Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 64 of 147
Found at i:12062312 original size:13 final size:13
Alignment explanation
Indices: 12062257--12062623 Score: 52
Period size: 13 Copynumber: 28.2 Consensus size: 13
12062247 TAAATAATAT
*
12062257 TATATTAATA-GA
1 TATATTAATATAA
12062269 TAATATTAGAT-TAA
1 T-ATATTA-ATATAA
*
12062283 TA-AATAATAT-A
1 TATATTAATATAA
12062294 -ATATTAATATAA
1 TATATTAATATAA
12062306 TATATTAAAATAATAA
1 TATATT--AAT-ATAA
12062322 TACTATTAATA-AA
1 TA-TATTAATATAA
12062335 TAATATT-ATAT--
1 T-ATATTAATATAA
* *
12062346 TATACTAAGA-AA
1 TATATTAATATAA
12062358 TAATATT-ATACTAA
1 T-ATATTAATA-TAA
*
12062372 TAATATATATTA-AA
1 T-ATAT-TAATATAA
*
12062386 AATATT-ATAT-A
1 TATATTAATATAA
* * *
12062397 T-TAATAAAATCA
1 TATATTAATATAA
*
12062409 TATATTAACA-AA
1 TATATTAATATAA
*
12062421 GA-A-T-ATATAA
1 TATATTAATATAA
12062431 TATATTAATA-AA
1 TATATTAATATAA
* *
12062443 TAAATATACTATTAA
1 TATAT-TAATA-TAA
* * *
12062458 AATAATAGTATAA
1 TATATTAATATAA
12062471 TATAATTAATA-AA
1 TAT-ATTAATATAA
12062484 TAATATT-ATATTAGCA
1 T-ATATTAATA-TA--A
* *
12062500 AATAATATAATAAAA
1 TAT-AT-TAATATAA
*
12062515 TATTATTAATTTAA
1 TA-TATTAATATAA
* *
12062529 T-TAATAAATATTA
1 TAT-ATTAATATAA
12062542 TCATATT-ATAGTAA
1 T-ATATTAATA-TAA
* *
12062556 TA-AATAATATAT
1 TATATTAATATAA
*
12062568 TATGAATAA-ATAATA
1 TAT-ATTAATAT-A-A
12062583 TACTATTAATATAA
1 TA-TATTAATATAA
*
12062597 CATATTAATA-AA
1 TATATTAATATAA
12062609 TATTATTAATA-AA
1 TA-TATTAATATAA
12062622 TA
1 TA
12062624 ATATAAAGAA
Statistics
Matches: 257, Mismatches: 44, Indels: 107
0.63 0.11 0.26
Matches are distributed among these distances:
9 2 0.01
10 12 0.05
11 21 0.08
12 37 0.14
13 88 0.34
14 48 0.19
15 25 0.10
16 15 0.06
17 6 0.02
18 3 0.01
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (13 bp):
TATATTAATATAA
Found at i:12062342 original size:66 final size:68
Alignment explanation
Indices: 12062248--12062404 Score: 180
Period size: 71 Copynumber: 2.3 Consensus size: 68
12062238 TTTTAGTTAT
* * *
12062248 AAATAATATTATATTAATAGATAATATTAGATTA-A-T-AAATAATATAATATTAAT-ATAATAT
1 AAATAATAATATATTAATAAATAATATTAGATTATACTAAAATAATATAATACTAATAAT-ATAT
12062309 ATTA
65 ATTA
* *
12062313 AAATAATAATACTATTAATAAATAATATTATATTATACTAAGAAATAATATTATACTAATAATAT
1 AAATAATAATA-TATTAATAAATAATATTAGATTATACT-A-AAATAATATAATACTAATAATAT
12062378 ATATTA
63 ATATTA
*
12062384 AAA-ATATTATATATTAATAAA
1 AAATA-ATAATATATTAATAAA
12062405 ATCATATATT
Statistics
Matches: 78, Mismatches: 6, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
65 10 0.13
66 21 0.27
67 1 0.01
68 1 0.01
70 11 0.14
71 32 0.41
72 2 0.03
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (68 bp):
AAATAATAATATATTAATAAATAATATTAGATTATACTAAAATAATATAATACTAATAATATATA
TTA
Found at i:12062401 original size:29 final size:31
Alignment explanation
Indices: 12062346--12062403 Score: 75
Period size: 29 Copynumber: 1.9 Consensus size: 31
12062336 AATATTATAT
12062346 TATACTAAGAAATAATATTATACTAATAATA
1 TATACTAAGAAATAATATTATACTAATAATA
* * *
12062377 TATATTAA-AAATATTA-TATATTAATAA
1 TATACTAAGAAATAATATTATACTAATAA
12062404 AATCATATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 10 0.42
30 7 0.29
31 7 0.29
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (31 bp):
TATACTAAGAAATAATATTATACTAATAATA
Found at i:12062435 original size:38 final size:38
Alignment explanation
Indices: 12062387--12062584 Score: 131
Period size: 41 Copynumber: 5.1 Consensus size: 38
12062377 TATATTAAAA
* *
12062387 ATATTATATATTAAT-AAAATCATATATTAACAAAGAAT
1 ATATAATATATTAATAAAAAT-ATATATTAACAAATAAT
12062425 ATATAATATATTAATAAATAAATATACTATT-A-AAATAAT
1 ATATAATATATTAAT-AA-AAATATA-TATTAACAAATAAT
*
12062464 AGTATAATATAATTAATAAATAATATTATATTAGCAAATAAT
1 A-TATAATAT-ATTAATAAA-AATA-TATATTAACAAATAAT
* * * * *
12062506 ATAATAAAATATT-AT--TAATTTA-ATTAATAAATATT
1 AT-ATAATATATTAATAAAAATATATATTAACAAATAAT
* * * *
12062541 ATCATATTATAGTAATAAATAATATATTATGAATAAATAAT
1 AT-ATAATATATTAATAAA-AATATA-TATTAACAAATAAT
12062582 ATA
1 ATA
12062585 CTATTAATAT
Statistics
Matches: 126, Mismatches: 17, Indels: 32
0.72 0.10 0.18
Matches are distributed among these distances:
35 19 0.15
36 4 0.03
37 3 0.02
38 14 0.11
39 13 0.10
40 26 0.21
41 33 0.26
42 14 0.11
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (38 bp):
ATATAATATATTAATAAAAATATATATTAACAAATAAT
Found at i:12062593 original size:18 final size:17
Alignment explanation
Indices: 12062246--12062628 Score: 180
Period size: 18 Copynumber: 21.7 Consensus size: 17
12062236 AATTTTAGTT
12062246 ATAAATAATATTATATTA
1 ATAAATAATA-TATATTA
* *
12062264 ATAGATAATATTAGATTA
1 ATAAATAATA-TATATTA
12062282 ATAAATAATATAATATTA
1 ATAAATAATAT-ATATTA
12062300 AT--AT-A-ATATATT-
1 ATAAATAATATATATTA
12062312 A-AAATAATAATACTATTA
1 ATAAATAAT-ATA-TATTA
12062330 ATAAATAATATTATATTA
1 ATAAATAATA-TATATTA
12062348 TACTAAGA-AATA-ATATT-
1 -A-TAA-ATAATATATATTA
12062365 ATACTAATAATATATATTA
1 ATA--AATAATATATATTA
*
12062384 A-AAATATTATATATTA
1 ATAAATAATATATATTA
12062400 AT-AA-AATCATATATTAA
1 ATAAATAAT-ATATATT-A
*
12062417 CAAAGAATATATAATATATTA
1 -ATA-AATA-AT-ATATATTA
12062438 ATAAATAAATATACTATTA
1 ATAAAT-AATATA-TATTA
*
12062457 AAATAATAGTATAATATAATTA
1 ATA-AATA--AT-ATAT-ATTA
12062479 ATAAATAATATTATATTA
1 ATAAATAATA-TATATTA
** *
12062497 GCAAATAATATA-ATAAA
1 ATAAATAATATATAT-TA
* *
12062514 ATATTATTAATTTA-ATTA
1 ATA--AATAATATATATTA
12062532 ATAAATATTATCATATTATAGTA
1 ATAAATA--AT-ATA-TAT--TA
*
12062555 ATAAATAATATATTATGA
1 ATAAATAATATA-TATTA
12062573 ATAAATAATATACTATTA
1 ATAAATAATATA-TATTA
*
12062591 AT--AT-A-ACATATTA
1 ATAAATAATATATATTA
12062604 AT--A-AATAT-TATTA
1 ATAAATAATATATATTA
12062617 ATAAATAATATA
1 ATAAATAATATA
12062629 AAGAATAATA
Statistics
Matches: 289, Mismatches: 26, Indels: 101
0.69 0.06 0.24
Matches are distributed among these distances:
12 1 0.00
13 23 0.08
14 6 0.02
15 7 0.02
16 42 0.15
17 15 0.05
18 92 0.32
19 40 0.14
20 22 0.08
21 14 0.05
22 18 0.06
23 9 0.03
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.40
Consensus pattern (17 bp):
ATAAATAATATATATTA
Found at i:12062743 original size:16 final size:16
Alignment explanation
Indices: 12062724--12062777 Score: 50
Period size: 16 Copynumber: 3.8 Consensus size: 16
12062714 TTTTAATGTT
12062724 AATAATTTTAATAATA
1 AATAATTTTAATAATA
*
12062740 AATAA--TT--CAAT-
1 AATAATTTTAATAATA
12062751 -ATA-TTTTAATAATA
1 AATAATTTTAATAATA
12062765 AATAATTTTAATA
1 AATAATTTTAATA
12062778 TTTTAATAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 14
0.64 0.04 0.31
Matches are distributed among these distances:
10 3 0.10
11 2 0.07
12 3 0.10
13 3 0.10
14 2 0.07
15 3 0.10
16 13 0.45
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
AATAATTTTAATAATA
Found at i:12062783 original size:24 final size:24
Alignment explanation
Indices: 12062717--12062785 Score: 93
Period size: 25 Copynumber: 2.8 Consensus size: 24
12062707 TAATTATTTT
*
12062717 TAATGTTAATAATTTTAATAATAAA
1 TAATTTTAAT-ATTTTAATAATAAA
**
12062742 TAATTCAATATATTTTAATAATAAA
1 TAATTTTA-ATATTTTAATAATAAA
12062767 TAATTTTAATATTTTAATA
1 TAATTTTAATATTTTAATA
12062786 GTTATATTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
24 11 0.29
25 25 0.66
26 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (24 bp):
TAATTTTAATATTTTAATAATAAA
Found at i:12063100 original size:18 final size:18
Alignment explanation
Indices: 12063077--12063336 Score: 127
Period size: 18 Copynumber: 14.2 Consensus size: 18
12063067 AATTTTAATT
12063077 ATAAATAATATTATATTA
1 ATAAATAATATTATATTA
* *
12063095 ATAAATAATATTAGATGA
1 ATAAATAATATTATATTA
12063113 A-AAAT-ATA-TACTATTA
1 ATAAATAATATTA-TATTA
*
12063129 ATATAAT-ATATTA-ATAA
1 ATA-AATAATATTATATTA
* *
12063146 ATAATATACTATT-TATAA
1 ATAA-ATAATATTATATTA
*
12063164 AT-AATACTATAATATATTA
1 ATAAATA--ATATTATATTA
12063183 ATAAATAATATTATATTA
1 ATAAATAATATTATATTA
*
12063201 TACTAAGAAATAATATTATACTA
1 -A-T---AAATAATATTATATTA
12063224 ATAAAT-A-A-TATATTA
1 ATAAATAATATTATATTA
* *
12063239 ATAAATAATATAATA-AA
1 ATAAATAATATTATATTA
*
12063256 ATATTATTAAT-TTA-ATTA
1 ATA--AATAATATTATATTA
*
12063274 ATAATATATTATCATATTATAGTA
1 AT-A-A-A-TA--ATATTATATTA
*
12063298 ATAAATAATA-TATTATGA
1 ATAAATAATATTA-TATTA
12063316 ATAAATAATA-TACTATTA
1 ATAAATAATATTA-TATTA
12063334 ATA
1 ATA
12063337 TAACATATTA
Statistics
Matches: 189, Mismatches: 23, Indels: 60
0.69 0.08 0.22
Matches are distributed among these distances:
15 14 0.07
16 13 0.07
17 23 0.12
18 85 0.45
19 15 0.08
20 9 0.05
21 2 0.01
22 4 0.02
23 19 0.10
24 5 0.03
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.41
Consensus pattern (18 bp):
ATAAATAATATTATATTA
Found at i:12063176 original size:41 final size:41
Alignment explanation
Indices: 12063129--12063371 Score: 135
Period size: 41 Copynumber: 5.6 Consensus size: 41
12063119 TATACTATTA
12063129 ATATAATATATTAATAAATAATATACTATT-TA-TAA-ATAAT
1 ATATAATATATTAATAAATAATATA-TATTATACTAAGA-AAT
12063169 ACTATAATATATTAATAAATAATATTATATTATACTAAGAAAT
1 A-TATAATATATTAATAAATAATA-TATATTATACTAAGAAAT
* * *
12063212 A-ATATTATACTAATAAATAATATATTAATAAATAATA-TAATAAAAT
1 ATATAATATATTAATAAATAATATA-T-AT---T-ATACTAA-GAAAT
* * * *
12063258 ATTATTAATTTAATTAATAATATATTATCATATTATAGTAATAAAT
1 A-TA-TAATAT-ATTAATAA-ATAATAT-ATATTATACTAAGAAAT
* * *
12063304 A-AT-ATATTATGAATAAATAATATACTATTAATA-TAACATAT
1 ATATAATA-TATTAATAAATAATATA-TATT-ATACTAAGAAAT
12063345 -TAATAAATATTATTAATAAATAATATA
1 AT-AT-AATA-TATTAATAAATAATATA
12063372 AAGAATAATA
Statistics
Matches: 163, Mismatches: 14, Indels: 48
0.72 0.06 0.21
Matches are distributed among these distances:
40 4 0.02
41 62 0.38
42 20 0.12
43 9 0.06
44 22 0.13
45 4 0.02
46 16 0.10
47 4 0.02
48 1 0.01
49 4 0.02
50 9 0.06
51 7 0.04
52 1 0.01
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (41 bp):
ATATAATATATTAATAAATAATATATATTATACTAAGAAAT
Found at i:12063186 original size:23 final size:23
Alignment explanation
Indices: 12063130--12063359 Score: 124
Period size: 23 Copynumber: 10.1 Consensus size: 23
12063120 ATACTATTAA
12063130 TATAATATATTAATAAAT-A-A-
1 TATAATATATTAATAAATAATAT
* *
12063150 TATACTAT-TT-ATAAATAATAC
1 TATAATATATTAATAAATAATAT
12063171 TATAATATATTAATAAATAATAT
1 TATAATATATTAATAAATAATAT
* * *
12063194 TATATTATACTAAGAAATAATAT
1 TATAATATATTAATAAATAATAT
* *
12063217 TATACTA-ATAAAT-AAT-ATAT
1 TATAATATATTAATAAATAATAT
12063237 TAATAA-ATAATATAAT-AA-AATAT
1 T-ATAATAT-AT-TAATAAATAATAT
* *
12063260 TATTAATTTAATTAATAATATATTAT
1 TA-TAATAT-ATTAATAA-ATAATAT
* * *
12063286 CATATTATAGTAATAAATAATATAT
1 TATAATATATTAATAAAT-A-ATAT
* * * *
12063311 TATGAATA-AATAATATACTATTAA
1 TAT-AATATATTAATA-AATAATAT
* *
12063335 TATAACATATTAATAAATATTAT
1 TATAATATATTAATAAATAATAT
12063358 TA
1 TA
12063360 ATAAATAATA
Statistics
Matches: 161, Mismatches: 29, Indels: 37
0.71 0.13 0.16
Matches are distributed among these distances:
18 6 0.04
19 3 0.02
20 14 0.09
21 13 0.08
22 8 0.05
23 66 0.41
24 24 0.15
25 17 0.11
26 10 0.06
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (23 bp):
TATAATATATTAATAAATAATAT
Found at i:12063354 original size:74 final size:75
Alignment explanation
Indices: 12063213--12063359 Score: 185
Period size: 74 Copynumber: 2.0 Consensus size: 75
12063203 CTAAGAAATA
**
12063213 ATATTATACTAATAAATAATATATTAATAAATAATATAATAAAATATTATTAATTTAATTAATAA
1 ATATTATACTAATAAATAATATATTAATAAATAATATAATAAAATATTATTAACATAATTAATAA
12063278 TA-TATTATC
66 TATTATTATC
* * * *
12063287 ATATTATAGTAATAAATAATATATT-ATGAATAA-ATAATATACTATTAATATAACAT-ATTAAT
1 ATATTATACTAATAAATAATATATTAATAAATAATATAATAAAATATT-AT-TAACATAATTAAT
12063349 AAATATTATTA
64 -AATATTATTA
12063360 ATAAATAATA
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
72 11 0.17
73 15 0.24
74 32 0.51
75 5 0.08
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (75 bp):
ATATTATACTAATAAATAATATATTAATAAATAATATAATAAAATATTATTAACATAATTAATAA
TATTATTATC
Found at i:12063367 original size:28 final size:28
Alignment explanation
Indices: 12063074--12063366 Score: 81
Period size: 28 Copynumber: 10.0 Consensus size: 28
12063064 CAGAATTTTA
* *
12063074 ATTATAAAT-AATATTATATTAATAAAT
1 ATTATTAATAAATAATATATTAATAAAT
*
12063101 AATATTAGATGAAAAATATATACTATTAATATAAT
1 ATTATTA-AT---AAATA-ATA-TATTAATA-AAT
* *
12063136 A-TATTAATAAATAATATACT-AT--TT
1 ATTATTAATAAATAATATATTAATAAAT
* * *
12063160 ATAAATAATACTATAATATATTAATAAAT
1 ATTATTAATA-AATAATATATTAATAAAT
* * * **
12063189 AATATT-ATATTATACTA-AGAAAT-AAT
1 ATTATTAATA-AATAATATATTAATAAAT
12063215 ATTATACTAATAAATAATATATTAATAAAT
1 ATTAT--TAATAAATAATATATTAATAAAT
* * *
12063245 AATA-TAATAAAATATTATTAATTTAATTAAT
1 ATTATTAAT-AAATAATA-T-A-TTAATAAAT
* * *
12063276 AATATATT-ATCATATTATAGTAATAAATAATAT
1 -AT-TATTAAT-AAATAATA-T-ATTAATAA-AT
* *
12063309 ATTATGAATAAATAATATACTATTAATATAAC
1 ATTATTAATAAAT-A-ATA-TATTAATA-AAT
12063341 A-TATTAATAAAT-AT-TATTAATAAAT
1 ATTATTAATAAATAATATATTAATAAAT
12063366 A
1 A
12063367 ATATAAAGAA
Statistics
Matches: 195, Mismatches: 41, Indels: 62
0.65 0.14 0.21
Matches are distributed among these distances:
24 2 0.01
25 9 0.05
26 24 0.12
27 17 0.09
28 29 0.15
29 15 0.08
30 12 0.06
31 24 0.12
32 22 0.11
33 23 0.12
34 14 0.07
35 4 0.02
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.41
Consensus pattern (28 bp):
ATTATTAATAAATAATATATTAATAAAT
Found at i:12063429 original size:19 final size:18
Alignment explanation
Indices: 12063402--12063445 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
12063392 TTTTAAGTGT
*
12063402 TTTTTATATTAACATAATA
1 TTTTAATATTAA-ATAATA
*
12063421 TTTTAATATTAAATATTA
1 TTTTAATATTAAATAATA
12063439 TTATTAA
1 TT-TTAA
12063446 AATATAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTTAATATTAAATAATA
Found at i:12063476 original size:9 final size:9
Alignment explanation
Indices: 12063462--12063533 Score: 55
Period size: 9 Copynumber: 8.4 Consensus size: 9
12063452 ATTATTTTCA
*
12063462 AATTTGAAT
1 AATTTTAAT
*
12063471 AATTTGAAT
1 AATTTTAAT
*
12063480 AA--TAAAT
1 AATTTTAAT
*
12063487 AATTTCAAT
1 AATTTTAAT
12063496 ATATTTTAAT
1 A-ATTTTAAT
*
12063506 AA--TAAAT
1 AATTTTAAT
12063513 AATTTTAAT
1 AATTTTAAT
12063522 -ATTTTAAT
1 AATTTTAAT
12063530 AATT
1 AATT
12063534 ATATTAATAT
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
7 12 0.23
8 8 0.15
9 24 0.46
10 8 0.15
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (9 bp):
AATTTTAAT
Found at i:12063507 original size:26 final size:25
Alignment explanation
Indices: 12063462--12063532 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 25
12063452 ATTATTTTCA
*
12063462 AATTTGAATA-ATTTGAATAATAAAT
1 AATTT-AATATATTTTAATAATAAAT
12063487 AATTTCAATATATTTTAATAATAAAT
1 AATTT-AATATATTTTAATAATAAAT
*
12063513 AATTTTA-ATATTTTAATAAT
1 AATTTAATATATTTTAATAAT
12063533 TATATTAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
24 13 0.31
25 10 0.24
26 19 0.45
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.46
Consensus pattern (25 bp):
AATTTAATATATTTTAATAATAAAT
Found at i:12065260 original size:21 final size:21
Alignment explanation
Indices: 12065236--12065281 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
12065226 TCATTCTCTT
12065236 TTTTAGAAAT-TTTATTAATTA
1 TTTTAGAAATATTTATT-ATTA
**
12065257 TTTTATTAATATTTATTATTA
1 TTTTAGAAATATTTATTATTA
12065278 TTTT
1 TTTT
12065282 CATTTAAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTTAGAAATATTTATTATTA
Found at i:12065261 original size:12 final size:12
Alignment explanation
Indices: 12065244--12065281 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
12065234 TTTTTTAGAA
12065244 ATTTTATTAATT
1 ATTTTATTAATT
12065256 ATTTTATTAA-T
1 ATTTTATTAATT
12065267 A-TTTATT-ATT
1 ATTTTATTAATT
12065277 ATTTT
1 ATTTT
12065282 CATTTAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 1 0.04
10 8 0.33
11 5 0.21
12 10 0.42
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATTTTATTAATT
Found at i:12066812 original size:37 final size:37
Alignment explanation
Indices: 12066759--12066831 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 37
12066749 TGAATAGAGT
*
12066759 ATGGGTGACCAAAGGGTAGGATATGATGGCCAGTGGG
1 ATGGGTGACCAAAGGGTAGGACATGATGGCCAGTGGG
* * * *
12066796 ATGGGTGATCAGAGGGTAGGGCATGGTGGCCAGTGG
1 ATGGGTGACCAAAGGGTAGGACATGATGGCCAGTGG
12066832 TGCTGAGTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.23, C:0.11, G:0.47, T:0.19
Consensus pattern (37 bp):
ATGGGTGACCAAAGGGTAGGACATGATGGCCAGTGGG
Found at i:12066884 original size:8 final size:8
Alignment explanation
Indices: 12066865--12066945 Score: 71
Period size: 7 Copynumber: 10.0 Consensus size: 8
12066855 TTAGCCCCCC
12066865 ATTTTTGT
1 ATTTTTGT
12066873 -TTTTTGT
1 ATTTTTGT
12066880 ATTTTTTTGT
1 A--TTTTTGT
12066890 A-TTTTGT
1 ATTTTTGT
12066897 A-TTTTGT
1 ATTTTTGT
12066904 ATTTTTGT
1 ATTTTTGT
*
12066912 ATTTTTATAT
1 A-TTTT-TGT
12066922 ATTTTTGGT
1 ATTTTT-GT
*
12066931 A-TTTTAT
1 ATTTTTGT
12066938 ATTTTTGT
1 ATTTTTGT
12066946 TTAATTTAAT
Statistics
Matches: 61, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
7 23 0.38
8 17 0.28
9 10 0.16
10 11 0.18
ACGTcount: A:0.15, C:0.00, G:0.11, T:0.74
Consensus pattern (8 bp):
ATTTTTGT
Found at i:12066901 original size:24 final size:22
Alignment explanation
Indices: 12066867--12066916 Score: 73
Period size: 24 Copynumber: 2.2 Consensus size: 22
12066857 AGCCCCCCAT
*
12066867 TTTTGTTTTTTGTATTTTTTTGTA
1 TTTTGTATTTTGTA--TTTTTGTA
12066891 TTTTGTATTTTGTATTTTTGTA
1 TTTTGTATTTTGTATTTTTGTA
12066913 TTTT
1 TTTT
12066917 TATATATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 12 0.48
24 13 0.52
ACGTcount: A:0.10, C:0.00, G:0.12, T:0.78
Consensus pattern (22 bp):
TTTTGTATTTTGTATTTTTGTA
Found at i:12066909 original size:32 final size:34
Alignment explanation
Indices: 12066867--12066945 Score: 110
Period size: 32 Copynumber: 2.4 Consensus size: 34
12066857 AGCCCCCCAT
* *
12066867 TTTTGT-TTTTTGTATTTTTTTGTA-TTTT-GTA
1 TTTTGTATTTTTGTATTTTTATATATTTTTGGTA
12066898 TTTTGTATTTTTGTATTTTTATATATTTTTGGTA
1 TTTTGTATTTTTGTATTTTTATATATTTTTGGTA
*
12066932 TTTTATATTTTTGT
1 TTTTGTATTTTTGT
12066946 TTAATTTAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
31 6 0.14
32 16 0.38
33 4 0.10
34 16 0.38
ACGTcount: A:0.14, C:0.00, G:0.11, T:0.75
Consensus pattern (34 bp):
TTTTGTATTTTTGTATTTTTATATATTTTTGGTA
Found at i:12066936 original size:18 final size:18
Alignment explanation
Indices: 12066865--12066943 Score: 65
Period size: 18 Copynumber: 4.3 Consensus size: 18
12066855 TTAGCCCCCC
*
12066865 ATTTTTGT-TTTTTGTAT
1 ATTTTTGTATTTTTATAT
* *
12066882 TTTTTTGTATTTTGTATTTTGT
1 ATTTTTGTATTTT-TA---TAT
12066904 ATTTTTGTATTTTTATAT
1 ATTTTTGTATTTTTATAT
12066922 ATTTTTGGTA-TTTTATAT
1 ATTTTT-GTATTTTTATAT
12066940 -TTTT
1 ATTTT
12066944 GTTTAATTTA
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
17 11 0.22
18 20 0.39
19 4 0.08
21 2 0.04
22 14 0.27
ACGTcount: A:0.15, C:0.00, G:0.10, T:0.75
Consensus pattern (18 bp):
ATTTTTGTATTTTTATAT
Found at i:12066940 original size:16 final size:15
Alignment explanation
Indices: 12066891--12066945 Score: 65
Period size: 15 Copynumber: 3.4 Consensus size: 15
12066881 TTTTTTTGTA
*
12066891 TTTTGTATTTTGTAT
1 TTTTGTATTTTATAT
12066906 TTTTGTATTTTTATATAT
1 TTTTGTA--TTT-TATAT
12066924 TTTTGGTATTTTATAT
1 TTTT-GTATTTTATAT
12066940 TTTTGT
1 TTTTGT
12066946 TTAATTTAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
15 9 0.26
16 9 0.26
17 6 0.17
18 8 0.23
19 3 0.09
ACGTcount: A:0.16, C:0.00, G:0.11, T:0.73
Consensus pattern (15 bp):
TTTTGTATTTTATAT
Found at i:12066952 original size:18 final size:17
Alignment explanation
Indices: 12066896--12066953 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
12066886 TTGTATTTTG
*
12066896 TATTTTGTATTTTTGTAT
1 TATTTTATATTTTTGT-T
*
12066914 T-TTTATATATTTTTG-G
1 TATTT-TATATTTTTGTT
12066930 TATTTTATATTTTTGTT
1 TATTTTATATTTTTGTT
*
12066947 TAATTTA
1 TATTTTA
12066954 ATAAAATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
16 11 0.33
17 12 0.36
18 10 0.30
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.71
Consensus pattern (17 bp):
TATTTTATATTTTTGTT
Found at i:12067086 original size:27 final size:28
Alignment explanation
Indices: 12067032--12067104 Score: 103
Period size: 27 Copynumber: 2.6 Consensus size: 28
12067022 TAGATTTTAG
*
12067032 GCCCAGTCGAATTGAAATCAAGCCTGAA
1 GCCCAGTTGAATTGAAATCAAGCCTGAA
** *
12067060 GCCCAGTTGAATT-AAATCGGGCTTGAA
1 GCCCAGTTGAATTGAAATCAAGCCTGAA
12067087 GCCCAGTTGAATTGAAAT
1 GCCCAGTTGAATTGAAAT
12067105 TGGGTATCGA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 24 0.60
28 16 0.40
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (28 bp):
GCCCAGTTGAATTGAAATCAAGCCTGAA
Found at i:12067438 original size:48 final size:49
Alignment explanation
Indices: 12067383--12067835 Score: 431
Period size: 48 Copynumber: 9.3 Consensus size: 49
12067373 GTAAAAGCTT
* * * *
12067383 AACAACTTT-AAAATTTTATCTTGAAAAAGTTTC-TCTAAGTAGAGGCTT
1 AACAACTTTAAAAATTTTATCTTGAAAAAG-CTCATCTAAGCAAAGGCTC
* * * * * *
12067431 AATAACTTTAAAAATCTCATC-TGAAAAAAACTCATCTCAGCAGAGGCTC
1 AACAACTTTAAAAATTTTATCTTG-AAAAAGCTCATCTAAGCAAAGGCTC
* * * * *
12067480 AACAACTTTAAAAATTCTCATCTTGAAAAAGCTCATTTTAGCAGAGGTTC
1 AACAACTTTAAAAATT-TTATCTTGAAAAAGCTCATCTAAGCAAAGGCTC
* * *
12067530 AACAACTTGAAAAATTTTAT-TTGGAAAAGCTCATTTAAGCAAAGGCTC
1 AACAACTTTAAAAATTTTATCTTGAAAAAGCTCATCTAAGCAAAGGCTC
* * *
12067578 AACAACTTTAAAAATCTCAT-TTGAAAAAGTTCATCTCAA-CAAAGGCTC
1 AACAACTTTAAAAATTTTATCTTGAAAAAGCTCATCT-AAGCAAAGGCTC
* * *
12067626 AACAACTTT-AAAATTTTATCTCGAAAAAGGCTCTTCTCAA-TAAAGGCTC
1 AACAACTTTAAAAATTTTATCTTGAAAAA-GCTCATCT-AAGCAAAGGCTC
* * * *
12067675 AACAACTTTAAAAATTTTTATCTTGAAAAAGCTCATTTCAGCATAGACTC
1 AACAACTTTAAAAA-TTTTATCTTGAAAAAGCTCATCTAAGCAAAGGCTC
* * *
12067725 AACAA-TTTTAAAATTTTATCTTGAAAAAGCTCATCTCAGCAAAGACTC
1 AACAACTTTAAAAATTTTATCTTGAAAAAGCTCATCTAAGCAAAGGCTC
* * * * *
12067773 AACAACTTTACAAATTCTCATCTTGAAAAAGCTCTTTTCAGCAGAA-GCTC
1 AACAACTTTAAAAATT-TTATCTTGAAAAAGCTCATCTAAGCA-AAGGCTC
12067823 AACAACTTTAAAA
1 AACAACTTTAAAA
12067836 TTCTCATATG
Statistics
Matches: 342, Mismatches: 49, Indels: 26
0.82 0.12 0.06
Matches are distributed among these distances:
47 8 0.02
48 129 0.38
49 87 0.25
50 100 0.29
51 18 0.05
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (49 bp):
AACAACTTTAAAAATTTTATCTTGAAAAAGCTCATCTAAGCAAAGGCTC
Found at i:12067588 original size:98 final size:99
Alignment explanation
Indices: 12067383--12067835 Score: 478
Period size: 98 Copynumber: 4.6 Consensus size: 99
12067373 GTAAAAGCTT
* * * * * * *
12067383 AACAACTTT-AAAATT-TTATCTTGAAAAAGTTTC-TCTAAGTAGAGGCTTAATAACTTTAAAAA
1 AACAACTTTAAAAATTCTCATCTTGAAAAAG-CTCATTTCAGCAGAGGCTCAACAACTTTAAAAA
* * * * * *
12067445 TCTCATC-TGAAAAAAACTCATCTCAGCAGAGGCTC
65 TTTTATCTTG-AAAAAGCTCATTTAAGCAAAGGCTC
* * *
12067480 AACAACTTTAAAAATTCTCATCTTGAAAAAGCTCATTTTAGCAGAGGTTCAACAACTTGAAAAAT
1 AACAACTTTAAAAATTCTCATCTTGAAAAAGCTCATTTCAGCAGAGGCTCAACAACTTTAAAAAT
*
12067545 TTTAT-TTGGAAAAGCTCATTTAAGCAAAGGCTC
66 TTTATCTTGAAAAAGCTCATTTAAGCAAAGGCTC
* * * *
12067578 AACAACTTTAAAAA-TCTCAT-TTGAAAAAGTTCATCTCAACAAAGGCTCAACAACTTT-AAAAT
1 AACAACTTTAAAAATTCTCATCTTGAAAAAGCTCATTTCAGCAGAGGCTCAACAACTTTAAAAAT
* *
12067640 TTTATCTCGAAAAAGGCTC-TTCTCAA-TAAAGGCTC
66 TTTATCTTGAAAAA-GCTCATT-T-AAGCAAAGGCTC
* * * * *
12067675 AACAACTTTAAAAATTTTTATCTTGAAAAAGCTCATTTCAGCATAGACTCAACAA-TTTTAAAAT
1 AACAACTTTAAAAATTCTCATCTTGAAAAAGCTCATTTCAGCAGAGGCTCAACAACTTTAAAAAT
* * *
12067739 TTTATCTTGAAAAAGCTCATCTCAGCAAAGACTC
66 TTTATCTTGAAAAAGCTCATTTAAGCAAAGGCTC
* * *
12067773 AACAACTTTACAAATTCTCATCTTGAAAAAGCTCTTTTCAGCAGAAGCTCAACAACTTTAAAA
1 AACAACTTTAAAAATTCTCATCTTGAAAAAGCTCATTTCAGCAGAGGCTCAACAACTTTAAAA
12067836 TTCTCATATG
Statistics
Matches: 296, Mismatches: 46, Indels: 26
0.80 0.12 0.07
Matches are distributed among these distances:
95 10 0.03
96 38 0.13
97 43 0.15
98 111 0.38
99 94 0.32
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (99 bp):
AACAACTTTAAAAATTCTCATCTTGAAAAAGCTCATTTCAGCAGAGGCTCAACAACTTTAAAAAT
TTTATCTTGAAAAAGCTCATTTAAGCAAAGGCTC
Found at i:12067729 original size:195 final size:197
Alignment explanation
Indices: 12067474--12067837 Score: 529
Period size: 195 Copynumber: 1.9 Consensus size: 197
12067464 ATCTCAGCAG
* **
12067474 AGGCTCAACAACTTTAAAAATTCTCATCTTGAAAAAGCTCATTTTAGCAGAGGTTCAACAACTTG
1 AGGCTCAACAACTTTAAAAATTCTCATCTTGAAAAAGCTCATTTCAGCAGAGACTCAACAA-TTG
* * *
12067539 AAAAATTTTAT-TTGGAAAAGCTCATTTAAGCAAAGGCTCAACAACTTTA-AAAATCTCAT-TTG
65 AAAAATTTTATCTTGAAAAAGCTCATCTAAGCAAAGACTCAACAACTTTACAAAATCTCATCTTG
*
12067601 AAAAAGTTCATCTCAACA-AAGGCTCAACAACTTTAAAATTTTATCTCGAAAAAGGCTCTTCTCA
130 AAAAAGCTCATCTCAACAGAA-GCTCAACAACTTTAAAATTTTATCTCGAAAAAGGCTCTTCTCA
12067665 ATAA
194 ATAA
* * * **
12067669 AGGCTCAACAACTTTAAAAATTTTTATCTTGAAAAAGCTCATTTCAGCATAGACTCAACAATTTT
1 AGGCTCAACAACTTTAAAAATTCTCATCTTGAAAAAGCTCATTTCAGCAGAGACTCAACAATTGA
* *
12067734 AAAATTTTATCTTGAAAAAGCTCATCTCAGCAAAGACTCAACAACTTTACAAATTCTCATCTTGA
66 AAAATTTTATCTTGAAAAAGCTCATCTAAGCAAAGACTCAACAACTTTACAAAATCTCATCTTGA
* * *
12067799 AAAAGCTCTTTTCAGCAGAAGCTCAACAACTTTAAAATT
131 AAAAGCTCATCTCAACAGAAGCTCAACAACTTTAAAATT
12067838 CTCATATGTT
Statistics
Matches: 148, Mismatches: 17, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
194 12 0.08
195 89 0.60
196 9 0.06
197 36 0.24
198 2 0.01
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.30
Consensus pattern (197 bp):
AGGCTCAACAACTTTAAAAATTCTCATCTTGAAAAAGCTCATTTCAGCAGAGACTCAACAATTGA
AAAATTTTATCTTGAAAAAGCTCATCTAAGCAAAGACTCAACAACTTTACAAAATCTCATCTTGA
AAAAGCTCATCTCAACAGAAGCTCAACAACTTTAAAATTTTATCTCGAAAAAGGCTCTTCTCAAT
AA
Found at i:12067836 original size:147 final size:147
Alignment explanation
Indices: 12067377--12067837 Score: 535
Period size: 147 Copynumber: 3.1 Consensus size: 147
12067367 CTATCAGTAA
* * * * * * *
12067377 AAGCTTAACAACTTTAAAA-TTTTATCTTGAAAAAGTTTC-TCTAAGTAGAGGCTTAATAACTTT
1 AAGCTCAACAACTTTAAAATTTTTATCTTGAAAAAG-CTCATTTAAGCAAAGGCTCAACAACTTT
* *
12067440 AAAAATCTCATC-TGAAAAAAACTCATCTCAGCAGAGGCTCAACAACTTTAAAAATTCTCATCTT
65 AAAAATCTCATCTTG-AAAAAGCTCATCTCAGCAAAGGCTCAACAACTTT-AAAATTCTCATCTT
12067504 GAAAAAGCTCATTTT-AGCAG
128 GAAAAAGCTC-TTTTCAGCAG
* * * * *
12067524 AGGTTCAACAACTTGAAAAATTTTAT-TTGGAAAAGCTCATTTAAGCAAAGGCTCAACAACTTTA
1 AAGCTCAACAACTTTAAAATTTTTATCTTGAAAAAGCTCATTTAAGCAAAGGCTCAACAACTTTA
* * * *
12067588 AAAATCTCAT-TTGAAAAAGTTCATCTCAACAAAGGCTCAACAACTTTAAAATT-TTATCTCGAA
66 AAAATCTCATCTTGAAAAAGCTCATCTCAGCAAAGGCTCAACAACTTTAAAATTCTCATCTTGAA
* **
12067651 AAAGGCTCTTCTCAATA-
131 AAA-GCTCTTTTCAGCAG
* * *
12067668 AAGGCTCAACAACTTTAAAAATTTTTATCTTGAAAAAGCTCATTTCAGCATAGACTCAACAA-TT
1 AA-GCTCAACAACTTT-AAAATTTTTATCTTGAAAAAGCTCATTTAAGCAAAGGCTCAACAACTT
* * * *
12067732 TTAAAATTTTATCTTGAAAAAGCTCATCTCAGCAAAGACTCAACAACTTTACAAATTCTCATCTT
64 TAAAAATCTCATCTTGAAAAAGCTCATCTCAGCAAAGGCTCAACAACTTTA-AAATTCTCATCTT
12067797 GAAAAAGCTCTTTTCAGCAG
128 GAAAAAGCTCTTTTCAGCAG
12067817 AAGCTCAACAACTTTAAAATT
1 AAGCTCAACAACTTTAAAATT
12067838 CTCATATGTT
Statistics
Matches: 263, Mismatches: 39, Indels: 24
0.81 0.12 0.07
Matches are distributed among these distances:
144 15 0.06
145 23 0.09
146 53 0.20
147 125 0.48
148 34 0.13
149 13 0.05
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (147 bp):
AAGCTCAACAACTTTAAAATTTTTATCTTGAAAAAGCTCATTTAAGCAAAGGCTCAACAACTTTA
AAAATCTCATCTTGAAAAAGCTCATCTCAGCAAAGGCTCAACAACTTTAAAATTCTCATCTTGAA
AAAGCTCTTTTCAGCAG
Found at i:12070317 original size:27 final size:27
Alignment explanation
Indices: 12070282--12070338 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
12070272 ATATGGAGAT
12070282 ATTAAAAGAACTTTTTCTCACTTAGAG
1 ATTAAAAGAACTTTTTCTCACTTAGAG
12070309 ATTAAAAGAACTTTTTCTCACTTAGAG
1 ATTAAAAGAACTTTTTCTCACTTAGAG
12070336 ATT
1 ATT
12070339 TCTTAGGCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.39
Consensus pattern (27 bp):
ATTAAAAGAACTTTTTCTCACTTAGAG
Found at i:12071090 original size:23 final size:22
Alignment explanation
Indices: 12071040--12071088 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
12071030 TTAATAACAC
* *
12071040 ATTTTAAAATAACAAAAATAAT
1 ATTTTAAAAAAACAAAAAAAAT
*
12071062 ATTTTAAAAAAATAAAAAAAAT
1 ATTTTAAAAAAACAAAAAAAAT
*
12071084 TTTTT
1 ATTTT
12071089 TACCTGAATC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
ATTTTAAAAAAACAAAAAAAAT
Found at i:12072038 original size:37 final size:37
Alignment explanation
Indices: 12071988--12072060 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
12071978 TGAATAGAGT
12071988 ATGGGTGACCAGAGGGTAGGGTAT-GATGGCCAGTGGG
1 ATGGGTGACCAGAGGGTAGGGTATAG-TGGCCAGTGGG
*
12072025 ATGGGTGATCAGAGGGTAGGGTATAGTGGCCAGTGG
1 ATGGGTGACCAGAGGGTAGGGTATAGTGGCCAGTGG
12072061 TGCCGGGCAA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
37 33 0.97
38 1 0.03
ACGTcount: A:0.22, C:0.10, G:0.48, T:0.21
Consensus pattern (37 bp):
ATGGGTGACCAGAGGGTAGGGTATAGTGGCCAGTGGG
Found at i:12072113 original size:15 final size:15
Alignment explanation
Indices: 12072111--12072147 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
12072101 TTTTTCTATT
12072111 TTTTTGTATTTTATA
1 TTTTTGTATTTTATA
*
12072126 TTTTTGTATTTTGTA
1 TTTTTGTATTTTATA
12072141 TTTTTGT
1 TTTTTGT
12072148 TTAATTTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.11, T:0.76
Consensus pattern (15 bp):
TTTTTGTATTTTATA
Found at i:12072116 original size:17 final size:17
Alignment explanation
Indices: 12072094--12072145 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 17
12072084 TCAACCCCCA
* *
12072094 TTTTTGTTTTTTCTATT
1 TTTTTGTATTTTATATT
12072111 TTTTTGTATTTTATA--
1 TTTTTGTATTTTATATT
*
12072126 TTTTTGTATTTTGTATT
1 TTTTTGTATTTTATATT
12072143 TTT
1 TTT
12072146 GTTTAATTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 14 0.47
17 16 0.53
ACGTcount: A:0.12, C:0.02, G:0.08, T:0.79
Consensus pattern (17 bp):
TTTTTGTATTTTATATT
Found at i:12072264 original size:28 final size:28
Alignment explanation
Indices: 12072233--12072310 Score: 138
Period size: 28 Copynumber: 2.8 Consensus size: 28
12072223 ATTAGATTTT
*
12072233 AAGCCCAATTGAATTGAAATCGAGCTTG
1 AAGCCCAGTTGAATTGAAATCGAGCTTG
*
12072261 AAGCCCAGTTGAATTGAAATTGAGCTTG
1 AAGCCCAGTTGAATTGAAATCGAGCTTG
12072289 AAGCCCAGTTGAATTGAAATCG
1 AAGCCCAGTTGAATTGAAATCG
12072311 GATATCGACC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.26
Consensus pattern (28 bp):
AAGCCCAGTTGAATTGAAATCGAGCTTG
Found at i:12072530 original size:24 final size:25
Alignment explanation
Indices: 12072478--12072536 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
12072468 GTTATGACAC
* *
12072478 TTTTATATTTTATTTTTATATTATA
1 TTTTATATTATATTTATATATTATA
*
12072503 -TTTATATTATA-TTATCTATTATA
1 TTTTATATTATATTTATATATTATA
*
12072526 TTTTAAATTAT
1 TTTTATATTAT
12072537 TAGATTTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 10 0.34
24 19 0.66
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (25 bp):
TTTTATATTATATTTATATATTATA
Found at i:12074515 original size:2 final size:2
Alignment explanation
Indices: 12074505--12074538 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
12074495 TATATCTATG
*
12074505 CA CA TA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
12074539 TATATATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.47, G:0.00, T:0.03
Consensus pattern (2 bp):
CA
Found at i:12089913 original size:28 final size:27
Alignment explanation
Indices: 12089868--12089920 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
12089858 TTTAGAAAAC
*
12089868 AAAAAATAGAAACTAAAAATTATTTTCT
1 AAAAAATAGAAAATAAAAA-TATTTTCT
12089896 AAAAAAT-GAAAATAAAAAATATTTT
1 AAAAAATAGAAAAT-AAAAATATTTT
12089921 TTATATTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (27 bp):
AAAAAATAGAAAATAAAAATATTTTCT
Found at i:12089921 original size:28 final size:28
Alignment explanation
Indices: 12089868--12089920 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
12089858 TTTAGAAAAC
* *
12089868 AAAAAATAGAAACTAAAAATTATTTTCT
1 AAAAAATAGAAAATAAAAAATATTTTCT
12089896 AAAAAAT-GAAAATAAAAAATATTTT
1 AAAAAATAGAAAATAAAAAATATTTT
12089921 TTATATTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (28 bp):
AAAAAATAGAAAATAAAAAATATTTTCT
Found at i:12091032 original size:6 final size:6
Alignment explanation
Indices: 12091012--12091044 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
12091002 TATTCGAATT
*
12091012 TTTATA -TTATA TTTATT TTTATA TTTATA TTTA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTA
12091045 ATAAATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTATA
Found at i:12091039 original size:18 final size:17
Alignment explanation
Indices: 12091009--12091044 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
12090999 GAGTATTCGA
12091009 ATTTTTATATTATATTT
1 ATTTTTATATTATATTT
12091026 ATTTTTATATTTATATTT
1 ATTTTTATA-TTATATTT
12091044 A
1 A
12091045 ATAAATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTATATTATATTT
Found at i:12095379 original size:8 final size:8
Alignment explanation
Indices: 12095366--12095391 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
12095356 AGAATATAAA
12095366 TATAGGCT
1 TATAGGCT
12095374 TATAGGCT
1 TATAGGCT
12095382 TATAGGCT
1 TATAGGCT
12095390 TA
1 TA
12095392 CAAGTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.38
Consensus pattern (8 bp):
TATAGGCT
Found at i:12098073 original size:19 final size:21
Alignment explanation
Indices: 12098041--12098079 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
12098031 ACAGCAACCA
12098041 GATTTTTGTGAG-AAGCATTT
1 GATTTTTGTGAGAAAGCATTT
12098061 GATTTTTGT-AGAAAGCATT
1 GATTTTTGTGAGAAAGCATT
12098080 CAAAGGATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.28, C:0.05, G:0.23, T:0.44
Consensus pattern (21 bp):
GATTTTTGTGAGAAAGCATTT
Found at i:12098706 original size:23 final size:23
Alignment explanation
Indices: 12098678--12098721 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
12098668 TTTTTAAACT
12098678 TTATTTTAA-ATTAAAAATAATTA
1 TTATTTTAATA-TAAAAATAATTA
*
12098701 TTATTTTGATATAAAAATAAT
1 TTATTTTAATATAAAAATAAT
12098722 AATATTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
TTATTTTAATATAAAAATAATTA
Found at i:12105231 original size:34 final size:33
Alignment explanation
Indices: 12105193--12105280 Score: 88
Period size: 34 Copynumber: 2.5 Consensus size: 33
12105183 ATCAATTTTT
* *
12105193 ATTTTTAAAATTTTTATATATTATTTTA-ATATAA
1 ATTTTTAAAATATTTA-A-ATAATTTTAGATATAA
*
12105227 ATTTTTAATATATTTAAATAATTTTAGATATAAA
1 ATTTTTAAAATATTTAAATAATTTTAGATAT-AA
*
12105261 ATATTTTATAAAAATTTAAA
1 AT-TTTTA-AAATATTTAAA
12105281 AACTATATAA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
32 8 0.18
33 5 0.11
34 18 0.40
35 5 0.11
36 9 0.20
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (33 bp):
ATTTTTAAAATATTTAAATAATTTTAGATATAA
Found at i:12105246 original size:23 final size:25
Alignment explanation
Indices: 12105200--12105246 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
12105190 TTTATTTTTA
*
12105200 AAATTTTTATATATTATTTTAATAT
1 AAATTTTTATATATTATTTAAATAT
12105225 AAATTTTTA-ATA-TATTTAAATA
1 AAATTTTTATATATTATTTAAATA
12105247 ATTTTAGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.43
24 3 0.14
25 9 0.43
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
AAATTTTTATATATTATTTAAATAT
Found at i:12107849 original size:13 final size:13
Alignment explanation
Indices: 12107800--12107854 Score: 50
Period size: 13 Copynumber: 4.6 Consensus size: 13
12107790 AAAAAATAAA
12107800 ATTAATAATTTTAT
1 ATTAA-AATTTTAT
*
12107814 ATCAAAA-TTTAT
1 ATTAAAATTTTAT
12107826 -TT-AAA---TAT
1 ATTAAAATTTTAT
12107834 ATTAAAATTTTAT
1 ATTAAAATTTTAT
12107847 ATTAAAAT
1 ATTAAAAT
12107855 AAAATTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 11
0.72 0.04 0.23
Matches are distributed among these distances:
8 3 0.09
9 2 0.06
10 6 0.18
11 1 0.03
12 5 0.15
13 13 0.38
14 4 0.12
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (13 bp):
ATTAAAATTTTAT
Found at i:12107863 original size:33 final size:34
Alignment explanation
Indices: 12107800--12107863 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 34
12107790 AAAAAATAAA
** *
12107800 ATTAATAATTTTATATCAAAATTTATTTAAATAT
1 ATTAATAATTTTATATCAAAATAAAATTAAATAT
*
12107834 ATTAA-AATTTTATATTAAAATAAAATTAAA
1 ATTAATAATTTTATATCAAAATAAAATTAAA
12107864 ATCCGATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 21 0.81
34 5 0.19
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (34 bp):
ATTAATAATTTTATATCAAAATAAAATTAAATAT
Found at i:12108213 original size:27 final size:27
Alignment explanation
Indices: 12108177--12108234 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 27
12108167 GTTCATAATC
12108177 TATTCATTTTATTAACCAAT-TTTGAAA
1 TATTCATTTTATTAACCAATCTTT-AAA
*
12108204 TATTCGTTTTATTAACCAATCTTTAAA
1 TATTCATTTTATTAACCAATCTTTAAA
12108231 TATT
1 TATT
12108235 ATTCCTGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 26 0.90
28 3 0.10
ACGTcount: A:0.34, C:0.12, G:0.03, T:0.50
Consensus pattern (27 bp):
TATTCATTTTATTAACCAATCTTTAAA
Found at i:12109537 original size:162 final size:164
Alignment explanation
Indices: 12109270--12109577 Score: 437
Period size: 162 Copynumber: 1.9 Consensus size: 164
12109260 CTTTATATAA
12109270 CATATCCCCATCAAGAATAAGAATAGTTTTCACGTAAAACAATAAAAAAATCACGCAGCCAAAAT
1 CATATCCCCATCAAGAATAAGAATAGTTTTCACGTAAAACAATAAAAAAATCACGCAGCCAAAAT
** *
12109335 TCCATTATGGCAACCAAACCAAAGTGGGCATCTCATTCCCATGT-ACAAGTTGAACAGAACAAG-
66 TCCATTATGGCAACCAAACCAAAGTAAGCATCTCATTCCCAT-TAACAAGTCGAACAGAA-AAGC
*
12109398 CA-A-AAGCCTTACAAAACTCACAAAAAGATATGAT
129 CATACAAGCCTCACAAAACTCACAAAAAGATATGAT
** * * *
12109432 CATATCCCCATCAAGAATAAGAATAGTTTTTGCGTAAAACGATAAAAAAATCAGGCAGCCTAAAT
1 CATATCCCCATCAAGAATAAGAATAGTTTTCACGTAAAACAATAAAAAAATCACGCAGCCAAAAT
** * *
12109497 TCCATCT-TGGCAATGAAACCAAATTAAGCATCTCATTCCCATTAACAAGTCGAATAGAAAAGCC
66 TCCAT-TATGGCAACCAAACCAAAGTAAGCATCTCATTCCCATTAACAAGTCGAACAGAAAAGCC
12109561 ATACAAGCCTCACAAAA
130 ATACAAGCCTCACAAAA
12109578 TGATATAATC
Statistics
Matches: 128, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
161 4 0.03
162 110 0.86
163 2 0.02
164 12 0.09
ACGTcount: A:0.44, C:0.23, G:0.12, T:0.21
Consensus pattern (164 bp):
CATATCCCCATCAAGAATAAGAATAGTTTTCACGTAAAACAATAAAAAAATCACGCAGCCAAAAT
TCCATTATGGCAACCAAACCAAAGTAAGCATCTCATTCCCATTAACAAGTCGAACAGAAAAGCCA
TACAAGCCTCACAAAACTCACAAAAAGATATGAT
Found at i:12118885 original size:17 final size:16
Alignment explanation
Indices: 12118843--12118896 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
12118833 ATTTTCCTTT
12118843 TTTTCTTTCATTCTTTTC
1 TTTTCTTTC--TCTTTTC
*
12118861 TTTGCTTTCTCTTTTCC
1 TTTTCTTTCTCTTTT-C
*
12118878 TTTTCTTTTTCTTTT-
1 TTTTCTTTCTCTTTTC
12118893 TTTT
1 TTTT
12118897 TTTGACAGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
15 4 0.12
16 6 0.19
17 14 0.44
18 8 0.25
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (16 bp):
TTTTCTTTCTCTTTTC
Found at i:12119213 original size:19 final size:19
Alignment explanation
Indices: 12119168--12119217 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
12119158 AAACACCTGC
*
12119168 AAAAAAAAAAAATCAAAGT
1 AAAAAAAAAAAGTCAAAGT
* *
12119187 CAATAAAAAAAGTCAGAA-T
1 AAAAAAAAAAAGTCA-AAGT
12119206 AAAAAAAAAAAG
1 AAAAAAAAAAAG
12119218 GTTTGGTCGA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
19 23 0.92
20 2 0.08
ACGTcount: A:0.76, C:0.06, G:0.08, T:0.10
Consensus pattern (19 bp):
AAAAAAAAAAAGTCAAAGT
Found at i:12119292 original size:26 final size:26
Alignment explanation
Indices: 12119256--12119313 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
12119246 AGGCCGTTTG
*
12119256 AGATATTTTCAGGTAAAATCAAGCTC
1 AGATATTTTCAGGTAAAACCAAGCTC
12119282 AGATATTTTCAGGTAAAACCAAGCTC
1 AGATATTTTCAGGTAAAACCAAGCTC
12119308 AGATAT
1 AGATAT
12119314 GTACTCAGGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (26 bp):
AGATATTTTCAGGTAAAACCAAGCTC
Found at i:12125195 original size:22 final size:22
Alignment explanation
Indices: 12125170--12125215 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
12125160 TAAATCAGAA
12125170 AAACCTGAAAGTGAATGTACAG
1 AAACCTGAAAGTGAATGTACAG
12125192 AAACCTGAAAGTGAATGTACAG
1 AAACCTGAAAGTGAATGTACAG
12125214 AA
1 AA
12125216 TATTGATGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.48, C:0.13, G:0.22, T:0.17
Consensus pattern (22 bp):
AAACCTGAAAGTGAATGTACAG
Found at i:12125750 original size:20 final size:19
Alignment explanation
Indices: 12125725--12125768 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
12125715 ATAAAAAATG
12125725 ATATTTTAAAAAATATATAT
1 ATATTTTAAAAAA-ATATAT
*
12125745 ATATTTTTAAAAAAATTTAT
1 ATA-TTTTAAAAAAATATAT
12125765 ATAT
1 ATAT
12125769 GAGTAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 11 0.50
21 10 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
ATATTTTAAAAAAATATAT
Found at i:12125760 original size:22 final size:21
Alignment explanation
Indices: 12125728--12125768 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
12125718 AAAAATGATA
12125728 TTTTAAAAAATATATATATAT
1 TTTTAAAAAATATATATATAT
*
12125749 TTTTAAAAAA-ATTTATATAT
1 TTTTAAAAAATATATATATAT
12125769 GAGTAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTTAAAAAATATATATATAT
Found at i:12125827 original size:18 final size:18
Alignment explanation
Indices: 12125806--12125989 Score: 148
Period size: 18 Copynumber: 10.1 Consensus size: 18
12125796 AACATAATTT
*
12125806 TATTTATAAATAATATTA
1 TATTAATAAATAATATTA
12125824 TATTAAT-AATAATATTA
1 TATTAATAAATAATATTA
*
12125841 TATAAATAAATAATA-TA
1 TATTAATAAATAATATTA
*
12125858 CTATTAATAAATACTATTA
1 -TATTAATAAATAATATTA
* * *
12125877 -ATAAATAATATATTAATA
1 TATTAATAA-ATAATATTA
*
12125895 TATTAATAAATAATAATA
1 TATTAATAAATAATATTA
12125913 TATTAAATAATATTAAT-TTA
1 TATT-AATAA-A-TAATATTA
* *
12125933 -ATTAAGAAATATTATAAAATA
1 TATTAATAAATA--AT--ATTA
*
12125954 TATTAATAAATTATA-T-
1 TATTAATAAATAATATTA
12125970 TATTAATAAATAATATTA
1 TATTAATAAATAATATTA
12125988 TA
1 TA
12125990 ATATATTAAT
Statistics
Matches: 135, Mismatches: 15, Indels: 32
0.74 0.08 0.18
Matches are distributed among these distances:
16 16 0.12
17 28 0.21
18 54 0.40
19 17 0.13
20 5 0.04
21 6 0.04
22 9 0.07
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (18 bp):
TATTAATAAATAATATTA
Found at i:12125954 original size:41 final size:43
Alignment explanation
Indices: 12125822--12126008 Score: 126
Period size: 41 Copynumber: 4.3 Consensus size: 43
12125812 TAAATAATAT
* * *
12125822 TATATTAATAATAATATTATATAAATAAATAATATACTATTA-ATAAA
1 TATATT-A-AATAATATTATAT-TATTAATAA-ATAATATTATA-AAA
* * *
12125869 TACTATT-AATAA-ATAATA-TATTAATATATTAATA-AATAATAA
1 TA-TATTAAATAATATTATATTATTAATA-AATAATATTATAA-AA
12125911 TATATTAAATAATATTA-A-T-TTAATTAAGA-AATATTATAAAA
1 TATATTAAATAATATTATATTATTAA-TAA-ATAATATTATAAAA
*
12125952 TATATT-AATAA-ATTATATTATTAATAAATAATATTATAATA
1 TATATTAAATAATATTATATTATTAATAAATAATATTATAAAA
*
12125993 TATTAATAAATAATAT
1 TA-TATTAAATAATAT
12126009 AAAGAATAAT
Statistics
Matches: 113, Mismatches: 11, Indels: 35
0.71 0.07 0.22
Matches are distributed among these distances:
39 4 0.04
40 7 0.06
41 40 0.35
42 35 0.31
43 9 0.08
44 7 0.06
45 5 0.04
47 2 0.02
48 4 0.04
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (43 bp):
TATATTAAATAATATTATATTATTAATAAATAATATTATAAAA
Found at i:12126017 original size:39 final size:39
Alignment explanation
Indices: 12125811--12126017 Score: 152
Period size: 39 Copynumber: 5.1 Consensus size: 39
12125801 AATTTTATTT
* *
12125811 ATAAATAATATTAT-AT-TAATAATAATATTATATAAATAA
1 ATAAATAATATTATAATATATTAATAA-ATAATATAAAT-A
*
12125850 ATAATATACTATTAATAAATACTATTAATAAATAATATATTAATA
1 ATAA-ATAATATT-AT-AATA-TATTAATAAATAATATA--AATA
* * * *
12125895 TATTAATAA-ATAATAATATATTAAATAATATTAATTTAATTA
1 -ATAAATAATATTATAATATATT-AATAA-A-TAATATAAATA
* * * * * *
12125937 AGAAATATTA-TAAAATATATTAATAAATTATATTATTA
1 ATAAATAATATTATAATATATTAATAAATAATATAAATA
*
12125975 ATAAATAATATTATAATATATTAATAAATAATATAAAGA
1 ATAAATAATATTATAATATATTAATAAATAATATAAATA
12126014 ATAA
1 ATAA
12126018 TAAATAGTTT
Statistics
Matches: 131, Mismatches: 23, Indels: 28
0.72 0.13 0.15
Matches are distributed among these distances:
38 16 0.12
39 32 0.24
40 12 0.09
41 20 0.15
42 13 0.10
43 5 0.04
44 15 0.11
45 12 0.09
46 6 0.05
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (39 bp):
ATAAATAATATTATAATATATTAATAAATAATATAAATA
Found at i:12126023 original size:23 final size:23
Alignment explanation
Indices: 12125974--12126023 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
12125964 TTATATTATT
* * *
12125974 AATAAATAATATTATAATATATT
1 AATAAATAATATAAGAATATATA
12125997 AATAAATAATATAAAGAATA-ATA
1 AATAAATAATAT-AAGAATATATA
12126020 AATA
1 AATA
12126024 GTTTTATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (23 bp):
AATAAATAATATAAGAATATATA
Found at i:12126111 original size:16 final size:16
Alignment explanation
Indices: 12126092--12126137 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
12126082 AAAATACAAT
12126092 TACTTTTTAATATTAA
1 TACTTTTTAATATTAA
*
12126108 TAC-TTTTAATAATAAA
1 TACTTTTTAAT-ATTAA
*
12126124 TAATTTTTAATATT
1 TACTTTTTAATATT
12126138 TTAATAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 7 0.28
16 11 0.44
17 7 0.28
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.54
Consensus pattern (16 bp):
TACTTTTTAATATTAA
Found at i:12126116 original size:15 final size:16
Alignment explanation
Indices: 12126096--12126137 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
12126086 TACAATTACT
12126096 TTTTAATATTAAT-AC
1 TTTTAATATTAATAAC
* *
12126111 TTTTAATAATAAATAAT
1 TTTTAAT-ATTAATAAC
12126128 TTTTAATATT
1 TTTTAATATT
12126138 TTAATAATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 7 0.32
16 7 0.32
17 8 0.36
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTTAATATTAATAAC
Found at i:12126260 original size:32 final size:33
Alignment explanation
Indices: 12126192--12126260 Score: 79
Period size: 33 Copynumber: 2.1 Consensus size: 33
12126182 GAAAATAACC
* ** *
12126192 AAATAACAAAAAATATTTTTTATTAATTAATCT
1 AAATAACAAAAAATATTTTTAATTAAAAAATAT
12126225 AAATAACAAAAAA-A-TTTTAATTCAAAAAATAT
1 AAATAACAAAAAATATTTTTAATT-AAAAAATAT
12126257 AAAT
1 AAAT
12126261 TTTTTTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
31 7 0.23
32 11 0.35
33 13 0.42
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (33 bp):
AAATAACAAAAAATATTTTTAATTAAAAAATAT
Found at i:12130024 original size:32 final size:31
Alignment explanation
Indices: 12129967--12130029 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
12129957 AAATTAAAAT
12129967 AAATACAATAACAACATATAAATTTAATTAA
1 AAATACAATAACAACATATAAATTTAATTAA
* * *
12129998 AAATATAATATCATCATACTAAATTTAATTAA
1 AAATACAATAACAACATA-TAAATTTAATTAA
12130030 TTAAAATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 15 0.54
32 13 0.46
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (31 bp):
AAATACAATAACAACATATAAATTTAATTAA
Found at i:12130913 original size:27 final size:27
Alignment explanation
Indices: 12130878--12130936 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
12130868 AAATAGTAAT
12130878 AAAAATTATTACAGTTGGGATTGAAAA
1 AAAAATTATTACAGTTGGGATTGAAAA
** *
12130905 AAAAATTATTGTAGTTGTGATTGAAAA
1 AAAAATTATTACAGTTGGGATTGAAAA
12130932 AAAAA
1 AAAAA
12130937 ATTAATGAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.51, C:0.02, G:0.17, T:0.31
Consensus pattern (27 bp):
AAAAATTATTACAGTTGGGATTGAAAA
Found at i:12131332 original size:18 final size:18
Alignment explanation
Indices: 12131309--12131347 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
12131299 ATATTACTTT
*
12131309 TTAAATATA-AATATAAAA
1 TTAAATAAATAATA-AAAA
12131327 TTAAATAAATAATAAAAA
1 TTAAATAAATAATAAAAA
12131345 TTA
1 TTA
12131348 TTATATATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
TTAAATAAATAATAAAAA
Found at i:12137509 original size:22 final size:22
Alignment explanation
Indices: 12137466--12137506 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
12137456 GGTTGGTGTT
* *
12137466 TTTTATTTAATTTTATAATTAA
1 TTTTATTAAAATTTATAATTAA
12137488 TTTTATTAAAATTTA-AATT
1 TTTTATTAAAATTTATAATT
12137507 TAAAATTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTTATTAAAATTTATAATTAA
Found at i:12138173 original size:19 final size:20
Alignment explanation
Indices: 12138136--12138173 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
12138126 TTTTTAAGAT
**
12138136 TAAATTTTTTTAATTTTAAC
1 TAAATTTTTTTAACATTAAC
12138156 TAAA-TTTTTTAACATTAA
1 TAAATTTTTTTAACATTAA
12138174 TATTAAAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (20 bp):
TAAATTTTTTTAACATTAAC
Found at i:12141574 original size:18 final size:18
Alignment explanation
Indices: 12141530--12141574 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
12141520 AGTTATTATT
12141530 CACCACAAATGTATCATC
1 CACCACAAATGTATCATC
**
12141548 CACTTCAAATGTATCATC
1 CACCACAAATGTATCATC
*
12141566 TACCACAAA
1 CACCACAAA
12141575 ATATATCCCC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.40, C:0.31, G:0.04, T:0.24
Consensus pattern (18 bp):
CACCACAAATGTATCATC
Found at i:12154447 original size:6 final size:6
Alignment explanation
Indices: 12154436--12154471 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
12154426 CCCTTTGCTT
*
12154436 CTTCAC CTTCAC CTTCAC CTTCAC TTTCAC CATTCA
1 CTTCAC CTTCAC CTTCAC CTTCAC CTTCAC C-TTCA
12154472 TATGGTCTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 23 0.85
7 4 0.15
ACGTcount: A:0.19, C:0.44, G:0.00, T:0.36
Consensus pattern (6 bp):
CTTCAC
Found at i:12154839 original size:20 final size:20
Alignment explanation
Indices: 12154809--12154853 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
12154799 TATTGAATAA
* *
12154809 TTTAA-TGAAAATTTTCGTT
1 TTTAAGTGAAAATTGTAGTT
12154828 TTTAAGTGAAAATTGTAGTT
1 TTTAAGTGAAAATTGTAGTT
12154848 TTTAAG
1 TTTAAG
12154854 ATTCAGGGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (20 bp):
TTTAAGTGAAAATTGTAGTT
Found at i:12155501 original size:4 final size:4
Alignment explanation
Indices: 12155445--12155483 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
12155435 TGCAATATAT
12155445 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
12155484 TATATATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:12156540 original size:2 final size:2
Alignment explanation
Indices: 12156533--12156557 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
12156523 TTCTCCTCCT
12156533 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
12156558 TTTTATCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:12162794 original size:19 final size:19
Alignment explanation
Indices: 12162770--12162806 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
12162760 TTGTCTCAAG
12162770 TTTAATT-AAATTTTAATTT
1 TTTAATTCAAA-TTTAATTT
12162789 TTTAATTCAAATTTAATT
1 TTTAATTCAAATTTAATT
12162807 CAAGATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTAATTCAAATTTAATTT
Found at i:12162909 original size:25 final size:25
Alignment explanation
Indices: 12162867--12162925 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 25
12162857 GTAAAAAAAT
12162867 AAATTTAAATTTTATATTT-AACAA
1 AAATTTAAATTTTATATTTGAACAA
* **
12162891 AAATTTAATTATTTATATTTGAATTA
1 AAATTTAAAT-TTTATATTTGAACAA
12162917 AAATTTAAA
1 AAATTTAAA
12162926 ATATTTTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 9 0.31
25 9 0.31
26 11 0.38
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (25 bp):
AAATTTAAATTTTATATTTGAACAA
Found at i:12162919 original size:26 final size:25
Alignment explanation
Indices: 12162867--12162944 Score: 90
Period size: 24 Copynumber: 3.2 Consensus size: 25
12162857 GTAAAAAAAT
**
12162867 AAATTTAAAT-TTTATATTTAACAA
1 AAATTTAAATATTTATATTTAATTA
*
12162891 AAATTTAATTATTTATATTTGAATTA
1 AAATTTAAATATTTATATTT-AATTA
12162917 AAATTTAAAATATTT-TA-TTAATTA
1 AAATTT-AAATATTTATATTTAATTA
12162941 AAAT
1 AAAT
12162945 AATTAAAATA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
24 18 0.38
25 11 0.23
26 11 0.23
27 7 0.15
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (25 bp):
AAATTTAAATATTTATATTTAATTA
Found at i:12162947 original size:9 final size:9
Alignment explanation
Indices: 12162935--12162964 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
12162925 AATATTTTAT
12162935 TAATTAAAA
1 TAATTAAAA
12162944 TAATTAAAA
1 TAATTAAAA
12162953 TATATTAAAA
1 TA-ATTAAAA
12162963 TA
1 TA
12162965 TAAAATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
TAATTAAAA
Found at i:12162961 original size:10 final size:10
Alignment explanation
Indices: 12162937--12162966 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
12162927 TATTTTATTA
12162937 ATTAAAATA-
1 ATTAAAATAT
12162946 ATTAAAATAT
1 ATTAAAATAT
12162956 ATTAAAATAT
1 ATTAAAATAT
12162966 A
1 A
12162967 AAATTTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:12162968 original size:26 final size:26
Alignment explanation
Indices: 12162904--12162970 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 26
12162894 TTTAATTATT
*
12162904 TATATT-TGAATTAAAAT--TTAAAA
1 TATATTATAAATTAAAATAATTAAAA
* *
12162927 TATTTTATTAATTAAAATAATTAAAA
1 TATATTATAAATTAAAATAATTAAAA
12162953 TATATTA-AAATATAAAAT
1 TATATTATAAAT-TAAAAT
12162971 TTTAATTACG
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 5 0.14
24 10 0.28
25 3 0.08
26 18 0.50
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (26 bp):
TATATTATAAATTAAAATAATTAAAA
Found at i:12162978 original size:19 final size:20
Alignment explanation
Indices: 12162934--12162978 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
12162924 AAATATTTTA
12162934 TTAATTAAAATAATTAAAAT
1 TTAATTAAAATAATTAAAAT
*
12162954 AT-ATTAAAAT-A-TAAAATT
1 TTAATTAAAATAATTAAAA-T
12162972 TTAATTA
1 TTAATTA
12162979 CGCTCGTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
17 5 0.24
18 3 0.14
19 12 0.57
20 1 0.05
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TTAATTAAAATAATTAAAAT
Found at i:12164644 original size:13 final size:13
Alignment explanation
Indices: 12164624--12164670 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
12164614 AATTCGATTC
12164624 AAATTTAATATAT
1 AAATTTAATATAT
* *
12164637 ACATTTAATATTT
1 AAATTTAATATAT
12164650 AAATTTAAT-T-T
1 AAATTTAATATAT
*
12164661 AAATTAAATA
1 AAATTTAATA
12164671 AAAAATTCGA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
11 9 0.31
12 1 0.03
13 19 0.66
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (13 bp):
AAATTTAATATAT
Found at i:12165020 original size:21 final size:21
Alignment explanation
Indices: 12164984--12165039 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
12164974 TTTATTTTTT
*
12164984 AATATATATAA--ATAATAATA
1 AATATATATAATTTTAAT-ATA
*
12165004 AATA-ATATAATTTTAATATC
1 AATATATATAATTTTAATATA
*
12165024 AATATTTATAATTTTA
1 AATATATATAATTTTA
12165040 TCAAAACTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 6 0.20
20 10 0.33
21 14 0.47
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
AATATATATAATTTTAATATA
Found at i:12165933 original size:21 final size:21
Alignment explanation
Indices: 12165893--12165938 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
12165883 TATAAAATAT
* *
12165893 ATTT-TTTTAGTTTT-GTTAA
1 ATTTATTTTAGTTTTACTAAA
12165912 ATTTATTTATAGTTTTACTAAA
1 ATTTATTT-TAGTTTTACTAAA
12165934 ATTTA
1 ATTTA
12165939 AAATTGTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 4 0.18
20 3 0.14
21 7 0.32
22 8 0.36
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (21 bp):
ATTTATTTTAGTTTTACTAAA
Found at i:12166641 original size:18 final size:18
Alignment explanation
Indices: 12166620--12166655 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
12166610 AATATACCAT
* *
12166620 AAAAATATCATATTAATA
1 AAAAATATAAAATTAATA
12166638 AAAAATATAAAATTAATA
1 AAAAATATAAAATTAATA
12166656 CGTTTTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAAATATAAAATTAATA
Found at i:12166779 original size:31 final size:31
Alignment explanation
Indices: 12166715--12166781 Score: 77
Period size: 30 Copynumber: 2.2 Consensus size: 31
12166705 ATATTTTATT
*
12166715 TTTTTATATTAATATTAATTATAATATATAA
1 TTTTTATATAAATATTAATTATAATATATAA
12166746 TTTTTATATAAA-ATATAA-TATAA-ATAATAA
1 TTTTTATATAAATAT-TAATTATAATAT-ATAA
*
12166776 ATTTTA
1 TTTTTA
12166782 ATATTTTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 2 0.06
30 16 0.50
31 14 0.44
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (31 bp):
TTTTTATATAAATATTAATTATAATATATAA
Found at i:12166917 original size:15 final size:14
Alignment explanation
Indices: 12166890--12166924 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
12166880 TCGCCAAAGC
*
12166890 AAAAGAAAAAAAAT
1 AAAAAAAAAAAAAT
12166904 AAAAAAAAATAAAAT
1 AAAAAAAAA-AAAAT
12166919 AAAAAA
1 AAAAAA
12166925 TACAACTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.89, C:0.00, G:0.03, T:0.09
Consensus pattern (14 bp):
AAAAAAAAAAAAAT
Found at i:12178158 original size:24 final size:24
Alignment explanation
Indices: 12178126--12178173 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
12178116 GTTTTGAAGT
*
12178126 TCATATTTCTCTGGCATGATGAGG
1 TCATATTTCTCTGGCAGGATGAGG
12178150 TCATATTTCTCTGGCAGGATGAGG
1 TCATATTTCTCTGGCAGGATGAGG
12178174 CTAATCTATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (24 bp):
TCATATTTCTCTGGCAGGATGAGG
Found at i:12179502 original size:22 final size:24
Alignment explanation
Indices: 12179459--12179503 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 24
12179449 AATTTTAATT
**
12179459 TTTTTATATATTATTTTGATAAAA
1 TTTTTATATATTATTTAAATAAAA
12179483 TTTTTA-ATA-TATTTAAATAAA
1 TTTTTATATATTATTTAAATAAA
12179504 TTTATGTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 10 0.53
23 3 0.16
24 6 0.32
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (24 bp):
TTTTTATATATTATTTAAATAAAA
Found at i:12179549 original size:9 final size:10
Alignment explanation
Indices: 12179530--12179575 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
12179520 TTATTTTTAT
12179530 TTTATAAAAA
1 TTTATAAAAA
12179540 TTTA-AAAAA
1 TTTATAAAAA
*
12179549 TATATAAAAA
1 TTTATAAAAA
*
12179559 TTAATAAAAA
1 TTTATAAAAA
*
12179569 TATATAA
1 TTTATAA
12179576 TTTGATTTGA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
9 8 0.27
10 22 0.73
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
TTTATAAAAA
Found at i:12179558 original size:20 final size:20
Alignment explanation
Indices: 12179532--12179575 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
12179522 ATTTTTATTT
*
12179532 TATAAAAATTTA-AAAAATA
1 TATAAAAATTAATAAAAATA
12179551 TATAAAAATTAATAAAAATA
1 TATAAAAATTAATAAAAATA
12179571 TATAA
1 TATAA
12179576 TTTGATTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
TATAAAAATTAATAAAAATA
Found at i:12180475 original size:5 final size:5
Alignment explanation
Indices: 12180465--12180497 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
12180455 GCCCTAACTC
*
12180465 TTTCT TTTCT TTTCT TTTCT TTT-T TTTTT TTTC
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTC
12180498 CCTATGGCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (5 bp):
TTTCT
Found at i:12204577 original size:3 final size:3
Alignment explanation
Indices: 12204569--12204624 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
12204559 CTAAGATTAC
12204569 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
12204617 ATA ATA AT
1 ATA ATA AT
12204625 CTGCTGCTTA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:12205009 original size:20 final size:19
Alignment explanation
Indices: 12204974--12205011 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
12204964 CTCAAAACAT
12204974 AAAAATTCAAATTTAAAAA
1 AAAAATTCAAATTTAAAAA
12204993 AAAAATCTCGAAA-TTAAAA
1 AAAAAT-TC-AAATTTAAAA
12205012 GGAAAAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 8 0.47
21 3 0.18
ACGTcount: A:0.66, C:0.08, G:0.03, T:0.24
Consensus pattern (19 bp):
AAAAATTCAAATTTAAAAA
Found at i:12205664 original size:14 final size:14
Alignment explanation
Indices: 12205645--12205675 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
12205635 AATCTTTTTA
*
12205645 TTTCTACGGTTCGG
1 TTTCTACAGTTCGG
12205659 TTTCTACAGTTCGG
1 TTTCTACAGTTCGG
12205673 TTT
1 TTT
12205676 GATTGACCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.10, C:0.19, G:0.23, T:0.48
Consensus pattern (14 bp):
TTTCTACAGTTCGG
Found at i:12210436 original size:18 final size:19
Alignment explanation
Indices: 12210406--12210442 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
12210396 CTTCTATTGT
12210406 AATTTTTATAAAAA-AAAA
1 AATTTTTATAAAAAGAAAA
12210424 AATTATTTA-AAAAAGAAAA
1 AATT-TTTATAAAAAGAAAA
12210443 TTGCTATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (19 bp):
AATTTTTATAAAAAGAAAA
Found at i:12210452 original size:18 final size:17
Alignment explanation
Indices: 12210412--12210454 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
12210402 TTGTAATTTT
12210412 TATAAAAAAAAAAATTA
1 TATAAAAAAAAAAATTA
* * *
12210429 TTTAAAAAAGAAAATTGC
1 TATAAAAAAAAAAATT-A
12210447 TATAAAAA
1 TATAAAAA
12210455 TTTATAATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
TATAAAAAAAAAAATTA
Found at i:12213971 original size:16 final size:17
Alignment explanation
Indices: 12213946--12213978 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
12213936 AAATCTAATT
12213946 TTAAAAAAAAA-AAAAC
1 TTAAAAAAAAAGAAAAC
*
12213962 TTAAACAAAAAGAAAAC
1 TTAAAAAAAAAGAAAAC
12213979 ATATCGTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.76, C:0.09, G:0.03, T:0.12
Consensus pattern (17 bp):
TTAAAAAAAAAGAAAAC
Found at i:12215582 original size:18 final size:18
Alignment explanation
Indices: 12215561--12215602 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
12215551 GAGTCCTGAG
12215561 GGTAATACT-AGTAGTGAA
1 GGTAAT-CTCAGTAGTGAA
* *
12215579 GGTAATGTCGGTAGTGAA
1 GGTAATCTCAGTAGTGAA
12215597 GGTAAT
1 GGTAAT
12215603 GCTGGTGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 1 0.05
18 20 0.95
ACGTcount: A:0.33, C:0.05, G:0.33, T:0.29
Consensus pattern (18 bp):
GGTAATCTCAGTAGTGAA
Found at i:12218970 original size:70 final size:70
Alignment explanation
Indices: 12218896--12219109 Score: 186
Period size: 70 Copynumber: 3.1 Consensus size: 70
12218886 TTAAATGACT
* *
12218896 AGTCAAAAAAT-AAATATGATTGAGATTGAATCGTTAGTTGAAGAATAAATATGACTTAGATTGA
1 AGTCAAAAAATGAAA-ATGATTGAGATTGAATCATAAGTTGAAGAATAAATATGACTTAGATTGA
12218960 GCAGCA
65 GCAGCA
* * * * * **
12218966 AGTCAAGAAATGAAAATGATTGTGATTAAAAT-ATGACTCAAAGAATAAATATGA-TTAAGATTG
1 AGTCAAAAAATGAAAATGATTGAGATT-GAATCATAAGTTGAAGAATAAATATGACTT-AGATTG
* * *
12219029 AACCGTA
64 AGCAGCA
** * * * *
12219036 AGTTGAAGAATGAAAATGATCGAGATTGAA-CCTCAAGTTGAAGAATAAATATGACTAAGATTGA
1 AGTCAAAAAATGAAAATGATTGAGATTGAATCAT-AAGTTGAAGAATAAATATGACTTAGATTGA
12219100 GCTA-CA
65 GC-AGCA
12219106 AGTC
1 AGTC
12219110 GAAGGGTAAA
Statistics
Matches: 109, Mismatches: 28, Indels: 14
0.72 0.19 0.09
Matches are distributed among these distances:
69 5 0.05
70 97 0.89
71 7 0.06
ACGTcount: A:0.45, C:0.08, G:0.20, T:0.27
Consensus pattern (70 bp):
AGTCAAAAAATGAAAATGATTGAGATTGAATCATAAGTTGAAGAATAAATATGACTTAGATTGAG
CAGCA
Found at i:12219045 original size:35 final size:35
Alignment explanation
Indices: 12218904--12219099 Score: 141
Period size: 35 Copynumber: 5.6 Consensus size: 35
12218894 CTAGTCAAAA
* *
12218904 AATAAATATGATTGAGATTGAATCGTTAGTTGAAG
1 AATAAATATGATTGAGATTGAACCGTAAGTTGAAG
* * * *
12218939 AATAAATATGACTT-AGATTGAGCAGCAAG-TCAAG
1 AATAAATATGA-TTGAGATTGAACCGTAAGTTGAAG
* * *** * * **
12218973 AAATGAAA-ATGATTGTGATTAAAATATGACTCAAAG
1 -AAT-AAATATGATTGAGATTGAACCGTAAGTTGAAG
*
12219009 AATAAATATGATTAAGATTGAACCGTAAGTTGAAG
1 AATAAATATGATTGAGATTGAACCGTAAGTTGAAG
*
12219044 AATGAAA-ATGATCGAGATTGAACC-TCAAGTTGAAG
1 AAT-AAATATGATTGAGATTGAACCGT-AAGTTGAAG
* *
12219079 AATAAATATGACTAAGATTGA
1 AATAAATATGATTGAGATTGA
12219100 GCTACAAGTC
Statistics
Matches: 120, Mismatches: 32, Indels: 18
0.71 0.19 0.11
Matches are distributed among these distances:
34 13 0.11
35 96 0.80
36 11 0.09
ACGTcount: A:0.45, C:0.07, G:0.20, T:0.28
Consensus pattern (35 bp):
AATAAATATGATTGAGATTGAACCGTAAGTTGAAG
Found at i:12219108 original size:35 final size:33
Alignment explanation
Indices: 12219006--12219113 Score: 103
Period size: 35 Copynumber: 3.1 Consensus size: 33
12218996 ATATGACTCA
12219006 AAGAATAAATATGATTAAGATTGAAC-CGTAAGTTG
1 AAGAATAAATATGA-TAAGATTGAACTC--AAGTTG
*
12219041 AAGAATGAAA-ATGATCGAGATTGAACCTCAAGTTG
1 AAGAAT-AAATATGAT-AAGATTGAA-CTCAAGTTG
* *
12219076 AAGAATAAATATGACTAAGATTGAGCTACAAGTCG
1 AAGAATAAATATGA-TAAGATTGAACT-CAAGTTG
12219111 AAG
1 AAG
12219114 GGTAAAGATG
Statistics
Matches: 62, Mismatches: 4, Indels: 14
0.77 0.05 0.17
Matches are distributed among these distances:
34 6 0.10
35 50 0.81
36 5 0.08
37 1 0.02
ACGTcount: A:0.45, C:0.09, G:0.21, T:0.24
Consensus pattern (33 bp):
AAGAATAAATATGATAAGATTGAACTCAAGTTG
Found at i:12220707 original size:17 final size:17
Alignment explanation
Indices: 12220670--12220712 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
12220660 AATCATCTTT
* * *
12220670 TTTTTATTTTTTTTGTT
1 TTTTTATTTTTCTTCTC
12220687 TTTTTATTTTTCTTCTC
1 TTTTTATTTTTCTTCTC
12220704 TTTTT-TTTT
1 TTTTTATTTT
12220713 AAAGCAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.05, C:0.07, G:0.02, T:0.86
Consensus pattern (17 bp):
TTTTTATTTTTCTTCTC
Found at i:12231711 original size:3 final size:3
Alignment explanation
Indices: 12231703--12231742 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
12231693 TCTTTTTCCT
12231703 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
12231743 GCATAAATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:12231812 original size:20 final size:21
Alignment explanation
Indices: 12231768--12231812 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
12231758 GCATGAAAAA
** *
12231768 TAAAGTATATCAAATATAGAT
1 TAAAGTATAAAAAATATAAAT
12231789 TAAAGTATAAAAAAT-TAAAT
1 TAAAGTATAAAAAATATAAAT
12231809 TAAA
1 TAAA
12231813 ATAAGCACGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (21 bp):
TAAAGTATAAAAAATATAAAT
Found at i:12232173 original size:58 final size:58
Alignment explanation
Indices: 12232102--12232212 Score: 177
Period size: 58 Copynumber: 1.9 Consensus size: 58
12232092 TATGCCATGA
* * *
12232102 TTTGGACATTTGCATGACGTTATGTAATAATCTTATAACAATGGCCCCACACCGTGAC
1 TTTGGACATTTGCACGACGTTATGCAACAATCTTATAACAATGGCCCCACACCGTGAC
* *
12232160 TTTGGACATTTGCACGATGTTATGCAACAATCTTATAATAATGGCCCCACACC
1 TTTGGACATTTGCACGACGTTATGCAACAATCTTATAACAATGGCCCCACACC
12232213 ATAACTATGA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
58 48 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (58 bp):
TTTGGACATTTGCACGACGTTATGCAACAATCTTATAACAATGGCCCCACACCGTGAC
Found at i:12233352 original size:73 final size:73
Alignment explanation
Indices: 12233221--12233438 Score: 258
Period size: 73 Copynumber: 3.0 Consensus size: 73
12233211 AACATAATGC
** * *
12233221 TGAAGAAACCATAAGAATGCAACACGTGGTGCATAAACCATGAACACCAA-GTATGAAAATGGTA
1 TGAAGAAACCATAAGAATGCGGCACGTGATGCAGAAACCATGAACA-CAAGGTATGAAAATGGTA
12233285 GGAAACTGA
65 GGAAACTGA
* * * * * * *
12233294 TGAAGAAACCATAAAAATGCGGCACATGATGCAGAAATCTTGAATACAAGGTCTGAAAATGGGAG
1 TGAAGAAACCATAAGAATGCGGCACGTGATGCAGAAACCATGAACACAAGGTATGAAAATGGTAG
* *
12233359 GAAAATGG
66 GAAACTGA
* * * *
12233367 TGAAAAAAAACATAAGAATGCGGCACGTGATGCAGAAACCATGAACACCAGGTTTGAAAATGGTA
1 TG-AAGAAACCATAAGAATGCGGCACGTGATGCAGAAACCATGAACACAAGGTATGAAAATGGTA
12233432 GGAAACT
65 GGAAACT
12233439 AGTGCAATCA
Statistics
Matches: 119, Mismatches: 24, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
72 3 0.03
73 58 0.49
74 58 0.49
ACGTcount: A:0.44, C:0.15, G:0.24, T:0.17
Consensus pattern (73 bp):
TGAAGAAACCATAAGAATGCGGCACGTGATGCAGAAACCATGAACACAAGGTATGAAAATGGTAG
GAAACTGA
Found at i:12233780 original size:2 final size:2
Alignment explanation
Indices: 12233773--12233802 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
12233763 ATCAGGCGGA
12233773 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12233803 CACATGCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12235469 original size:14 final size:15
Alignment explanation
Indices: 12235432--12235472 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
12235422 AAGTTTTTTT
12235432 TTTTTTTTAATTAGA
1 TTTTTTTTAATTAGA
**
12235447 TTTAGTTTAATT-GA
1 TTTTTTTTAATTAGA
12235461 TTTTTTTTAATT
1 TTTTTTTTAATT
12235473 TCATTAATAC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.68
Consensus pattern (15 bp):
TTTTTTTTAATTAGA
Found at i:12244977 original size:27 final size:24
Alignment explanation
Indices: 12244947--12244998 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 24
12244937 TATTTTTTCT
*
12244947 TAAAATTAGTGAAAATAATATATTAAA
1 TAAAATTACT-AAAATAAT-T-TTAAA
12244974 TAAAATTACTAAAATAATTTTAAA
1 TAAAATTACTAAAATAATTTTAAA
12244998 T
1 T
12244999 TTGAATCTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 6 0.25
25 1 0.04
26 8 0.33
27 9 0.38
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.37
Consensus pattern (24 bp):
TAAAATTACTAAAATAATTTTAAA
Found at i:12249931 original size:22 final size:23
Alignment explanation
Indices: 12249905--12249960 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 23
12249895 TGATAAAATA
*
12249905 TTAAATTATTAATTTTAATAA-T
1 TTAAATTATTAAATTTAATAACT
* *
12249927 TTAAATT-TAAAATTTGATAACT
1 TTAAATTATTAAATTTAATAACT
12249949 TTAAA-TATTAAA
1 TTAAATTATTAAA
12249961 AAAAAAAAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 11 0.39
22 17 0.61
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTAAATTATTAAATTTAATAACT
Found at i:12251306 original size:29 final size:30
Alignment explanation
Indices: 12251267--12251338 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 30
12251257 GTCCATGATA
***
12251267 TATATATATTATTTTTTAAAAT-TTATATT
1 TATATATATTATTAAATAAAATATTATATT
12251296 TATATATATTAATTAAATAAAATATTATATT
1 TATATATATT-ATTAAATAAAATATTATATT
12251327 TATATATGATTA
1 TATATAT-ATTA
12251339 AAGTATAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 10 0.27
30 9 0.24
31 15 0.41
32 3 0.08
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (30 bp):
TATATATATTATTAAATAAAATATTATATT
Found at i:12252169 original size:19 final size:18
Alignment explanation
Indices: 12252147--12252221 Score: 60
Period size: 20 Copynumber: 3.8 Consensus size: 18
12252137 ATTATGAACG
12252147 ATTTTTAAATTATAATGAA
1 ATTTTTAAATTATAATG-A
* *
12252166 ATTTTTAATATGATATTTGA
1 ATTTTTAA-ATTATA-ATGA
*
12252186 ATTTTAAAAATTTATAATGTA
1 ATTTT-TAAA-TTATAATG-A
*
12252207 ATATTTAAATTATAA
1 ATTTTTAAATTATAA
12252222 ATTAATTAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
19 14 0.32
20 17 0.39
21 13 0.30
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.49
Consensus pattern (18 bp):
ATTTTTAAATTATAATGA
Found at i:12252210 original size:29 final size:29
Alignment explanation
Indices: 12252150--12252222 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
12252140 ATGAACGATT
* *
12252150 TTTAAATTATAATGAAATTTTTAATATGATA
1 TTTAAATTATAA--AAATTTATAATATAATA
* * *
12252181 TTTGAATTTTAAAAATTTATAATGTAATA
1 TTTAAATTATAAAAATTTATAATATAATA
12252210 TTTAAATTATAAA
1 TTTAAATTATAAA
12252223 TTAATTAATT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
29 25 0.71
31 10 0.29
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (29 bp):
TTTAAATTATAAAAATTTATAATATAATA
Found at i:12253637 original size:201 final size:201
Alignment explanation
Indices: 12253292--12253674 Score: 563
Period size: 201 Copynumber: 1.9 Consensus size: 201
12253282 AAATGCATTG
* *
12253292 TCAAAGAAATGGACATCTTTCGTAAGCGTAGCCCCATGTTTGACTTACCCATACGACATTTCATC
1 TCAAAGAAATGGACATCTTTCGTAAGCATAGCCCCATGTTTGACTTACCCATACGACACTTCATC
* *
12253357 ACTTCCAAGAAGATGTCTGGTTGATAACGACTACAGGGGGACCTGCTACAATTTCCCTACCAATC
66 ACTTCCAAGAAGATGGCTGGTTGATAACGACTACAGGGGGACCTGCTACAATTTACCTACCAATC
* * *
12253422 ACATTTCTCCACATCACACAATTTATGGGTCTCACGTGTTGCTGATATGGTATAAGGATATATTT
131 ACATTTCTCCACATCACACAATTTATGGGTCTCACCTATTGCTGACATGGTATAAGGATATATTT
12253487 TTTTTA
196 TTTTTA
* ** **
12253493 TCAAAGAAATTGACATCTTTCGTAAGCATAGCCCCATGTTTGACTTTGTCCATGGGACACTTCAT
1 TCAAAGAAATGGACATCTTTCGTAAGCATAGCCCCATGTTTGAC-TTACCCATACGACACTTCAT
* ** * ** *
12253558 CACTTCGAAG-ATTTCGGCTGGTTGATAAGGACTGTA-GGGGACCTGCTACAATTTACTTACCAA
65 CACTTCCAAGAAGAT-GGCTGGTTGATAACGACTACAGGGGGACCTGCTACAATTTACCTACCAA
12253621 TCACATTTCTCCACATCACACAATTTATGGGTCTCACCTATTGCTGACATGGTA
129 TCACATTTCTCCACATCACACAATTTATGGGTCTCACCTATTGCTGACATGGTA
12253675 CAAAGATTTT
Statistics
Matches: 161, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
201 120 0.75
202 41 0.25
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (201 bp):
TCAAAGAAATGGACATCTTTCGTAAGCATAGCCCCATGTTTGACTTACCCATACGACACTTCATC
ACTTCCAAGAAGATGGCTGGTTGATAACGACTACAGGGGGACCTGCTACAATTTACCTACCAATC
ACATTTCTCCACATCACACAATTTATGGGTCTCACCTATTGCTGACATGGTATAAGGATATATTT
TTTTTA
Found at i:12254326 original size:31 final size:31
Alignment explanation
Indices: 12254256--12254327 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
12254246 AAGAACATCT
* *
12254256 AAAATTTTTATTTTTTTATATTTTAAAATTA
1 AAAATTATAATTTTTTTATATTTTAAAATTA
*** * *
12254287 ATTTTTATAATTTTTTTATTTTTTAACATTA
1 AAAATTATAATTTTTTTATATTTTAAAATTA
12254318 AAAATTATAA
1 AAAATTATAA
12254328 AACTTTAATT
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (31 bp):
AAAATTATAATTTTTTTATATTTTAAAATTA
Found at i:12254343 original size:16 final size:17
Alignment explanation
Indices: 12254322--12254357 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
12254312 ACATTAAAAA
*
12254322 TTAT-AAAACTTTAATT
1 TTATAAAAAATTTAATT
12254338 TTATAAAAAATTTAATT
1 TTATAAAAAATTTAATT
12254355 TTA
1 TTA
12254358 ATATTTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
TTATAAAAAATTTAATT
Found at i:12264943 original size:3 final size:3
Alignment explanation
Indices: 12264935--12264968 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
12264925 GACTTTTTAA
12264935 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
12264969 TATGTATGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:12266041 original size:47 final size:49
Alignment explanation
Indices: 12265873--12266061 Score: 174
Period size: 50 Copynumber: 3.9 Consensus size: 49
12265863 AATCCCAATA
* *
12265873 TCTACAAAT-GCTCCTC-TAAA-AAGAGGCTTTAAAACTTTAAAAATTTGG
1 TCTAAAAATGGCTCCTCATAAATAA-AGGCTTTGAAACTTT-AAAATTTGG
* * * * *
12265921 TCTAAAAATGGCTCCTTATAAACAAAGGTTTTGAAACTTTGAAAATCTGA
1 TCTAAAAATGGCTCCTCATAAATAAAGGCTTTGAAACTTT-AAAATTTGG
* * *
12265971 TCTAAAAATGGCTTCAT-ATAAATAGAGGCTTTGAAAC-TT-AAGTTTGG
1 TCTAAAAATGGC-TCCTCATAAATAAAGGCTTTGAAACTTTAAAATTTGG
* * * *
12266018 TTTGAAAATGGCTCCTCATAAATAAATGATTTGAAACTTTAAAA
1 TCTAAAAATGGCTCCTCATAAATAAAGGCTTTGAAACTTTAAAA
12266062 ATCTCATCAT
Statistics
Matches: 113, Mismatches: 21, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
46 3 0.03
47 32 0.28
48 10 0.09
49 10 0.09
50 53 0.47
51 5 0.04
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.33
Consensus pattern (49 bp):
TCTAAAAATGGCTCCTCATAAATAAAGGCTTTGAAACTTTAAAATTTGG
Found at i:12266529 original size:94 final size:93
Alignment explanation
Indices: 12266413--12266602 Score: 310
Period size: 94 Copynumber: 2.0 Consensus size: 93
12266403 GCAAATATAC
12266413 AAATATCTACTTCAATGATATAAATGCAAATGACTTTGCCAAGATGCAAATGCAAATTTCAAATG
1 AAATATCTACTTCAATGATATAAATGCAAATGACTTTGCCAAGATGCAAATGCAAATTTCAAATG
12266478 CACTCTACTAAA-ATGTGAATCTAACCATT
66 CACTCTAC-AAAGATGTG-ATCTAACCATT
* * * *
12266507 AAATGTCTACTTTAATGATATAAATGCAGATGACTTTGCTAAGATGCAAATGCAAATTTCAAATG
1 AAATATCTACTTCAATGATATAAATGCAAATGACTTTGCCAAGATGCAAATGCAAATTTCAAATG
*
12266572 CAGTCTACAAAGATGTGATCTAACCATT
66 CACTCTACAAAGATGTGATCTAACCATT
12266600 AAA
1 AAA
12266603 CTTTGCACAA
Statistics
Matches: 90, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
93 17 0.19
94 73 0.81
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.30
Consensus pattern (93 bp):
AAATATCTACTTCAATGATATAAATGCAAATGACTTTGCCAAGATGCAAATGCAAATTTCAAATG
CACTCTACAAAGATGTGATCTAACCATT
Found at i:12266958 original size:11 final size:12
Alignment explanation
Indices: 12266931--12266960 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
12266921 CTCCGTTCTC
*
12266931 TTTTTATTTTCA
1 TTTTTATTTACA
12266943 TTTTTATTTACA
1 TTTTTATTTACA
12266955 TTTTTA
1 TTTTTA
12266961 GATCCAATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTTATTTACA
Done.