Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167862.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_131, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 70801
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Found at i:1426 original size:16 final size:16
Alignment explanation
Indices: 1400--1458 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
1390 TCACACGTGT
1400 CTTTAGGATTTTTAGGA
1 CTTT-GGATTTTTAGGA
*
1417 CTTTGGA-TTTCAGGGA
1 CTTTGGATTTTTA-GGA
* *
1433 TTTTGGATTTTTGGGA
1 CTTTGGATTTTTAGGA
*
1449 GTTTGGATTT
1 CTTTGGATTT
1459 AAGGGATTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
15 4 0.11
16 24 0.69
17 7 0.20
ACGTcount: A:0.17, C:0.05, G:0.29, T:0.49
Consensus pattern (16 bp):
CTTTGGATTTTTAGGA
Found at i:1441 original size:32 final size:31
Alignment explanation
Indices: 1405--1499 Score: 115
Period size: 32 Copynumber: 3.1 Consensus size: 31
1395 CGTGTCTTTA
* *
1405 GGATTTTTAGGACTTTGGATTTCAGGGATTTT
1 GGATTTTT-GGAGTTTGGATTTAAGGGATTTT
1437 GGATTTTTGGGAGTTTGGATTTAAGGGATTTT
1 GGATTTTT-GGAGTTTGGATTTAAGGGATTTT
* *
1469 -GA-TTTTGGGGTTTGGATTTTA-GGATTTT
1 GGATTTTTGGAGTTTGGATTTAAGGGATTTT
1497 GGA
1 GGA
1500 AAATTAAAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
28 7 0.12
29 15 0.26
30 4 0.07
31 2 0.04
32 29 0.51
ACGTcount: A:0.18, C:0.02, G:0.33, T:0.47
Consensus pattern (31 bp):
GGATTTTTGGAGTTTGGATTTAAGGGATTTT
Found at i:1495 original size:8 final size:7
Alignment explanation
Indices: 1430--1499 Score: 52
Period size: 7 Copynumber: 9.4 Consensus size: 7
1420 TGGATTTCAG
1430 GGATTTT
1 GGATTTT
1437 GGATTTTT
1 GGA-TTTT
*
1445 GGGAGTTT
1 -GGATTTT
*
1453 GGATTTAAG
1 GGATTT--T
1462 GGATTTT
1 GGATTTT
1469 -GATTTT
1 GGATTTT
**
1475 GGGGTTT
1 GGATTTT
1482 GGATTTT
1 GGATTTT
1489 AGGATTTT
1 -GGATTTT
1497 GGA
1 GGA
1500 AAATTAAAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
6 6 0.12
7 20 0.41
8 14 0.29
9 9 0.18
ACGTcount: A:0.17, C:0.00, G:0.34, T:0.49
Consensus pattern (7 bp):
GGATTTT
Found at i:1499 original size:15 final size:15
Alignment explanation
Indices: 1409--1499 Score: 78
Period size: 16 Copynumber: 6.0 Consensus size: 15
1399 TCTTTAGGAT
*
1409 TTTTAGGACTTTGGA
1 TTTTAGGATTTTGGA
*
1424 TTTCAGGGATTTTGGA
1 TTTTA-GGATTTTGGA
* *
1440 TTTTTGGGAGTTTGGA
1 -TTTTAGGATTTTGGA
*
1456 TTTAAGGGATTTT-GA
1 TTTTA-GGATTTTGGA
**
1471 TTTT-GGGGTTTGGA
1 TTTTAGGATTTTGGA
1485 TTTTAGGATTTTGGA
1 TTTTAGGATTTTGGA
1500 AAATTAAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
13 5 0.09
14 6 0.10
15 20 0.34
16 24 0.41
17 3 0.05
ACGTcount: A:0.18, C:0.02, G:0.32, T:0.48
Consensus pattern (15 bp):
TTTTAGGATTTTGGA
Found at i:1736 original size:3 final size:3
Alignment explanation
Indices: 1728--1753 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1718 AGGCAGAGAA
1728 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
1754 ATATTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2621 original size:14 final size:13
Alignment explanation
Indices: 2602--2635 Score: 59
Period size: 14 Copynumber: 2.5 Consensus size: 13
2592 GACTGTGTTA
2602 TTTTTTGTTTTTAT
1 TTTTTTGTTTTT-T
2616 TTTTTTGTTTTTT
1 TTTTTTGTTTTTT
2629 TTTTTTG
1 TTTTTTG
2636 GTTGGTGTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.03, C:0.00, G:0.09, T:0.88
Consensus pattern (13 bp):
TTTTTTGTTTTTT
Found at i:3031 original size:3 final size:3
Alignment explanation
Indices: 3023--3074 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
3013 AATATATGTT
*
3023 TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3071 TTA T
1 TTA T
3075 ACTTAAAATG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:3429 original size:22 final size:20
Alignment explanation
Indices: 3402--3484 Score: 67
Period size: 22 Copynumber: 3.9 Consensus size: 20
3392 AAATTTATGC
*
3402 CCGAAGGTCTTAGAAATCAT
1 CCGAAGGTCTTAAAAATCAT
* *
3422 ACCTGAAGGTCTTACAGAATTAT
1 -CC-GAAGGTCTTA-AAAATCAT
*
3445 CCAAAGGTCTTAAAAATCAT
1 CCGAAGGTCTTAAAAATCAT
*
3465 GCCCGGAGGTCTTACAAAAT
1 --CCGAAGGTCTTA-AAAAT
3485 TCACTGGGAT
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
20 6 0.12
21 11 0.22
22 22 0.45
23 10 0.20
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.25
Consensus pattern (20 bp):
CCGAAGGTCTTAAAAATCAT
Found at i:3593 original size:153 final size:154
Alignment explanation
Indices: 3294--3595 Score: 450
Period size: 153 Copynumber: 2.0 Consensus size: 154
3284 TTTATGCCCG
* *
3294 AAGGTCTTACAAATCATGCCCGGAGGTCTTACAGAATTACCTGGGATAACACTGCAAGTCAAAAG
1 AAGGTCTTAAAAATCATGCCCGGAGGTCTTACAAAATTACCTGGGATAACACTGCAAGTCAAAAG
* *
3359 ATAAAAAAATTGATCGAGATAACACCGCGAATTAAATTTATGCCCGAAGGTCTTAGAAATCATAC
66 ATAAAAAAATTGATCGAGATAACACCGCGAATCAAATTTATGCCAGAAGGTCTTAGAAATCATAC
* *
3424 CTGAAGGTCTTACAGAATTATCCA
131 CCGAAGGTCGTACAGAATTATCCA
*
3448 AAGGTCTTAAAAATCATGCCCGGAGGTCTTACAAAATT-CACTGGGATAACAAC-GTAAGTCAAA
1 AAGGTCTTAAAAATCATGCCCGGAGGTCTTACAAAATTAC-CTGGGATAAC-ACTGCAAGTCAAA
* *
3511 AGAT-AAAAAATTGATCGGGATAACACCGCGAATCAAATTTATGCTCAG-AGGTTTTAGAAATCA
64 AGATAAAAAAATTGATCGAGATAACACCGCGAATCAAATTTATGC-CAGAAGGTCTTAGAAATCA
* *
3574 TGCCCGGAGGTCGTACAGAATT
128 TACCCGAAGGTCGTACAGAATT
3596 GACTGGGATA
Statistics
Matches: 134, Mismatches: 11, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
153 71 0.53
154 61 0.46
155 2 0.01
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.24
Consensus pattern (154 bp):
AAGGTCTTAAAAATCATGCCCGGAGGTCTTACAAAATTACCTGGGATAACACTGCAAGTCAAAAG
ATAAAAAAATTGATCGAGATAACACCGCGAATCAAATTTATGCCAGAAGGTCTTAGAAATCATAC
CCGAAGGTCGTACAGAATTATCCA
Found at i:3685 original size:22 final size:22
Alignment explanation
Indices: 3655--3771 Score: 100
Period size: 22 Copynumber: 5.4 Consensus size: 22
3645 CCGCGAATCA
* *
3655 AAATTATGCCTGAAGGTCTTAG
1 AAATCATGCCCGAAGGTCTTAG
3677 AAATCATGCCCGAAGGTCCTATA-
1 AAATCATGCCCGAAGGT-CT-TAG
3700 AAAT--TGCCCGAAGGTCTTAG
1 AAATCATGCCCGAAGGTCTTAG
* * * *
3720 AAATCATGCCCGGAGCTTTTAC
1 AAATCATGCCCGAAGGTCTTAG
* *
3742 AGAAT--TACCCGAAGGTCTTAA
1 A-AATCATGCCCGAAGGTCTTAG
3763 AAATCATGC
1 AAATCATGC
3772 TCGGAGATCT
Statistics
Matches: 75, Mismatches: 12, Indels: 16
0.73 0.12 0.16
Matches are distributed among these distances:
19 2 0.03
20 9 0.12
21 23 0.31
22 30 0.40
23 9 0.12
24 2 0.03
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (22 bp):
AAATCATGCCCGAAGGTCTTAG
Found at i:3705 original size:109 final size:109
Alignment explanation
Indices: 3448--3705 Score: 338
Period size: 109 Copynumber: 2.4 Consensus size: 109
3438 GAATTATCCA
* * * *
3448 AAGGTCTTAAAAATCATGCCCGGAGGTCTTACAAAATTCACTGGGATAACAACGTAAGTCAAAAG
1 AAGGTCTTAGAAATCATGCCCGGAGGTCCTACAAAATTGACTGGGATAACAACATAAGTCAAAAG
* * *
3513 ATAAAAAATTGATCGGGATAACACCGCGAATCAAATTTATGCTC
66 ATAAAAAATCGATCGGGACAACACCGCGAATCAAAATTATGCTC
* * * * *
3557 AGAGGTTTTAGAAATCATGCCCGGAGGTCGTACAGAATTGACTGGGATAACACCATAAGTCAGAA
1 A-AGGTCTTAGAAATCATGCCCGGAGGTCCTACAAAATTGACTGGGATAACAACATAAGTCAAAA
* * *
3622 -ATAAAGAATCGATTGGGACAACACCGCGAATCAAAATTATGCCTG
65 GATAAAAAATCGATCGGGACAACACCGCGAATCAAAATTATG-CTC
* *
3667 AAGGTCTTAGAAATCATGCCCGAAGGTCCTATAAAATTG
1 AAGGTCTTAGAAATCATGCCCGGAGGTCCTACAAAATTG
3706 CCCGAAGGTC
Statistics
Matches: 128, Mismatches: 19, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
109 70 0.55
110 58 0.45
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.22
Consensus pattern (109 bp):
AAGGTCTTAGAAATCATGCCCGGAGGTCCTACAAAATTGACTGGGATAACAACATAAGTCAAAAG
ATAAAAAATCGATCGGGACAACACCGCGAATCAAAATTATGCTC
Found at i:3732 original size:262 final size:264
Alignment explanation
Indices: 3259--3734 Score: 645
Period size: 262 Copynumber: 1.8 Consensus size: 264
3249 ATAATGAATC
* * * * *
3259 GATCGAGATAACATCGCGAATCGATTTTATGCCCGAAGGTCTTACAAATCATGCCCGGAGGTCTT
1 GATCGAGATAACACCGCGAATCAAATTTATGCCAGAAGGTCTTACAAATCATGCCCGGAGGTCGT
** * *
3324 ACAGAATTACCTGGGATAACACTGCAAGTCAAAAGATAAAAAAATTGATCGAGATAACACCGCGA
66 ACAGAATTACCTGGGATAACACCACAAGTCAAAAGATAAAAAAATCGATCGAGACAACACCGCGA
* * * * * *
3389 ATTAAATTTATGCCCGAAGGTCTTAGAAATCATACCTGAAGGTCTTACAGAATTATCCAAAGGTC
131 ATCAAAATTATGCCCGAAGGTCTTAGAAATCATACCCGAAGGTCCTACAAAATTACCCAAAGGTC
3454 TTAAAAATCATGCCCGGAGGTCTTACAAAATTCACTGGGATAACAACGTAAGTCAAAAGATAAAA
196 TTAAAAATCATGCCCGGAGGTCTTACAAAATTCACTGGGATAACAACGTAAGTCAAAAGATAAAA
3519 AATT
261 AATT
* * *
3523 GATCGGGATAACACCGCGAATCAAATTTATGCTCAG-AGGTTTTAGAAATCATGCCCGGAGGTCG
1 GATCGAGATAACACCGCGAATCAAATTTATGC-CAGAAGGTCTTACAAATCATGCCCGGAGGTCG
* * * * *
3587 TACAGAATTGA-CTGGGATAACACCATAAGTCAGAA-AT-AAAGAATCGATTGGGACAACACCGC
65 TACAGAATT-ACCTGGGATAACACCACAAGTCAAAAGATAAAAAAATCGATCGAGACAACACCGC
* * * * *
3649 GAATCAAAATTATGCCTGAAGGTCTTAGAAATCATGCCCGAAGGTCCTATAAAATTGCCCGAAGG
129 GAATCAAAATTATGCCCGAAGGTCTTAGAAATCATACCCGAAGGTCCTACAAAATTACCCAAAGG
*
3714 TCTTAGAAATCATGCCCGGAG
194 TCTTAAAAATCATGCCCGGAG
3735 CTTTTACAGA
Statistics
Matches: 181, Mismatches: 29, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
262 94 0.52
263 2 0.01
264 82 0.45
265 3 0.02
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.23
Consensus pattern (264 bp):
GATCGAGATAACACCGCGAATCAAATTTATGCCAGAAGGTCTTACAAATCATGCCCGGAGGTCGT
ACAGAATTACCTGGGATAACACCACAAGTCAAAAGATAAAAAAATCGATCGAGACAACACCGCGA
ATCAAAATTATGCCCGAAGGTCTTAGAAATCATACCCGAAGGTCCTACAAAATTACCCAAAGGTC
TTAAAAATCATGCCCGGAGGTCTTACAAAATTCACTGGGATAACAACGTAAGTCAAAAGATAAAA
AATT
Found at i:3777 original size:43 final size:43
Alignment explanation
Indices: 3666--3790 Score: 151
Period size: 43 Copynumber: 2.9 Consensus size: 43
3656 AATTATGCCT
* * * * * * *
3666 GAAGGTCTTAGAAATCATGCCCGAAGGTCCTATAAAATTGCCC
1 GAAGGTCTTAAAAATCATGCCCGGAGATCTTACAGAATTACCC
* * *
3709 GAAGGTCTTAGAAATCATGCCCGGAGCTTTTACAGAATTACCC
1 GAAGGTCTTAAAAATCATGCCCGGAGATCTTACAGAATTACCC
*
3752 GAAGGTCTTAAAAATCATGCTCGGAGATCTTACAGAATT
1 GAAGGTCTTAAAAATCATGCCCGGAGATCTTACAGAATT
3791 GACTGGGATA
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 71 1.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (43 bp):
GAAGGTCTTAAAAATCATGCCCGGAGATCTTACAGAATTACCC
Found at i:4002 original size:112 final size:110
Alignment explanation
Indices: 3749--4122 Score: 461
Period size: 112 Copynumber: 3.4 Consensus size: 110
3739 TACAGAATTA
* * * *
3749 CCCGAAGGTCTTAAAAATCATGCTCGGAGATCTTACAGAATTGACTGGGATAACACCGTAAGTCA
1 CCCGGAGGTCTTAGAAATCATGCTCGGAGGTCTTACAGAATTGACTGGGATAACACCGCAAGTCA
*
3814 AAAGATAAAAAATTGATTC-GGATAACACCGCGAATCAAATTTATG
66 AAAGATAAAAAATTGA-TCGGGATAACACTGCGAATCAAATTTATG
* * * *
3859 CCCGGAAGTCTTAGAAATCATGCTCGAAGGTCTTACAGAATTGACTAGGATAACACCGCACGTCA
1 CCCGGAGGTCTTAGAAATCATGCTCGGAGGTCTTACAGAATTGACTGGGATAACACCGCAAGTCA
3924 AAAGATAAAAAAAATTGATCGGGATAACACTGCGAATCAAATTTATG
66 AAAGAT--AAAAAATTGATCGGGATAACACTGCGAATCAAATTTATG
* * * * *
3971 CTCGGAGGTCTTAGAAATCACGC-CTGGAGGTCTTACAGAATTAACTGGGATAACACCACAAGTT
1 CCCGGAGGTCTTAGAAATCATGCTC-GGAGGTCTTACAGAATTGACTGGGATAACACCGCAAGTC
* * * * *
4035 AGAA-ATAAAGAATCGATCGGGACAATA-TCGCGAATCGAAA-TTATG
65 AAAAGATAAAAAATTGATCGGGATAACACT-GCGAATC-AAATTTATG
* * *
4080 CCCGAAGGTTTTAGAAATCATGCCCGGAGGTCTTACAGAATTG
1 CCCGGAGGTCTTAGAAATCATGCTCGGAGGTCTTACAGAATTG
4123 CCCGAAGGTC
Statistics
Matches: 229, Mismatches: 28, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
108 1 0.00
109 65 0.28
110 67 0.29
111 5 0.02
112 91 0.40
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (110 bp):
CCCGGAGGTCTTAGAAATCATGCTCGGAGGTCTTACAGAATTGACTGGGATAACACCGCAAGTCA
AAAGATAAAAAATTGATCGGGATAACACTGCGAATCAAATTTATG
Found at i:4069 original size:417 final size:415
Alignment explanation
Indices: 3451--4386 Score: 1421
Period size: 417 Copynumber: 2.3 Consensus size: 415
3441 TTATCCAAAG
* * * * * *
3451 GTCTTAAAAATCATGCCCGGAGGTCTTACAAAATTCACTGGGATAACAACGTAAGTCAAAAGAT-
1 GTCTTAGAAATCATG-CCGAAGGTCTTACAAAATTGACTAGGATAACACCGCAAGTCAAAAGATA
* *
3515 AAAAAATTGATCGGGATAACACCGCGAATCAAATTTATGCTCAGAGGTTTTAGAAATCATGCCCG
65 AAAAAATTGATCGGGATAACACCGCGAATCAAATTTATGCTCAGAGGTCTTAGAAATCACGCCCG
* * *
3580 GAGGTCGTACAGAATTGACTGGGATAACACCATAAGTCAGAAATAAAGAATCGATTGGGACAACA
130 GAGGTCGTACAGAATTAACTGGGATAACACCACAAGTCAGAAATAAAGAATCGATCGGGACAACA
* *
3645 CCGCGAATCAAAATTATGCCTGAAGGTCTTAGAAATCATGCCCGAAGGTCCTATAAAATTGCCCG
195 CCGCGAATCAAAATTATGCCCGAAGGTCTTAGAAATCATGCCCGAAGGTCCTACAAAATTGCCCG
*
3710 AAGGTCTTAGAAATCATGCCCGGAGCTTTTACAGAATTACCCGAAGGTCTTAAAAATCATG-CTC
260 AAGGTCTTAGAAATCATGCCCGGAGCTCTTACAGAATTACCCGAAGGTCTTAAAAATCATGTC-C
*
3774 GGAGATCTTACAGAATTGACTGGGATAACACCGTAAGTCAAAAGATAAAAAATTGATTCG-GATA
324 GGAGATCTTACAGAATTGACTGGGATAACACCGCAAGTCAAAAGATAAAAAATTGA-TCGAGATA
3838 ACACCGCGAATCAAATTTATGCCCGGAA
388 ACACCGCGAATCAAATTTATGCCCGGAA
* *
3866 GTCTTAGAAATCATGCTCGAAGGTCTTACAGAATTGACTAGGATAACACCGCACGTCAAAAGATA
1 GTCTTAGAAATCATGC-CGAAGGTCTTACAAAATTGACTAGGATAACACCGCAAGTCAAAAGAT-
* * *
3931 AAAAAAATTGATCGGGATAACACTGCGAATCAAATTTATGCTCGGAGGTCTTAGAAATCACGCCT
64 AAAAAAATTGATCGGGATAACACCGCGAATCAAATTTATGCTCAGAGGTCTTAGAAATCACGCCC
* * *
3996 GGAGGTCTTACAGAATTAACTGGGATAACACCACAAGTTAGAAATAAAGAATCGATCGGGACAAT
129 GGAGGTCGTACAGAATTAACTGGGATAACACCACAAGTCAGAAATAAAGAATCGATCGGGACAAC
* * * * * *
4061 ATCGCGAATCGAAATTATGCCCGAAGGTTTTAGAAATCATGCCCGGAGGTCTTACAGAATTGCCC
194 ACCGCGAATCAAAATTATGCCCGAAGGTCTTAGAAATCATGCCCGAAGGTCCTACAAAATTGCCC
** * * *
4126 GAAGGTCTTAGAAATCATGCTTGGAGGTCTTACAGAATTGCCTGAAGGTCTTAAAAATCATGTCC
259 GAAGGTCTTAGAAATCATGCCCGGAGCTCTTACAGAATTACCCGAAGGTCTTAAAAATCATGTCC
*
4191 GGAGGTCTTACAGAATTGACTGGGATAACACCGCAAGTCAAAAGATAAAAAATTGATCGAGATAA
324 GGAGATCTTACAGAATTGACTGGGATAACACCGCAAGTCAAAAGATAAAAAATTGATCGAGATAA
* *
4256 CACCGCGAATCAAATTTATGCTCGGAG
389 CACCGCGAATCAAATTTATGCCCGGAA
* **
4283 GTC-TAGAAATCATGCCCAGAGGTCTTACAAAATTGACTAGGATAACACTACAAGTCAAAAGATA
1 GTCTTAGAAATCATGCCGA-AGGTCTTACAAAATTGACTAGGATAACACCGCAAGTCAAAAGATA
*
4347 AAAAAATTGATCGGGATAACACCACGAATCAAATTTATGC
65 AAAAAATTGATCGGGATAACACCGCGAATCAAATTTATGC
4387 CTGGAAGTCT
Statistics
Matches: 471, Mismatches: 44, Indels: 12
0.89 0.08 0.02
Matches are distributed among these distances:
414 1 0.00
415 95 0.20
416 55 0.12
417 319 0.68
418 1 0.00
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (415 bp):
GTCTTAGAAATCATGCCGAAGGTCTTACAAAATTGACTAGGATAACACCGCAAGTCAAAAGATAA
AAAAATTGATCGGGATAACACCGCGAATCAAATTTATGCTCAGAGGTCTTAGAAATCACGCCCGG
AGGTCGTACAGAATTAACTGGGATAACACCACAAGTCAGAAATAAAGAATCGATCGGGACAACAC
CGCGAATCAAAATTATGCCCGAAGGTCTTAGAAATCATGCCCGAAGGTCCTACAAAATTGCCCGA
AGGTCTTAGAAATCATGCCCGGAGCTCTTACAGAATTACCCGAAGGTCTTAAAAATCATGTCCGG
AGATCTTACAGAATTGACTGGGATAACACCGCAAGTCAAAAGATAAAAAATTGATCGAGATAACA
CCGCGAATCAAATTTATGCCCGGAA
Found at i:4102 original size:22 final size:22
Alignment explanation
Indices: 4071--4200 Score: 106
Period size: 22 Copynumber: 6.0 Consensus size: 22
4061 ATCGCGAATC
* *
4071 GAAATTATGCCCGAAGGTTTTA
1 GAAATCATGCCCGAAGGTCTTA
*
4093 GAAATCATGCCCGGAGGTCTTA
1 GAAATCATGCCCGAAGGTCTTA
*
4115 CAGAAT--TGCCCGAAGGTCTTA
1 GA-AATCATGCCCGAAGGTCTTA
** *
4136 GAAATCATGCTTGGAGGTCTTA
1 GAAATCATGCCCGAAGGTCTTA
* *
4158 CAGAAT--TGCCTGAAGGTCTTA
1 GA-AATCATGCCCGAAGGTCTTA
* * *
4179 AAAATCATGTCCGGAGGTCTTA
1 GAAATCATGCCCGAAGGTCTTA
4201 CAGAATTGAC
Statistics
Matches: 86, Mismatches: 16, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
20 6 0.07
21 29 0.34
22 45 0.52
23 6 0.07
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (22 bp):
GAAATCATGCCCGAAGGTCTTA
Found at i:4126 original size:21 final size:21
Alignment explanation
Indices: 4100--4208 Score: 96
Period size: 21 Copynumber: 5.1 Consensus size: 21
4090 TTAGAAATCA
4100 TGCCCGGAGGTCTTACAGAAT
1 TGCCCGGAGGTCTTACAGAAT
* *
4121 TGCCCGAAGGTCTTAGA-AAT
1 TGCCCGGAGGTCTTACAGAAT
**
4141 CATGCTTGGAGGTCTTACAGAAT
1 --TGCCCGGAGGTCTTACAGAAT
* * *
4164 TGCCTGAAGGTCTTA-AAAAT
1 TGCCCGGAGGTCTTACAGAAT
*
4184 CATGTCCGGAGGTCTTACAGAAT
1 --TGCCCGGAGGTCTTACAGAAT
4207 TG
1 TG
4209 ACTGGGATAA
Statistics
Matches: 69, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
20 7 0.10
21 30 0.43
22 25 0.36
23 7 0.10
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (21 bp):
TGCCCGGAGGTCTTACAGAAT
Found at i:4139 original size:43 final size:43
Alignment explanation
Indices: 4078--4208 Score: 208
Period size: 43 Copynumber: 3.0 Consensus size: 43
4068 ATCGAAATTA
*
4078 TGCCCGAAGGTTTTAGAAATCATGCCCGGAGGTCTTACAGAAT
1 TGCCCGAAGGTCTTAGAAATCATGCCCGGAGGTCTTACAGAAT
**
4121 TGCCCGAAGGTCTTAGAAATCATGCTTGGAGGTCTTACAGAAT
1 TGCCCGAAGGTCTTAGAAATCATGCCCGGAGGTCTTACAGAAT
* * *
4164 TGCCTGAAGGTCTTAAAAATCATGTCCGGAGGTCTTACAGAAT
1 TGCCCGAAGGTCTTAGAAATCATGCCCGGAGGTCTTACAGAAT
4207 TG
1 TG
4209 ACTGGGATAA
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 80 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.27
Consensus pattern (43 bp):
TGCCCGAAGGTCTTAGAAATCATGCCCGGAGGTCTTACAGAAT
Found at i:4386 original size:110 final size:110
Alignment explanation
Indices: 4171--4386 Score: 335
Period size: 109 Copynumber: 2.0 Consensus size: 110
4161 AATTGCCTGA
* * * * *
4171 AGGTCTTAAAAATCATGTCCGGAGGTCTTACAGAATTGACTGGGATAACACCGCAAGTCAAAAGA
1 AGGTCTTAAAAATCATGCCCAGAGGTCTTACAAAATTGACTAGGATAACACCACAAGTCAAAAGA
*
4236 TAAAAAATTGATCGAGATAACACCGCGAATCAAATTTATGCTCGG
66 TAAAAAATTGATCGAGATAACACCACGAATCAAATTTATGCTCGG
* *
4281 AGGTC-TAGAAATCATGCCCAGAGGTCTTACAAAATTGACTAGGATAACACTACAAGTCAAAAGA
1 AGGTCTTAAAAATCATGCCCAGAGGTCTTACAAAATTGACTAGGATAACACCACAAGTCAAAAGA
*
4345 TAAAAAAATTGATCGGGATAACACCACGAATCAAATTTATGC
66 T-AAAAAATTGATCGAGATAACACCACGAATCAAATTTATGC
4387 CTGGAAGTCT
Statistics
Matches: 96, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
109 53 0.55
110 43 0.45
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.22
Consensus pattern (110 bp):
AGGTCTTAAAAATCATGCCCAGAGGTCTTACAAAATTGACTAGGATAACACCACAAGTCAAAAGA
TAAAAAATTGATCGAGATAACACCACGAATCAAATTTATGCTCGG
Found at i:4417 original size:21 final size:22
Alignment explanation
Indices: 4385--4449 Score: 57
Period size: 22 Copynumber: 3.0 Consensus size: 22
4375 TCAAATTTAT
4385 GCCTGGAA-GTCTTACAGAATTG
1 GCCT-GAAGGTCTTACAGAATTG
*
4407 GCC-GAAGGTCTTAGA-AATCAT-
1 GCCTGAAGGTCTTACAGAAT--TG
*
4428 GCCTGGAGGTCTTACAGAATTG
1 GCCTGAAGGTCTTACAGAATTG
4450 ACTGAGATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 12
0.69 0.06 0.24
Matches are distributed among these distances:
20 6 0.18
21 11 0.32
22 14 0.41
23 3 0.09
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (22 bp):
GCCTGAAGGTCTTACAGAATTG
Found at i:5766 original size:33 final size:33
Alignment explanation
Indices: 5125--5765 Score: 805
Period size: 33 Copynumber: 19.5 Consensus size: 33
5115 AAAGGCTAGC
* * * *
5125 TAAATTGGGCTTAAAACCTCATTGATCGCCAGA
1 TAAACTGGGCTTAAATCTTCATTGATGGCCAGA
*
5158 TAAACTGGGCTTAAATCTTCATTTGA-GGCTAGA
1 TAAACTGGGCTTAAATCTTCA-TTGATGGCCAGA
* * *
5191 TAAACTGGGCTTAAAGCATCAATTAATGGCCAGA
1 TAAACTGGGCTTAAATCTTC-ATTGATGGCCAGA
* *
5225 TAAACTGGGCTTAAAGCATCAATTGATGGCCAGA
1 TAAACTGGGCTTAAATCTTC-ATTGATGGCCAGA
*
5259 TAAACTGGGCTTAAAGCTTCATTGATGGCC-GA
1 TAAACTGGGCTTAAATCTTCATTGATGGCCAGA
* *
5291 TAAACTGGGCTTAAATCTTCATTAATGGCCAAA
1 TAAACTGGGCTTAAATCTTCATTGATGGCCAGA
* *
5324 TAAACTGGACTTAAATCTTCATTTGA-GGTCAGA
1 TAAACTGGGCTTAAATCTTCA-TTGATGGCCAGA
* * *
5357 TAAACTAGGCTTAAAGCATCATTGATGGCCAGA
1 TAAACTGGGCTTAAATCTTCATTGATGGCCAGA
5390 TAAACTGGGCTTAAATCTTCATTTGA-GGCCAGA
1 TAAACTGGGCTTAAATCTTCA-TTGATGGCCAGA
* * *
5423 TAAATTGGGCTTAAAGCATCATTGATGGCCAGA
1 TAAACTGGGCTTAAATCTTCATTGATGGCCAGA
*
5456 TAAACTGGGCTTAAATCTTCATTTGA-GGCTAGA
1 TAAACTGGGCTTAAATCTTCA-TTGATGGCCAGA
5489 TAAACTGGGCTTAAATCTTCATTTGA-GGCCAGA
1 TAAACTGGGCTTAAATCTTCA-TTGATGGCCAGA
* *
5522 TAAACTGGGCTTAAATCTTCATTAATGGCTAGA
1 TAAACTGGGCTTAAATCTTCATTGATGGCCAGA
*
5555 TAAACTGGGCTTAAATCTTCATTTGA-GGCCAAA
1 TAAACTGGGCTTAAATCTTCA-TTGATGGCCAGA
* *
5588 TAAACTGGGCTTAAAT-ATCATTGATAGCCAGA
1 TAAACTGGGCTTAAATCTTCATTGATGGCCAGA
* * *
5620 TAAATTGGGCTTAAAGCTTCATTAATGGCCAGA
1 TAAACTGGGCTTAAATCTTCATTGATGGCCAGA
*
5653 TAAACTGGGCTTAAATCTTCATTAATGGCCAGA
1 TAAACTGGGCTTAAATCTTCATTGATGGCCAGA
* * *
5686 TAAACTAGGTTTAAAT-ATCATTGATGGCCAGA
1 TAAACTGGGCTTAAATCTTCATTGATGGCCAGA
** * *
5718 TAAACTAAGCTTAAAGCTTCATTAATGGCCAGA
1 TAAACTGGGCTTAAATCTTCATTGATGGCCAGA
5751 TAAACTGGGCTTAAA
1 TAAACTGGGCTTAAA
5766 GTTTTTTCTT
Statistics
Matches: 534, Mismatches: 60, Indels: 28
0.86 0.10 0.05
Matches are distributed among these distances:
31 4 0.01
32 90 0.17
33 363 0.68
34 77 0.14
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (33 bp):
TAAACTGGGCTTAAATCTTCATTGATGGCCAGA
Found at i:6659 original size:24 final size:24
Alignment explanation
Indices: 6609--6659 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
6599 TCTTTCTTTC
* *
6609 TTTTTCTTTTTTTCTTTCCCCTTT
1 TTTTTCTTTTTTTCTTTCCCATCT
* **
6633 TTTTTCTTTTTTTTTTTTGCATCT
1 TTTTTCTTTTTTTCTTTCCCATCT
6657 TTT
1 TTT
6660 CACTGAGTGA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.78
Consensus pattern (24 bp):
TTTTTCTTTTTTTCTTTCCCATCT
Found at i:7033 original size:3 final size:3
Alignment explanation
Indices: 7023--7061 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
7013 CTTTCTTTTG
*
7023 TAT T-T TAT TATT TGT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
7062 ATGTATATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 28 0.88
4 2 0.06
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:7783 original size:20 final size:20
Alignment explanation
Indices: 7758--7795 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7748 CGGCCAACTT
*
7758 CCGGTGAAATTTTTCAGATC
1 CCGGTGAAATTTTCCAGATC
*
7778 CCGGTGACATTTTCCAGA
1 CCGGTGAAATTTTCCAGA
7796 ATCCGGCACC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.32
Consensus pattern (20 bp):
CCGGTGAAATTTTCCAGATC
Found at i:7801 original size:20 final size:19
Alignment explanation
Indices: 7757--7801 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
7747 TCGGCCAACT
*
7757 TCCGGTGAAATTTTTCAGA
1 TCCGGTGAAATTTTCCAGA
*
7776 TCCCGGTGACATTTTCCAGAA
1 T-CCGGTGAAATTTTCCAG-A
7797 TCCGG
1 TCCGG
7802 CACCGGTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 1 0.05
20 19 0.86
21 2 0.09
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.31
Consensus pattern (19 bp):
TCCGGTGAAATTTTCCAGA
Found at i:8277 original size:35 final size:36
Alignment explanation
Indices: 8198--8290 Score: 95
Period size: 35 Copynumber: 2.6 Consensus size: 36
8188 ATTAGGTTTA
* *
8198 TTTAATATTCTTTTTATCTTTATTTTGGTTTTACTTT
1 TTTATTATTCTTTTTATCTTTATTTT-GTTTCACTTT
**
8235 CCT-TTATT-TTTTTATCTTTATTTAT-TTTCACTTT
1 TTTATTATTCTTTTTATCTTTATTT-TGTTTCACTTT
8269 TTTATTATTCTATTTT-TCTTTA
1 TTTATTATTCT-TTTTATCTTTA
8291 AATAAAAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
34 9 0.20
35 20 0.43
36 12 0.26
37 5 0.11
ACGTcount: A:0.16, C:0.11, G:0.02, T:0.71
Consensus pattern (36 bp):
TTTATTATTCTTTTTATCTTTATTTTGTTTCACTTT
Found at i:8388 original size:15 final size:15
Alignment explanation
Indices: 8356--8389 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
8346 ATTTTCCTTG
**
8356 AAAATAAATTTCTTA
1 AAAATAAATTTCAAA
8371 AAAATAAATTTCAAA
1 AAAATAAATTTCAAA
8386 AAAA
1 AAAA
8390 GGGGTTTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAATAAATTTCAAA
Found at i:8572 original size:61 final size:60
Alignment explanation
Indices: 8401--8614 Score: 347
Period size: 61 Copynumber: 3.5 Consensus size: 60
8391 GGGTTTTTGA
* **
8401 GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTTTTAAAAAAAATATTTTTAG
1 GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATC-AAAGTTTCAAAAAAAAATA-TTTTAG
*
8463 GGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATCAAAGTTTCAAAAAAAAATATTTTAG
1 GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCAAAAAAAAATATTTTAG
*
8523 GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTCAAAAAAAAAATATTTTAG
1 GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTC-AAAAAAAAATATTTTAG
*
8584 GGAAAAGTTGAAAGTATCAATTTTCCCTGAA
1 GGAAAAGTTGAAAGTATCAATTTTCCTTGAA
8615 CAATAAAAAA
Statistics
Matches: 143, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
60 47 0.33
61 62 0.43
62 34 0.24
ACGTcount: A:0.46, C:0.09, G:0.13, T:0.32
Consensus pattern (60 bp):
GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCAAAAAAAAATATTTTAG
Found at i:12537 original size:8 final size:8
Alignment explanation
Indices: 12524--12566 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
12514 AGATGATGAA
12524 AAAAAAAG
1 AAAAAAAG
*
12532 AAAAAAAA
1 AAAAAAAG
12540 AAGAAAAAG
1 AA-AAAAAG
*
12549 GAAAAAAG
1 AAAAAAAG
*
12557 AAAGAAAG
1 AAAAAAAG
12565 AA
1 AA
12567 GGAAAAAATG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
8 23 0.79
9 6 0.21
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:12538 original size:11 final size:11
Alignment explanation
Indices: 12522--12547 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
12512 GAAGATGATG
12522 AAAAAAAAAGA
1 AAAAAAAAAGA
12533 AAAAAAAAAGA
1 AAAAAAAAAGA
12544 AAAA
1 AAAA
12548 GGAAAAAAGA
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:12546 original size:18 final size:18
Alignment explanation
Indices: 12525--12592 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 18
12515 GATGATGAAA
12525 AAAAAAGAAAAAAAAAAG
1 AAAAAAGAAAAAAAAAAG
* *
12543 AAAAAGGAAAAAAGAAAG
1 AAAAAAGAAAAAAAAAAG
* * **
12561 AAAGAAGGAAAAAATGAG
1 AAAAAAGAAAAAAAAAAG
*
12579 -AAAATGAAAAAAAA
1 AAAAAAGAAAAAAAA
12593 GAGATTCAAA
Statistics
Matches: 38, Mismatches: 12, Indels: 1
0.75 0.24 0.02
Matches are distributed among these distances:
17 10 0.26
18 28 0.74
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (18 bp):
AAAAAAGAAAAAAAAAAG
Found at i:12546 original size:19 final size:19
Alignment explanation
Indices: 12524--12574 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
12514 AGATGATGAA
*
12524 AAAAAAAGAAAAAAAAAAG
1 AAAAAAGGAAAAAAAAAAG
*
12543 -AAAAAGGAAAAAAGAAAG
1 AAAAAAGGAAAAAAAAAAG
*
12561 AAAGAAGGAAAAAA
1 AAAAAAGGAAAAAA
12575 TGAGAAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 16 0.57
19 12 0.43
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (19 bp):
AAAAAAGGAAAAAAAAAAG
Found at i:12563 original size:11 final size:11
Alignment explanation
Indices: 12521--12566 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
12511 AGAAGATGAT
12521 GAAAAAA-AAA
1 GAAAAAAGAAA
*
12531 GAAAAAAAAAA
1 GAAAAAAGAAA
*
12542 GAAAAAGGAAA
1 GAAAAAAGAAA
12553 -AAAGAAAGAAA
1 GAAA-AAAGAAA
12564 GAA
1 GAA
12567 GGAAAAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
10 10 0.33
11 18 0.60
12 2 0.07
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
GAAAAAAGAAA
Found at i:13875 original size:41 final size:41
Alignment explanation
Indices: 13830--14284 Score: 710
Period size: 41 Copynumber: 11.1 Consensus size: 41
13820 ATGATTGTCA
13830 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
13871 AGGAGCAATTTA-TTTTCCAAAGTTCCGT--TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTT-CAAAG-T-CGTGGTGCCTCTGTTTAG
* *
13912 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTGAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
13953 AGGAGCAATTTA-TTTTCCAAAGTCGTGGTGCCTCTGTTGAG
1 AGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAG
*
13994 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
14035 AGGAGCAATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAG
* *
14077 AGGAGCAATTTAATTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
14118 AGGAGCAATTTAC-TTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
14158 AGGAGCAATTTACTTTCCAAAGTCGT--TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
14197 AGGAGCAATTTAC-TTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* *
14237 AGGAGCAATTTACTTTCTCAAAGTCGTTGAGCCTCTGTTTAG
1 AGGAGCAATTTACTTT-TCAAAGTCGTGGTGCCTCTGTTTAG
14279 AGGAGC
1 AGGAGC
14285 TTTGGTAAAA
Statistics
Matches: 387, Mismatches: 13, Indels: 27
0.91 0.03 0.06
Matches are distributed among these distances:
38 11 0.03
39 29 0.07
40 73 0.19
41 196 0.51
42 75 0.19
43 3 0.01
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (41 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:14344 original size:38 final size:38
Alignment explanation
Indices: 14291--14391 Score: 161
Period size: 38 Copynumber: 2.7 Consensus size: 38
14281 GAGCTTTGGT
*
14291 AAAAAAAAAAA-AAAAAACAAAAAAAACAAAAAAAA-A
1 AAAAAAAAAAACAAAAAAAAAAAAAAACAAAAAAAACA
14327 AAAAAAACAAAACAAAAAAAAAAAAAAACAAAAAAAACA
1 AAAAAAA-AAAACAAAAAAAAAAAAAAACAAAAAAAACA
*
14366 AAAAAAAAAAACAAAAAATAAAAAAA
1 AAAAAAAAAAACAAAAAAAAAAAAAA
14392 GTAAAAAGGG
Statistics
Matches: 60, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
36 7 0.12
37 4 0.07
38 41 0.68
39 8 0.13
ACGTcount: A:0.92, C:0.07, G:0.00, T:0.01
Consensus pattern (38 bp):
AAAAAAAAAAACAAAAAAAAAAAAAAACAAAAAAAACA
Found at i:14398 original size:1 final size:1
Alignment explanation
Indices: 14291--14391 Score: 130
Period size: 1 Copynumber: 101.0 Consensus size: 1
14281 GAGCTTTGGT
* * * * *
14291 AAAAAAAAAAAAAAAAACAAAAAAAACAAAAAAAAAAAAAAAACAAAACAAAAAAAAAAAAAAAC
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
14356 AAAAAAAACAAAAAAAAAAAACAAAAAATAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
14392 GTAAAAAGGG
Statistics
Matches: 84, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 84 1.00
ACGTcount: A:0.92, C:0.07, G:0.00, T:0.01
Consensus pattern (1 bp):
A
Found at i:14592 original size:3 final size:3
Alignment explanation
Indices: 14582--14707 Score: 63
Period size: 3 Copynumber: 41.3 Consensus size: 3
14572 CTTTCTTTTG
*
14582 TAT T-T TAT TATT TAT TAT TAT TAT TAT TAT TAT TAT TAA TA- TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
14626 GTAT ATATT TATT TAT T-T T-T TAT TA- GAT TA- GAT T-T ATAT GTAT
1 -TAT -TA-T TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT -TAT
14669 T-T TAT TAT ATAGT TAT ATATT TAT TAT TA- TAT TAT TAT T
1 TAT TAT TAT -TA-T TAT -TA-T TAT TAT TAT TAT TAT TAT T
14708 TTTTTTGTTG
Statistics
Matches: 100, Mismatches: 7, Indels: 32
0.72 0.05 0.23
Matches are distributed among these distances:
2 15 0.15
3 56 0.56
4 26 0.26
5 3 0.03
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:15248 original size:31 final size:31
Alignment explanation
Indices: 15189--15255 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
15179 AATTTCCAGA
* ** *
15189 TTCCGGTGAAAATTCCGGCGAAGTTTGAATT
1 TTCCGGTGAAAATTCCGGCCAACCTTGAAGT
15220 TTCCGGTGAAAATTCCGGCCAACCTTGAAGT
1 TTCCGGTGAAAATTCCGGCCAACCTTGAAGT
15251 TTCCG
1 TTCCG
15256 ACACCAGCCC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (31 bp):
TTCCGGTGAAAATTCCGGCCAACCTTGAAGT
Found at i:15335 original size:19 final size:20
Alignment explanation
Indices: 15311--15349 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
15301 TCCGGCCAAC
15311 TTCCGGCGA-AATTTCCAGA
1 TTCCGGCGACAATTTCCAGA
* *
15330 TTCCGGTGACATTTTCCAGA
1 TTCCGGCGACAATTTCCAGA
15350 ATTCGGCACC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.31
Consensus pattern (20 bp):
TTCCGGCGACAATTTCCAGA
Found at i:15655 original size:1 final size:1
Alignment explanation
Indices: 15649--15700 Score: 50
Period size: 1 Copynumber: 52.0 Consensus size: 1
15639 CTGCTCCAGG
* ** * * *
15649 TTTTTTTTTTTTTTTTTTTTTTATTTTCATTTATTTGTTTTTTTATTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
15701 ATTTATTAGA
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.08, C:0.02, G:0.02, T:0.88
Consensus pattern (1 bp):
T
Found at i:15699 original size:24 final size:25
Alignment explanation
Indices: 15661--15707 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
15651 TTTTTTTTTT
*
15661 TTTTTTTTTTATTTTCATTTATTTG
1 TTTTTTTATTATTTTCATTTATTTG
*
15686 TTTTTTTATT-TTTTTATTTATT
1 TTTTTTTATTATTTTCATTTATT
15708 AGATTAGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.13, C:0.02, G:0.02, T:0.83
Consensus pattern (25 bp):
TTTTTTTATTATTTTCATTTATTTG
Found at i:15799 original size:35 final size:36
Alignment explanation
Indices: 15720--15811 Score: 93
Period size: 35 Copynumber: 2.6 Consensus size: 36
15710 ATTAGGTTTA
* *
15720 TTTAATATTCTTTTTATCTTTATTTTGGTTTTACTTT
1 TTTATTATTCTTTTTATCTTTATTTT-GTTTCACTTT
**
15757 CCT-TTATT-TTTTTATCTTTATTTAT-TTTCACTTT
1 TTTATTATTCTTTTTATCTTTATTT-TGTTTCACTTT
*
15791 TTTATTATTCTATTT-TCTTTA
1 TTTATTATTCTTTTTATCTTTA
15812 AATAAAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
34 9 0.20
35 26 0.58
36 9 0.20
37 1 0.02
ACGTcount: A:0.16, C:0.11, G:0.02, T:0.71
Consensus pattern (36 bp):
TTTATTATTCTTTTTATCTTTATTTTGTTTCACTTT
Found at i:15911 original size:59 final size:57
Alignment explanation
Indices: 15824--16238 Score: 561
Period size: 59 Copynumber: 7.1 Consensus size: 57
15814 TAAAAAATCA
*
15824 AAATTTCCAAAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
1 AAATTT-CAAAAAAAAATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
15882 AAATTTCAAAAAAAGGAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
1 AAATTTCAAAAAAA--AATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
* *
15941 AAATTTCAAAAAAAGGAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT
1 AAATTTCAAAAAAA--AATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
16000 AAATTTC--AAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
1 AAATTTCAAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
* *
16055 CAAAATTTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAAT
1 --AAA-TTTCAAAAAAAAAT-TTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
* *
16117 CAAAGTTTCAAAAAAATATTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
1 -AAA-TTTCAAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
*
16175 CAAAGTTTCAAAAAAAAATATTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCCTGAACAAT
1 -AAA-TTTCAAAAAAAAAT-TTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTGAA-AAT
16236 AAA
1 AAA
16239 AAAATCCTTC
Statistics
Matches: 327, Mismatches: 16, Indels: 26
0.89 0.04 0.07
Matches are distributed among these distances:
55 41 0.13
57 16 0.05
58 61 0.19
59 107 0.33
60 45 0.14
61 24 0.07
62 33 0.10
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (57 bp):
AAATTTCAAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
Found at i:16043 original size:27 final size:27
Alignment explanation
Indices: 15898--15990 Score: 69
Period size: 27 Copynumber: 3.3 Consensus size: 27
15888 CAAAAAAAGG
15898 AATTTTTGAGGAAAAGTTGAAAGTATC
1 AATTTTTGAGGAAAAGTTGAAAGTATC
** * * ** **
15925 AATTTTCCTTGAAAATAAATTTCAAAAAAAGG
1 AA-TTT--TTGAGGA-AAAGTT-GAAAGTATC
15957 AATTTTTGAGGAAAAGTTGAAAGTATC
1 AATTTTTGAGGAAAAGTTGAAAGTATC
15984 AATTTTT
1 AATTTTT
15991 CTTAAAAATA
Statistics
Matches: 45, Mismatches: 16, Indels: 10
0.63 0.23 0.14
Matches are distributed among these distances:
27 13 0.29
28 8 0.18
29 5 0.11
30 5 0.11
31 8 0.18
32 6 0.13
ACGTcount: A:0.43, C:0.05, G:0.16, T:0.35
Consensus pattern (27 bp):
AATTTTTGAGGAAAAGTTGAAAGTATC
Found at i:23546 original size:16 final size:16
Alignment explanation
Indices: 23514--23604 Score: 75
Period size: 16 Copynumber: 6.0 Consensus size: 16
23504 TCTTTAGGAT
* *
23514 TTTTA-GGACTTTAGA
1 TTTTAGGGATTTTGGA
*
23529 TTTCAGGGATTTTGGA
1 TTTTAGGGATTTTGGA
* *
23545 TTTTGGGGAGTTTGGA
1 TTTTAGGGATTTTGGA
* *
23561 TTTAATGGATTTT-GA
1 TTTTAGGGATTTTGGA
*
23576 TTTT-GGG-GTTTGGA
1 TTTTAGGGATTTTGGA
23590 TTTTA-GGATTTTGGA
1 TTTTAGGGATTTTGGA
23605 AAATTAAAAA
Statistics
Matches: 58, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
13 3 0.05
14 10 0.17
15 15 0.26
16 30 0.52
ACGTcount: A:0.19, C:0.02, G:0.31, T:0.48
Consensus pattern (16 bp):
TTTTAGGGATTTTGGA
Found at i:23547 original size:7 final size:7
Alignment explanation
Indices: 23535--23604 Score: 61
Period size: 7 Copynumber: 9.4 Consensus size: 7
23525 TAGATTTCAG
23535 GGATTTT
1 GGATTTT
23542 GGATTTT
1 GGATTTT
*
23549 GGGGAGTTT
1 --GGATTTT
23558 GGATTTAAT
1 GGATTT--T
23567 GGATTTT
1 GGATTTT
23574 -GATTTT
1 GGATTTT
**
23580 GGGGTTT
1 GGATTTT
23587 GGATTTT
1 GGATTTT
23594 AGGATTTT
1 -GGATTTT
23602 GGA
1 GGA
23605 AAATTAAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
6 6 0.12
7 25 0.49
8 7 0.14
9 13 0.25
ACGTcount: A:0.17, C:0.00, G:0.34, T:0.49
Consensus pattern (7 bp):
GGATTTT
Found at i:23845 original size:3 final size:3
Alignment explanation
Indices: 23837--23874 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
23827 AGGCAGGGAC
23837 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
23875 ATATTTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:24720 original size:14 final size:14
Alignment explanation
Indices: 24701--24738 Score: 55
Period size: 12 Copynumber: 2.9 Consensus size: 14
24691 GACTGTGTTA
24701 TTTTTTGTTTTTGT
1 TTTTTTGTTTTTGT
24715 TTTTTTG--TTTGT
1 TTTTTTGTTTTTGT
24727 TTTTTT-TTTTTG
1 TTTTTTGTTTTTG
24739 GTTGGTGTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 11 0.50
13 4 0.18
14 7 0.32
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (14 bp):
TTTTTTGTTTTTGT
Found at i:24727 original size:18 final size:17
Alignment explanation
Indices: 24704--24738 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
24694 TGTGTTATTT
24704 TTTGTTTTTGTTTTTTTG
1 TTTGTTTTT-TTTTTTTG
24722 TTTGTTTTTTTTTTTTG
1 TTTGTTTTTTTTTTTTG
24739 GTTGGTGTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (17 bp):
TTTGTTTTTTTTTTTTG
Found at i:25035 original size:23 final size:21
Alignment explanation
Indices: 24984--25036 Score: 52
Period size: 23 Copynumber: 2.4 Consensus size: 21
24974 ATGGGATCTT
*
24984 GGTGGCTGTAGGGTGGCTGTA
1 GGTGGCTGTAGGGTAGCTGTA
* *
25005 GGTGGGCTGATAGGGTAGTTGGTC
1 GGT-GGCTG-TAGGGTAGCT-GTA
25029 GGTGGCTG
1 GGTGGCTG
25037 GTCGGGGGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 13 0.50
24 5 0.19
ACGTcount: A:0.09, C:0.09, G:0.53, T:0.28
Consensus pattern (21 bp):
GGTGGCTGTAGGGTAGCTGTA
Found at i:25129 original size:3 final size:3
Alignment explanation
Indices: 25121--25160 Score: 62
Period size: 3 Copynumber: 13.0 Consensus size: 3
25111 ATTAATATAT
*
25121 TTA TTA TTA TTA TTTA TTA TTA TTA TTA TTA TTA GTA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
25161 ATATACTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:25398 original size:27 final size:24
Alignment explanation
Indices: 25328--25396 Score: 138
Period size: 24 Copynumber: 2.9 Consensus size: 24
25318 GTTTATCTAA
25328 ATGAAATCATAAAATATTATTTTT
1 ATGAAATCATAAAATATTATTTTT
25352 ATGAAATCATAAAATATTATTTTT
1 ATGAAATCATAAAATATTATTTTT
25376 ATGAAATCATAAAATATTATT
1 ATGAAATCATAAAATATTATT
25397 ATTTTTTAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.43
Consensus pattern (24 bp):
ATGAAATCATAAAATATTATTTTT
Found at i:25424 original size:48 final size:48
Alignment explanation
Indices: 25328--25423 Score: 120
Period size: 48 Copynumber: 2.0 Consensus size: 48
25318 GTTTATCTAA
* *
25328 ATGAAATCATAAAATATTATTTTTATGAAATCATAAAATATTATTTTT
1 ATGAAATCATAAAATATTATTTTTATGAAATAATAAAACATTATTTTT
* * * * *
25376 ATGAAATCATAAAATATTATTATTTTTTAATTAATTAAACCTTATTTT
1 ATGAAATCATAAAATATTATT-TTTATGAAATAATAAAACATTATTTT
25424 ACATAAAAAC
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
48 21 0.52
49 19 0.47
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (48 bp):
ATGAAATCATAAAATATTATTTTTATGAAATAATAAAACATTATTTTT
Found at i:29664 original size:25 final size:25
Alignment explanation
Indices: 29627--29700 Score: 60
Period size: 25 Copynumber: 3.0 Consensus size: 25
29617 AATTTCGGAC
** *
29627 TAAGAAACCAAAAAAAAACCAAAAA
1 TAAGAAAATAAAAAAAAACAAAAAA
* *
29652 TAAGAAAATAAAATAAAATAAAAAA
1 TAAGAAAATAAAAAAAAACAAAAAA
** *
29677 CCA-AAAATAATAAAAAAACTAAAA
1 TAAGAAAATAA-AAAAAAACAAAAA
29701 TTGGGCCATT
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
24 7 0.18
25 31 0.82
ACGTcount: A:0.77, C:0.09, G:0.03, T:0.11
Consensus pattern (25 bp):
TAAGAAAATAAAAAAAAACAAAAAA
Found at i:29677 original size:32 final size:31
Alignment explanation
Indices: 29639--29701 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 31
29629 AGAAACCAAA
29639 AAAAAACCAAAAATAAGAAAATAAAATAAAAT
1 AAAAAACCAAAAATAAGAAAA-AAAATAAAAT
* *
29671 AAAAAACCAAAAATAATAAAAAAACTAAAAT
1 AAAAAACCAAAAATAAGAAAAAAAATAAAAT
29702 TGGGCCATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 9 0.31
32 20 0.69
ACGTcount: A:0.78, C:0.08, G:0.02, T:0.13
Consensus pattern (31 bp):
AAAAAACCAAAAATAAGAAAAAAAATAAAAT
Found at i:29694 original size:18 final size:18
Alignment explanation
Indices: 29638--29700 Score: 62
Period size: 18 Copynumber: 3.7 Consensus size: 18
29628 AAGAAACCAA
*
29638 AAAAAAACCAAAAATAAG
1 AAAAAAACCAAAAATAAT
* *
29656 AAAATAA--AATAA-AAT
1 AAAAAAACCAAAAATAAT
29671 -AAAAAACCAAAAATAAT
1 AAAAAAACCAAAAATAAT
*
29688 AAAAAAACTAAAA
1 AAAAAAACCAAAA
29701 TTGGGCCATT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
14 5 0.14
15 2 0.06
16 8 0.23
17 3 0.09
18 17 0.49
ACGTcount: A:0.79, C:0.08, G:0.02, T:0.11
Consensus pattern (18 bp):
AAAAAAACCAAAAATAAT
Found at i:30032 original size:41 final size:41
Alignment explanation
Indices: 29949--30095 Score: 204
Period size: 41 Copynumber: 3.6 Consensus size: 41
29939 GGCGAAACAT
* *
29949 CTTTGGAAAAATAAATTGCTCCTCTGAATAGAGGCAACTGAA
1 CTTTGAAAAAATAAATGGCTCCTCTGAATAGAGGCAA-TGAA
29991 CTTTGAAAAAATAAATGGCTCCTCTGAATAGAGGCAATGAA
1 CTTTGAAAAAATAAATGGCTCCTCTGAATAGAGGCAATGAA
* * **
30032 CTTTGACAAAATAAATGGCTCCTCTGAATAAAGGCAACAAA
1 CTTTGAAAAAATAAATGGCTCCTCTGAATAGAGGCAATGAA
** *
30073 CTTTGTGAAAATAAATGACTCCT
1 CTTTGAAAAAATAAATGGCTCCT
30096 TGACAATCAT
Statistics
Matches: 96, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
41 61 0.64
42 35 0.36
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (41 bp):
CTTTGAAAAAATAAATGGCTCCTCTGAATAGAGGCAATGAA
Found at i:31450 original size:61 final size:60
Alignment explanation
Indices: 31164--31578 Score: 492
Period size: 59 Copynumber: 6.9 Consensus size: 60
31154 TTGTGTAGGA
* * **
31164 AAAATTGATACTTTCAACTTTTCC-CCAAAA-ATATTTTTTGGAAATTT-ATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTTGAAATTTGATTTCCAAGG
* *
31221 AAAATTGATACTTTCAACTTTTCCT-TAAAA-ATATTTTTTTGAAACTTGGATTTCCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTTGAAA-TTTGATTTCCAAGG
* ** ** *
31280 AAAATTGATACTTTCAAATTTTCCTCAAAAAT-CCTTTTTTTGAAAATTT-ATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTTG-AAATTTGATTTCCAAGG
31339 AAAATTGATACTTTCAACTTTTTCC-CAAAAATAT-TTTTTTTGAAACTTTGATTTCCAAGG
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATATATTTTTTTGAAA-TTTGATTTCCAAGG
31399 AAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTTGAAATTTTGATTTCCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTTGAAA-TTTGATTTCCAAGG
* * **
31460 AAAATTGATACTTTCAACTTTTCCTCAAAAATCCCTTTTTTTTTTTGAAATTT-ATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA----TATATTTTTTTGAAATTTGATTTCCAAGG
*
31523 AAAATTGATACTTTCAACTTTTTCCT-AAAAATATTTTTTTTTGGAAATTTTGATTT
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATATATTTTTTT-GAAA-TTTGATTT
31579 TTATTTAAAG
Statistics
Matches: 314, Mismatches: 24, Indels: 35
0.84 0.06 0.09
Matches are distributed among these distances:
57 41 0.13
58 5 0.02
59 90 0.29
60 58 0.18
61 62 0.20
62 4 0.01
63 31 0.10
64 10 0.03
65 13 0.04
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.46
Consensus pattern (60 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTTGAAATTTGATTTCCAAGG
Found at i:31631 original size:6 final size:6
Alignment explanation
Indices: 31604--31681 Score: 58
Period size: 6 Copynumber: 13.8 Consensus size: 6
31594 AGAATAATAA
* * * * *
31604 AAAAAT AAAAGT GAAAAT --AAAT AAAAAT AAAAA- ATAAAG AAAAGT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
* *
31649 -AAAAC AAAAAT AAAAAT -AAAAT AAAGAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
31682 GAATATTAAA
Statistics
Matches: 55, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
4 4 0.07
5 12 0.22
6 39 0.71
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:31637 original size:17 final size:17
Alignment explanation
Indices: 31596--31766 Score: 81
Period size: 17 Copynumber: 10.1 Consensus size: 17
31586 AAGAAAATAG
31596 AATAATAAAA-AAATAAA
1 AATAA-AAAATAAATAAA
* *
31613 AGT-GAAAATAAATAAA
1 AATAAAAAATAAATAAA
*
31629 AATAAAAAATAAAGAAA
1 AATAAAAAATAAATAAA
*
31646 AGTAAAACAA-AAATAAA
1 AATAAAA-AATAAATAAA
*
31663 AATAAAATAA-AGATAAA
1 AATAAAA-AATAAATAAA
* * *
31680 AA-GAATATTAAATAAA
1 AATAAAAAATAAATAAA
** **
31696 CCTAATCTAATAAATAAA
1 AATAA-AAAATAAATAAA
*
31714 GAA-ATAAAAA-AAAT-CA
1 -AATA-AAAAATAAATAAA
*
31730 AATAAAAAAATAAATGAA
1 AAT-AAAAAATAAATAAA
31748 AATAAAAAAATAAA-AAA
1 AAT-AAAAAATAAATAAA
31765 AA
1 AA
31767 AACCTGGAGC
Statistics
Matches: 116, Mismatches: 26, Indels: 24
0.70 0.16 0.14
Matches are distributed among these distances:
15 7 0.06
16 23 0.20
17 55 0.47
18 30 0.26
19 1 0.01
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (17 bp):
AATAAAAAATAAATAAA
Found at i:31679 original size:28 final size:29
Alignment explanation
Indices: 31603--31680 Score: 85
Period size: 27 Copynumber: 2.8 Consensus size: 29
31593 TAGAATAATA
*
31603 AAAAAATAAAAGTGAAA-AT-AAATAAAAAT
1 AAAAAATAAAA-T-AAAGATAAAACAAAAAT
31632 AAAAAATAAAGA-AAAG-TAAAACAAAAAT
1 AAAAAATAAA-ATAAAGATAAAACAAAAAT
31660 -AAAAATAAAATAAAGATAAAA
1 AAAAAATAAAATAAAGATAAAA
31681 AGAATATTAA
Statistics
Matches: 43, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
26 1 0.02
27 17 0.40
28 14 0.33
29 10 0.23
30 1 0.02
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.14
Consensus pattern (29 bp):
AAAAAATAAAATAAAGATAAAACAAAAAT
Found at i:31720 original size:8 final size:8
Alignment explanation
Indices: 31707--31765 Score: 59
Period size: 8 Copynumber: 7.4 Consensus size: 8
31697 CTAATCTAAT
*
31707 AAATAAAG
1 AAATAAAA
31715 AAAT-AAA
1 AAATAAAA
**
31722 AAA-AATC
1 AAATAAAA
31729 AAATAAAA
1 AAATAAAA
31737 AAATAAATGA
1 AAATAAA--A
31747 AAATAAAA
1 AAATAAAA
31755 AAATAAAA
1 AAATAAAA
31763 AAA
1 AAA
31766 AAACCTGGAG
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
7 9 0.21
8 25 0.60
10 8 0.19
ACGTcount: A:0.81, C:0.02, G:0.03, T:0.14
Consensus pattern (8 bp):
AAATAAAA
Found at i:31728 original size:26 final size:28
Alignment explanation
Indices: 31699--31765 Score: 79
Period size: 26 Copynumber: 2.5 Consensus size: 28
31689 AAATAAACCT
* *
31699 AATCTAATAAATAAAGAAAT-AAAA-AA
1 AATCAAATAAAAAAAGAAATGAAAATAA
*
31725 AATCAAATAAAAAAATAAATGAAAATAA
1 AATCAAATAAAAAAAGAAATGAAAATAA
31753 AA--AAATAAAAAAA
1 AATCAAATAAAAAAA
31766 AAACCTGGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 28 0.78
27 4 0.11
28 4 0.11
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.16
Consensus pattern (28 bp):
AATCAAATAAAAAAAGAAATGAAAATAA
Found at i:31749 original size:12 final size:13
Alignment explanation
Indices: 31715--31765 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 13
31705 ATAAATAAAG
31715 AAATAAAAAAAATC
1 AAAT-AAAAAAATC
31729 AAATAAAAAAAT-
1 AAATAAAAAAATC
*
31741 AAATGAAAATAAA-A
1 AAAT-AAAA-AAATC
31755 AAATAAAAAAA
1 AAATAAAAAAA
31766 AAACCTGGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
12 7 0.21
13 16 0.47
14 11 0.32
ACGTcount: A:0.82, C:0.02, G:0.02, T:0.14
Consensus pattern (13 bp):
AAATAAAAAAATC
Found at i:31751 original size:40 final size:39
Alignment explanation
Indices: 31617--31766 Score: 121
Period size: 40 Copynumber: 3.8 Consensus size: 39
31607 AATAAAAGTG
* *
31617 AAAATAAATAAAAATAAA-AAATAAAGAAAAGTAAAACAAA
1 AAAATAAAT-AAAATAAAGAAATAAA-AAAAATAAAATAAA
*
31657 AATAA-AAATAAAATAAAG--ATAAAAAGAATATTAAATAAA
1 AA-AATAAATAAAATAAAGAAATAAAAA-AA-ATAAAATAAA
** * *
31696 CCTAATCTAAT-AAATAAAGAAATAAAAAAAATCAAATAAA
1 -AAAAT-AAATAAAATAAAGAAATAAAAAAAATAAAATAAA
*
31736 AAAATAAATGAAAATAAAAAAATAAAAAAAA
1 AAAATAAAT-AAAATAAAGAAATAAAAAAAA
31767 AACCTGGAGC
Statistics
Matches: 88, Mismatches: 11, Indels: 22
0.73 0.09 0.18
Matches are distributed among these distances:
37 2 0.02
38 10 0.11
39 20 0.23
40 42 0.48
41 7 0.08
42 7 0.08
ACGTcount: A:0.76, C:0.03, G:0.04, T:0.17
Consensus pattern (39 bp):
AAAATAAATAAAATAAAGAAATAAAAAAAATAAAATAAA
Found at i:33043 original size:13 final size:12
Alignment explanation
Indices: 33025--33084 Score: 52
Period size: 13 Copynumber: 5.0 Consensus size: 12
33015 AACATTGTCA
33025 TTTTTTGTTTGTT
1 TTTTTTGTTT-TT
33038 TTTTTTG--TTT
1 TTTTTTGTTTTT
*
33048 TTTTGTGTTTTT
1 TTTTTTGTTTTT
** *
33060 TTTTTACTACTTT
1 TTTTTTGT-TTTT
33073 TTTTTTGTTTTT
1 TTTTTTGTTTTT
33085 GACCCAAGCT
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
10 8 0.22
11 1 0.03
12 11 0.31
13 16 0.44
ACGTcount: A:0.03, C:0.03, G:0.10, T:0.83
Consensus pattern (12 bp):
TTTTTTGTTTTT
Found at i:33051 original size:21 final size:21
Alignment explanation
Indices: 33025--33064 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
33015 AACATTGTCA
33025 TTTTTTGT-TTGTTTTTTTTGT
1 TTTTTTGTGTT-TTTTTTTTGT
33046 TTTTTTGTGTTTTTTTTTT
1 TTTTTTGTGTTTTTTTTTT
33065 ACTACTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (21 bp):
TTTTTTGTGTTTTTTTTTTGT
Found at i:33084 original size:9 final size:9
Alignment explanation
Indices: 33026--33062 Score: 56
Period size: 10 Copynumber: 3.9 Consensus size: 9
33016 ACATTGTCAT
33026 TTTTTGTTTG
1 TTTTT-TTTG
33036 TTTTTTTTG
1 TTTTTTTTG
33045 TTTTTTTGTG
1 TTTTTTT-TG
33055 TTTTTTTT
1 TTTTTTTT
33063 TTACTACTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 12 0.46
10 14 0.54
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:33185 original size:41 final size:41
Alignment explanation
Indices: 33092--33383 Score: 419
Period size: 41 Copynumber: 7.1 Consensus size: 41
33082 TTTGACCCAA
* * * *
33092 GCTCCTCTAAATAGAGGCTCAACGACTTTGAGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-TGAAAGTAAATT
*
33134 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAGTAAATT
33175 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAGTAAATT
* * *
33216 GCACCTCTAAACAGAGGAACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAGTAAATT
* *
33257 GCTCCTCTAAACAGAGGTA--ACGAAACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG--ACTTTTGAAAGTAAATT
* *
33298 GCTCCTCTAAACAGAGGCACCATGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAGTAAATT
33339 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTG-AAAGTAAATT
33380 GCTC
1 GCTC
33384 ATTGACAATC
Statistics
Matches: 230, Mismatches: 15, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
39 3 0.01
40 3 0.01
41 196 0.85
42 26 0.11
43 2 0.01
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAGTAAATT
Found at i:34656 original size:16 final size:16
Alignment explanation
Indices: 34625--34667 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
34615 CATTTTCTCA
*
34625 TTTTTTCTTTTTTTTT
1 TTTTTTCTTTTATTTT
34641 TTTTTTCTTTTATTTT
1 TTTTTTCTTTTATTTT
34657 TTCTTTT-TTTT
1 TT-TTTTCTTTT
34668 CATCATCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 21 0.84
17 4 0.16
ACGTcount: A:0.02, C:0.07, G:0.00, T:0.91
Consensus pattern (16 bp):
TTTTTTCTTTTATTTT
Found at i:34666 original size:8 final size:8
Alignment explanation
Indices: 34609--34651 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
34599 TGAATCTCCC
*
34609 TTTTTTCA
1 TTTTTTCT
* *
34617 TTTTCTCA
1 TTTTTTCT
34625 TTTTTTCT
1 TTTTTTCT
*
34633 TTTTTTTT
1 TTTTTTCT
34641 TTTTTTCT
1 TTTTTTCT
34649 TTT
1 TTT
34652 ATTTTTTCTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTTCT
Found at i:34667 original size:21 final size:21
Alignment explanation
Indices: 34627--34668 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
34617 TTTTCTCATT
* *
34627 TTTTCTTTTTTTTTTTTTTTC
1 TTTTATTTTTTCTTTTTTTTC
34648 TTTTATTTTTTCTTTTTTTTC
1 TTTTATTTTTTCTTTTTTTTC
34669 ATCATCTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.02, C:0.10, G:0.00, T:0.88
Consensus pattern (21 bp):
TTTTATTTTTTCTTTTTTTTC
Found at i:34681 original size:1 final size:1
Alignment explanation
Indices: 34625--34667 Score: 50
Period size: 1 Copynumber: 43.0 Consensus size: 1
34615 CATTTTCTCA
* * * *
34625 TTTTTTCTTTTTTTTTTTTTTTCTTTTATTTTTTCTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
34668 CATCATCTTT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.02, C:0.07, G:0.00, T:0.91
Consensus pattern (1 bp):
T
Found at i:38863 original size:58 final size:58
Alignment explanation
Indices: 38531--38863 Score: 469
Period size: 58 Copynumber: 5.7 Consensus size: 58
38521 TCTTGTGTAG
* *
38531 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAA
* * * **
38588 GGAAAATTGATACTTTCAACTTTTACTCAAAAATATTTTTTTGAAACTTGGATTTCCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATT-TATTTTTAA
*
38647 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAT-CTTTTTTGAAAATTTATTTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTA-TTTTTAA
* * *
38705 GAAAAATTGATACTTTCAACTTTCCCCCAAAAATATTTTTTTTG-AAATTT-TTTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTGAAAATTTATTTTT-AA
*
38763 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAT-ATTTTTTTGAAAATTTATTTTTAA
38822 GGAAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTT
38864 TTGGAAATTT
Statistics
Matches: 244, Mismatches: 22, Indels: 19
0.86 0.08 0.07
Matches are distributed among these distances:
57 39 0.16
58 108 0.44
59 85 0.35
60 12 0.05
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.45
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAA
Found at i:38919 original size:6 final size:5
Alignment explanation
Indices: 38890--39066 Score: 67
Period size: 5 Copynumber: 32.8 Consensus size: 5
38880 TTATTTAAAG
* *
38890 AAAAT AGAAT AATAA- AAAAT AAAAT GAAAAT -AAAT AAAAAT AAAAA
1 AAAAT AAAAT AA-AAT AAAAT AAAAT -AAAAT AAAAT -AAAAT AAAAT
* *
38936 ATAAAG AAAAGT AAAACA AAAAT AAAAAT AAAAT AAAGAT AAAA- AGAATAT
1 A-AAAT AAAA-T AAAA-T AAAAT -AAAAT AAAAT AAA-AT AAAAT A-AA-AT
* * * * *
38987 TAAAT AAACCT AATCTAAT AAAAA AAAAT AAAA- AAAAT CAAAT AAACAA
1 AAAAT AAA-AT AA---AAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT
*
39036 ATAAAT GAAAAT AAAAA AAAATT AAAA- AAAA
1 A-AAAT -AAAAT AAAAT AAAA-T AAAAT AAAA
39067 ACCTGGAGCG
Statistics
Matches: 131, Mismatches: 20, Indels: 43
0.68 0.10 0.22
Matches are distributed among these distances:
4 15 0.11
5 59 0.45
6 50 0.38
7 3 0.02
8 3 0.02
9 1 0.01
ACGTcount: A:0.76, C:0.03, G:0.04, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:38926 original size:22 final size:22
Alignment explanation
Indices: 38900--38994 Score: 63
Period size: 22 Copynumber: 4.3 Consensus size: 22
38890 AAAATAGAAT
38900 AATAAAAAATAAAATGAAAATA
1 AATAAAAAATAAAATGAAAATA
*
38922 AATAAAAATAAAAAAT-AAAGA-A
1 AATAAAAA-ATAAAATGAAA-ATA
* *
38944 AAGTAAAACA-AAAATAAAAATA
1 AA-TAAAAAATAAAATGAAAATA
* * *
38966 AA-ATAAAGATAAAAAGAATATTA
1 AATA-AAAAATAAAATGAA-AATA
38989 AATAAA
1 AATAAA
38995 CCTAATCTAA
Statistics
Matches: 58, Mismatches: 6, Indels: 17
0.72 0.07 0.21
Matches are distributed among these distances:
20 1 0.02
21 10 0.17
22 27 0.47
23 19 0.33
24 1 0.02
ACGTcount: A:0.77, C:0.01, G:0.05, T:0.17
Consensus pattern (22 bp):
AATAAAAAATAAAATGAAAATA
Found at i:38938 original size:28 final size:28
Alignment explanation
Indices: 38891--38978 Score: 94
Period size: 28 Copynumber: 3.1 Consensus size: 28
38881 TATTTAAAGA
38891 AAATAGAATAATAAAAAATAAAATGAAAAT
1 AAATA-AA-AATAAAAAATAAAATGAAAAT
38921 AAATAAAAATAAAAAAT-AAA-GAAAAGT
1 AAATAAAAATAAAAAATAAAATGAAAA-T
*
38948 AAAACAAAAAT-AAAAATAAAAT-AAAGAT
1 -AAATAAAAATAAAAAATAAAATGAAA-AT
38976 AAA
1 AAA
38979 AAGAATATTA
Statistics
Matches: 52, Mismatches: 1, Indels: 13
0.79 0.02 0.20
Matches are distributed among these distances:
26 5 0.10
27 13 0.25
28 26 0.50
29 3 0.06
30 5 0.10
ACGTcount: A:0.77, C:0.01, G:0.06, T:0.16
Consensus pattern (28 bp):
AAATAAAAATAAAAAATAAAATGAAAAT
Found at i:39624 original size:26 final size:27
Alignment explanation
Indices: 39577--39633 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 27
39567 AATCTGGAAA
* *
39577 TTTC-CCAGAAATTTCCAGAAAAAT-T
1 TTTCGCCAAAAATTTCCAAAAAAATAT
* *
39602 TTTCGCCAAAAATTTCTAAAAAATTAT
1 TTTCGCCAAAAATTTCCAAAAAAATAT
39629 TTTCG
1 TTTCG
39634 ATCCCTACAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 4 0.15
26 16 0.62
27 6 0.23
ACGTcount: A:0.39, C:0.18, G:0.07, T:0.37
Consensus pattern (27 bp):
TTTCGCCAAAAATTTCCAAAAAAATAT
Found at i:40161 original size:9 final size:10
Alignment explanation
Indices: 40142--40177 Score: 51
Period size: 9 Copynumber: 3.9 Consensus size: 10
40132 TACATTATTA
40142 AATACATAAT
1 AATACATAAT
40152 AATA-ATAAT
1 AATACATAAT
40161 AATA-ATAA-
1 AATACATAAT
40169 AATACATAA
1 AATACATAA
40178 GATACAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 4 0.16
9 17 0.68
10 4 0.16
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (10 bp):
AATACATAAT
Found at i:40266 original size:20 final size:21
Alignment explanation
Indices: 40241--40279 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
40231 CTTACCCATT
40241 TGGGCCAGG-CCCAATTGGTC
1 TGGGCCAGGACCCAATTGGTC
*
40261 TGGGCCTGGACCCAATTGG
1 TGGGCCAGGACCCAATTGG
40280 GTGTCTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.15, C:0.28, G:0.36, T:0.21
Consensus pattern (21 bp):
TGGGCCAGGACCCAATTGGTC
Found at i:41408 original size:8 final size:8
Alignment explanation
Indices: 41380--41469 Score: 51
Period size: 8 Copynumber: 10.6 Consensus size: 8
41370 TGAGTCCTCA
41380 TTTTTCTT
1 TTTTTCTT
41388 TTCCTTCTCTT
1 TT--TT-TCTT
41399 TTTTTC-T
1 TTTTTCTT
41406 TTTTTCTT
1 TTTTTCTT
41414 TTCATTT-TT
1 TT--TTTCTT
*
41423 CATTTTCATT
1 -TTTTTC-TT
*
41433 TTTTT-AT
1 TTTTTCTT
*
41440 TTTTCCTT
1 TTTTTCTT
*
41448 TTTTCCTT
1 TTTTTCTT
41456 TTTTTCCTT
1 TTTTT-CTT
41465 TTTTT
1 TTTTT
41470 TCAAATATAT
Statistics
Matches: 65, Mismatches: 6, Indels: 21
0.71 0.07 0.23
Matches are distributed among these distances:
7 12 0.18
8 23 0.35
9 16 0.25
10 8 0.12
11 6 0.09
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTCTT
Found at i:41457 original size:21 final size:20
Alignment explanation
Indices: 41398--41458 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
41388 TTCCTTCTCT
* *
41398 TTTTTTCTTTTTTCTTTTCA
1 TTTTTCCTTTTTTCTTTTTA
*
41418 TTTTTCATTTTCATT-TTTTTA
1 TTTTTCCTTTT--TTCTTTTTA
41439 TTTTTCCTTTTTTCCTTTTT
1 TTTTTCCTTTTTT-CTTTTT
41459 TTCCTTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
19 2 0.06
20 9 0.27
21 20 0.61
22 2 0.06
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTTCCTTTTTTCTTTTTA
Found at i:41471 original size:10 final size:9
Alignment explanation
Indices: 41439--41469 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
41429 CATTTTTTTA
41439 TTTTTCC-T
1 TTTTTCCTT
41447 TTTTTCCTT
1 TTTTTCCTT
41456 TTTTTCCTT
1 TTTTTCCTT
41465 TTTTT
1 TTTTT
41470 TCAAATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTCCTT
Found at i:47845 original size:27 final size:27
Alignment explanation
Indices: 47815--47931 Score: 82
Period size: 25 Copynumber: 4.3 Consensus size: 27
47805 ATTATTTAAT
47815 ATATATTATTTATTTTTTTATCTATTA
1 ATATATTATTTATTTTTTTATCTATTA
*
47842 ATATTTTTATTATTTATCTGTTTTTAT-TATTT
1 ATA----TATTATTTAT-T-TTTTTATCTATTA
* * *
47874 AT-TATTATTTATCTATTTCTCTTATT-
1 ATATATTATTTATTTTTTTATC-TATTA
* *
47900 -TAT-CTAATTATTTTTTTATCTATTA
1 ATATATTATTTATTTTTTTATCTATTA
47925 ATATATT
1 ATATATT
47932 TATCTTTTTA
Statistics
Matches: 68, Mismatches: 10, Indels: 24
0.67 0.10 0.24
Matches are distributed among these distances:
24 4 0.06
25 18 0.26
26 4 0.06
27 18 0.26
31 10 0.15
32 7 0.10
33 7 0.10
ACGTcount: A:0.26, C:0.06, G:0.01, T:0.67
Consensus pattern (27 bp):
ATATATTATTTATTTTTTTATCTATTA
Found at i:47874 original size:7 final size:7
Alignment explanation
Indices: 47790--47891 Score: 60
Period size: 7 Copynumber: 15.4 Consensus size: 7
47780 CCAATGGATT
47790 TTTATT-
1 TTTATTA
47796 TTTATT-
1 TTTATTA
*
47802 TTCATTA
1 TTTATTA
*
47809 TTTAATA
1 TTTATTA
*
47816 TATATTA
1 TTTATTA
47823 TTTATT-
1 TTTATTA
47829 TTT-TTA
1 TTTATTA
*
47835 TCTATTA
1 TTTATTA
*
47842 -ATATT-
1 TTTATTA
47847 TTTATTA
1 TTTATTA
*
47854 TTTATCTG
1 TTTAT-TA
47862 TTT-TTA
1 TTTATTA
47868 -TTATT-
1 TTTATTA
47873 TATTATTA
1 T-TTATTA
47881 TTTATCTA
1 TTTAT-TA
47889 TTT
1 TTT
47892 CTCTTATTTA
Statistics
Matches: 74, Mismatches: 11, Indels: 20
0.70 0.10 0.19
Matches are distributed among these distances:
5 4 0.05
6 27 0.36
7 33 0.45
8 10 0.14
ACGTcount: A:0.25, C:0.04, G:0.01, T:0.70
Consensus pattern (7 bp):
TTTATTA
Found at i:47898 original size:17 final size:16
Alignment explanation
Indices: 47821--47944 Score: 92
Period size: 16 Copynumber: 7.6 Consensus size: 16
47811 TAATATATAT
*
47821 TATTTATTTTTTTATC
1 TATTTATTTATTTATC
*
47837 TATTAATATT-TTTAT-
1 TATTTAT-TTATTTATC
*
47852 TATTTATCTGTTTTTAT-
1 TATTTAT-T-TATTTATC
47869 TATTTATTATTATTTATC
1 TATTTA-T-TTATTTATC
*
47887 TATTTCTCTTATTTATC
1 TATTTAT-TTATTTATC
* *
47904 TAATTATTTTTTTATC
1 TATTTATTTATTTATC
* *
47920 TATTAATATATTTATC
1 TATTTATTTATTTATC
*
47936 TTTTTATTT
1 TATTTATTT
47945 TGATTAATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
15 7 0.08
16 38 0.44
17 34 0.40
18 7 0.08
ACGTcount: A:0.24, C:0.06, G:0.01, T:0.69
Consensus pattern (16 bp):
TATTTATTTATTTATC
Found at i:47923 original size:33 final size:34
Alignment explanation
Indices: 47831--47923 Score: 95
Period size: 33 Copynumber: 2.8 Consensus size: 34
47821 TATTTATTTT
* *
47831 TTTATCT-ATTAATATTTTTAT-TATTTATCTGTT
1 TTTATCTAATT-ATTTTTTTATCTATTTATCTGTA
* *
47864 TTTAT-TATTTATTATTATTTATCTATTTCTCT-TA
1 TTTATCTAATTATT-TT-TTTATCTATTTATCTGTA
47898 TTTATCTAATTATTTTTTTATCTATT
1 TTTATCTAATTATTTTTTTATCTATT
47924 AATATATTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
32 3 0.06
33 19 0.38
34 13 0.26
35 15 0.30
ACGTcount: A:0.24, C:0.08, G:0.01, T:0.68
Consensus pattern (34 bp):
TTTATCTAATTATTTTTTTATCTATTTATCTGTA
Found at i:48829 original size:21 final size:20
Alignment explanation
Indices: 48714--48839 Score: 83
Period size: 21 Copynumber: 6.0 Consensus size: 20
48704 TTCCAGGTTT
48714 TTTTTTTTCATTTTTCATTTTA
1 TTTTTTTT-ATTTTT-ATTTTA
*
48736 TTTTTTTATATATATTA-TTTA
1 TTTTTTT-TAT-TTTTATTTTA
** * *
48757 TTTATTTATTAGATTTGTTTAA
1 TTT-TTT-TTATTTTTATTTTA
**
48779 TACTTTTTATTTTTATTTTA
1 TTTTTTTTATTTTTATTTTA
*
48799 TTTTCCTTTATTTTTATTTCTA
1 TTTT-TTTTATTTTTATTT-TA
* *
48821 TTTTTTTTAATTTAATTTT
1 TTTTTTTTATTTTTATTTT
48840 CCTTTAAATA
Statistics
Matches: 79, Mismatches: 18, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
20 13 0.16
21 36 0.46
22 25 0.32
23 5 0.06
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.73
Consensus pattern (20 bp):
TTTTTTTTATTTTTATTTTA
Found at i:48838 original size:27 final size:27
Alignment explanation
Indices: 48782--48839 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
48772 TGTTTAATAC
* **
48782 TTTTTATTTTTATTTTATTTTCCTTTA
1 TTTTTATTTCTATTTTATTTTAATTTA
48809 TTTTTATTTCTATTTT-TTTTAATTTA
1 TTTTTATTTCTATTTTATTTTAATTTA
*
48835 ATTTT
1 TTTTT
48840 CCTTTAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 12 0.44
27 15 0.56
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (27 bp):
TTTTTATTTCTATTTTATTTTAATTTA
Found at i:49031 original size:79 final size:81
Alignment explanation
Indices: 48885--49039 Score: 237
Period size: 79 Copynumber: 1.9 Consensus size: 81
48875 AGAACGTTGA
48885 AAAGTAATCAATTTTCCTCGAAATTAAAGTTTCCAAAAAAATATTTTTGGGAAAAAGTTGAAAGT
1 AAAGTAATCAATTTTCCTCGAAATTAAAGTTTCC--AAAAATATTTTTGGGAAAAAGTTGAAAGT
48950 ATC-AATTTTCCTTAAAG
64 ATCAAATTTTCCTTAAAG
*
48967 AAAGT-ATCAATTTTCCTCGAAATTAAAGTTTTCC-AATATATTTTT-GGAGAAAAGTTGAAAGT
1 AAAGTAATCAATTTTCCTCGAAATTAAAG-TTTCCAAAAATATTTTTGGGA-AAAAGTTGAAAGT
49029 ATCAAATTTTC
64 ATCAAATTTTC
49040 ATGTACAAAA
Statistics
Matches: 69, Mismatches: 1, Indels: 8
0.88 0.01 0.10
Matches are distributed among these distances:
78 3 0.04
79 26 0.38
80 7 0.10
81 23 0.33
82 10 0.14
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (81 bp):
AAAGTAATCAATTTTCCTCGAAATTAAAGTTTCCAAAAATATTTTTGGGAAAAAGTTGAAAGTAT
CAAATTTTCCTTAAAG
Found at i:49062 original size:81 final size:78
Alignment explanation
Indices: 48884--49062 Score: 218
Period size: 81 Copynumber: 2.2 Consensus size: 78
48874 AAGAACGTTG
48884 AAAAGTAATCAATTTTCCTCGAAATTAAAGTTTCCAAAAAAATATTTTTGGGAAAAAGTTGAAAG
1 AAAAG-AATCAATTTTCCTCGAAATTAAAGTTTCC--AAAAATATTTTTGGGAAAAAGTTGAAAG
*
48949 TATCAATTTTCCTTAA
63 TATCAATTTTCATTAA
* *
48965 AGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTCC-AATATATTTTT-GGAGAAAAGTTGAAAG
1 A-AAAGAATCAATTTTCCTCGAAATTAAAG-TTTCCAAAAATATTTTTGGGA-AAAAGTTGAAAG
*
49028 TATCAAATTTTCATGTAC
63 TATC-AATTTTCAT-TAA
*
49046 AAAAGCAATCATTTTTC
1 AAAAG-AATCAATTTTC
49063 TTTTCTTTTT
Statistics
Matches: 86, Mismatches: 6, Indels: 12
0.83 0.06 0.12
Matches are distributed among these distances:
78 3 0.03
79 26 0.30
80 12 0.14
81 36 0.42
82 9 0.10
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.36
Consensus pattern (78 bp):
AAAAGAATCAATTTTCCTCGAAATTAAAGTTTCCAAAAATATTTTTGGGAAAAAGTTGAAAGTAT
CAATTTTCATTAA
Found at i:54340 original size:22 final size:22
Alignment explanation
Indices: 54310--54363 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
54300 TATTTTGATG
*
54310 GAATTTTTGAGAACTC-AAATGA
1 GAATCTTTGAG-ACTCAAAATGA
**
54332 GAATCTTTGAGTTTCAAAATGA
1 GAATCTTTGAGACTCAAAATGA
54354 GAATCTTTGA
1 GAATCTTTGA
54364 AGAGTGAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 2 0.07
22 26 0.93
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (22 bp):
GAATCTTTGAGACTCAAAATGA
Found at i:54599 original size:43 final size:42
Alignment explanation
Indices: 54548--54629 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 42
54538 GCCTTTGAAC
*
54548 TCAAATGAAAAGCTTT-GAATTTTTGGATGTGAATTTCCAAAAT
1 TCAAATGAAAAGCTTTAG-ATTTTTGGATATGAA-TTCCAAAAT
54591 TCAAATGAAAAGCTTTAGATTTTTGGATATGAATTCCAA
1 TCAAATGAAAAGCTTTAGATTTTTGGATATGAATTCCAA
54630 GTTTGCCAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
42 6 0.16
43 30 0.81
44 1 0.03
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.37
Consensus pattern (42 bp):
TCAAATGAAAAGCTTTAGATTTTTGGATATGAATTCCAAAAT
Found at i:55087 original size:83 final size:82
Alignment explanation
Indices: 54922--55360 Score: 453
Period size: 83 Copynumber: 5.3 Consensus size: 82
54912 ATGATTGTTA
* *
54922 AGGAGCCATTTACTTTCTAAAAGTTGAGGTGCCTCTATTTAGAGGAGCAATTTACTTTCCAAAGT
1 AGGAGCAATTTACTTTC-AAAAGTTGAGGTGCCTCTATTTAGAGGAGCAATTTATTTTCCAAAGT
* *
54987 T-TCGTTGCCTCTGTTTAG
65 TGT-GGTGCCTCTATTTAG
* * *
55005 AGGAGCAATTTACTTTCAAAAGTTGAGGTGCCTCTGTTTAGAGGAGCAAGTTATTTTCCAAAGTC
1 AGGAGCAATTTACTTTCAAAAGTTGAGGTGCCTCTATTTAGAGGAGCAATTTATTTTCCAAAGTT
55070 GTGGTTGCCTCTATTTAG
66 GTGG-TGCCTCTATTTAG
* * * * *
55088 AGGAGCAATTTATTTTCCAAAGTTGTA-ATGCCTCTATTTAGAGGAGCAATTTACTTTCAAAAAG
1 AGGAGCAATTTACTTTCAAAAGTTG-AGGTGCCTCTATTTAGAGGAGCAATTTATTTTC-CAAAG
*
55152 TTGAGGTGCCTCTATTTAG
64 TTGTGGTGCCTCTATTTAG
* * * * *
55171 AGGAGTAATTTACTTTCCAAAGTTGTGATGCC-CTTATTTAGAGGAGCAATTT-TCTTTCTAAAA
1 AGGAGCAATTTACTTTCAAAAGTTGAGGTGCCTC-TATTTAGAGGAGCAATTTAT-TTTC-CAAA
* *
55234 GTTGAGGTGCCTCTGTTTAG
63 GTTGTGGTGCCTCTATTTAG
* * * * *
55254 AGGAGCAATTTACTTTTCAAAAG-TCATTGAGCCTCTGA-TTAGATGAGCCATTTACTTTT-CAA
1 AGGAGCAATTTAC-TTTCAAAAGTTGA-GGTGCCTCT-ATTTAGAGGAGCAATTTA-TTTTCCAA
* *
55316 AGTTGTTGAGCCTCTGA-TTAG
62 AGTTGTGGTGCCTCT-ATTTAG
55337 AGGAGCAATTTACTTTTCAAAAGT
1 AGGAGCAATTTAC-TTTCAAAAGT
55361 CATTGAGCCT
Statistics
Matches: 305, Mismatches: 36, Indels: 29
0.82 0.10 0.08
Matches are distributed among these distances:
82 46 0.15
83 219 0.72
84 34 0.11
85 5 0.02
86 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (82 bp):
AGGAGCAATTTACTTTCAAAAGTTGAGGTGCCTCTATTTAGAGGAGCAATTTATTTTCCAAAGTT
GTGGTGCCTCTATTTAG
Found at i:55092 original size:42 final size:41
Alignment explanation
Indices: 54922--55360 Score: 474
Period size: 41 Copynumber: 10.6 Consensus size: 41
54912 ATGATTGTTA
* *
54922 AGGAGCCATTTACTTTCTAAAAGTTGAGGTGCCTCTATTTAG
1 AGGAGCAATTTACTTTC-AAAAGTTGTGGTGCCTCTATTTAG
* * *
54964 AGGAGCAATTTACTTTCCAAAGTT-TCGTTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCAAAAGTTGT-GGTGCCTCTATTTAG
* *
55005 AGGAGCAATTTACTTTCAAAAGTTGAGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCAAAAGTTGTGGTGCCTCTATTTAG
* * * *
55046 AGGAGCAAGTTATTTTCCAAAGTCGTGGTTGCCTCTATTTAG
1 AGGAGCAATTTACTTTCAAAAGTTGTGG-TGCCTCTATTTAG
* * **
55088 AGGAGCAATTTATTTTCCAAAGTTGTAATGCCTCTATTTAG
1 AGGAGCAATTTACTTTCAAAAGTTGTGGTGCCTCTATTTAG
*
55129 AGGAGCAATTTACTTTCAAAAAGTTGAGGTGCCTCTATTTAG
1 AGGAGCAATTTACTTTC-AAAAGTTGTGGTGCCTCTATTTAG
* * *
55171 AGGAGTAATTTACTTTCCAAAGTTGTGATGCC-CTTATTTAG
1 AGGAGCAATTTACTTTCAAAAGTTGTGGTGCCTC-TATTTAG
* * *
55212 AGGAGCAATTTTCTTTCTAAAAGTTGAGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTC-AAAAGTTGTGGTGCCTCTATTTAG
** * *
55254 AGGAGCAATTTACTTTTCAAAAGTCATTGAGCCTCTGA-TTAG
1 AGGAGCAATTTAC-TTTCAAAAGTTGTGGTGCCTCT-ATTTAG
* * * *
55296 ATGAGCCATTTACTTTTC-AAAGTTGTTGAGCCTCTGA-TTAG
1 AGGAGCAATTTAC-TTTCAAAAGTTGTGGTGCCTCT-ATTTAG
55337 AGGAGCAATTTACTTTTCAAAAGT
1 AGGAGCAATTTAC-TTTCAAAAGT
55361 CATTGAGCCT
Statistics
Matches: 341, Mismatches: 46, Indels: 20
0.84 0.11 0.05
Matches are distributed among these distances:
40 1 0.00
41 179 0.52
42 156 0.46
43 5 0.01
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (41 bp):
AGGAGCAATTTACTTTCAAAAGTTGTGGTGCCTCTATTTAG
Found at i:55382 original size:24 final size:24
Alignment explanation
Indices: 55355--55412 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
55345 TTTACTTTTC
55355 AAAAGTCATTGAGCCTCTGATTAG
1 AAAAGTCATTGAGCCTCTGATTAG
*
55379 AAAAGTCGTTGAGCCTCTGATTAG
1 AAAAGTCATTGAGCCTCTGATTAG
* *
55403 AGAAGCCATT
1 AAAAGTCATT
55413 TATTTTTCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGTCATTGAGCCTCTGATTAG
Found at i:55420 original size:66 final size:65
Alignment explanation
Indices: 55314--55444 Score: 199
Period size: 66 Copynumber: 2.0 Consensus size: 65
55304 TTTACTTTTC
* *
55314 AAAGTTGTTGAGCCTCTGATTAGAGGAGCAATTTACTTTTCAAAAGTCATTGAGCCTCTGATTAG
1 AAAGTCGTTGAGCCTCTGATTAGAGAAGCAATTTACTTTTC-AAAGTCATTGAGCCTCTGATTAG
55379 A
65 A
* * **
55380 AAAGTCGTTGAGCCTCTGATTAGAGAAGCCATTTATTTTTCAAAGTTGTTGAGCCTCTGATTAGA
1 AAAGTCGTTGAGCCTCTGATTAGAGAAGCAATTTACTTTTCAAAGTCATTGAGCCTCTGATTAGA
55445 GGAGCCATTT
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
65 22 0.37
66 37 0.63
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.34
Consensus pattern (65 bp):
AAAGTCGTTGAGCCTCTGATTAGAGAAGCAATTTACTTTTCAAAGTCATTGAGCCTCTGATTAGA
Found at i:55467 original size:107 final size:107
Alignment explanation
Indices: 55272--55486 Score: 362
Period size: 107 Copynumber: 2.0 Consensus size: 107
55262 TTTACTTTTC
55272 AAAAGTCATTGAGCCTCTGATTAGATGAGCCATTTACTTTTCAAAGTTGTTGAGCCTCTGATTAG
1 AAAAGTCATTGAGCCTCTGATTAGATGAGCCATTTACTTTTCAAAGTTGTTGAGCCTCTGATTAG
55337 AGGAGCAATTTACTTTTCAAAAGTCATTGAGCCTCTGATTAG
66 AGGAGCAATTTACTTTTCAAAAGTCATTGAGCCTCTGATTAG
* *
55379 AAAAGTCGTTGAGCCTCTGATTAGA-GAAGCCATTTATTTTTCAAAGTTGTTGAGCCTCTGATTA
1 AAAAGTCATTGAGCCTCTGATTAGATG-AGCCATTTACTTTTCAAAGTTGTTGAGCCTCTGATTA
* *
55443 GAGGAGCCATTTATTTTTTC-AAAGTCATTGAGCCTCTGATTAG
65 GAGGAGCAATTTA-CTTTTCAAAAGTCATTGAGCCTCTGATTAG
55486 A
1 A
55487 GGAGCCGTTT
Statistics
Matches: 102, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
106 1 0.01
107 96 0.94
108 5 0.05
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.35
Consensus pattern (107 bp):
AAAAGTCATTGAGCCTCTGATTAGATGAGCCATTTACTTTTCAAAGTTGTTGAGCCTCTGATTAG
AGGAGCAATTTACTTTTCAAAAGTCATTGAGCCTCTGATTAG
Found at i:55474 original size:42 final size:41
Alignment explanation
Indices: 55380--55578 Score: 256
Period size: 42 Copynumber: 4.7 Consensus size: 41
55370 TCTGATTAGA
*
55380 AAAGTCGTTGAGCCTCTGATTAGAGAAGCCATTTATTTTTC
1 AAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTATTTTTC
*
55421 AAAGTTGTTGAGCCTCTGATTAGAGGAGCCATTTATTTTTTC
1 AAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTA-TTTTTC
* *
55463 AAAGTCATTGAGCCTCTGATTAGAGGAGCCGTTTATTTTTC
1 AAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTATTTTTC
**
55504 AAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTGTTTATGTTTCTC
1 -AAAGTCGTTGAGCCTCTGATTAGAGGAGC--CATTTAT-TTT-TC
* *
55550 AAAGTCATTAAGCCTCT-ACTTAGAGGAGC
1 AAAGTCGTTGAGCCTCTGA-TTAGAGGAGC
55579 TTTGATCAAA
Statistics
Matches: 142, Mismatches: 9, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
41 39 0.27
42 66 0.46
44 7 0.05
45 28 0.20
46 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.36
Consensus pattern (41 bp):
AAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTATTTTTC
Found at i:55614 original size:13 final size:12
Alignment explanation
Indices: 55594--55636 Score: 63
Period size: 11 Copynumber: 3.8 Consensus size: 12
55584 TCAAAATTTT
55594 AACCAAAAAAAA
1 AACCAAAAAAAA
55606 AACCAAAAAAAA
1 AACCAAAAAAAA
*
55618 AA-CAAAACAAA
1 AACCAAAAAAAA
55629 AA-CAAAAA
1 AACCAAAAA
55637 GGTGTCAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
11 15 0.52
12 14 0.48
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (12 bp):
AACCAAAAAAAA
Found at i:55884 original size:4 final size:4
Alignment explanation
Indices: 55870--55990 Score: 74
Period size: 4 Copynumber: 30.8 Consensus size: 4
55860 ATATATATTC
* *
55870 TTTA TTT- TTTA TTTA TTAA TAT- TTTA TTTA TTTA TTTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA
* * * * *
55917 -TTA -TTA TTTA TCTA TTTCT TTTA TTTA TCTA ATTA TTT- TTTT TGTTA
1 TTTA TTTA TTTA TTTA TTT-A TTTA TTTA TTTA TTTA TTTA TTTA T-TTA
* * *
55964 TCTA TTAA TATA TTTA TCTT- TTTA TTT
1 TTTA TTTA TTTA TTTA T-TTA TTTA TTT
55991 TGATTAATTT
Statistics
Matches: 89, Mismatches: 19, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
3 16 0.18
4 61 0.69
5 12 0.13
ACGTcount: A:0.24, C:0.04, G:0.01, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:55932 original size:27 final size:25
Alignment explanation
Indices: 55871--55990 Score: 86
Period size: 27 Copynumber: 4.5 Consensus size: 25
55861 TATATATTCT
55871 TTATTTTTTATTTATTAATATT-TTAT
1 TTATTTTTTATTTATT--TATTATTAT
55897 TTATTTATTTTATTTATTTATTATTAT
1 TTA-TT-TTTTATTTATTTATTATTAT
55924 TTATCTATTTCT-TTTATTTATCTAATTAT
1 TTAT-T-TTT-TATTTATTTAT-T-ATTAT
* * *
55953 TTTTTTTGTTATCTA-TTAATA-TAT
1 TTATTTT-TTATTTATTTATTATTAT
55977 TTATCTTTTTATTT
1 TTAT-TTTTTATTT
55991 TGATTAATTT
Statistics
Matches: 79, Mismatches: 5, Indels: 22
0.75 0.05 0.21
Matches are distributed among these distances:
24 11 0.14
25 4 0.05
26 9 0.11
27 29 0.37
28 18 0.23
29 8 0.10
ACGTcount: A:0.24, C:0.04, G:0.01, T:0.71
Consensus pattern (25 bp):
TTATTTTTTATTTATTTATTATTAT
Found at i:55952 original size:32 final size:30
Alignment explanation
Indices: 55876--55956 Score: 103
Period size: 31 Copynumber: 2.7 Consensus size: 30
55866 ATTCTTTATT
*
55876 TTTTATTTATTAA-TA-TTTTATTTATTTA
1 TTTTATTTATTAATTATTTTTATCTATTTA
* *
55904 TTTTATTTATTTATTATTATTTATCTATTTC
1 TTTTATTTATTAATTATT-TTTATCTATTTA
55935 TTTTATTTATCTAATTATTTTT
1 TTTTATTTAT-TAATTATTTTT
55957 TTTGTTATCT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
28 12 0.27
29 2 0.04
30 1 0.02
31 23 0.51
32 7 0.16
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.72
Consensus pattern (30 bp):
TTTTATTTATTAATTATTTTTATCTATTTA
Found at i:56334 original size:31 final size:31
Alignment explanation
Indices: 56299--56373 Score: 107
Period size: 31 Copynumber: 2.4 Consensus size: 31
56289 CATATTTCGG
*
56299 TTGAATTTTTTGGCTAC-TTTTCTGGCCAAGT
1 TTGAATTTTTCGGCTACTTTTTC-GGCCAAGT
*
56330 TTGAATATTTCGGCTACTTTTTCGGCCAAGT
1 TTGAATTTTTCGGCTACTTTTTCGGCCAAGT
*
56361 TTGAACTTTTCGG
1 TTGAATTTTTCGG
56374 TCAGCTGCCC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
31 34 0.87
32 5 0.13
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.45
Consensus pattern (31 bp):
TTGAATTTTTCGGCTACTTTTTCGGCCAAGT
Found at i:56529 original size:14 final size:16
Alignment explanation
Indices: 56505--56541 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
56495 TCAAGTTTTT
*
56505 AGAGAGAAAGG-AGAG
1 AGAGAGGAAGGAAGAG
56520 A-AGAGGAAGGAAGAG
1 AGAGAGGAAGGAAGAG
56535 AGAGAGG
1 AGAGAGG
56542 GGGAAAGAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 8 0.42
15 6 0.32
16 5 0.26
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (16 bp):
AGAGAGGAAGGAAGAG
Found at i:56777 original size:6 final size:7
Alignment explanation
Indices: 56760--56784 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
56750 TCCAGGTTTT
56760 TTTTTCA
1 TTTTTCA
56767 TTTTTCA
1 TTTTTCA
56774 TTTTTCA
1 TTTTTCA
56781 TTTT
1 TTTT
56785 ATTTTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTCA
Found at i:56790 original size:6 final size:6
Alignment explanation
Indices: 56756--56910 Score: 68
Period size: 6 Copynumber: 24.7 Consensus size: 6
56746 ATGTTCCAGG
* * *
56756 TTTTT- TTTTCA TTTTTCA TTTTTCA TTTTATT TTTTTA TTTTT- TTATATA
1 TTTTTA TTTTTA TTTTT-A TTTTT-A TTTT-TA TTTTTA TTTTTA TT-TTTA
* * * ** *
56806 TTTATA TATTTA TTTATTA TTATTA TTATTTA --TTTA TTTATTA GATTTG
1 TTTTTA TTTTTA TTT-TTA TTTTTA TT-TTTA TTTTTA TTT-TTA TTTTTA
* *
56855 TTTAATA CTTTTTA TTTTTA TTTTATT TTCCTTTA TTTTTA TTTTTA -TTTTA
1 TTT-TTA -TTTTTA TTTTTA TTTT-TA TT--TTTA TTTTTA TTTTTA TTTTTA
56907 TTTT
1 TTTT
56911 CTTTAATAAA
Statistics
Matches: 114, Mismatches: 20, Indels: 31
0.69 0.12 0.19
Matches are distributed among these distances:
4 4 0.04
5 11 0.10
6 54 0.47
7 36 0.32
8 7 0.06
9 2 0.02
ACGTcount: A:0.21, C:0.04, G:0.01, T:0.74
Consensus pattern (6 bp):
TTTTTA
Found at i:56791 original size:14 final size:13
Alignment explanation
Indices: 56756--56800 Score: 56
Period size: 14 Copynumber: 3.4 Consensus size: 13
56746 ATGTTCCAGG
56756 TTTTTTTTTCATT
1 TTTTTTTTTCATT
*
56769 TTTCATTTTTCATT
1 TTT-TTTTTTCATT
56783 TTATTTTTTT-ATT
1 TT-TTTTTTTCATT
56796 TTTTT
1 TTTTT
56801 ATATATTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
12 3 0.11
13 8 0.29
14 16 0.57
15 1 0.04
ACGTcount: A:0.11, C:0.07, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTTTTTCATT
Found at i:56817 original size:24 final size:28
Alignment explanation
Indices: 56784--56847 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
56774 TTTTTCATTT
* *
56784 TATTTTTTTATT-TTTTTATATATTTATA
1 TATTTATTTATTATTATTAT-TATTTATA
*
56812 TATTTATTTATTATTATTATTATTTATT
1 TATTTATTTATTATTATTATTATTTATA
56840 TATTTATT
1 TATTTATT
56848 AGATTTGTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
28 26 0.81
29 6 0.19
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (28 bp):
TATTTATTTATTATTATTATTATTTATA
Found at i:56821 original size:4 final size:4
Alignment explanation
Indices: 56782--56847 Score: 68
Period size: 4 Copynumber: 17.5 Consensus size: 4
56772 CATTTTTCAT
* * * *
56782 TTTA TTTT TTTA TTTT TTTA TATA TTTA TATA TTTA TTTA -TTA -TTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
56828 -TTA -TTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TT
56848 AGATTTGTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
3 12 0.23
4 41 0.77
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:56848 original size:24 final size:26
Alignment explanation
Indices: 56782--56848 Score: 88
Period size: 24 Copynumber: 2.7 Consensus size: 26
56772 CATTTTTCAT
*
56782 TTTATTTTTTTATTT-TT-TTATATA
1 TTTATTTATTTATTTATTATTATATA
*
56806 TTTATATATTTATTTATTATTAT-TA
1 TTTATTTATTTATTTATTATTATATA
56831 -TTATTTATTTATTTATTA
1 TTTATTTATTTATTTATTA
56849 GATTTGTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
24 30 0.79
25 4 0.11
26 4 0.11
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (26 bp):
TTTATTTATTTATTTATTATTATATA
Found at i:56889 original size:21 final size:22
Alignment explanation
Indices: 56865--56905 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
56855 TTTAATACTT
56865 TTTATTTTTA-TTTTATTTTCC
1 TTTATTTTTATTTTTATTTTCC
56886 TTTATTTTTATTTTTATTTT
1 TTTATTTTTATTTTTATTTT
56906 ATTTTCTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTATTTTTATTTTTATTTTCC
Found at i:56893 original size:27 final size:26
Alignment explanation
Indices: 56863--56915 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 26
56853 TGTTTAATAC
56863 TTTTTATTTTTATTTTATTTTCCTTTA
1 TTTTTATTTTTATTTTATTTT-CTTTA
56890 TTTTTATTTTTATTTTATTTTCTTTA
1 TTTTTATTTTTATTTTATTTTCTTTA
56916 ATAAAATTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (26 bp):
TTTTTATTTTTATTTTATTTTCTTTA
Found at i:56996 original size:60 final size:58
Alignment explanation
Indices: 56922--57449 Score: 492
Period size: 60 Copynumber: 8.8 Consensus size: 58
56912 TTTAATAAAA
*
56922 TTCAAAAAACAATATTTTTGAGGAAAAGTTGAAAGTATC-ATTTTTCCTTGAAAATAAGCT
1 TTCAAAAAA-AATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTT-CTTAAAAATAAG-T
* *
56982 TTCTAAAAAAAATATTTTTG-GGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATT
1 TTC-AAAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAGT
* * * ** *
57042 TTCAAAAAAATTTTTTTTTGAGGAAAAGTTGAAAATAATCAATTTTTCTCGAAATTAAAGT
1 TTCAAAAAAA-ATATTTTTGAGGAAAAGTTGAAAGT-ATCAATTTTTCTTAAAAAT-AAGT
* *
57103 TTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTTCTTAAAAATAAATT
1 TT-CAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTTCTTAAAAAT-AAGT
** * * * * *
57164 TTCAAAAAAGGGTTTTTTTTAGGAAAAGTTGAAAGTATTAATTTTTCTTGAAATTAAAGT
1 TTCAAAAAA-AATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAGT
* * *
57224 TTCTAAAAAAATATTTTTG-GAAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAT
1 TTCAAAAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGT
*** * * *
57282 TTCCAAAAAGTTTTTTTTTGGAGGAAAAGTTG-AAGTATCAA-TTTTCTCAAAATTAAAGT
1 TT-CAAAAAAAATATTTTT-GAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAGT
* * *
57341 TTCCAAAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTTTTTTAAAAATAAATT
1 TTCAAAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAA-TTTTTCTTAAAAAT-AAGT
*** *
57401 TTCAATAAAGTTTTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTC
1 TTCAA-AAA--AAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTC
57450 CTGTACAAAA
Statistics
Matches: 383, Mismatches: 62, Indels: 44
0.78 0.13 0.09
Matches are distributed among these distances:
56 1 0.00
57 10 0.03
58 37 0.10
59 69 0.18
60 123 0.32
61 103 0.27
62 13 0.03
63 26 0.07
64 1 0.00
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.39
Consensus pattern (58 bp):
TTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGT
Found at i:57026 original size:121 final size:119
Alignment explanation
Indices: 56922--57449 Score: 633
Period size: 121 Copynumber: 4.4 Consensus size: 119
56912 TTTAATAAAA
* * *
56922 TTCAAAAAACAATATTTTTGAGGAAAAGTTGAAAGTATCATTTTTCCTTGAAAAT-AAGCTTTCT
1 TTCAAAAAAGATTTTTTTTGAGGAAAAGTTGAAAGTATCATTTTT-CTTGAAAATAAAG-TTTCT
** *
56986 AAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATT
64 AAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTTTTTAAAATAAATT
* * *
57042 TTCAAAAAA-ATTTTTTTTTGAGGAAAAGTTGAAAATAATCAATTTTTCTCGAAATTAAAGTTTC
1 TTCAAAAAAGA-TTTTTTTTGAGGAAAAGTTGAAAGT-ATC-ATTTTTCTTGAAAATAAAGTTTC
* * *
57106 CAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTTCTTAAAAATAAATT
63 TAAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTT-TTTAAAATAAATT
* * *
57164 TTCAAAAAAGGGTTTTTTTT-AGGAAAAGTTGAAAGTATTAATTTTTCTTGAAATTAAAGTTTCT
1 TTCAAAAAA-GATTTTTTTTGAGGAAAAGTTGAAAGTA-TCATTTTTCTTGAAAATAAAGTTTCT
* * *
57228 -AAAAAAATATTTTTGGAAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA-T
64 AAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTTTTTAAAATAAATT
* * * *
57282 TTCCAAAAAGTTTTTTTTTGGAGGAAAAGTTG-AAGTATCAATTTTC-TCAAAATTAAAGTTTC-
1 TTCAAAAAAGATTTTTTTT-GAGGAAAAGTTGAAAGTATCATTTTTCTTGAAAA-TAAAGTTTCT
*
57344 CAAAAAAATATTTTTAGGG-AAAAGTTGAAAGTATCAATTTTTTTTTAAAAATAAATT
64 AAAAAAAATATTTTT-GGGAAAAAGTTGAAAGTATCAATTTTTTTTT-AAAATAAATT
* *
57401 TTCAATAAAGTTTTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTC
1 TTCAAAAAAG--ATTTTTTTTGAGGAAAAGTTGAAAGTATC-ATTTTTC
57450 CTGTACAAAA
Statistics
Matches: 360, Mismatches: 29, Indels: 36
0.85 0.07 0.08
Matches are distributed among these distances:
116 4 0.01
117 64 0.18
118 24 0.07
119 32 0.09
120 82 0.23
121 93 0.26
122 53 0.15
123 8 0.02
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.39
Consensus pattern (119 bp):
TTCAAAAAAGATTTTTTTTGAGGAAAAGTTGAAAGTATCATTTTTCTTGAAAATAAAGTTTCTAA
AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTTTTTAAAATAAATT
Found at i:63623 original size:13 final size:12
Alignment explanation
Indices: 63593--63674 Score: 53
Period size: 13 Copynumber: 6.4 Consensus size: 12
63583 GAAACCGAAA
*
63593 AAAATAAAAAACCA
1 AAAATAAAAAA--T
63607 AAAATAAGAAAAT
1 AAAATAA-AAAAT
63620 AAAATAAAAAAT
1 AAAATAAAAAAT
63632 AGAAA-ACCAAAAAT
1 A-AAATA--AAAAAT
*
63646 -AAAT-AATAAT
1 AAAATAAAAAAT
63656 AATAATAAAAAACT
1 AA-AATAAAAAA-T
63670 AAAAT
1 AAAAT
63675 CGGGCCATTC
Statistics
Matches: 56, Mismatches: 3, Indels: 19
0.72 0.04 0.24
Matches are distributed among these distances:
10 5 0.09
11 1 0.02
12 13 0.23
13 17 0.30
14 16 0.29
15 4 0.07
ACGTcount: A:0.76, C:0.06, G:0.02, T:0.16
Consensus pattern (12 bp):
AAAATAAAAAAT
Found at i:63637 original size:8 final size:7
Alignment explanation
Indices: 63591--63673 Score: 62
Period size: 7 Copynumber: 11.6 Consensus size: 7
63581 AAGAAACCGA
63591 AAAAAAT
1 AAAAAAT
*
63598 AAAAAAC
1 AAAAAAT
*
63605 CAAAAAT
1 AAAAAAT
63612 AAGAAAAT
1 AA-AAAAT
63620 --AAAAT
1 AAAAAAT
63625 AAAAAAT
1 AAAAAAT
* *
63632 AGAAAAC
1 AAAAAAT
*
63639 CAAAAAT
1 AAAAAAT
*
63646 AAATAAT
1 AAAAAAT
63653 AATAATAAT
1 AA-AA-AAT
63662 AAAAAACT
1 AAAAAA-T
63670 AAAA
1 AAAA
63674 TCGGGCCATT
Statistics
Matches: 58, Mismatches: 12, Indels: 11
0.72 0.15 0.14
Matches are distributed among these distances:
5 5 0.09
7 35 0.60
8 13 0.22
9 5 0.09
ACGTcount: A:0.77, C:0.06, G:0.02, T:0.14
Consensus pattern (7 bp):
AAAAAAT
Found at i:63638 original size:34 final size:37
Alignment explanation
Indices: 63591--63673 Score: 118
Period size: 34 Copynumber: 2.3 Consensus size: 37
63581 AAGAAACCGA
63591 AAAAAATAAAAAACCAAAAAT-AAGAA-AATAA-AAT
1 AAAAAATAAAAAACCAAAAATAAAGAATAATAATAAT
* *
63625 AAAAAATAGAAAACCAAAAATAAATAATAATAATAAT
1 AAAAAATAAAAAACCAAAAATAAAGAATAATAATAAT
63662 AAAAAACTAAAA
1 AAAAAA-TAAAA
63674 TCGGGCCATT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
34 20 0.48
35 4 0.10
36 5 0.12
37 9 0.21
38 4 0.10
ACGTcount: A:0.77, C:0.06, G:0.02, T:0.14
Consensus pattern (37 bp):
AAAAAATAAAAAACCAAAAATAAAGAATAATAATAAT
Done.