Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2351
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: 521823
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
File 1 of 4
Found at i:74 original size:21 final size:21
Alignment explanation
Indices: 50--94 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
40 TATATTATAA
* * *
50 TTACTATTTTGTTTTTATTTT
1 TTACGATTTTATTTTAATTTT
71 TTACGATTTTATTTTAATTTT
1 TTACGATTTTATTTTAATTTT
92 TTA
1 TTA
95 ACTCTAAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.71
Consensus pattern (21 bp):
TTACGATTTTATTTTAATTTT
Found at i:1011 original size:17 final size:16
Alignment explanation
Indices: 991--1085 Score: 73
Period size: 17 Copynumber: 5.4 Consensus size: 16
981 TGAAAAAATT
991 AATATAAACATATTATA
1 AATATAAA-ATATTATA
*
1008 AATATATAAATATTTTA
1 AATATA-AAATATTATA
*
1025 AATATAATATTAATTATTA
1 AATATAA-AAT-ATTA-TA
*
1044 ACATATTAAAATGTATATA
1 A-ATA-TAAAATAT-TATA
*
1063 AATATAAAATATTTTA
1 AATATAAAATATTATA
*
1079 AACATAA
1 AATATAA
1086 TTATATCATA
Statistics
Matches: 63, Mismatches: 8, Indels: 15
0.73 0.09 0.17
Matches are distributed among these distances:
16 10 0.16
17 28 0.44
18 8 0.13
19 7 0.11
20 7 0.11
21 3 0.05
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (16 bp):
AATATAAAATATTATA
Found at i:1031 original size:15 final size:16
Alignment explanation
Indices: 1000--1085 Score: 52
Period size: 18 Copynumber: 5.0 Consensus size: 16
990 TAATATAAAC
*
1000 ATATTATAAATATATAA
1 ATATTATTAA-ATATAA
1017 ATATT-TTAAATATAA
1 ATATTATTAAATATAA
1032 TATTAATTATTAACATATTAA
1 -A-T-ATTATTAA-ATA-TAA
1053 A-ATGTATATAAATATAAA
1 ATAT-TAT-TAAATAT-AA
*
1071 ATATT-TTAAACATAA
1 ATATTATTAAATATAA
1086 TTATATCATA
Statistics
Matches: 57, Mismatches: 2, Indels: 22
0.70 0.02 0.27
Matches are distributed among these distances:
15 8 0.14
16 10 0.18
17 10 0.18
18 13 0.23
19 9 0.16
20 4 0.07
21 3 0.05
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (16 bp):
ATATTATTAAATATAA
Found at i:1073 original size:45 final size:44
Alignment explanation
Indices: 988--1074 Score: 106
Period size: 45 Copynumber: 1.9 Consensus size: 44
978 ATATGAAAAA
*
988 ATTAATATAAACATATTATAAATATATAAATATTTTAAATATAAT
1 ATTAATATAAACATATTATAAATATATAAATA-TTAAAATATAAT
*
1033 ATTAATTATTAACATATTA-AAATGTATATAAATA-TAAAATAT
1 ATTAA-TATAAACATATTATAAA--TATATAAATATTAAAATAT
1075 TTTAAACATA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
45 15 0.41
46 12 0.32
47 10 0.27
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.41
Consensus pattern (44 bp):
ATTAATATAAACATATTATAAATATATAAATATTAAAATATAAT
Found at i:1079 original size:27 final size:27
Alignment explanation
Indices: 995--1104 Score: 80
Period size: 28 Copynumber: 3.9 Consensus size: 27
985 AAAATTAATA
* *
995 TAAACATATTATAAATATATAAATATTT
1 TAAATATAATATAAATATA-AAATATTT
* *
1023 TAAATATAATATTAATTATTAACATA-TT
1 TAAATATAATA-TAAATA-TAAAATATTT
* *
1051 AAAATGT-ATATAAATATAAAATATTT
1 TAAATATAATATAAATATAAAATATTT
* *
1077 TAAACATAATTATATCATAATAAAATAT
1 TAAATATAA-TATA-AAT-ATAAAATAT
1105 ATAAAAATAT
Statistics
Matches: 63, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
25 6 0.10
26 11 0.17
27 4 0.06
28 20 0.32
29 11 0.17
30 11 0.17
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.41
Consensus pattern (27 bp):
TAAATATAATATAAATATAAAATATTT
Found at i:1107 original size:45 final size:52
Alignment explanation
Indices: 994--1114 Score: 121
Period size: 54 Copynumber: 2.4 Consensus size: 52
984 AAAAATTAAT
*
994 ATAAACATATTATAAATATATAAATATTTTAAATATAATATTAATTATTAACATA
1 ATAAA-ATA-TATAAATATATAAATATTTTAAACATAATATTAATTATT-ACATA
*
1049 TTAAAATGTATATAAATATA-AAATATTTTAAACAT-A-ATT-A-TA-T-CATA
1 ATAAAA--TATATAAATATATAAATATTTTAAACATAATATTAATTATTACATA
*
1096 ATAAAATATATAAAAATAT
1 ATAAAATATATAAATATAT
1115 CAAAAACCTA
Statistics
Matches: 59, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
45 11 0.19
47 9 0.15
49 1 0.02
50 2 0.03
51 1 0.02
52 3 0.05
53 1 0.02
54 15 0.25
55 14 0.24
56 2 0.03
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (52 bp):
ATAAAATATATAAATATATAAATATTTTAAACATAATATTAATTATTACATA
Found at i:5090 original size:16 final size:16
Alignment explanation
Indices: 5066--5109 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
5056 TTTTCATTGC
*
5066 GGTTGGAAAAAGCTTA
1 GGTTAGAAAAAGCTTA
* *
5082 GGTTAGAAAAAACTTG
1 GGTTAGAAAAAGCTTA
*
5098 GGTTTGAAAAAG
1 GGTTAGAAAAAG
5110 TGCGGTGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.41, C:0.05, G:0.30, T:0.25
Consensus pattern (16 bp):
GGTTAGAAAAAGCTTA
Found at i:9778 original size:2 final size:2
Alignment explanation
Indices: 9771--9797 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9761 TACAACTTAC
9771 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
9798 GTCATTGATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10624 original size:67 final size:67
Alignment explanation
Indices: 10545--10678 Score: 223
Period size: 67 Copynumber: 2.0 Consensus size: 67
10535 AAGATATACA
*
10545 ATTAAAGATAAATTATGACTTTTAAATATAAAAAACTATTTATTAATAAATTTTTTAATATATAT
1 ATTAAAGATAAATTATGACTTTTAAATATAAAAAACTATTTATTAATAAATTTTTTAATACATAT
10610 TT
66 TT
* * * *
10612 ATTAGAGATAAATTATGACTTTTAAATGTAAAAAGCTATTTATTAATCAATTTTTTAATACATAT
1 ATTAAAGATAAATTATGACTTTTAAATATAAAAAACTATTTATTAATAAATTTTTTAATACATAT
10677 TT
66 TT
10679 TGTGACTTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (67 bp):
ATTAAAGATAAATTATGACTTTTAAATATAAAAAACTATTTATTAATAAATTTTTTAATACATAT
TT
Found at i:10950 original size:30 final size:30
Alignment explanation
Indices: 10914--10974 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 30
10904 TATTAATTTA
10914 TAAATTTTTAATT-TT-ATCAAATTATATCAT
1 TAAATTTTT-ATTATTAAT-AAATTATATCAT
10944 TAAATTTTTATTATTAATAAATTATATCAT
1 TAAATTTTTATTATTAATAAATTATATCAT
10974 T
1 T
10975 TAAGCTAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
29 3 0.10
30 24 0.83
31 2 0.07
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (30 bp):
TAAATTTTTATTATTAATAAATTATATCAT
Found at i:11573 original size:7 final size:7
Alignment explanation
Indices: 11561--11605 Score: 90
Period size: 7 Copynumber: 6.4 Consensus size: 7
11551 ATATCAATTT
11561 AATTATA
1 AATTATA
11568 AATTATA
1 AATTATA
11575 AATTATA
1 AATTATA
11582 AATTATA
1 AATTATA
11589 AATTATA
1 AATTATA
11596 AATTATA
1 AATTATA
11603 AAT
1 AAT
11606 CAAATATTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
AATTATA
Found at i:12272 original size:29 final size:30
Alignment explanation
Indices: 12224--12296 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 30
12214 TTTGATCACG
* *
12224 ATATCAATATAATATGAAAAAAT-AATTAAA
1 ATAT-AATATAATATAAAAAAATGAATAAAA
* *
12254 ATATAATATGATATAAAAATATGAATAAAA
1 ATATAATATAATATAAAAAAATGAATAAAA
12284 ATAT-ATA-AATATA
1 ATATAATATAATATA
12297 TTAAAATTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 5 0.14
29 18 0.49
30 14 0.38
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (30 bp):
ATATAATATAATATAAAAAAATGAATAAAA
Found at i:12283 original size:12 final size:13
Alignment explanation
Indices: 12258--12287 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
12248 ATTAAAATAT
12258 AATATGATATAAA
1 AATATGATATAAA
12271 AATATGA-ATAAA
1 AATATGATATAAA
12283 AATAT
1 AATAT
12288 ATAAATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (13 bp):
AATATGATATAAA
Found at i:13263 original size:24 final size:25
Alignment explanation
Indices: 13231--13299 Score: 65
Period size: 24 Copynumber: 2.8 Consensus size: 25
13221 TAACAAGCAC
13231 AATTATATTATAAAATTTAATTA-AT
1 AATT-TATTATAAAATTTAATTATAT
13256 AATTTA-T-TAAAATATTAATTATAT
1 AATTTATTATAAAAT-TTAATTATAT
***
13280 AAAAAATTATAAAA-TTAATT
1 AATTTATTATAAAATTTAATT
13300 TAATTCTACA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
22 6 0.16
23 8 0.22
24 13 0.35
25 5 0.14
26 5 0.14
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
AATTTATTATAAAATTTAATTATAT
Found at i:13299 original size:12 final size:12
Alignment explanation
Indices: 13231--13299 Score: 54
Period size: 12 Copynumber: 5.7 Consensus size: 12
13221 TAACAAGCAC
13231 AATTATATTATAA
1 AATTA-ATTATAA
*
13244 AATTTAATTA-AT
1 AA-TTAATTATAA
*
13256 AATTTATTA-AA
1 AATTAATTATAA
13267 ATATTAATTATATA
1 A-ATTAATTATA-A
*
13281 AA-AAATTATAA
1 AATTAATTATAA
13292 AATTAATT
1 AATTAATT
13300 TAATTCTACA
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
11 11 0.24
12 21 0.47
13 8 0.18
14 5 0.11
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
AATTAATTATAA
Found at i:13385 original size:14 final size:14
Alignment explanation
Indices: 13366--13397 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
13356 AAGAGCGATG
13366 ATTATACATAATTA
1 ATTATACATAATTA
*
13380 ATTATATATAATTA
1 ATTATACATAATTA
13394 ATTA
1 ATTA
13398 CATATAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (14 bp):
ATTATACATAATTA
Found at i:13402 original size:14 final size:14
Alignment explanation
Indices: 13373--13405 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
13363 ATGATTATAC
*
13373 ATAATTAATTATAT
1 ATAATTAATTACAT
13387 ATAATTAATTACAT
1 ATAATTAATTACAT
13401 ATAAT
1 ATAAT
13406 ACATACTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (14 bp):
ATAATTAATTACAT
Found at i:13805 original size:14 final size:15
Alignment explanation
Indices: 13777--13806 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13767 TTAACATCTT
13777 TCTTTGAGTTGCTTC
1 TCTTTGAGTTGCTTC
13792 TCTTTGAG-TGCTTC
1 TCTTTGAGTTGCTTC
13806 T
1 T
13807 TGTTGGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.07, C:0.20, G:0.20, T:0.53
Consensus pattern (15 bp):
TCTTTGAGTTGCTTC
Found at i:14231 original size:12 final size:12
Alignment explanation
Indices: 14179--14238 Score: 79
Period size: 12 Copynumber: 5.2 Consensus size: 12
14169 TAATTTAATC
*
14179 ATATTAAATATA
1 ATATAAAATATA
*
14191 ATA-CAAATATA
1 ATATAAAATATA
*
14202 ATATAAAAAATA
1 ATATAAAATATA
14214 AT-TAAAATATA
1 ATATAAAATATA
14225 ATATAAAATATA
1 ATATAAAATATA
14237 AT
1 AT
14239 TCGATATATA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
11 20 0.48
12 22 0.52
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (12 bp):
ATATAAAATATA
Found at i:14239 original size:23 final size:24
Alignment explanation
Indices: 14179--14239 Score: 90
Period size: 23 Copynumber: 2.6 Consensus size: 24
14169 TAATTTAATC
*
14179 ATATTAAATATAA-TACAAATATA
1 ATATAAAATATAATTACAAATATA
*
14202 ATATAAAAAATAATTA-AAATATA
1 ATATAAAATATAATTACAAATATA
14225 ATATAAAATATAATT
1 ATATAAAATATAATT
14240 CGATATATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
23 32 0.94
24 2 0.06
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (24 bp):
ATATAAAATATAATTACAAATATA
Found at i:16129 original size:24 final size:24
Alignment explanation
Indices: 16051--16129 Score: 62
Period size: 24 Copynumber: 3.4 Consensus size: 24
16041 TATTTAAAAT
16051 AATATTAA-AA-TTTTATT-TTT-
1 AATATTAATAATTTTTATTATTTA
16071 AA-ATTAAT-ATTTTTAATTAAATTTA
1 AATATTAATAATTTTT-ATT--ATTTA
* **
16096 AGTAAAAATAATTTTTATTATTTA
1 AATATTAATAATTTTTATTATTTA
16120 AATATTAATA
1 AATATTAATA
16130 CAGATAGAAC
Statistics
Matches: 44, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
19 6 0.14
20 6 0.14
21 3 0.07
24 15 0.34
25 1 0.02
26 7 0.16
27 6 0.14
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (24 bp):
AATATTAATAATTTTTATTATTTA
Found at i:17420 original size:31 final size:31
Alignment explanation
Indices: 17350--17420 Score: 74
Period size: 29 Copynumber: 2.3 Consensus size: 31
17340 CTCATTTATA
* **
17350 TTATTTTTTAATTTAAAAAAATATATTTATT
1 TTATTATTTAATTTAAAAAAATATATAAATT
* *
17381 TTA-AATTTAA-TTAGAAAAATATATAAATT
1 TTATTATTTAATTTAAAAAAATATATAAATT
17410 TATATTATTTA
1 T-TATTATTTA
17421 TAAAATTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
29 17 0.53
30 7 0.22
31 8 0.25
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (31 bp):
TTATTATTTAATTTAAAAAAATATATAAATT
Found at i:17577 original size:19 final size:21
Alignment explanation
Indices: 17535--17595 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 21
17525 TTTTAGATAT
17535 TTTATTTTTTAACAAAAAATTA
1 TTTATTTTTTAA-AAAAAATTA
*
17557 TTTATTTTTT-AAAAACA-TA
1 TTTATTTTTTAAAAAAAATTA
17576 TTTACTTTTTTCAAAAAAAA
1 TTTA-TTTTTT-AAAAAAAA
17596 ACTATCTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 6 0.18
20 11 0.32
21 1 0.03
22 16 0.47
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTATTTTTTAAAAAAAATTA
Found at i:19922 original size:3 final size:3
Alignment explanation
Indices: 19914--19951 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
19904 TTAGTATGAT
19914 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
19952 TTTTTAATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:20480 original size:20 final size:17
Alignment explanation
Indices: 20318--20485 Score: 74
Period size: 16 Copynumber: 9.3 Consensus size: 17
20308 CTAGAATTAT
20318 TATTTAATA-ATAAAAA
1 TATTTAATATATAAAAA
* * **
20334 TATTT-TTATTTAAATT
1 TATTTAATATATAAAAA
* *
20350 TATTATAAAATATATAAA
1 TATT-TAATATATAAAAA
*
20368 TATTTTATATATTTAAATAA
1 TA-TTTA-ATATATAAA-AA
***
20388 TATTCTTTAATAATATAAGTT
1 TA---TTTAAT-ATATAAAAA
* *
20409 TATTTTATATAT-CAAA
1 TATTTAATATATAAAAA
20425 TATTTAATATATAAAATAA
1 TATTTAATATAT-AAA-AA
20444 TATTTAA-ATATAAAAA
1 TATTTAATATATAAAAA
20460 TATTTATATAGTATGAAAAA
1 TATTTA-ATA-TAT-AAAAA
20480 TTATTT
1 -TATTT
20486 TTTATTTTTT
Statistics
Matches: 110, Mismatches: 25, Indels: 29
0.67 0.15 0.18
Matches are distributed among these distances:
15 2 0.02
16 32 0.29
17 9 0.08
18 20 0.18
19 20 0.18
20 9 0.08
21 9 0.08
22 9 0.08
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (17 bp):
TATTTAATATATAAAAA
Found at i:21480 original size:17 final size:16
Alignment explanation
Indices: 21458--21497 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
21448 GAGTATTATC
*
21458 TTTTTAGCCATTTAACT
1 TTTTTAG-CACTTAACT
21475 TTTTTAAGCACTTAACT
1 TTTTT-AGCACTTAACT
21492 TTTTTA
1 TTTTTA
21498 AGTTTTTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 18 0.86
18 2 0.10
ACGTcount: A:0.25, C:0.15, G:0.05, T:0.55
Consensus pattern (16 bp):
TTTTTAGCACTTAACT
Found at i:22577 original size:17 final size:18
Alignment explanation
Indices: 22555--22592 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
22545 GAATATTAAC
* *
22555 TTTTTAGTCATTTAG-CT
1 TTTTTAGGCACTTAGCCT
22572 TTTTTAGGCACTTAGCCT
1 TTTTTAGGCACTTAGCCT
22590 TTT
1 TTT
22593 CAAGCCTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.16, C:0.16, G:0.13, T:0.55
Consensus pattern (18 bp):
TTTTTAGGCACTTAGCCT
Found at i:22632 original size:20 final size:20
Alignment explanation
Indices: 22608--22714 Score: 97
Period size: 20 Copynumber: 5.3 Consensus size: 20
22598 CTTTTATCAT
22608 CTTTTCAGGCTCGTTATTGC
1 CTTTTCAGGCTCGTTATTGC
* * * *
22628 TTTTTCAGACTCGTCATTAC
1 CTTTTCAGGCTCGTTATTGC
* ** *
22648 CTTTTCAAGCTTTTTATTGT
1 CTTTTCAGGCTCGTTATTGC
* * *
22668 TTTTTCAAGCTCATTATTGC
1 CTTTTCAGGCTCGTTATTGC
* *
22688 CTTTTCAGACTCGTGATTGC
1 CTTTTCAGGCTCGTTATTGC
22708 CTTTTCA
1 CTTTTCA
22715 AGCCCTAACG
Statistics
Matches: 66, Mismatches: 21, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 66 1.00
ACGTcount: A:0.16, C:0.22, G:0.13, T:0.49
Consensus pattern (20 bp):
CTTTTCAGGCTCGTTATTGC
Found at i:22652 original size:40 final size:40
Alignment explanation
Indices: 22608--22717 Score: 114
Period size: 40 Copynumber: 2.8 Consensus size: 40
22598 CTTTTATCAT
*
22608 CTTTTCAGGCTCGTTATTGCTTTTTC-AGACTCGTCATTAC
1 CTTTTCAGGCTCGTTATTGCTTTTTCAAG-CTCATCATTAC
* ** * * *
22648 CTTTTCAAGCTTTTTATTGTTTTTTCAAGCTCATTATTGC
1 CTTTTCAGGCTCGTTATTGCTTTTTCAAGCTCATCATTAC
* * *
22688 CTTTTCAGACTCGTGATTGCCTTTTCAAGC
1 CTTTTCAGGCTCGTTATTGCTTTTTCAAGC
22718 CCTAACGCTT
Statistics
Matches: 55, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
40 53 0.96
41 2 0.04
ACGTcount: A:0.16, C:0.23, G:0.14, T:0.47
Consensus pattern (40 bp):
CTTTTCAGGCTCGTTATTGCTTTTTCAAGCTCATCATTAC
Found at i:22663 original size:60 final size:60
Alignment explanation
Indices: 22587--22718 Score: 183
Period size: 60 Copynumber: 2.2 Consensus size: 60
22577 AGGCACTTAG
* * *
22587 CCTTTTCAAGCCTTTTATCATCTTTTCAGGCTCGTTATTGCTTTTTCAGACTCGTCATTA
1 CCTTTTCAAGCCTTTTATCATCTTTTCAAGCTCATTATTGCCTTTTCAGACTCGTCATTA
* ** * * *
22647 CCTTTTCAAGCTTTTTATTGTTTTTTCAAGCTCATTATTGCCTTTTCAGACTCGTGATTG
1 CCTTTTCAAGCCTTTTATCATCTTTTCAAGCTCATTATTGCCTTTTCAGACTCGTCATTA
22707 CCTTTTCAAGCC
1 CCTTTTCAAGCC
22719 CTAACGCTTT
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.17, C:0.24, G:0.12, T:0.47
Consensus pattern (60 bp):
CCTTTTCAAGCCTTTTATCATCTTTTCAAGCTCATTATTGCCTTTTCAGACTCGTCATTA
Found at i:23908 original size:27 final size:26
Alignment explanation
Indices: 23873--23997 Score: 72
Period size: 26 Copynumber: 4.5 Consensus size: 26
23863 TATGAATACG
23873 ATATAAATATTAAAATATAAAAAAATT
1 ATATAAATATTAAAATAT-AAAAAATT
* ** * *
23900 ATATAAATAATAATGTGTTAAAAATT
1 ATATAAATATTAAAATATAAAAAATT
* *
23926 ATATAAATATATAATATCATAAATACTATT
1 ATATAAATAT-TAAAAT-ATAAA-A-AATT
* * *
23956 ATAATAAATA-AAATAATATAAACAATA
1 AT-ATAAATATTAA-AATATAAAAAATT
*
23983 ACATAAATATATAAA
1 ATATAAATAT-TAAA
23998 TTATTAGATA
Statistics
Matches: 73, Mismatches: 17, Indels: 16
0.69 0.16 0.15
Matches are distributed among these distances:
26 23 0.32
27 23 0.32
28 5 0.07
29 8 0.11
30 7 0.10
31 7 0.10
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.34
Consensus pattern (26 bp):
ATATAAATATTAAAATATAAAAAATT
Found at i:23990 original size:21 final size:20
Alignment explanation
Indices: 23958--23997 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
23948 ATACTATTAT
23958 AATAAATAAAATAATATAAAC
1 AATAAATAAAAT-ATATAAAC
23979 AATAACAT-AAATATATAAA
1 AATAA-ATAAAATATATAAA
23998 TTATTAGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 9 0.50
22 2 0.11
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (20 bp):
AATAAATAAAATATATAAAC
Found at i:24305 original size:17 final size:17
Alignment explanation
Indices: 24271--24305 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
24261 TGACATGCTC
*
24271 TTATTTTTTTAGTTTTA
1 TTATTTTTTTAGTCTTA
*
24288 TTATTTTTTTGGTCTTA
1 TTATTTTTTTAGTCTTA
24305 T
1 T
24306 CATTATCTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.14, C:0.03, G:0.09, T:0.74
Consensus pattern (17 bp):
TTATTTTTTTAGTCTTA
Found at i:25219 original size:16 final size:16
Alignment explanation
Indices: 25200--25230 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25190 ATAATTTGAT
*
25200 ATATTTAAATAATTAA
1 ATATTAAAATAATTAA
25216 ATATTAAAATAATTA
1 ATATTAAAATAATTA
25231 TATTATTTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATTAAAATAATTAA
Found at i:28329 original size:2 final size:2
Alignment explanation
Indices: 28322--28352 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
28312 CAGCTTTTCT
28322 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
28353 TTAAAAAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:38371 original size:17 final size:19
Alignment explanation
Indices: 38336--38404 Score: 54
Period size: 20 Copynumber: 3.7 Consensus size: 19
38326 TAGTAATTTG
*
38336 TATATTTATATTATGATTA
1 TATATTTATATCATGATTA
38355 TATATTT-TATCAT-ATTA
1 TATATTTATATCATGATTA
* * * *
38372 TA-ATTATATTTAAAGTATTT
1 TATATT-TATATCATG-ATTA
38392 TATATTTATATCA
1 TATATTTATATCA
38405 ATTTTGATAT
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
16 3 0.08
17 7 0.18
18 8 0.21
19 7 0.18
20 10 0.26
21 3 0.08
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (19 bp):
TATATTTATATCATGATTA
Found at i:39101 original size:27 final size:27
Alignment explanation
Indices: 39071--39125 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
39061 TTACAACTTC
39071 TCTTTTATCTAAAATTTCGATCTTATT
1 TCTTTTATCTAAAATTTCGATCTTATT
*
39098 TCTTTTATCTCAAATTTCGATCTTATT
1 TCTTTTATCTAAAATTTCGATCTTATT
39125 T
1 T
39126 GTATATATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.24, C:0.16, G:0.04, T:0.56
Consensus pattern (27 bp):
TCTTTTATCTAAAATTTCGATCTTATT
Found at i:40237 original size:13 final size:13
Alignment explanation
Indices: 40202--40248 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
40192 TAATTAAAAT
*
40202 TTTATTATATTAA
1 TTTATTATATTGA
*
40215 TTTA--AAATTGA
1 TTTATTATATTGA
*
40226 TTTATTATATTGC
1 TTTATTATATTGA
40239 TTTATTATAT
1 TTTATTATAT
40249 AATAACTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
11 9 0.32
13 19 0.68
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (13 bp):
TTTATTATATTGA
Found at i:40531 original size:15 final size:16
Alignment explanation
Indices: 40501--40537 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
40491 TTGATTGTAG
*
40501 AATTTATTATTTATTT
1 AATTTATTAGTTATTT
40517 AATTT-TTAGTTATTT
1 AATTTATTAGTTATTT
40532 -ATTTAT
1 AATTTAT
40538 CAATAAACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 4 0.21
15 10 0.53
16 5 0.26
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (16 bp):
AATTTATTAGTTATTT
Found at i:41965 original size:16 final size:17
Alignment explanation
Indices: 41944--42005 Score: 78
Period size: 16 Copynumber: 3.9 Consensus size: 17
41934 ACCTAATCCG
41944 AAAATGAACT-GAATTT
1 AAAATGAACTCGAATTT
*
41960 AAAATG-ACTCGAATTC
1 AAAATGAACTCGAATTT
41976 AAAAT-AACTCGAATTT
1 AAAATGAACTCGAATTT
*
41992 AGAATG-ACTCGAAT
1 AAAATGAACTCGAAT
42006 CTGATTAACC
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
15 3 0.08
16 37 0.93
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (17 bp):
AAAATGAACTCGAATTT
Found at i:41990 original size:32 final size:32
Alignment explanation
Indices: 41944--42005 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 32
41934 ACCTAATCCG
41944 AAAATGAACTGAATTTAAAATGACTCGAATTC
1 AAAATGAACTGAATTTAAAATGACTCGAATTC
*
41976 AAAAT-AACTCGAATTTAGAATGACTCGAAT
1 AAAATGAACT-GAATTTAAAATGACTCGAAT
42006 CTGATTAACC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 4 0.14
32 24 0.86
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (32 bp):
AAAATGAACTGAATTTAAAATGACTCGAATTC
Found at i:42455 original size:2 final size:2
Alignment explanation
Indices: 42448--42478 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
42438 TCTTAATTAA
42448 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
42479 GCTCTTAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:44505 original size:24 final size:24
Alignment explanation
Indices: 44478--44524 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
44468 AAAATTATAA
*
44478 AATTATTTATTATTTT-AATAATTT
1 AATTATTTA-AATTTTAAATAATTT
*
44502 AATTTTTTAAATTTTAAATAATT
1 AATTATTTAAATTTTAAATAATT
44525 CACGTGCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
AATTATTTAAATTTTAAATAATTT
Found at i:45804 original size:2 final size:2
Alignment explanation
Indices: 45792--45843 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
45782 ATTTTCTCAA
*
45792 CT CT TT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
45834 CT CT CT CT CT
1 CT CT CT CT CT
45844 TTTCTCATTT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
CT
Found at i:57580 original size:24 final size:22
Alignment explanation
Indices: 57524--57572 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
57514 TGGACATGTT
57524 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
57546 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
57568 AAAAA
1 AAAAA
57573 AATGCATGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.67, C:0.08, G:0.08, T:0.16
Consensus pattern (22 bp):
AAAAATGCATGAAACATAATAA
Found at i:58538 original size:20 final size:20
Alignment explanation
Indices: 58491--58565 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
58481 AAAAAGACAT
*
58491 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
58510 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
58531 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
58551 AATGTATCGATACAT
1 AATGTATCGATACAT
58566 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:58559 original size:40 final size:39
Alignment explanation
Indices: 58488--58565 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
58478 GGTAAAAAGA
* *
58488 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
58527 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
58566 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:65367 original size:16 final size:18
Alignment explanation
Indices: 65336--65369 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
65326 ATTGATATCT
65336 TTATAATTTATTTTAAAA
1 TTATAATTTATTTTAAAA
65354 TTAT-ATTT-TTTTAAAA
1 TTATAATTTATTTTAAAA
65370 AAATATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 4 0.25
18 4 0.25
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTATAATTTATTTTAAAA
Found at i:65835 original size:19 final size:19
Alignment explanation
Indices: 65793--65835 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
65783 CATAAGGAAA
*
65793 ATTTTAGAATTTTGATGAT
1 ATTTTAGAATTTTGATAAT
* * *
65812 TTTTTATAATTTTTATAAT
1 ATTTTAGAATTTTGATAAT
65831 ATTTT
1 ATTTT
65836 TAAAAATTTA
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:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (19 bp):
ATTTTAGAATTTTGATAAT
Found at i:66073 original size:11 final size:11
Alignment explanation
Indices: 66055--66106 Score: 67
Period size: 10 Copynumber: 5.1 Consensus size: 11
66045 AATTTTTTTA
66055 TAAT-TTTAAT
1 TAATATTTAAT
66065 TAATATTTAAT
1 TAATATTTAAT
*
66076 TAA-ATTTAAA
1 TAATATTTAAT
66086 TAA-ATTT-AT
1 TAATATTTAAT
66095 TAATATTTAAT
1 TAATATTTAAT
66106 T
1 T
66107 TTAAATCTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
9 4 0.11
10 21 0.57
11 12 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
TAATATTTAAT
Found at i:73502 original size:16 final size:16
Alignment explanation
Indices: 73481--73557 Score: 52
Period size: 17 Copynumber: 4.8 Consensus size: 16
73471 ATAATAATAT
73481 ATTTTATTATATTATA
1 ATTTTATTATATTATA
**
73497 ATTTTATT-TAAGAT-
1 ATTTTATTATATTATA
*
73511 ATTTTA-TATTTATATCA
1 ATTTTATTATAT-TAT-A
* *
73528 ATTTTAATAAATTAATA
1 ATTTTATTATATT-ATA
73545 ATTTGTATTATAT
1 ATTT-TATTATAT
73558 AGATTTTAAG
Statistics
Matches: 45, Mismatches: 9, Indels: 12
0.68 0.14 0.18
Matches are distributed among these distances:
13 1 0.02
14 7 0.16
15 6 0.13
16 8 0.18
17 12 0.27
18 11 0.24
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (16 bp):
ATTTTATTATATTATA
Found at i:73972 original size:25 final size:25
Alignment explanation
Indices: 73943--74000 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
73933 AATATTTTCA
*
73943 AAAATATTGAAATGCATTAGATTTT
1 AAAATATTGAAATACATTAGATTTT
** *
73968 AAAATATTTTAATACATTGGATTTT
1 AAAATATTGAAATACATTAGATTTT
73993 AAAATATT
1 AAAATATT
74001 CTTTTAAGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.43
Consensus pattern (25 bp):
AAAATATTGAAATACATTAGATTTT
Found at i:74860 original size:9 final size:9
Alignment explanation
Indices: 74814--74863 Score: 59
Period size: 9 Copynumber: 5.7 Consensus size: 9
74804 ACTCAGGAAA
74814 TTTTATATT
1 TTTTATATT
*
74823 TTAT-TATT
1 TTTTATATT
*
74831 TTATATATT
1 TTTTATATT
74840 TTCTT-TATT
1 TT-TTATATT
74849 TTTTATATT
1 TTTTATATT
74858 TTTTAT
1 TTTTAT
74864 TAAAAATCTA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
8 10 0.28
9 25 0.69
10 1 0.03
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTATATT
Found at i:74861 original size:20 final size:21
Alignment explanation
Indices: 74822--74861 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
74812 AATTTTATAT
74822 TTTATTATTTTATATATTTTC
1 TTTATTATTTTATATATTTTC
*
74843 TTTATT-TTTTATATTTTTT
1 TTTATTATTTTATATATTTT
74862 ATTAAAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTATTATTTTATATATTTTC
Found at i:75432 original size:13 final size:13
Alignment explanation
Indices: 75414--75438 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
75404 AATACTTAAA
75414 ATTTTATTATATT
1 ATTTTATTATATT
75427 ATTTTATTATAT
1 ATTTTATTATAT
75439 AATGATAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
ATTTTATTATATT
Found at i:75757 original size:15 final size:16
Alignment explanation
Indices: 75727--75763 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
75717 TTGATTGTAG
*
75727 AATTTATTATTTATTT
1 AATTTATTAGTTATTT
75743 AATTT-TTAGTTATTT
1 AATTTATTAGTTATTT
75758 -ATTTAT
1 AATTTAT
75764 CAATAAACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 4 0.21
15 10 0.53
16 5 0.26
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (16 bp):
AATTTATTAGTTATTT
Found at i:75841 original size:19 final size:19
Alignment explanation
Indices: 75818--75858 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
75808 CAAAATTATT
*
75818 GAAAATAAAAAT-AAAAAA
1 GAAAAAAAAAATGAAAAAA
*
75836 GAAAAAAATAATGAAAAAA
1 GAAAAAAAAAATGAAAAAA
75855 GAAA
1 GAAA
75859 GGCTAATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (19 bp):
GAAAAAAAAAATGAAAAAA
Found at i:75852 original size:18 final size:19
Alignment explanation
Indices: 75818--75858 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
75808 CAAAATTATT
75818 GAAAATAAAAAT-AAAAAA
1 GAAAATAAAAATAAAAAAA
*
75836 GAAAA-AAATAATGAAAAAA
1 GAAAATAAA-AATAAAAAAA
75855 GAAA
1 GAAA
75859 GGCTAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 3 0.14
18 8 0.38
19 10 0.48
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (19 bp):
GAAAATAAAAATAAAAAAA
Found at i:77530 original size:23 final size:21
Alignment explanation
Indices: 77504--77552 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
77494 ATAAAGTAGT
77504 TAATAAATAATGAATAATATATA
1 TAATAAATAAT-AAT-ATATATA
** *
77527 TAATAGTTAATAATATGTATA
1 TAATAAATAATAATATATATA
77548 TAATA
1 TAATA
77553 GTAAACCCAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 11 0.48
22 3 0.13
23 9 0.39
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (21 bp):
TAATAAATAATAATATATATA
Found at i:77538 original size:19 final size:20
Alignment explanation
Indices: 77516--77554 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
77506 ATAAATAATG
77516 AATAATA-TATATAATAGTT
1 AATAATAGTATATAATAGTT
77535 AATAATATGTATATAATAGT
1 AATAATA-GTATATAATAGT
77555 AAACCCACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
21 11 0.61
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (20 bp):
AATAATAGTATATAATAGTT
Found at i:92487 original size:19 final size:18
Alignment explanation
Indices: 92463--92531 Score: 65
Period size: 19 Copynumber: 3.9 Consensus size: 18
92453 ATTTAGTAAT
92463 TTATATATTTATATTATG
1 TTATATATTTATATTATG
*
92481 ATTATATATTT-TATCATG
1 -TTATATATTTATATTATG
*
92499 TTATA-A-TTATATTTAAGG
1 TTATATATTTATA-TT-ATG
92517 TT-TATATTTATATTA
1 TTATATATTTATATTA
92532 ATTTTGTTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
15 2 0.05
16 3 0.07
17 9 0.21
18 13 0.31
19 15 0.36
ACGTcount: A:0.35, C:0.01, G:0.06, T:0.58
Consensus pattern (18 bp):
TTATATATTTATATTATG
Found at i:95685 original size:20 final size:20
Alignment explanation
Indices: 95660--95713 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 20
95650 GTTTGAAGCA
95660 ATGTATCGATACAAT-T-CATC
1 ATGTATCGATACAATGTGC--C
95680 ATGTATCGATACAATGTGCC
1 ATGTATCGATACAATGTGCC
95700 ATGTATCGATACAA
1 ATGTATCGATACAA
95714 ACAATAGTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 30 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATGTGCC
Found at i:95786 original size:19 final size:19
Alignment explanation
Indices: 95742--95816 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
95732 TTGCCAGTTT
**
95742 CATGTATCGATACAATTGTT
1 CATGTATCGATACAA-TGAA
95762 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
95781 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
95800 CATGTATCCATACAATG
1 CATGTATCGATACAATG
95817 TATCGATACA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
19 37 0.71
20 15 0.29
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:96418 original size:10 final size:11
Alignment explanation
Indices: 96368--96416 Score: 52
Period size: 10 Copynumber: 4.8 Consensus size: 11
96358 AATTTTTTTA
96368 TAAT-TTTAAT
1 TAATATTTAAT
*
96378 TAGTATTTAAT
1 TAATATTTAAT
*
96389 TAA-ATTTAAA
1 TAATATTTAAT
96399 TAA-ATTT-AT
1 TAATATTTAAT
96408 TAATATTTA
1 TAATATTTA
96417 TTTTTAAGTC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
9 4 0.12
10 20 0.62
11 8 0.25
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (11 bp):
TAATATTTAAT
Found at i:96844 original size:36 final size:36
Alignment explanation
Indices: 96803--96875 Score: 96
Period size: 36 Copynumber: 2.0 Consensus size: 36
96793 AGTACAAGAT
*
96803 TTTAATTTTT-TAATA-TATATTTTTAAATTTCTTTTA
1 TTTAATTTTTATAAAACTA-ATTTTT-AATTTCTTTTA
*
96839 TTTAATTTTTATAAAACTAATTTTTAATTTTTTTTA
1 TTTAATTTTTATAAAACTAATTTTTAATTTCTTTTA
96875 T
1 T
96876 CTCAATCATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 21 0.64
37 10 0.30
38 2 0.06
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (36 bp):
TTTAATTTTTATAAAACTAATTTTTAATTTCTTTTA
Found at i:97009 original size:15 final size:15
Alignment explanation
Indices: 96991--97041 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
96981 TATACTCATT
96991 TATTTG-ATAGTTAAA
1 TATTTGAATA-TTAAA
97006 TATTTTGAATATTAAA
1 TA-TTTGAATATTAAA
*
97022 TATTTGTAATTTTAAA
1 TATTTG-AATATTAAA
97038 -ATTT
1 TATTT
97042 ATATTTACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
15 10 0.31
16 19 0.59
17 3 0.09
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (15 bp):
TATTTGAATATTAAA
Found at i:97094 original size:27 final size:30
Alignment explanation
Indices: 97034--97091 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
97024 TTTGTAATTT
97034 TAAAATTTATATTTACATATGAATATATACAA
1 TAAAATTTATATTTACATAT--ATATATACAA
*
97066 TAAAA-TTATATTTACATATTTATATA
1 TAAAATTTATATTTACATATATATATA
97092 ATATATATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 6 0.24
31 14 0.56
32 5 0.20
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (30 bp):
TAAAATTTATATTTACATATATATATACAA
Found at i:97132 original size:2 final size:2
Alignment explanation
Indices: 97125--97151 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
97115 GTAAATAAGC
97125 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
97152 GAAAAAAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:97737 original size:15 final size:15
Alignment explanation
Indices: 97708--97736 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
97698 CCTAGTTAGG
97708 GTTTTTGTTCTTTTT
1 GTTTTTGTTCTTTTT
97723 GTTTTTGTT-TTTTT
1 GTTTTTGTTCTTTTT
97737 TAAAATTCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.00, C:0.03, G:0.14, T:0.83
Consensus pattern (15 bp):
GTTTTTGTTCTTTTT
Found at i:106230 original size:20 final size:20
Alignment explanation
Indices: 106200--106237 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
106190 ATAACATTAT
106200 AAAAACTTTTTAAATAAATGA
1 AAAAACTTTTTAAA-AAATGA
106221 AAAAAC-TTTTAAAAAAT
1 AAAAACTTTTTAAAAAAT
106238 TAAACGTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 7 0.41
21 6 0.35
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.32
Consensus pattern (20 bp):
AAAAACTTTTTAAAAAATGA
Found at i:107234 original size:12 final size:12
Alignment explanation
Indices: 107217--107241 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
107207 TGAGGCCTTT
107217 TTAGATACACAA
1 TTAGATACACAA
107229 TTAGATACACAA
1 TTAGATACACAA
107241 T
1 T
107242 AACACGTTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.16, G:0.08, T:0.28
Consensus pattern (12 bp):
TTAGATACACAA
Found at i:107897 original size:16 final size:16
Alignment explanation
Indices: 107872--107906 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
107862 CGATTTATTA
*
107872 ATATATTTTTATAAAT
1 ATATAATTTTATAAAT
*
107888 ATATAATTTTTTAAAT
1 ATATAATTTTATAAAT
107904 ATA
1 ATA
107907 ATTATGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
ATATAATTTTATAAAT
Found at i:107940 original size:16 final size:16
Alignment explanation
Indices: 107883--107943 Score: 50
Period size: 16 Copynumber: 3.4 Consensus size: 16
107873 TATATTTTTA
**
107883 TAAATATATAATTTTT
1 TAAATATATAAAATTT
107899 TAAATATAATTATGAAATTAT
1 TAAATAT-A-TA--AAATT-T
107920 ATAAATATATAAAATTT
1 -TAAATATATAAAATTT
107937 TAAATAT
1 TAAATAT
107944 GATTATAACA
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
16 14 0.38
17 2 0.05
18 7 0.19
20 5 0.14
21 2 0.05
22 7 0.19
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (16 bp):
TAAATATATAAAATTT
Found at i:107949 original size:30 final size:30
Alignment explanation
Indices: 107915--107976 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
107905 TAATTATGAA
*
107915 ATTATATAAATA-TATAAAAT-TTTAAATATG
1 ATTATA-AAATATTA-AAAATATATAAATATG
*
107945 ATTATAACATATTAAAAATATATAAATATG
1 ATTATAAAATATTAAAAATATATAAATATG
107975 AT
1 AT
107977 ACGTATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 9 0.32
30 19 0.68
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (30 bp):
ATTATAAAATATTAAAAATATATAAATATG
Found at i:107964 original size:38 final size:38
Alignment explanation
Indices: 107884--107970 Score: 106
Period size: 38 Copynumber: 2.3 Consensus size: 38
107874 ATATTTTTAT
** *
107884 AAATATATAATTTTTTAAATATAATTATGAAATTATAT
1 AAATATATAAAATTTTAAATATAATTATGAAATTATAA
*
107922 AAATATATAAAATTTTAAATATGATTAT-AACA-TATTAA
1 AAATATATAAAATTTTAAATATAATTATGAA-ATTA-TAA
107960 AAATATATAAA
1 AAATATATAAA
107971 TATGATACGT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
37 4 0.09
38 39 0.91
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.41
Consensus pattern (38 bp):
AAATATATAAAATTTTAAATATAATTATGAAATTATAA
Found at i:109886 original size:2 final size:2
Alignment explanation
Indices: 109881--109933 Score: 88
Period size: 2 Copynumber: 26.5 Consensus size: 2
109871 TGTGTGTGTG
**
109881 TA TA TA TA TA TA TA TA GG TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
109923 TA TA TA TA TA T
1 TA TA TA TA TA T
109934 TCAAAAGCCT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (2 bp):
TA
Found at i:110092 original size:20 final size:20
Alignment explanation
Indices: 110067--110106 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
110057 AATGTCATTA
110067 AATAATGATAATATAATAAT
1 AATAATGATAATATAATAAT
* * *
110087 AATAATTATTATATTATAAT
1 AATAATGATAATATAATAAT
110107 TTATAGATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (20 bp):
AATAATGATAATATAATAAT
Found at i:120626 original size:17 final size:17
Alignment explanation
Indices: 120604--120640 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
120594 TTATTAATTA
* *
120604 AAAATAATAATATATTC
1 AAAATAAAAAAATATTC
120621 AAAATAAAAAAATATTC
1 AAAATAAAAAAATATTC
120638 AAA
1 AAA
120641 TCAGATTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAATAAAAAAATATTC
Found at i:121533 original size:18 final size:20
Alignment explanation
Indices: 121482--121536 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
121472 TAAATACAAA
*
121482 ATTTAAATAAATAATTATTAT
1 ATTT-AATAAAAAATTATTAT
**
121503 ATTTAATTTAAAATTATTAT
1 ATTTAATAAAAAATTATTAT
121523 -TTT-ATAAAAAATTA
1 ATTTAATAAAAAATTA
121537 GTTAAAATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 9 0.31
19 3 0.10
20 13 0.45
21 4 0.14
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTTAATAAAAAATTATTAT
Found at i:123191 original size:20 final size:20
Alignment explanation
Indices: 123146--123191 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
123136 TCTTAACTCT
123146 TTTTTATTTATTATAAAATAA
1 TTTTTATTTA-TATAAAATAA
*
123167 -ATTTATTTA-ATAAAAGTAA
1 TTTTTATTTATATAAAA-TAA
123186 TTTTTA
1 TTTTTA
123192 ATAAAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
18 6 0.29
19 3 0.14
20 12 0.57
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
TTTTTATTTATATAAAATAA
Found at i:123207 original size:18 final size:16
Alignment explanation
Indices: 123158--123209 Score: 52
Period size: 18 Copynumber: 3.0 Consensus size: 16
123148 TTTATTTATT
123158 ATAAAATAAATTTATTTA
1 ATAAAATAAA-TT-TTTA
123176 ATAAAAGT-AATTTTTA
1 ATAAAA-TAAATTTTTA
123192 ATAAAATTAAAGTTTTTA
1 ATAAAA-TAAA-TTTTTA
123210 CTCGTAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
16 11 0.37
17 4 0.13
18 14 0.47
19 1 0.03
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (16 bp):
ATAAAATAAATTTTTA
Found at i:123425 original size:2 final size:2
Alignment explanation
Indices: 123418--123445 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
123408 TAGTAACATC
123418 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
123446 TCGACTTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:123863 original size:21 final size:22
Alignment explanation
Indices: 123835--123888 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
123825 TCTATTATCA
123835 AATT-TATATTTTAATAAT-AT
1 AATTATATATTTTAATAATAAT
123855 AATTATATATTTT-ATAATAAT
1 AATTATATATTTTAATAATAAT
*
123876 TATTATA-ATTTTA
1 AATTATATATTTTA
123889 TTTTACTAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
AATTATATATTTTAATAATAAT
Found at i:123871 original size:20 final size:21
Alignment explanation
Indices: 123835--123889 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
123825 TCTATTATCA
123835 AATT-TATATTTTAATAAT-AT
1 AATTATATATTTT-ATAATAAT
123855 AATTATATATTTTATAATAAT
1 AATTATATATTTTATAATAAT
*
123876 TATTATA-ATTTTAT
1 AATTATATATTTTAT
123890 TTTACTAGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 16 0.50
21 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
AATTATATATTTTATAATAAT
Found at i:124597 original size:17 final size:18
Alignment explanation
Indices: 124575--124609 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
124565 AAATTTTAAA
124575 TTACTAAT-ATAAAATTT
1 TTACTAATAATAAAATTT
*
124592 TTACTATTAATAAAATTT
1 TTACTAATAATAAAATTT
124610 ATTCAATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (18 bp):
TTACTAATAATAAAATTT
Found at i:124622 original size:18 final size:18
Alignment explanation
Indices: 124582--124623 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
124572 AAATTACTAA
*
124582 TATAAAATTTTTACTATT
1 TATAAAATTTTTACAATT
*
124600 AATAAAATTTATT-CAATT
1 TATAAAATTT-TTACAATT
124618 TATAAA
1 TATAAA
124624 TAAGAAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (18 bp):
TATAAAATTTTTACAATT
Found at i:124724 original size:2 final size:2
Alignment explanation
Indices: 124717--124742 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
124707 AAGAATTGTC
124717 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
124743 TCATACCACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:130921 original size:2 final size:2
Alignment explanation
Indices: 130914--130952 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
130904 TATTCATAAA
130914 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
130953 AGAGTTTTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:131546 original size:2 final size:2
Alignment explanation
Indices: 131539--131569 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
131529 TTTTGACTGT
131539 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
131570 TAAGAAAATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:132087 original size:2 final size:2
Alignment explanation
Indices: 132082--132164 Score: 166
Period size: 2 Copynumber: 41.5 Consensus size: 2
132072 AATGTATAAA
132082 AT AT AT AT AT AT 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 AT AT AT AT AT AT
132124 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
132165 CACACACACA
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 81 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:135008 original size:132 final size:133
Alignment explanation
Indices: 134818--135079 Score: 427
Period size: 132 Copynumber: 2.0 Consensus size: 133
134808 TGCTAAGAGT
* * *
134818 AAAAACCATAAATAATGCATAAAACATGAAAAAAATCAAGAAGATAAATAAGACCAAAGCATCCG
1 AAAAACCATAAATAATGCATAAAACATGAAAAAAATCAAGAAGAGAAATAAAACCAAAGCATCCA
* * * *
134883 TTTCATCTTATGTAGCTACTCAAAATTATATAGGAAACAGCATACCATTGGTAGCAGCCCAGGAC
66 TTTCATCTTATGCAGCTACTCAAAATTATATAGAAAACAACATACCATTGATAGCAGCCCAGGAC
134948 ATA
131 ATA
* * *
134951 AAAAACCATAAATAATGCATCAAACATG-AAACAATCAAGAAGAGAAATAAAACCAAAGCATTCA
1 AAAAACCATAAATAATGCATAAAACATGAAAAAAATCAAGAAGAGAAATAAAACCAAAGCATCCA
135015 TTTCATCTTATGCAGCTACTCAAAATTATATAGAAAACAACATACCATTGATAGCAGCCCAGGAC
66 TTTCATCTTATGCAGCTACTCAAAATTATATAGAAAACAACATACCATTGATAGCAGCCCAGGAC
135080 CGGTGTGTTT
Statistics
Matches: 119, Mismatches: 10, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
132 92 0.77
133 27 0.23
ACGTcount: A:0.48, C:0.19, G:0.12, T:0.21
Consensus pattern (133 bp):
AAAAACCATAAATAATGCATAAAACATGAAAAAAATCAAGAAGAGAAATAAAACCAAAGCATCCA
TTTCATCTTATGCAGCTACTCAAAATTATATAGAAAACAACATACCATTGATAGCAGCCCAGGAC
ATA
Found at i:137653 original size:19 final size:19
Alignment explanation
Indices: 137629--137696 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
137619 AATTCAACGA
137629 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
137648 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
137663 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
137680 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
137697 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:137667 original size:32 final size:32
Alignment explanation
Indices: 137631--137693 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
137621 TTCAACGATT
*
137631 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
137663 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
137694 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:137668 original size:13 final size:13
Alignment explanation
Indices: 137650--137674 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
137640 ACATAAGTTT
137650 TGTATCGATACAA
1 TGTATCGATACAA
137663 TGTATCGATACA
1 TGTATCGATACA
137675 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:137754 original size:13 final size:13
Alignment explanation
Indices: 137736--137761 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
137726 CATTTTTCTG
137736 TGTATCGATACAT
1 TGTATCGATACAT
137749 TGTATCGATACAT
1 TGTATCGATACAT
137762 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:137758 original size:33 final size:33
Alignment explanation
Indices: 137716--137782 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
137706 GCCAAGGAAA
***
137716 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
137749 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
137782 T
1 T
137783 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:140192 original size:51 final size:53
Alignment explanation
Indices: 140123--140464 Score: 205
Period size: 52 Copynumber: 6.5 Consensus size: 53
140113 AGTTTATCAA
* * * * *
140123 TTCTCCACAATCGTGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
* *
140174 TT-TTCTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAAT
* * * *** * *
140228 TTCTTCACAATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAACCCCGT
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTAT-TTC-CAAAAACACCAA-----T
* * * *
140286 TAT-TTC-CGA--GGGGATACTCCAACTCCGGTTTTA--TCGCTAAAACACTAAT
1 T-TCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTC-CAAAAACACCAAT
* * *
140335 TT-TTCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTC-AAAACGCCAATT
1 TTCTT-CACAATCGGGGATACTCCAACTCC-GATTTTATTTCCAAAAACACCAA-T
* *
140388 TTCCTT--TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAAT
1 TT-CTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
*
140440 TT-TTCACAATCGTGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
140465 CTCGTTATTT
Statistics
Matches: 225, Mismatches: 37, Indels: 57
0.71 0.12 0.18
Matches are distributed among these distances:
48 3 0.01
49 3 0.01
50 6 0.03
51 35 0.16
52 79 0.35
53 33 0.15
54 33 0.15
55 22 0.10
57 5 0.02
58 5 0.02
59 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
Found at i:140307 original size:28 final size:27
Alignment explanation
Indices: 140240--140308 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
140230 CTTCACAATC
**
140240 GGGGATACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCAGA
* *
140267 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTA-ATCAGA
140295 GGGGATACTCCAAC
1 GGGGATACTCCAAC
140309 TCCGGTTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.25, C:0.32, G:0.22, T:0.22
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCAGA
Found at i:140350 original size:107 final size:105
Alignment explanation
Indices: 140186--140578 Score: 341
Period size: 107 Copynumber: 3.7 Consensus size: 105
140176 TTCTATAATC
*
140186 GGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCC
1 GGGGATACTCCAACTCCGATTTTA-TTCC-AAAAACACCAATTT-TTCACAATCGGGGATACTCC
140251 AACCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGA
63 AACCCCGTTAATCATCGGGGATACTCCAACCCCGTTA-TTCCGA
* * *
140295 GGGGATACTCCAACTCCGGTTTTA-TCGCTAAAACACTAATTTTTCCACAATCGGGGATACTCCA
1 GGGGATACTCCAACTCCGATTTTATTC-CAAAAACACCAATTTTT-CACAATCGGGGATACTCCA
** * ** * * * ** * *
140359 ATCCTGGTTTTATTTTC---AAAACGCCAATTTTCCTTTAAT-C--
64 A-CCCCG-TTAATCATCGGGGATACTCCAA--CCCCGTTATTCCGA
* *
140399 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGTGGATACTCCAA
1 GGGGATACTCCAACTCCGATTTTA-TTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAA
* *
140464 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGA
65 CCCCGTTA-ATCATCGGGGATACTCCAACCCCGTTA-TTCCGA
* ** * * *** * * *
140507 GGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAAC
1 GGGGATACTCCAACTCCGATTTTATTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
140572 CCCGTTA
66 CCCGTTA
140579 TTTTCGAAGG
Statistics
Matches: 223, Mismatches: 45, Indels: 34
0.74 0.15 0.11
Matches are distributed among these distances:
102 2 0.01
103 7 0.03
104 47 0.21
105 15 0.07
106 20 0.09
107 74 0.33
108 30 0.13
109 28 0.13
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.31
Consensus pattern (105 bp):
GGGGATACTCCAACTCCGATTTTATTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
CCCGTTAATCATCGGGGATACTCCAACCCCGTTATTCCGA
Found at i:140448 original size:104 final size:103
Alignment explanation
Indices: 140128--140463 Score: 297
Period size: 104 Copynumber: 3.2 Consensus size: 103
140118 ATCAATTCTC
* * * * *
140128 CACAATCGTGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTT-CTATAATCGGGGAT
1 CACAATCGGGGATACTCCAA-TCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGAT
*
140192 ACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTT
65 ACTCCAACTCCGATTTTATTTCC-AAAAACACCAATTT-TT
* * * ** * * * ** * *
140233 CACAATCGGGGATACTCCAACCCCG-TTAATCATCGGGGATACTCCAA--CCCCGTTATTTCCGA
1 CACAATCGGGGATACTCCAATCCGGTTTTATTTTC---AAAACACCAATTTTCCTTTA-AT-C--
* * *
140295 GGGGATACTCCAACTCCGGTTTTA--TCGCTAAAACACTAATTTTT
59 GGGGATACTCCAACTCCGATTTTATTTC-CAAAAACACCAATTTTT
*
140339 CCACAATCGGGGATACTCCAATCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGGGA
1 -CACAATCGGGGATACTCCAATCC-GGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGA
*
140404 TACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT
64 TACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
*
140444 CACAATCGTGGATACTCCAA
1 CACAATCGGGGATACTCCAA
140464 CCTCGTTATT
Statistics
Matches: 177, Mismatches: 38, Indels: 33
0.71 0.15 0.13
Matches are distributed among these distances:
103 6 0.03
104 44 0.25
105 35 0.20
106 19 0.11
107 38 0.21
108 7 0.04
109 28 0.16
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (103 bp):
CACAATCGGGGATACTCCAATCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATA
CTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
Found at i:140484 original size:28 final size:28
Alignment explanation
Indices: 140448--140524 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
140438 ATTTTTCACA
* * *
140448 ATCGTGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
140476 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
140504 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
140525 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.22, C:0.34, G:0.19, T:0.25
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:140493 original size:212 final size:212
Alignment explanation
Indices: 140126--140531 Score: 638
Period size: 212 Copynumber: 1.9 Consensus size: 212
140116 TTATCAATTC
* * *
140126 TCCACAATCGTGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
*
140191 TACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCC
* * *
140256 CGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACTCCGGTTTTATC
131 CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATC
140321 GCTAAAACACTAATTTT
196 GCTAAAACACTAATTTT
* * *
140338 TCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGG
1 TCCACAATCGGGGATACTCCAACTCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCGGG
* *
140402 GATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGTGGATACTCCAAC
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAAC
* *
140465 CTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTT
129 CCCGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTT
140530 AT
193 AT
140532 TCCCAAAATA
Statistics
Matches: 177, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
211 31 0.18
212 111 0.63
213 35 0.20
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (212 bp):
TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCC
CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATC
GCTAAAACACTAATTTT
Found at i:140627 original size:79 final size:79
Alignment explanation
Indices: 140478--140680 Score: 212
Period size: 79 Copynumber: 2.6 Consensus size: 79
140468 GTTATTTCAT
* * * *
140478 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
* * *
140543 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * * ** * *
140557 TGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAATCCCGATTTTTTTTTC-TAATCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAAT-A
*
140621 TCGATTTCTCACCAC
65 TCGATTTCTCACAAC
* *
140636 CGGGGATACTCCAGCCCCGTTATTTTC-AAGGGAACACTCCAACCC
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGG-ATACTCCAACCC
140681 TGTTATTATC
Statistics
Matches: 102, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
78 8 0.08
79 94 0.92
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:147256 original size:19 final size:20
Alignment explanation
Indices: 147232--147285 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
147222 ATTGATACAT
147232 TGTATCGATACAAAACT-TA
1 TGTATCGATACAAAACTATA
** *
147251 TGTATCGATACATTTACTATT
1 TGTATCGATACA-AAACTATA
147272 TGTATCGATACAAA
1 TGTATCGATACAAA
147286 TTGTAGAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 12 0.43
20 3 0.11
21 13 0.46
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (20 bp):
TGTATCGATACAAAACTATA
Found at i:148053 original size:61 final size:61
Alignment explanation
Indices: 147973--148159 Score: 241
Period size: 61 Copynumber: 3.1 Consensus size: 61
147963 TGACATTGAA
* ** * * *
147973 CTTAAAGATGCGAAGAATGATAAAGGTGTTAATATGCTAATTCACGGCCAGTGATATTGGG
1 CTTAAAGATGAGAAGAATGATAAAGGTGCCAATATGCTAATTCACGACCAGCGATATTAGG
* * * *
148034 CTTGAAGATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGATCAGCGATATTAGG
1 CTTAAAGATGAGAAGAATGATAAAGGTGCCAATATGCTAATTCACGACCAGCGATATTAGG
* * * *
148095 CTTAAAGA-GAGAAAAATGATAAAGGTGCCAACATGCTAATTCACAACCAACGATATTAGG
1 CTTAAAGATGAGAAGAATGATAAAGGTGCCAATATGCTAATTCACGACCAGCGATATTAGG
148155 CTTAA
1 CTTAA
148160 GAAAGAAAAA
Statistics
Matches: 108, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
60 50 0.46
61 58 0.54
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.25
Consensus pattern (61 bp):
CTTAAAGATGAGAAGAATGATAAAGGTGCCAATATGCTAATTCACGACCAGCGATATTAGG
Found at i:148150 original size:121 final size:121
Alignment explanation
Indices: 147937--148161 Score: 274
Period size: 121 Copynumber: 1.9 Consensus size: 121
147927 GAAGAGAAGA
* * * * * *
147937 GTGCCAATGTGCTGATTCAAGGTCAATGACATTGAACTTAAAGATGCGAAGAATGATAAAGGTGT
1 GTGCCAATATGCTGATTCAAGATCAACGACATTGAACTTAAAGATGAGAAAAATGATAAAGGTGC
* * ** ** *
148002 TAATATGCTAATTCACGGCCAGTGATATTGGGCTTGAAGATGAGAAGAATGATAAAG
66 CAACATGCTAATTCACAACCAACGATATTAGGCTT-AAGATGAGAAGAATGATAAAG
* * *
148059 GTGCCAATATGCTGATTCAAGATCAGCGATATT-AGGCTTAAAGA-GAGAAAAATGATAAAGGTG
1 GTGCCAATATGCTGATTCAAGATCAACGACATTGA-ACTTAAAGATGAGAAAAATGATAAAGGTG
148122 CCAACATGCTAATTCACAACCAACGATATTAGGCTTAAGA
65 CCAACATGCTAATTCACAACCAACGATATTAGGCTTAAGA
148162 AAGAAAAATG
Statistics
Matches: 86, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
120 4 0.05
121 46 0.53
122 36 0.42
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.25
Consensus pattern (121 bp):
GTGCCAATATGCTGATTCAAGATCAACGACATTGAACTTAAAGATGAGAAAAATGATAAAGGTGC
CAACATGCTAATTCACAACCAACGATATTAGGCTTAAGATGAGAAGAATGATAAAG
Found at i:148237 original size:57 final size:57
Alignment explanation
Indices: 148158--148267 Score: 139
Period size: 57 Copynumber: 1.9 Consensus size: 57
148148 TATTAGGCTT
* * *
148158 AAGAAAGAAAAATGTGCCAATATACTGATTCAAGGTTAGTGAAATTGGACTTATGAG
1 AAGAAAGAAAAATATGCCAATATACTGATTCAAGGCTAGCGAAATTGGACTTATGAG
* * * * * *
148215 AAGAATGAGAAATATGCTAATATGCTGATTCAAGGCTAGCGATATTGGGCTTA
1 AAGAAAGAAAAATATGCCAATATACTGATTCAAGGCTAGCGAAATTGGACTTA
148268 AAGATGACAA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
57 44 1.00
ACGTcount: A:0.39, C:0.10, G:0.24, T:0.27
Consensus pattern (57 bp):
AAGAAAGAAAAATATGCCAATATACTGATTCAAGGCTAGCGAAATTGGACTTATGAG
Found at i:148300 original size:52 final size:52
Alignment explanation
Indices: 148240--148585 Score: 186
Period size: 52 Copynumber: 6.7 Consensus size: 52
148230 GCTAATATGC
* * *
148240 TGATTCAAGGCTAGCGATATTGGGCTTAAAGATGACAAAGGTGCTAACGTAC
1 TGATTCAAGGCTAGCGACATTGGACTTAAAGATGACAAAGGTGCTAACGTAT
** * ** *
148292 TGATTCAAGGCTAATGACATTGGACTTAAAGATGATAAAGGTGCTAATATGT
1 TGATTCAAGGCTAGCGACATTGGACTTAAAGATGACAAAGGTGCTAACGTAT
* * * * * * * *
148344 TGATTCAAGGCCAGCAATATTAGACTT-AAGAAAGAAAAATGTG-TCAATGTAT
1 TGATTCAAGGCTAGCGACATTGGACTTAAAG-ATGACAAAGGTGCT-AACGTAT
* * * * *
148396 TGATTCAAGG-TCAGCAAAATTAGG-CTTAAAAATG---AAGGTGCCAACGTGT
1 TGATTCAAGGCT-AGCGACATT-GGACTTAAAGATGACAAAGGTGCTAACGTAT
* * * * *
148445 TGATTCAAGGCCAGCGACGTTGGACTTAGAAAGATGACAAAGGTGCCAATGTGT
1 TGATTCAAGGCTAGCGACATTGGACTT--AAAGATGACAAAGGTGCTAACGTAT
* * *** * * * * * **
148499 TAATTCAAGGCCAATAACATTGGACTT-AAGAAAGAGAAATGTGCCAATGTGC
1 TGATTCAAGGCTAGCGACATTGGACTTAAAG-ATGACAAAGGTGCTAACGTAT
** * *
148551 TGATTCAAAACTAGCGACATTAGACGTAAAGATGA
1 TGATTCAAGGCTAGCGACATTGGACTTAAAGATGA
148586 GGGTGCTAAT
Statistics
Matches: 225, Mismatches: 54, Indels: 30
0.73 0.17 0.10
Matches are distributed among these distances:
48 2 0.01
49 29 0.13
51 13 0.06
52 139 0.62
53 6 0.03
54 36 0.16
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (52 bp):
TGATTCAAGGCTAGCGACATTGGACTTAAAGATGACAAAGGTGCTAACGTAT
Found at i:148400 original size:104 final size:108
Alignment explanation
Indices: 148147--148405 Score: 287
Period size: 104 Copynumber: 2.4 Consensus size: 108
148137 ACAACCAACG
* * *
148147 ATATTAGGCTTAAGAAAGAAAAATGTGCCAATATACTGATTCAAGGTTAGTGAAATTGGACTTAT
1 ATATTAGGCTTAAGAAAGAAAAATGTG-CAATGTACTGATTCAAGGCTAATGAAATTGGACTTAT
* * *
148212 GAGAAGAATGAGAAATATGCTAATATGCTGATTCAAGGCTAGCG
65 GAGAAGAATGAGAAAGATGCTAATATGCTGATTCAAGGCCAGCA
* * * * * *
148256 ATATTGGGCTTAA-AGATGACAAAGGTGCTAACGTACTGATTCAAGGCTAATGACATTGGAC-T-
1 ATATTAGGCTTAAGA-AAGAAAAATGTGC-AATGTACTGATTCAAGGCTAATGAAATTGGACTTA
* * *
148318 T-A-AAG-ATGATAAAGGTGCTAATATGTTGATTCAAGGCCAGCA
64 TGAGAAGAATGAGAAAGATGCTAATATGCTGATTCAAGGCCAGCA
* *
148360 ATATTAGACTTAAGAAAGAAAAATGTGTCAATGTATTGATTCAAGG
1 ATATTAGGCTTAAGAAAGAAAAATGTG-CAATGTACTGATTCAAGG
148406 TCAGCAAAAT
Statistics
Matches: 124, Mismatches: 22, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
104 66 0.53
105 5 0.04
106 1 0.01
107 1 0.01
108 3 0.02
109 48 0.39
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.28
Consensus pattern (108 bp):
ATATTAGGCTTAAGAAAGAAAAATGTGCAATGTACTGATTCAAGGCTAATGAAATTGGACTTATG
AGAAGAATGAGAAAGATGCTAATATGCTGATTCAAGGCCAGCA
Found at i:148573 original size:155 final size:155
Alignment explanation
Indices: 148215--148630 Score: 433
Period size: 155 Copynumber: 2.7 Consensus size: 155
148205 GACTTATGAG
* * * * * * *
148215 AAGAATGAGAAATATGCTAATATGCTGATTCAAGGCTAGCGATATTGGGCTTAAAGATGACAAAG
1 AAGAAAGAGAAATGTGCCAATGTGCTGATTCAAAGCTAGCGAAATTAGGCTTAAAGATG---AAG
* * ** * *
148280 GTGCTAACGTACTGATTCAAGGCTAATGACATTGGACTT--AAAGATGATAAAGGTGCTAATATG
63 GTGCTAACGTGCTGATTCAAGGCCAGCGACATTGGACTTAGAAAGATGACAAAGGTGCCAATATG
* * *
148343 TTGATTCAAGGCCAGCAATATTAGACTT
128 TTAATTCAAGGCCAACAACATTAGACTT
* * ** * * *
148371 AAGAAAGAAAAATGTGTCAATGTATTGATTC-AAGGTCAGCAAAATTAGGCTTAAAAATGAAGGT
1 AAGAAAGAGAAATGTGCCAATGTGCTGATTCAAAGCT-AGCGAAATTAGGCTTAAAGATGAAGGT
* * * *
148435 GCCAACGTGTTGATTCAAGGCCAGCGACGTTGGACTTAGAAAGATGACAAAGGTGCCAATGTGTT
65 GCTAACGTGCTGATTCAAGGCCAGCGACATTGGACTTAGAAAGATGACAAAGGTGCCAATATGTT
* *
148500 AATTCAAGGCCAATAACATTGGACTT
130 AATTCAAGGCCAACAACATTAGACTT
* * * * *
148526 AAGAAAGAGAAATGTGCCAATGTGCTGATTCAAAACTAGCGACATTAGACGTAAAGATGAGGGTG
1 AAGAAAGAGAAATGTGCCAATGTGCTGATTCAAAGCTAGCGAAATTAGGCTTAAAGATGAAGGTG
* * * *
148591 CTAATGTGCAGATTCAAGGCCAGCAACATTGGGCTTAGAA
66 CTAACGTGCTGATTCAAGGCCAGCGACATTGGACTTAGAA
148631 GGAGATGCCA
Statistics
Matches: 208, Mismatches: 48, Indels: 9
0.78 0.18 0.03
Matches are distributed among these distances:
153 35 0.17
155 129 0.62
156 44 0.21
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (155 bp):
AAGAAAGAGAAATGTGCCAATGTGCTGATTCAAAGCTAGCGAAATTAGGCTTAAAGATGAAGGTG
CTAACGTGCTGATTCAAGGCCAGCGACATTGGACTTAGAAAGATGACAAAGGTGCCAATATGTTA
ATTCAAGGCCAACAACATTAGACTT
Found at i:148675 original size:33 final size:33
Alignment explanation
Indices: 148638--148741 Score: 77
Period size: 33 Copynumber: 3.2 Consensus size: 33
148628 GAAGGAGATG
*
148638 CCACCAACTTATTTAGGCTTTTGAAA-AGGGTTA
1 CCACCAACTTATGTAGGCTTTT-AAAGAGGGTTA
* * * *
148671 CCACCGACTTGTGTGGGCTTTTAAAGGGGGTTA
1 CCACCAACTTATGTAGGCTTTTAAAGAGGGTTA
* * * * * *
148704 CCATCGACTTGTGTGGGC-TTTAGAGAAGGGTTG
1 CCACCAACTTATGTAGGCTTTTAAAG-AGGGTTA
148737 CCACC
1 CCACC
148742 GACTCGTGAG
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
32 9 0.15
33 50 0.85
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (33 bp):
CCACCAACTTATGTAGGCTTTTAAAGAGGGTTA
Found at i:148745 original size:33 final size:33
Alignment explanation
Indices: 148653--148756 Score: 120
Period size: 33 Copynumber: 3.2 Consensus size: 33
148643 AACTTATTTA
* *
148653 GGCTTTTGAAAAGGGTTACCACCGACTTGTGTG
1 GGCTTTAGAGAAGGGTTACCACCGACTTGTGTG
* * *
148686 GGCTTTTAAAG-GGGGTTACCATCGACTTGTGTG
1 GGC-TTTAGAGAAGGGTTACCACCGACTTGTGTG
* * *
148719 GGCTTTAGAGAAGGGTTGCCACCGACTCGTGAG
1 GGCTTTAGAGAAGGGTTACCACCGACTTGTGTG
148752 GGCTT
1 GGCTT
148757 AAAAGGGTGC
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
32 6 0.10
33 48 0.83
34 4 0.07
ACGTcount: A:0.19, C:0.18, G:0.34, T:0.29
Consensus pattern (33 bp):
GGCTTTAGAGAAGGGTTACCACCGACTTGTGTG
Found at i:148795 original size:24 final size:24
Alignment explanation
Indices: 148765--148813 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
148755 TTAAAAGGGT
*
148765 GCCATGGAGTTGTGGACTTAAAAA
1 GCCATGGAGTTATGGACTTAAAAA
*
148789 GCCATGGAGTTATGGATTTAAAAA
1 GCCATGGAGTTATGGACTTAAAAA
148813 G
1 G
148814 AAAAAAAGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.10, G:0.29, T:0.27
Consensus pattern (24 bp):
GCCATGGAGTTATGGACTTAAAAA
Found at i:148881 original size:27 final size:27
Alignment explanation
Indices: 148851--148909 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
148841 TTTTCAAAAG
148851 AAAAAGGTGCCAC-AGAGTTGTGGACTT
1 AAAAAGGTGCCACGA-AGTTGTGGACTT
*
148878 AAAAGGGTGCCACGAAGTTGTGGACTT
1 AAAAAGGTGCCACGAAGTTGTGGACTT
148905 AAAAA
1 AAAAA
148910 AGAAAAAGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 28 0.97
28 1 0.03
ACGTcount: A:0.37, C:0.14, G:0.29, T:0.20
Consensus pattern (27 bp):
AAAAAGGTGCCACGAAGTTGTGGACTT
Found at i:148893 original size:61 final size:61
Alignment explanation
Indices: 148817--148978 Score: 175
Period size: 61 Copynumber: 2.7 Consensus size: 61
148807 TAAAAAGAAA
* * ** *
148817 AAAAGGTTGCCACGAAATCGT-GAGTTTTCAAAAGAAAAAGGTGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACGAAATCGTGGA-CTTAAAAAAGAAAAAGGTGCCACAGAGTTGTGCACTT
* * * *
148878 AAAAGGGTGCCACGAAGTTGTGGACTTAAAAAAGAAAAAGGTGTCACGGAGTTGTGCACTT
1 AAAAGGGTGCCACGAAATCGTGGACTTAAAAAAGAAAAAGGTGCCACAGAGTTGTGCACTT
* * ** *
148939 AAAAGGGTGCCATGAACTTATGGACTT-AAAAGGAAAAAGG
1 AAAAGGGTGCCACGAAATCGTGGACTTAAAAAAGAAAAAGG
148979 ATACCACGGA
Statistics
Matches: 87, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
60 12 0.14
61 73 0.84
62 2 0.02
ACGTcount: A:0.38, C:0.13, G:0.28, T:0.21
Consensus pattern (61 bp):
AAAAGGGTGCCACGAAATCGTGGACTTAAAAAAGAAAAAGGTGCCACAGAGTTGTGCACTT
Found at i:148932 original size:34 final size:33
Alignment explanation
Indices: 148878--149867 Score: 433
Period size: 34 Copynumber: 31.0 Consensus size: 33
148868 TTGTGGACTT
* *
148878 AAAAGGGTGCCACGAAGTTGTGGACTTAAAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGACTT-AAAAAG
* *
148912 AAAAAGGTGTCACGGAGTTGTGCACTT-AAAAG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
* * * * *
148944 -----GGTGCCATGAACTTATGGACTTAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
* * * *
148972 AAAAAGGATACCACGGAGTTATGAACTTTGAAAAG
1 AAAAAGG-TGCCACGGAGTTGTGGAC-TTAAAAAG
* *
149007 AAAAAGATGCCATGGAGTTGTGGACTTAAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
* *
149040 AAAAAGGGTGCCACGAAGTTGTGGGCTTAAAAAG
1 AAAAA-GGTGCCACGGAGTTGTGGACTTAAAAAG
* * *
149074 -AAAAGGTGCCACGGAATTGTGGGCTTTGAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGAC-TTAAAAAG
** * * *
149107 AAAAAAGGTGCCATAGAGTTGTGGGCTTTGAAAAT
1 -AAAAAGGTGCCACGGAGTTGTGGAC-TTAAAAAG
* * *
149142 AAAGAGGTGCCACAGAGTTGTGGATTTACAAGAA-
1 AAAAAGGTGCCACGGAGTTGTGGACTTA-AA-AAG
**
149176 AAAAAGGTGTTACGGAGTTGT-GAGCTT-AAAAG
1 AAAAAGGTGCCACGGAGTTGTGGA-CTTAAAAAG
** *
149208 ---AA--TGCCACAAAGTTGT-GAGCTTTAAAA-
1 AAAAAGGTGCCACGGAGTTGTGGA-CTTAAAAAG
* * *
149235 AAAAAGGTGCCATGGAGTTATGGGCTT-AAAAG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
*
149267 AAAAAGGTGCCATGGAGTTGTAGG-CTT----A-
1 AAAAAGGTGCCACGGAGTTGT-GGACTTAAAAAG
* * * **
149295 AAAAA-GTGCCACAGAGCTGTGGGCTTTGAAAG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
* *
149327 AAAAAAGTGCCACAGAGTTGTAGG-CTT-AAAAG
1 AAAAAGGTGCCACGGAGTTGT-GGACTTAAAAAG
* * * ** *
149359 AAAAATGTGCCATGGAGTTGTAAGTTTTGAAAAG
1 AAAAAGGTGCCACGGAGTTGT-GGACTTAAAAAG
* * * *
149393 AAAAATGTGCCACGAAGTTGTGGGCTTTGAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGAC-TTAAAAAG
* *
149427 AAAGAGGTGCCACAGAGTTGTGGACTTAAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
* *
149460 ----A-GTGCCA-GCAGTTGTAGACTTAAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
*** *
149487 AAAAAAGGTGCCATAAAGTTGTGGACTTTGAAAAG
1 -AAAAAGGTGCCACGGAGTTGTGGAC-TTAAAAAG
* **
149522 AAAAAGGTTCCATAGAGTTGTGGACTT-AAAAG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
*
149554 ----A-GTGCCACGGAGTTATGGACTT------
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
* * * *
149576 AAAAAGGTGCTACGAAGTTAT-GAGCTTAAAACG
1 AAAAAGGTGCCACGGAGTTGTGGA-CTTAAAAAG
* **
149609 AAAAAGGGTGCCACGGAGTTATGGACTTTGGAAAG
1 AAAAA-GGTGCCACGGAGTTGTGGAC-TTAAAAAG
**
149644 AAAAAGGTGCCATAGAGTTGTGGACTT------
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
* *
149671 AAAAAGGTGCCACAGAGTTGTGGA-TTCAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTT-AAAAAG
* ** *
149704 AAAAATGTGCCACTAAGTTGTGGAC-T-----C
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
* * *
149731 AAAATGGTGCCACAGAGTTGTGGACTTAAAAGAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAA-AG
* * * * ***
149765 AAAAAGGTGCTACGAAGTCGTGGGCTTTTGGAAG
1 AAAAAGGTGCCACGGAGTTGTGGAC-TTAAAAAG
* * * * ***
149799 AAAAATGATGCTATGGAGTTGTGGGCTTTTGGAAG
1 AAAAA-GGTGCCACGGAGTTGTGGAC-TTAAAAAG
* *
149834 AAAAAAGATGCCACTGAGTTGTGGACTTAAAAAG
1 -AAAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
149868 GTGTCATAGA
Statistics
Matches: 749, Mismatches: 130, Indels: 154
0.73 0.13 0.15
Matches are distributed among these distances:
26 7 0.01
27 141 0.19
28 21 0.03
29 4 0.01
30 2 0.00
31 7 0.01
32 96 0.13
33 96 0.13
34 264 0.35
35 106 0.14
36 5 0.01
ACGTcount: A:0.37, C:0.11, G:0.29, T:0.23
Consensus pattern (33 bp):
AAAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
Found at i:148987 original size:61 final size:60
Alignment explanation
Indices: 148846--148991 Score: 202
Period size: 61 Copynumber: 2.4 Consensus size: 60
148836 GTGAGTTTTC
* * * *
148846 AAAAGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGACTTAA
1 AAAAGAAAAAGGTGCCACGGAGTTGTGCACTTAAAAGGGTGCCACGAACTTATGGACTT-A
* *
148907 AAAAGAAAAAGGTGTCACGGAGTTGTGCACTTAAAAGGGTGCCATGAACTTATGGACTTA
1 AAAAGAAAAAGGTGCCACGGAGTTGTGCACTTAAAAGGGTGCCACGAACTTATGGACTTA
* *
148967 AAAGGAAAAAGGATACCACGGAGTT
1 AAAAGAAAAAGG-TGCCACGGAGTT
148992 ATGAACTTTG
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
60 12 0.16
61 63 0.84
ACGTcount: A:0.39, C:0.13, G:0.28, T:0.20
Consensus pattern (60 bp):
AAAAGAAAAAGGTGCCACGGAGTTGTGCACTTAAAAGGGTGCCACGAACTTATGGACTTA
Found at i:149222 original size:61 final size:59
Alignment explanation
Indices: 149149--149268 Score: 143
Period size: 59 Copynumber: 2.0 Consensus size: 59
149139 AATAAAGAGG
* ** *
149149 TGCCACAGAGTTGTG-GATTTACAAGAAAAAAAGGTGTTACGGAGTTGTGAGCTTAAAAGAA
1 TGCCACAAAGTTGTGAGATTT--AA-AAAAAAAGGTGCCACGGAGTTATGAGCTTAAAAGAA
* * *
149210 TGCCACAAAGTTGTGAGCTTTAAAAAAAAAGGTGCCATGGAGTTATGGGCTTAAAAGAA
1 TGCCACAAAGTTGTGAGATTTAAAAAAAAAGGTGCCACGGAGTTATGAGCTTAAAAGAA
149269 AAAGGTGCCA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
59 31 0.61
60 2 0.04
61 14 0.27
62 4 0.08
ACGTcount: A:0.38, C:0.11, G:0.27, T:0.24
Consensus pattern (59 bp):
TGCCACAAAGTTGTGAGATTTAAAAAAAAAGGTGCCACGGAGTTATGAGCTTAAAAGAA
Found at i:149297 original size:27 final size:28
Alignment explanation
Indices: 149234--149305 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 28
149224 GAGCTTTAAA
*
149234 AAAAAAGGTGCCATGGAGTTATGGGCTT
1 AAAAAAGGTGCCATGGAGTTATAGGCTT
*
149262 AAAAGAAAAAGGTGCCATGGAGTTGTAGGCTT
1 ---A-AAAAAGGTGCCATGGAGTTATAGGCTT
149294 AAAAAA-GTGCCA
1 AAAAAAGGTGCCA
149306 CAGAGCTGTG
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
27 6 0.16
28 5 0.13
29 1 0.03
31 1 0.03
32 25 0.66
ACGTcount: A:0.39, C:0.11, G:0.29, T:0.21
Consensus pattern (28 bp):
AAAAAAGGTGCCATGGAGTTATAGGCTT
Found at i:149474 original size:61 final size:62
Alignment explanation
Indices: 149399--149514 Score: 146
Period size: 61 Copynumber: 1.9 Consensus size: 62
149389 AAAGAAAAAT
* * * * *
149399 GTGCCACGAAGTTGTGGGCTTTGAAAAG-AAAGAGGTGCCACAGAGTTGTGGACTTAAAAAGA
1 GTGCCACGAAGTTGTAGAC-TTAAAAAGAAAAAAGGTGCCACAAAGTTGTGGACTTAAAAAGA
* *
149461 GTGCCA-GCAGTTGTAGACTTAAAAAGAAAAAAGGTGCCATAAAGTTGTGGACTT
1 GTGCCACGAAGTTGTAGACTTAAAAAGAAAAAAGGTGCCACAAAGTTGTGGACTT
149515 TGAAAAGAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
60 7 0.15
61 33 0.72
62 6 0.13
ACGTcount: A:0.35, C:0.13, G:0.29, T:0.22
Consensus pattern (62 bp):
GTGCCACGAAGTTGTAGACTTAAAAAGAAAAAAGGTGCCACAAAGTTGTGGACTTAAAAAGA
Done.