Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167933.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_196, whole genome shotgun sequence
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: 52939
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.44
File 1 of 2
Found at i:83 original size:10 final size:10
Alignment explanation
Indices: 68--92 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
58 GCATATTAAT
68 ATTAAAGATA
1 ATTAAAGATA
78 ATTAAAGATA
1 ATTAAAGATA
88 ATTAA
1 ATTAA
93 TATGACTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (10 bp):
ATTAAAGATA
Found at i:576 original size:18 final size:19
Alignment explanation
Indices: 542--582 Score: 75
Period size: 18 Copynumber: 2.2 Consensus size: 19
532 TTAATTTTAT
542 ATTAATTTAACATATATAA
1 ATTAATTTAACATATATAA
561 ATTAATTTAA-ATATATAA
1 ATTAATTTAACATATATAA
579 ATTA
1 ATTA
583 TTAATTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
ATTAATTTAACATATATAA
Found at i:596 original size:23 final size:22
Alignment explanation
Indices: 541--651 Score: 85
Period size: 23 Copynumber: 5.2 Consensus size: 22
531 TTTAATTTTA
541 TATTAAT-TTAACATATAT-AA-
1 TATTAATATTAA-ATATATAAAT
561 -ATTAAT-TTAAATATATAAAT
1 TATTAATATTAAATATATAAAT
* *
581 TATTAATTATTAAATATTTAATT
1 TATTAA-TATTAAATATATAAAT
* *
604 TATTAATATT-AATAAATATATT
1 TATTAATATTAAATATATA-AAT
*
626 TATTAA-ATTAATTTATATAAA-
1 TATTAATATTAA-ATATATAAAT
647 TATTA
1 TATTA
652 CATAAGTTAA
Statistics
Matches: 76, Mismatches: 7, Indels: 15
0.78 0.07 0.15
Matches are distributed among these distances:
18 6 0.08
19 12 0.16
21 19 0.25
22 16 0.21
23 23 0.30
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.50
Consensus pattern (22 bp):
TATTAATATTAAATATATAAAT
Found at i:1137 original size:180 final size:178
Alignment explanation
Indices: 726--1391 Score: 547
Period size: 181 Copynumber: 3.7 Consensus size: 178
716 TATCATTAAT
* * * * **
726 AATACTAATTTATTAATATTT--AAAAATTAATCAGTAAGAGATTTAAAAAGTAAATCTGGTTAC
1 AATACTAATTTAATAATATTTCAAAAAATTAATAACTAAGAGATTTAAAAAATAAATCTATTTAC
* * * ** * *
789 CAAACCATTTCAAATAGTTTTGACTATTTTAAAAATTATCTATTTCAAATCGTTATAACATTTTA
66 CGAACTAGTTCAAATAGTTAAGACTATTTGAATAATTATCTATTTCAAATCGTTATAACATTTT-
* * * ** *
854 TTTTATCATCAAACAATTGGTTTTGTT-TATACTATTTTATTCGAAATAAAATA
130 TTTTGTTATAAAACAATT-GTTTTGTTCTATA--AGCTTATTTG-AATAAAA-A
* * * * * * *
907 AA-ATTAATTTAATAATA-TTCTAAAACTTAATAACTAAGAAAATTAAAAAATAAATCTAATTGC
1 AATACTAATTTAATAATATTTCAAAAAATTAATAACTAAGAGATTTAAAAAATAAATCTATTTAC
* * * * * * *
970 TGAACTAGTTGAAATAGTTAAGACTATATGAATGATTATCTATTTTAAATCGTTATGACCTTTTC
66 CGAACTAGTTCAAATAGTTAAGACTATTTGAATAATTATCTATTTCAAATCGTTATAACATTTT-
* *
1035 TTTTGTTGTAAAACAATTGTTTTGTTCGTATAAGCTTATTTGTATTAAAAA
130 TTTTGTTATAAAACAATTGTTTTGTTC-TATAAGCTTATTTG-AATAAAAA
* *
1086 AATACTAATTTAATAATATTTC-AAAAATTAATAACTAAGAGATTTAAAAAATAAATTTGTTTAC
1 AATACTAATTTAATAATATTTCAAAAAATTAATAACTAAGAGATTTAAAAAATAAATCTATTTAC
* * * * * * * *
1150 CGAA-TCAATTCAAATGGTTAAAACTATTAGAGTAATTATCTATTTCAAATTGTTCTAATATTTT
66 CGAACT-AGTTCAAATAGTTAAGACTATTTGAATAATTATCTATTTCAAATCGTTATAACATTTT
* * * * **
1214 ATTTGCTTATAAAACAATCGTTTTAGTTCATAAAAGGTTATTTAGAATAAATT
130 TTTTG-TTATAAAACAATTGTTTT-GTTC-TATAAGCTTATTT-GAATAAAAA
* ** ** *
1267 AATACTAATTTAGTAA-CGTTCAAAAAATTAATAAAAAATAGATTTTAAAAAAATAAATCTATTT
1 AATACTAATTTAATAATATTTCAAAAAATTAATAACTAAGAGA-TTT-AAAAAATAAATCTATTT
* * * ** * * *
1331 ACTGAACAAGTACAAATAGTTATTACTATTTGAACAATTATCTATTTTAAATTGTTATAAC
64 ACCGAACTAGTTCAAATAGTTAAGACTATTTGAATAATTATCTATTTCAAATCGTTATAAC
1392 CTTTATTAAA
Statistics
Matches: 383, Mismatches: 88, Indels: 26
0.77 0.18 0.05
Matches are distributed among these distances:
179 10 0.03
180 149 0.39
181 154 0.40
182 8 0.02
183 62 0.16
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (178 bp):
AATACTAATTTAATAATATTTCAAAAAATTAATAACTAAGAGATTTAAAAAATAAATCTATTTAC
CGAACTAGTTCAAATAGTTAAGACTATTTGAATAATTATCTATTTCAAATCGTTATAACATTTTT
TTTGTTATAAAACAATTGTTTTGTTCTATAAGCTTATTTGAATAAAAA
Found at i:1385 original size:183 final size:180
Alignment explanation
Indices: 726--1391 Score: 513
Period size: 180 Copynumber: 3.7 Consensus size: 180
716 TATCATTAAT
* * * ** * ** *
726 AATACTAATTTATTAATA-TTTAAAAATTAATCAGTAAGAGATTTAAAAAGTAAATCTGGTTACC
1 AATACTAATTTAATAATAGTTCAAAAATTAATAAAAAAGAGATTTAAAAAATAAATCTATTTACT
* * * *** * * * *
790 AAACCATTTCAAATAGTTTTGACTATTTTAAAAATTATCTATTTCAAATCGTTATAACATTTT-A
66 GAACAAGTTCAAATAGTTAAAACTATTTGAATAATTATCTATTTTAAATTGTTATAACATTTTCA
* * * ** ** * *
854 TTT-TATCATCAAACAATTGGTTTTGTTTATACTATTTTATTCGAAATAAAATA
131 TTTGT-T-ATAAAACAA-TCGTTTTGTTCATAAAAGCTTATTTGTAATAAAA-A
* * ** * * * *
907 AA-ATTAATTTAATAATA-TTCTAAAACTTAATAACTAAGAAAATTAAAAAATAAATCTAATTGC
1 AATACTAATTTAATAATAGTTC-AAAAATTAATAAAAAAGAGATTTAAAAAATAAATCTATTTAC
* * * * * * * *
970 TGAACTAGTTGAAATAGTTAAGACTATATGAATGATTATCTATTTTAAATCGTTATGACCTTTTC
65 TGAACAAGTTCAAATAGTTAAAACTATTTGAATAATTATCTATTTTAAATTGTTATAACATTTTC
* * * * * *
1035 TTTTGTTGTAAAACAATTGTTTTGTTCGTATAAGCTTATTTGTATTAAAAA
130 ATTTGTTATAAAACAATCGTTTTGTTCATAAAAGCTTATTTGTAATAAAAA
* ** * * *
1086 AATACTAATTTAATAATATTTCAAAAATTAATAACTAAGAGATTTAAAAAATAAATTTGTTTACC
1 AATACTAATTTAATAATAGTTCAAAAATTAATAAAAAAGAGATTTAAAAAATAAATCTATTTACT
* * * * * *
1151 GAATCAA-TTCAAATGGTTAAAACTATTAGAGTAATTATCTATTTCAAATTGTTCTAATATTTT-
66 GAA-CAAGTTCAAATAGTTAAAACTATTTGAATAATTATCTATTTTAAATTGTTATAACATTTTC
* **
1214 ATTTGCTTATAAAACAATCGTTTTAGTTCATAAAAGGTTATTTAG-AATAAATT
130 ATTTG-TTATAAAACAATCGTTTT-GTTCATAAAAGCTTATTT-GTAATAAAAA
* * *
1267 AATACTAATTTAGTAA-CGTTCAAAAAATTAATAAAAAATAGATTTTAAAAAAATAAATCTATTT
1 AATACTAATTTAATAATAGTTC-AAAAATTAATAAAAAAGAGA-TTT-AAAAAATAAATCTATTT
* ** *
1331 ACTGAACAAGTACAAATAGTTATTACTATTTGAACAATTATCTATTTTAAATTGTTATAAC
63 ACTGAACAAGTTCAAATAGTTAAAACTATTTGAATAATTATCTATTTTAAATTGTTATAAC
1392 CTTTATTAAA
Statistics
Matches: 382, Mismatches: 90, Indels: 24
0.77 0.18 0.05
Matches are distributed among these distances:
179 7 0.02
180 153 0.40
181 149 0.39
182 11 0.03
183 62 0.16
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (180 bp):
AATACTAATTTAATAATAGTTCAAAAATTAATAAAAAAGAGATTTAAAAAATAAATCTATTTACT
GAACAAGTTCAAATAGTTAAAACTATTTGAATAATTATCTATTTTAAATTGTTATAACATTTTCA
TTTGTTATAAAACAATCGTTTTGTTCATAAAAGCTTATTTGTAATAAAAA
Found at i:1543 original size:21 final size:20
Alignment explanation
Indices: 1503--1554 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
1493 AATTAATTAA
* *
1503 AATATTAATTAATATTTTATT
1 AATATTAA-TAATATATTATC
1524 AATATTAATAACTATATTATC
1 AATATTAATAA-TATATTATC
*
1545 AATTTTAATA
1 AATATTAATA
1555 TTAATAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 3 0.11
21 24 0.89
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (20 bp):
AATATTAATAATATATTATC
Found at i:2665 original size:179 final size:177
Alignment explanation
Indices: 2258--2665 Score: 416
Period size: 179 Copynumber: 2.3 Consensus size: 177
2248 GTAAGTAGAA
* * * * *
2258 TTATTTTCTAAATCTCTTATAAATTTTTTAAATATTAATAAATTA-ATT-TTTTTCTATTCCAAA
1 TTATTTTTTAAATCTCTTATTAATTCTTAAAATATTAATAAATTATATTATTCTTCTATTCCAAA
*** *
2321 CAAGCTTCTATGCGTATAAATAATTGTTTTATGAAAAACAAAAGGTTATAACAAGTTGAAATAAA
66 CAAGCTTCTATGAACAAAAATAATTGTTTTATGAAAAACAAAAGGTTATAACAAGTTGAAATAAA
* * * * * **
2386 TAATTTTTCATATAGTCTAACTATTTGAACTAGTTTGACAAACAGAT
131 TAATTGTTCAAATAATCTAACTATTTAAACTAGATCAACAAACAGAT
* *
2433 TTATTTTTTAAATCTCATAGTT-ATTCATTTTCAAAATATTACTAAA-T-TATTATTACTT-TAT
1 TTATTTTTTAAATCTCTTA-TTAATTC---TT-AAAATATTAATAAATTATATTATT-CTTCTAT
* * * * * *
2494 TCTAAATAAGCTTGTATGAACAAAAATAATTGTTTTATGATAGAGC-AAAGGTTATAACAATTTG
60 TCCAAACAAGCTTCTATGAACAAAAATAATTGTTTTATGA-AAAACAAAAGGTTATAACAAGTTG
* * * *
2558 AAATAGATAATTGTTCAAATAATCATAACTATTTAAATTGGATCAACAAATAGAT
124 AAATAAATAATTGTTCAAATAATC-TAACTATTTAAACTAGATCAACAAACAGAT
* *
2613 TTCTTTTTTAAATCTCTTATTAATTCTTGAAATATTAATAAATTAGTATTATT
1 TTATTTTTTAAATCTCTTATTAATTCTTAAAATATTAATAAATTA-TATTATT
2666 TTATTTAGAA
Statistics
Matches: 187, Mismatches: 32, Indels: 24
0.77 0.13 0.10
Matches are distributed among these distances:
175 20 0.11
176 13 0.07
177 3 0.02
178 6 0.03
179 96 0.51
180 49 0.26
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.43
Consensus pattern (177 bp):
TTATTTTTTAAATCTCTTATTAATTCTTAAAATATTAATAAATTATATTATTCTTCTATTCCAAA
CAAGCTTCTATGAACAAAAATAATTGTTTTATGAAAAACAAAAGGTTATAACAAGTTGAAATAAA
TAATTGTTCAAATAATCTAACTATTTAAACTAGATCAACAAACAGAT
Found at i:3851 original size:142 final size:144
Alignment explanation
Indices: 3656--3925 Score: 373
Period size: 142 Copynumber: 1.9 Consensus size: 144
3646 TACTAAATTA
* * ** **
3656 TTATTTTTTAAATCTCTTAATTATTCATTTTTAGAATATTGCTAAATTAGTATTATTTTATTTTG
1 TTATTTTTTAAATCTCTTAATTA-T-ATTCTTAAAATATTAATAAATTAGTATTATTTTATTTCA
* * * *
3721 AATAAGCTTGTATGAACAGAAACAATTGTTTTATGATAGAACAAAAGGTTGTAACAATTTGAACT
64 AATAAGCTTGTATGAACAAAAACAATTGTTTTATGACAAAACAAAAGGTAGTAACAATTTGAACT
3786 AGTTCAATAAACTGAT
129 AGTTCAATAAACTGAT
* *
3802 TTATTTTTTAAATGTCTT-ATTA-ATTCTTAAAATATTAATAAATTGGTATTATTTTATTTCAAA
1 TTATTTTTTAAATCTCTTAATTATATTCTTAAAATATTAATAAATTAGTATTATTTTATTTCAAA
***
3865 TAAGCTTGTATGTTGAAAAACAATTGTTTTATGACAAAACAAAAGGTAGTAACAATTTGAA
66 TAAGCTTGTATGAACAAAAACAATTGTTTTATGACAAAACAAAAGGTAGTAACAATTTGAA
3926 ATAGATAGTT
Statistics
Matches: 109, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
142 88 0.81
145 4 0.04
146 17 0.16
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.43
Consensus pattern (144 bp):
TTATTTTTTAAATCTCTTAATTATATTCTTAAAATATTAATAAATTAGTATTATTTTATTTCAAA
TAAGCTTGTATGAACAAAAACAATTGTTTTATGACAAAACAAAAGGTAGTAACAATTTGAACTAG
TTCAATAAACTGAT
Found at i:4042 original size:182 final size:177
Alignment explanation
Indices: 3793--4138 Score: 415
Period size: 182 Copynumber: 1.9 Consensus size: 177
3783 ACTAGTTCAA
* *
3793 TAAACTGATTTATTTTTTAAATGTCTTATTAATTCTTAAAATATTAATAAATTGGTATTATTTTA
1 TAAACTGATTTATTTTTTAAATGTCTTATTAATTCTTAAAATATTAATAAAGTAGTATTATTTTA
* ***
3858 TTTCAAATAAGCTTGTATGTTGAAAAACAATTGTTTTATGACAAAACAAAAGGT-AGTAACAATT
66 TTTCAAATAAACTTGTATGAACAAAAACAATTGTTTTATGACAAAACAAAAGGTCA-TAACAATT
* * * * *
3922 TGAAATAGATAGTTGTTTAAATGGCTATAATTATTTGACCTGATTGGG
130 TGAAATAAATAATTGTTCAAATAGCCATAATTATTTGACCTGATTGGG
* * * *
3970 TAAACTGATTTATTCTTTTAAATTAGTTACTTATTGATTTTTGAAATATTACTAAAGTAGTATTA
1 TAAACTGATTTATT-TTTTAAA-T-G-T-CTTATTAATTCTTAAAATATTAATAAAGTAGTATTA
*** * * * *
4035 TTTTATTTTGGATAAACTTTTATGAACTAAAACAATTGTTTTATGACAAAACAAATGGTCATAAT
61 TTTTATTTCAAATAAACTTGTATGAACAAAAACAATTGTTTTATGACAAAACAAAAGGTCATAAC
* *
4100 TATTTTAAATAAATAATTGTTCAAATAGCCATAATTATT
126 AATTTGAAATAAATAATTGTTCAAATAGCCATAATTATT
4139 CAAACTTGTT
Statistics
Matches: 139, Mismatches: 24, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
177 14 0.10
178 7 0.05
179 1 0.01
180 1 0.01
181 1 0.01
182 114 0.82
183 1 0.01
ACGTcount: A:0.38, C:0.07, G:0.11, T:0.43
Consensus pattern (177 bp):
TAAACTGATTTATTTTTTAAATGTCTTATTAATTCTTAAAATATTAATAAAGTAGTATTATTTTA
TTTCAAATAAACTTGTATGAACAAAAACAATTGTTTTATGACAAAACAAAAGGTCATAACAATTT
GAAATAAATAATTGTTCAAATAGCCATAATTATTTGACCTGATTGGG
Found at i:4677 original size:27 final size:28
Alignment explanation
Indices: 4610--4677 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 28
4600 TTAGATATCT
4610 ATTAATTAATAAAAATCAATAATTAAAATA
1 ATTAA-TAAT-AAAATCAATAATTAAAATA
* * * *
4640 TTTAA-ATTAAAATCAAT-ATTCAGATA
1 ATTAATAATAAAATCAATAATTAAAATA
4666 ATTAATAATAAA
1 ATTAATAATAAA
4678 TTATAAGTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
26 11 0.35
27 14 0.45
28 2 0.06
30 4 0.13
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.35
Consensus pattern (28 bp):
ATTAATAATAAAATCAATAATTAAAATA
Found at i:4678 original size:26 final size:27
Alignment explanation
Indices: 4612--4678 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 27
4602 AGATATCTAT
4612 TAATTAATAA-AAATCAATAATTAAAA
1 TAATTAATAATAAATCAATAATTAAAA
* * * *
4638 TATTTAA-ATTAAAATCAAT-ATTCAGA
1 TAATTAATAAT-AAATCAATAATTAAAA
4664 TAATTAATAATAAAT
1 TAATTAATAATAAAT
4679 TATAAGTATT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
25 1 0.03
26 21 0.66
27 10 0.31
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.36
Consensus pattern (27 bp):
TAATTAATAATAAATCAATAATTAAAA
Found at i:5286 original size:22 final size:23
Alignment explanation
Indices: 5225--5363 Score: 81
Period size: 20 Copynumber: 6.5 Consensus size: 23
5215 TATTAATTTA
* *
5225 ATAATTATAATATTATTATATTT
1 ATAATTATAATATTATAATAATT
*
5248 TTAAATTCAT-ATGATTATATATAATT
1 AT-AATT-ATAAT-ATTATA-ATAATT
5274 AT-ATTA-AATATTA-AATAATT
1 ATAATTATAATATTATAATAATT
5294 ATAATTATAATATTAT--T-ATT
1 ATAATTATAATATTATAATAATT
*
5314 AT--TTTTAATATT-TAATAATT
1 ATAATTATAATATTATAATAATT
* * *
5334 A-AA-TATTATATTA-AATTAGT
1 ATAATTATAATATTATAATAATT
5354 ATAATT-TAAT
1 ATAATTATAAT
5364 CTCTTACTTA
Statistics
Matches: 90, Mismatches: 10, Indels: 34
0.67 0.07 0.25
Matches are distributed among these distances:
17 1 0.01
18 9 0.10
19 1 0.01
20 30 0.33
21 11 0.12
22 12 0.13
23 4 0.04
24 9 0.10
25 7 0.08
26 6 0.07
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (23 bp):
ATAATTATAATATTATAATAATT
Found at i:5315 original size:40 final size:38
Alignment explanation
Indices: 5271--5346 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 38
5261 ATTATATATA
5271 ATTATATTAAATATTAAATAATTATAATTATAATATTATT
1 ATTATATTAAATATTAAATAATTA-AA-TATAATATTATT
* * * *
5311 ATTATTTTTAATATTTAATAATTAAATATTATATTA
1 ATTATATTAAATATTAAATAATTAAATATAATATTA
5347 AATTAGTATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 9 0.28
39 2 0.06
40 21 0.66
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (38 bp):
ATTATATTAAATATTAAATAATTAAATATAATATTATT
Found at i:6203 original size:21 final size:21
Alignment explanation
Indices: 6182--6222 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
6172 ATCATAATAA
6182 TATTGATATAA-ATAAAATTAAT
1 TATT-ATATAACA-AAAATTAAT
6204 TATTATATAACAAAAATTA
1 TATTATATAACAAAAATTA
6223 TGAAATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (21 bp):
TATTATATAACAAAAATTAAT
Found at i:6407 original size:13 final size:13
Alignment explanation
Indices: 6389--6431 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
6379 TATTAACAAT
6389 TATAATAAATATA
1 TATAATAAATATA
6402 TATAAT-AAT-TA
1 TATAATAAATATA
*
6413 TAT-ATAATTATA
1 TATAATAAATATA
6425 TATAATA
1 TATAATA
6432 TAGTTTATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
10 2 0.08
11 7 0.27
12 8 0.31
13 9 0.35
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TATAATAAATATA
Found at i:6424 original size:23 final size:22
Alignment explanation
Indices: 6386--6431 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 22
6376 AATTATTAAC
6386 AATTATAATAAATATATATAAT
1 AATTATAATAAATATATATAAT
*
6408 AATTATATATAATTATATATAAT
1 AATTATA-ATAAATATATATAAT
6431 A
1 A
6432 TAGTTTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
AATTATAATAAATATATATAAT
Found at i:6833 original size:20 final size:19
Alignment explanation
Indices: 6741--6833 Score: 63
Period size: 20 Copynumber: 4.9 Consensus size: 19
6731 AATAAGTTTA
*
6741 TAATT-ATTATAT-ATAAA
1 TAATTAATTATATAATAAG
6758 T-ATTAAGTTCATAGTAATAAG
1 TAATTAA-TT-ATA-TAATAAG
*
6779 TATTTAATTATA-AAT-AG
1 TAATTAATTATATAATAAG
* *
6796 AAATATAA-TATTTAATAAG
1 TAAT-TAATTATATAATAAG
6815 TTAATTAATTATATAATAA
1 -TAATTAATTATATAATAA
6834 TTTATATATA
Statistics
Matches: 58, Mismatches: 7, Indels: 19
0.69 0.08 0.23
Matches are distributed among these distances:
16 3 0.05
17 9 0.16
18 11 0.19
19 8 0.14
20 16 0.28
21 7 0.12
22 4 0.07
ACGTcount: A:0.51, C:0.01, G:0.05, T:0.43
Consensus pattern (19 bp):
TAATTAATTATATAATAAG
Found at i:6850 original size:12 final size:12
Alignment explanation
Indices: 6822--6854 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
6812 AAGTTAATTA
6822 ATTATATAATAAT
1 ATTATAT-ATAAT
6835 -TTATATATAAT
1 ATTATATATAAT
6846 ATTATATAT
1 ATTATATAT
6855 TAATTATACT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.26
12 14 0.74
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
ATTATATATAAT
Found at i:7109 original size:18 final size:19
Alignment explanation
Indices: 7086--7138 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
7076 GAATATATTA
7086 ATTATAATAATATTATA-T
1 ATTATAATAATATTATAGT
* *
7104 ATTATAATCGTATTTTATAGT
1 ATTATAAT--AATATTATAGT
7125 ATTA-AATAATATTA
1 ATTATAATAATATTA
7139 ATTCATTAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
18 13 0.46
20 10 0.36
21 5 0.18
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (19 bp):
ATTATAATAATATTATAGT
Found at i:8797 original size:28 final size:27
Alignment explanation
Indices: 8765--8836 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 27
8755 AAATTAAGGC
8765 ATAATTTAAATTTAATTT-TTGTAAATT
1 ATAATTTAAATTTAATTTATT-TAAATT
*
8792 ATTAATATAAATTTAAATTTATTTAAATT
1 A-TAATTTAAATTT-AATTTATTTAAATT
8821 ATAA-TTAAATTTAATT
1 ATAATTTAAATTTAATT
8837 ATTATAACTT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
26 4 0.10
27 8 0.20
28 14 0.35
29 12 0.30
30 2 0.05
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (27 bp):
ATAATTTAAATTTAATTTATTTAAATT
Found at i:8835 original size:10 final size:10
Alignment explanation
Indices: 8804--8837 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
8794 TAATATAAAT
*
8804 TTAAATTTAT
1 TTAAATTTAA
8814 TTAAATTATAA
1 TTAAATT-TAA
8825 TTAAATTTAA
1 TTAAATTTAA
8835 TTA
1 TTA
8838 TTATAACTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
TTAAATTTAA
Found at i:9711 original size:29 final size:29
Alignment explanation
Indices: 9679--9766 Score: 81
Period size: 29 Copynumber: 2.9 Consensus size: 29
9669 ATTATATTTA
9679 ATAATAATATAATAATTATTAAAATAATT
1 ATAATAATATAATAATTATTAAAATAATT
* *
9708 ATAAT-TTAATAATAAATATTTAAAAT-ATT
1 ATAATAAT-ATAATAATTA-TTAAAATAATT
*
9737 ATATTTGAATATAATTAATTAATTAAAATA
1 ATA-AT-AATATAA-TAATT-ATTAAAATA
9767 GATAAATTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
28 1 0.02
29 20 0.43
30 8 0.17
31 4 0.09
32 12 0.26
33 1 0.02
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (29 bp):
ATAATAATATAATAATTATTAAAATAATT
Found at i:9713 original size:18 final size:19
Alignment explanation
Indices: 9668--9722 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
9658 ATCATAATTA
*
9668 AATTATATTTAATAATAAT
1 AATTATAATTAATAATAAT
* *
9687 -ATAATAATTATTAA-AAT
1 AATTATAATTAATAATAAT
9704 AATTATAATTTAATAATAA
1 AATTATAA-TTAATAATAA
9723 ATATTTAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
17 3 0.11
18 17 0.61
19 6 0.21
20 2 0.07
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AATTATAATTAATAATAAT
Found at i:9728 original size:14 final size:14
Alignment explanation
Indices: 9711--9809 Score: 51
Period size: 14 Copynumber: 6.8 Consensus size: 14
9701 AATAATTATA
9711 ATTTAATAATAAAT
1 ATTTAATAATAAAT
*
9725 ATTTAA-AATATTAT
1 ATTTAATAATA-AAT
*
9739 ATTTGAAT-ATAATT
1 ATTT-AATAATAAAT
* *
9753 AATTAATTAAAATAGATAA
1 ATTTAA-T--AATA-A-AT
* *
9772 ATTAAATTATAAAT
1 ATTTAATAATAAAT
9786 ATTTAATAATAAAT
1 ATTTAATAATAAAT
*
9800 A-ATAATAATA
1 ATTTAATAATA
9810 GCTTATGATA
Statistics
Matches: 63, Mismatches: 13, Indels: 19
0.66 0.14 0.20
Matches are distributed among these distances:
13 14 0.22
14 31 0.49
15 6 0.10
16 3 0.05
17 3 0.05
18 2 0.03
19 4 0.06
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (14 bp):
ATTTAATAATAAAT
Found at i:9751 original size:65 final size:62
Alignment explanation
Indices: 9669--9796 Score: 154
Period size: 61 Copynumber: 2.0 Consensus size: 62
9659 TCATAATTAA
* *
9669 ATTATATTTAATAATAATATAATAATTATTAAAATA-ATTATAATTTAATAATAAATATTTAA-A
1 ATTATATTTAATAATAAT-TAAT--TAATTAAAATAGA-TA-AATTAAATAATAAATATTTAATA
9732 AT
61 AT
*
9734 ATTATATTTGAAT-ATAATTAATTAATTAAAATAGATAAATTAAATTATAAATATTTAATAAT
1 ATTATATTT-AATAATAATTAATTAATTAAAATAGATAAATTAAATAATAAATATTTAATAAT
9796 A
1 A
9797 AATAATAATA
Statistics
Matches: 57, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
61 19 0.33
62 16 0.28
63 1 0.02
64 4 0.07
65 14 0.25
66 3 0.05
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (62 bp):
ATTATATTTAATAATAATTAATTAATTAAAATAGATAAATTAAATAATAAATATTTAATAAT
Found at i:9861 original size:21 final size:21
Alignment explanation
Indices: 9818--9914 Score: 53
Period size: 21 Copynumber: 4.8 Consensus size: 21
9808 TAGCTTATGA
* * *
9818 TAATATATTATATTTATTGTAT
1 TAATA-ATTTTATTAATTATAT
9840 TAATAATTTTATTAATTATAT
1 TAATAATTTTATTAATTATAT
* *
9861 TTATAA-CTTATCTAA-TA-AT
1 TAATAATTTTAT-TAATTATAT
* * *
9880 TAA-ATTTTTAATAATT-TAA
1 TAATAATTTTATTAATTATAT
9899 T-ATAATTTTATCTAAT
1 TAATAATTTTAT-TAAT
9915 AATTATTCAA
Statistics
Matches: 57, Mismatches: 12, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
18 5 0.09
19 16 0.28
20 10 0.18
21 21 0.37
22 5 0.09
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (21 bp):
TAATAATTTTATTAATTATAT
Found at i:10005 original size:26 final size:27
Alignment explanation
Indices: 9975--10045 Score: 76
Period size: 26 Copynumber: 2.7 Consensus size: 27
9965 TAAATAAAAT
9975 TATTAATACAATAAATATAATT-A-TTA
1 TATTAATA-AATAAATATAATTAATTTA
***
10001 TATTAATTTTTAAA-ATAATTAATTTA
1 TATTAATAAATAAATATAATTAATTTA
10027 TATTAATAAATATAATATA
1 TATTAATAAATA-AATATA
10046 TAATAATAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
24 6 0.17
25 5 0.14
26 19 0.54
27 2 0.06
28 3 0.09
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (27 bp):
TATTAATAAATAAATATAATTAATTTA
Found at i:10042 original size:19 final size:18
Alignment explanation
Indices: 10002--10078 Score: 86
Period size: 19 Copynumber: 4.2 Consensus size: 18
9992 TAATTATTAT
*
10002 ATTAATTTTTAA-AAT-A
1 ATTAATTTATAATAATAA
*
10018 ATTAATTTATATTAATAA
1 ATTAATTTATAATAATAA
*
10036 ATATAATATATAATAATAA
1 AT-TAATTTATAATAATAA
10055 ATTATATTTATAATATATAA
1 ATTA-ATTTATAATA-ATAA
10075 ATTA
1 ATTA
10079 TATATAATTA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
16 10 0.20
17 3 0.06
18 5 0.10
19 25 0.49
20 8 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTAATTTATAATAATAA
Found at i:10174 original size:22 final size:22
Alignment explanation
Indices: 10148--10208 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 22
10138 TTAATCAATA
* *
10148 ATAATTATTATAATTTATTTTT
1 ATAATTATTAAAAATTATTTTT
10170 ATAATTGA--AAAAATTATTTTT
1 ATAATT-ATTAAAAATTATTTTT
10191 AT-ATTATTAAATAATTAT
1 ATAATTATTAAA-AATTAT
10209 ATAAATTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
19 1 0.03
20 3 0.09
21 16 0.48
22 12 0.36
23 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
ATAATTATTAAAAATTATTTTT
Found at i:10224 original size:22 final size:22
Alignment explanation
Indices: 10199--10273 Score: 75
Period size: 22 Copynumber: 3.4 Consensus size: 22
10189 TTATATTATT
10199 AAATAATTATATAAATTAATTA
1 AAATAATTATATAAATTAATTA
10221 AAATAATTATATTAAATT-A-T-
1 AAATAATTATA-TAAATTAATTA
*
10241 AAATAATATATATAATTTATATTTA
1 AAATAAT-TATATAAATTA-A-TTA
*
10266 TAATAATT
1 AAATAATT
10274 TTAATATTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
20 12 0.27
21 5 0.11
22 13 0.30
23 6 0.14
24 2 0.05
25 6 0.14
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AAATAATTATATAAATTAATTA
Found at i:10286 original size:60 final size:63
Alignment explanation
Indices: 10222--10345 Score: 161
Period size: 60 Copynumber: 2.0 Consensus size: 63
10212 AATTAATTAA
10222 AATAATTATATTA-AATTATAAATAATA-TATA-TAATTTATATTTA-TAATAATT-T-TAATAT
1 AATAATTATATTATAATTAT-AATAATATTATATTAATTTAT-TTTACTAAT-ATTATATAATAT
10281 T
63 T
* *
10282 AATAATTATATTATTATTATAATTATATTATATTAATTTATTTTACTAATATTATATAATATT
1 AATAATTATATTATAATTATAATAATATTATATTAATTTATTTTACTAATATTATATAATATT
10345 A
1 A
10346 TAGTATCTAT
Statistics
Matches: 56, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
60 19 0.34
61 16 0.29
62 13 0.23
63 8 0.14
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (63 bp):
AATAATTATATTATAATTATAATAATATTATATTAATTTATTTTACTAATATTATATAATATT
Found at i:10311 original size:5 final size:5
Alignment explanation
Indices: 10286--10347 Score: 56
Period size: 5 Copynumber: 12.2 Consensus size: 5
10276 AATATTAATA
* *
10286 ATTAT ATTATT ATTAT AATTAT ATTAT ATTA- ATT-T ATTTT ACTAAT
1 ATTAT ATTA-T ATTAT -ATTAT ATTAT ATTAT ATTAT ATTAT A-TTAT
*
10332 ATTAT ATAAT ATTAT A
1 ATTAT ATTAT ATTAT A
10348 GTATCTATAT
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
4 6 0.13
5 28 0.60
6 13 0.28
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (5 bp):
ATTAT
Found at i:10322 original size:24 final size:24
Alignment explanation
Indices: 10226--10346 Score: 67
Period size: 24 Copynumber: 5.1 Consensus size: 24
10216 AATTAAAATA
* *
10226 ATTAT-ATTAAATTATAAATAATAT
1 ATTATAATTATATTAT-AATAATTT
10250 A-TATAATTTATATTTATAATAATTT
1 ATTATAA-TTATA-TTATAATAATTT
* *
10275 -TAAT-ATTAATAATTAT-ATTA-TT
1 ATTATAATT-AT-ATTATAATAATTT
*
10297 ATTATAATTATATTATATTAATTT
1 ATTATAATTATATTATAATAATTT
* * *
10321 ATTTTACTAATATTAT-ATAATATT
1 ATTATAATTATATTATAATAAT-TT
10345 AT
1 AT
10347 AGTATCTATA
Statistics
Matches: 75, Mismatches: 11, Indels: 22
0.69 0.10 0.20
Matches are distributed among these distances:
22 7 0.09
23 19 0.25
24 31 0.41
25 14 0.19
26 4 0.05
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (24 bp):
ATTATAATTATATTATAATAATTT
Found at i:10357 original size:24 final size:23
Alignment explanation
Indices: 10305--10369 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 23
10295 TTATTATAAT
**
10305 TATATTATATTAAT-TTATTTTAC
1 TATATTATA-TAATATTATAGTAC
10328 TAATATTATATAATATTATAGTATC
1 T-ATATTATATAATATTATAGTA-C
*
10353 TATATAATATAAATATT
1 TATATTATAT-AATATT
10370 CTATAATTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
23 5 0.14
24 22 0.63
25 8 0.23
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (23 bp):
TATATTATATAATATTATAGTAC
Found at i:10368 original size:35 final size:36
Alignment explanation
Indices: 10329--10416 Score: 94
Period size: 35 Copynumber: 2.5 Consensus size: 36
10319 TTATTTTACT
*
10329 AATATTATATAATATTATAGTAT-CT-ATATAATATA
1 AATATTATATAATATTATA-TATAATAATATAATATA
* *
10364 AATATTCTATAAT-TGATATATAATAATATAATATA
1 AATATTATATAATATTATATATAATAATATAATATA
*
10399 AACAATTA-ATAATATTAT
1 AA-TATTATATAATATTAT
10417 GAATTTTATG
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
33 3 0.07
34 5 0.12
35 29 0.67
36 6 0.14
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.43
Consensus pattern (36 bp):
AATATTATATAATATTATATATAATAATATAATATA
Found at i:10561 original size:20 final size:18
Alignment explanation
Indices: 10532--10570 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
10522 ATTTACAATG
10532 TTTATAATAAATAAACTTAA
1 TTTATAAT-AATAAA-TTAA
*
10552 TTTATTATAATAAATTAA
1 TTTATAATAATAAATTAA
10570 T
1 T
10571 ACTTCCTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 6 0.33
20 7 0.39
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
TTTATAATAATAAATTAA
Found at i:10770 original size:23 final size:20
Alignment explanation
Indices: 10738--10786 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
10728 ATATGGTATT
*
10738 TATAAAATAT-TAATATACTA
1 TATATAATATATAAT-TACTA
*
10758 TATAATAATATATAATTACTT
1 TAT-ATAATATATAATTACTA
10779 TATATAAT
1 TATATAAT
10787 TGTTATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 8 0.32
21 13 0.52
22 4 0.16
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (20 bp):
TATATAATATATAATTACTA
Found at i:11394 original size:18 final size:19
Alignment explanation
Indices: 11350--11398 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
11340 AGAGATTTAA
11350 CAAATAATTATGATTATTT
1 CAAATAATTATGATTATTT
* * *
11369 -GAACAATTAT-TTTATTT
1 CAAATAATTATGATTATTT
11386 CAAATAATTATGA
1 CAAATAATTATGA
11399 CCTTTTGTTT
Statistics
Matches: 22, Mismatches: 6, Indels: 4
0.69 0.19 0.12
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (19 bp):
CAAATAATTATGATTATTT
Found at i:11453 original size:151 final size:149
Alignment explanation
Indices: 11218--11507 Score: 352
Period size: 151 Copynumber: 1.9 Consensus size: 149
11208 TAAGACTATA
* ** *
11218 TGAACAATTATCTATTTTAAATTGTTATGACCTTTTGTTTTGTCATAAAACAATTTTTTCAATTC
1 TGAACAATTATCTATTTCAAATAATTATGACCTTTTGTTTTGTCATAAAACAATTTTTT-AATCC
* *
11283 ATACTAGCTTATTTAGAATAAAATAA-AATGAATTTATTAATATTTCAAAAATTAATAAGAGATT
65 ATACTAGCTTATTTAGAATAAAATAATAAT-AATATATTAATATTTCAAAAATTAATAAGAGATC
*
11347 TAACAAATAATTATGATTATT
129 TAAAAAATAATTATGATTATT
* *
11368 TGAACAATTATTTTATTTCAAATAATTATGACCTTTTGTTTTGTCATAAAACAAATGTTTTT-GT
1 TGAACAATTA-TCTATTTCAAATAATTATGACCTTTTGTTTTGTCATAAAAC-AAT-TTTTTAAT
* * * * * * * *
11432 CCATA-TAAGTTTGTTTGGAATAAATTAATACTACTATATTAATATTTTAAAAATTAATAATAGA
63 CCATACT-AGCTTATTTAGAATAAAATAATAATAATATATTAATATTTCAAAAATTAATAAGAGA
11496 TCTAAAAAATAA
127 TCTAAAAAATAA
11508 ATCTTTTTAG
Statistics
Matches: 118, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
150 11 0.09
151 97 0.82
152 5 0.04
153 5 0.04
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (149 bp):
TGAACAATTATCTATTTCAAATAATTATGACCTTTTGTTTTGTCATAAAACAATTTTTTAATCCA
TACTAGCTTATTTAGAATAAAATAATAATAATATATTAATATTTCAAAAATTAATAAGAGATCTA
AAAAATAATTATGATTATT
Found at i:11655 original size:22 final size:21
Alignment explanation
Indices: 11630--11705 Score: 59
Period size: 22 Copynumber: 3.5 Consensus size: 21
11620 TGATTAATCC
11630 TTAAATATTAATCTAATTCATT
1 TTAAATATTAATC-AATTCATT
* *
11652 TTAAAT-TTAATAGAAATAACATT
1 TTAAATATTAAT--CAAT-TCATT
*
11675 TTAAATTAATAA-CAATT-ATT
1 TTAAA-TATTAATCAATTCATT
11695 TTAAATATTAA
1 TTAAATATTAA
11706 AAATTATTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 13
0.69 0.10 0.21
Matches are distributed among these distances:
19 5 0.12
20 8 0.19
21 5 0.12
22 12 0.28
23 9 0.21
24 1 0.02
25 3 0.07
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.45
Consensus pattern (21 bp):
TTAAATATTAATCAATTCATT
Found at i:11712 original size:19 final size:20
Alignment explanation
Indices: 11644--11714 Score: 63
Period size: 19 Copynumber: 3.4 Consensus size: 20
11634 ATATTAATCT
11644 AATTCATTTTAAATTTAATAGAA
1 AATT-ATTTTAAA-TTAATA-AA
** *
11667 ATAACATTTTAAATTAATAAC
1 A-ATTATTTTAAATTAATAAA
*
11688 AATTATTTTAAA-TATTAAA
1 AATTATTTTAAATTAATAAA
11707 AATTATTT
1 AATTATTT
11715 ATATTTAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
19 13 0.32
20 9 0.22
21 2 0.05
22 6 0.15
23 9 0.22
24 1 0.03
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (20 bp):
AATTATTTTAAATTAATAAA
Found at i:11990 original size:28 final size:28
Alignment explanation
Indices: 11959--12018 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
11949 TAATAATTAA
*
11959 TTATTTTTAATTAATAAAATAATATTTC
1 TTATTATTAATTAATAAAATAATATTTC
** * *
11987 TTATTATTAATTTGTTAATTAATATTTC
1 TTATTATTAATTAATAAAATAATATTTC
12015 TTAT
1 TTAT
12019 GATATAATGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (28 bp):
TTATTATTAATTAATAAAATAATATTTC
Found at i:11992 original size:21 final size:21
Alignment explanation
Indices: 11945--11985 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11935 TTAATTTAAA
*
11945 TAATTAATAATTAATTATTTT
1 TAATTAATAAATAATTATTTT
11966 TAATTAATAAAATAA-TATTT
1 TAATTAAT-AAATAATTATTT
11986 CTTATTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TAATTAATAAATAATTATTTT
Found at i:12887 original size:180 final size:181
Alignment explanation
Indices: 12255--12936 Score: 529
Period size: 180 Copynumber: 3.8 Consensus size: 181
12245 AAAATTAATA
* * * * *
12255 AGATTTAAAAAATAAATATGTTAGTC-G-TACTAGTTCAAATAGTTA-AGACTATAAGAATAATT
1 AGATTTAAAAAATAAATGTGTTTGTCAGAT-C-AATTCAAATAGTTATA-ACTATTAGAACAATT
* * *
12317 ATCTATTTCAAATCATTCTA-TCATTTTGTTTAGTCATAAAACAATTATTTTAGT-TCATACAAG
63 ATCTATTTCAAATCATTC-AGACATTTTGTTTAGTCATAAAACAATTATTTT-TTATCATAAAAG
* * *
12380 CTTATTTGGAATAAAATAATACTAATTTATTAACATTCAAAAAATT-A-AAGCAAG
126 CTTATTTGAAATAAAATAATACTAATTTATTAATATTTAAAAAATTAATAAGCAAG
* * * * * ** *
12434 AGATTTAAAAAAATATATTTGTTT-ACTGAACAATTTCAAATAAATATGACTATTTA-AACAATT
1 AGATTT-AAAAAATAAATGTGTTTGTCAGATCAA-TTCAAATAGTTATAACTA-TTAGAACAATT
* * ** * * * *
12497 ATCTATTTAAAATTATTTTGACATTTTGTTTTGTCATAAAACAATTGTTTCAATTA--ATAAAAA
63 ATCTATTTCAAATCATTCAGACATTTTGTTTAGTCATAAAACAATTATTT--TTTATCATAAAAG
* * *
12560 CTTATTTGAAATAAAATAATACTACTTTATTAATATTTCAAAAATTATTAAGCAAG
126 CTTATTTGAAATAAAATAATACTAATTTATTAATATTTAAAAAATTAATAAGCAAG
* * * * * * * * * * *
12616 AGATTTAAAAACTAAA-GCTATTTTTCAAAGCAGTTCTAACAGTTATGACTATTTGAACAAATAT
1 AGATTTAAAAAATAAATG-TGTTTGTCAGATCAATTCAAATAGTTATAACTATTAGAACAATTAT
* * **
12680 -TAATCTCAAATCGTT-ATG--ATCTTTGTTTTTTCATAAAACAATTATTTTTTATCATATAAAG
65 CT-ATTTCAAATCATTCA-GACAT-TTTGTTTAGTCATAAAACAATTATTTTTTATCATA-AAAG
* * * ** *
12741 CTTA-TTCAAATAAAAACAATACTAATTTAATAATATTTTGAAAATTAATAAGTAAG
126 CTTATTTGAAAT-AAAATAATACTAATTTATTAATATTTAAAAAATTAATAAGCAAG
* * *
12797 AGATTTAAAAAATAAATGTGTTTGTC-GATCAATTCAATTAGTTA-AATTATTAGAATAATTATC
1 AGATTTAAAAAATAAATGTGTTTGTCAGATCAATTCAAATAGTTATAACTATTAGAACAATTATC
* * * * * * * *
12860 TATTTCAAATCGTTCAGACCTTTTGTTTAATCATAAAATAATTGTTTTTCAACATACAAGCTTAT
66 TATTTCAAATCATTCAGACATTTTGTTTAGTCATAAAACAATTATTTTTTATCATAAAAGCTTAT
12925 TTGAAATAAAAT
131 TTGAAATAAAAT
12937 TGTTTGTACT
Statistics
Matches: 390, Mismatches: 85, Indels: 56
0.73 0.16 0.11
Matches are distributed among these distances:
178 3 0.01
179 47 0.12
180 209 0.54
181 113 0.29
182 18 0.05
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.40
Consensus pattern (181 bp):
AGATTTAAAAAATAAATGTGTTTGTCAGATCAATTCAAATAGTTATAACTATTAGAACAATTATC
TATTTCAAATCATTCAGACATTTTGTTTAGTCATAAAACAATTATTTTTTATCATAAAAGCTTAT
TTGAAATAAAATAATACTAATTTATTAATATTTAAAAAATTAATAAGCAAG
Found at i:13314 original size:181 final size:179
Alignment explanation
Indices: 12947--13501 Score: 608
Period size: 181 Copynumber: 3.1 Consensus size: 179
12937 TGTTTGTACT
* * * *
12947 TTTTATTTTGTCATAAAACAATTATTTTTGAATGCATAAGTTTA-TCTGAAATAAAATAATGCTA
1 TTTTATTTTGTCATAAAACAATTATTTTTGATTGCATAAATTTATTC-AAAATAAAATAATACTA
* * * * *
13011 ATTTATTAATATTTTAAGAATT-AGT-AT--GAGATTCAAAAAATAAATCTGTTTACTGAATAAG
65 ATTTATTAATATTCTAA-AATTCA-TAATAAGAGATTTAAAAAATAAATTTGTTTATTGAACAAG
* **
13072 TTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATTGTTATAATA
128 TTCAAATAATTAAGACTATTTGAACAATTATCTATTTCAAATTGTTATAACC
* *
13124 TTTTGTTTTGTCATAAAATAATTATTTTTG-TTCGCATAAATTTATTCAAAATAAAATAATACTA
1 TTTTATTTTGTCATAAAACAATTATTTTTGATT-GCATAAATTTATTCAAAATAAAATAATACTA
* * *
13188 AATTAATAATATTCTAGAAATTCATAACTAAGAGATTTAAAAAATAAATTTGTTTATTGAACCAG
65 ATTTATTAATATTCTA-AAATTCATAA-TAAGAGATTTAAAAAATAAATTTGTTTATTGAACAAG
* ** * * * *
13253 TTTAAATCGTTAAGACTATATGAATAATTATCTATTTTAAATTGTTATGACC
128 TTCAAATAATTAAGACTATTTGAACAATTATCTATTTCAAATTGTTATAACC
* * * * * * *
13305 TTTTGTTTTGTTATAAAACAATTATTTTAGCTT--ATACAAGCTTATTCATAA-AAAATAAAACT
1 TTTTATTTTGTCATAAAACAATTATTTTTGATTGCATA-AA-TTTATTCAAAATAAAATAATACT
* * * * *
13367 AATTTATTAATATTCAAAAATTCATAAGTAAAAGATTTAAAAAATAATTTTATTTATTGAACTAG
64 AATTTATTAATATTCTAAAATTCATAA-TAAGAGATTTAAAAAATAAATTTGTTTATTGAACAAG
* *
13432 TTCAAATAATTATA-ACTATTTGAACAATTATATATTTCAATTTGTTATAACC
128 TTCAAATAATTA-AGACTATTTGAACAATTATCTATTTCAAATTGTTATAACC
13484 TTTTATTTTGTCATAAAA
1 TTTTATTTTGTCATAAAA
13502 TAATACTAAT
Statistics
Matches: 317, Mismatches: 49, Indels: 22
0.82 0.13 0.06
Matches are distributed among these distances:
176 1 0.00
177 71 0.22
178 5 0.02
179 104 0.33
180 27 0.09
181 107 0.34
182 2 0.01
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.43
Consensus pattern (179 bp):
TTTTATTTTGTCATAAAACAATTATTTTTGATTGCATAAATTTATTCAAAATAAAATAATACTAA
TTTATTAATATTCTAAAATTCATAATAAGAGATTTAAAAAATAAATTTGTTTATTGAACAAGTTC
AAATAATTAAGACTATTTGAACAATTATCTATTTCAAATTGTTATAACC
Found at i:14419 original size:120 final size:120
Alignment explanation
Indices: 14261--14498 Score: 331
Period size: 120 Copynumber: 2.0 Consensus size: 120
14251 TTAAAAAATG
** * **
14261 AATCTATTTACTGAACAAATTCAAATAGTTATAGCTATTTGAACAATTATTTATTTCAAATTGCT
1 AATCTATTTACCAAACAAATTCAAATAGTTATAGCTATTTGAACAATTATTTATCTCAAATCACT
14326 ATGACC-TTATGTTTTGTCATAAAACAATT-TTTTCTATTCATACAAA-CTTATTTCA
66 ATGACCTTTA-GTTTTGTCATAAAACAATTATTTT-TATTCATA-AAAGCTTATTTCA
* * *
14381 AATCTATTTACCAAATAAGTTCAAATAGTTAT-GACTATTTGAACAATTATTTATCTCAAATCAT
1 AATCTATTTACCAAACAAATTCAAATAGTTATAG-CTATTTGAACAATTATTTATCTCAAATCAC
*
14445 TATGACCTTTAGTTTTGTCATAAAACAATTATTTTTGTTCATAAAAGCTTATTT
65 TATGACCTTTAGTTTTGTCATAAAACAATTATTTTTATTCATAAAAGCTTATTT
14499 AGATTAAAAT
Statistics
Matches: 105, Mismatches: 9, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
119 4 0.04
120 94 0.90
121 7 0.07
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.43
Consensus pattern (120 bp):
AATCTATTTACCAAACAAATTCAAATAGTTATAGCTATTTGAACAATTATTTATCTCAAATCACT
ATGACCTTTAGTTTTGTCATAAAACAATTATTTTTATTCATAAAAGCTTATTTCA
Found at i:15646 original size:19 final size:20
Alignment explanation
Indices: 15602--15648 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
15592 TACTAAAGTA
* *
15602 AATTAATAATTATTTAGATT
1 AATTATTAATTAATTAGATT
*
15622 -AGTATTAATTAATTA-ATT
1 AATTATTAATTAATTAGATT
15640 AATTATTAA
1 AATTATTAA
15649 CCAATTATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (20 bp):
AATTATTAATTAATTAGATT
Found at i:15905 original size:20 final size:21
Alignment explanation
Indices: 15872--15929 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 21
15862 AAATAAATTT
*
15872 ATTATA-TAATTTATTAATA-G
1 ATTATATTAA-TTATTAATATA
*
15892 ATTATATTTATTA-TAATATA
1 ATTATATTAATTATTAATATA
*
15912 ATTGTATTAATTATTAAT
1 ATTATATTAATTATTAAT
15930 TATTAAATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
19 5 0.16
20 20 0.65
21 6 0.19
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (21 bp):
ATTATATTAATTATTAATATA
Found at i:16230 original size:18 final size:18
Alignment explanation
Indices: 16207--16247 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
16197 TAATTTATAA
*
16207 TATAAATTATAAATTAAT
1 TATAAAATATAAATTAAT
*
16225 TATAAAATATTAATTAAT
1 TATAAAATATAAATTAAT
*
16243 AATAA
1 TATAA
16248 TTAATTATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TATAAAATATAAATTAAT
Found at i:16254 original size:18 final size:15
Alignment explanation
Indices: 16218--16255 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
16208 ATAAATTATA
16218 AATTAATTATAAAAT
1 AATTAATTATAAAAT
*
16233 -ATTAATTA-ATAAT
1 AATTAATTATAAAAT
16246 AATTAATTAT
1 AATTAATTAT
16256 TATCATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTAATTATAAAAT
Found at i:16271 original size:55 final size:54
Alignment explanation
Indices: 16164--16272 Score: 123
Period size: 55 Copynumber: 2.0 Consensus size: 54
16154 ATAACTAACT
* * * *
16164 ATTAATTAAATATTTTAATTATATTATATTTAATAATTTATAATATAAATTATAA
1 ATTAATTAAAAATATTAATTATATAATAATTAATAATTTATAATAT-AATTATAA
*
16219 ATTAATTATAAAATATTAATTA-ATAATAATTAATTATTATCATAATAT-ATTATA
1 ATTAATTA-AAAATATTAATTATATAATAATTAATAATT-T-ATAATATAATTATA
16273 TTATTCTAGT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
55 27 0.59
56 12 0.26
57 7 0.15
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (54 bp):
ATTAATTAAAAATATTAATTATATAATAATTAATAATTTATAATATAATTATAA
Found at i:16305 original size:28 final size:26
Alignment explanation
Indices: 16268--16326 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
16258 TCATAATATA
* *
16268 TTATATTATTCTAGTCATACTATAAAT
1 TTATAATATTATA-TCATACTATAAAT
* *
16295 TATATAATATTATATTATCCTATAAAT
1 T-TATAATATTATATCATACTATAAAT
16322 TTATA
1 TTATA
16327 GGATATTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 4 0.15
27 13 0.48
28 10 0.37
ACGTcount: A:0.41, C:0.08, G:0.02, T:0.49
Consensus pattern (26 bp):
TTATAATATTATATCATACTATAAAT
Found at i:16426 original size:15 final size:17
Alignment explanation
Indices: 16394--16434 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
16384 CAAATAGTAA
16394 TATTAAT-TATTAATAT
1 TATTAATATATTAATAT
16410 TATTAATAT-TTAA-AT
1 TATTAATATATTAATAT
*
16425 TAATAATATA
1 TATTAATATA
16435 ATTTATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 10 0.45
16 11 0.50
17 1 0.05
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATTAATATATTAATAT
Found at i:16657 original size:26 final size:23
Alignment explanation
Indices: 16625--16709 Score: 70
Period size: 24 Copynumber: 3.6 Consensus size: 23
16615 TAATCATGTG
16625 AAATATTTATATTAATAGATATAAT
1 AAATATTTATATTAATA-AT-TAAT
16650 -AATATATTAGTATTAATAATTAAT
1 AAATAT-TTA-TATTAATAATTAAT
*
16674 AAAAATTTAT-TTATTATAACTT-AT
1 AAATATTTATATTA--ATAA-TTAAT
16698 AAA-ATTTATATT
1 AAATATTTATATT
16710 TGAATAAATT
Statistics
Matches: 52, Mismatches: 1, Indels: 15
0.76 0.01 0.22
Matches are distributed among these distances:
22 3 0.06
23 7 0.13
24 23 0.44
25 11 0.21
26 8 0.15
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.47
Consensus pattern (23 bp):
AAATATTTATATTAATAATTAAT
Found at i:16692 original size:24 final size:24
Alignment explanation
Indices: 16660--16706 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
16650 AATATATTAG
16660 TATTAATAA-TTAATAAAAATTTATT
1 TATTAATAACTT-AT-AAAATTTATT
16685 TATT-ATAACTTATAAAATTTAT
1 TATTAATAACTTATAAAATTTAT
16707 ATTTGAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 9 0.43
24 6 0.29
25 6 0.29
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (24 bp):
TATTAATAACTTATAAAATTTATT
Found at i:16801 original size:27 final size:26
Alignment explanation
Indices: 16767--16817 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
16757 AAGTAATAAT
*
16767 TATATAATATATTTAATAATTATTAC
1 TATATAATATATCTAATAATTATTAC
*
16793 TATACTAATTTATCTAATAATTATT
1 TATA-TAATATATCTAATAATTATT
16818 TTATTAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (26 bp):
TATATAATATATCTAATAATTATTAC
Found at i:16825 original size:24 final size:25
Alignment explanation
Indices: 16765--16826 Score: 63
Period size: 27 Copynumber: 2.4 Consensus size: 25
16755 ATAAGTAATA
* *
16765 ATTATATAATATATTTAATAATTATT
1 ATTAT-TAATTTATCTAATAATTATT
*
16791 ACTATACTAATTTATCTAATAATTATT
1 A-T-TATTAATTTATCTAATAATTATT
16818 -TTATTAATT
1 ATTATTAATT
16827 ATAATTATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
24 7 0.23
25 1 0.03
26 1 0.03
27 19 0.63
28 2 0.07
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (25 bp):
ATTATTAATTTATCTAATAATTATT
Found at i:17020 original size:19 final size:18
Alignment explanation
Indices: 16992--17033 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 18
16982 TTATTTGGAT
*
16992 ATTATTATTAATTAGTATA
1 ATTATAATTAATTA-TATA
17011 ATTATAATTAATTATATA
1 ATTATAATTAATTATATA
17029 ATTAT
1 ATTAT
17034 TTAAATCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
ATTATAATTAATTATATA
Found at i:17037 original size:16 final size:16
Alignment explanation
Indices: 16990--17037 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
16980 ATTTATTTGG
*
16990 ATATTATTA-TTAATT
1 ATATAATTATTTAATT
17005 AGTATAATTATAATTAATT
1 A-TATAATTAT--TTAATT
17024 ATATAATTATTTAA
1 ATATAATTATTTAA
17038 ATCATAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 1 0.04
16 11 0.39
18 9 0.32
19 7 0.25
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATAATTATTTAATT
Found at i:17680 original size:20 final size:20
Alignment explanation
Indices: 17652--17689 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
17642 TATTAATTAT
*
17652 TAATTATTTTAATATAATAA
1 TAATAATTTTAATATAATAA
*
17672 TAATAATTTTTATATAAT
1 TAATAATTTTAATATAAT
17690 TTATTAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TAATAATTTTAATATAATAA
Found at i:17736 original size:15 final size:15
Alignment explanation
Indices: 17664--17765 Score: 71
Period size: 15 Copynumber: 7.3 Consensus size: 15
17654 ATTATTTTAA
*
17664 TATAATAATAATAAT
1 TATATTAATAATAAT
17679 T-T-TT-AT-ATAAT
1 TATATTAATAATAAT
*
17690 T-TATTAAT-TTAAGT
1 TATATTAATAATAA-T
* *
17704 TATATTAATAACATT
1 TATATTAATAATAAT
17719 TATATTAATAATAAT
1 TATATTAATAATAAT
17734 TATA--AATAATAA-
1 TATATTAATAATAAT
17746 TATTATTAA-AATGAAT
1 TA-TATTAATAAT-AAT
17762 TATA
1 TATA
17766 ATATAACCAT
Statistics
Matches: 70, Mismatches: 7, Indels: 20
0.72 0.07 0.21
Matches are distributed among these distances:
11 7 0.10
12 6 0.09
13 16 0.23
14 6 0.09
15 32 0.46
16 3 0.04
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (15 bp):
TATATTAATAATAAT
Found at i:17741 original size:28 final size:28
Alignment explanation
Indices: 17721--17782 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
17711 ATAACATTTA
*
17721 TATTAATAAT-AATTATAAATAATAATAT
1 TATTAA-AATGAATTATAAATAACAATAT
* *
17749 TATTAAAATGAATTATAATATAACCATAA
1 TATTAAAATGAATTATAA-ATAACAATAT
17778 TATTA
1 TATTA
17783 TAATTTGATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 3 0.10
28 14 0.48
29 12 0.41
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (28 bp):
TATTAAAATGAATTATAAATAACAATAT
Found at i:17847 original size:19 final size:18
Alignment explanation
Indices: 17775--17852 Score: 63
Period size: 19 Copynumber: 4.3 Consensus size: 18
17765 AATATAACCA
**
17775 TAAT-ATTATAATTTGAT
1 TAATAATTATAATTAAAT
17792 T-ATAATT-TAATTAATAT
1 TAATAATTATAATTAA-AT
* **
17809 TAACTAATAATGTTTAAAT
1 TAA-TAATTATAATTAAAT
17828 TAATAATTATAATTATAAT
1 TAATAATTATAATTA-AAT
17847 TAATAA
1 TAATAA
17853 ATACAATCAA
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
16 7 0.15
17 7 0.15
18 10 0.21
19 18 0.38
20 5 0.11
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (18 bp):
TAATAATTATAATTAAAT
Found at i:17866 original size:19 final size:19
Alignment explanation
Indices: 17824--17866 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
17814 AATAATGTTT
* * *
17824 AAATTAATAATTATAATTA
1 AAATTAATAAATACAATCA
*
17843 TAATTAATAAATACAATCA
1 AAATTAATAAATACAATCA
17862 AAATT
1 AAATT
17867 TAACTATTTA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
AAATTAATAAATACAATCA
Found at i:18527 original size:15 final size:15
Alignment explanation
Indices: 18507--18557 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
18497 GTATATTTCA
*
18507 AATTAATTAATTAAT
1 AATTAATTAACTAAT
18522 AATTAATTAACTAAT
1 AATTAATTAACTAAT
18537 GATATT-ATTCAAC-AAT
1 -A-ATTAATT-AACTAAT
18553 AATTA
1 AATTA
18558 TAATTAATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
14 3 0.10
15 15 0.48
16 7 0.23
17 6 0.19
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.41
Consensus pattern (15 bp):
AATTAATTAACTAAT
Found at i:18656 original size:78 final size:77
Alignment explanation
Indices: 18519--18661 Score: 170
Period size: 78 Copynumber: 1.8 Consensus size: 77
18509 TTAATTAATT
*
18519 AATAATTAATTAACTAATGATATTATTCAACAATAATTATAATTAATTATAATATTTTATCATAT
1 AATAATTAATTAACTAATGATATAATTCAACAATAATTATAATTAATTATAATATTTTAT-ATAT
18584 ATTCGATAATAAC
65 ATTCGATAATAAC
* *
18597 AATAATTATTTAACTACAT-ATATAATT-AA-TATAATTAT-ATATAATTATTTAAT-TATTTAT
1 AATAATTAATTAACTA-ATGATATAATTCAACAATAATTATAAT-TAATTA--TAATAT-TTTAT
18657 ATATA
61 ATATA
18662 ATTAATATAA
Statistics
Matches: 57, Mismatches: 3, Indels: 11
0.80 0.04 0.15
Matches are distributed among these distances:
75 2 0.04
76 14 0.25
77 8 0.14
78 31 0.54
79 2 0.04
ACGTcount: A:0.48, C:0.06, G:0.01, T:0.45
Consensus pattern (77 bp):
AATAATTAATTAACTAATGATATAATTCAACAATAATTATAATTAATTATAATATTTTATATATA
TTCGATAATAAC
Found at i:18657 original size:22 final size:22
Alignment explanation
Indices: 18622--18707 Score: 115
Period size: 22 Copynumber: 4.0 Consensus size: 22
18612 ACATATATAA
18622 TTAATATAATTATATATAATTAT
1 TTAAT-TAATTATATATAATTAT
*
18645 TTAATTATTTATATATAATTA-
1 TTAATTAATTATATATAATTAT
*
18666 AT-A-TAATTATATATAATTAT
1 TTAATTAATTATATATAATTAT
*
18686 TTAATTATTTATATATAATTAT
1 TTAATTAATTATATATAATTAT
18708 ATATGTTAGC
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
19 15 0.27
20 2 0.04
21 2 0.04
22 31 0.56
23 5 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TTAATTAATTATATATAATTAT
Found at i:18671 original size:41 final size:41
Alignment explanation
Indices: 18598--18711 Score: 187
Period size: 41 Copynumber: 2.8 Consensus size: 41
18588 GATAATAACA
* *
18598 ATAATTATTTAACTA--CATATATAATTAATATAATTATAT
1 ATAATTATTTAATTATTTATATATAATTAATATAATTATAT
18637 ATAATTATTTAATTATTTATATATAATTAATATAATTATAT
1 ATAATTATTTAATTATTTATATATAATTAATATAATTATAT
18678 ATAATTATTTAATTATTTATATATAATTATATAT
1 ATAATTATTTAATTATTTATATATAATTA-ATAT
18712 GTTAGCTTTA
Statistics
Matches: 70, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
39 14 0.20
41 52 0.74
42 4 0.06
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (41 bp):
ATAATTATTTAATTATTTATATATAATTAATATAATTATAT
Found at i:18708 original size:8 final size:8
Alignment explanation
Indices: 18615--18710 Score: 74
Period size: 8 Copynumber: 11.8 Consensus size: 8
18605 TTTAACTACA
18615 TATATAAT
1 TATATAAT
18623 TAATATAATT
1 T-ATATAA-T
18633 ATATATAAT
1 -TATATAAT
*
18642 TATTTAAT
1 TATATAAT
*
18650 TAT-TTA-
1 TATATAAT
18656 TATATAAT
1 TATATAAT
18664 TAATATAATT
1 T-ATATAA-T
18674 ATATATAAT
1 -TATATAAT
*
18683 TATTTAAT
1 TATATAAT
*
18691 TAT-TTA-
1 TATATAAT
18697 TATATAAT
1 TATATAAT
18705 TATATA
1 TATATA
18711 TGTTAGCTTT
Statistics
Matches: 72, Mismatches: 6, Indels: 20
0.73 0.06 0.20
Matches are distributed among these distances:
6 6 0.08
7 8 0.11
8 28 0.39
9 14 0.19
10 14 0.19
11 2 0.03
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (8 bp):
TATATAAT
Found at i:20629 original size:15 final size:13
Alignment explanation
Indices: 20593--20639 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
20583 AAAATAATTT
20593 TGATTAATTTTTA
1 TGATTAATTTTTA
20606 -GATTTAATTATTTA
1 TGA-TTAATT-TTTA
20620 CTGATTAATTTTTA
1 -TGATTAATTTTTA
*
20634 TAATTA
1 TGATTA
20640 TTAAAATTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
12 2 0.07
13 11 0.38
14 8 0.28
15 6 0.21
16 2 0.07
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.57
Consensus pattern (13 bp):
TGATTAATTTTTA
Found at i:21001 original size:24 final size:25
Alignment explanation
Indices: 20955--21009 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 25
20945 TAATTAAATT
*
20955 TATAATTATAAATTAATAGATTACA
1 TATAATTATAAATTAATAAATTACA
*
20980 TATAACTTAT-AA-TAATAAATTATA
1 TATAA-TTATAAATTAATAAATTACA
21004 TATAAT
1 TATAAT
21010 ATTATATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 1 0.04
24 15 0.56
25 7 0.26
26 4 0.15
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (25 bp):
TATAATTATAAATTAATAAATTACA
Found at i:21009 original size:17 final size:17
Alignment explanation
Indices: 20987--21025 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
20977 ACATATAACT
20987 TATAATAATAAATTATA
1 TATAATAATAAATTATA
* *
21004 TATAATATTATATTATA
1 TATAATAATAAATTATA
21021 T-TAAT
1 TATAAT
21026 TAAATAGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TATAATAATAAATTATA
Found at i:21352 original size:30 final size:29
Alignment explanation
Indices: 21298--21362 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 29
21288 ATAATAGTTA
*
21298 ATTAAATAAATACTTAATTTATTTAATAT
1 ATTAAATAAATACTTAAATTATTTAATAT
*
21327 ATTAAATAAATTCTTATAATTATTTAATAT
1 ATTAAATAAATACTTA-AATTATTTAATAT
*
21357 AATAAA
1 ATTAAA
21363 ATATTAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (29 bp):
ATTAAATAAATACTTAAATTATTTAATAT
Found at i:21592 original size:20 final size:19
Alignment explanation
Indices: 21541--21604 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
21531 AAATATTAGT
*
21541 TATT-TAATAATTATCAAT
1 TATTATAATAATTATCAAA
21559 TA-TATGAATAAATTATCCAAA
1 TATTAT-AAT-AATTAT-CAAA
*
21580 TATTATAATAATTATAATAA
1 TATTATAATAATTATCA-AA
21600 TATTA
1 TATTA
21605 GTTATAAAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
17 1 0.03
18 3 0.08
19 4 0.11
20 19 0.50
21 8 0.21
22 3 0.08
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.44
Consensus pattern (19 bp):
TATTATAATAATTATCAAA
Found at i:21723 original size:20 final size:20
Alignment explanation
Indices: 21698--21815 Score: 70
Period size: 20 Copynumber: 6.0 Consensus size: 20
21688 AAATTTATTT
*
21698 ATATTACTTATTAATAATAA
1 ATATTAATTATTAATAATAA
* *
21718 ATATTAATTATTTATTATAA
1 ATATTAATTATTAATAATAA
* *
21738 ATTTTAA-T-TT-ATCATAA
1 ATATTAATTATTAATAATAA
* * *
21755 ATATTAATAATTACT-ATTA
1 ATATTAATTATTAATAATAA
21774 ATATTTAATTTAATTAAT-ATAA
1 ATA-TTAA-TT-ATTAATAATAA
*
21796 GT-TTAAATTATTAA-AATAA
1 ATATT-AATTATTAATAATAA
21815 A
1 A
21816 AATAATTAAT
Statistics
Matches: 76, Mismatches: 14, Indels: 17
0.71 0.13 0.16
Matches are distributed among these distances:
17 12 0.16
18 2 0.03
19 18 0.24
20 32 0.42
21 3 0.04
22 9 0.12
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (20 bp):
ATATTAATTATTAATAATAA
Found at i:21749 original size:17 final size:17
Alignment explanation
Indices: 21727--21812 Score: 57
Period size: 17 Copynumber: 4.8 Consensus size: 17
21717 AATATTAATT
21727 ATTTATTATAAATTTTA
1 ATTTATTATAAATTTTA
* *
21744 ATTTATCATAAATATTA
1 ATTTATTATAAATTTTA
* *
21761 ATAATTACTATTAATATTTA
1 AT--TTATTATAAAT-TTTA
*
21781 ATTTAATTAATATAAGTTTA
1 ATTT-ATT-ATA-AATTTTA
*
21801 AATTATTA-AAAT
1 ATTTATTATAAAT
21813 AAAAATAATT
Statistics
Matches: 52, Mismatches: 11, Indels: 13
0.68 0.14 0.17
Matches are distributed among these distances:
16 2 0.04
17 18 0.35
18 3 0.06
19 13 0.25
20 14 0.27
21 2 0.04
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (17 bp):
ATTTATTATAAATTTTA
Found at i:21755 original size:37 final size:37
Alignment explanation
Indices: 21714--21785 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
21704 CTTATTAATA
* *
21714 ATAAATATTAATTATTTATTATAAAT-TTTAATTTATC
1 ATAAATATTAA-TAATTACTATAAATATTTAATTTATC
*
21751 ATAAATATTAATAATTACTATTAATATTTAATTTA
1 ATAAATATTAATAATTACTATAAATATTTAATTTA
21786 ATTAATATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
36 11 0.35
37 20 0.65
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (37 bp):
ATAAATATTAATAATTACTATAAATATTTAATTTATC
Found at i:21992 original size:33 final size:30
Alignment explanation
Indices: 21934--21993 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 30
21924 CTTAATTATT
21934 ATTAATATTTATTTTTAAAATTAAATATAA
1 ATTAATATTTATTTTTAAAATTAAATATAA
21964 ATTAAT-TTATATTATTTAATAATATAAATA
1 ATTAATATT-TATT-TTTAA-AAT-TAAATA
21994 ATTATTATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 2 0.08
30 10 0.38
31 5 0.19
32 3 0.12
33 6 0.23
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (30 bp):
ATTAATATTTATTTTTAAAATTAAATATAA
Found at i:22014 original size:12 final size:12
Alignment explanation
Indices: 21953--22132 Score: 70
Period size: 12 Copynumber: 14.5 Consensus size: 12
21943 TATTTTTAAA
*
21953 ATTAA-ATATAA
1 ATTAATATATAT
*
21964 ATTAATTTATATT
1 ATTAATATATA-T
21977 ATTTAATA-ATAT
1 A-TTAATATATAT
*
21989 AAATAATTATTATAT
1 -ATTAA-TA-TATAT
*
22004 ATTAATCTATAT
1 ATTAATATATAT
22016 ATT-ATATA-AT
1 ATTAATATATAT
* *
22026 ATTATTATATTT
1 ATTAATATATAT
* *
22038 ATTTATCTATCAT
1 ATTAATATAT-AT
*
22051 ATTAAT-TATTTT
1 ATTAATATA-TAT
*
22063 AATTAATACTATAA
1 -ATTAATA-TATAT
22077 ATTAATAATTATAAT
1 ATTAAT-A-TAT-AT
*
22092 ATTAATA-ATTT
1 ATTAATATATAT
*
22103 ATTAAACATATATT
1 ATT-AATATATA-T
22117 ATTAATA-AT-T
1 ATTAATATATAT
22127 ATTAAT
1 ATTAAT
22133 TTATTGTAAA
Statistics
Matches: 127, Mismatches: 23, Indels: 39
0.67 0.12 0.21
Matches are distributed among these distances:
10 12 0.09
11 17 0.13
12 34 0.27
13 32 0.25
14 19 0.15
15 13 0.10
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.51
Consensus pattern (12 bp):
ATTAATATATAT
Found at i:22021 original size:17 final size:17
Alignment explanation
Indices: 22001--22058 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
21991 ATAATTATTA
22001 TATATTAATCTATATAT
1 TATATTAATCTATATAT
*
22018 TATA-TAATATTATTATAT
1 TATATTAAT-CTA-TATAT
*
22036 T-TATTTATCTATCATAT
1 TATATTAATCTAT-ATAT
22053 TA-ATTA
1 TATATTA
22059 TTTTAATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
16 5 0.16
17 18 0.56
18 9 0.28
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (17 bp):
TATATTAATCTATATAT
Found at i:22031 original size:25 final size:25
Alignment explanation
Indices: 22003--22132 Score: 69
Period size: 25 Copynumber: 5.3 Consensus size: 25
21993 AATTATTATA
22003 TATTAATCTATATATTATATAATAT
1 TATTAATCTATATATTATATAATAT
* * * *
22028 TATTATATTTATTTA-TCTATCATAT
1 TATTA-ATCTATATATTATATAATAT
* * *
22053 TAATTATTTTA-ATTAATACTATAA-AT
1 T-ATTAATCTATA-TATTA-TATAATAT
*
22079 TAATAAT-TATAATATTA-ATAAT-T
1 TATTAATCTAT-ATATTATATAATAT
*
22102 TATTAAAC-ATATATTAT-TAATAAT
1 TATTAATCTATATATTATATAAT-AT
22126 TATTAAT
1 TATTAAT
22133 TTATTGTAAA
Statistics
Matches: 79, Mismatches: 14, Indels: 25
0.67 0.12 0.21
Matches are distributed among these distances:
22 10 0.13
23 12 0.15
24 9 0.11
25 28 0.35
26 16 0.20
27 4 0.05
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.52
Consensus pattern (25 bp):
TATTAATCTATATATTATATAATAT
Found at i:22043 original size:10 final size:11
Alignment explanation
Indices: 21971--22043 Score: 50
Period size: 10 Copynumber: 7.1 Consensus size: 11
21961 TAAATTAATT
21971 TATATTATTTA
1 TATATTATTTA
* **
21982 -ATAATATAAA
1 TATATTATTTA
21992 TA-ATTA-TTA
1 TATATTATTTA
*
22001 TATATTAATCTA
1 TATATT-ATTTA
*
22013 TATATTATATA
1 TATATTATTTA
22024 -ATATTA-TTA
1 TATATTATTTA
22033 TAT-TTATTTA
1 TATATTATTTA
22043 T
1 T
22044 CTATCATATT
Statistics
Matches: 47, Mismatches: 9, Indels: 13
0.68 0.13 0.19
Matches are distributed among these distances:
9 8 0.17
10 25 0.53
11 6 0.13
12 8 0.17
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (11 bp):
TATATTATTTA
Found at i:22309 original size:36 final size:36
Alignment explanation
Indices: 22269--22337 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
22259 TACGATTATA
* *
22269 ATATTTATTTA-AATAATAAATAATTATAA-ATAAGGT
1 ATATTAATTTATAA-AAT-AATAACTATAATATAAGGT
22305 ATATTAATTTATAAAATAATAACTATAATATAA
1 ATATTAATTTATAAAATAATAACTATAATATAA
22338 TTATAAGATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 10 0.34
36 17 0.59
37 2 0.07
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (36 bp):
ATATTAATTTATAAAATAATAACTATAATATAAGGT
Found at i:23472 original size:14 final size:14
Alignment explanation
Indices: 23429--23528 Score: 53
Period size: 14 Copynumber: 7.8 Consensus size: 14
23419 AATAACTAGA
23429 TAATATTATAATTA-
1 TAATA-TATAATTAT
*
23443 -AATATATTA-TATT
1 TAATATATAATTA-T
23456 TAATATATAATTAT
1 TAATATATAATTAT
*
23470 TAA-ATA-AA-AAT
1 TAATATATAATTAT
*
23481 TAATTTATAATTAT
1 TAATATATAATTAT
*
23495 AAAT-TATAA--AT
1 TAATATATAATTAT
23506 T-AT-TATAATTAAT
1 TAATATATAATT-AT
23519 TAAT-TATAAT
1 TAATATATAAT
23529 AAATTAGCAT
Statistics
Matches: 68, Mismatches: 7, Indels: 22
0.70 0.07 0.23
Matches are distributed among these distances:
10 7 0.10
11 9 0.13
12 8 0.12
13 17 0.25
14 25 0.37
15 2 0.03
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TAATATATAATTAT
Found at i:23503 original size:27 final size:27
Alignment explanation
Indices: 23455--23534 Score: 82
Period size: 25 Copynumber: 3.1 Consensus size: 27
23445 TATATTATAT
*
23455 TTAATATATAATTATTAA--ATAAAAA
1 TTAATTTATAATTATTAATTATAAAAA
*
23480 TTAATTTATAATTATAAATTAT--AAA
1 TTAATTTATAATTATTAATTATAAAAA
23505 TT-A-TTATAATTAATTAATTATAATAAA
1 TTAATTTATAATT-ATTAATTATAA-AAA
23532 TTA
1 TTA
23535 GCATTAATTT
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
23 8 0.18
24 9 0.20
25 21 0.47
27 7 0.16
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (27 bp):
TTAATTTATAATTATTAATTATAAAAA
Found at i:23512 original size:17 final size:17
Alignment explanation
Indices: 23490--23534 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
23480 TTAATTTATA
23490 ATTATAAATTATAAATT
1 ATTATAAATTATAAATT
*
23507 ATTAT-AATTAATTAATT
1 ATTATAAATT-ATAAATT
*
23524 ATAATAAATTA
1 ATTATAAATTA
23535 GCATTAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 4 0.17
17 16 0.67
18 4 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTATAAATTATAAATT
Found at i:23533 original size:14 final size:14
Alignment explanation
Indices: 23500--23534 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
23490 ATTATAAATT
23500 ATAAATT-ATTATA
1 ATAAATTAATTATA
*
23513 ATTAATTAATTATA
1 ATAAATTAATTATA
23527 ATAAATTA
1 ATAAATTA
23535 GCATTAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
ATAAATTAATTATA
Found at i:23937 original size:17 final size:17
Alignment explanation
Indices: 23915--23953 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
23905 ATAATTATTT
*
23915 TATATTAACTT-ATTTAA
1 TATATTAA-TTAATTAAA
23932 TATATTAATTAATTAAA
1 TATATTAATTAATTAAA
23949 TATAT
1 TATAT
23954 AAGTTAATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 2 0.10
17 18 0.90
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (17 bp):
TATATTAATTAATTAAA
Found at i:24138 original size:15 final size:15
Alignment explanation
Indices: 24118--24170 Score: 56
Period size: 15 Copynumber: 3.4 Consensus size: 15
24108 AATATATTTA
24118 ATTATATTAATTAAT
1 ATTATATTAATTAAT
24133 ATTATATTAATTTAAT
1 ATTATATTAA-TTAAT
24149 AATTA-ATT-ATTGAAT
1 -ATTATATTAATT-AAT
24164 AGTTATA
1 A-TTATA
24171 ATATTATATT
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
14 3 0.09
15 17 0.52
16 9 0.27
17 4 0.12
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (15 bp):
ATTATATTAATTAAT
Found at i:25239 original size:25 final size:27
Alignment explanation
Indices: 25205--25254 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
25195 ATTAACTAAT
*
25205 AATAATTAATATATTAT-ACAATTAAA
1 AATAATTAATAAATTATGACAATTAAA
25231 AATAA-TAATAAATTATGACAATTA
1 AATAATTAATAAATTATGACAATTA
25255 TTATATTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (27 bp):
AATAATTAATAAATTATGACAATTAAA
Found at i:25325 original size:23 final size:24
Alignment explanation
Indices: 25273--25334 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 24
25263 TATCAATAAT
*
25273 TAATATAATATTAAATTAGATTATA
1 TAAT-TAATAATAAATTAGATTATA
* *
25298 CAATTAATAATACATTA-ATTATA
1 TAATTAATAATAAATTAGATTATA
*
25321 TAATTAATACTAAA
1 TAATTAATAATAAA
25335 CAAGATTTAG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
23 17 0.55
24 11 0.35
25 3 0.10
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (24 bp):
TAATTAATAATAAATTAGATTATA
Found at i:25378 original size:18 final size:19
Alignment explanation
Indices: 25345--25380 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
25335 CAAGATTTAG
*
25345 TAATTGTTATTAATTATAA
1 TAATTGTTAATAATTATAA
25364 TAATT-TTAATAATTATA
1 TAATTGTTAATAATTATA
25381 TGAATTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
TAATTGTTAATAATTATAA
Found at i:25386 original size:18 final size:18
Alignment explanation
Indices: 25355--25392 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
25345 TAATTGTTAT
*
25355 TAATTATAATAATTTTAA
1 TAATTATAATAATTATAA
25373 TAATTAT-ATGAATTATAA
1 TAATTATAAT-AATTATAA
25391 TA
1 TA
25393 TAATTAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
TAATTATAATAATTATAA
Found at i:26074 original size:15 final size:15
Alignment explanation
Indices: 26054--26137 Score: 52
Period size: 15 Copynumber: 5.7 Consensus size: 15
26044 AATTAATATT
26054 ATTAATTA-TAAAGTA
1 ATTAATTATTAAA-TA
26069 ATTAATTATTAAATA
1 ATTAATTATTAAATA
*
26084 AATAA-T-TT-AAT-
1 ATTAATTATTAAATA
* *
26095 ATTTATTATAAAAATA
1 ATTAATTAT-TAAATA
* *
26111 AATATATAATTAAATA
1 ATTA-ATTATTAAATA
26127 GATTAATTATT
1 -ATTAATTATT
26138 TTAATATATT
Statistics
Matches: 51, Mismatches: 10, Indels: 15
0.67 0.13 0.20
Matches are distributed among these distances:
11 3 0.06
12 4 0.08
13 3 0.06
14 1 0.02
15 17 0.33
16 16 0.31
17 7 0.14
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (15 bp):
ATTAATTATTAAATA
Found at i:27730 original size:33 final size:32
Alignment explanation
Indices: 27679--27766 Score: 89
Period size: 31 Copynumber: 2.9 Consensus size: 32
27669 ATTATAATAT
27679 TATAT-TATT-AAAAT-TATTAATTAATATTTA
1 TATATGTATTAAAAATATATTAA-TAATATTTA
*
27709 TA-ATGTATTAAAAAATATATTAATATTA-TTA
1 TATATGTATT-AAAAATATATTAATAATATTTA
* *
27740 TATATTTATTAATAATATATT-ATAATA
1 TATATGTATTAAAAATATATTAATAATA
27767 ATATATCAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
29 2 0.04
30 11 0.22
31 15 0.31
32 15 0.31
33 6 0.12
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (32 bp):
TATATGTATTAAAAATATATTAATAATATTTA
Found at i:27794 original size:41 final size:44
Alignment explanation
Indices: 27703--27811 Score: 118
Period size: 41 Copynumber: 2.6 Consensus size: 44
27693 TATTAATTAA
* * * * * *
27703 TATTTATAATGTATTA-AAAAATATATTAATATTATTATATATT
1 TATTAATAATATATTATAATAATATATCAATATTATCATATAAT
27746 TATTAATAATATATTATAATAATATATCAATATTA-CA-ATAAT
1 TATTAATAATATATTATAATAATATATCAATATTATCATATAAT
* *
27788 TA-TAATAATATATAATATTAATAT
1 TATTAATAATATATTATAATAATAT
27812 TAATTTAATT
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
41 20 0.35
42 6 0.11
43 15 0.26
44 16 0.28
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (44 bp):
TATTAATAATATATTATAATAATATATCAATATTATCATATAAT
Found at i:27813 original size:33 final size:32
Alignment explanation
Indices: 27746--27910 Score: 106
Period size: 33 Copynumber: 5.0 Consensus size: 32
27736 ATTATATATT
* *
27746 TATT-AATAATATATTATAATA-AT-ATATCAA
1 TATTAAATAAT-TATAATAATATATAATATTAA
27776 TATTACAATAATTATAATAATATATAATATTAA
1 TATTA-AATAATTATAATAATATATAATATTAA
* * * *
27809 TATTAATTTAATTTAATTAATAATATTTAATCTTCA
1 TATTAA-ATAA-TT-A-TAATAATATATAATATTAA
* * * *
27845 TTTATAAATATAGTATAATAATATCTAAT-TTAT
1 TAT-TAAATA-ATTATAATAATATATAATATTAA
*
27878 TAGTTAAATTAATTATAATAATATGTAA-ATTAA
1 TA-TTAAA-TAATTATAATAATATATAATATTAA
27911 ACAAAAAATA
Statistics
Matches: 106, Mismatches: 16, Indels: 23
0.73 0.11 0.16
Matches are distributed among these distances:
30 4 0.04
31 9 0.08
32 9 0.08
33 39 0.37
34 18 0.17
35 2 0.02
36 21 0.20
37 4 0.04
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (32 bp):
TATTAAATAATTATAATAATATATAATATTAA
Found at i:27815 original size:28 final size:28
Alignment explanation
Indices: 27725--27820 Score: 94
Period size: 28 Copynumber: 3.5 Consensus size: 28
27715 ATTAAAAAAT
* * *
27725 ATATTAA-TATTATTATATAT-TTATTA
1 ATATTAATTATAATAATATATAATATTA
*
27751 ATAATATATTATAATAATATATCAATATTA
1 ATATTA-ATTATAATAATATAT-AATATTA
27781 CA-A-TAATTATAATAATATATAATATTA
1 -ATATTAATTATAATAATATATAATATTA
27808 ATATTAATT-TAAT
1 ATATTAATTATAAT
27821 TTAATTAATA
Statistics
Matches: 59, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
26 6 0.10
27 13 0.22
28 31 0.53
29 2 0.03
30 6 0.10
31 1 0.02
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (28 bp):
ATATTAATTATAATAATATATAATATTA
Found at i:28365 original size:9 final size:9
Alignment explanation
Indices: 28351--28379 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
28341 CTTGTTTGAT
28351 ATTATATTA
1 ATTATATTA
28360 ATTATATTA
1 ATTATATTA
28369 ATTAT-TTA
1 ATTATATTA
28377 ATT
1 ATT
28380 TTTAGTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 6 0.30
9 14 0.70
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
ATTATATTA
Found at i:28708 original size:17 final size:17
Alignment explanation
Indices: 28680--28746 Score: 64
Period size: 18 Copynumber: 3.8 Consensus size: 17
28670 AAATTAAATC
28680 TATTTAAATAAT-TGATAT
1 TATTT-AATAATAT-ATAT
28698 TATTTAATAATATATAT
1 TATTTAATAATATATAT
*
28715 TATATTAATAATCTAATAT
1 TAT-TTAATAATAT-ATAT
* *
28734 AAATTAATAATAT
1 TATTTAATAATAT
28747 TTTATATAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
17 13 0.31
18 24 0.57
19 5 0.12
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (17 bp):
TATTTAATAATATATAT
Found at i:28779 original size:27 final size:27
Alignment explanation
Indices: 28728--28802 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 27
28718 ATTAATAATC
*
28728 TAATATAAA-TT-A-ATAATATTTTATA
1 TAATATAAATTTAATATAATA-TCTATA
* *
28753 TAA-ATTAATTTACATATTATATCTATA
1 TAATATAAATTTA-ATATAATATCTATA
28780 TAATATAAATTTAATATAATATC
1 TAATATAAATTTAATATAATATC
28803 ATTATGAACA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
24 4 0.10
25 5 0.12
27 18 0.45
28 13 0.32
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (27 bp):
TAATATAAATTTAATATAATATCTATA
Found at i:28999 original size:14 final size:14
Alignment explanation
Indices: 28982--29023 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
28972 TTATTAATAT
*
28982 ATTATAATTTATTA
1 ATTATAATATATTA
*
28996 ATTATTAGTATA-TA
1 ATTA-TAATATATTA
29010 ATTATAATATATTA
1 ATTATAATATATTA
29024 TTTCTTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 6 0.26
14 12 0.52
15 5 0.22
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (14 bp):
ATTATAATATATTA
Found at i:29013 original size:28 final size:25
Alignment explanation
Indices: 28962--29023 Score: 72
Period size: 28 Copynumber: 2.4 Consensus size: 25
28952 ATAAACAAAT
*
28962 TAATATAAT-ATTATTAATATATTA
1 TAATATATTAATTATTAATATATTA
*
28986 TAATTTATTAATTATTAGTATATAATTA
1 TAATATATTAATTATTA--ATAT-ATTA
29014 TAATATATTA
1 TAATATATTA
29024 TTTCTTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
24 7 0.23
25 7 0.23
27 4 0.13
28 13 0.42
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATATTAATTATTAATATATTA
Found at i:29077 original size:20 final size:20
Alignment explanation
Indices: 29054--29121 Score: 50
Period size: 20 Copynumber: 3.2 Consensus size: 20
29044 TATATATTAC
29054 TTTATTTTATAAAATTGATA
1 TTTATTTTATAAAATTGATA
* *
29074 TTTAAATCTCTTATTATATATT-A-C
1 TTT--AT-T-TTA-TA-AAATTGATA
29098 TTTATTTTATAAAATTGATA
1 TTTATTTTATAAAATTGATA
29118 TTTA
1 TTTA
29122 AATCTCTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 16
0.64 0.07 0.29
Matches are distributed among these distances:
18 4 0.11
19 3 0.08
20 10 0.28
21 1 0.03
22 4 0.11
23 1 0.03
24 6 0.17
25 3 0.08
26 4 0.11
ACGTcount: A:0.37, C:0.04, G:0.03, T:0.56
Consensus pattern (20 bp):
TTTATTTTATAAAATTGATA
Found at i:29087 original size:24 final size:24
Alignment explanation
Indices: 29060--29131 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 24
29050 TTACTTTATT
29060 TTATAAAATTGATATTTAAATCTC
1 TTATAAAATTGATATTTAAATCTC
* *
29084 TTATTATATATT-A-CTTT--AT-T-
1 TTA-TA-AAATTGATATTTAAATCTC
29104 TTATAAAATTGATATTTAAATCTC
1 TTATAAAATTGATATTTAAATCTC
29128 TTAT
1 TTAT
29132 TAATTTTCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 16
0.64 0.07 0.29
Matches are distributed among these distances:
18 4 0.11
19 3 0.08
20 6 0.17
21 1 0.03
22 4 0.11
23 1 0.03
24 10 0.28
25 3 0.08
26 4 0.11
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.53
Consensus pattern (24 bp):
TTATAAAATTGATATTTAAATCTC
Found at i:29100 original size:44 final size:44
Alignment explanation
Indices: 29044--29133 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
29034 TAATATTTAA
29044 TATATATTACTTTATTTTATAAAATTGATATTTAAATCTCTTAT
1 TATATATTACTTTATTTTATAAAATTGATATTTAAATCTCTTAT
29088 TATATATTACTTTATTTTATAAAATTGATATTTAAATCTCTTAT
1 TATATATTACTTTATTTTATAAAATTGATATTTAAATCTCTTAT
29132 TA
1 TA
29134 ATTTTCAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.54
Consensus pattern (44 bp):
TATATATTACTTTATTTTATAAAATTGATATTTAAATCTCTTAT
Found at i:29994 original size:21 final size:24
Alignment explanation
Indices: 29969--30018 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
29959 TATTAATACA
*
29969 ATTATTT-ATTAA-TAATTA-TTT
1 ATTATTTAATAAATTAATTATTTT
29990 ATTATTTAATAAATTAATTATTTT
1 ATTATTTAATAAATTAATTATTTT
30014 ATTAT
1 ATTAT
30019 AATAATATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 7 0.28
22 4 0.16
23 6 0.24
24 8 0.32
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
ATTATTTAATAAATTAATTATTTT
Found at i:30492 original size:30 final size:30
Alignment explanation
Indices: 30406--30492 Score: 90
Period size: 30 Copynumber: 2.9 Consensus size: 30
30396 ATATAGATTT
* *
30406 TAATAATAATTATA-TTAGTTATATATTAAA
1 TAATAATAATTATATTTA-ATATAAATTAAA
*
30436 -AATAATCAATTAT-TATAATATAAAATTAAA
1 TAATAAT-AATTATATTTAATAT-AAATTAAA
*
30466 TAATACTAATTATATTTAATATAAATT
1 TAATAATAATTATATTTAATATAAATT
30493 TTCAAACTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
29 9 0.19
30 26 0.55
31 12 0.26
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (30 bp):
TAATAATAATTATATTTAATATAAATTAAA
Found at i:30911 original size:177 final size:177
Alignment explanation
Indices: 30591--31288 Score: 636
Period size: 176 Copynumber: 3.9 Consensus size: 177
30581 ATTTTAAACG
* * * *
30591 GATAATTATT-TAAATAGTCATATCTATTTGAAATTGTTTAGTAAACAGATTTATTTTTTTAAAT
1 GATAATTATTCT-AATAGTCTTAACTATTTGAACTTGTTTAGTAAATA-ATTTA-TTTTTTAAAT
* * * *
30655 CTCTTGCTTTAATTTTTTG-AATGTTAATAAATTAATATTATTTTATTCCAAATAAGCTTGTATG
63 CTCTT--ATTAA-TTTTTGAAATATTAATAAATTAGTATTATTTTATTCCGAATAAGCTTGTATG
* * *
30719 AACTGAAATAATTGTTTTATGACT-AAACAAAAGGAT-AGAATGATTTGAAATA
125 AACAGAAACAATTGTTTTATGA-TAAAACAAAAGGATCATAATGATTTGAAATA
* * *
30771 GATAATTATTCTGATAGTCTTAACTATTTGAACTAGTTTGGCTAACAT-ATTTATTTTTTAAATC
1 GATAATTATTCTAATAGTCTTAACTATTTGAACTTGTTTAG-TAA-ATAATTTATTTTTTAAATC
* * * *
30835 TCTTATTAAGTTTTGAAATATTATTAAATTAGTATCATTTTAATCCGAATAAGCTTGTATGAA-A
64 TCTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTCCGAATAAGCTTGTATGAACA
* * * * *
30899 GGAAACAATTGTTGTATGACAAAA-TAAA-GATCATTATGATTTGAGATA
129 -GAAACAATTGTTTTATGATAAAACAAAAGGATCATAATGATTTGAAATA
* * * * * *
30947 GATAATTGTTCAAATAAT-TATAATTATTTGAACTGGTTTAGTAAATAGATTTAGTTTTTAAATC
1 GATAATTATTCTAATAGTCT-TAACTATTTGAACTTGTTTAGTAAATA-ATTTATTTTTTAAATC
* * ** **
31011 TGTTATTAATTTTTAAAATATTAATAAA--A--ATTATTTTATTTTGAATAATTTTGTATGAACA
64 TCTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTCCGAATAAGCTTGTATGAACA
* **
31072 GAAATAATTGTTTTATGATAAAACAAAAGG-TCATAACAATTTGAAATA
129 GAAACAATTGTTTTATGATAAAACAAAAGGATCATAATGATTTGAAATA
* * * * * * *
31120 GATAATTGTTCTAATGGACATGAA-TATTTGAATTTGCTCAGTAAATAGATTTATTTTTTAAATC
1 GATAATTATTCTAATAGTC-TTAACTATTTGAACTTGTTTAGTAAATA-ATTTATTTTTTAAATC
*** * ** *
31184 TCCTACATATTAATTTGCAAAATATTAATAAAGTAGTATTATTTTATTTTGAATAAACTTGTATG
64 T-CT---TATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTCCGAATAAGCTTGTATG
* *
31249 AATAGAAACAATTGTTTTATGATAAAACAAAA-TATCATAA
125 AACAGAAACAATTGTTTTATGATAAAACAAAAGGATCATAA
31289 CTATTAGAAA
Statistics
Matches: 427, Mismatches: 67, Indels: 47
0.79 0.12 0.09
Matches are distributed among these distances:
172 44 0.10
173 68 0.16
174 7 0.02
175 8 0.02
176 92 0.22
177 87 0.20
179 16 0.04
180 38 0.09
181 66 0.15
182 1 0.00
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.42
Consensus pattern (177 bp):
GATAATTATTCTAATAGTCTTAACTATTTGAACTTGTTTAGTAAATAATTTATTTTTTAAATCTC
TTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTCCGAATAAGCTTGTATGAACAGA
AACAATTGTTTTATGATAAAACAAAAGGATCATAATGATTTGAAATA
Found at i:31165 original size:173 final size:174
Alignment explanation
Indices: 30609--31311 Score: 605
Period size: 177 Copynumber: 4.0 Consensus size: 174
30599 TTTAAATAGT
* * * * * **
30609 CATATCTATTTGAAATTGTTTAGTAAACAGATTTATTTTTTTAAATCTCTTGCTTTAATTTTTTG
1 CATAACTATTTGAACTAGTTTAGTAAATAGATTTA-TTTTTTAAATCTCTT--ATTAATTTTTAA
* * *** * * *
30674 AATGTTAATAAATTAATATTATTTTATTCCAAATAAGCTTGTATGAACTGAAATAATTGTTTTAT
63 AATATTAATAAA-T-AGATTATTTTATTTTGAATAAACTTGTATGAACAGAAACAATTGTTTTAT
* * * * *
30739 GACT-AAACAAAAGGAT-AGAATGATTTGAAATAGATAATTATTCTGATAGT
126 GA-TAAAACAAAA-GATCATAACGATTTGAAATAGATAATTGTTCTAAT-GA
* * * *
30789 CTTAACTATTTGAACTAGTTTGGCTAACAT--ATTTATTTTTTAAATCTCTTATTAAGTTTTGAA
1 CATAACTATTTGAACTAGTTTAG-TAA-ATAGATTTATTTTTTAAATCTCTTATTAATTTTTAAA
* * * ** * *
30852 ATATTATTAAATTAGTATCATTTTAATCCGAATAAGCTTGTATGAA-AGGAAACAATTGTTGTAT
64 ATATTAATAAA-TAG-ATTATTTTATTTTGAATAAACTTGTATGAACA-GAAACAATTGTTTTAT
* * * * * * *
30916 GACAAAA-TAAAGATCATTATGATTTGAGATAGATAATTGTTCAAATAA
126 GATAAAACAAAAGATCATAACGATTTGAAATAGATAATTGTTCTAATGA
* * * * *
30964 TTATAATTATTTGAACTGGTTTAGTAAATAGATTTAGTTTTTAAATCTGTTATTAATTTTTAAAA
1 -CATAACTATTTGAACTAGTTTAGTAAATAGATTTATTTTTTAAATCTCTTATTAATTTTTAAAA
** *
31029 TATTAATAAA-A-ATTATTTTATTTTGAATAATTTTGTATGAACAGAAATAATTGTTTTATGATA
65 TATTAATAAATAGATTATTTTATTTTGAATAAACTTGTATGAACAGAAACAATTGTTTTATGATA
* *
31092 AAACAAAAGGTCATAACAATTTGAAATAGATAATTGTTCTAATGGA
130 AAACAAAAGATCATAACGATTTGAAATAGATAATTGTTCTAAT-GA
* * * * **
31138 CATGAA-TATTTGAATTTGCTCAGTAAATAGATTTATTTTTTAAATCTCCTACATATTAATTTGC
1 CAT-AACTATTTGAACTAGTTTAGTAAATAGATTTATTTTTTAAATCT-CT---TATTAATTTTT
*
31202 AAAATATTAATAAAGTAGTATTATTTTATTTTGAATAAACTTGTATGAATAGAAACAATTGTTTT
61 AAAATATTAATAAA-TAG-ATTATTTTATTTTGAATAAACTTGTATGAACAGAAACAATTGTTTT
* * * * *
31267 ATGATAAAACAAAATATCATAACTATTAGAAATAAAAAATTGTTC
124 ATGATAAAACAAAAGATCATAACGATTTGAAATAGATAATTGTTC
31312 AAATAGTTAC
Statistics
Matches: 427, Mismatches: 75, Indels: 41
0.79 0.14 0.08
Matches are distributed among these distances:
172 44 0.10
173 71 0.17
174 7 0.02
175 6 0.01
176 86 0.20
177 89 0.21
179 16 0.04
180 23 0.05
181 84 0.20
182 1 0.00
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.42
Consensus pattern (174 bp):
CATAACTATTTGAACTAGTTTAGTAAATAGATTTATTTTTTAAATCTCTTATTAATTTTTAAAAT
ATTAATAAATAGATTATTTTATTTTGAATAAACTTGTATGAACAGAAACAATTGTTTTATGATAA
AACAAAAGATCATAACGATTTGAAATAGATAATTGTTCTAATGA
Found at i:31343 original size:181 final size:174
Alignment explanation
Indices: 30615--31344 Score: 570
Period size: 181 Copynumber: 4.1 Consensus size: 174
30605 TAGTCATATC
* * * * * *** *
30615 TATTTGAAATTGTTTAGTAAACAGATTTATTTTTTTAAATCTCTTGCTTTAATTTTTTGAATGTT
1 TATTTGAACTTGCTCAGTAAATAGATTTA-TTTTTTAAATCTCTT--ATTAA-TTTGAAAATATT
* *** * * *
30680 AATAAATTAATATTATTTTATTCCAAATAAGCTTGTATGAACTGAAATAATTGTTTTATGACT-A
62 AATAAA-TAGTATTATTTTATTTTGAATAAACTTGTATGAA-AGAAACAATTGTTTTATGA-TAA
* * ** * *
30744 AACAAAAGGAT-AGAA-TGATTTGAAATAGATAATTATTCTGATAGTCT-TAAC
124 AACAAAA-GATCATAACT-ATTTGAAATAGATAATTGTTCAAATAGT-TACAAA
* * **
30795 TATTTGAACTAGTTTGGCTAACAT--ATTTATTTTTTAAATCTCTTATTAAGTTTTG-AAATATT
1 TATTTGAACTTGCTCAG-TAA-ATAGATTTATTTTTTAAATCTCTTATTAA--TTTGAAAATATT
* * * ** * * *
30857 ATTAAATTAGTATCATTTTAATCCGAATAAGCTTGTATGAAAGGAAACAATTGTTGTATGACAAA
62 AATAAA-TAGTATTATTTTATTTTGAATAAACTTGTATGAAA-GAAACAATTGTTTTATGATAAA
* * * * * *
30922 A-TAAAGATCATTA-TGATTTGAGATAGATAATTGTTCAAATAATTATAAT
125 ACAAAAGATCATAACT-ATTTGAAATAGATAATTGTTCAAATAGTTACAAA
* * * * * *
30971 TATTTGAACTGGTTTAGTAAATAGATTTAGTTTTTAAATCTGTTATTAATTTTTAAAATATTAAT
1 TATTTGAACTTGCTCAGTAAATAGATTTATTTTTTAAATCTCTTATTAA-TTTGAAAATATTAAT
** *
31036 AAA-A--ATTATTTTATTTTGAATAATTTTGTATGAACAGAAATAATTGTTTTATGATAAAACAA
65 AAATAGTATTATTTTATTTTGAATAAACTTGTATGAA-AGAAACAATTGTTTTATGATAAAACAA
* * * *
31098 AAGGTCATAACAATTTGAAATAGATAATTGTTCTAAT-G-GACATGAA
129 AAGATCATAACTATTTGAAATAGATAATTGTTCAAATAGTTACA--AA
*
31144 TATTTGAATTTGCTCAGTAAATAGATTTATTTTTTAAATCTCCTACATATTAATTTGCAAAATAT
1 TATTTGAACTTGCTCAGTAAATAGATTTATTTTTTAAATCT-CT---TATTAATTTG-AAAATAT
31209 TAATAAAGTAGTATTATTTTATTTTGAATAAACTTGTATGAATAGAAACAATTGTTTTATGATAA
61 TAATAAA-TAGTATTATTTTATTTTGAATAAACTTGTATGAA-AGAAACAATTGTTTTATGATAA
* * * *
31274 AACAAAATATCATAACTATTAGAAATAAAAAATTGTTCAAATAGTTACAAA
124 AACAAAAGATCATAACTATTTGAAATAGATAATTGTTCAAATAGTTACAAA
* *
31325 TATTTGAGCTTACTCAGTAA
1 TATTTGAACTTGCTCAGTAA
31345 TTATAACTAA
Statistics
Matches: 451, Mismatches: 73, Indels: 51
0.78 0.13 0.09
Matches are distributed among these distances:
171 2 0.00
172 44 0.10
173 70 0.16
174 4 0.01
175 11 0.02
176 86 0.19
177 84 0.19
178 4 0.01
179 16 0.04
180 19 0.04
181 106 0.24
182 2 0.00
183 3 0.01
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.42
Consensus pattern (174 bp):
TATTTGAACTTGCTCAGTAAATAGATTTATTTTTTAAATCTCTTATTAATTTGAAAATATTAATA
AATAGTATTATTTTATTTTGAATAAACTTGTATGAAAGAAACAATTGTTTTATGATAAAACAAAA
GATCATAACTATTTGAAATAGATAATTGTTCAAATAGTTACAAA
Found at i:31507 original size:21 final size:23
Alignment explanation
Indices: 31483--31525 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
31473 ATAATAATAA
31483 ATATA-TAA-ATATTTTAATTAT
1 ATATATTAATATATTTTAATTAT
*
31504 ATATATTAATATATTTTTATTA
1 ATATATTAATATATTTTAATTA
31526 AATTTAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 3 0.16
23 11 0.58
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
ATATATTAATATATTTTAATTAT
Found at i:31509 original size:23 final size:23
Alignment explanation
Indices: 31474--31525 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
31464 TTATAAATAA
*
31474 TAATAATAAATATATAA-ATATTT
1 TAATTATAAATAT-TAATATATTT
*
31497 TAATTATATATATTAATATATTT
1 TAATTATAAATATTAATATATTT
*
31520 TTATTA
1 TAATTA
31526 AATTTAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 3 0.12
23 22 0.88
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TAATTATAAATATTAATATATTT
Found at i:31599 original size:47 final size:49
Alignment explanation
Indices: 31496--31602 Score: 139
Period size: 47 Copynumber: 2.2 Consensus size: 49
31486 TATAAATATT
31496 TTAATTATATATATTAATATATTTTTATTAAATTTAATTTAATTTATAACA
1 TTAATTA-ATATATTAATATATTTTTATTAAA-TTAATTTAATTTATAACA
* * *
31547 TTAATTAA-ATATTAATCTATTTTTGTTAAA-TAATTTAA-TTATTAATA
1 TTAATTAATATATTAATATATTTTTATTAAATTAATTTAATTTA-TAACA
31594 TTAATTAAT
1 TTAATTAAT
31603 TAATGTTATC
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
46 3 0.06
47 20 0.39
49 20 0.39
50 1 0.02
51 7 0.14
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.54
Consensus pattern (49 bp):
TTAATTAATATATTAATATATTTTTATTAAATTAATTTAATTTATAACA
Found at i:32850 original size:15 final size:17
Alignment explanation
Indices: 32830--32861 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
32820 AATATAATAT
32830 AATTT-ATTAA-TATAA
1 AATTTAATTAACTATAA
32845 AATTTAATTAACTATAA
1 AATTTAATTAACTATAA
32862 TTACAATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 5 0.33
17 5 0.33
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
AATTTAATTAACTATAA
Found at i:33214 original size:19 final size:19
Alignment explanation
Indices: 33174--33231 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
33164 ACTATATGTA
* *
33174 TAAATAAATAAATA-ATTTT
1 TAAAT-AATAATTATATTAT
33193 TAAATAATAATTATATTAT
1 TAAATAATAATTATATTAT
* *
33212 TAACTTATAATTATATTAT
1 TAAATAATAATTATATTAT
33231 T
1 T
33232 TAACTTAGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
18 7 0.21
19 27 0.79
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (19 bp):
TAAATAATAATTATATTAT
Found at i:33388 original size:25 final size:26
Alignment explanation
Indices: 33360--33408 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
33350 TATGTGTGAT
33360 ATTATATATATTATA-TTAATTATTA
1 ATTATATATATTATATTTAATTATTA
* *
33385 ATTATATCTATTTTATTTAATTAT
1 ATTATATATATTATATTTAATTAT
33409 AATCAGTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (26 bp):
ATTATATATATTATATTTAATTATTA
Found at i:34212 original size:21 final size:21
Alignment explanation
Indices: 34173--34213 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
34163 AATATAATTG
* *
34173 ATATTATTATTTGTAATTAAA
1 ATATTATTAATTATAATTAAA
*
34194 ATATTATTAATTATTATTAA
1 ATATTATTAATTATAATTAA
34214 TTATTTAGTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
ATATTATTAATTATAATTAAA
Found at i:34633 original size:26 final size:27
Alignment explanation
Indices: 34604--34677 Score: 71
Period size: 26 Copynumber: 2.7 Consensus size: 27
34594 CTTATATTAT
*
34604 ATTAATTGAATTAAATATTAAT-AGTA
1 ATTAATTAAATTAAATATTAATAAGTA
* *
34630 ATT-ATTAATATTTAGTATTAATAAGTA
1 ATTAATTAA-ATTAAATATTAATAAGTA
* *
34657 ATATAAATAAATTAACTATTA
1 AT-TAATTAAATTAAATATTA
34678 GCTTAATAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
25 4 0.11
26 14 0.37
27 6 0.16
28 10 0.26
29 4 0.11
ACGTcount: A:0.50, C:0.01, G:0.05, T:0.43
Consensus pattern (27 bp):
ATTAATTAAATTAAATATTAATAAGTA
Found at i:34787 original size:20 final size:19
Alignment explanation
Indices: 34764--34818 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 19
34754 TAATATTATT
*
34764 ATAATTATTATAATATTTGG
1 ATAATTATTATAATAATT-G
34784 ATAATTTATTCAT-ATAATTG
1 ATAA-TTATT-ATAATAATTG
34804 ATAATTATTA-AATAA
1 ATAATTATTATAATAA
34819 ATAATATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
18 5 0.16
19 5 0.16
20 9 0.29
21 10 0.32
22 2 0.06
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.47
Consensus pattern (19 bp):
ATAATTATTATAATAATTG
Done.