Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold57
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: 4071704
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82236 characters in sequence are not A, C, G, or T
File 7 of 27
Found at i:724431 original size:22 final size:22
Alignment explanation
Indices: 724406--724468 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
724396 ATAATATTTT
724406 TATATTAATTTAATTATAAAAA
1 TATATTAATTTAATTATAAAAA
*
724428 TATATAAATATTAA-TATAAAAA
1 TATATTAAT-TTAATTATAAAAA
* *
724450 TA-A-TATTTTAATAATAAAA
1 TATATTAATTTAATTATAAAA
724469 CTAACAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
19 4 0.11
20 8 0.23
21 1 0.03
22 18 0.51
23 4 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
TATATTAATTTAATTATAAAAA
Found at i:726238 original size:24 final size:24
Alignment explanation
Indices: 726189--726245 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
726179 ACAAGCGATT
* *
726189 AATAAAAGTAAAATTATTAATATA
1 AATAAAAATAAAATTATCAATATA
*
726213 AATAAAAATCAAATTATCAAGT-TA
1 AATAAAAATAAAATTATCAA-TATA
*
726237 AATGAAAAT
1 AATAAAAAT
726246 TAATCTTACC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 27 0.96
25 1 0.04
ACGTcount: A:0.61, C:0.04, G:0.05, T:0.30
Consensus pattern (24 bp):
AATAAAAATAAAATTATCAATATA
Found at i:737522 original size:2 final size:2
Alignment explanation
Indices: 737510--737546 Score: 56
Period size: 2 Copynumber: 18.0 Consensus size: 2
737500 AAAGCTAAAC
*
737510 AT AT GAT AT AT AT AT AT AT AT AT AC 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
737547 GTACAGTTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:744545 original size:14 final size:14
Alignment explanation
Indices: 744472--744546 Score: 52
Period size: 14 Copynumber: 5.6 Consensus size: 14
744462 GATTTATAAA
*
744472 TAAATTTATATA-T
1 TAAAATTATATATT
*
744485 TAAAATTA-A-AAT
1 TAAAATTATATATT
*
744497 TAAAATTATAAATT
1 TAAAATTATATATT
* *
744511 TAATATT-T-TATC
1 TAAAATTATATATT
*
744523 AATAAATTATATATT
1 TA-AAATTATATATT
744538 TAAAATTAT
1 TAAAATTAT
744547 GCCAAACATA
Statistics
Matches: 47, Mismatches: 9, Indels: 11
0.70 0.13 0.16
Matches are distributed among these distances:
11 1 0.02
12 13 0.28
13 13 0.28
14 16 0.34
15 4 0.09
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (14 bp):
TAAAATTATATATT
Found at i:745628 original size:19 final size:19
Alignment explanation
Indices: 745605--745646 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
745595 AATTGAGTAG
* *
745605 TTTTTAAGAAATTGGTAAT
1 TTTTTAACAAATGGGTAAT
*
745624 TTTTTAACATATGGGTAAT
1 TTTTTAACAAATGGGTAAT
745643 TTTT
1 TTTT
745647 ATTTTTTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.02, G:0.14, T:0.52
Consensus pattern (19 bp):
TTTTTAACAAATGGGTAAT
Found at i:746987 original size:35 final size:36
Alignment explanation
Indices: 746936--747029 Score: 100
Period size: 36 Copynumber: 2.5 Consensus size: 36
746926 GATAAATTTG
*
746936 ATTTATTAAAATAAAATAAAATAAATAAATAAAATAATTA
1 ATTTAGTAAAATAAAATAAAAT-AAT--A-AAAATAATTA
* *
746976 TTTTA-TAAAAATAAAATAAAATTATAAAAATAATTA
1 ATTTAGT-AAAATAAAATAAAATAATAAAAATAATTA
*
747012 ATTTAGTATAATAAAATA
1 ATTTAGTAAAATAAAATA
747030 TTATGAAATT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
36 24 0.50
37 2 0.04
39 3 0.06
40 19 0.40
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (36 bp):
ATTTAGTAAAATAAAATAAAATAATAAAAATAATTA
Found at i:750359 original size:17 final size:17
Alignment explanation
Indices: 750324--750365 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
750314 GTTCATTTCA
750324 TTATTTTATTGATAATT
1 TTATTTTATTGATAATT
*
750341 TTATTATTATT-ATATTT
1 TTATT-TTATTGATAATT
750358 TTAATTTT
1 TT-ATTTT
750366 TTGTAAGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (17 bp):
TTATTTTATTGATAATT
Found at i:750487 original size:18 final size:18
Alignment explanation
Indices: 750464--750505 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
750454 TTAATATTTA
750464 TTTAATATTAAATTAATT
1 TTTAATATTAAATTAATT
* *
750482 TTTAATATTTAATTTATT
1 TTTAATATTAAATTAATT
750500 TTTAAT
1 TTTAAT
750506 TAAATTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTAATATTAAATTAATT
Found at i:750506 original size:29 final size:31
Alignment explanation
Indices: 750450--750518 Score: 83
Period size: 29 Copynumber: 2.3 Consensus size: 31
750440 ATTAATTACT
750450 ATTA-TTAATATTTATTTAATATTAAATT-A
1 ATTATTTAATATTTATTTAATATTAAATTAA
* *
750479 ATT-TTTAATATTTAATTT-ATTTTTAATTAA
1 ATTATTTAATATTT-ATTTAATATTAAATTAA
750509 ATTATTTAAT
1 ATTATTTAAT
750519 TCAATTGATT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
29 20 0.59
30 8 0.24
31 6 0.18
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (31 bp):
ATTATTTAATATTTATTTAATATTAAATTAA
Found at i:750518 original size:13 final size:13
Alignment explanation
Indices: 750487--750536 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
750477 TAATTTTTAA
*
750487 TATTTAATT-TAT
1 TATTTAATTAAAT
750499 T-TTTAATTAAAT
1 TATTTAATTAAAT
*
750511 TATTTAATTCAAT
1 TATTTAATTAAAT
*
750524 TGATTAAATTAAA
1 T-ATTTAATTAAA
750537 AAATTTACTG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 7 0.23
12 4 0.13
13 11 0.35
14 9 0.29
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (13 bp):
TATTTAATTAAAT
Found at i:752335 original size:14 final size:13
Alignment explanation
Indices: 752318--752373 Score: 53
Period size: 14 Copynumber: 4.2 Consensus size: 13
752308 ATTTAATTAA
752318 TTTATATAATTATT
1 TTTA-ATAATTATT
*
752332 TTTAAAAATTATT
1 TTTAATAATTATT
752345 ATTTAA-AACTTAATT
1 -TTTAATAA-TT-ATT
752360 TTT-ATAATTATT
1 TTTAATAATTATT
752372 TT
1 TT
752374 ATTTATTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
12 5 0.14
13 13 0.35
14 16 0.43
15 3 0.08
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (13 bp):
TTTAATAATTATT
Found at i:752341 original size:13 final size:13
Alignment explanation
Indices: 752325--752373 Score: 55
Period size: 14 Copynumber: 3.7 Consensus size: 13
752315 TAATTTATAT
752325 AATTATTTTTAAA
1 AATTATTTTTAAA
752338 AATTATTATTTAAA
1 AATTATT-TTTAAA
* *
752352 ACTTAATTTTT-AT
1 AATT-ATTTTTAAA
752365 AATTATTTT
1 AATTATTTT
752374 ATTTATTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
12 5 0.16
13 11 0.35
14 12 0.39
15 3 0.10
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (13 bp):
AATTATTTTTAAA
Found at i:753292 original size:24 final size:24
Alignment explanation
Indices: 753264--753309 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
753254 ACACGATACC
*
753264 AATATACGAACCGTAAAATCTACG
1 AATATACGAACCATAAAATCTACG
753288 AATATACGAACCATAAAATCTA
1 AATATACGAACCATAAAATCTA
753310 GTAGCAATGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.50, C:0.20, G:0.09, T:0.22
Consensus pattern (24 bp):
AATATACGAACCATAAAATCTACG
Found at i:757000 original size:2 final size:2
Alignment explanation
Indices: 756993--757027 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
756983 AGTGGATAGT
756993 GA GA GA GA GA -A GA GA GA GA GA GA GA GA GA GA -A GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
757028 CAGTCAAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
GA
Found at i:757350 original size:42 final size:43
Alignment explanation
Indices: 757304--757390 Score: 108
Period size: 42 Copynumber: 2.0 Consensus size: 43
757294 TATAGATATT
757304 TTAACACAAATATCTTT-G-ACATAAGTA-TTTTAATATAAGTAC
1 TTAACACAAATATCTTTAGTAC--AAGTACTTTTAATATAAGTAC
** *
757346 TTAACACATGTATCTTTAGTACAAGTACTTTTAATATAGGTAC
1 TTAACACAAATATCTTTAGTACAAGTACTTTTAATATAAGTAC
757389 TT
1 TT
757391 TTGACACAGG
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
42 20 0.51
43 17 0.44
44 2 0.05
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (43 bp):
TTAACACAAATATCTTTAGTACAAGTACTTTTAATATAAGTAC
Found at i:757388 original size:15 final size:15
Alignment explanation
Indices: 757370--757412 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
757360 TTTAGTACAA
* *
757370 GTACTTTTAATATAG
1 GTACTTTTAACACAG
*
757385 GTACTTTTGACACAG
1 GTACTTTTAACACAG
757400 GTAC-TTTAACACA
1 GTACTTTTAACACA
757413 AATATTTGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 8 0.33
15 16 0.67
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (15 bp):
GTACTTTTAACACAG
Found at i:757426 original size:42 final size:43
Alignment explanation
Indices: 757379--757468 Score: 112
Period size: 42 Copynumber: 2.1 Consensus size: 43
757369 AGTACTTTTA
* *
757379 ATATAGGTACTTTTGACACAGGTAC-TTTAACACAAATA-TTTG
1 ATATAGATAC-TTTGACACAAGTACTTTTAACACAAATACTTTG
* * *
757421 ATATAGATACTTTGACATAAGTACTTTTGACACAGATACTTTG
1 ATATAGATACTTTGACACAAGTACTTTTAACACAAATACTTTG
757464 ATATA
1 ATATA
757469 AGTATCTGGC
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
41 12 0.29
42 20 0.49
43 9 0.22
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (43 bp):
ATATAGATACTTTGACACAAGTACTTTTAACACAAATACTTTG
Found at i:757457 original size:29 final size:29
Alignment explanation
Indices: 757385--757472 Score: 99
Period size: 29 Copynumber: 3.1 Consensus size: 29
757375 TTTAATATAG
* * *
757385 GTACTTTTGACACAGGTACTTTAACACAA
1 GTACTTTTGACACAGATACTTTGACATAA
* * *
757414 ATA--TTTGATATAGATACTTTGACATAA
1 GTACTTTTGACACAGATACTTTGACATAA
*
757441 GTACTTTTGACACAGATACTTTGATATAA
1 GTACTTTTGACACAGATACTTTGACATAA
757470 GTA
1 GTA
757473 TCTGGCATAA
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
27 21 0.45
29 26 0.55
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (29 bp):
GTACTTTTGACACAGATACTTTGACATAA
Found at i:760052 original size:117 final size:117
Alignment explanation
Indices: 759714--760108 Score: 585
Period size: 117 Copynumber: 3.4 Consensus size: 117
759704 CAGGCCACAA
* * ** * ** *
759714 CTATAATCGTTCATATATTGGCCTAAGTCATTTATTCGAAGAAGGTTGAATAATCTACTTCATTT
1 CTATAATAGCTCATATATTGGCCTAAGTCATTTATTTAAAAAAAATTGAATAATCTGCTTCATTT
* * *
759779 ATGGTTGAGATACAATCTCCCTAATGAAGTGGATAGTTTCCTTTGGCCGCGG
66 AAGGTTGAGATACAATCTCCCTAATGAAGTGGATAGTTCCCTTTGGCCGCAG
* * *
759831 CTATAATCA-CTCATATATTGGCCTAAGTCATTTATTCGAAAAAATATTGAATAATCTGCTTTAT
1 CTATAAT-AGCTCATATATTGGCCTAAGTCATTTATT-TAAAAAAAATTGAATAATCTGCTTCAT
*
759895 TTAAGGTTGAGATACAATCTCCCTAATGAAGTGGATAGTTCCCTTTGGTCGCAG
64 TTAAGGTTGAGATACAATCTCCCTAATGAAGTGGATAGTTCCCTTTGGCCGCAG
759949 CTATAATAGCTCATATATTGGCCTAAGTCATTTATTTAAAAAAAATTGAATAATCTGCTTCATTT
1 CTATAATAGCTCATATATTGGCCTAAGTCATTTATTTAAAAAAAATTGAATAATCTGCTTCATTT
*
760014 AAGGTTGAGATACAATCTCCCTAATGAAGTGGATAGTTCCCTTTGGCCGCAA
66 AAGGTTGAGATACAATCTCCCTAATGAAGTGGATAGTTCCCTTTGGCCGCAG
* * * *
760066 CTATAATCGCTCATACATTAGCCTAAGTCACTTATTTAAAAAA
1 CTATAATAGCTCATATATTGGCCTAAGTCATTTATTTAAAAAA
760109 GGGGTTGAAT
Statistics
Matches: 253, Mismatches: 22, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
117 149 0.59
118 104 0.41
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (117 bp):
CTATAATAGCTCATATATTGGCCTAAGTCATTTATTTAAAAAAAATTGAATAATCTGCTTCATTT
AAGGTTGAGATACAATCTCCCTAATGAAGTGGATAGTTCCCTTTGGCCGCAG
Found at i:761091 original size:24 final size:24
Alignment explanation
Indices: 761041--761140 Score: 92
Period size: 24 Copynumber: 4.2 Consensus size: 24
761031 ATGTTCCATA
* * *
761041 AGTCATGCCAAATGATGTTCCATG
1 AGTCATGCCAAAAGATGTTTCAGG
* *
761065 AGTCATGCTAAAAGATGTTTTAGG
1 AGTCATGCCAAAAGATGTTTCAGG
* * *
761089 AGTCATGCTAAAGGTTGTTTCAGG
1 AGTCATGCCAAAAGATGTTTCAGG
* * * *
761113 AATCGTGCCAAAAGATGTTCCAAG
1 AGTCATGCCAAAAGATGTTTCAGG
761137 AGTC
1 AGTC
761141 GTGTCAAATG
Statistics
Matches: 60, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 60 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (24 bp):
AGTCATGCCAAAAGATGTTTCAGG
Found at i:761143 original size:24 final size:24
Alignment explanation
Indices: 761026--761140 Score: 88
Period size: 24 Copynumber: 4.8 Consensus size: 24
761016 AAACTAATCC
761026 AAAGTATGTTCCATA-AGTCATGCCA
1 AAAG-ATGTTCCA-AGAGTCATGCCA
* * *
761051 AATGATGTTCCATGAGTCATGCTA
1 AAAGATGTTCCAAGAGTCATGCCA
** * *
761075 AAAGATGTTTTAGGAGTCATGCTA
1 AAAGATGTTCCAAGAGTCATGCCA
* * * * * *
761099 AAGGTTGTTTCAGGAATCGTGCCA
1 AAAGATGTTCCAAGAGTCATGCCA
761123 AAAGATGTTCCAAGAGTC
1 AAAGATGTTCCAAGAGTC
761141 GTGTCAAATG
Statistics
Matches: 71, Mismatches: 18, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
24 68 0.96
25 3 0.04
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.30
Consensus pattern (24 bp):
AAAGATGTTCCAAGAGTCATGCCA
Found at i:762781 original size:19 final size:19
Alignment explanation
Indices: 762759--762797 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
762749 TGCACAGTAA
*
762759 CCGTATGTGTGAACAGTGC
1 CCGTATATGTGAACAGTGC
762778 CCGTATATGTGAACAGTGC
1 CCGTATATGTGAACAGTGC
762797 C
1 C
762798 TCGACAACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (19 bp):
CCGTATATGTGAACAGTGC
Found at i:763113 original size:50 final size:50
Alignment explanation
Indices: 763029--763153 Score: 169
Period size: 50 Copynumber: 2.5 Consensus size: 50
763019 CCATGCTTAA
*
763029 GTTGCTGAAGAATAGTCAACAATTACAACCACCTCTCTCGATTGTCAAAG
1 GTTGGTGAAGAATAGTCAACAATTACAACCACCTCTCTCGATTGTCAAAG
****
763079 GTTGGTGAAGAATAGTCAACAATTACCGTTACCTCTCTCGATTGTCAAAG
1 GTTGGTGAAGAATAGTCAACAATTACAACCACCTCTCTCGATTGTCAAAG
* * * *
763129 GTTGGTAAAAAATAATTAACAATTA
1 GTTGGTGAAGAATAGTCAACAATTA
763154 GTTTTGGTGA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 66 1.00
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (50 bp):
GTTGGTGAAGAATAGTCAACAATTACAACCACCTCTCTCGATTGTCAAAG
Found at i:764618 original size:22 final size:21
Alignment explanation
Indices: 764572--764626 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
764562 GAATTTATTT
* *
764572 TAAAATAATATTATAATTAAT
1 TAAAATAATATAATAATTAAA
764593 TAAAATAAATATCAATAA-TAAA
1 TAAAAT-AATAT-AATAATTAAA
764615 TAAAA-AATATAA
1 TAAAATAATATAA
764627 AAAAATTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
19 2 0.07
20 5 0.17
21 6 0.20
22 13 0.43
23 4 0.13
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
TAAAATAATATAATAATTAAA
Found at i:764628 original size:31 final size:32
Alignment explanation
Indices: 764593--764652 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
764583 TATAATTAAT
*
764593 TAAAATAAA-TATCAATAAT-AAATAAAAAATA
1 TAAAA-AAATTATAAATAATAAAATAAAAAATA
*
764624 TAAAAAAATTATAAATTATAAAATAAAAA
1 TAAAAAAATTATAAATAATAAAATAAAAA
764653 TGTGACTCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 3 0.12
31 13 0.52
32 9 0.36
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.27
Consensus pattern (32 bp):
TAAAAAAATTATAAATAATAAAATAAAAAATA
Found at i:765425 original size:16 final size:16
Alignment explanation
Indices: 765404--765435 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
765394 AGGTACATAC
*
765404 ATACATATATATATAT
1 ATACATACATATATAT
765420 ATACATACATATATAT
1 ATACATACATATATAT
765436 CACTTTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (16 bp):
ATACATACATATATAT
Found at i:766079 original size:2 final size:2
Alignment explanation
Indices: 766072--766105 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
766062 ATCCACTTAC
766072 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
766106 TTGCTCCTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:766173 original size:16 final size:15
Alignment explanation
Indices: 766150--766192 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
766140 ATTATTGGAG
766150 TTTTTATTTTTCTTT
1 TTTTTATTTTTCTTT
*
766165 TTCTTTATTTTCCTTT
1 TT-TTTATTTTTCTTT
*
766181 TTTTTAATTTTC
1 TTTTTATTTTTC
766193 ATTGTAGGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTATTTTTCTTT
Found at i:775276 original size:25 final size:26
Alignment explanation
Indices: 775240--775297 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
775230 TGATATTTTA
775240 ATTT-TTATTAAT-AATTATAATTAAT
1 ATTTATTATTAATAAATTATAA-TAAT
*
775265 ATTTATTA-TAATAAATTTTAATAAT
1 ATTTATTATTAATAAATTATAATAAT
775290 ATTTATTA
1 ATTTATTA
775298 AATTTATAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 20 0.67
26 10 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
ATTTATTATTAATAAATTATAATAAT
Found at i:775673 original size:21 final size:22
Alignment explanation
Indices: 775649--775689 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
775639 ATAGATTAAT
775649 AAAAATTA-TAAATTTAAATAA
1 AAAAATTATTAAATTTAAATAA
* *
775670 AAAATTTATTAATTTTAAAT
1 AAAAATTATTAAATTTAAAT
775690 TCTTTTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAAATTATTAAATTTAAATAA
Found at i:775853 original size:105 final size:102
Alignment explanation
Indices: 775610--775847 Score: 253
Period size: 105 Copynumber: 2.3 Consensus size: 102
775600 TGATAATTAT
* * *
775610 TTTTAAATATTTAGTTTATTTAAATTTAAATAGATTAATAAAAATTATAAATTTAAATAAAAAAT
1 TTTTAAA-ATTTA-TTAATTTAAATTTAAATAAATTAATAAAAATTACAAATTTAAATAAAAAAT
* *** ** * * **
775675 TTATTAATTTTAAATTCTTTTAATATTTTGTGGATTTTA
64 TTATTAATTTTAAAATAGATTAATATCATGTAGACTCCA
* * * *
775714 TTTTACAGAGTTTTTTAATTTAAATTTAAATAAATTAAT-AAAATTACATATTTGAATAGAAAAT
1 TTTTA-A-AATTTATTAATTTAAATTTAAATAAATTAATAAAAATTACAAATTTAAATA-AAAA-
*
775778 TTTTATTAATTTTAAAATAGATTAATATCATGTAGACTCCA
62 ATTTATTAATTTTAAAATAGATTAATATCATGTAGACTCCA
775819 TTTTAAAATTTATTAATTTAAATTTAAAT
1 TTTTAAAATTTATTAATTTAAATTTAAAT
775848 TTAAATACAT
Statistics
Matches: 110, Mismatches: 20, Indels: 9
0.79 0.14 0.06
Matches are distributed among these distances:
103 37 0.34
104 33 0.30
105 39 0.35
106 1 0.01
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (102 bp):
TTTTAAAATTTATTAATTTAAATTTAAATAAATTAATAAAAATTACAAATTTAAATAAAAAATTT
ATTAATTTTAAAATAGATTAATATCATGTAGACTCCA
Found at i:775859 original size:26 final size:28
Alignment explanation
Indices: 775830--775890 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 28
775820 TTTAAAATTT
775830 ATTAATTTAAA-TTTAAATTTAAATA-C
1 ATTAATTTAAATTTTAAATTTAAATATC
* * *
775856 ATTAA-TAAAATTTTATATTTAAATATT
1 ATTAATTTAAATTTTAAATTTAAATATC
775883 ATTAATTT
1 ATTAATTT
775891 TAAAATAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
25 4 0.14
26 18 0.64
27 5 0.18
28 1 0.04
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (28 bp):
ATTAATTTAAATTTTAAATTTAAATATC
Found at i:777581 original size:26 final size:25
Alignment explanation
Indices: 777539--777587 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
777529 GAAATAAATT
*
777539 GTATAATTTTAAATATTTAATATCA
1 GTATAATTTTAAATATTAAATATCA
* *
777564 GTATAATATTTTAGTATTAAATAT
1 GTATAAT-TTTAAATATTAAATAT
777588 TATTATTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 7 0.35
26 13 0.65
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (25 bp):
GTATAATTTTAAATATTAAATATCA
Found at i:777616 original size:15 final size:15
Alignment explanation
Indices: 777582--777640 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 15
777572 TTTTAGTATT
*
777582 AAATATTATTA-TTA
1 AAATATTAATATTTA
* *
777596 AAATATTACTATTTG
1 AAATATTAATATTTA
777611 AAATATTAATA-TTA
1 AAATATTAATATTTA
777625 AAA-ATTAATAGTTTA
1 AAATATTAATA-TTTA
777640 A
1 A
777641 TGATCAATAG
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
13 7 0.18
14 15 0.39
15 16 0.42
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (15 bp):
AAATATTAATATTTA
Found at i:777633 original size:13 final size:13
Alignment explanation
Indices: 777578--777634 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
777568 AATATTTTAG
* *
777578 TATTAAATATTAT
1 TATTAAAAATTAA
*
777591 TATTAAAATATTAC
1 TATTAAAA-ATTAA
*
777605 TATTTGAAATATTAA
1 TA-TT-AAAAATTAA
777620 TATTAAAAATTAA
1 TATTAAAAATTAA
777633 TA
1 TA
777635 GTTTAATGAT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
13 17 0.47
14 8 0.22
15 8 0.22
16 3 0.08
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (13 bp):
TATTAAAAATTAA
Found at i:777779 original size:228 final size:226
Alignment explanation
Indices: 777522--777970 Score: 760
Period size: 228 Copynumber: 2.0 Consensus size: 226
777512 TTGATATTCG
* * *
777522 ATATTTTGAAATAAATTGTATAATTTTAAATATTTAATATCAGTATAATATTTTAGTATTAAATA
1 ATATTTTAAAATAAATTGTATAATTTTAAATATTTAATATCAATATAATATATTAGTATTAAATA
*
777587 TTATTAT-TAAAATATTACTATTTGAAATATTAATATTAAAAATTAATAGTTTAATGATCAATAG
66 TTATTATCT-AAATATTACTATTTGAAATATTAATATTAAAAATTAATAGTTTAATGATAAATAG
* *
777651 -TTTTAATA-TTTTTATAGTTAATATTCTAATATTTATGTTAGTACTATTATTTGAAAAATAATA
130 TTTTTAATATTTTTTACAATTAATATT-TAATATTTATGTTAGTACTATTATTTGAAAAATAAT-
777714 AAATAATATATATTAAATATTAATTAAATTATTATA
193 AAA-AA-ATATATTAAATATTAATTAAATTATTATA
777750 ATATTTTAAAATAAATTGTATAATTTTAAATATTTAATATCAATATAATATATTAGTATTAAATA
1 ATATTTTAAAATAAATTGTATAATTTTAAATATTTAATATCAATATAATATATTAGTATTAAATA
*
777815 TTATTATCTAGATATTACTATTTGAAATATTAATATTAAAAATTAATAGTTTAATGATAAATAGT
66 TTATTATCTAAATATTACTATTTGAAATATTAATATTAAAAATTAATAGTTTAATGATAAATAGT
777880 TTTTAATATTTTTTACAATTAATATTTAATATTTATGTTAGTACTATTATTTGAAAAATAATAAA
131 TTTTAATATTTTTTACAATTAATATTTAATATTTATGTTAGTACTATTATTTGAAAAATAATAAA
*
777945 AAATATATTAAATATTAATTTAATTA
196 AAATATATTAAATATTAATTAAATTA
777971 ATATTTTAAT
Statistics
Matches: 210, Mismatches: 8, Indels: 8
0.93 0.04 0.04
Matches are distributed among these distances:
226 23 0.11
227 2 0.01
228 125 0.60
229 45 0.21
230 15 0.07
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (226 bp):
ATATTTTAAAATAAATTGTATAATTTTAAATATTTAATATCAATATAATATATTAGTATTAAATA
TTATTATCTAAATATTACTATTTGAAATATTAATATTAAAAATTAATAGTTTAATGATAAATAGT
TTTTAATATTTTTTACAATTAATATTTAATATTTATGTTAGTACTATTATTTGAAAAATAATAAA
AAATATATTAAATATTAATTAAATTATTATA
Found at i:777815 original size:13 final size:13
Alignment explanation
Indices: 777778--777862 Score: 64
Period size: 13 Copynumber: 6.3 Consensus size: 13
777768 TATAATTTTA
* *
777778 AATATTTAATATC
1 AATATTAAATATT
777791 AATA-TAATATATT
1 AATATTAA-ATATT
*
777804 AGTATTAAATATT
1 AATATTAAATATT
* *
777817 ATTATCTAGATATT
1 AATAT-TAAATATT
*
777831 ACTATTTGAAATATT
1 AATA-TT-AAATATT
*
777846 AATATTAAAAATT
1 AATATTAAATATT
777859 AATA
1 AATA
777863 GTTTAATGAT
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
12 2 0.03
13 30 0.52
14 16 0.28
15 10 0.17
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.45
Consensus pattern (13 bp):
AATATTAAATATT
Found at i:777975 original size:15 final size:15
Alignment explanation
Indices: 777955--778011 Score: 60
Period size: 15 Copynumber: 3.6 Consensus size: 15
777945 AAATATATTA
*
777955 AATATTAATTTAATT
1 AATATTAATTTAAAT
*
777970 AATATTTTAATAATAAAT
1 AATA--TTAAT-TTAAAT
*
777988 AATATTATTTTAAAT
1 AATATTAATTTAAAT
778003 AATATTAAT
1 AATATTAAT
778012 ATAACATTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
15 17 0.50
16 4 0.12
17 5 0.15
18 8 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AATATTAATTTAAAT
Found at i:778090 original size:25 final size:23
Alignment explanation
Indices: 778062--778118 Score: 87
Period size: 25 Copynumber: 2.4 Consensus size: 23
778052 TTTTAAACTA
778062 TTAATATTTTAATAATAAATAATTT
1 TTAATATTTTAATAATAAATAA--T
*
778087 TTAATATTTTAATAATCAATAAT
1 TTAATATTTTAATAATAAATAAT
778110 TTAATATTT
1 TTAATATTT
778119 ATATAAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 10 0.32
25 21 0.68
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
TTAATATTTTAATAATAAATAAT
Found at i:778144 original size:20 final size:20
Alignment explanation
Indices: 778121--778163 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
778111 TAATATTTAT
778121 ATAAAT-ATAATTATTTGAAA
1 ATAAATAAT-ATTATTTGAAA
*
778141 AT-AATAATATTTTTTGAAA
1 ATAAATAATATTATTTGAAA
778160 ATAA
1 ATAA
778164 TCAAACATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (20 bp):
ATAAATAATATTATTTGAAA
Found at i:778296 original size:2 final size:2
Alignment explanation
Indices: 778289--778316 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
778279 CAAATCCTAA
778289 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
778317 CATCCTCTTT
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:782003 original size:22 final size:22
Alignment explanation
Indices: 781978--782024 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
781968 TACTAGGTTT
781978 AGGGGTTTATCAAATGGTTGAA
1 AGGGGTTTATCAAATGGTTGAA
782000 AGGGGTTTATCAAATGGTTGAA
1 AGGGGTTTATCAAATGGTTGAA
782022 AGG
1 AGG
782025 ATTCACGCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.32, C:0.04, G:0.34, T:0.30
Consensus pattern (22 bp):
AGGGGTTTATCAAATGGTTGAA
Found at i:783114 original size:3 final size:3
Alignment explanation
Indices: 783108--783188 Score: 72
Period size: 3 Copynumber: 27.0 Consensus size: 3
783098 GGGAAAAGAA
* * * * * *
783108 GAT GAT GAC GAC GAT GAT GAT GAT CAA GAT GAT GAT GAT GAC GAC GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* * * *
783156 GAC GAC GAT GAT GAT GAT GGT GGT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
783189 TAACTAAAAA
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.32, C:0.09, G:0.35, T:0.25
Consensus pattern (3 bp):
GAT
Found at i:783917 original size:12 final size:12
Alignment explanation
Indices: 783894--783935 Score: 52
Period size: 11 Copynumber: 3.5 Consensus size: 12
783884 AACAGTAGAA
783894 TATAAA-AATAT
1 TATAAATAATAT
783905 TATAAATAATAT
1 TATAAATAATAT
783917 TAATAAAATAATA-
1 T-AT-AAATAATAT
783930 TATAAA
1 TATAAA
783936 ATATATTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 9 0.32
12 8 0.29
13 3 0.11
14 8 0.29
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
TATAAATAATAT
Found at i:783927 original size:14 final size:13
Alignment explanation
Indices: 783900--783952 Score: 60
Period size: 12 Copynumber: 4.3 Consensus size: 13
783890 AGAATATAAA
783900 AATATTAT-AAAT
1 AATATTATAAAAT
783912 AATATTAATAAAAT
1 AATATT-ATAAAAT
783926 AATA-TATAAAAT
1 AATATTATAAAAT
*
783938 -ATATTTTAAAA-
1 AATATTATAAAAT
783949 AATA
1 AATA
783953 AATAAATCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
11 3 0.08
12 22 0.61
13 3 0.08
14 8 0.22
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AATATTATAAAAT
Found at i:783937 original size:26 final size:27
Alignment explanation
Indices: 783892--783953 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 27
783882 TCAACAGTAG
783892 AATATAAA-AATATTATAAATA-ATATT
1 AATA-AAATAATATTATAAATATATATT
*
783918 AATAAAATAATA-TATAAAATATATTTT
1 AATAAAATAATATTAT-AAATATATATT
783945 AA-AAAATAA
1 AATAAAATAA
783954 ATAAATCAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
25 6 0.19
26 20 0.62
27 6 0.19
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (27 bp):
AATAAAATAATATTATAAATATATATT
Found at i:784414 original size:32 final size:28
Alignment explanation
Indices: 784347--784424 Score: 79
Period size: 32 Copynumber: 2.7 Consensus size: 28
784337 TATTATAGAT
784347 ATATTTTTATA--TTATAATTTTATATA
1 ATATTTTTATATTTTATAATTTTATATA
* *
784373 AAATATTTATATTTATATAATTATATATATTA
1 ATATTTTTATATTT-TATAATT-T-TATA-TA
784405 ATATTTTTATATTTTTATAA
1 ATATTTTTATA-TTTTATAA
784425 AATTTAATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
26 9 0.22
28 1 0.02
29 7 0.17
30 1 0.02
31 4 0.10
32 16 0.39
33 3 0.07
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (28 bp):
ATATTTTTATATTTTATAATTTTATATA
Found at i:784422 original size:26 final size:26
Alignment explanation
Indices: 784380--784440 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
784370 ATAAAATATT
*
784380 TATATTTATATAATTAT-ATATATTAA
1 TATATTTATATAATTATAAAAT-TTAA
* **
784406 TATTTTTATATTTTTATAAAATTTAA
1 TATATTTATATAATTATAAAATTTAA
784432 TATATTTAT
1 TATATTTAT
784441 TTTATTTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
26 26 0.90
27 3 0.10
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (26 bp):
TATATTTATATAATTATAAAATTTAA
Found at i:784469 original size:29 final size:30
Alignment explanation
Indices: 784398--784469 Score: 87
Period size: 29 Copynumber: 2.4 Consensus size: 30
784388 TATAATTATA
*
784398 TATATTAATATT-TTTATATTTTTATAAAAT
1 TATATT-ATATTATTTATATTTTTAAAAAAT
*
784428 T-TAATATATTTATTT-TATTTTTAAAAAAT
1 TATATTATA-TTATTTATATTTTTAAAAAAT
784457 TATATTATATTAT
1 TATATTATATTAT
784470 AAATTATTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
28 3 0.08
29 23 0.64
30 10 0.28
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (30 bp):
TATATTATATTATTTATATTTTTAAAAAAT
Found at i:784475 original size:17 final size:17
Alignment explanation
Indices: 784453--784500 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
784443 TATTTTTAAA
784453 AAATTATATTATATTAT
1 AAATTATATTATATTAT
784470 AAATTAT-TTCATATTAT
1 AAATTATATT-ATATTAT
*
784487 -ATTTATTATTATAT
1 AAATTA-TATTATAT
784501 AATCAAATCT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 6 0.22
17 19 0.70
18 2 0.07
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (17 bp):
AAATTATATTATATTAT
Found at i:784790 original size:53 final size:53
Alignment explanation
Indices: 784748--784858 Score: 136
Period size: 53 Copynumber: 2.1 Consensus size: 53
784738 TTTATTAATT
* *
784748 TAAATTAATATTAAATAATAAAAAT-TATTTTTTATTTTAATTTAATTATAAAAA
1 TAAATAAATATT-AAT-ATAAAAATAAATTTTTTATTTTAATTTAATTATAAAAA
* * *
784802 TATATAAATATTAATATAAAAATAAATTTTTTATTTTTA-TTAATTATGAATAA
1 TAAATAAATATTAATATAAAAATAAATTTTTTATTTTAATTTAATTAT-AAAAA
784855 TAAA
1 TAAA
784859 ACAGATAATA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
52 16 0.33
53 23 0.47
54 10 0.20
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (53 bp):
TAAATAAATATTAATATAAAAATAAATTTTTTATTTTAATTTAATTATAAAAA
Found at i:784809 original size:40 final size:40
Alignment explanation
Indices: 784734--784814 Score: 96
Period size: 40 Copynumber: 2.0 Consensus size: 40
784724 TTTTAAATAA
*
784734 ATTTTTTATTAATTTAAATTAATATTAAATAATAAAAATT
1 ATTTTTTATTAATTTAAATTAATATAAAATAATAAAAATT
*
784774 ATTTTTTATTTTAATTT-AATT-ATA-AAAATATATAAATATT
1 ATTTTTTA--TTAATTTAAATTAATATAAAATA-ATAAAAATT
784814 A
1 A
784815 ATATAAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
39 5 0.14
40 20 0.56
41 4 0.11
42 7 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (40 bp):
ATTTTTTATTAATTTAAATTAATATAAAATAATAAAAATT
Found at i:785067 original size:18 final size:17
Alignment explanation
Indices: 785005--785068 Score: 57
Period size: 18 Copynumber: 4.0 Consensus size: 17
784995 TTTATGTCAA
*
785005 TAAATA-AATATAATTA
1 TAAATATAATATAATTT
785021 T-AATATAA-AT--TTT
1 TAAATATAATATAATTT
* *
785034 TAAATATATTAAAATTT
1 TAAATATAATATAATTT
785051 TAAATAATAATATAATTT
1 TAAAT-ATAATATAATTT
785069 ATATATTAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
13 3 0.08
14 6 0.16
15 7 0.19
16 3 0.08
17 8 0.22
18 10 0.27
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAATATAATATAATTT
Found at i:786001 original size:13 final size:13
Alignment explanation
Indices: 785983--786044 Score: 65
Period size: 13 Copynumber: 4.8 Consensus size: 13
785973 AATTTTGATT
785983 ATATTTATTATTA
1 ATATTTATTATTA
*
785996 ATATTTATAATTA
1 ATATTTATTATTA
*
786009 ATATTTATT-GTA
1 ATATTTATTATTA
* *
786021 ATTAATTA-TAATA
1 A-TATTTATTATTA
786034 ATATTTATTAT
1 ATATTTATTAT
786045 ATTTATAATT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
12 9 0.23
13 30 0.77
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (13 bp):
ATATTTATTATTA
Found at i:786008 original size:25 final size:26
Alignment explanation
Indices: 785961--786044 Score: 82
Period size: 26 Copynumber: 3.3 Consensus size: 26
785951 AATAAGATTA
* * * *
785961 TTATTATTTACTAATTTTGATTATAT
1 TTATTATTAATTAATTATAATTATAT
*
785987 TTATTATTAA-TATTTATAATTAATAT
1 TTATTATTAATTAATTATAATT-ATAT
* *
786013 TTATT-GTAATTAATTATAATAATAT
1 TTATTATTAATTAATTATAATTATAT
786038 TTATTAT
1 TTATTAT
786045 ATTTATAATT
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
25 20 0.43
26 27 0.57
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.58
Consensus pattern (26 bp):
TTATTATTAATTAATTATAATTATAT
Found at i:786012 original size:26 final size:26
Alignment explanation
Indices: 785983--786044 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
785973 AATTTTGATT
*
785983 ATATTTATTATTAA-TATTTATAATTA
1 ATATTTATTATTAATTAATTATAA-TA
*
786009 ATATTTATT-GTAATTAATTATAATA
1 ATATTTATTATTAATTAATTATAATA
786034 ATATTTATTAT
1 ATATTTATTAT
786045 ATTTATAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
25 14 0.45
26 17 0.55
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (26 bp):
ATATTTATTATTAATTAATTATAATA
Found at i:786063 original size:29 final size:28
Alignment explanation
Indices: 785958--786064 Score: 84
Period size: 25 Copynumber: 3.9 Consensus size: 28
785948 TTTAATAAGA
*
785958 TTATTATTATTTACTAATTTTGATT-ATAT
1 TTATTA-TATTTA-TAATTTTAATTAATAT
*
785987 TTA-T-TATTAAT-ATTTATAATTAATAT
1 TTATTATATTTATAATTT-TAATTAATAT
* * *
786013 TTATTGTA-AT-TAATTATAA-TAATAT
1 TTATTATATTTATAATTTTAATTAATAT
786038 TTATTATATTTATAATTTTAATATAAT
1 TTATTATATTTATAATTTTAAT-TAAT
786065 TTAATTAAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 18
0.70 0.09 0.21
Matches are distributed among these distances:
24 4 0.07
25 18 0.30
26 17 0.28
27 12 0.20
28 3 0.05
29 7 0.11
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.58
Consensus pattern (28 bp):
TTATTATATTTATAATTTTAATTAATAT
Found at i:786394 original size:23 final size:22
Alignment explanation
Indices: 786367--786421 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 22
786357 TTATAATTAT
786367 AAAATTAAATAATATTATT-ATAA
1 AAAATTAAATAA-ATT-TTAATAA
*
786390 TAAATTATAATAAATTTTAATAA
1 AAAATTA-AATAAATTTTAATAA
786413 AAAATTAAA
1 AAAATTAAA
786422 ACATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 4 0.14
23 19 0.68
24 5 0.18
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
AAAATTAAATAAATTTTAATAA
Found at i:786883 original size:31 final size:31
Alignment explanation
Indices: 786848--786908 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
786838 ACATTAAATT
*
786848 TACTGAATTTTATTTTTTAAAACTTTGAGTC
1 TACTGAATATTATTTTTTAAAACTTTGAGTC
786879 TACTGAATATTATTTTTTAAAACTTTGAGT
1 TACTGAATATTATTTTTTAAAACTTTGAGT
786909 TTGATAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.31, C:0.08, G:0.10, T:0.51
Consensus pattern (31 bp):
TACTGAATATTATTTTTTAAAACTTTGAGTC
Found at i:787837 original size:2 final size:2
Alignment explanation
Indices: 787832--787858 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
787822 GAAATATATA
787832 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
787859 CTATATATAT
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:788420 original size:26 final size:27
Alignment explanation
Indices: 788384--788440 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
788374 TATCTTTATT
* **
788384 TTTTAATACAAATGTATATTAC-ATAA
1 TTTTAAAACAAAAATATATTACGATAA
*
788410 TTTTAAAACAAAAATTTATTACGATAA
1 TTTTAAAACAAAAATATATTACGATAA
788437 TTTT
1 TTTT
788441 TTTTATTTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 18 0.69
27 8 0.31
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.44
Consensus pattern (27 bp):
TTTTAAAACAAAAATATATTACGATAA
Found at i:790819 original size:21 final size:22
Alignment explanation
Indices: 790787--790827 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
790777 ATAATATCTT
*
790787 ATTTATTATTATTATAATTATA
1 ATTTATTATTATTAAAATTATA
790809 ATTTA-TATTATTAAAATTA
1 ATTTATTATTATTAAAATTA
790828 ATTAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
ATTTATTATTATTAAAATTATA
Found at i:794064 original size:18 final size:15
Alignment explanation
Indices: 794030--794073 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 15
794020 AGATAAAATT
794030 TATATAAATATATAA
1 TATATAAATATATAA
794045 TATATTAAATATACATAA
1 TATA-TAAATAT--ATAA
*
794063 TATAAAAATAT
1 TATATAAATAT
794074 TTATTTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 4 0.16
16 7 0.28
17 6 0.24
18 8 0.32
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (15 bp):
TATATAAATATATAA
Found at i:794793 original size:17 final size:16
Alignment explanation
Indices: 794747--794796 Score: 91
Period size: 16 Copynumber: 3.1 Consensus size: 16
794737 AACTTTACGA
794747 ATTTTAAATTTAAATT
1 ATTTTAAATTTAAATT
794763 ATTTTAAATTTAAATT
1 ATTTTAAATTTAAATT
794779 ATTTTAAATTTTAAATT
1 ATTTTAAA-TTTAAATT
794796 A
1 A
794797 AATAGATTCG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
16 24 0.73
17 9 0.27
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTTTAAATTTAAATT
Found at i:794887 original size:23 final size:23
Alignment explanation
Indices: 794854--794897 Score: 56
Period size: 21 Copynumber: 1.9 Consensus size: 23
794844 AAATTTTTGA
794854 TTTAAATAAATT-A-ATAATTTT
1 TTTAAATAAATTGATATAATTTT
794875 TTTAAATTCAAATTGATATAATT
1 TTTAAA-T-AAATTGATATAATT
794898 CAAAGCTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 6 0.32
22 1 0.05
23 5 0.26
24 1 0.05
25 6 0.32
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (23 bp):
TTTAAATAAATTGATATAATTTT
Found at i:795162 original size:2 final size:2
Alignment explanation
Indices: 795157--795216 Score: 57
Period size: 2 Copynumber: 30.0 Consensus size: 2
795147 AATATATGTG
* * * ** **
795157 TA TA TA TA TA TC TA TA TA TA TA TA TG TA TA TA AA GG GG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
795199 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
795217 AAGGGAAAAT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (2 bp):
TA
Found at i:796021 original size:23 final size:23
Alignment explanation
Indices: 795977--796021 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
795967 ATAAAATTAT
* *
795977 ATAAAAATTAAATTTGATATATA
1 ATAAAAATTAAATTAGAGATATA
796000 ATAATAAA-TAAATTAGAGATAT
1 ATAA-AAATTAAATTAGAGATAT
796022 TTAGAGCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.36
Consensus pattern (23 bp):
ATAAAAATTAAATTAGAGATATA
Found at i:796502 original size:11 final size:11
Alignment explanation
Indices: 796486--796511 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
796476 TTATACAAAC
796486 TTAATAAAAAA
1 TTAATAAAAAA
796497 TTAATAAAAAA
1 TTAATAAAAAA
796508 TTAA
1 TTAA
796512 ATTAAGTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
TTAATAAAAAA
Found at i:796636 original size:28 final size:28
Alignment explanation
Indices: 796592--796662 Score: 117
Period size: 28 Copynumber: 2.6 Consensus size: 28
796582 TTAAAATTAC
* *
796592 TCATTTTTTTAAAAAAAATATTAGTCTA
1 TCATTTTTTTAATAAAAATATCAGTCTA
796620 TCATTTTTTTAATAAAAATATCAGTCTA
1 TCATTTTTTTAATAAAAATATCAGTCTA
796648 TCA-TTTTTTAATAAA
1 TCATTTTTTTAATAAA
796663 TTATCACTCT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 12 0.29
28 29 0.71
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.48
Consensus pattern (28 bp):
TCATTTTTTTAATAAAAATATCAGTCTA
Found at i:804309 original size:12 final size:12
Alignment explanation
Indices: 804267--804309 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
804257 TTAAGCTTAA
804267 AATTTTTAACATTT
1 AATTTTT-A-ATTT
*
804281 ATTTTTTAATTT
1 AATTTTTAATTT
*
804293 GATTTTTAATTT
1 AATTTTTAATTT
804305 AATTT
1 AATTT
804310 GGTAGTTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 18 0.72
13 1 0.04
14 6 0.24
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (12 bp):
AATTTTTAATTT
Found at i:809223 original size:4 final size:4
Alignment explanation
Indices: 809214--809240 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
809204 ATAAACCCAA
809214 TGGC TGGC TGGC TGGC TGGC TGGC TGG
1 TGGC TGGC TGGC TGGC TGGC TGGC TGG
809241 GCTGCCTGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.22, G:0.52, T:0.26
Consensus pattern (4 bp):
TGGC
Found at i:809546 original size:23 final size:23
Alignment explanation
Indices: 809508--809560 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
809498 TTTAAATATT
809508 TTATTAAAAATAAAAAATTATAAA
1 TTATTAAAAATAAAAAATTA-AAA
* * *
809532 -TATTAAAATTTAAAATTTAAAA
1 TTATTAAAAATAAAAAATTAAAA
809554 TTATTAA
1 TTATTAA
809561 TTATTAACTG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 3 0.12
23 22 0.88
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
TTATTAAAAATAAAAAATTAAAA
Found at i:809562 original size:14 final size:14
Alignment explanation
Indices: 809521--809562 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
809511 TTAAAAATAA
809521 AAAATTATAAATATT
1 AAAATTATAAAT-TT
809536 AAAATT-TAAAATTT
1 AAAATTAT-AAATTT
*
809550 AAAATTATTAATT
1 AAAATTATAAATT
809563 ATTAACTGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AAAATTATAAATTT
Found at i:810282 original size:11 final size:12
Alignment explanation
Indices: 810266--810294 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
810256 TACAAATTTC
810266 TTTTTT-CTTTT
1 TTTTTTACTTTT
810277 TTTTTTACTTTT
1 TTTTTTACTTTT
810289 TTTTTT
1 TTTTTT
810295 TCAAATGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.03, C:0.07, G:0.00, T:0.90
Consensus pattern (12 bp):
TTTTTTACTTTT
Found at i:811349 original size:33 final size:34
Alignment explanation
Indices: 811312--811375 Score: 112
Period size: 33 Copynumber: 1.9 Consensus size: 34
811302 ATTAATTTAT
*
811312 GTGTTGATGATTGAGTTGTGAGT-ATTTTTTAAA
1 GTGTTGATAATTGAGTTGTGAGTAATTTTTTAAA
811345 GTGTTGATAATTGAGTTGTGAGTAATTTTTT
1 GTGTTGATAATTGAGTTGTGAGTAATTTTTT
811376 CTTCAAACTG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 22 0.76
34 7 0.24
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (34 bp):
GTGTTGATAATTGAGTTGTGAGTAATTTTTTAAA
Found at i:812242 original size:16 final size:16
Alignment explanation
Indices: 812217--812284 Score: 57
Period size: 16 Copynumber: 4.2 Consensus size: 16
812207 CCGAATAAAC
*
812217 TTAAACTTAAAAAAAT
1 TTAAATTTAAAAAAAT
*
812233 TTAAATTT-AAAAACT
1 TTAAATTTAAAAAAAT
* * *
812248 TTAAATTTTATATAAT
1 TTAAATTTAAAAAAAT
* *
812264 TTAAAATCTAAAATAAT
1 TT-AAATTTAAAAAAAT
812281 TTAA
1 TTAA
812285 CTGATCAAAC
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
15 14 0.33
16 15 0.36
17 13 0.31
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (16 bp):
TTAAATTTAAAAAAAT
Found at i:812250 original size:15 final size:15
Alignment explanation
Indices: 812213--812255 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
812203 ATATCCGAAT
*
812213 AAAC-TTAAACTTAAA
1 AAACTTTAAA-TTTAA
*
812228 AAAATTTAAATTTAA
1 AAACTTTAAATTTAA
812243 AAACTTTAAATTT
1 AAACTTTAAATTT
812256 TATATAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (15 bp):
AAACTTTAAATTTAA
Found at i:812789 original size:14 final size:14
Alignment explanation
Indices: 812770--812808 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
812760 AAAATTTTTA
812770 AAAATAATTAATTT
1 AAAATAATTAATTT
**
812784 AAAATAAAAAATTT
1 AAAATAATTAATTT
*
812798 TAAATAATTAA
1 AAAATAATTAA
812809 AAAATATCTA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AAAATAATTAATTT
Found at i:813483 original size:17 final size:18
Alignment explanation
Indices: 813449--813488 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
813439 AAAAATATAC
* *
813449 TATTATTTTATATCTAAA
1 TATTATTTTAAATATAAA
813467 TATT-TTTTAAATATAAA
1 TATTATTTTAAATATAAA
813484 TATTA
1 TATTA
813489 AACACAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (18 bp):
TATTATTTTAAATATAAA
Found at i:813931 original size:34 final size:34
Alignment explanation
Indices: 813878--814024 Score: 171
Period size: 34 Copynumber: 4.5 Consensus size: 34
813868 GGTGATTTGT
* * *
813878 CATTATTGACTAAATGAGAGATTTGATAGCTTAC
1 CATTGTTGATTAAATGAGAGATTTGGTAGCTTAC
813912 CATTGTTGATTAAATGAGAGATTTGGTAGCTTAC
1 CATTGTTGATTAAATGAGAGATTTGGTAGCTTAC
* * *
813946 CATTGTTGATTAAATG-GTGATTTGGTGGTTTAC
1 CATTGTTGATTAAATGAGAGATTTGGTAGCTTAC
* *
813979 CA---TTG-TTAAATGGGAGATTTGGTAGGC-TGC
1 CATTGTTGATTAAATGAGAGATTTGGTA-GCTTAC
814009 CATTGTTGATTAAATG
1 CATTGTTGATTAAATG
814025 GTAATTTTTA
Statistics
Matches: 97, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
29 7 0.07
30 16 0.16
31 1 0.01
33 19 0.20
34 54 0.56
ACGTcount: A:0.28, C:0.09, G:0.24, T:0.39
Consensus pattern (34 bp):
CATTGTTGATTAAATGAGAGATTTGGTAGCTTAC
Found at i:814389 original size:19 final size:19
Alignment explanation
Indices: 814333--814389 Score: 69
Period size: 19 Copynumber: 3.0 Consensus size: 19
814323 TGGTTATCGA
* **
814333 GGTACTATTTACGTATATA
1 GGTACTATTTAAGTATACG
* *
814352 GGTACTATTCATGTATACG
1 GGTACTATTTAAGTATACG
814371 GGTACTATTTAAGTATACG
1 GGTACTATTTAAGTATACG
814390 TTACTGTACA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (19 bp):
GGTACTATTTAAGTATACG
Found at i:818529 original size:34 final size:34
Alignment explanation
Indices: 818458--818681 Score: 265
Period size: 34 Copynumber: 6.7 Consensus size: 34
818448 AAGTGGGAGA
* *
818458 ATTGTTGATTAAAT-GATGATTTGGTAGTTTACT
1 ATTGTTGATTAAATGGGTGATTTGGTAGTTTACC
* **
818491 ATTGTTGATTAAATGGGTGATTTGGTGGTTTGTC
1 ATTGTTGATTAAATGGGTGATTTGGTAGTTTACC
* * * * **
818525 ATTGTTAACTAAATGAGAGATTTGGTAACTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGTTTACC
* *
818559 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGTTTACC
*
818593 ATTGTTGATTAAAT-GGTGATTTGGTGGTTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGTTTACC
* * * *
818626 ATTGTTGACTAAATGGGAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGGGTGATTTGGTAGTTTACC
818660 ATTGTTGATTAAAT-GGTGATTT
1 ATTGTTGATTAAATGGGTGATTT
818682 TTACCAAACC
Statistics
Matches: 161, Mismatches: 28, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
33 50 0.31
34 111 0.69
ACGTcount: A:0.25, C:0.06, G:0.26, T:0.42
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGTGATTTGGTAGTTTACC
Found at i:818612 original size:101 final size:103
Alignment explanation
Indices: 818458--818675 Score: 327
Period size: 101 Copynumber: 2.2 Consensus size: 103
818448 AAGTGGGAGA
* *
818458 ATTGTTGATTAAAT--GATGATTTGGTAGTTTACTATTGTTGATTAAATGGGTGATTTGGTGGTT
1 ATTGTTGATTAAATGGGATGATTTGGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGTT
**
818521 TGTCATTGTTAACTAAATGAGAGATTTGGTAACTTACC
66 TACCATTGTTAACTAAATGAGAGATTTGGTAACTTACC
818559 ATTGTTGATTAAATGGGA-GATTTGGTAGCTTACCATTGTTGATTAAAT-GGTGATTTGGTGGTT
1 ATTGTTGATTAAATGGGATGATTTGGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGTT
* * ** *
818622 TACCATTGTTGACTAAATGGGAGATTTGGTAGGTTGCC
66 TACCATTGTTAACTAAATGAGAGATTTGGTAACTTACC
818660 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
818676 TGATTTTTAC
Statistics
Matches: 106, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
101 76 0.72
102 28 0.26
103 2 0.02
ACGTcount: A:0.26, C:0.06, G:0.26, T:0.42
Consensus pattern (103 bp):
ATTGTTGATTAAATGGGATGATTTGGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGTT
TACCATTGTTAACTAAATGAGAGATTTGGTAACTTACC
Found at i:818643 original size:67 final size:67
Alignment explanation
Indices: 818458--818681 Score: 304
Period size: 67 Copynumber: 3.3 Consensus size: 67
818448 AAGTGGGAGA
* * * * *
818458 ATTGTTGATTAAATGATGATTTGGTAGTTTACTATTGTTGATTAAATGGGTGATTTGGTGGTTTG
1 ATTGTTGATTAAATGGTGATTTGGTAGTTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTG
*
818523 TC
66 CC
* * * **
818525 ATTGTTAACTAAATGAGAGATTTGGTAACTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTT
1 ATTGTTGATTAAATG-GTGATTTGGTAGTTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTT
*
818590 ACC
65 GCC
* * *
818593 ATTGTTGATTAAATGGTGATTTGGTGGTTTACCATTGTTGACTAAATGGGAGATTTGGTAGGTTG
1 ATTGTTGATTAAATGGTGATTTGGTAGTTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTG
818658 CC
66 CC
818660 ATTGTTGATTAAATGGTGATTT
1 ATTGTTGATTAAATGGTGATTT
818682 TTACCAAACC
Statistics
Matches: 135, Mismatches: 21, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
67 80 0.59
68 55 0.41
ACGTcount: A:0.25, C:0.06, G:0.26, T:0.42
Consensus pattern (67 bp):
ATTGTTGATTAAATGGTGATTTGGTAGTTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTG
CC
Found at i:819790 original size:15 final size:16
Alignment explanation
Indices: 819767--819802 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
819757 CATATTTTTA
819767 ATAAAAAAA-TTAAAT
1 ATAAAAAAATTTAAAT
*
819782 ATAATAAAATTTAAAT
1 ATAAAAAAATTTAAAT
819798 ATAAA
1 ATAAA
819803 TATAAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
ATAAAAAAATTTAAAT
Found at i:819866 original size:20 final size:18
Alignment explanation
Indices: 819815--819885 Score: 72
Period size: 20 Copynumber: 3.8 Consensus size: 18
819805 TAAAATATAT
819815 TATATTA-ATTATATTTAAA
1 TATATTATATT-TA-TTAAA
* *
819834 AATATTCTATTTATTATAA
1 TATATTATATTTATTA-AA
*
819853 TAATTTTATATTTATTAAA
1 T-ATATTATATTTATTAAA
819872 TATATTATATTTAT
1 TATATTATATTTAT
819886 GTAGTATTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
18 15 0.35
19 12 0.28
20 16 0.37
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.56
Consensus pattern (18 bp):
TATATTATATTTATTAAA
Found at i:826367 original size:2 final size:2
Alignment explanation
Indices: 826362--826396 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
826352 TGTGTACGTG
826362 TA TA 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 TA TA T
826397 TTGTTTAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:827408 original size:2 final size:2
Alignment explanation
Indices: 827396--827433 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
827386 ATGCAGGATT
*
827396 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
827434 ATTCAATGGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:827726 original size:2 final size:2
Alignment explanation
Indices: 827719--827747 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
827709 AATTAATGTT
827719 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 T
827748 TAACAAGTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:829750 original size:2 final size:2
Alignment explanation
Indices: 829733--829772 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
829723 GACCTATTTT
*
829733 TA TA T- TA TA CA 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 TA TA TA TA TA T
829773 TTGGGGGGTG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:830021 original size:20 final size:22
Alignment explanation
Indices: 829996--830036 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
829986 CTCTTATTTT
829996 TTTATA-T-ATTATAATATATA
1 TTTATATTAATTATAATATATA
*
830016 TTTATATTAATTTTAATATAT
1 TTTATATTAATTATAATATAT
830037 TAATAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 1 0.06
22 11 0.61
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TTTATATTAATTATAATATATA
Found at i:830049 original size:33 final size:32
Alignment explanation
Indices: 829993--830089 Score: 99
Period size: 33 Copynumber: 2.9 Consensus size: 32
829983 ATACTCTTAT
*
829993 TTTTTTATATATTATAATATATATTTATATTAA
1 TTTTTAATATATTATAATATATA-TTATATTAA
* *
830026 -TTTTAATATATTAATAATTTATATTA-ATAAA
1 TTTTTAATATATT-ATAATATATATTATATTAA
*
830057 TTTTTTAATATATTTATATATCTATATTATATT
1 -TTTTTAATATA-TTATA-ATATATATTATATT
830090 TATATTATTT
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
31 4 0.08
32 14 0.26
33 22 0.42
34 11 0.21
35 2 0.04
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (32 bp):
TTTTTAATATATTATAATATATATTATATTAA
Found at i:830050 original size:13 final size:13
Alignment explanation
Indices: 830032--830075 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
830022 TTAATTTTAA
830032 TATATTAATAATT
1 TATATTAATAATT
830045 TATATTAATAAATT
1 TATATTAAT-AATT
830059 T-T-TTAATATATT
1 TATATTAATA-ATT
830071 TATAT
1 TATAT
830076 ATCTATATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
11 1 0.04
12 9 0.33
13 11 0.41
14 6 0.22
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TATATTAATAATT
Found at i:831189 original size:5 final size:5
Alignment explanation
Indices: 831172--831206 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
831162 AGGGAGTTGA
831172 TTCTT TATCTT TTCTT TTCTT TTCTT TT-TT TTCTT
1 TTCTT T-TCTT TTCTT TTCTT TTCTT TTCTT TTCTT
831207 CCTCCAGAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.14
5 19 0.68
6 5 0.18
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (5 bp):
TTCTT
Found at i:832748 original size:25 final size:23
Alignment explanation
Indices: 832720--832771 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 23
832710 TACTTGATGC
832720 ATTATTTTATTATAAATAACTTTTA
1 ATTATTTTA--ATAAATAACTTTTA
*
832745 ATTA--TTACTAAATAACTTTTA
1 ATTATTTTAATAAATAACTTTTA
832766 ATTATT
1 ATTATT
832772 AATAAGTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
21 17 0.71
23 3 0.12
25 4 0.17
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (23 bp):
ATTATTTTAATAAATAACTTTTA
Found at i:832758 original size:21 final size:20
Alignment explanation
Indices: 832726--832772 Score: 85
Period size: 21 Copynumber: 2.3 Consensus size: 20
832716 ATGCATTATT
832726 TTATTATAAATAACTTTTAA
1 TTATTATAAATAACTTTTAA
832746 TTATTACTAAATAACTTTTAA
1 TTATTA-TAAATAACTTTTAA
832767 TTATTA
1 TTATTA
832773 ATAAGTAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 6 0.23
21 20 0.77
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (20 bp):
TTATTATAAATAACTTTTAA
Found at i:834733 original size:6 final size:6
Alignment explanation
Indices: 834705--834830 Score: 77
Period size: 6 Copynumber: 20.7 Consensus size: 6
834695 AACTTAAAAT
**
834705 AATTTAA AATTTTA AATAAA AATTTA AATTTA AA--T- AATTTA AATTTA
1 AATTT-A AA-TTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
* *
834752 AA-AT- AATTTA AATTTA ATATATATA AATTTA TAATTTA AATTTA AA-AT-
1 AATTTA AATTTA AATTTA A-AT-T-TA AATTTA -AATTTA AATTTA AATTTA
*
834800 AATTTA AATCTA ATATATATA AATTTA AATT
1 AATTTA AATTTA A-AT-T-TA AATTTA AATT
834831 CATTTGAAAT
Statistics
Matches: 94, Mismatches: 10, Indels: 31
0.70 0.07 0.23
Matches are distributed among these distances:
3 2 0.02
4 5 0.05
5 5 0.05
6 51 0.54
7 17 0.18
8 8 0.09
9 6 0.06
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (6 bp):
AATTTA
Found at i:834786 original size:44 final size:44
Alignment explanation
Indices: 834729--834830 Score: 170
Period size: 44 Copynumber: 2.3 Consensus size: 44
834719 AATAAAAATT
*
834729 TAAATTTAAATAATTTAAATTTAAAATAATTTAAATTTAATATATA
1 TAAATTT--ATAATTTAAATTTAAAATAATTTAAATCTAATATATA
834775 TAAATTTATAATTTAAATTTAAAATAATTTAAATCTAATATATA
1 TAAATTTATAATTTAAATTTAAAATAATTTAAATCTAATATATA
834819 TAAATTTA-AATT
1 TAAATTTATAATT
834831 CATTTGAAAT
Statistics
Matches: 55, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
43 4 0.07
44 44 0.80
46 7 0.13
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (44 bp):
TAAATTTATAATTTAAATTTAAAATAATTTAAATCTAATATATA
Found at i:835883 original size:137 final size:138
Alignment explanation
Indices: 835722--835998 Score: 502
Period size: 138 Copynumber: 2.0 Consensus size: 138
835712 AAACATGATA
*
835722 ATGTGCTTATAACAAACTAC-TTTTTTTTGATAAATTAATGGATTTGTTTACGGTTCTTTAATAT
1 ATGTGCTTATAACAAACTACTTTTTTTTTGATAAATTAATAGATTTGTTTACGGTTCTTTAATAT
835786 AATTTTTTGATAAGTCGAAGAAATCTAAATTTATTTACAATTCTTTCTTATATGAATTAATAAAA
66 AATTTTTTGATAAGTCGAAGAAATCTAAATTTATTTACAATTCTTTCTTATATGAATTAATAAAA
835851 AAAAATAT
131 AAAAATAT
*
835859 ATGTGCTTATAACAAACTACTTTTTTTTTGATAAATTAATAGATTTGTTTACGGTTCTTTCATAT
1 ATGTGCTTATAACAAACTACTTTTTTTTTGATAAATTAATAGATTTGTTTACGGTTCTTTAATAT
* * *
835924 AATTTTTTGATAAGTCGAAGAAATCTAAGTTTGTTTACAATTCTTTCTTATATGAATTAATAATA
66 AATTTTTTGATAAGTCGAAGAAATCTAAATTTATTTACAATTCTTTCTTATATGAATTAATAAAA
835989 AAAAATAT
131 AAAAATAT
835997 AT
1 AT
835999 CTTTAAATTT
Statistics
Matches: 134, Mismatches: 5, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
137 20 0.15
138 114 0.85
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.45
Consensus pattern (138 bp):
ATGTGCTTATAACAAACTACTTTTTTTTTGATAAATTAATAGATTTGTTTACGGTTCTTTAATAT
AATTTTTTGATAAGTCGAAGAAATCTAAATTTATTTACAATTCTTTCTTATATGAATTAATAAAA
AAAAATAT
Found at i:837186 original size:2 final size:2
Alignment explanation
Indices: 837179--837206 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
837169 ATTATTTTAT
837179 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
837207 CTTTACTTTA
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):
TA
Found at i:837561 original size:48 final size:48
Alignment explanation
Indices: 837490--837582 Score: 141
Period size: 48 Copynumber: 1.9 Consensus size: 48
837480 TTTAGCTTCC
* * *
837490 AAGTCACTTCTCTCCCAATGTTTGTCATGGGATTTGTAATTATATTTT
1 AAGTCACATCTCTCCCAATGTTTGTCATGGAATTTGTAACTATATTTT
* *
837538 AAGTCACATCTCTCCTAATGTTTGTTATGGAATTTGTAACTATAT
1 AAGTCACATCTCTCCCAATGTTTGTCATGGAATTTGTAACTATAT
837583 CTACCTTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.44
Consensus pattern (48 bp):
AAGTCACATCTCTCCCAATGTTTGTCATGGAATTTGTAACTATATTTT
Found at i:839991 original size:16 final size:17
Alignment explanation
Indices: 839964--840003 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
839954 TAAAATGATA
839964 TTATTT-AGAT-AAATT
1 TTATTTAAGATAAAATT
839979 TTATTTAAGATAAAATT
1 TTATTTAAGATAAAATT
839996 TTATTTAA
1 TTATTTAA
840004 TAATAGGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 6 0.26
16 4 0.17
17 13 0.57
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (17 bp):
TTATTTAAGATAAAATT
Found at i:844025 original size:15 final size:15
Alignment explanation
Indices: 843980--844026 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
843970 AAAATTATAC
*
843980 ATATTATATTTAAATAT
1 ATATTATA--TAAATTT
843997 ATAATTATAT-AATTT
1 AT-ATTATATAAATTT
844012 ATATTATATAAATTT
1 ATATTATATAAATTT
844027 TAATATGTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 7 0.26
15 11 0.41
16 1 0.04
17 2 0.07
18 6 0.22
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATATTATATAAATTT
Found at i:844028 original size:16 final size:16
Alignment explanation
Indices: 843980--844082 Score: 52
Period size: 16 Copynumber: 6.1 Consensus size: 16
843970 AAAATTATAC
* *
843980 ATATTATATTTAAATAT
1 ATATTATA-TAAAATTT
843997 ATAATTATAT--AATTT
1 AT-ATTATATAAAATTT
*
844012 ATATTATATAAATTTT
1 ATATTATATAAAATTT
*
844028 AATATGTTAAAATATAAATTTT
1 -ATA--TT---ATATAAAATTT
844050 AATATGT-TA-AAAATTT
1 -ATAT-TATATAAAATTT
844066 ATATTATATAAAATTT
1 ATATTATATAAAATTT
844082 A
1 A
844083 ATAAAATTTG
Statistics
Matches: 71, Mismatches: 3, Indels: 25
0.72 0.03 0.25
Matches are distributed among these distances:
14 8 0.11
15 12 0.17
16 18 0.25
17 8 0.11
18 6 0.08
19 2 0.03
20 1 0.01
21 1 0.01
22 15 0.21
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.50
Consensus pattern (16 bp):
ATATTATATAAAATTT
Found at i:844042 original size:22 final size:22
Alignment explanation
Indices: 844017--844061 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
844007 AATTTATATT
844017 ATATAAATTTTAATATGTTAAA
1 ATATAAATTTTAATATGTTAAA
844039 ATATAAATTTTAATATGTTAAA
1 ATATAAATTTTAATATGTTAAA
844061 A
1 A
844062 ATTTATATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (22 bp):
ATATAAATTTTAATATGTTAAA
Found at i:845649 original size:45 final size:45
Alignment explanation
Indices: 845594--845712 Score: 109
Period size: 45 Copynumber: 2.6 Consensus size: 45
845584 CTGTCACTGT
* * *
845594 CATCTGTTTCTTTGTCTTCTCAGCTGAGCCATTCACTGTCCCA-GC
1 CATCTCTTTCTTAGTCTTCTCAGCTGAGCCATTCACTGT-CAAGGC
** * *
845639 CATCTCTTTCTTCA-TCTTCTTTGCTGAGCTATTTACTGTCAAGGC
1 CATCTCTTTCTT-AGTCTTCTCAGCTGAGCCATTCACTGTCAAGGC
**
845684 TGTCTCTTTCTTCAG-CTTCTCAGCTGAGC
1 CATCTCTTTCTT-AGTCTTCTCAGCTGAGC
845713 TAATTACTGT
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
44 2 0.03
45 58 0.97
ACGTcount: A:0.13, C:0.30, G:0.15, T:0.41
Consensus pattern (45 bp):
CATCTCTTTCTTAGTCTTCTCAGCTGAGCCATTCACTGTCAAGGC
Found at i:845713 original size:45 final size:45
Alignment explanation
Indices: 845608--846426 Score: 508
Period size: 45 Copynumber: 18.6 Consensus size: 45
845598 TGTTTCTTTG
* * * **
845608 TCTTCTCAGCTGAGCCATTCACTGTCCCA-GCCATCTCTTTCTTCA
1 TCTTCTCAGCTGAGCTATTTACTGT-CAAGGCTGTCTCTTTCTTCA
**
845653 TCTTCTTTGCTGAGCTATTTACTGTCAAGGCTGTCTCTTTCTTCA
1 TCTTCTCAGCTGAGCTATTTACTGTCAAGGCTGTCTCTTTCTTCA
* * * * *
845698 GCTTCTCAGCTGAGCTAATTACTGT--AGTC-ATCTCCTGTC-TCA
1 TCTTCTCAGCTGAGCTATTTACTGTCAAGGCTGTCT-CTTTCTTCA
* * * *
845740 TCTTCTCAGCTGAGCTATTTACTCTCATGGTTGTCTCCTTCTTCA
1 TCTTCTCAGCTGAGCTATTTACTGTCAAGGCTGTCTCTTTCTTCA
* * * * * ** *
845785 TCTCCTCAGCCGAACTATTAATTGTCAAGGCCATCTCTTTCTCCA
1 TCTTCTCAGCTGAGCTATTTACTGTCAAGGCTGTCTCTTTCTTCA
* * * ** *
845830 GCTCCTCAGCTGAGCTATTT-GT-TTTAGTC-GTCTCTTGTC-TCA
1 TCTTCTCAGCTGAGCTATTTACTGTCAAGGCTGTCTCTT-TCTTCA
* ** *
845872 TCTTGTCAGCTGAGCTATTTA-T-TTTAGTC-GTCTCTTGTC-TCA
1 TCTTCTCAGCTGAGCTATTTACTGTCAAGGCTGTCTCTT-TCTTCA
** *
845914 TCTTCTCAGCTGAGCTATTTACTGTCATCG-TCATCTCTTTCTTCA
1 TCTTCTCAGCTGAGCTATTTACTGTCAAGGCT-GTCTCTTTCTTCA
* ** *
845959 TTTTCTCAGCTGAGCTATTTA-T-TTTAGTC-GTCTCTTGTC-TCA
1 TCTTCTCAGCTGAGCTATTTACTGTCAAGGCTGTCTCTT-TCTTCA
* * *
846001 TCTTCTCAGGTAAGCTATTTACTGTCATGG-TCGTCTCTTTCTTCA
1 TCTTCTCAGCTGAGCTATTTACTGTCAAGGCT-GTCTCTTTCTTCA
* * ** *
846046 TCTTCTCAGCTGAGCTATTTACTGTTATGTTTGGCTCTTTCTTCA
1 TCTTCTCAGCTGAGCTATTTACTGTCAAGGCTGTCTCTTTCTTCA
* * * ** *
846091 TTTTCTCAGCTGAGCTATTTACTGTTATGTTTGGCTCTTTCTTCA
1 TCTTCTCAGCTGAGCTATTTACTGTCAAGGCTGTCTCTTTCTTCA
* * * * * *
846136 TTTTCTCAGCTGAGCTATGTACCG-CCACGATCGTCTCTTTCTTCA
1 TCTTCTCAGCTGAGCTATTTACTGTCAAGGCT-GTCTCTTTCTTCA
* * * ** * * *
846181 TTTTCTCAGCTGAGCTATTAATTGTCAAGGCCATATCTTCCTTTA
1 TCTTCTCAGCTGAGCTATTTACTGTCAAGGCTGTCTCTTTCTTCA
* * * * * * *
846226 TCTTATCAGCTGAACTATTT-C-CTAAAGTC-ATCTCTTTAC-TAA
1 TCTTCTCAGCTGAGCTATTTACTGTCAAGGCTGTCTCTTT-CTTCA
* * * * * *
846268 TCTTCTCAACTGAGCTA-TTACTTATTAAAGCCGTCTCTTTATTCA
1 TCTTCTCAGCTGAGCTATTTAC-TGTCAAGGCTGTCTCTTTCTTCA
* ** *
846313 CCTTCTCAGCTGAGCTATTTACTGT--A-GCCATCTC-TTCTCTAA
1 TCTTCTCAGCTGAGCTATTTACTGTCAAGGCTGTCTCTTTCT-TCA
* * * **
846355 TCTTCTCATCTGAGCTATCTACTGTCATGGCCATCTCTTTCTTCA
1 TCTTCTCAGCTGAGCTATTTACTGTCAAGGCTGTCTCTTTCTTCA
*
846400 TCTTCTCAGCTGAACTATTTACTGTCA
1 TCTTCTCAGCTGAGCTATTTACTGTCA
846427 CGGCCGAATC
Statistics
Matches: 608, Mismatches: 131, Indels: 70
0.75 0.16 0.09
Matches are distributed among these distances:
41 5 0.01
42 175 0.29
43 25 0.04
44 20 0.03
45 371 0.61
46 12 0.02
ACGTcount: A:0.17, C:0.27, G:0.13, T:0.43
Consensus pattern (45 bp):
TCTTCTCAGCTGAGCTATTTACTGTCAAGGCTGTCTCTTTCTTCA
Found at i:845775 original size:87 final size:86
Alignment explanation
Indices: 845608--846424 Score: 676
Period size: 87 Copynumber: 9.3 Consensus size: 86
845598 TGTTTCTTTG
* * * **
845608 TCTTCTCAGCTGAGCCATTCACTGTCCCAGCCATCTCTTTCTTCATCTTCTTTGCTGAGCTATTT
1 TCTTCTCAGCTGAGCTATTTACTGT---AGTCATCTCTTTC-TCATCTTCTCAGCTGAGCTATTT
*
845673 ACTGTCAAGG-CTGTCTCTTTCTTCA
62 ACTGTCATGGTC-GTCTCTTTCTTCA
* * *
845698 GCTTCTCAGCTGAGCTAATTACTGTAGTCATCTCCTGTCTCATCTTCTCAGCTGAGCTATTTACT
1 TCTTCTCAGCTGAGCTATTTACTGTAGTCATCT-CTTTCTCATCTTCTCAGCTGAGCTATTTACT
* * *
845763 CTCATGGTTGTCTCCTTCTTCA
65 GTCATGGTCGTCTCTTTCTTCA
* * * * * * * *
845785 TCTCCTCAGCCGAACTATTAATTGTCAAGGCCATCTCTTTCTCCAGCTCCTCAGCTGAGCTA-TT
1 TCTTCTCAGCTGAGCTATTTACTGT--A-GTCATCTCTTTCT-CATCTTCTCAGCTGAGCTATTT
** *
845849 --TGTTTTAGTCGTCTCTTGTC-TCA
62 ACTGTCATGGTCGTCTCTT-TCTTCA
* * * *
845872 TCTTGTCAGCTGAGCTATTTATTTTAGTCGTCTCTTGTCTCATCTTCTCAGCTGAGCTATTTACT
1 TCTTCTCAGCTGAGCTATTTACTGTAGTCATCTCTT-TCTCATCTTCTCAGCTGAGCTATTTACT
* *
845937 GTCATCGTCATCTCTTTCTTCA
65 GTCATGGTCGTCTCTTTCTTCA
* * * * * *
845959 TTTTCTCAGCTGAGCTATTTATTTTAGTCGTCTCTTGTCTCATCTTCTCAGGTAAGCTATTTACT
1 TCTTCTCAGCTGAGCTATTTACTGTAGTCATCTCTT-TCTCATCTTCTCAGCTGAGCTATTTACT
846024 GTCATGGTCGTCTCTTTCTTCA
65 GTCATGGTCGTCTCTTTCTTCA
* *
846046 TCTTCTCAGCTGAGCTATTTACTGTTATGT-TTGGCTCTTTCTTCATTTTCTCAGCTGAGCTATT
1 TCTTCTCAGCTGAGCTATTTACTG-TA-GTCAT--CTCTTTC-TCATCTTCTCAGCTGAGCTATT
* * * *
846110 TACTGTTATGTTTGGCTCTTTCTTCA
61 TACTGTCATGGTCGTCTCTTTCTTCA
* * * * * * *
846136 TTTTCTCAGCTGAGCTATGTACCGCCACGATCGTCTCTTTCTTCATTTTCTCAGCTGAGCTATTA
1 TCTTCTCAGCTGAGCTATTTACTG-TA-G-TCATCTCTTTC-TCATCTTCTCAGCTGAGCTATTT
* * * * * * *
846201 ATTGTCAAGGCCATATCTTCCTTTA
62 ACTGTCATGGTCGTCTCTTTCTTCA
* * * ** * *
846226 TCTTATCAGCTGAACTATTTCCTAAAGTCATCTCTTTACTAATCTTCTCAACTGAGCTA-TTACT
1 TCTTCTCAGCTGAGCTATTTACTGTAGTCATCTCTTT-CTCATCTTCTCAGCTGAGCTATTTAC-
* * ** * *
846290 TATTAAAGCCGTCTCTTTATTCA
64 TGTCATGGTCGTCTCTTTCTTCA
* * * * *
846313 CCTTCTCAGCTGAGCTATTTACTGTAGCCATCTCTTCTCTAATCTTCTCATCTGAGCTATCTACT
1 TCTTCTCAGCTGAGCTATTTACTGTAGTCATCTCTT-TCTCATCTTCTCAGCTGAGCTATTTACT
* *
846378 GTCATGGCCATCTCTTTCTTCA
65 GTCATGGTCGTCTCTTTCTTCA
*
846400 TCTTCTCAGCTGAACTATTTACTGT
1 TCTTCTCAGCTGAGCTATTTACTGT
846425 CACGGCCGAA
Statistics
Matches: 586, Mismatches: 118, Indels: 49
0.78 0.16 0.07
Matches are distributed among these distances:
84 25 0.04
85 6 0.01
86 4 0.01
87 347 0.59
88 15 0.03
89 13 0.02
90 174 0.30
91 1 0.00
92 1 0.00
ACGTcount: A:0.17, C:0.27, G:0.13, T:0.43
Consensus pattern (86 bp):
TCTTCTCAGCTGAGCTATTTACTGTAGTCATCTCTTTCTCATCTTCTCAGCTGAGCTATTTACTG
TCATGGTCGTCTCTTTCTTCA
Found at i:846091 original size:132 final size:132
Alignment explanation
Indices: 845608--846337 Score: 630
Period size: 132 Copynumber: 5.5 Consensus size: 132
845598 TGTTTCTTTG
* * *** * * **
845608 TCTTCTCAGCTGAGCCATTCACTGTCCCAGCCATCTCTTTCTTCATCTTCTTTGCTGAGCTATTT
1 TCTTCTCAGCTGAGCTATTTACTGTCATGGTCGTCTCTTTCTTCATCTTCTCAGCTGAGCTATTT
* * * * *
845673 ACTGTCAAGGCTGTCTCTTTCTTCAGCTTCTCAGCTGAGCTAATTACTGTAGTCATCTCCTGTCT
66 ACTGTCAAGGCTGTCTCTTTCTTCAGCTTCTCAGCTGAGCTATTTATTTTAGTCGTCTCTTGTCT
845738 CA
131 CA
* * * * * * *
845740 TCTTCTCAGCTGAGCTATTTACTCTCATGGTTGTCTCCTTCTTCATCTCCTCAGCCGAACTATTA
1 TCTTCTCAGCTGAGCTATTTACTGTCATGGTCGTCTCTTTCTTCATCTTCTCAGCTGAGCTATTT
* ** * * *
845805 ATTGTCAAGGCCATCTCTTTCTCCAGCTCCTCAGCTGAGCTATTTGTTTTAGTCGTCTCTTGTCT
66 ACTGTCAAGGCTGTCTCTTTCTTCAGCTTCTCAGCTGAGCTATTTATTTTAGTCGTCTCTTGTCT
845870 CA
131 CA
* * *
845872 TCTTGTCAGCTGAGCTATTTA-T-T-TTAGTCGTCTCTTGTC-TCATCTTCTCAGCTGAGCTATT
1 TCTTCTCAGCTGAGCTATTTACTGTCATGGTCGTCTCTT-TCTTCATCTTCTCAGCTGAGCTATT
** * **
845933 TACTGTCATCG-TCATCTCTTTCTTCATTTTCTCAGCTGAGCTATTTATTTTAGTCGTCTCTTGT
65 TACTGTCAAGGCT-GTCTCTTTCTTCAGCTTCTCAGCTGAGCTATTTATTTTAGTCGTCTCTTGT
845997 CTCA
129 CTCA
* *
846001 TCTTCTCAGGTAAGCTATTTACTGTCATGGTCGTCTCTTTCTTCATCTTCTCAGCTGAGCTATTT
1 TCTTCTCAGCTGAGCTATTTACTGTCATGGTCGTCTCTTTCTTCATCTTCTCAGCTGAGCTATTT
* * ** * ** * * *
846066 ACTGTTATGTTTGGCTCTTTCTTCATTTTCTCAGCTGAGCTATTTACTGTTATGTTTGGCTCTT-
66 ACTGTCAAGGCTGTCTCTTTCTTCAGCTTCTCAGCTGAGCTATTTA-TTTTA-G-TCGTCTCTTG
846130 TCTTCA
128 TC-TCA
* * * * * * * *
846136 TTTTCTCAGCTGAGCTATGTACCGCCACGATCGTCTCTTTCTTCATTTTCTCAGCTGAGCTATTA
1 TCTTCTCAGCTGAGCTATTTACTGTCATGGTCGTCTCTTTCTTCATCTTCTCAGCTGAGCTATTT
* ** * * * * * * ** ** *
846201 ATTGTCAAGGCCATATCTTCCTTTATCTTATCAGCTGAACTATTTCCTAAAGTCATCTCTT-TAC
66 ACTGTCAAGGCTGTCTCTTTCTTCAGCTTCTCAGCTGAGCTATTTATTTTAGTCGTCTCTTGT-C
*
846265 TAA
130 TCA
* * * ** * * *
846268 TCTTCTCAACTGAGCTA-TTACTTATTAAAGCCGTCTCTTTATTCACCTTCTCAGCTGAGCTATT
1 TCTTCTCAGCTGAGCTATTTAC-TGTCATGGTCGTCTCTTTCTTCATCTTCTCAGCTGAGCTATT
846332 TACTGT
65 TACTGT
846338 AGCCATCTCT
Statistics
Matches: 478, Mismatches: 107, Indels: 26
0.78 0.18 0.04
Matches are distributed among these distances:
129 103 0.22
130 4 0.01
131 7 0.01
132 257 0.54
133 7 0.01
134 4 0.01
135 96 0.20
ACGTcount: A:0.17, C:0.26, G:0.14, T:0.43
Consensus pattern (132 bp):
TCTTCTCAGCTGAGCTATTTACTGTCATGGTCGTCTCTTTCTTCATCTTCTCAGCTGAGCTATTT
ACTGTCAAGGCTGTCTCTTTCTTCAGCTTCTCAGCTGAGCTATTTATTTTAGTCGTCTCTTGTCT
CA
Found at i:849480 original size:2 final size:2
Alignment explanation
Indices: 849473--849499 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
849463 GTCTTTACAA
849473 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 A
849500 ACATGATATT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:853270 original size:48 final size:51
Alignment explanation
Indices: 853174--853281 Score: 170
Period size: 48 Copynumber: 2.2 Consensus size: 51
853164 TTATTTATCT
*
853174 TTTAA-TTAATTTAATTAAAGATAAAATTTATTTATTTATTTTTTAATTAA
1 TTTAATTTAATTTAATTAAAGATAAAATTTATTTATTTATCTTTTAATTAA
*
853224 TTTAATTTAATTTAATTAAA-A-ATAATTT-TTTATTTATCTTTTAATTAA
1 TTTAATTTAATTTAATTAAAGATAAAATTTATTTATTTATCTTTTAATTAA
853272 TTTAATTTAA
1 TTTAATTTAA
853282 ATAGAGATCA
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
48 29 0.53
49 6 0.11
50 6 0.11
51 14 0.25
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (51 bp):
TTTAATTTAATTTAATTAAAGATAAAATTTATTTATTTATCTTTTAATTAA
Found at i:853853 original size:19 final size:19
Alignment explanation
Indices: 853806--853853 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
853796 AAAATTAAAT
* *
853806 TATTTATATATATATTTTA
1 TATTTATTTATATAATTTA
*
853825 TAAGTT-TTTATATAATTTA
1 T-ATTTATTTATATAATTTA
853844 TATTTATTTA
1 TATTTATTTA
853854 ATTTAATTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
18 3 0.13
19 17 0.74
20 3 0.13
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
TATTTATTTATATAATTTA
Found at i:853914 original size:25 final size:25
Alignment explanation
Indices: 853880--853930 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
853870 TTATATTTTA
* * *
853880 TTTACGTAAATCATACATATTAAAT
1 TTTAAGTAAATCAAAAATATTAAAT
*
853905 TTTAAGTAAATTAAAAATATTAAAT
1 TTTAAGTAAATCAAAAATATTAAAT
853930 T
1 T
853931 ATTTGTTAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.41
Consensus pattern (25 bp):
TTTAAGTAAATCAAAAATATTAAAT
Found at i:854929 original size:25 final size:27
Alignment explanation
Indices: 854889--854947 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 27
854879 TTGATGCATG
*
854889 TTTTTAAAATATATTAAAAAAATTAAT
1 TTTTTAAAATATATTAAAAAAACTAAT
* * *
854916 TTTTTAAAA-A-ATTATATACACTAAT
1 TTTTTAAAATATATTAAAAAAACTAAT
854941 TTTTTAA
1 TTTTTAA
854948 TTTTTACTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 18 0.64
26 1 0.04
27 9 0.32
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.47
Consensus pattern (27 bp):
TTTTTAAAATATATTAAAAAAACTAAT
Found at i:855523 original size:2 final size:2
Alignment explanation
Indices: 855518--855542 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
855508 GCTGTTTTTT
855518 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 T
855543 TTGCTTAAGA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:857959 original size:43 final size:40
Alignment explanation
Indices: 857911--858024 Score: 104
Period size: 43 Copynumber: 2.7 Consensus size: 40
857901 GATGATTATG
*
857911 ATATAAATAAAATAATTAAAATATAATATATATTTTAAAATTT
1 ATATAAATAAAAT-ATTAAAATATAATATATA-TATAAAA-TT
* * * *
857954 ATATAATATAAATTATTAATATATTAATTTATATATATAATT
1 ATATAA-ATAAAATATTAAAATA-TAATATATATATAAAATT
857996 ATTATATAATAAAATA-TATAAATATAATA
1 A-TATA-AATAAAATATTA-AAATATAATA
858025 CGAATATATA
Statistics
Matches: 58, Mismatches: 8, Indels: 11
0.75 0.10 0.14
Matches are distributed among these distances:
42 9 0.16
43 34 0.59
44 15 0.26
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (40 bp):
ATATAAATAAAATATTAAAATATAATATATATATAAAATT
Found at i:857978 original size:34 final size:27
Alignment explanation
Indices: 857949--858003 Score: 83
Period size: 30 Copynumber: 1.9 Consensus size: 27
857939 TATATTTTAA
857949 AATTTATATAATATAAATTATTAATATATT
1 AATTTATAT-ATAT-AATTATT-ATATATT
857979 AATTTATATATATAATTATTATATA
1 AATTTATATATATAATTATTATATA
858004 ATAAAATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 5 0.20
28 7 0.28
29 4 0.16
30 9 0.36
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
AATTTATATATATAATTATTATATATT
Found at i:857994 original size:13 final size:13
Alignment explanation
Indices: 857949--858005 Score: 55
Period size: 14 Copynumber: 4.2 Consensus size: 13
857939 TATATTTTAA
857949 AATTTATATAATAT
1 AATTTATAT-ATAT
*
857963 AAATTATTAATATATT
1 AATTTA-T-ATATA-T
857979 AATTTATATATAT
1 AATTTATATATAT
857992 AA-TTAT-TATAT
1 AATTTATATATAT
858003 AAT
1 AAT
858006 AAAATATATA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
11 7 0.19
12 4 0.11
13 3 0.08
14 10 0.27
15 5 0.14
16 8 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
AATTTATATATAT
Found at i:858015 original size:29 final size:27
Alignment explanation
Indices: 857946--858023 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 27
857936 ATATATATTT
857946 TAAAATTTATATAATATAAATTATTAATA
1 TAAAATTTATAT-ATAT-AATTATTAATA
*
857975 TATTAATTTATATATATAATTATTATATAA
1 TA-AAATTTATATATATAATTATTA-AT-A
* *
858005 TAAAATATATAAATATAAT
1 TAAAATTTATATATATAAT
858024 ACGAATATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
28 8 0.19
29 22 0.52
30 12 0.29
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (27 bp):
TAAAATTTATATATATAATTATTAATA
Found at i:858032 original size:19 final size:18
Alignment explanation
Indices: 857999--858037 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
857989 TATAATTATT
857999 ATATAATAAAATATATAA
1 ATATAATAAAATATATAA
*
858017 ATATAATACGAATATATAA
1 ATATAATA-AAATATATAA
858036 AT
1 AT
858038 TATGAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (18 bp):
ATATAATAAAATATATAA
Done.