Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 292 of 333
Found at i:96334007 original size:27 final size:28
Alignment explanation
Indices: 96333952--96334007 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 28
96333942 AGCATTTAGA
* *
96333952 GACTCCAATTGCATAGGATAAAAATCAT
1 GACTCCAATTGCATAAGATAAAAAACAT
96333980 GACT-CAATTGCA-AAGATAATAAAACAT
1 GACTCCAATTGCATAAGATAA-AAAACAT
96334007 G
1 G
96334008 TCCAACCTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 6 0.24
27 15 0.60
28 4 0.16
ACGTcount: A:0.46, C:0.16, G:0.14, T:0.23
Consensus pattern (28 bp):
GACTCCAATTGCATAAGATAAAAAACAT
Found at i:96341271 original size:25 final size:26
Alignment explanation
Indices: 96341243--96341297 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
96341233 AGTTATATAA
*
96341243 TATATGATTATATTAA-G-TTAAATTT
1 TATATGATTATAATAATGATT-AATTT
*
96341268 TATA-GATTTTAATAATGATTAATTT
1 TATATGATTATAATAATGATTAATTT
96341293 TATAT
1 TATAT
96341298 ATATATCTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
24 9 0.36
25 14 0.56
26 2 0.08
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (26 bp):
TATATGATTATAATAATGATTAATTT
Found at i:96349511 original size:6 final size:6
Alignment explanation
Indices: 96349500--96349525 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
96349490 ATTAAGAACT
96349500 TAAATA TAAATA TAAATA TAAATA TA
1 TAAATA TAAATA TAAATA TAAATA TA
96349526 TATTATCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
TAAATA
Found at i:96354278 original size:20 final size:20
Alignment explanation
Indices: 96354255--96354301 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
96354245 AAATTTTTAA
96354255 AAAATAATAAAAATTATTTT
1 AAAATAATAAAAATTATTTT
* * *
96354275 AAAAT-TTAACAATTTTTTT
1 AAAATAATAAAAATTATTTT
96354294 AAAA-AATA
1 AAAATAATA
96354302 TATCCAAGCC
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAATAATAAAAATTATTTT
Found at i:96361660 original size:12 final size:12
Alignment explanation
Indices: 96361643--96361668 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
96361633 CAGCTCGCAG
96361643 AAATCGTAGAGA
1 AAATCGTAGAGA
96361655 AAATCGTAGAGA
1 AAATCGTAGAGA
96361667 AA
1 AA
96361669 CAAGGCAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.08, G:0.23, T:0.15
Consensus pattern (12 bp):
AAATCGTAGAGA
Found at i:96365231 original size:4 final size:4
Alignment explanation
Indices: 96365217--96365267 Score: 61
Period size: 4 Copynumber: 12.8 Consensus size: 4
96365207 AGCCACCCTT
*
96365217 TTTA TTTTA TTTA TTTA TTTA TTTA -TTA -TTA TTTG TTATA TTTA TTTA
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TTTA TTTA
96365265 TTT
1 TTT
96365268 TTATTATACT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
3 6 0.14
4 29 0.69
5 7 0.17
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:96365282 original size:23 final size:22
Alignment explanation
Indices: 96365217--96365282 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 22
96365207 AGCCACCCTT
*
96365217 TTTA-TTTTATTTATTTATTTA
1 TTTATTTTTATTTATTAATTTA
* *
96365238 TTTATTATTATTTGTTATATTTA
1 TTTATTTTTATTTATTA-ATTTA
*
96365261 TTTATTTTTATTATACTAATTT
1 TTTATTTTTATT-TATTAATTT
96365283 TTCTTATACT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 4 0.11
22 9 0.25
23 20 0.56
24 3 0.08
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.71
Consensus pattern (22 bp):
TTTATTTTTATTTATTAATTTA
Found at i:96377733 original size:21 final size:21
Alignment explanation
Indices: 96377700--96377739 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
96377690 AAAATTTAGG
* *
96377700 ATATTAAATTAATTAATTTCA
1 ATATTAAAGTAATGAATTTCA
*
96377721 ATATTACAGTAATGAATTT
1 ATATTAAAGTAATGAATTT
96377740 AGAAGGGATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (21 bp):
ATATTAAAGTAATGAATTTCA
Found at i:96385477 original size:38 final size:38
Alignment explanation
Indices: 96385435--96385525 Score: 128
Period size: 40 Copynumber: 2.3 Consensus size: 38
96385425 GTCCAACCCA
96385435 ACACACCATGTGGGGATAAAATCGACCCACCCAGCCCT
1 ACACACCATGTGGGGATAAAATCGACCCACCCAGCCCT
* * *
96385473 ACACACCAAGTATAGGGATAAAATCGACCCATCCAGCCCT
1 ACACACC-A-TGTGGGGATAAAATCGACCCACCCAGCCCT
*
96385513 ACACACCAAGTGG
1 ACACACCATGTGG
96385526 TACTGTGATA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
38 9 0.20
39 2 0.04
40 34 0.76
ACGTcount: A:0.35, C:0.34, G:0.18, T:0.13
Consensus pattern (38 bp):
ACACACCATGTGGGGATAAAATCGACCCACCCAGCCCT
Found at i:96385494 original size:40 final size:40
Alignment explanation
Indices: 96385447--96385523 Score: 145
Period size: 40 Copynumber: 1.9 Consensus size: 40
96385437 ACACCATGTG
96385447 GGGATAAAATCGACCCACCCAGCCCTACACACCAAGTATA
1 GGGATAAAATCGACCCACCCAGCCCTACACACCAAGTATA
*
96385487 GGGATAAAATCGACCCATCCAGCCCTACACACCAAGT
1 GGGATAAAATCGACCCACCCAGCCCTACACACCAAGT
96385524 GGTACTGTGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.36, C:0.35, G:0.16, T:0.13
Consensus pattern (40 bp):
GGGATAAAATCGACCCACCCAGCCCTACACACCAAGTATA
Found at i:96392502 original size:40 final size:40
Alignment explanation
Indices: 96392456--96392534 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
96392446 ACACACCATG
96392456 TGGGGATAAAATCAACCCACCCAACCCTACAAACCAAGTA
1 TGGGGATAAAATCAACCCACCCAACCCTACAAACCAAGTA
* * * *
96392496 TGGGGATAAAATCGACCCATCCAGCCCTACACACCAAGT
1 TGGGGATAAAATCAACCCACCCAACCCTACAAACCAAGT
96392535 GGTACTGCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.38, C:0.33, G:0.15, T:0.14
Consensus pattern (40 bp):
TGGGGATAAAATCAACCCACCCAACCCTACAAACCAAGTA
Found at i:96393310 original size:56 final size:56
Alignment explanation
Indices: 96393236--96393346 Score: 168
Period size: 56 Copynumber: 2.0 Consensus size: 56
96393226 ATCTTCTTAT
96393236 CTTCGACGAAAAACGGTGTTTCCTTACTGTTTAAAACCCCGATTAATGATCCACAC
1 CTTCGACGAAAAACGGTGTTTCCTTACTGTTTAAAACCCCGATTAATGATCCACAC
* * * * * *
96393292 CTTCGATGAACAATGGTGTTTCTTTGCTGTTTAGAACCCCGATTAATGATCCACA
1 CTTCGACGAAAAACGGTGTTTCCTTACTGTTTAAAACCCCGATTAATGATCCACA
96393347 GATCATTGAA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (56 bp):
CTTCGACGAAAAACGGTGTTTCCTTACTGTTTAAAACCCCGATTAATGATCCACAC
Found at i:96394681 original size:21 final size:22
Alignment explanation
Indices: 96394640--96394787 Score: 113
Period size: 23 Copynumber: 6.6 Consensus size: 22
96394630 GCTATCACCC
* *
96394640 ACCAATCATAGCCTCAG-ACACA
1 ACCAAT-ATACCCTCCGAACACA
*
96394662 ACCAATTTACCCTCC-AACACA
1 ACCAATATACCCTCCGAACACA
* *
96394683 ACC-ATGTATCCTCCGAACACA
1 ACCAATATACCCTCCGAACACA
* *
96394704 ACCAAATATACCCTTCAAACACA
1 ACC-AATATACCCTCCGAACACA
*
96394727 ACCATATATATAACCTCCGAACACA
1 ACC--A-ATATACCCTCCGAACACA
* * *
96394752 ACCAAGTATACCCACCAAATACA
1 ACCAA-TATACCCTCCGAACACA
*
96394775 ACTAATATACCCT
1 ACCAATATACCCT
96394788 TCAACATATC
Statistics
Matches: 100, Mismatches: 19, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
20 9 0.09
21 23 0.23
22 14 0.14
23 35 0.35
24 1 0.01
25 18 0.18
ACGTcount: A:0.42, C:0.36, G:0.04, T:0.18
Consensus pattern (22 bp):
ACCAATATACCCTCCGAACACA
Found at i:96394750 original size:48 final size:43
Alignment explanation
Indices: 96394657--96394764 Score: 128
Period size: 48 Copynumber: 2.4 Consensus size: 43
96394647 ATAGCCTCAG
* * *
96394657 ACACAACC-AATTTACCCTCCAACACAACCATGTATCCTCCGA
1 ACACAACCAAATATACCCTCAAACACAACCATATATCCTCCGA
96394699 ACACAACCAAATATACCCTTCAAACACAACCATATATATAACCTCCGA
1 ACACAACCAAATATACCC-TCAAACACAACC--ATATAT--CCTCCGA
*
96394747 ACACAACCAAGTATACCC
1 ACACAACCAAATATACCC
96394765 ACCAAATACA
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
42 8 0.14
43 8 0.14
44 11 0.20
46 5 0.09
48 24 0.43
ACGTcount: A:0.42, C:0.37, G:0.04, T:0.18
Consensus pattern (43 bp):
ACACAACCAAATATACCCTCAAACACAACCATATATCCTCCGA
Found at i:96400787 original size:42 final size:42
Alignment explanation
Indices: 96400722--96400877 Score: 169
Period size: 42 Copynumber: 3.7 Consensus size: 42
96400712 AAATCGTACA
*
96400722 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
*
96400764 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCAAATAT-G
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGAAATC-AATATCG
* * *
96400806 ATGCCGATGTCCCAGACATGGTCTTATACAT-AAATCTCAA-ATCG
1 ATGCCAACGTCCCAGACGTGGTC-T-TACATGAAA--TCAATATCG
96400850 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
96400878 CGATAACATA
Statistics
Matches: 96, Mismatches: 8, Indels: 20
0.77 0.06 0.16
Matches are distributed among these distances:
41 2 0.02
42 51 0.53
43 14 0.15
44 27 0.28
45 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
Found at i:96402383 original size:32 final size:32
Alignment explanation
Indices: 96402335--96402419 Score: 154
Period size: 32 Copynumber: 2.7 Consensus size: 32
96402325 ACCTAAAATT
96402335 ATTAATTC-TAATTATTTTAATATTTTATTTA
1 ATTAATTCTTAATTATTTTAATATTTTATTTA
96402366 ATTAATTCTTAATTATTTTAATATTTTATTTA
1 ATTAATTCTTAATTATTTTAATATTTTATTTA
*
96402398 TTTAATTCTTAATTATTTTAAT
1 ATTAATTCTTAATTATTTTAAT
96402420 TATCTAATAT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
31 8 0.15
32 44 0.85
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (32 bp):
ATTAATTCTTAATTATTTTAATATTTTATTTA
Found at i:96402386 original size:16 final size:16
Alignment explanation
Indices: 96402336--96402420 Score: 86
Period size: 16 Copynumber: 5.4 Consensus size: 16
96402326 CCTAAAATTA
96402336 TTAATTC-TAATTATT
1 TTAATTCTTAATTATT
* * *
96402351 TTAATATTTTATTTA-A
1 TTAAT-TCTTAATTATT
96402367 TTAATTCTTAATTATT
1 TTAATTCTTAATTATT
* *
96402383 TTAATATTTTATTTA-T
1 TTAAT-TCTTAATTATT
96402399 TTAATTCTTAATTATT
1 TTAATTCTTAATTATT
96402415 TTAATT
1 TTAATT
96402421 ATCTAATATA
Statistics
Matches: 55, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
15 19 0.35
16 24 0.44
17 12 0.22
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.64
Consensus pattern (16 bp):
TTAATTCTTAATTATT
Found at i:96402416 original size:24 final size:23
Alignment explanation
Indices: 96402383--96402427 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
96402373 CTTAATTATT
* *
96402383 TTAATATTTTATTTATTTAATTC
1 TTAATATTTTAATTATCTAATTC
96402406 TTAATTATTTTAATTATCTAAT
1 TTAA-TATTTTAATTATCTAAT
96402428 ATAATTATGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (23 bp):
TTAATATTTTAATTATCTAATTC
Found at i:96402418 original size:9 final size:9
Alignment explanation
Indices: 96402343--96402422 Score: 60
Period size: 9 Copynumber: 8.8 Consensus size: 9
96402333 TTATTAATTC
96402343 TAATTATTT
1 TAATTATTT
*
96402352 TAATATTTTATT
1 T-A-ATTAT-TT
96402364 TAATTAATTCT
1 TAATT-ATT-T
96402375 TAATTATTT
1 TAATTATTT
96402384 TAA-TATTT
1 TAATTATTT
*
96402392 TATTTA-TT
1 TAATTATTT
*
96402400 TAA-T-TCT
1 TAATTATTT
96402407 TAATTATTT
1 TAATTATTT
96402416 TAATTAT
1 TAATTAT
96402423 CTAATATAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 18
0.70 0.08 0.22
Matches are distributed among these distances:
7 5 0.09
8 12 0.21
9 16 0.29
10 8 0.14
11 12 0.21
12 3 0.05
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.64
Consensus pattern (9 bp):
TAATTATTT
Found at i:96411355 original size:19 final size:20
Alignment explanation
Indices: 96411326--96411366 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
96411316 ATAAAATATA
96411326 AAAATATATAGAATTTTATT
1 AAAATATATAGAATTTTATT
*
96411346 AAAA-ATATAGAATTTTTTT
1 AAAATATATAGAATTTTATT
96411365 AA
1 AA
96411367 TTTATAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (20 bp):
AAAATATATAGAATTTTATT
Found at i:96411579 original size:19 final size:19
Alignment explanation
Indices: 96411542--96411586 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
96411532 ATCTAATATT
* **
96411542 TATTAAAAAATTTGGAAAA
1 TATTAAAAAATATAAAAAA
96411561 TATTAAAAAATATAAAAAA
1 TATTAAAAAATATAAAAAA
96411580 TA-TAAAA
1 TATTAAAA
96411587 TTTTTTATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (19 bp):
TATTAAAAAATATAAAAAA
Found at i:96412850 original size:63 final size:62
Alignment explanation
Indices: 96412777--96412912 Score: 157
Period size: 63 Copynumber: 2.2 Consensus size: 62
96412767 ACAGCCTGGG
* * * *
96412777 CACACACCCGTCTCCCTGGCTTGTGTGACC-CTAAATCCAAAATAGTGAGTTACACGGCTTGGA
1 CACACACCCGTCTCCCTAGCTTGTGT-ACCTCCAAATCCAAAACAGTGAGTTACACGGCCT-GA
* * * * *
96412840 CACACGCCCGTGTCTCTAGCTTGTGTACCTCCAATTCCAAAACAGTGAGTTACATGGCCTGA
1 CACACACCCGTCTCCCTAGCTTGTGTACCTCCAAATCCAAAACAGTGAGTTACACGGCCTGA
*
96412902 CACACAACCGT
1 CACACACCCGT
96412913 GTGGCGTCAA
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
62 14 0.23
63 47 0.77
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.24
Consensus pattern (62 bp):
CACACACCCGTCTCCCTAGCTTGTGTACCTCCAAATCCAAAACAGTGAGTTACACGGCCTGA
Found at i:96413415 original size:6 final size:6
Alignment explanation
Indices: 96413406--96413462 Score: 57
Period size: 6 Copynumber: 9.8 Consensus size: 6
96413396 TGAGAAAACC
* * *
96413406 AAAAAG AAAAAG --AAAG AAAAAG AAAAAG AAGGAAG AAGAAG AAGAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AA-AAAG AAAAAG AAAAAG
96413453 -AAAAG AAAAA
1 AAAAAG AAAAA
96413463 CTAACGTAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
4 4 0.09
5 4 0.09
6 32 0.71
7 5 0.11
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:96413427 original size:16 final size:16
Alignment explanation
Indices: 96413406--96413462 Score: 73
Period size: 16 Copynumber: 3.7 Consensus size: 16
96413396 TGAGAAAACC
96413406 AAAAAGAAAAAGAAAG
1 AAAAAGAAAAAGAAAG
*
96413422 AAAAAGAAAAAGAAGG
1 AAAAAGAAAAAGAAAG
* *
96413438 AAGAAGAAGAAG-AAG
1 AAAAAGAAAAAGAAAG
96413453 -AAAAGAAAAA
1 AAAAAGAAAAA
96413463 CTAACGTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
14 8 0.23
15 2 0.06
16 25 0.71
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAAAGAAAG
Found at i:96413445 original size:3 final size:3
Alignment explanation
Indices: 96413409--96413459 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
96413399 GAAAACCAAA
* * *
96413409 AAG AAA AAG AAAG AAA AAG AAA AAG AAGG AAG AAG AAG AAG AAG AA-
1 AAG AAG AAG -AAG AAG AAG AAG AAG AA-G AAG AAG AAG AAG AAG AAG
96413455 AAG AA
1 AAG AA
96413460 AAACTAACGT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
2 2 0.05
3 31 0.79
4 6 0.15
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:96414465 original size:28 final size:29
Alignment explanation
Indices: 96414404--96414499 Score: 88
Period size: 28 Copynumber: 3.3 Consensus size: 29
96414394 CAAATTAATT
* * * *
96414404 TTTTTTTTATAATTTTAACATTTTTTTCTAA
1 TTTTTTCTATAATTTTAA-ATATCTTTAT-A
96414435 TTTTTTCTA-AATTTTAAATATCTTTATA
1 TTTTTTCTATAATTTTAAATATCTTTATA
* * *
96414463 TTTTTT-TATAATTTTGAATATTTTTATT
1 TTTTTTCTATAATTTTAAATATCTTTATA
96414491 TTCTTTTCT
1 TT-TTTTCT
96414500 GGATTTTTAT
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
27 2 0.04
28 25 0.45
29 11 0.20
30 9 0.16
31 8 0.15
ACGTcount: A:0.25, C:0.06, G:0.01, T:0.68
Consensus pattern (29 bp):
TTTTTTCTATAATTTTAAATATCTTTATA
Found at i:96417200 original size:17 final size:16
Alignment explanation
Indices: 96417164--96417202 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
96417154 CAAAGGATTC
* *
96417164 ATTATTCATTTTTTAT
1 ATTATTAATTTTTTAA
96417180 ATTATTAATTATTTTAA
1 ATTATTAATT-TTTTAA
96417197 ATTATT
1 ATTATT
96417203 TTAGGGTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (16 bp):
ATTATTAATTTTTTAA
Found at i:96417616 original size:23 final size:22
Alignment explanation
Indices: 96417590--96417638 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
96417580 AATTTCTTCT
* *
96417590 TTTTCGTATTATTCATTTTAACC
1 TTTTAGTATTATT-ATTTTAAAC
*
96417613 TTTTATTATTATTATTTTAAAC
1 TTTTAGTATTATTATTTTAAAC
96417635 TTTT
1 TTTT
96417639 TACATTTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.24, C:0.10, G:0.02, T:0.63
Consensus pattern (22 bp):
TTTTAGTATTATTATTTTAAAC
Found at i:96417640 original size:23 final size:23
Alignment explanation
Indices: 96417596--96417638 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
96417586 TTCTTTTTCG
96417596 TATTATTCATTTTAACCTTTTAT
1 TATTATTCATTTTAACCTTTTAT
*
96417619 TATTATT-ATTTTAAACTTTT
1 TATTATTCATTTTAACCTTTT
96417639 TACATTTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (23 bp):
TATTATTCATTTTAACCTTTTAT
Found at i:96421305 original size:19 final size:18
Alignment explanation
Indices: 96421281--96421326 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
96421271 CGATGCCTTT
* *
96421281 TGCATTAATTTCATGCATC
1 TGCATTAATTACAT-CATA
96421300 TGCATTACATTACATCATA
1 TGCATTA-ATTACATCATA
96421319 TGCATTAA
1 TGCATTAA
96421327 AGTCTACCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.71
20 6 0.25
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.39
Consensus pattern (18 bp):
TGCATTAATTACATCATA
Found at i:96430788 original size:21 final size:21
Alignment explanation
Indices: 96430746--96430789 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
96430736 TTACTCCAAG
*
96430746 GAAGCCGATTGATCCATCTCA
1 GAAGCCGATTCATCCATCTCA
*
96430767 GAAGCCGGATTCAT-CATTTCA
1 GAAGCC-GATTCATCCATCTCA
96430788 GA
1 GA
96430790 CAAGCTCTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (21 bp):
GAAGCCGATTCATCCATCTCA
Found at i:96435443 original size:26 final size:26
Alignment explanation
Indices: 96435412--96435515 Score: 163
Period size: 26 Copynumber: 4.0 Consensus size: 26
96435402 TGAAATGCCC
*
96435412 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
96435438 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
96435464 ATCATAGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
96435490 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
96435516 GTCAATTTGT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 71 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:96441950 original size:82 final size:82
Alignment explanation
Indices: 96441839--96442004 Score: 296
Period size: 82 Copynumber: 2.0 Consensus size: 82
96441829 TAAAATCTAC
* *
96441839 TTATATATGGAAACTTATCTTTTTGATTTGATTCCAATAAATCTGATTAAAATTTTAAATCAAAT
1 TTATATATGGAAACTTATCTTATTAATTTGATTCCAATAAATCTGATTAAAATTTTAAATCAAAT
96441904 TGAGTTAATGGTAGATT
66 TGAGTTAATGGTAGATT
*
96441921 TTATATATGGAAACTTATCTTATTAATTTGATTCCAATAAATCTGATTAAAATTTTATATCAAAT
1 TTATATATGGAAACTTATCTTATTAATTTGATTCCAATAAATCTGATTAAAATTTTAAATCAAAT
*
96441986 TGATTTAATGGTAGATT
66 TGAGTTAATGGTAGATT
96442003 TT
1 TT
96442005 GTGTATTTTT
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 80 1.00
ACGTcount: A:0.37, C:0.07, G:0.11, T:0.45
Consensus pattern (82 bp):
TTATATATGGAAACTTATCTTATTAATTTGATTCCAATAAATCTGATTAAAATTTTAAATCAAAT
TGAGTTAATGGTAGATT
Found at i:96446857 original size:18 final size:18
Alignment explanation
Indices: 96446834--96446869 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
96446824 TTAACTTAAT
96446834 TAAATCCTTAATTTCTAC
1 TAAATCCTTAATTTCTAC
96446852 TAAATCCTTAATTTCTAC
1 TAAATCCTTAATTTCTAC
96446870 CTCCTAACCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.44
Consensus pattern (18 bp):
TAAATCCTTAATTTCTAC
Found at i:96448849 original size:35 final size:35
Alignment explanation
Indices: 96448799--96448869 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
96448789 TTATCTTCAG
*
96448799 AGTTTGTTTCTTATAGATCATGTAATATTCCTTAC
1 AGTTTGTTTCGTATAGATCATGTAATATTCCTTAC
96448834 AGTTTGTTTCGTATAGATCATGTAATATTCCTTAC
1 AGTTTGTTTCGTATAGATCATGTAATATTCCTTAC
96448869 A
1 A
96448870 CTTATCTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.27, C:0.14, G:0.13, T:0.46
Consensus pattern (35 bp):
AGTTTGTTTCGTATAGATCATGTAATATTCCTTAC
Found at i:96451539 original size:17 final size:19
Alignment explanation
Indices: 96451519--96451557 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
96451509 AACATAATAA
*
96451519 TATATAA-TATAT-TTTAT
1 TATATAATTACATATTTAT
96451536 TATATAATTACATATTTAT
1 TATATAATTACATATTTAT
96451555 TAT
1 TAT
96451558 TTTATTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 4 0.21
19 8 0.42
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATAATTACATATTTAT
Found at i:96453010 original size:53 final size:52
Alignment explanation
Indices: 96452863--96453018 Score: 174
Period size: 52 Copynumber: 3.0 Consensus size: 52
96452853 TGACGGAAAA
* *
96452863 GATGTGATATGTGCTTCCGTATAAGACCATAGT-TGGGCTATGGCATCGTTAC
1 GATGTGATATGTGATTCCGTATAAGACCATA-TCTGGGCTATGGCATCGGTAC
* * * * **
96452915 AATGTGAT-T-CGAGTTCCCATATAAGACCATAACTGGGCTATGGCATCGGTGT
1 GATGTGATATGTGA-TT-CCGTATAAGACCATATCTGGGCTATGGCATCGGTAC
*
96452967 GATGTGATAATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCGGTA
1 GATGTGAT-ATGTGATTCCGTATAAGACCATATCTGGGCTATGGCATCGGTA
96453019 TGTTTTGTGA
Statistics
Matches: 84, Mismatches: 14, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
50 1 0.01
51 3 0.04
52 44 0.52
53 31 0.37
54 3 0.04
55 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (52 bp):
GATGTGATATGTGATTCCGTATAAGACCATATCTGGGCTATGGCATCGGTAC
Found at i:96458748 original size:20 final size:20
Alignment explanation
Indices: 96458723--96458764 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
96458713 CAGTGAAAAT
96458723 ATTAGTAAAAGTGTTATGGC
1 ATTAGTAAAAGTGTTATGGC
96458743 ATTAGTAAAAGTGTTATGGC
1 ATTAGTAAAAGTGTTATGGC
96458763 AT
1 AT
96458765 CGACATGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.36
Consensus pattern (20 bp):
ATTAGTAAAAGTGTTATGGC
Found at i:96459809 original size:52 final size:52
Alignment explanation
Indices: 96459738--96459937 Score: 182
Period size: 52 Copynumber: 3.9 Consensus size: 52
96459728 GACAGAAAAG
* *
96459738 ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
1 ATGTGATATGCGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
* ***
96459790 ATGTGAT-T-CGAGTTCCCGTATAAGACCATAGCTGGGCTATGGCATCAGTGTG
1 ATGTGATATGCGA-TT-CCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
* * * *
96459842 ATGTGATAATGCGATTCCATATAAGACCATATCTAGGATATGGCATCGGT---
1 ATGTGAT-ATGCGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
* * * * *
96459892 ATGT--TATGTGA-TCCATATAAGACCATGGCAGGGCTATGGCTTCGGT
1 ATGTGATATGCGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGT
96459938 GTGTGATGTG
Statistics
Matches: 125, Mismatches: 18, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
46 29 0.23
47 5 0.04
48 1 0.01
50 5 0.04
51 3 0.02
52 47 0.38
53 29 0.23
54 3 0.02
55 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (52 bp):
ATGTGATATGCGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
Found at i:96459930 original size:46 final size:46
Alignment explanation
Indices: 96459857--96459947 Score: 112
Period size: 46 Copynumber: 2.0 Consensus size: 46
96459847 ATAATGCGAT
* *
96459857 TCCATATAAGACCATATCTAGGATATGGCATCGGTATGTTATGTGA
1 TCCATATAAGACCATAGCTAGGATATGGCATCGGTATGTGATGTGA
* * * *
96459903 TCCATATAAGACCATGGC-AGGGCTATGGCTTCGGTGTGTGATGTG
1 TCCATATAAGACCATAGCTA-GGATATGGCATCGGTATGTGATGTG
96459948 TGACAATGTG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
45 1 0.03
46 37 0.97
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCATATAAGACCATAGCTAGGATATGGCATCGGTATGTGATGTGA
Found at i:96472129 original size:107 final size:105
Alignment explanation
Indices: 96471968--96472174 Score: 279
Period size: 107 Copynumber: 2.0 Consensus size: 105
96471958 CAAGTCTAAA
* * * * *
96471968 TTTTTTGTGTAATTTTTTTTTGTCATAGTAATTTTACCCGAAATTTCAAAAATTTTGGGTGGAAT
1 TTTTTTGTGTAATTTTCTTTTATCATAATAATTTTACCCGAAACTTCAAAAATTTTGGGTGGAAA
* * *
96472033 TTTTTGGGCAAATAGCTTTGTCCTTAAAGAAGTCTTTAAG
66 TTTTTGGACAAATAGCTTGGTCCTTAAACAAGTCTTTAAG
* * * *
96472073 TTTTTTGTGTAAGCTTTTCTTTTATCATAATATTTTTTCTCGAACCTTCAAAAATTTTGGGTGGA
1 TTTTTTGTGTAA--TTTTCTTTTATCATAATAATTTTACCCGAAACTTCAAAAATTTTGGGTGGA
*
96472138 AATTTTTGGACAAATAGCTTGGTCTTTAAACAAGTCT
64 AATTTTTGGACAAATAGCTTGGTCCTTAAACAAGTCT
96472175 ATTTTTTATA
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
105 12 0.14
107 75 0.86
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.46
Consensus pattern (105 bp):
TTTTTTGTGTAATTTTCTTTTATCATAATAATTTTACCCGAAACTTCAAAAATTTTGGGTGGAAA
TTTTTGGACAAATAGCTTGGTCCTTAAACAAGTCTTTAAG
Found at i:96472437 original size:31 final size:30
Alignment explanation
Indices: 96472398--96472457 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
96472388 ACATGCACTA
96472398 TTTTTTATCAGTTTGGTCAT-TATACTTTAC
1 TTTTTTATCAGTTTGG-CATCTATACTTTAC
*
96472428 TTTTGTTATCAGTTTGGCCTCTATACTTTA
1 TTTT-TTATCAGTTTGGCATCTATACTTTA
96472458 ATTATGCAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 6 0.22
31 21 0.78
ACGTcount: A:0.18, C:0.15, G:0.12, T:0.55
Consensus pattern (30 bp):
TTTTTTATCAGTTTGGCATCTATACTTTAC
Found at i:96472861 original size:21 final size:19
Alignment explanation
Indices: 96472818--96472903 Score: 73
Period size: 22 Copynumber: 4.2 Consensus size: 19
96472808 TAAAAATATA
* * *
96472818 AAAAAAATCATAAAAATGT
1 AAAAAATTCATAAAATTTT
*
96472837 AAAAGAATTCGTAAAATTTCT
1 AAAA-AATTCATAAAATTT-T
*
96472858 AAAAAAATACCATAAAATTCTTT
1 -AAAAAAT-TCATAAAA-T-TTT
96472881 AAAAAATTCATAAAATTTT
1 AAAAAATTCATAAAATTTT
96472900 AAAA
1 AAAA
96472904 TTTTATAAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
19 11 0.20
20 11 0.20
21 11 0.20
22 17 0.31
23 2 0.04
24 2 0.04
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.29
Consensus pattern (19 bp):
AAAAAATTCATAAAATTTT
Found at i:96472873 original size:22 final size:21
Alignment explanation
Indices: 96472818--96472903 Score: 63
Period size: 21 Copynumber: 4.2 Consensus size: 21
96472808 TAAAAATATA
* *
96472818 AAAAAAAT-CATAAAA-ATGT
1 AAAAAAATCCATAAAATTTCT
* * *
96472837 AAAAGAATTCGTAAAATTTCT
1 AAAAAAATCCATAAAATTTCT
96472858 AAAAAAATACCATAAAA-TTCTT
1 AAAAAAAT-CCATAAAATTTC-T
* *
96472880 TAAAAAATTCATAAAATTT-T
1 AAAAAAATCCATAAAATTTCT
96472900 AAAA
1 AAAA
96472904 TTTTATAAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
19 7 0.13
20 10 0.19
21 19 0.37
22 16 0.31
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.29
Consensus pattern (21 bp):
AAAAAAATCCATAAAATTTCT
Found at i:96475399 original size:40 final size:40
Alignment explanation
Indices: 96475329--96475509 Score: 267
Period size: 40 Copynumber: 4.6 Consensus size: 40
96475319 AAACCAAGTA
** ** *
96475329 CCTTCGGGGTTTAG-CCGGTTATAGCCACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
96475368 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
96475408 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
96475448 CCTTCGGGACTTGGCCCGGTTATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
96475488 CCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
96475510 CAATCCGAAT
Statistics
Matches: 131, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 25 0.19
40 106 0.81
ACGTcount: A:0.20, C:0.28, G:0.24, T:0.28
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:96479854 original size:4 final size:4
Alignment explanation
Indices: 96479847--96479871 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
96479837 TAAACAAATG
96479847 ATTA ATTA ATTA ATTA ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA A
96479872 GTGAGCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:96480466 original size:31 final size:32
Alignment explanation
Indices: 96480399--96480466 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 32
96480389 CAATATTTAT
* * * * *
96480399 AAATTCTATTAATTTGATTTTAATTTTTTAAA
1 AAATTCAATAAATTTAATCTTAATTTTTAAAA
96480431 AAATTCAATAAATTTAATCTTAA-TTTTAAAA
1 AAATTCAATAAATTTAATCTTAATTTTTAAAA
96480462 AAATT
1 AAATT
96480467 AAGAATAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
31 12 0.39
32 19 0.61
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (32 bp):
AAATTCAATAAATTTAATCTTAATTTTTAAAA
Found at i:96481008 original size:10 final size:9
Alignment explanation
Indices: 96480968--96481003 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
96480958 TACATCAAAT
96480968 ACATTAAAA
1 ACATTAAAA
96480977 ACATTAAAA
1 ACATTAAAA
96480986 ACATTAAAA
1 ACATTAAAA
*
96480995 AAATTAAAA
1 ACATTAAAA
96481004 TAAATGTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (9 bp):
ACATTAAAA
Found at i:96494086 original size:48 final size:50
Alignment explanation
Indices: 96493974--96494105 Score: 162
Period size: 48 Copynumber: 2.7 Consensus size: 50
96493964 ATAGAGGCCG
* * * * * *
96493974 ATGCCATGTCCCAAACACGGTCTTACACT-AGCTCTTACATATCCGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGA-CACCTACATATACGTGCCA
*
96494024 ATGCCATGTCCCAGACATGGTCTTACACTGACACCT-C-TATAGGTGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACCTACATATACGTGCCA
*
96494072 ATGCCATGTCCCAGATATGGTCTTACACTGACAC
1 ATGCCATGTCCCAGACATGGTCTTACACTGACAC
96494106 ATCTCGTAGT
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
48 41 0.56
49 1 0.01
50 30 0.41
51 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.26
Consensus pattern (50 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACACCTACATATACGTGCCA
Found at i:96494226 original size:47 final size:45
Alignment explanation
Indices: 96493969--96494287 Score: 147
Period size: 48 Copynumber: 6.8 Consensus size: 45
96493959 TTGAAATAGA
* * *
96493969 GGCCGATGCCATGTCCCAAACACGGTCTTACACTAGCTCTTACATATCCGT
1 GGCCGATG-CATGTCCCAGACA-TGTCTTACACTAGCTC-T-CATA--AGT
* *
96494020 -GCCGATGCCATGTCCCAGACATGGTCTTACACT-GACACCTCTATAGGT
1 GGCCGATG-CATGTCCCAGACAT-GTCTTACACTAG-C-TCTC-ATAAGT
* * * *
96494068 -GCCAATGCCATGTCCCAGATATGGTCTTACACTGACACATCTCGT-AGT
1 GGCCGATG-CATGTCCCAGACAT-GTCTTACACT-A-GC-TCTCATAAGT
* * * *
96494116 ---CGATGCATGTCCCAGACATGTCTTATATTGGCT-TACAT-CGT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATAAGT
* * *
96494157 GAGGACGATGCATGTCCTAGACATGTCTTACACTAGCTCTCGTCTCAA-T
1 --GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTC--AT-AAGT
* * * *
96494206 -GCCGGTGCCATGTCCCAGACACGATCTTACATTGGCTCTCATAATGT
1 GGCCGATG-CATGTCCCAGACATG-TCTTACACTAGCTCTCATAA-GT
*
96494253 GGCCGATGCATGTCCCAGACATGTTTTACACTAGC
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGC
96494288 ATACAAATAA
Statistics
Matches: 209, Mismatches: 36, Indels: 51
0.71 0.12 0.17
Matches are distributed among these distances:
40 1 0.00
41 5 0.02
42 1 0.00
44 8 0.04
45 15 0.07
46 49 0.23
47 29 0.14
48 56 0.27
49 4 0.02
50 40 0.19
51 1 0.00
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (45 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAAGT
Found at i:96501102 original size:20 final size:21
Alignment explanation
Indices: 96501065--96501103 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
96501055 ATATCCAAAT
* *
96501065 ATTTTTTTTGTTTCTTTTAGA
1 ATTTTGTTTGTTTATTTTAGA
96501086 ATTTTGTTT-TTTATTTTA
1 ATTTTGTTTGTTTATTTTA
96501104 TTTTTTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.15, C:0.03, G:0.08, T:0.74
Consensus pattern (21 bp):
ATTTTGTTTGTTTATTTTAGA
Found at i:96505130 original size:14 final size:14
Alignment explanation
Indices: 96505111--96505140 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
96505101 TTATATCGAG
96505111 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
96505125 ACCAATCCAATTCA
1 ACCAATCCAAATCA
96505139 AC
1 AC
96505141 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:96514865 original size:27 final size:27
Alignment explanation
Indices: 96514827--96514890 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
96514817 ATCATCTCCT
*
96514827 CGTCACCTACTCTAAGTACCAATTTAC
1 CGTCACCCACTCTAAGTACCAATTTAC
96514854 CGTCACCCACTCTAAGTACCAATTTAC
1 CGTCACCCACTCTAAGTACCAATTTAC
96514881 CGTCACCCAC
1 CGTCACCCAC
96514891 GTCAATTACA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.28, C:0.39, G:0.08, T:0.25
Consensus pattern (27 bp):
CGTCACCCACTCTAAGTACCAATTTAC
Found at i:96526003 original size:11 final size:11
Alignment explanation
Indices: 96525987--96526014 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
96525977 ATTGTAGACC
96525987 ATAAAAATAAA
1 ATAAAAATAAA
96525998 ATAAAAATAAA
1 ATAAAAATAAA
96526009 ATAAAA
1 ATAAAA
96526015 TTTTTTCTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (11 bp):
ATAAAAATAAA
Found at i:96531675 original size:12 final size:10
Alignment explanation
Indices: 96531652--96531695 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
96531642 TTTATTACTT
96531652 AAAAAATATA
1 AAAAAATATA
*
96531662 AAAAAATATT
1 AAAAAATATA
*
96531672 TAAAAATA-A
1 AAAAAATATA
*
96531681 AAAAAAAATA
1 AAAAAATATA
96531691 AAAAA
1 AAAAA
96531696 GTTCCACACA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
9 6 0.21
10 22 0.79
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (10 bp):
AAAAAATATA
Found at i:96533722 original size:12 final size:12
Alignment explanation
Indices: 96533705--96533743 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
96533695 AAGTTAAGAA
96533705 AGAAAAAGAAAG
1 AGAAAAAGAAAG
96533717 AGAAAAAGAAAG
1 AGAAAAAGAAAG
*
96533729 A-AAGAAGAAATG
1 AGAAAAAGAAA-G
96533741 AGA
1 AGA
96533744 GACACACGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
11 8 0.33
12 15 0.62
13 1 0.04
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.03
Consensus pattern (12 bp):
AGAAAAAGAAAG
Found at i:96533745 original size:26 final size:22
Alignment explanation
Indices: 96533700--96533743 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 22
96533690 ATGCAAAGTT
96533700 AAGAAAGAAAAAGAAAGAGAAA
1 AAGAAAGAAAAAGAAAGAGAAA
96533722 AAGAAAGAAAGAAGAAATGAGA
1 AAGAAAGAAA-AAGAAA-GAGA
96533744 GACACACGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 10 0.50
23 6 0.30
24 4 0.20
ACGTcount: A:0.73, C:0.00, G:0.25, T:0.02
Consensus pattern (22 bp):
AAGAAAGAAAAAGAAAGAGAAA
Found at i:96545414 original size:20 final size:18
Alignment explanation
Indices: 96545367--96545415 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
96545357 CAAGATAAAA
96545367 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
96545384 ATTAAGA-TAATCATTCTAAT
1 ATTAA-ATTAAT-ATT-TAAT
96545404 ATTAAATTAATA
1 ATTAAATTAATA
96545416 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 5 0.19
20 13 0.48
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:96545456 original size:32 final size:30
Alignment explanation
Indices: 96545400--96545469 Score: 88
Period size: 32 Copynumber: 2.3 Consensus size: 30
96545390 ATAATCATTC
*
96545400 TAATATTAAATTAATAAAATACTATTAAGA
1 TAATATTAAATTAATAAAATACTATTAAAA
*
96545430 TAAGTATTAAATTTAATATTAA-ACTATTAAAA
1 TAA-TATTAAA-TTAATA-AAATACTATTAAAA
96545462 TAATATTA
1 TAATATTA
96545470 TTTTTGGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 3 0.09
31 12 0.34
32 18 0.51
33 2 0.06
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (30 bp):
TAATATTAAATTAATAAAATACTATTAAAA
Found at i:96547484 original size:27 final size:27
Alignment explanation
Indices: 96547470--96547545 Score: 100
Period size: 26 Copynumber: 2.9 Consensus size: 27
96547460 TTGTCCCTGC
* *
96547470 GGACTACCCCATGTTTACTATCTCGAT
1 GGACTACCCCATGTTTACTGTCCCGAT
* *
96547497 GGACTACCCTAT-TTTACTGTTCCGAT
1 GGACTACCCCATGTTTACTGTCCCGAT
*
96547523 GGACTACCCCATGTTTATTGTCC
1 GGACTACCCCATGTTTACTGTCC
96547546 TAGCAGACTA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 22 0.54
27 19 0.46
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.36
Consensus pattern (27 bp):
GGACTACCCCATGTTTACTGTCCCGAT
Found at i:96553002 original size:23 final size:23
Alignment explanation
Indices: 96552958--96553002 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
96552948 TTTAGTTTGG
* *
96552958 ATTATCCTTCAGAGATCCACAAT
1 ATTATCATTCAGAGATCAACAAT
96552981 ATTATCATTC-GAGATGCAACAA
1 ATTATCATTCAGAGAT-CAACAA
96553003 ATTGAGGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (23 bp):
ATTATCATTCAGAGATCAACAAT
Found at i:96558879 original size:21 final size:21
Alignment explanation
Indices: 96558854--96558902 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
96558844 TGTCTTATAT
96558854 ACTTAATAAATATTTAATTAA
1 ACTTAATAAATATTTAATTAA
* * ** *
96558875 TCTTATTTTATTTTTAATTAA
1 ACTTAATAAATATTTAATTAA
96558896 ACTTAAT
1 ACTTAAT
96558903 TAGATTAATG
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (21 bp):
ACTTAATAAATATTTAATTAA
Found at i:96559130 original size:20 final size:20
Alignment explanation
Indices: 96559107--96559146 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
96559097 TTATACTGAC
*
96559107 CTTGTAAATATTAAATAATA
1 CTTGTAAATACTAAATAATA
96559127 CTTGTAAATACTAAATAATA
1 CTTGTAAATACTAAATAATA
96559147 TTTACGGACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.38
Consensus pattern (20 bp):
CTTGTAAATACTAAATAATA
Found at i:96561503 original size:30 final size:30
Alignment explanation
Indices: 96561469--96561569 Score: 71
Period size: 30 Copynumber: 3.1 Consensus size: 30
96561459 TATATTTGAA
96561469 AATAAACTATATAAAAAGGTTAAATATTAT
1 AATAAACTATATAAAAAGGTTAAATATTAT
** * *
96561499 AATAATA-TATATACTGCATAGAA-AATATATATTTGAA
1 AATAA-ACTATATA----A-A-AAGGTTAAATA-TT-AT
96561536 AATAAACTATATAAAAAGGTTAAATATTAT
1 AATAAACTATATAAAAAGGTTAAATATTAT
96561566 AATA
1 AATA
96561570 TATAAAATAC
Statistics
Matches: 52, Mismatches: 8, Indels: 22
0.63 0.10 0.27
Matches are distributed among these distances:
30 16 0.31
31 5 0.10
32 6 0.12
33 1 0.02
34 1 0.02
35 6 0.12
36 5 0.10
37 12 0.23
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.34
Consensus pattern (30 bp):
AATAAACTATATAAAAAGGTTAAATATTAT
Found at i:96561537 original size:67 final size:68
Alignment explanation
Indices: 96561432--96561573 Score: 270
Period size: 67 Copynumber: 2.1 Consensus size: 68
96561422 AAATGATAAT
96561432 ATAATATATATACATGCATAGAAAATATATATTTGAAAATAAACTATATAAAAAGGTTAAATATT
1 ATAATATATATACATGCATAGAAAATATATATTTGAAAATAAACTATATAAAAAGGTTAAATATT
96561497 ATA
66 ATA
96561500 ATAATATATATAC-TGCATAGAAAATATATATTTGAAAATAAACTATATAAAAAGGTTAAATATT
1 ATAATATATATACATGCATAGAAAATATATATTTGAAAATAAACTATATAAAAAGGTTAAATATT
96561564 ATA
66 ATA
96561567 AT-ATATA
1 ATAATATA
96561574 AAATACATAA
Statistics
Matches: 74, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
66 5 0.07
67 56 0.76
68 13 0.18
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.35
Consensus pattern (68 bp):
ATAATATATATACATGCATAGAAAATATATATTTGAAAATAAACTATATAAAAAGGTTAAATATT
ATA
Found at i:96561904 original size:22 final size:21
Alignment explanation
Indices: 96561869--96561926 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 21
96561859 AAAGGATATC
* * *
96561869 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAAAT
96561890 TACAAAATCATATCTTCTAAAAT
1 TAC-AAATCATATC-TCTAAAAT
* *
96561913 TGCATATCATATCT
1 TACAAATCATATCT
96561927 AAGATTGCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.57
23 9 0.30
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAAAT
Found at i:96561933 original size:19 final size:19
Alignment explanation
Indices: 96561905--96561995 Score: 125
Period size: 19 Copynumber: 4.9 Consensus size: 19
96561895 AATCATATCT
*
96561905 TCTAAAATTGCATATCATA
1 TCTAAGATTGCATATCATA
96561924 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
*
96561942 TCTAAGATAG--TATCATA
1 TCTAAGATTGCATATCATA
*
96561959 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATATCATA
*
96561978 ACTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
96561996 TGAAGATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.24
18 15 0.24
19 33 0.52
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.34
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:96561956 original size:35 final size:36
Alignment explanation
Indices: 96561917--96561985 Score: 113
Period size: 35 Copynumber: 1.9 Consensus size: 36
96561907 TAAAATTGCA
* *
96561917 TATCATATCTAAGATTGCA-ATCATATCTAAGATAG
1 TATCATATCTAAGATTGCATATCACAACTAAGATAG
96561952 TATCATATCTAAGATTGCATATCACAACTAAGAT
1 TATCATATCTAAGATTGCATATCACAACTAAGAT
96561986 TGCATATCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 19 0.61
36 12 0.39
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (36 bp):
TATCATATCTAAGATTGCATATCACAACTAAGATAG
Found at i:96566125 original size:32 final size:34
Alignment explanation
Indices: 96566089--96566153 Score: 89
Period size: 32 Copynumber: 2.0 Consensus size: 34
96566079 TAACAGTGGT
*
96566089 ACTGGGCCAGAGCCC-TT-TTCAGATTACAATAA
1 ACTGGGCCAGAGCCCATTATTCAGATAACAATAA
**
96566121 ACTGGGCCTTAGCCCATTATTCAGATAACAATA
1 ACTGGGCCAGAGCCCATTATTCAGATAACAATA
96566154 TGGCCCATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 13 0.46
33 2 0.07
34 13 0.46
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (34 bp):
ACTGGGCCAGAGCCCATTATTCAGATAACAATAA
Found at i:96568028 original size:26 final size:26
Alignment explanation
Indices: 96567998--96568105 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
96567988 TGAAATTCCC
96567998 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
96568024 ATCATGGAACATATACCTAACTCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
96568050 ATCATGAAACATTTATCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
96568076 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
96568102 ATCA
1 ATCA
96568106 ATTTGCATTA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:96570490 original size:16 final size:16
Alignment explanation
Indices: 96570471--96570501 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
96570461 TTTCACTAAA
96570471 ATCATTTAATAAATTC
1 ATCATTTAATAAATTC
*
96570487 ATCATTTAATGAATT
1 ATCATTTAATAAATT
96570502 AAAAGCTTCA
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:0.42, C:0.10, G:0.03, T:0.45
Consensus pattern (16 bp):
ATCATTTAATAAATTC
Found at i:96571010 original size:30 final size:30
Alignment explanation
Indices: 96570976--96571036 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
96570966 TAACTATCAA
96570976 AACGTTAAAATTTTATGACGAAACTTTAAT
1 AACGTTAAAATTTTATGACGAAACTTTAAT
96571006 AACGTTAAAATTTTATGACGAAACTTTAAT
1 AACGTTAAAATTTTATGACGAAACTTTAAT
96571036 A
1 A
96571037 CTAACTTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (30 bp):
AACGTTAAAATTTTATGACGAAACTTTAAT
Found at i:96572889 original size:25 final size:25
Alignment explanation
Indices: 96572861--96572918 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
96572851 AGTTGTAAAA
* *
96572861 GGTAAGCTCATACAACCTGAATATC
1 GGTAAACTCATACAACCTAAATATC
* * *
96572886 GGTAAACTCATGCGAGCTAAATATC
1 GGTAAACTCATACAACCTAAATATC
96572911 GGTAAACT
1 GGTAAACT
96572919 TTCTCAAGCT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (25 bp):
GGTAAACTCATACAACCTAAATATC
Found at i:96581839 original size:17 final size:18
Alignment explanation
Indices: 96581819--96581856 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
96581809 TGGCATGCCA
96581819 ATTGTATTAAAAT-ATTT
1 ATTGTATTAAAATAATTT
*
96581836 ATTGTATTAAATTAATTT
1 ATTGTATTAAAATAATTT
96581854 ATT
1 ATT
96581857 AATAAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (18 bp):
ATTGTATTAAAATAATTT
Found at i:96582175 original size:12 final size:12
Alignment explanation
Indices: 96582158--96582190 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
96582148 CGACCCGCCC
96582158 ATATTAATTTTT
1 ATATTAATTTTT
96582170 ATATT-ATTTTT
1 ATATTAATTTTT
96582181 ATA-TAATTTT
1 ATATTAATTTT
96582191 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:96582348 original size:30 final size:30
Alignment explanation
Indices: 96582312--96582372 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
96582302 CAATTTAACA
*
96582312 AGCAAATG-CTTCTAAAATAATAACAAAATT
1 AGCAAATGTCTT-TAAAATAATAAAAAAATT
96582342 AGCAAATGTCTTTAAAATAATAAAAAAATT
1 AGCAAATGTCTTTAAAATAATAAAAAAATT
96582372 A
1 A
96582373 ACAATAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 26 0.90
31 3 0.10
ACGTcount: A:0.56, C:0.10, G:0.07, T:0.28
Consensus pattern (30 bp):
AGCAAATGTCTTTAAAATAATAAAAAAATT
Found at i:96584353 original size:32 final size:32
Alignment explanation
Indices: 96584312--96584378 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
96584302 CGTTTATTAG
*
96584312 TTTTGAAATCTTTCTAACATCCCTGTATAATT
1 TTTTGAAATCTTTCTAACATCCCTGCATAATT
*
96584344 TTTTGAAATCTTTCTTACATCCCTGCATAATT
1 TTTTGAAATCTTTCTAACATCCCTGCATAATT
96584376 TTT
1 TTT
96584379 CAGCTTATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.25, C:0.19, G:0.06, T:0.49
Consensus pattern (32 bp):
TTTTGAAATCTTTCTAACATCCCTGCATAATT
Found at i:96594741 original size:17 final size:17
Alignment explanation
Indices: 96594716--96594762 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
96594706 TAATTTTTCG
96594716 AAAAA-TATTTTTACAA
1 AAAAATTATTTTTACAA
**
96594732 AAAAATTATTTGAACAA
1 AAAAATTATTTTTACAA
*
96594749 AAAATTTTATTTTT
1 AAAA-ATTATTTTT
96594763 TGAAAAATAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
16 5 0.21
17 13 0.54
18 6 0.25
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (17 bp):
AAAAATTATTTTTACAA
Found at i:96596488 original size:21 final size:21
Alignment explanation
Indices: 96596464--96596583 Score: 89
Period size: 21 Copynumber: 5.3 Consensus size: 21
96596454 AATATTGAAG
96596464 TAATATAATATATAATAAAAA
1 TAATATAATATATAATAAAAA
96596485 TAATATAATATAT-ATAGTAAAA
1 TAATATAATATATAATA--AAAA
* *
96596507 TGATATAATATATTATAAAATATA
1 TAATATAATATATAAT-AAA-A-A
* *
96596531 TAAATAAAATGTATAATAATGTAAA
1 T-AATATAATATATAATAA---AAA
* * *
96596556 TAATATGATAAATAATAAAGA
1 TAATATAATATATAATAAAAA
96596577 TAATATA
1 TAATATA
96596584 TATTATTTTT
Statistics
Matches: 78, Mismatches: 11, Indels: 20
0.72 0.10 0.18
Matches are distributed among these distances:
20 3 0.04
21 21 0.27
22 18 0.23
23 3 0.04
24 18 0.23
25 13 0.17
26 1 0.01
27 1 0.01
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (21 bp):
TAATATAATATATAATAAAAA
Found at i:96596530 original size:32 final size:32
Alignment explanation
Indices: 96596491--96596584 Score: 95
Period size: 33 Copynumber: 2.8 Consensus size: 32
96596481 AAAATAATAT
*
96596491 AATATATATAGTAAAATGATATAATATATTATAA
1 AATATATA-AATAAAATG-TATAATATATTATAA
96596525 AATATATAAATAAAATGTATAATA-ATGTA-AA
1 AATATATAAATAAAATGTATAATATAT-TATAA
*
96596556 TAATATGATAAATAATAAAG-ATAATATAT
1 -AATAT-ATAAATAA-AATGTATAATATAT
96596585 ATTATTTTTA
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
31 4 0.08
32 14 0.26
33 22 0.42
34 13 0.25
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (32 bp):
AATATATAAATAAAATGTATAATATATTATAA
Found at i:96599575 original size:21 final size:19
Alignment explanation
Indices: 96599528--96599578 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 19
96599518 AAAAAAATTC
*
96599528 TTTACTTTTAAAAGATTTT
1 TTTATTTTTAAAAGATTTT
*
96599547 TTTAATTTTTGAAATGATATTT
1 TTT-ATTTTT-AAAAGAT-TTT
96599569 TTTATTTTTA
1 TTTATTTTTA
96599579 TGACACATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 3 0.11
20 6 0.22
21 12 0.44
22 6 0.22
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (19 bp):
TTTATTTTTAAAAGATTTT
Found at i:96600073 original size:18 final size:19
Alignment explanation
Indices: 96600052--96600089 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
96600042 ATTTTAAAAA
96600052 TATATAAAT-TTTGGAATT
1 TATATAAATATTTGGAATT
*
96600070 TATATAAATATTTTGAATT
1 TATATAAATATTTGGAATT
96600089 T
1 T
96600090 TAAAAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (19 bp):
TATATAAATATTTGGAATT
Found at i:96600082 original size:20 final size:19
Alignment explanation
Indices: 96600059--96600130 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 19
96600049 AAATATATAA
*
96600059 ATTTTGGAATTTATATAAA-T
1 ATTTT-GAATTT-TAAAAATT
96600079 ATTTTGAATTTTAAAAATT
1 ATTTTGAATTTTAAAAATT
* *
96600098 ATTTTAAAATTTTGAAAATT
1 ATTTT-GAATTTTAAAAATT
96600118 ATTTTGAACTTTT
1 ATTTTGAA-TTTT
96600131 TTATAATTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.11
19 14 0.31
20 26 0.58
ACGTcount: A:0.39, C:0.01, G:0.07, T:0.53
Consensus pattern (19 bp):
ATTTTGAATTTTAAAAATT
Found at i:96600089 original size:19 final size:19
Alignment explanation
Indices: 96600052--96600102 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
96600042 ATTTTAAAAA
*
96600052 TATATAAAT-TTTGGAATT
1 TATATAAATATTTTGAATT
96600070 TATATAAATATTTTGAATT
1 TATATAAATATTTTGAATT
*
96600089 T-TAAAAATTATTTT
1 TATATAAA-TATTTT
96600103 AAAATTTTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 14 0.48
19 15 0.52
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (19 bp):
TATATAAATATTTTGAATT
Found at i:96612134 original size:27 final size:27
Alignment explanation
Indices: 96612104--96612167 Score: 128
Period size: 27 Copynumber: 2.4 Consensus size: 27
96612094 ATAGGGGAGT
96612104 AAAATTTTGGAGGAAAAATATTAAAAG
1 AAAATTTTGGAGGAAAAATATTAAAAG
96612131 AAAATTTTGGAGGAAAAATATTAAAAG
1 AAAATTTTGGAGGAAAAATATTAAAAG
96612158 AAAATTTTGG
1 AAAATTTTGG
96612168 TGGGAAACGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.53, C:0.00, G:0.19, T:0.28
Consensus pattern (27 bp):
AAAATTTTGGAGGAAAAATATTAAAAG
Found at i:96615339 original size:117 final size:117
Alignment explanation
Indices: 96615133--96615367 Score: 461
Period size: 117 Copynumber: 2.0 Consensus size: 117
96615123 ACAAACTCAT
*
96615133 ACATAATCATATCTTAATACTTTTCACATTTATTTCACATGTTCAACATGCCCTTAATAATCACA
1 ACATAATCATATATTAATACTTTTCACATTTATTTCACATGTTCAACATGCCCTTAATAATCACA
96615198 TACTTTCAGTAAATGGAAACAGTGTTTCAACTTTCAAATTACCATTAAGATG
66 TACTTTCAGTAAATGGAAACAGTGTTTCAACTTTCAAATTACCATTAAGATG
96615250 ACATAATCATATATTAATACTTTTCACATTTATTTCACATGTTCAACATGCCCTTAATAATCACA
1 ACATAATCATATATTAATACTTTTCACATTTATTTCACATGTTCAACATGCCCTTAATAATCACA
96615315 TACTTTCAGTAAATGGAAACAGTGTTTCAACTTTCAAATTACCATTAAGATG
66 TACTTTCAGTAAATGGAAACAGTGTTTCAACTTTCAAATTACCATTAAGATG
96615367 A
1 A
96615368 TATCATTCAA
Statistics
Matches: 117, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
117 117 1.00
ACGTcount: A:0.37, C:0.19, G:0.08, T:0.37
Consensus pattern (117 bp):
ACATAATCATATATTAATACTTTTCACATTTATTTCACATGTTCAACATGCCCTTAATAATCACA
TACTTTCAGTAAATGGAAACAGTGTTTCAACTTTCAAATTACCATTAAGATG
Found at i:96615392 original size:117 final size:117
Alignment explanation
Indices: 96615133--96615395 Score: 415
Period size: 117 Copynumber: 2.2 Consensus size: 117
96615123 ACAAACTCAT
* *
96615133 ACATAATCATATC-TTAATACTTTTCACATTTATTTCACATGTTCAACATGCCCTTAATAATCAC
1 ACATAATCATA-CATTAACACATTTCACATTTATTTCACATGTTCAACATGCCCTTAATAATCAC
96615197 ATACTTTCAGTAAATGGAAACAGTGTTTCAACTTTCAAATTACCATTAAGATG
65 ATACTTTCAGTAAATGGAAACAGTGTTTCAACTTTCAAATTACCATTAAGATG
* * *
96615250 ACATAATCATATATTAATACTTTTCACATTTATTTCACATGTTCAACATGCCCTTAATAATCACA
1 ACATAATCATACATTAACACATTTCACATTTATTTCACATGTTCAACATGCCCTTAATAATCACA
96615315 TACTTTCAGTAAATGGAAACAGTGTTTCAACTTTCAAATTACCATTAAGATG
66 TACTTTCAGTAAATGGAAACAGTGTTTCAACTTTCAAATTACCATTAAGATG
* *
96615367 ATATCATTCA-ACATT-ACACAATTTCACAT
1 ACAT-AATCATACATTAACAC-ATTTCACAT
96615396 ACTTTTACGA
Statistics
Matches: 137, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
116 3 0.02
117 130 0.95
118 4 0.03
ACGTcount: A:0.37, C:0.20, G:0.07, T:0.37
Consensus pattern (117 bp):
ACATAATCATACATTAACACATTTCACATTTATTTCACATGTTCAACATGCCCTTAATAATCACA
TACTTTCAGTAAATGGAAACAGTGTTTCAACTTTCAAATTACCATTAAGATG
Found at i:96617346 original size:30 final size:30
Alignment explanation
Indices: 96617312--96617374 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
96617302 ATTTATTTTA
96617312 TTGTTAATTTTCTTATTATTTTA-AAGGCAT
1 TTGTTAATTTTCTTATTATTTTAGAA-GCAT
*
96617342 TTGTTAATTTTTTTATTATTTTAGAAGCAT
1 TTGTTAATTTTCTTATTATTTTAGAAGCAT
96617372 TTG
1 TTG
96617375 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.25, C:0.05, G:0.11, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAGAAGCAT
Found at i:96619242 original size:31 final size:31
Alignment explanation
Indices: 96619207--96619268 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
96619197 GGTGATGTTA
* * *
96619207 AAATTTGTAATGGTATGTGCCTAGGAAGTCT
1 AAATTTGCAATGGCATGTACCTAGGAAGTCT
96619238 AAATTTGCAATGGCATGTACCTAGGAAGTCT
1 AAATTTGCAATGGCATGTACCTAGGAAGTCT
96619269 TTGTTTGAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (31 bp):
AAATTTGCAATGGCATGTACCTAGGAAGTCT
Found at i:96619493 original size:19 final size:19
Alignment explanation
Indices: 96619469--96619518 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
96619459 TGGAAGCTTT
96619469 GAATGATTGATGTTTGCTA
1 GAATGATTGATGTTTGCTA
96619488 GAATGATTGATGTTTGCTA
1 GAATGATTGATGTTTGCTA
* *
96619507 GTATGTTTGATG
1 GAATGATTGATG
96619519 GTATAGAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.24, C:0.04, G:0.28, T:0.44
Consensus pattern (19 bp):
GAATGATTGATGTTTGCTA
Found at i:96623994 original size:30 final size:30
Alignment explanation
Indices: 96623951--96624012 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
96623941 GGTACTCAGT
*
96623951 ACGGTGGAGGTGAGTCATCCCAAGTTCGGC
1 ACGGTGAAGGTGAGTCATCCCAAGTTCGGC
* * *
96623981 ACGGTGAATGTGAGTCATCCTAAGTTTGGC
1 ACGGTGAAGGTGAGTCATCCCAAGTTCGGC
96624011 AC
1 AC
96624013 TTTTAAGGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (30 bp):
ACGGTGAAGGTGAGTCATCCCAAGTTCGGC
Found at i:96624494 original size:55 final size:54
Alignment explanation
Indices: 96624368--96624494 Score: 146
Period size: 55 Copynumber: 2.3 Consensus size: 54
96624358 CGAGCCTGCC
* *
96624368 AAAATAACACGGACGTGCGACACGCCCGTGTGGAAGACCCGTGGTTGAAACTGAG
1 AAAATAACACGG-CGTGCGACACGCCCGTGTCGAACACCCGTGGTTGAAACTGAG
* * * * * **
96624423 AAACTAGCACGAGCGTGCGACACGCCCGTGTCTAACACCTGTGGTTGAACCTGTT
1 AAAATAACACG-GCGTGCGACACGCCCGTGTCGAACACCCGTGGTTGAAACTGAG
96624478 AAAATAACACAGGCGTG
1 AAAATAACAC-GGCGTG
96624495 GGGATTGAAC
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
55 57 0.97
56 2 0.03
ACGTcount: A:0.30, C:0.25, G:0.28, T:0.17
Consensus pattern (54 bp):
AAAATAACACGGCGTGCGACACGCCCGTGTCGAACACCCGTGGTTGAAACTGAG
Found at i:96647017 original size:9 final size:10
Alignment explanation
Indices: 96646995--96647019 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
96646985 GTTTTTAGGG
96646995 AAAATTTTCA
1 AAAATTTTCA
96647005 AAAATTTTCA
1 AAAATTTTCA
96647015 AAAAT
1 AAAAT
96647020 ATTTTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (10 bp):
AAAATTTTCA
Found at i:96650511 original size:30 final size:31
Alignment explanation
Indices: 96650475--96650543 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
96650465 CAAGAAAGTC
**
96650475 GCTACAAAC-CTTTTACAAAACACAAAAATT
1 GCTACAAACACTTCAACAAAACACAAAAATT
** *
96650505 GCTAC-AACACTTCAATGAAACACACAAATT
1 GCTACAAACACTTCAACAAAACACAAAAATT
96650535 GCTACAAAC
1 GCTACAAAC
96650544 GTTCAACTTG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
29 3 0.09
30 26 0.81
31 3 0.09
ACGTcount: A:0.48, C:0.26, G:0.06, T:0.20
Consensus pattern (31 bp):
GCTACAAACACTTCAACAAAACACAAAAATT
Found at i:96650549 original size:30 final size:30
Alignment explanation
Indices: 96650492--96650549 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
96650482 ACCTTTTACA
96650492 AAACACAAAAATTGCTACAACACTTCAATG
1 AAACACAAAAATTGCTACAACACTTCAATG
*
96650522 AAACACACAAATTGCTACAA-ACGTTCAA
1 AAACACAAAAATTGCTACAACAC-TTCAA
96650550 CTTGAATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.50, C:0.24, G:0.07, T:0.19
Consensus pattern (30 bp):
AAACACAAAAATTGCTACAACACTTCAATG
Found at i:96653854 original size:34 final size:34
Alignment explanation
Indices: 96653816--96653885 Score: 106
Period size: 34 Copynumber: 2.1 Consensus size: 34
96653806 TGTGATAATT
96653816 ATAATTATAATTCAA-TTTAAAATTATTATTAAAA
1 ATAATTATAATTCAATTTTAAAATTATTA-TAAAA
* *
96653850 ATAATTATAATTTAATTTTGAAATTATTATAAAA
1 ATAATTATAATTCAATTTTAAAATTATTATAAAA
96653884 AT
1 AT
96653886 GACTTAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 21 0.64
35 12 0.36
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (34 bp):
ATAATTATAATTCAATTTTAAAATTATTATAAAA
Found at i:96657634 original size:49 final size:49
Alignment explanation
Indices: 96657551--96657680 Score: 190
Period size: 49 Copynumber: 2.6 Consensus size: 49
96657541 GTTAAGTTGT
* *
96657551 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCATATAGCGAG-GC
1 CGATGCCATGTCCCAGACA-GGTCTTACACTGGCTCTCATATAGCG-GTGA
* * *
96657601 CGATGCCATGTCCCATACAGGTCTTACACTGGCTCTCATCTATCGGTGA
1 CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATAGCGGTGA
96657650 CGATGCCATGTCCCAGACAGGTCTTACACTG
1 CGATGCCATGTCCCAGACAGGTCTTACACTG
96657681 ACACACAACA
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
48 1 0.01
49 54 0.74
50 18 0.25
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATAGCGGTGA
Found at i:96657748 original size:93 final size:97
Alignment explanation
Indices: 96657551--96657727 Score: 227
Period size: 93 Copynumber: 1.8 Consensus size: 97
96657541 GTTAAGTTGT
* * * *
96657551 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCATATAGCGAGGCCGATGCCATGTCCCA
1 CGATGCCATGTCCCAGACA-GGTCTTACACTGAC-TACACATAGCGAAGCCGATGCCATGTCCCA
* * * *
96657616 TACAGGTCTTACACTGGCTCTCATCTATCGGTGA
64 GACAGGTCTTACACTAGCTCTCATATATCGGGGA
*
96657650 CGATGCCATGTCCCAGACAGGTCTTACACTGAC-ACACA-A-C-AAGCTGATGCCATGTCCCAGA
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTACACATAGCGAAGCCGATGCCATGTCCCAGA
96657711 CAGGTCTTACACTAGCT
66 CAGGTCTTACACTAGCT
96657728 TGTATATCGC
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
93 34 0.48
94 1 0.01
95 1 0.01
96 3 0.04
98 13 0.18
99 19 0.27
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (97 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTGACTACACATAGCGAAGCCGATGCCATGTCCCAGA
CAGGTCTTACACTAGCTCTCATATATCGGGGA
Found at i:96657813 original size:94 final size:95
Alignment explanation
Indices: 96657695--96657871 Score: 239
Period size: 94 Copynumber: 1.9 Consensus size: 95
96657685 ACAACAAGCT
** ** * * *
96657695 GATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCGCGAGGTTGATGCATATTCTAGAC
1 GATGCCATGTCCCAGACAGGTCTTACACTAGCTTAAATATCGCGAGGCCGATGCATATCCCAAAC
96657760 ATGTCTTACACTAGCTCTTGTCTCAATGCC
66 ATGTCTTACACTAGCTCTTGTCTCAATGCC
* * * *
96657790 GATG-CATGTCCCAGACATGTCTTACACTCGCTTAAATATCTCGAGGCCGATGCATGTCCCAAAC
1 GATGCCATGTCCCAGACAGGTCTTACACTAGCTTAAATATCGCGAGGCCGATGCATATCCCAAAC
*
96657854 ATGTCTTATACTAGCTCT
66 ATGTCTTACACTAGCTCT
96657872 CATGCTGTGG
Statistics
Matches: 70, Mismatches: 12, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
94 66 0.94
95 4 0.06
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (95 bp):
GATGCCATGTCCCAGACAGGTCTTACACTAGCTTAAATATCGCGAGGCCGATGCATATCCCAAAC
ATGTCTTACACTAGCTCTTGTCTCAATGCC
Found at i:96657850 original size:48 final size:48
Alignment explanation
Indices: 96657551--96657914 Score: 232
Period size: 48 Copynumber: 7.7 Consensus size: 48
96657541 GTTAAGTTGT
* **
96657551 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCATATAGCGAGGC
1 CGATGCCATGTCCCAGACAT-GTCTTACACTAGC-TTCATATCTCGAGGC
* * * * * *
96657601 CGATGCCATGTCCCATACAGGTCTTACACTGGCTCTCATCTATCG-GTGA
1 CGATGCCATGTCCCAGACATGTCTTACACTAGCT-TCATATCTCGAG-GC
* * * * *
96657650 CGATGCCATGTCCCAGACAGGTCTTACACT-G--ACACA-CAAC-AAGC
1 CGATGCCATGTCCCAGACATGTCTTACACTAGCTTCATATC-TCGAGGC
* * * * *
96657694 TGATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCGCGAGGT
1 CGATGCCATGTCCCAGACATGTCTTACACTAGCTT-CATATCTCGAGGC
* * * * * * * *
96657743 TGATG-CATATTCTAGACATGTCTTACACTAGC-TCTTGTCTCAATGC
1 CGATGCCATGTCCCAGACATGTCTTACACTAGCTTCATATCTCGAGGC
* *
96657789 CGATG-CATGTCCCAGACATGTCTTACACTCGCTTAAATATCTCGAGGC
1 CGATGCCATGTCCCAGACATGTCTTACACTAGCTT-CATATCTCGAGGC
* * * * *
96657837 CGATG-CATGTCCCAAACATGTCTTATACTAGCTCTCAT-GCT-GTGGT
1 CGATGCCATGTCCCAGACATGTCTTACACTAGCT-TCATATCTCGAGGC
* * *
96657883 TGATG-CATATCCCAGATATGTCTTACACTAGC
1 CGATGCCATGTCCCAGACATGTCTTACACTAGC
96657915 ACACATATCA
Statistics
Matches: 248, Mismatches: 53, Indels: 30
0.75 0.16 0.09
Matches are distributed among these distances:
44 30 0.12
45 4 0.02
46 63 0.25
47 4 0.02
48 69 0.28
49 60 0.24
50 18 0.07
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGTCTTACACTAGCTTCATATCTCGAGGC
Found at i:96657888 original size:94 final size:93
Alignment explanation
Indices: 96657692--96657914 Score: 234
Period size: 94 Copynumber: 2.4 Consensus size: 93
96657682 CACACAACAA
* ** ** * *
96657692 GCTGATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCGCGAGGTTGATGCATATTCTA
1 GCTGATG-CATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCGAGGCCGATGCATATCCCA
*
96657757 GACATGTCTTACACTAGCTCTTGTCTCAAT
65 AACATGTCTTACACTAGCTCTTGTCT-AAT
* * * *
96657787 GCCGATGCATGTCCCAGACATGTCTTACACTCGCTTAAATATCTCGAGGCCGATGCATGTCCCAA
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCGAGGCCGATGCATATCCCAA
* *
96657852 ACATGTCTTATACTAGCTCTCATG-CT-GT
66 ACATGTCTTACACTAGCTCT--TGTCTAAT
* * *
96657880 GGTTGATGCATATCCCAGATATGTCTTACACTAGC
1 -GCTGATGCATGTCCCAGACATGTCTTACACTAGC
96657915 ACACATATCA
Statistics
Matches: 106, Mismatches: 19, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
93 1 0.01
94 95 0.90
95 8 0.08
96 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (93 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCGAGGCCGATGCATATCCCAA
ACATGTCTTACACTAGCTCTTGTCTAAT
Found at i:96663469 original size:16 final size:16
Alignment explanation
Indices: 96663448--96663490 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
96663438 TCTCAAAAGA
*
96663448 ATAAAGATAACAAAAC
1 ATAAAGAAAACAAAAC
96663464 ATAAAGAAAACAAAAC
1 ATAAAGAAAACAAAAC
96663480 ATAAAGAAAAC
1 ATAAAGAAAAC
96663491 CCAAAACCCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.72, C:0.12, G:0.07, T:0.09
Consensus pattern (16 bp):
ATAAAGAAAACAAAAC
Found at i:96667372 original size:21 final size:22
Alignment explanation
Indices: 96667348--96667388 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
96667338 AAATATCATG
*
96667348 AAATA-AGTAAAAAAATGAAGA
1 AAATAGAGGAAAAAAATGAAGA
*
96667369 AAATAGAGGGAAAAAATGAA
1 AAATAGAGGAAAAAAATGAA
96667389 CAAACGCAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.68, C:0.00, G:0.20, T:0.12
Consensus pattern (22 bp):
AAATAGAGGAAAAAAATGAAGA
Found at i:96670795 original size:49 final size:49
Alignment explanation
Indices: 96670736--96670931 Score: 158
Period size: 49 Copynumber: 4.1 Consensus size: 49
96670726 CTCAAACATA
*
96670736 GTCTTACACTGGCTTTCATACAGCGAGGTCGATGCCATGTCACAGACAG
1 GTCTTACACTGGCTTTCATACAGCGAGGTCGATGCCATGTCCCAGACAG
* ** * * *
96670785 GTCTTACACTGGCTCTCATTTATCG-GTGTCGATGGCATGTCCCAGAGAG
1 GTCTTACACTGGCTTTCATACAGCGAG-GTCGATGCCATGTCCCAGACAG
* * * * * *
96670834 GTCTTACACT-G---ACACACAACAAGCT-GACGCCATGTCCCAGACAG
1 GTCTTACACTGGCTTTCATACAGCGAGGTCGATGCCATGTCCCAGACAG
* * *
96670878 GTCTTACACTGGCTTGT-ATATC-GCGAGGCCGATG-CATGTCCTAGACAT
1 GTCTTACACTGGCTT-TCATA-CAGCGAGGTCGATGCCATGTCCCAGACAG
96670926 GTCTTA
1 GTCTTA
96670932 AACTAGCTCT
Statistics
Matches: 112, Mismatches: 26, Indels: 19
0.71 0.17 0.12
Matches are distributed among these distances:
44 26 0.23
45 6 0.05
46 1 0.01
48 25 0.22
49 54 0.48
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (49 bp):
GTCTTACACTGGCTTTCATACAGCGAGGTCGATGCCATGTCCCAGACAG
Found at i:96670970 original size:46 final size:45
Alignment explanation
Indices: 96670904--96671030 Score: 159
Period size: 46 Copynumber: 2.8 Consensus size: 45
96670894 TATATCGCGA
* *
96670904 GGCCGATGCATGTCCTAGACATGTCTTAAACTAGCTCT-TGTCTCAAT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTATGT-T--AT
*
96670951 -GCCGATGCATGTCCCAGACATGCCTTACACTAGCTCTCATGTTAT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-ATGTTAT
**
96670996 GGCTAATGCATGTCCCAGACATGTCTTACACTAGC
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGC
96671031 ACACATATCA
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
45 2 0.03
46 65 0.92
47 1 0.01
48 3 0.04
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (45 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTATGTTAT
Found at i:96672520 original size:6 final size:6
Alignment explanation
Indices: 96672488--96672519 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
96672478 AAATTCTACC
96672488 TTTCCT TTTCCT TTTCCT TTTCCT TTT-CT TTT
1 TTTCCT TTTCCT TTTCCT TTTCCT TTTCCT TTT
96672520 TGATTTCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (6 bp):
TTTCCT
Found at i:96682359 original size:35 final size:35
Alignment explanation
Indices: 96682275--96682351 Score: 111
Period size: 35 Copynumber: 2.2 Consensus size: 35
96682265 TATCTATATC
*
96682275 TGTATCTAAGATGGGCTTAGGCCCAAATATGTATT
1 TGTATCTAAGATGGGCTTAGGCCCAAATATGCATT
* *
96682310 TGTATCTGAA-ATGGGCTTGGGCCCGAATATGCATT
1 TGTATCT-AAGATGGGCTTAGGCCCAAATATGCATT
96682345 TGTATCT
1 TGTATCT
96682352 CTGATGGGGT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 36 0.95
36 2 0.05
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.35
Consensus pattern (35 bp):
TGTATCTAAGATGGGCTTAGGCCCAAATATGCATT
Found at i:96685402 original size:26 final size:26
Alignment explanation
Indices: 96685373--96685446 Score: 103
Period size: 26 Copynumber: 2.8 Consensus size: 26
96685363 CTCGTTATAT
*
96685373 GGCTCTTCGTGAGCTTCCCTATTAAA
1 GGCTCTTTGTGAGCTTCCCTATTAAA
***
96685399 GGCTCTTTGTGAGCTTCTGGATTAAA
1 GGCTCTTTGTGAGCTTCCCTATTAAA
*
96685425 GGCTCTTTGTGAGCTTTCCTAT
1 GGCTCTTTGTGAGCTTCCCTAT
96685447 ATGGCTCGCT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.16, C:0.22, G:0.23, T:0.39
Consensus pattern (26 bp):
GGCTCTTTGTGAGCTTCCCTATTAAA
Found at i:96695999 original size:20 final size:19
Alignment explanation
Indices: 96695953--96696005 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
96695943 ATGCATATTT
96695953 AATTATTTATA-TTTAATA
1 AATTATTTATATTTTAATA
*
96695971 ATATAATTTATTATTTTAATA
1 A-ATTATTTA-TATTTTAATA
96695992 AATTATTTAATATT
1 AATTATTT-ATATT
96696006 ACAATTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
18 1 0.03
19 7 0.24
20 12 0.41
21 9 0.31
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
AATTATTTATATTTTAATA
Found at i:96696000 original size:33 final size:31
Alignment explanation
Indices: 96695962--96696024 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
96695952 TAATTATTTA
*
96695962 TATTTAATAATATAATTTATTATTTTAATAAAT
1 TATTTAATAATACAA-TT-TTATTTTAATAAAT
*
96695995 TATTTAATATTACAATTTTATTTTAATAAA
1 TATTTAATAATACAATTTTATTTTAATAAA
96696025 AAATTAACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 13 0.46
32 2 0.07
33 13 0.46
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (31 bp):
TATTTAATAATACAATTTTATTTTAATAAAT
Found at i:96702962 original size:17 final size:18
Alignment explanation
Indices: 96702922--96702965 Score: 65
Period size: 17 Copynumber: 2.5 Consensus size: 18
96702912 AGTAAAGTAA
96702922 ATTTT-GTTTATTATTTT
1 ATTTTAGTTTATTATTTT
96702939 ATTTTTAGTTTATT-TTTT
1 A-TTTTAGTTTATTATTTT
96702957 ATTTTAGTT
1 ATTTTAGTT
96702966 GGGGGAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 9 0.36
18 9 0.36
19 7 0.28
ACGTcount: A:0.18, C:0.00, G:0.07, T:0.75
Consensus pattern (18 bp):
ATTTTAGTTTATTATTTT
Found at i:96706671 original size:60 final size:62
Alignment explanation
Indices: 96706587--96706719 Score: 191
Period size: 60 Copynumber: 2.2 Consensus size: 62
96706577 ATACTAAACT
* * * * *
96706587 AAACAC-AACAATTTATAACTTAATCCTAAATTACTAATAATTTAATTTTAAAATAATTA-C
1 AAACACAAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTATA
96706647 AAACACAAAAAATTT-TAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTATA
1 AAACACAAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTATA
*
96706708 AAAAACAAAAAA
1 AAACACAAAAAA
96706720 AATTACATTC
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
60 47 0.72
61 18 0.28
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (62 bp):
AAACACAAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTATA
Found at i:96706914 original size:14 final size:14
Alignment explanation
Indices: 96706895--96706952 Score: 66
Period size: 14 Copynumber: 4.2 Consensus size: 14
96706885 CCTTTTTTTT
96706895 TTCTTC-TTCTTCTC
1 TTCTTCTTTC-TCTC
* *
96706909 TTCTTCTTTTTTTC
1 TTCTTCTTTCTCTC
*
96706923 TTCTCCTTTCTCTC
1 TTCTTCTTTCTCTC
96706937 TT-TTCTTTCTCTC
1 TTCTTCTTTCTCTC
96706950 TTC
1 TTC
96706953 CGGTGTGTGG
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
13 12 0.33
14 22 0.61
15 2 0.06
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (14 bp):
TTCTTCTTTCTCTC
Found at i:96706923 original size:25 final size:22
Alignment explanation
Indices: 96706890--96706952 Score: 72
Period size: 25 Copynumber: 2.6 Consensus size: 22
96706880 CATTACCTTT
96706890 TTTTTTTCTTCTTCTTCTCTTCTTC
1 TTTTTTTCTTCTTCTT-TC-TC-TC
*
96706915 TTTTTTTCTTCTCCTTTCTCTC
1 TTTTTTTCTTCTTCTTTCTCTC
96706937 TTTTCTTTCTCTCTTC
1 TTTT-TTTCT-TCTTC
96706953 CGGTGTGTGG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
22 6 0.18
23 7 0.21
24 6 0.18
25 15 0.44
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTTTTTCTTCTTCTTTCTCTC
Found at i:96706925 original size:19 final size:21
Alignment explanation
Indices: 96706901--96706952 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
96706891 TTTTTTCTTC
96706901 TTCTTCTCTTCT-TCTTTT-T
1 TTCTTCTCTTCTCTCTTTTCT
96706920 TTCTTCTCCTTTCTCTCTTTTCT
1 TTCTTCT-C-TTCTCTCTTTTCT
96706943 TTC-TCTCTTC
1 TTCTTCTCTTC
96706953 CGGTGTGTGG
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
19 7 0.24
20 4 0.14
21 5 0.17
22 9 0.31
23 4 0.14
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (21 bp):
TTCTTCTCTTCTCTCTTTTCT
Found at i:96707795 original size:13 final size:13
Alignment explanation
Indices: 96707777--96707803 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
96707767 AAAAGAGGTA
96707777 AAAAAATAAAATG
1 AAAAAATAAAATG
96707790 AAAAAATAAAATG
1 AAAAAATAAAATG
96707803 A
1 A
96707804 TTTTTTTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (13 bp):
AAAAAATAAAATG
Found at i:96712172 original size:14 final size:14
Alignment explanation
Indices: 96712153--96712197 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
96712143 TGAATTGGTG
*
96712153 CATCCGCATTCATA
1 CATCCGCATACATA
96712167 CATCCGCATACATA
1 CATCCGCATACATA
* * *
96712181 AATCTGCATATATA
1 CATCCGCATACATA
96712195 CAT
1 CAT
96712198 TTGCATATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.36, C:0.29, G:0.07, T:0.29
Consensus pattern (14 bp):
CATCCGCATACATA
Found at i:96713961 original size:3 final size:3
Alignment explanation
Indices: 96713947--96714009 Score: 62
Period size: 3 Copynumber: 22.0 Consensus size: 3
96713937 AAATAGATAT
* *
96713947 TTA TTA TAA TTA TTA TTA -TA GTT- TTA -TA TTA -AA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
*
96713989 TTA TTA TTA CTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA
96714010 AAATAATTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
2 7 0.14
3 41 0.84
4 1 0.02
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:96714143 original size:3 final size:3
Alignment explanation
Indices: 96714135--96714183 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
96714125 ATGAATTAAA
* *
96714135 TAT TAT TA- TAT TA- TAT TAT TAT TAT AAT GTAT TAT TAT TAA TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
96714179 TAT TA
1 TAT TA
96714184 ACTAACATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 4 0.10
3 33 0.85
4 2 0.05
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:96714152 original size:13 final size:13
Alignment explanation
Indices: 96714134--96714183 Score: 50
Period size: 13 Copynumber: 3.7 Consensus size: 13
96714124 TATGAATTAA
96714134 ATATTATTATATT
1 ATATTATTATATT
96714147 ATATTA-T-TATT
1 ATATTATTATATT
96714158 ATAATGTATTATTATT
1 AT-AT-TATTA-TATT
96714174 AATATTATTA
1 -ATATTATTA
96714184 ACTAACATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
11 6 0.19
12 3 0.10
13 8 0.26
14 1 0.03
15 5 0.16
16 6 0.19
17 2 0.06
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (13 bp):
ATATTATTATATT
Done.