:17
Alignment explanation
Indices: 1353522--1353560 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
1353512 CCTAAAGGTG
*
1353522 ATTTTA-TCTTCTTTATT
1 ATTTTACTCTTATTT-TT
1353539 ATTTTACTCTTATTTTT
1 ATTTTACTCTTATTTTT
1353556 ATTTT
1 ATTTT
1353561 CATTTTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTACTCTTATTTTT
Found at i:1353624 original size:13 final size:13
Alignment explanation
Indices: 1353606--1353658 Score: 63
Period size: 13 Copynumber: 4.0 Consensus size: 13
1353596 TATATACATC
1353606 ATAATAAAAAAAT
1 ATAATAAAAAAAT
*
1353619 ATAATAAAAATAT
1 ATAATAAAAAAAT
*
1353632 ATATACAAAACAAAT
1 ATA-ATAAAA-AAAT
1353647 ATAA-AAAAAAAT
1 ATAATAAAAAAAT
1353659 TACCTTTTCC
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
12 4 0.11
13 19 0.54
14 6 0.17
15 6 0.17
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.23
Consensus pattern (13 bp):
ATAATAAAAAAAT
Found at i:1356973 original size:18 final size:17
Alignment explanation
Indices: 1356928--1356991 Score: 56
Period size: 17 Copynumber: 3.5 Consensus size: 17
1356918 CTATAGTTTG
**
1356928 TTATATTTTAATAGCTT
1 TTATATTTTAATAAATT
* *
1356945 TTATTTATTTTCTATAATTT
1 TTA--TATTTT-AATAAATT
1356965 TTATATTTTAATAAATT
1 TTATATTTTAATAAATT
1356982 TTATAATTTT
1 TTAT-ATTTT
1356992 TTTATAAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
17 13 0.34
18 11 0.29
19 6 0.16
20 8 0.21
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (17 bp):
TTATATTTTAATAAATT
Found at i:1356984 original size:37 final size:38
Alignment explanation
Indices: 1356894--1356985 Score: 105
Period size: 38 Copynumber: 2.4 Consensus size: 38
1356884 TTCTTTACAA
* * *
1356894 ATTTTAAAAAAATTTATTAAATTCCTATAGTTTGTTAT
1 ATTTTAATAAATTTTATTAAATTCCTATAATTTGTTAT
** * * *
1356932 ATTTTAATAGCTTTTATTTATTTTCTATAATTT-TTAT
1 ATTTTAATAAATTTTATTAAATTCCTATAATTTGTTAT
1356969 ATTTTAATAAATTTTAT
1 ATTTTAATAAATTTTAT
1356986 AATTTTTTTA
Statistics
Matches: 44, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
37 19 0.43
38 25 0.57
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.58
Consensus pattern (38 bp):
ATTTTAATAAATTTTATTAAATTCCTATAATTTGTTAT
Found at i:1356993 original size:10 final size:9
Alignment explanation
Indices: 1356951--1356992 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
1356941 GCTTTTATTT
1356951 ATTTTCTATA
1 ATTTT-TATA
1356961 ATTTTTAT-
1 ATTTTTATA
*
1356969 ATTTTAATA
1 ATTTTTATA
*
1356978 AATTTTATA
1 ATTTTTATA
1356987 ATTTTT
1 ATTTTT
1356993 TTATAAATTC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
8 7 0.26
9 15 0.56
10 5 0.19
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (9 bp):
ATTTTTATA
Found at i:1356998 original size:20 final size:22
Alignment explanation
Indices: 1356970--1357012 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
1356960 AATTTTTATA
1356970 TTTTAATAAATT-TTATA-ATT
1 TTTTAATAAATTCTTATATATT
*
1356990 TTTTTATAAATTCTTATATATT
1 TTTTAATAAATTCTTATATATT
1357012 T
1 T
1357013 GAAATTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 11 0.55
21 5 0.25
22 4 0.20
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTTAATAAATTCTTATATATT
Found at i:1357238 original size:16 final size:16
Alignment explanation
Indices: 1357217--1357281 Score: 78
Period size: 17 Copynumber: 3.9 Consensus size: 16
1357207 CATGTTACAA
1357217 AAAAATTATAAAAAAT
1 AAAAATTATAAAAAAT
1357233 AAAAATTATAAAAAAAT
1 AAAAATTAT-AAAAAAT
*
1357250 AAAATATTA-AAAATTAT
1 AAAA-ATTATAAAA-AAT
*
1357267 AAAAATCATAAAAAA
1 AAAAATTATAAAAAA
1357282 AATATAAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
16 17 0.40
17 21 0.50
18 4 0.10
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAAATTATAAAAAAT
Found at i:1357243 original size:9 final size:9
Alignment explanation
Indices: 1357217--1357280 Score: 66
Period size: 9 Copynumber: 7.6 Consensus size: 9
1357207 CATGTTACAA
1357217 AAAAATTAT
1 AAAAATTAT
1357226 AAAAA--AT
1 AAAAATTAT
1357233 AAAAATTAT
1 AAAAATTAT
*
1357242 AAAAA-AAT
1 AAAAATTAT
1357250 -AAAA-TATT
1 AAAAATTA-T
1357258 AAAAATTAT
1 AAAAATTAT
*
1357267 AAAAATCAT
1 AAAAATTAT
1357276 AAAAA
1 AAAAA
1357281 AAATATAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
7 12 0.26
8 3 0.06
9 30 0.64
10 2 0.04
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (9 bp):
AAAAATTAT
Found at i:1357260 original size:25 final size:24
Alignment explanation
Indices: 1357224--1357281 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 24
1357214 CAAAAAAATT
1357224 ATAAAAAATAAAAATTATAAAAAA
1 ATAAAAAATAAAAATTATAAAAAA
* *
1357248 ATAAAATATTAAAAATTATAAAAATC
1 ATAAAA-AATAAAAATTATAAAAA-A
1357274 ATAAAAAA
1 ATAAAAAA
1357282 AATATAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 6 0.21
25 17 0.59
26 6 0.21
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (24 bp):
ATAAAAAATAAAAATTATAAAAAA
Found at i:1357290 original size:9 final size:9
Alignment explanation
Indices: 1357216--1357291 Score: 61
Period size: 9 Copynumber: 8.6 Consensus size: 9
1357206 ACATGTTACA
1357216 AAAAAAT-T
1 AAAAAATAT
1357224 ATAAAAA-AT
1 A-AAAAATAT
*
1357233 AAAAATTAT
1 AAAAAATAT
1357242 AAAAAA-AT
1 AAAAAATAT
*
1357250 AAAATAT-T
1 AAAAAATAT
*
1357258 AAAAATTAT
1 AAAAAATAT
*
1357267 AAAAATCATAA
1 AAAAA--ATAT
1357278 AAAAAATAT
1 AAAAAATAT
1357287 AAAAA
1 AAAAA
1357292 TAGTGAAATT
Statistics
Matches: 53, Mismatches: 8, Indels: 13
0.72 0.11 0.18
Matches are distributed among these distances:
8 18 0.34
9 28 0.53
11 7 0.13
ACGTcount: A:0.75, C:0.01, G:0.00, T:0.24
Consensus pattern (9 bp):
AAAAAATAT
Found at i:1357558 original size:10 final size:10
Alignment explanation
Indices: 1357545--1357621 Score: 50
Period size: 10 Copynumber: 7.7 Consensus size: 10
1357535 TTTTGATGCA
1357545 TTTTATAATT
1 TTTTATAATT
*
1357555 TTTTATGATT
1 TTTTATAATT
*
1357565 TTTATAAAATT
1 TTT-TATAATT
* *
1357576 TTATAATTATT
1 TT-TTATAATT
*
1357587 TTTTCTAATT
1 TTTTATAATT
* *
1357597 TTTAATAA-A
1 TTTTATAATT
*
1357606 ATTTA-AATT
1 TTTTATAATT
1357615 TTTTATA
1 TTTTATA
1357622 TTTGTCTTAA
Statistics
Matches: 47, Mismatches: 16, Indels: 8
0.66 0.23 0.11
Matches are distributed among these distances:
8 2 0.04
9 7 0.15
10 24 0.51
11 13 0.28
12 1 0.02
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (10 bp):
TTTTATAATT
Found at i:1357853 original size:3 final size:3
Alignment explanation
Indices: 1357845--1357876 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
1357835 TAAAGACTGC
1357845 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1357877 AACAATTAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1363692 original size:7 final size:7
Alignment explanation
Indices: 1363673--1363706 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
1363663 TTTTTGGACT
*
1363673 TTTACGA
1 TTTATGA
1363680 TTTATGA
1 TTTATGA
*
1363687 TCTATGA
1 TTTATGA
1363694 TTTATGA
1 TTTATGA
1363701 TTTATG
1 TTTATG
1363707 GTTTTATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.26, C:0.06, G:0.15, T:0.53
Consensus pattern (7 bp):
TTTATGA
Found at i:1364391 original size:7 final size:7
Alignment explanation
Indices: 1364343--1364412 Score: 89
Period size: 6 Copynumber: 10.9 Consensus size: 7
1364333 GGTTTTCTCA
1364343 AAATG-G
1 AAATGAG
1364349 AAATG-G
1 AAATGAG
1364355 AAATG-G
1 AAATGAG
*
1364361 AAGTG-G
1 AAATGAG
1364367 AAATGA-
1 AAATGAG
1364373 AAATGA-
1 AAATGAG
1364379 AAATGAG
1 AAATGAG
1364386 AAATGAG
1 AAATGAG
1364393 AAATGAG
1 AAATGAG
1364400 AAATGAG
1 AAATGAG
1364407 AAATGA
1 AAATGA
1364413 TTCATTTGCA
Statistics
Matches: 60, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
6 33 0.55
7 27 0.45
ACGTcount: A:0.56, C:0.00, G:0.29, T:0.16
Consensus pattern (7 bp):
AAATGAG
Found at i:1368278 original size:52 final size:48
Alignment explanation
Indices: 1368199--1368405 Score: 195
Period size: 47 Copynumber: 4.2 Consensus size: 48
1368189 CCATGACAGC
* * * * *
1368199 ATGTGAAATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGG
1 ATGTGATATGTG-CTTCCGTATAAGACCATATCTGGGATATGGCATCGG
*
1368248 ACAAATGTGATATGTGCTTCCGTATAAGACCATATCCGGGATATGGCATCGG
1 ----ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGG
* * *
1368300 -TGTGATATGTGCTACTGTATAAGACCATATCTGGGATATGGCATCAG
1 ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGG
* * * ** * *
1368347 -TGTGATACGTG-ATCCGTGTAAGACCATGGCTGGGCTATGGCCTCGG
1 ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGG
1368393 TATGTGATATGTG
1 -ATGTGATATGTG
1368406 ACTATGTGCA
Statistics
Matches: 131, Mismatches: 21, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
46 26 0.20
47 53 0.40
48 10 0.08
52 31 0.24
53 11 0.08
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.30
Consensus pattern (48 bp):
ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGG
Found at i:1371001 original size:60 final size:59
Alignment explanation
Indices: 1370934--1371072 Score: 176
Period size: 60 Copynumber: 2.3 Consensus size: 59
1370924 CCAACTGTGT
*
1370934 TGATATGGGCAAGGCCCAATATA-TCTCGACT-TGT-AGTAGGGCTATGGCCCAGATTGATAC
1 TGATATGGGCAAGGCCCAATATACTCT-GA-TATGTAAG--GGGCTATGGCCCAGATTAATAC
* *
1370994 TGATATGGGCTAGGCCCAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATAT
1 TGATATGGGCAAGGCCCAATATACTCTGATA-TGTAAGGGGCTATGGCCCAGATTAATAC
1371054 TGATATGGGCTAAGGCCCA
1 TGATATGGGC-AAGGCCCA
1371073 GTTAACACTA
Statistics
Matches: 70, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
59 1 0.01
60 54 0.77
61 13 0.19
62 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (59 bp):
TGATATGGGCAAGGCCCAATATACTCTGATATGTAAGGGGCTATGGCCCAGATTAATAC
Found at i:1373271 original size:24 final size:26
Alignment explanation
Indices: 1373215--1373282 Score: 95
Period size: 24 Copynumber: 2.7 Consensus size: 26
1373205 GTCTCACCGT
1373215 AGCTCGTATGAGCTTACTGATATATC
1 AGCTCGTATGAGCTTACTGATATATC
* * *
1373241 AGCTCGTAAGATCTTACTG-T-TCTC
1 AGCTCGTATGAGCTTACTGATATATC
1373265 AGCTCGTATGAGCTTACT
1 AGCTCGTATGAGCTTACT
1373283 AATTTAGCTC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 19 0.51
25 1 0.03
26 17 0.46
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (26 bp):
AGCTCGTATGAGCTTACTGATATATC
Found at i:1373976 original size:19 final size:17
Alignment explanation
Indices: 1373928--1373976 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
1373918 GTGATTTGGC
1373928 TTAATTTGGTATAATGT
1 TTAATTTGGTATAATGT
**
1373945 TTAGGTTGTGTATAAGTGT
1 TTAATTTG-GTATAA-TGT
1373964 TTAATTATGGTAT
1 TTAATT-TGGTAT
1373977 GTTTTGACAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 6 0.24
18 6 0.24
19 11 0.44
20 2 0.08
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (17 bp):
TTAATTTGGTATAATGT
Found at i:1374862 original size:20 final size:21
Alignment explanation
Indices: 1374823--1374869 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 21
1374813 TAAGGGACAA
*
1374823 ATTGTTTGAGTTTGAATGATG
1 ATTGTATGAGTTTGAATGATG
1374844 ATTGTATGA-TTTG-AT--TG
1 ATTGTATGAGTTTGAATGATG
1374861 ATTGTATGA
1 ATTGTATGA
1374870 TAAAAGTACA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 11 0.44
19 2 0.08
20 4 0.16
21 8 0.32
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (21 bp):
ATTGTATGAGTTTGAATGATG
Found at i:1381179 original size:13 final size:13
Alignment explanation
Indices: 1381163--1381189 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1381153 AGGTAAAAAT
1381163 ATTTATTTTATTA
1 ATTTATTTTATTA
1381176 ATTTATTTTATTA
1 ATTTATTTTATTA
1381189 A
1 A
1381190 ATTGAGAAAA
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
ATTTATTTTATTA
Found at i:1381766 original size:26 final size:24
Alignment explanation
Indices: 1381737--1381851 Score: 114
Period size: 23 Copynumber: 4.8 Consensus size: 24
1381727 GGACTCACCG
1381737 CAGCTCGTATGAGCTTACTGATATAT
1 CAGCTCGTATGAGCTTACTGAT-T-T
*
1381763 CAGCTCGTAAGAGCTTACTG-TTCT
1 CAGCTCGTATGAGCTTACTGATT-T
*
1381787 TAGCTCGTATGAGCTTACTGATTT
1 CAGCTCGTATGAGCTTACTGATTT
*
1381811 -AGCTCGTCA-GAGCTTACCG-TTT
1 CAGCTCGT-ATGAGCTTACTGATTT
*
1381833 CAGCTC-AATAGAGCTTACT
1 CAGCTCGTAT-GAGCTTACT
1381852 ATCCATCAAC
Statistics
Matches: 77, Mismatches: 7, Indels: 13
0.79 0.07 0.13
Matches are distributed among these distances:
21 1 0.01
22 3 0.04
23 29 0.38
24 22 0.29
25 3 0.04
26 19 0.25
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (24 bp):
CAGCTCGTATGAGCTTACTGATTT
Found at i:1384853 original size:42 final size:42
Alignment explanation
Indices: 1384783--1384882 Score: 130
Period size: 42 Copynumber: 2.4 Consensus size: 42
1384773 GAAATGAGAA
* * * *
1384783 TACGTGTAAGACCATATCTGGGATATGGCATC-ATTATGATAT
1 TACGTGTAAGACCATATCTGAGACATGGCATCGA-TACGAAAT
*
1384825 TACGTGTAAGACCATGTCTGAGACATGGCATCGATACGAAAT
1 TACGTGTAAGACCATATCTGAGACATGGCATCGATACGAAAT
*
1384867 TTCGTGTAAGACCATA
1 TACGTGTAAGACCATA
1384883 GTTGGGCTAT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 49 0.98
43 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (42 bp):
TACGTGTAAGACCATATCTGAGACATGGCATCGATACGAAAT
Found at i:1384938 original size:85 final size:84
Alignment explanation
Indices: 1384785--1384940 Score: 192
Period size: 85 Copynumber: 1.8 Consensus size: 84
1384775 AATGAGAATA
* * * * *
1384785 CGTGTAAGACCATATCTGGGATATGGCATCATTATGATATTACGTGTAAGACCATGTCTGAGACA
1 CGTGTAAGACCATATCTGGGATATGGCATCATTAAGATATTACATGTAAGACCATATCCGAAACA
1384850 TGGCATCGATACGAAATTT
66 TGGCATCGATACGAAATTT
*
1384869 CGTGTAAGACCATAGT-TGGGCTATTGGCATCGATATAAG-T-TTACATGTAAGACCATATCCGA
1 CGTGTAAGACCATA-TCTGGGATA-TGGCATC-AT-TAAGATATTACATGTAAGACCATATCCGA
*
1384931 AATATGGCAT
62 AACATGGCAT
1384941 TGTACGACCT
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
84 20 0.33
85 35 0.57
86 3 0.05
87 3 0.05
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.29
Consensus pattern (84 bp):
CGTGTAAGACCATATCTGGGATATGGCATCATTAAGATATTACATGTAAGACCATATCCGAAACA
TGGCATCGATACGAAATTT
Found at i:1389374 original size:18 final size:18
Alignment explanation
Indices: 1389351--1389408 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
1389341 CTTGTTTATT
1389351 GTTATTCAATAACAATCA
1 GTTATTCAATAACAATCA
* *
1389369 GTTATTCAATATCAAACA
1 GTTATTCAATAACAATCA
1389387 ---A-TCAATAACAATCA
1 GTTATTCAATAACAATCA
1389401 GTTATTCA
1 GTTATTCA
1389409 GTCCAGTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 11 0.34
15 1 0.03
17 1 0.03
18 19 0.59
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (18 bp):
GTTATTCAATAACAATCA
Found at i:1389683 original size:44 final size:44
Alignment explanation
Indices: 1389594--1389683 Score: 110
Period size: 44 Copynumber: 2.0 Consensus size: 44
1389584 GAAGTAACAA
* * **
1389594 TAACAGTACGACACACATGGTGCCTCATCGACTCGAAGTTGAAG
1 TAACAGTACGACACACATAGTGCCTCATCAACTCGAAGTCAAAG
**
1389638 TAACAGTACGACACTTATAGTGCCTCATCAACTC-AAGGTCAAAG
1 TAACAGTACGACACACATAGTGCCTCATCAACTCGAA-GTCAAAG
1389682 TA
1 TA
1389684 TCCCTAAACA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 2 0.05
44 37 0.95
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.22
Consensus pattern (44 bp):
TAACAGTACGACACACATAGTGCCTCATCAACTCGAAGTCAAAG
Found at i:1390579 original size:5 final size:5
Alignment explanation
Indices: 1390566--1390602 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
1390556 TTCTTTAGTT
1390566 TATATA TATAA TAT-A -ATAA TATAA TATAA TATAA TAT
1 TATA-A TATAA TATAA TATAA TATAA TATAA TATAA TAT
1390603 TTTATAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
3 2 0.07
4 2 0.07
5 21 0.72
6 4 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TATAA
Found at i:1390587 original size:13 final size:13
Alignment explanation
Indices: 1390571--1390596 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1390561 TAGTTTATAT
1390571 ATATAATATAATA
1 ATATAATATAATA
1390584 ATATAATATAATA
1 ATATAATATAATA
1390597 TAATATTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATATAATATAATA
Found at i:1390594 original size:18 final size:19
Alignment explanation
Indices: 1390566--1390601 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
1390556 TTCTTTAGTT
1390566 TATATATATAATATAATAA
1 TATATATATAATATAATAA
1390585 TATA-ATATAATATAATA
1 TATATATATAATATAATA
1390602 TTTTATAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TATATATATAATATAATAA
Found at i:1390642 original size:42 final size:42
Alignment explanation
Indices: 1390585--1390670 Score: 109
Period size: 47 Copynumber: 1.9 Consensus size: 42
1390575 AATATAATAA
* *
1390585 TATAATATAATATAATATTTTATAATTAAAACATAAAATATCTTTAT
1 TATAAAATAATATAATA--ATAT-ATT-AAACATAAAA-ATCTTTAT
1390632 TATAAAATAATATAATAATATATTAAACATAAAAATCTT
1 TATAAAATAATATAATAATATATTAAACATAAAAATCTT
1390671 AGATTTTCCT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
42 5 0.14
43 10 0.27
44 3 0.08
45 3 0.08
47 16 0.43
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (42 bp):
TATAAAATAATATAATAATATATTAAACATAAAAATCTTTAT
Found at i:1390780 original size:13 final size:13
Alignment explanation
Indices: 1390762--1390787 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1390752 CACAACTAGC
1390762 TTCATAAATATTT
1 TTCATAAATATTT
1390775 TTCATAAATATTT
1 TTCATAAATATTT
1390788 ATGAAAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (13 bp):
TTCATAAATATTT
Found at i:1396081 original size:3 final size:3
Alignment explanation
Indices: 1396073--1396102 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
1396063 GAAGTCAGAT
1396073 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1396103 GTAGTAGTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1399735 original size:3 final size:3
Alignment explanation
Indices: 1399727--1399754 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1399717 CTATACACAT
1399727 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1399755 ACAATTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:1401144 original size:60 final size:59
Alignment explanation
Indices: 1401005--1401148 Score: 157
Period size: 60 Copynumber: 2.4 Consensus size: 59
1400995 TTTAGTGTTA
* *
1401005 ACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTAACAGAGTAT
1 ACTGGGCCTT-GCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGT-ACAGAGTAT
* * * *
1401066 ACTGAGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGT-C-GAGATAT
1 ACTGGGCCTTGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTAC-AGTACAGAG-TAT
* *
1401126 ATTGGGCCTTGCCTATATCAATA
1 ACTGGGCCTTGCCCATATCAATA
1401149 CAGTTGGACC
Statistics
Matches: 69, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
59 3 0.04
60 51 0.74
61 12 0.17
62 3 0.04
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (59 bp):
ACTGGGCCTTGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGTACAGAGTAT
Found at i:1401168 original size:20 final size:19
Alignment explanation
Indices: 1401143--1401180 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
1401133 CTTGCCTATA
*
1401143 TCAATACAGTTGGACCCATT
1 TCAATACAATTGG-CCCATT
1401163 TCAATACAATTGGCCCAT
1 TCAATACAATTGGCCCAT
1401181 AACAAAATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (19 bp):
TCAATACAATTGGCCCATT
Found at i:1402483 original size:17 final size:19
Alignment explanation
Indices: 1402461--1402499 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
1402451 TGAGAGAAGG
*
1402461 ATAGAA-AA-GAATAAAAA
1 ATAGAAGAAGGAAAAAAAA
1402478 ATAGAAGAAGGAAAAAAAA
1 ATAGAAGAAGGAAAAAAAA
1402497 ATA
1 ATA
1402500 AATCCTAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 2 0.11
19 11 0.58
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.10
Consensus pattern (19 bp):
ATAGAAGAAGGAAAAAAAA
Found at i:1405629 original size:60 final size:59
Alignment explanation
Indices: 1405494--1405637 Score: 166
Period size: 60 Copynumber: 2.4 Consensus size: 59
1405484 TTTAGTGTTA
* *
1405494 ACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTAACAGAGTAT
1 ACTGGGCCTT-GCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGT-ACAGAGTAT
* * * *
1405555 ACTGAGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGT-C-GAGATAT
1 ACTGGGCCTTGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTAC-AGTACAGAG-TAT
*
1405615 ATTGGGCCTTGCCCATATCAATA
1 ACTGGGCCTTGCCCATATCAATA
1405638 CAGTTGGACC
Statistics
Matches: 70, Mismatches: 10, Indels: 7
0.80 0.11 0.08
Matches are distributed among these distances:
59 3 0.04
60 52 0.74
61 12 0.17
62 3 0.04
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (59 bp):
ACTGGGCCTTGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGTACAGAGTAT
Found at i:1407002 original size:17 final size:19
Alignment explanation
Indices: 1406980--1407017 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1406970 TGAGAGAAGG
*
1406980 ATAGAA-AA-GAATAAAAA
1 ATAGAAGAAGGAAAAAAAA
1406997 ATAGAAGAAGGAAAAAAAA
1 ATAGAAGAAGGAAAAAAAA
1407016 AT
1 AT
1407018 CCTAAAGGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 2 0.11
19 10 0.56
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.11
Consensus pattern (19 bp):
ATAGAAGAAGGAAAAAAAA
Found at i:1413035 original size:21 final size:20
Alignment explanation
Indices: 1413006--1413048 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
1412996 TGAATTTTTT
*
1413006 TTGAATCAAGTTGAGTAAAA
1 TTGAATCAAATTGAGTAAAA
*
1413026 TTGAATTCAAATTGAGTTAAA
1 TTGAA-TCAAATTGAGTAAAA
1413047 TT
1 TT
1413049 AAAAAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.42, C:0.05, G:0.16, T:0.37
Consensus pattern (20 bp):
TTGAATCAAATTGAGTAAAA
Found at i:1413628 original size:19 final size:19
Alignment explanation
Indices: 1413606--1413674 Score: 72
Period size: 19 Copynumber: 3.7 Consensus size: 19
1413596 TAAACTAAGT
1413606 TTTTAGCTGAGTTACCTTC
1 TTTTAGCTGAGTTACCTTC
*
1413625 TTTTAGCTGAGTTA-C--A
1 TTTTAGCTGAGTTACCTTC
*
1413641 TTTGAGCATTGAGTTACCTTC
1 TTTTAGC--TGAGTTACCTTC
*
1413662 TTTTTGCTGAGTT
1 TTTTAGCTGAGTT
1413675 CTTGCTTTCA
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
16 6 0.15
18 8 0.20
19 21 0.52
21 5 0.12
ACGTcount: A:0.17, C:0.16, G:0.19, T:0.48
Consensus pattern (19 bp):
TTTTAGCTGAGTTACCTTC
Found at i:1414706 original size:18 final size:18
Alignment explanation
Indices: 1414683--1414718 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1414673 TAATATATAT
1414683 TAACCCAAGTACCCAACC
1 TAACCCAAGTACCCAACC
*
1414701 TAACCCAATTACCCAACC
1 TAACCCAAGTACCCAACC
1414719 CAATCATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.44, G:0.03, T:0.14
Consensus pattern (18 bp):
TAACCCAAGTACCCAACC
Found at i:1414758 original size:6 final size:6
Alignment explanation
Indices: 1414747--1414786 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
1414737 ATAATTTAAT
* *
1414747 AAATAA AAATAA AATCTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AA-ATAA AAATAA AAATAA AAATAA AAA
1414787 GCATACAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 26 0.84
7 5 0.16
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:1414786 original size:19 final size:18
Alignment explanation
Indices: 1414747--1414786 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
1414737 ATAATTTAAT
*
1414747 AAATAAAAATAAAATCTAA
1 AAATAAAAATAAAA-ATAA
*
1414766 AACTAAAAATAAAAATAA
1 AAATAAAAATAAAAATAA
1414784 AAA
1 AAA
1414787 GCATACAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (18 bp):
AAATAAAAATAAAAATAA
Found at i:1414844 original size:27 final size:28
Alignment explanation
Indices: 1414806--1414874 Score: 88
Period size: 27 Copynumber: 2.5 Consensus size: 28
1414796 TTTATACAAA
*
1414806 TAATTCGGTTAATTTAGA-TAACTCGGG
1 TAATTCGGTTAATTTAGATTAACTCGAG
* * *
1414833 TAATTCGGTTAA-TTCGATTAATTCGAT
1 TAATTCGGTTAATTTAGATTAACTCGAG
1414860 TAATTCGGTTAATTT
1 TAATTCGGTTAATTT
1414875 TATACTTCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 4 0.11
27 30 0.83
28 2 0.06
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.43
Consensus pattern (28 bp):
TAATTCGGTTAATTTAGATTAACTCGAG
Found at i:1414845 original size:9 final size:9
Alignment explanation
Indices: 1414806--1414873 Score: 73
Period size: 9 Copynumber: 7.6 Consensus size: 9
1414796 TTTATACAAA
1414806 TAATTCGGT
1 TAATTCGGT
** *
1414815 TAATTTAGA
1 TAATTCGGT
* *
1414824 TAACTCGGG
1 TAATTCGGT
1414833 TAATTCGGT
1 TAATTCGGT
*
1414842 TAATTCGAT
1 TAATTCGGT
*
1414851 TAATTCGAT
1 TAATTCGGT
1414860 TAATTCGGT
1 TAATTCGGT
1414869 TAATT
1 TAATT
1414874 TTATACTTCT
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 48 1.00
ACGTcount: A:0.29, C:0.10, G:0.18, T:0.43
Consensus pattern (9 bp):
TAATTCGGT
Found at i:1415469 original size:27 final size:27
Alignment explanation
Indices: 1415405--1415458 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
1415395 TCACAAAAAA
*
1415405 AGTATGATTTTCATTATTATTTGATGT
1 AGTATGATTTTCTTTATTATTTGATGT
1415432 AGTATGATTTTCTTTATTATTTGATGT
1 AGTATGATTTTCTTTATTATTTGATGT
1415459 TTGATAGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.24, C:0.04, G:0.15, T:0.57
Consensus pattern (27 bp):
AGTATGATTTTCTTTATTATTTGATGT
Found at i:1419493 original size:18 final size:20
Alignment explanation
Indices: 1419456--1419500 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
1419446 CTATAGAAAA
*
1419456 ATAAAAATTACAAAAGTATT
1 ATAAAAATAACAAAAGTATT
*
1419476 A-AAAAATAACTAAA-TATT
1 ATAAAAATAACAAAAGTATT
1419494 ATAAAAA
1 ATAAAAA
1419501 CTTAATTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 5 0.23
19 16 0.73
20 1 0.05
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (20 bp):
ATAAAAATAACAAAAGTATT
Found at i:1422431 original size:14 final size:14
Alignment explanation
Indices: 1422412--1422441 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1422402 CAAGTAAGAA
*
1422412 AAGGTTAAAAGTTT
1 AAGGTTAAAAGGTT
1422426 AAGGTTAAAAGGTT
1 AAGGTTAAAAGGTT
1422440 AA
1 AA
1422442 AAAAATCGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.23, T:0.30
Consensus pattern (14 bp):
AAGGTTAAAAGGTT
Found at i:1423645 original size:31 final size:31
Alignment explanation
Indices: 1423610--1423679 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
1423600 CTTGTCACTT
* * *
1423610 GTAGCCGAAGCTATCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTATTCACTAATCAA
* * *
1423641 GTAGCCGGAGCTACCATTTTTCACTAATCAA
1 GTAGCCGAAGCTACCACTATTCACTAATCAA
1423672 GTAGCCGA
1 GTAGCCGA
1423680 TGATCAGGTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTATTCACTAATCAA
Found at i:1423781 original size:50 final size:50
Alignment explanation
Indices: 1423687--1423913 Score: 346
Period size: 50 Copynumber: 4.5 Consensus size: 50
1423677 CGATGATCAG
* * * * *
1423687 GTAGCCGAAGCTACCACTTTTTACTTGCCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCACTTGTCCTTGATCAGATAAGT
* *
1423738 GTAGCTGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
* * *
1423788 GTAGCCAAAGCTATCACTTATCACTTTCACTTATCCTTGATCAAATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
*
1423838 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
1423888 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
1423914 GTTGCCATGG
Statistics
Matches: 162, Mismatches: 14, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
50 140 0.86
51 22 0.14
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
Found at i:1428998 original size:26 final size:26
Alignment explanation
Indices: 1428955--1429065 Score: 116
Period size: 26 Copynumber: 4.2 Consensus size: 26
1428945 AAATTTTATT
* *
1428955 AAAATAAAAAAATATTCAAAATATAG
1 AAAATAGAAAAATATTCAAAATATAA
* *
1428981 AAATTATAAAAATATTCAAAATCATAAA
1 AAAATAGAAAAATATTCAAAAT-AT-AA
*
1429009 AAAATAGAAAAATATTGTAAAA-ATAA
1 AAAATAGAAAAATATT-CAAAATATAA
* *
1429035 AAAATAGAAAAATATTTAAAATTTAGA
1 AAAATAGAAAAATATTCAAAATATA-A
1429062 AAAA
1 AAAA
1429066 ATTTGTTAAA
Statistics
Matches: 73, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
25 5 0.07
26 40 0.55
27 9 0.12
28 15 0.21
29 4 0.05
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.25
Consensus pattern (26 bp):
AAAATAGAAAAATATTCAAAATATAA
Found at i:1429095 original size:21 final size:20
Alignment explanation
Indices: 1429042--1429095 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 20
1429032 TAAAAAATAG
* *
1429042 AAAAATATTTAAAATTTAGA
1 AAAAATATTTAAAATATAAA
*
1429062 AAAAATTTGTTAAAACTATAAA
1 AAAAATAT-TTAAAA-TATAAA
1429084 AAAAATATTTAA
1 AAAAATATTTAA
1429096 TTTGTTAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 7 0.25
21 10 0.36
22 11 0.39
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (20 bp):
AAAAATATTTAAAATATAAA
Found at i:1429465 original size:19 final size:18
Alignment explanation
Indices: 1429426--1429494 Score: 72
Period size: 19 Copynumber: 3.8 Consensus size: 18
1429416 CATATAAATA
*
1429426 ATTAAAAATGAAAAAATTT
1 ATTAAAAAT-ATAAAATTT
*
1429445 A--AAATATTATAAAA-TT
1 ATTAAA-AATATAAAATTT
1429461 ATTAAAAATATACAAATTT
1 ATTAAAAATATA-AAATTT
1429480 ATTAAAAATATAAAA
1 ATTAAAAATATAAAA
1429495 AATATATAGA
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
16 3 0.07
17 13 0.31
18 11 0.26
19 15 0.36
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (18 bp):
ATTAAAAATATAAAATTT
Found at i:1429477 original size:28 final size:27
Alignment explanation
Indices: 1429426--1429517 Score: 89
Period size: 30 Copynumber: 3.3 Consensus size: 27
1429416 CATATAAATA
* *
1429426 ATTAAAAAT-GAAAAAATTTAAAATATT
1 ATTAAAAATATAAAAAATATAAAAT-TT
* *
1429453 A-TAAAATTATTAAAAATATACAAATTT
1 ATTAAAAATATAAAAAATATA-AAATTT
1429480 ATTAAAAATATAAAAAATATATAGAAATTT
1 ATTAAAAATAT-AAAAA-ATATA-AAATTT
1429510 ATTAAAAA
1 ATTAAAAA
1429518 AACCGACAGT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
26 6 0.11
27 12 0.23
28 12 0.23
29 4 0.08
30 19 0.36
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (27 bp):
ATTAAAAATATAAAAAATATAAAATTT
Found at i:1429990 original size:9 final size:9
Alignment explanation
Indices: 1429976--1430032 Score: 64
Period size: 9 Copynumber: 6.2 Consensus size: 9
1429966 GGAGATTAAA
1429976 TTTTATAAT
1 TTTTATAAT
1429985 TTTTAT-AT
1 TTTTATAAT
*
1429993 TTTAATAAACT
1 TTTTAT-AA-T
1430004 TTTTATAAT
1 TTTTATAAT
1430013 TTTTAT-AT
1 TTTTATAAT
1430021 TTTTAATAAT
1 TTTT-ATAAT
1430031 TT
1 TT
1430033 GAATATTTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
8 13 0.32
9 15 0.37
10 7 0.17
11 6 0.15
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (9 bp):
TTTTATAAT
Found at i:1430032 original size:10 final size:10
Alignment explanation
Indices: 1429976--1430151 Score: 51
Period size: 9 Copynumber: 18.5 Consensus size: 10
1429966 GGAGATTAAA
1429976 TTTT-ATAAT
1 TTTTAATAAT
1429985 TTTT-AT-A-
1 TTTTAATAAT
1429992 TTTTAATAAACT
1 TTTTAAT-AA-T
1430004 TTTT-ATAAT
1 TTTTAATAAT
1430013 TTTT-AT-AT
1 TTTTAATAAT
1430021 TTTTAATAA-
1 TTTTAATAAT
*
1430030 TTTGAAT-AT
1 TTTTAATAAT
* *
1430039 TTTAAACAAGT
1 TTTTAATAA-T
*
1430050 TTATAATGAAT
1 TTTTAAT-AAT
* * *
1430061 TTTAAACAGT
1 TTTTAATAAT
1430071 TTTCT-AT-AT
1 TTT-TAATAAT
* *
1430080 TTTTCATAAA
1 TTTTAATAAT
*
1430090 TTTAAAT-AT
1 TTTTAATAAT
1430099 TTTT-ATAAAT
1 TTTTAAT-AAT
* *
1430109 TTTGAA-CAT
1 TTTTAATAAT
1430118 TTTTAA-AAT
1 TTTTAATAAT
* *
1430127 TTTTATTGA-
1 TTTTAATAAT
1430136 TTTTAATAAAT
1 TTTTAAT-AAT
1430147 TTTTA
1 TTTTA
1430152 TCATTTTCAC
Statistics
Matches: 121, Mismatches: 26, Indels: 38
0.65 0.14 0.21
Matches are distributed among these distances:
7 4 0.03
8 13 0.11
9 56 0.46
10 24 0.20
11 18 0.15
12 6 0.05
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.56
Consensus pattern (10 bp):
TTTTAATAAT
Found at i:1430157 original size:19 final size:19
Alignment explanation
Indices: 1430078--1430158 Score: 76
Period size: 19 Copynumber: 4.3 Consensus size: 19
1430068 AGTTTTCTAT
**
1430078 ATTTTTCATAAATTTAAAT-
1 ATTTTT-ATAAATTTTTATC
* *
1430097 ATTTTTATAAATTTTGAAC
1 ATTTTTATAAATTTTTATC
*
1430116 ATTTTTA-AAATTTTTATTG
1 ATTTTTATAAATTTTTA-TC
*
1430135 ATTTTAATAAATTTTTATC
1 ATTTTTATAAATTTTTATC
1430154 ATTTT
1 ATTTT
1430159 CACCATGTGT
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
18 17 0.33
19 25 0.49
20 9 0.18
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (19 bp):
ATTTTTATAAATTTTTATC
Found at i:1439425 original size:34 final size:34
Alignment explanation
Indices: 1439382--1439451 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
1439372 CGACATGAGC
1439382 ACAGATTCCCTGCACAATGTAACAGTTAAAAAAT
1 ACAGATTCCCTGCACAATGTAACAGTTAAAAAAT
1439416 ACAGATTCCCTGCACAATGTAACAGTTAAAAAAT
1 ACAGATTCCCTGCACAATGTAACAGTTAAAAAAT
1439450 AC
1 AC
1439452 TTTTCACATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.44, C:0.21, G:0.11, T:0.23
Consensus pattern (34 bp):
ACAGATTCCCTGCACAATGTAACAGTTAAAAAAT
Found at i:1440930 original size:21 final size:20
Alignment explanation
Indices: 1440875--1440932 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
1440865 TAAAAAATTA
*
1440875 ATTTAATTGATTCAATCAAT
1 ATTTAATTGATTTAATCAAT
1440895 ATTTAATTGATTTTAATCAAT
1 ATTTAATTGA-TTTAATCAAT
* *
1440916 TTTTAGTTCGATTTAAT
1 ATTTAATT-GATTTAAT
1440933 TAGTTCGTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 10 0.30
21 21 0.64
22 2 0.06
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.52
Consensus pattern (20 bp):
ATTTAATTGATTTAATCAAT
Found at i:1441303 original size:34 final size:32
Alignment explanation
Indices: 1441243--1441305 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
1441233 TTTAATGTTG
*
1441243 TTTAATTTTTCTATTTTATTGCTATATATTAA
1 TTTAATTTTTCTATTTTATTACTATATATTAA
* *
1441275 TTTAATATTTTGTATTTTTTTACTTATATAT
1 TTTAAT-TTTTCTATTTTATTAC-TATATAT
1441306 GCGGAAGATC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 6 0.23
33 13 0.50
34 7 0.27
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.65
Consensus pattern (32 bp):
TTTAATTTTTCTATTTTATTACTATATATTAA
Found at i:1444047 original size:37 final size:37
Alignment explanation
Indices: 1444005--1444079 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
1443995 TTTCCCTTAT
1444005 AACCAGGCCTAGCCGAATTTACTAGATGCTTATAGCA
1 AACCAGGCCTAGCCGAATTTACTAGATGCTTATAGCA
1444042 AACCAGGCCTAGCCGAATTTACTAGATGCTTATAGCA
1 AACCAGGCCTAGCCGAATTTACTAGATGCTTATAGCA
1444079 A
1 A
1444080 CCCATATATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (37 bp):
AACCAGGCCTAGCCGAATTTACTAGATGCTTATAGCA
Found at i:1446288 original size:18 final size:18
Alignment explanation
Indices: 1446261--1446316 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 18
1446251 AAAAAAAATC
1446261 AAAATAATTTTCAAAAATTT
1 AAAAT-ATTTT-AAAAATTT
*
1446281 -AAATATTTTTTAAAATTT
1 AAAATA-TTTTAAAAATTT
1446299 AAAATATTTATAAAAATT
1 AAAATATTT-TAAAAATT
1446317 CCAAAATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
18 11 0.35
19 20 0.65
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
AAAATATTTTAAAAATTT
Found at i:1446348 original size:10 final size:10
Alignment explanation
Indices: 1446333--1446371 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
1446323 TTTATATTTT
1446333 AAAAATTATA
1 AAAAATTATA
1446343 AAAAATATATA
1 AAAAAT-TATA
1446354 AAGAAATT-TA
1 AA-AAATTATA
1446364 AAAAATTA
1 AAAAATTA
1446372 ATCGTTTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
9 5 0.19
10 10 0.38
11 7 0.27
12 4 0.15
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (10 bp):
AAAAATTATA
Found at i:1446351 original size:23 final size:24
Alignment explanation
Indices: 1446302--1446352 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
1446292 AAAATTTAAA
* **
1446302 ATATTTATAAAAATTCCAAAATTT
1 ATATTTATAAAAATTACAAAAAAT
*
1446326 ATATTT-TAAAAATTATAAAAAAT
1 ATATTTATAAAAATTACAAAAAAT
1446349 ATAT
1 ATAT
1446353 AAAGAAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (24 bp):
ATATTTATAAAAATTACAAAAAAT
Found at i:1446455 original size:3 final size:3
Alignment explanation
Indices: 1446447--1446477 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
1446437 CTAAAGTTAC
1446447 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1446478 TTGCTTTGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:1449805 original size:9 final size:10
Alignment explanation
Indices: 1449791--1449828 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 10
1449781 ATCATATTAT
1449791 TTTTAAAT-A
1 TTTTAAATAA
1449800 TTTTAAATAA
1 TTTTAAATAA
1449810 TTCTTTAAATAA
1 -T-TTTAAATAA
1449822 TTTTAAA
1 TTTTAAA
1449829 GATATAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 8 0.31
10 7 0.27
11 2 0.08
12 9 0.35
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (10 bp):
TTTTAAATAA
Found at i:1453479 original size:23 final size:23
Alignment explanation
Indices: 1453435--1453480 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
1453425 ATATTACCAT
*
1453435 TATTATTATTATGTATTAGTATA
1 TATTATTATTATGTAGTAGTATA
*
1453458 TATTTTTATTATGTACGT-GTATA
1 TATTATTATTATGTA-GTAGTATA
1453481 CCTATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (23 bp):
TATTATTATTATGTAGTAGTATA
Found at i:1453747 original size:19 final size:19
Alignment explanation
Indices: 1453712--1453748 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1453702 ATATATTACC
**
1453712 TAAATATTTTAGTATTATG
1 TAAATATTTTAACATTATG
1453731 TAAATATTTTAACATTAT
1 TAAATATTTTAACATTAT
1453749 ATTATATATG
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:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (19 bp):
TAAATATTTTAACATTATG
Found at i:1459452 original size:34 final size:35
Alignment explanation
Indices: 1459408--1459474 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
1459398 CAGTAAAATA
* * *
1459408 TTTTCCGTAAAATGATTTCT-GGAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTATAGGAAAATATTTTAC
*
1459442 TTTTCTGTAAAATGACTTATAGGAAAATATTTT
1 TTTTCCGTAAAATGACTTATAGGAAAATATTTT
1459475 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 17 0.61
35 11 0.39
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTATAGGAAAATATTTTAC
Found at i:1459539 original size:32 final size:32
Alignment explanation
Indices: 1459464--1459540 Score: 93
Period size: 33 Copynumber: 2.4 Consensus size: 32
1459454 TGACTTATAG
* **
1459464 GAAAATATTTTCTGGTGTTTGATTGAATCTGT
1 GAAAATATTTTCTGCTGTTTGACAGAATCTGT
*
1459496 GTAAAATATTTTCTGCTGTTTGACAGATTTCT-T
1 G-AAAATATTTTCTGCTGTTTGACAGA-ATCTGT
1459529 GAAAATATTTTC
1 GAAAATATTTTC
1459541 CGGAAAAGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
32 12 0.31
33 24 0.62
34 3 0.08
ACGTcount: A:0.27, C:0.09, G:0.17, T:0.47
Consensus pattern (32 bp):
GAAAATATTTTCTGCTGTTTGACAGAATCTGT
Found at i:1465440 original size:63 final size:63
Alignment explanation
Indices: 1465362--1465490 Score: 222
Period size: 63 Copynumber: 2.0 Consensus size: 63
1465352 TCCAACTGAG
* * *
1465362 TATGTTCTGTTAACTATTATGTAACTGCTGTAACGCTAATTAAGTTGCGTGCACATACACAGT
1 TATGTTCCGTTAACTATTATGTAACCGCTGTAACGCTAATGAAGTTGCGTGCACATACACAGT
*
1465425 TATGTTCCGTTAACTATTATGTAACCGCTGTAACGCTAATGAAGTTGTGTGCACATACACAGT
1 TATGTTCCGTTAACTATTATGTAACCGCTGTAACGCTAATGAAGTTGCGTGCACATACACAGT
1465488 TAT
1 TAT
1465491 CAGGAAGACA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (63 bp):
TATGTTCCGTTAACTATTATGTAACCGCTGTAACGCTAATGAAGTTGCGTGCACATACACAGT
Found at i:1471705 original size:5 final size:5
Alignment explanation
Indices: 1471695--1471738 Score: 79
Period size: 5 Copynumber: 8.8 Consensus size: 5
1471685 AACAACTTAA
*
1471695 ATAAT ATAAT ATGAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA
1471739 ACTTAATCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:1471755 original size:10 final size:10
Alignment explanation
Indices: 1471695--1471755 Score: 50
Period size: 10 Copynumber: 6.0 Consensus size: 10
1471685 AACAACTTAA
*
1471695 ATAATATAAT
1 ATAAAATAAT
* *
1471705 ATGATATAAT
1 ATAAAATAAT
*
1471715 ATAATATAAT
1 ATAAAATAAT
*
1471725 ATAATATAAT
1 ATAAAATAAT
*
1471735 ATAAACTTAAT
1 ATAAA-ATAAT
*
1471746 CTAAAATAAT
1 ATAAAATAAT
1471756 TTGAAATTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
10 36 0.82
11 8 0.18
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (10 bp):
ATAAAATAAT
Found at i:1490170 original size:51 final size:51
Alignment explanation
Indices: 1490089--1490195 Score: 151
Period size: 51 Copynumber: 2.1 Consensus size: 51
1490079 TGATATGAGG
* ** *
1490089 TTGGAGCAGGCTGTTGAATCAAGAAAAGAAGTTGGAATATCGGGGAGAAGT
1 TTGGAACAGGCTGCCGAATCAAGAAAAGAAGTTGGAATAGCGGGGAGAAGT
* * *
1490140 TTGGAACAGGCTGCCGAATCTAGAAGAGAAGTTGGAATAGCTGGGAGAAGT
1 TTGGAACAGGCTGCCGAATCAAGAAAAGAAGTTGGAATAGCGGGGAGAAGT
1490191 TTGGA
1 TTGGA
1490196 GCCGAGCCAG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.34, C:0.09, G:0.36, T:0.21
Consensus pattern (51 bp):
TTGGAACAGGCTGCCGAATCAAGAAAAGAAGTTGGAATAGCGGGGAGAAGT
Found at i:1501112 original size:16 final size:17
Alignment explanation
Indices: 1501080--1501147 Score: 79
Period size: 16 Copynumber: 4.1 Consensus size: 17
1501070 AATGATTTTT
* *
1501080 TCCT-CCTCTCTCTCTC
1 TCCTCCCTCCCTCCCTC
*
1501096 TCC-CCCTCCCCCCCTC
1 TCCTCCCTCCCTCCCTC
1501112 TCCGTCCCTCCCTCCCTC
1 TCC-TCCCTCCCTCCCTC
1501130 -CCTCCCTCCCTCCCTC
1 TCCTCCCTCCCTCCCTC
1501146 TC
1 TC
1501148 TCTCTCTCAA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
16 29 0.66
17 3 0.07
18 12 0.27
ACGTcount: A:0.00, C:0.69, G:0.01, T:0.29
Consensus pattern (17 bp):
TCCTCCCTCCCTCCCTC
Found at i:1501125 original size:4 final size:4
Alignment explanation
Indices: 1501099--1501145 Score: 67
Period size: 4 Copynumber: 11.2 Consensus size: 4
1501089 CTCTCTCTCC
*
1501099 CCCT CCCC CCCT CTCCGT CCCT CCCT CCCT CCCT CCCT CCCT CCCT C
1 CCCT CCCT CCCT C-CC-T CCCT CCCT CCCT CCCT CCCT CCCT CCCT C
1501146 TCTCTCTCTC
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
4 33 0.85
5 4 0.10
6 2 0.05
ACGTcount: A:0.00, C:0.74, G:0.02, T:0.23
Consensus pattern (4 bp):
CCCT
Found at i:1501612 original size:19 final size:20
Alignment explanation
Indices: 1501585--1501625 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
1501575 AACAAACTTT
1501585 AATTAAAATCCAATTAATGG
1 AATTAAAATCCAATTAATGG
* *
1501605 AATT-AAATTCATTTAATGG
1 AATTAAAATCCAATTAATGG
1501624 AA
1 AA
1501626 ATTTAAGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.34
Consensus pattern (20 bp):
AATTAAAATCCAATTAATGG
Found at i:1503228 original size:103 final size:103
Alignment explanation
Indices: 1503062--1503249 Score: 286
Period size: 103 Copynumber: 1.8 Consensus size: 103
1503052 AATTGACGAG
* ***
1503062 GAGGTAAGCGATGGTAGTTTCTAAATCTCTAAAGAATTCAAGTGCTTATTTTGTTTGTAAGTAAA
1 GAGGTAAGCGATGGTAATTTCTAAATCTCTAAAGAATTCAAGTGCTTATTTTACCTGTAAGTAAA
1503127 GAAAAACTAATTATTAATGAGCATATCAAATTGGTGAA
66 GAAAAACTAATTATTAATGAGCATATCAAATTGGTGAA
* * *
1503165 GAGGTAAGCGATGGTAATTTCTAGATCTCTAAAGAATTCAAGTGTTTATTTTACCTGTGAGTAAA
1 GAGGTAAGCGATGGTAATTTCTAAATCTCTAAAGAATTCAAGTGCTTATTTTACCTGTAAGTAAA
* * *
1503230 TATAAACTACTTATTAATGA
66 GAAAAACTAATTATTAATGA
1503250 AGAGCACATC
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
103 75 1.00
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.35
Consensus pattern (103 bp):
GAGGTAAGCGATGGTAATTTCTAAATCTCTAAAGAATTCAAGTGCTTATTTTACCTGTAAGTAAA
GAAAAACTAATTATTAATGAGCATATCAAATTGGTGAA
Found at i:1505961 original size:150 final size:151
Alignment explanation
Indices: 1505690--1505995 Score: 497
Period size: 150 Copynumber: 2.0 Consensus size: 151
1505680 TTATGTCGGG
* * * *
1505690 CAACACGTCTAATAGTATTTACTTAAAGTACTTTCCTCTATTGGAGGGTCTCCATCGTACCGGTA
1 CAACACATCTAATAGTATTTACTTAAAGTACCTGCCTCTATTGGAGGATCTCCATCGTACCGGTA
* * *
1505755 CTTACAGTTGGGGAGCAACAGTGTTAGACATATTATACTGTGAGCTTTGTCGAACAACAAAACAC
66 CTTACAGCTGGGGAGCAACAATGTTAAACATATTATACTGTGAGCTTTGTCGAACAACAAAACAC
1505820 GGGGTAAGTAACAT-GCCGGA
131 GGGGTAAGTAACATGGCCGGA
*
1505840 CAACACATCTAATAGTATTTACTTAAAGTACCTGCCTCTATTGGAGGATCTCCATCGTACTGGTA
1 CAACACATCTAATAGTATTTACTTAAAGTACCTGCCTCTATTGGAGGATCTCCATCGTACCGGTA
* * *
1505905 TTTACAGCTGGGGATCAACAATGTTAAACATATTATACTGTGAGCTTTGTTGAACAACAAAACAC
66 CTTACAGCTGGGGAGCAACAATGTTAAACATATTATACTGTGAGCTTTGTCGAACAACAAAACAC
*
1505970 GGGGTAAGTAACATGGCTGGA
131 GGGGTAAGTAACATGGCCGGA
1505991 CAACA
1 CAACA
1505996 AAACACGGGG
Statistics
Matches: 143, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
150 133 0.93
151 10 0.07
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.28
Consensus pattern (151 bp):
CAACACATCTAATAGTATTTACTTAAAGTACCTGCCTCTATTGGAGGATCTCCATCGTACCGGTA
CTTACAGCTGGGGAGCAACAATGTTAAACATATTATACTGTGAGCTTTGTCGAACAACAAAACAC
GGGGTAAGTAACATGGCCGGA
Found at i:1506013 original size:31 final size:32
Alignment explanation
Indices: 1505958--1506020 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
1505948 GCTTTGTTGA
1505958 ACAACAAAACACGGGGTAAGTAACATGGCTGG
1 ACAACAAAACACGGGGTAAGTAACATGGCTGG
1505990 ACAACAAAACACGGGG-AAGTAACATGGCTGG
1 ACAACAAAACACGGGGTAAGTAACATGGCTGG
1506021 TTGTGTAGGG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 15 0.48
32 16 0.52
ACGTcount: A:0.41, C:0.19, G:0.29, T:0.11
Consensus pattern (32 bp):
ACAACAAAACACGGGGTAAGTAACATGGCTGG
Found at i:1506136 original size:2 final size:2
Alignment explanation
Indices: 1506124--1506172 Score: 89
Period size: 2 Copynumber: 24.0 Consensus size: 2
1506114 GTAAAACACG
1506124 TC TC ATC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC -TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1506167 TC TC TC
1 TC TC TC
1506173 ATCCTCTAAC
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 44 0.96
3 2 0.04
ACGTcount: A:0.02, C:0.49, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:1508124 original size:40 final size:40
Alignment explanation
Indices: 1508070--1508187 Score: 218
Period size: 40 Copynumber: 3.0 Consensus size: 40
1508060 CGGATGTAAC
* *
1508070 AACCAGCACAAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1508110 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1508150 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
1508188 TTTTTTTCCA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 76 1.00
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:1515992 original size:40 final size:40
Alignment explanation
Indices: 1515938--1516055 Score: 218
Period size: 40 Copynumber: 3.0 Consensus size: 40
1515928 CGGATGTAAC
* *
1515938 AACCAGCACAAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1515978 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1516018 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
1516056 TTTTTTTCCA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 76 1.00
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Done.