Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003143.1 Hibiscus syriacus cultivar Beakdansim tig00006614_pilon, 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: 131909
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:712 original size:6 final size:6
Alignment explanation
Indices: 681--714 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
671 ACGTAGCATT
* *
681 TTTTTA TCTTTA TCTTTA TTTTTA TTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
715 GAATGGGGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:1244 original size:20 final size:21
Alignment explanation
Indices: 1215--1270 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
1205 AAATGACCAA
1215 CAAA-TTCGCAACGCGA-TCT
1 CAAATTTCGCAACGCGATTCT
* * *
1234 CAAATTTCGCAACCCAATTTT
1 CAAATTTCGCAACGCGATTCT
1255 C-AATTTCGCAACGCGA
1 CAAATTTCGCAACGCGA
1271 ATATGTAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 4 0.13
20 23 0.77
21 3 0.10
ACGTcount: A:0.32, C:0.30, G:0.12, T:0.25
Consensus pattern (21 bp):
CAAATTTCGCAACGCGATTCT
Found at i:1339 original size:39 final size:38
Alignment explanation
Indices: 1296--1428 Score: 162
Period size: 39 Copynumber: 3.4 Consensus size: 38
1286 GCGATTTCTC
1296 AATTCGCAACGCGAATCTGTAATCGCAACACAGAAGTCA
1 AATTCGCAACGCGAATCTGTAATCGCAACACA-AAGTCA
* *
1335 AATTCGCAACGCGATAGTC--AAATTCGTAACACAAAAGTCA
1 AATTCGCAACGCGA-A-TCTGTAA-TCGCAACAC-AAAGTCA
* *
1375 AATTCGTAACGCGAATTTGTAAATCGCAACACAAAGTCA
1 AATTCGCAACGCGAATCTGT-AATCGCAACACAAAGTCA
1414 AATTCGCAACGCGAA
1 AATTCGCAACGCGAA
1429 AGTCAATGTT
Statistics
Matches: 80, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
38 1 0.01
39 38 0.47
40 36 0.45
41 5 0.06
ACGTcount: A:0.41, C:0.23, G:0.17, T:0.20
Consensus pattern (38 bp):
AATTCGCAACGCGAATCTGTAATCGCAACACAAAGTCA
Found at i:1343 original size:20 final size:20
Alignment explanation
Indices: 1318--1423 Score: 96
Period size: 20 Copynumber: 5.3 Consensus size: 20
1308 GAATCTGTAA
1318 TCGCAACACAGAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
*
1338 TCGCAACGC-GATAGTCAAAT
1 TCGCAACACAGA-AGTCAAAT
* *
1358 TCGTAACACAAAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
* *
1378 TCGTAACGC-GAATTTGT-AAA-
1 TCGCAACACAGAA---GTCAAAT
1398 TCGCAACACA-AAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
1417 TCGCAAC
1 TCGCAAC
1424 GCGAAAGTCA
Statistics
Matches: 70, Mismatches: 8, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
17 2 0.03
18 3 0.04
19 11 0.16
20 48 0.69
21 4 0.06
22 2 0.03
ACGTcount: A:0.42, C:0.24, G:0.15, T:0.20
Consensus pattern (20 bp):
TCGCAACACAGAAGTCAAAT
Found at i:1376 original size:40 final size:39
Alignment explanation
Indices: 1316--1434 Score: 152
Period size: 40 Copynumber: 3.0 Consensus size: 39
1306 GCGAATCTGT
*
1316 AATCGCAACACAGAAGTCAAATTCGCAACGCGATAGTCA
1 AATCGCAACACAAAAGTCAAATTCGCAACGCGATAGTCA
* * *
1355 AATTCGTAACACAAAAGTCAAATTCGTAACGCGAATTTGT-A
1 AA-TCGCAACACAAAAGTCAAATTCGCAACGCG-A-TAGTCA
*
1396 AATCGCAACAC-AAAGTCAAATTCGCAACGCGAAAGTCA
1 AATCGCAACACAAAAGTCAAATTCGCAACGCGATAGTCA
1434 A
1 A
1435 TGTTTTTACG
Statistics
Matches: 68, Mismatches: 8, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
37 2 0.03
38 3 0.04
39 21 0.31
40 35 0.51
41 4 0.06
42 3 0.04
ACGTcount: A:0.43, C:0.23, G:0.16, T:0.18
Consensus pattern (39 bp):
AATCGCAACACAAAAGTCAAATTCGCAACGCGATAGTCA
Found at i:1432 original size:20 final size:20
Alignment explanation
Indices: 1329--1434 Score: 110
Period size: 20 Copynumber: 5.3 Consensus size: 20
1319 CGCAACACAG
1329 AAGTCAAATTCGCAACGCGA
1 AAGTCAAATTCGCAACGCGA
* * * *
1349 TAGTCAAATTCGTAACACAA
1 AAGTCAAATTCGCAACGCGA
*
1369 AAGTCAAATTCGTAACGCGA
1 AAGTCAAATTCGCAACGCGA
* *
1389 ATTTGT-AAA-TCGCAACAC-A
1 A--AGTCAAATTCGCAACGCGA
1408 AAGTCAAATTCGCAACGCGA
1 AAGTCAAATTCGCAACGCGA
1428 AAGTCAA
1 AAGTCAA
1435 TGTTTTTACG
Statistics
Matches: 69, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
17 2 0.03
18 3 0.04
19 10 0.14
20 49 0.71
21 3 0.04
22 2 0.03
ACGTcount: A:0.42, C:0.22, G:0.16, T:0.20
Consensus pattern (20 bp):
AAGTCAAATTCGCAACGCGA
Found at i:1571 original size:23 final size:21
Alignment explanation
Indices: 1547--1586 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1537 ATCTCTCACT
* *
1547 CTCTACGACGACATCCGTCCC
1 CTCTCCGACGAAATCCGTCCC
1568 CTCTCCGACGAAATCCGTC
1 CTCTCCGACGAAATCCGTC
1587 TATCTCCATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.45, G:0.15, T:0.20
Consensus pattern (21 bp):
CTCTCCGACGAAATCCGTCCC
Found at i:1859 original size:12 final size:12
Alignment explanation
Indices: 1828--1862 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
1818 TGTGAAGTTA
1828 GTATTTGTCTTT
1 GTATTTGTCTTT
1840 GT-TTTGTCTTT
1 GTATTTGTCTTT
*
1851 TTATTTGTCTTT
1 GTATTTGTCTTT
1863 CTGTTGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.06, C:0.09, G:0.14, T:0.71
Consensus pattern (12 bp):
GTATTTGTCTTT
Found at i:3646 original size:21 final size:20
Alignment explanation
Indices: 3622--3661 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
3612 TGGTGCATGG
3622 CGTGATGAGGTTCGATTTTTA
1 CGTGATGAGG-TCGATTTTTA
* *
3643 CGTGGTGAGGTGGATTTTT
1 CGTGATGAGGTCGATTTTT
3662 TAAGCGATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.15, C:0.07, G:0.35, T:0.42
Consensus pattern (20 bp):
CGTGATGAGGTCGATTTTTA
Found at i:5587 original size:67 final size:65
Alignment explanation
Indices: 5447--5592 Score: 195
Period size: 67 Copynumber: 2.2 Consensus size: 65
5437 TTTTACATTG
* *
5447 AAAGTTGATTTGTTTAATTGATGAGGAAATAAGATTTATTTTTTGATTAATTGATTTGATTTGTA
1 AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGATTAATTGAATTGATTTGTA
* * * * *
5512 AAAGTTGATTTGTTTAATTTGATGTGTAAATAAGAATTATTATTTTTGCTT-GTTTAATTGATTT
1 AAAGTTGATTTGTTTAA-TTGATGAGGAAATAAGAATTA-T-TTTTTGATTAATTGAATTGATTT
5576 GTA
63 GTA
5579 AAAGTTGATTTGTT
1 AAAGTTGATTTGTT
5593 GTTTCTAAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
65 17 0.24
66 18 0.25
67 28 0.39
68 8 0.11
ACGTcount: A:0.31, C:0.01, G:0.18, T:0.51
Consensus pattern (65 bp):
AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGATTAATTGAATTGATTTGTA
Found at i:5713 original size:20 final size:20
Alignment explanation
Indices: 5675--5713 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
5665 GATTTTCGGT
* *
5675 TTGCGAATTTTACTTTCGCG
1 TTGCGAATTTGACTATCGCG
*
5695 TTGCGAATTTGGCTATCGC
1 TTGCGAATTTGACTATCGC
5714 AATGCTTATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.15, C:0.21, G:0.23, T:0.41
Consensus pattern (20 bp):
TTGCGAATTTGACTATCGCG
Found at i:5980 original size:39 final size:39
Alignment explanation
Indices: 5926--6012 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
5916 TCAAGTTGTA
* *
5926 GATTTTGATTTCCTTTTGCTTGGCACCGTATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGACACCATATGAGATTTG
*
5965 GATTTTGATTTCCTTTTGCTTGACACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGACACCATATGAGATTTG
6004 GATTTTGAT
1 GATTTTGAT
6013 GAGCATCGGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.17, C:0.15, G:0.21, T:0.47
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGACACCATATGAGATTTG
Found at i:6378 original size:24 final size:24
Alignment explanation
Indices: 6315--6367 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
6305 AGTGGAGTCG
*
6315 AAATTTATATTGAAATTCAAACTC
1 AAATTTAAATTGAAATTCAAACTC
*
6339 AAATTTAAATTTAAATTCAAACTC
1 AAATTTAAATTGAAATTCAAACTC
*
6363 CAATT
1 AAATT
6368 ACATATGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.38
Consensus pattern (24 bp):
AAATTTAAATTGAAATTCAAACTC
Found at i:7175 original size:18 final size:18
Alignment explanation
Indices: 7152--7187 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
7142 AAGCCGGTTG
*
7152 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
7170 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
7188 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.25, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:10465 original size:20 final size:19
Alignment explanation
Indices: 10400--10510 Score: 114
Period size: 20 Copynumber: 5.6 Consensus size: 19
10390 ACTAAAACAT
10400 GTTGCGAATTTGACTTTCGC
1 GTTGCGAATTTGAC-TTCGC
** ***
10420 GTTATGAAATTTGACTTTAT
1 GTTGCG-AATTTGACTTCGC
10440 GTTGCGAATTTGACTATCGC
1 GTTGCGAATTTGACT-TCGC
10460 GTTGCGAATTTGACTATCGC
1 GTTGCGAATTTGACT-TCGC
* *
10480 GTTGCGAAATTGGAGTTCGC
1 GTTGCG-AATTTGACTTCGC
10500 GTTGCGAATTT
1 GTTGCGAATTT
10511 ATTGGTCATT
Statistics
Matches: 75, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
19 13 0.17
20 47 0.63
21 15 0.20
ACGTcount: A:0.21, C:0.15, G:0.25, T:0.39
Consensus pattern (19 bp):
GTTGCGAATTTGACTTCGC
Found at i:14384 original size:20 final size:20
Alignment explanation
Indices: 14359--14405 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
14349 TTCGTGCATG
14359 GATGCACAGCAGGATGAATC
1 GATGCACAGCAGGATGAATC
*
14379 GATGCACAGCAGGATGCATC
1 GATGCACAGCAGGATGAATC
14399 GATGCAC
1 GATGCAC
14406 TAATTGCATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.32, C:0.23, G:0.30, T:0.15
Consensus pattern (20 bp):
GATGCACAGCAGGATGAATC
Found at i:14473 original size:22 final size:23
Alignment explanation
Indices: 14440--14482 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
14430 ATAGATGCAC
14440 TGCATGGTGCATCGATGCACTAG
1 TGCATGGTGCATCGATGCACTAG
14463 TGCA-GGTGCATCGATGCACT
1 TGCATGGTGCATCGATGCACT
14483 GCAGGGATGC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.26
Consensus pattern (23 bp):
TGCATGGTGCATCGATGCACTAG
Found at i:14499 original size:21 final size:20
Alignment explanation
Indices: 14426--14524 Score: 110
Period size: 21 Copynumber: 4.8 Consensus size: 20
14416 CGGTGTTTGA
* *
14426 GTGCATAGATGCACTGCATG
1 GTGCATCGATGCACTGCAGG
14446 GTGCATCGATGCACTAGTGCA-G
1 GTGCATCGATGCAC---TGCAGG
14468 GTGCATCGATGCACTGCAGG
1 GTGCATCGATGCACTGCAGG
*
14488 GATGCATGGATGCACTGCAGTG
1 G-TGCATCGATGCACTGCAG-G
*
14510 GTGCATGGATGCACT
1 GTGCATCGATGCACT
14525 TTGACACCCT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
19 4 0.06
20 15 0.21
21 31 0.44
22 17 0.24
23 4 0.06
ACGTcount: A:0.22, C:0.21, G:0.33, T:0.23
Consensus pattern (20 bp):
GTGCATCGATGCACTGCAGG
Found at i:14654 original size:30 final size:31
Alignment explanation
Indices: 14604--14664 Score: 90
Period size: 29 Copynumber: 2.0 Consensus size: 31
14594 AAACTTTGAA
14604 TAAATTCAATTAAGTCC-AAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAAACCATTTTG
*
14633 TAAATTCAATTCAATTCCAAAAAACCATTTTG
1 TAAATTCAATT-AAGTCCAAAAAACCATTTTG
14665 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 11 0.39
30 5 0.18
31 5 0.18
32 7 0.25
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.34
Consensus pattern (31 bp):
TAAATTCAATTAAGTCCAAAAAACCATTTTG
Found at i:14804 original size:21 final size:21
Alignment explanation
Indices: 14775--14814 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
14765 TTGTTTAATG
14775 AAAAAGATACCAATTGTTAAC
1 AAAAAGATACCAATTGTTAAC
* *
14796 AAAATGATATCAATTGTTA
1 AAAAAGATACCAATTGTTA
14815 CCCATTGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (21 bp):
AAAAAGATACCAATTGTTAAC
Found at i:16425 original size:14 final size:15
Alignment explanation
Indices: 16408--16438 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
16398 TTCTTCTTGT
16408 TTTTCTTC-TCTTCC
1 TTTTCTTCATCTTCC
16422 TTTTCTTCATCTTCC
1 TTTTCTTCATCTTCC
16437 TT
1 TT
16439 CACCATCATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTTCTTCATCTTCC
Found at i:17830 original size:20 final size:20
Alignment explanation
Indices: 17805--17899 Score: 102
Period size: 20 Copynumber: 4.7 Consensus size: 20
17795 TCCAGCCTTC
* * *
17805 ATGCATGGATGCGCAACAGG
1 ATGCATCGATGCACAACAAG
17825 ATGCATCGATGCACAACAAG
1 ATGCATCGATGCACAACAAG
**
17845 ATGCATCGATGCACAACCTTG
1 ATGCATCGATGCACAA-CAAG
* *
17866 ATACATCGATGCACAGA-AGG
1 ATGCATCGATGCACA-ACAAG
17886 ATGCATCGATGCAC
1 ATGCATCGATGCAC
17900 TAATTGCATT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
20 47 0.73
21 16 0.25
22 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.18
Consensus pattern (20 bp):
ATGCATCGATGCACAACAAG
Found at i:17989 original size:21 final size:21
Alignment explanation
Indices: 17921--18018 Score: 103
Period size: 21 Copynumber: 4.7 Consensus size: 21
17911 GGTGTTTGAG
*
17921 TGCATGGATGCACTGCATGG-
1 TGCATGGATGCACTGCAGGGA
* *
17941 TACATCGATGCACTAGTGCA-GG-
1 TGCATGGATGCAC---TGCAGGGA
*
17963 TGCATGGATGTACTGCAGGGA
1 TGCATGGATGCACTGCAGGGA
*
17984 TGCATGGATGCACTGCAGGGG
1 TGCATGGATGCACTGCAGGGA
18005 TGCATGGATGCACT
1 TGCATGGATGCACT
18019 TTGACACATT
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
19 4 0.06
20 13 0.20
21 33 0.50
22 12 0.18
23 4 0.06
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.23
Consensus pattern (21 bp):
TGCATGGATGCACTGCAGGGA
Found at i:18119 original size:29 final size:29
Alignment explanation
Indices: 18098--18155 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
18088 AAACTTTGAA
18098 TAAATTCAATT-AAGTCCAAAAACATTTTG
1 TAAATTCAATTCAAGTCCAAAAACA-TTTG
18127 TAAATTCAATTCAAGTCCAAAAACCATTT
1 TAAATTCAATTCAAGTCCAAAAA-CATTT
18156 TGCCTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 11 0.41
30 14 0.52
31 2 0.07
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (29 bp):
TAAATTCAATTCAAGTCCAAAAACATTTG
Found at i:18145 original size:30 final size:30
Alignment explanation
Indices: 18098--18157 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
18088 AAACTTTGAA
18098 TAAATTCAATTAAGTCCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
18127 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATT-AAGTCCAAAAACCATTTTG
18158 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:23350 original size:41 final size:41
Alignment explanation
Indices: 23284--23361 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
23274 TTAGTTTTTA
* *
23284 TTTCATTTTAGTACCCCACATTTAAAAACTTTATTTTGTTG
1 TTTCATTTTAGTACCCCACAGTTAAAAACTTCATTTTGTTG
* ** *
23325 TTTCATTTTAGTATCCCATGGTTAAAACCTTCATTTT
1 TTTCATTTTAGTACCCCACAGTTAAAAACTTCATTTT
23362 TTTTTTGTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.26, C:0.18, G:0.08, T:0.49
Consensus pattern (41 bp):
TTTCATTTTAGTACCCCACAGTTAAAAACTTCATTTTGTTG
Found at i:25269 original size:12 final size:12
Alignment explanation
Indices: 25252--25279 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
25242 ACTTTTAATA
25252 AATTAAAATTTT
1 AATTAAAATTTT
25264 AATTAAAATTTT
1 AATTAAAATTTT
25276 AATT
1 AATT
25280 TATTATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
AATTAAAATTTT
Found at i:28930 original size:31 final size:31
Alignment explanation
Indices: 28892--28962 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
28882 ACTTTTAAAA
* * *
28892 TTTACAATACAATCCCTTAATATTTAATCCG
1 TTTACAATACAATACCTCAACATTTAATCCG
**
28923 TTTACAATATGATACCTCAACATTTAATCCG
1 TTTACAATACAATACCTCAACATTTAATCCG
28954 TTTACAATA
1 TTTACAATA
28963 TGATCCTCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.37, C:0.21, G:0.04, T:0.38
Consensus pattern (31 bp):
TTTACAATACAATACCTCAACATTTAATCCG
Found at i:28973 original size:30 final size:31
Alignment explanation
Indices: 28913--28973 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
28903 ATCCCTTAAT
28913 ATTTAATCCGTTTACAATATGATACCTCAAC
1 ATTTAATCCGTTTACAATATGATACCTCAAC
28944 ATTTAATCCGTTTACAATATGAT-CCTCAAC
1 ATTTAATCCGTTTACAATATGATACCTCAAC
28974 GTAACTGTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.34, C:0.23, G:0.07, T:0.36
Consensus pattern (31 bp):
ATTTAATCCGTTTACAATATGATACCTCAAC
Found at i:32018 original size:21 final size:19
Alignment explanation
Indices: 31985--32025 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
31975 AAAATATAGG
31985 ATAAATATAAAATAGATAA
1 ATAAATATAAAATAGATAA
*
32004 ATAAATGAGTAAAATATATAA
1 ATAAAT-A-TAAAATAGATAA
32025 A
1 A
32026 AACGTAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
20 1 0.05
21 12 0.63
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (19 bp):
ATAAATATAAAATAGATAA
Found at i:33497 original size:105 final size:105
Alignment explanation
Indices: 33197--34242 Score: 1605
Period size: 105 Copynumber: 10.0 Consensus size: 105
33187 CATTGTTCCA
* * ** *
33197 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTG-GAACCGGGAAATTGTTTGTTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG-ATTGGGAAGTTG-TTGTTGACAA
* * * *
33261 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
64 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
** * *
33303 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGAATCTGA-A-T--GAAATT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
*
33363 AGCGGTCCATTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
33403 AGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGCTCTGGGATTGGGAAGTTGTTGTTGACAAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
*
33468 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
33508 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA-A-T--GAAATT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
33568 AGC-GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
33607 AGTCCAATATCC-TCTGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAG
1 AGTCCAATATCCTTC-GTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAC
*
33671 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
33712 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
33777 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
33817 AGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
*
33882 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
33922 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
33987 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
34027 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAAATTGTTTATTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGG-AAGTTG-TTGTTGACAA
34092 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
64 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
34134 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTG-TTGTTGACAAC
* * * *
34199 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
34240 AGT
1 AGT
34243 GCCACGATAT
Statistics
Matches: 872, Mismatches: 52, Indels: 32
0.91 0.05 0.03
Matches are distributed among these distances:
98 2 0.00
99 71 0.08
100 97 0.11
101 7 0.01
102 7 0.01
103 5 0.01
104 21 0.02
105 468 0.54
106 98 0.11
107 96 0.11
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (105 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:33747 original size:309 final size:313
Alignment explanation
Indices: 33197--34242 Score: 1619
Period size: 309 Copynumber: 3.3 Consensus size: 313
33187 CATTGTTCCA
* * *
33197 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCT-GAA-C-TGAAAGTGTTTGTTGACAAC
* *
33262 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAG
63 CAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAG
** *
33327 TTGAAATTGAATCTGA-A-T-GAAA-TT-TTGTTGACAAGCAGCGGTCCATTCGTCGTGAAGTTG
128 TTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTG
* *
33387 AACTTGCGTTGTCTGGAGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGCTCTGGGATTGGGAA
193 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAA
* *
33452 GTTGTTGTTGACAAACAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
258 GTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
33508 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAA-TGAAA-T-TTTGTTGACAAGCAG
1 AGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTGAACTGAAAGTGTTTGTTGACAACCAG
*
33570 -CGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC-TCTGTTGTGAAGTT
66 CCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTC-GTTGTGAAGTT
33633 GAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAA
130 GAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAA
*
33698 CTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGT
195 CTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGT
33763 TGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
260 TGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
33817 AGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGT-TGTTGTTGACAAG
1 AGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTGA-ACT-GAAAGTGT-TTGTTGACAAC
* * *
33881 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
63 CAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAG
* *
33946 TTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
128 TTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTG
* *
34011 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA
193 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGG-A
* *
34076 AATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
257 AGTTG-TTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
34134 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTG-AACTGA-AAG-TGTTTGTTGACAAC
* *
34199 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT
63 CAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGT
34243 GCCACGATAT
Statistics
Matches: 682, Mismatches: 34, Indels: 31
0.91 0.05 0.04
Matches are distributed among these distances:
303 2 0.00
304 69 0.10
305 15 0.02
306 2 0.00
307 8 0.01
308 2 0.00
309 189 0.28
310 4 0.01
311 36 0.05
312 4 0.01
313 2 0.00
314 14 0.02
315 179 0.26
316 9 0.01
317 95 0.14
318 51 0.07
319 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (313 bp):
AGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTGAACTGAAAGTGTTTGTTGACAACCAG
CCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTG
AAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAAC
TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTT
GTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:35060 original size:67 final size:67
Alignment explanation
Indices: 34988--35146 Score: 241
Period size: 67 Copynumber: 2.4 Consensus size: 67
34978 GAAACGAAAT
* *
34988 TTTGTTTTAAGGGAGATA-AAT-TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCATAGGAGAC
1 TTTGTTTCAAGGGA-A-ACAATCTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAAGGAGAC
35051 AAAA
64 AAAA
*
35055 TTTGTTTCGAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAAGGAGACAA
1 TTTGTTTCAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAAGGAGACAA
35120 AA
66 AA
**
35122 TTTGTTTCAAGGGAAATTATCTCAA
1 TTTGTTTCAAGGGAAACAATCTCAA
35147 GAGAGACGAA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
65 1 0.01
66 4 0.05
67 79 0.94
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.32
Consensus pattern (67 bp):
TTTGTTTCAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAAGGAGACAA
AA
Found at i:35071 original size:36 final size:35
Alignment explanation
Indices: 35021--35292 Score: 178
Period size: 36 Copynumber: 7.9 Consensus size: 35
35011 AAAGATTTTG
*
35021 TGTTTCAAGAGAAACTGTCTCATAGGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCA-AGGAGACAAAATT
* ** **
35057 TGTTTCGAGGGAAACAATCTCAA--AG---ATTTT
1 TGTTTCAAGGGAAACTGTCTCAAGGAGACAAAATT
*
35087 GTGTTTCAAGAGAAACTGTCTCAAAGGAGACAAAATT
1 -TGTTTCAAGGGAAACTGTCTC-AAGGAGACAAAATT
* * *
35124 TGTTTCAAGGGAAATTATCTCAAGAGAGACGAAATT
1 TGTTTCAAGGGAAACTGTCTCAAG-GAGACAAAATT
** * *
35160 CATTTCAAGGGAAA-TGTTTTCAA--TG------TT
1 TGTTTCAAGGGAAACTG-TCTCAAGGAGACAAAATT
*
35187 TATGTTC-AGGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGT-TTCAAGG-GAAACTGTCTCAA-GGAGACAAAA-TT
* * *
35225 TGTTTCAAAGGAAACTATCTCAAGAGAGACAAAGTT
1 TGTTTCAAGGGAAACTGTCTCAAG-GAGACAAAATT
35261 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TGTTTCAAGGGAAACTGTCTCAAG-GAGACAA
35293 TGGTGAGCAC
Statistics
Matches: 182, Mismatches: 30, Indels: 48
0.70 0.12 0.18
Matches are distributed among these distances:
27 7 0.04
28 12 0.07
29 2 0.01
30 3 0.02
31 18 0.10
32 2 0.01
33 3 0.02
34 2 0.01
35 5 0.03
36 96 0.53
37 26 0.14
38 6 0.03
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (35 bp):
TGTTTCAAGGGAAACTGTCTCAAGGAGACAAAATT
Found at i:35252 original size:101 final size:100
Alignment explanation
Indices: 35091--35274 Score: 289
Period size: 101 Copynumber: 1.8 Consensus size: 100
35081 GATTTTGTGT
* *
35091 TTCAAGAGAAACTGTCTCAAAGGAGACAAAATTTGTTTCAAGGGAAATTATCTCAAGAGAGACGA
1 TTCAAGAGAAACTGTCTCAAAGGAGACAAAATTTGTTTCAAAGGAAACTATCTCAAGAGAGAC-A
35156 AA-TTCATTTCAAGGGAAATGTTTTCAATGTTTATG
65 AAGTTCATTTCAAGGGAAATGTTTTCAATGTTTATG
* *
35191 TTCAGGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAAGGAAACTATCTCAAGAGAGACA
1 TTCAAGAGAAACTGTCTCAAAGGAGACAAAA-TTTGTTTCAAAGGAAACTATCTCAAGAGAGACA
**
35256 AAGTTTGTTTCAAGGGAAA
65 AAGTTCATTTCAAGGGAAA
35275 CTGTCTCAAG
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
100 32 0.42
101 44 0.58
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.28
Consensus pattern (100 bp):
TTCAAGAGAAACTGTCTCAAAGGAGACAAAATTTGTTTCAAAGGAAACTATCTCAAGAGAGACAA
AGTTCATTTCAAGGGAAATGTTTTCAATGTTTATG
Found at i:35762 original size:18 final size:18
Alignment explanation
Indices: 35735--35770 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
35725 TGATGAATCC
* *
35735 CCAAAGATGCCTCAATAT
1 CCAAAAATGCCCCAATAT
35753 CCAAAAATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
35771 TTGATGTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.31, G:0.08, T:0.19
Consensus pattern (18 bp):
CCAAAAATGCCCCAATAT
Found at i:36262 original size:22 final size:22
Alignment explanation
Indices: 36185--36255 Score: 106
Period size: 22 Copynumber: 3.2 Consensus size: 22
36175 TTGTGTTTGG
*
36185 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGACATTTGATGC
*
36207 TCAAAGGTTTAACATTTGATGC
1 TCAAAGGTTTGACATTTGATGC
* *
36229 TTAAAGGTTTGACATTGGATGC
1 TCAAAGGTTTGACATTTGATGC
36251 TCAAA
1 TCAAA
36256 AGATTGATGG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.35
Consensus pattern (22 bp):
TCAAAGGTTTGACATTTGATGC
Found at i:36925 original size:8 final size:7
Alignment explanation
Indices: 36913--36984 Score: 54
Period size: 8 Copynumber: 9.1 Consensus size: 7
36903 TGATTTTTGC
36913 TCTTTTT
1 TCTTTTT
36920 TCCTTTTGT
1 T-CTTTT-T
*
36929 TCTTGTT
1 TCTTTTT
36936 TCTCTTTT
1 TCT-TTTT
36944 TCTTTGTTT
1 TC-TT-TTT
*
36953 TTTTTTT
1 TCTTTTT
36960 TGCTTTTT
1 T-CTTTTT
36968 TGCTTCTTT
1 T-CTT-TTT
36977 TCTTTTT
1 TCTTTTT
36984 T
1 T
36985 GTTCTTGATT
Statistics
Matches: 54, Mismatches: 4, Indels: 14
0.75 0.06 0.19
Matches are distributed among these distances:
7 13 0.24
8 30 0.56
9 11 0.20
ACGTcount: A:0.00, C:0.15, G:0.07, T:0.78
Consensus pattern (7 bp):
TCTTTTT
Found at i:36926 original size:16 final size:17
Alignment explanation
Indices: 36907--36952 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
36897 TCTTTTTGAT
*
36907 TTTTGCTCTTTTTTC-C
1 TTTTGCTCTTGTTTCTC
*
36923 TTTTGTTCTTGTTTCTC
1 TTTTGCTCTTGTTTCTC
*
36940 TTTTTCT-TTGTTT
1 TTTTGCTCTTGTTT
36953 TTTTTTTTGC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 19 0.76
17 6 0.24
ACGTcount: A:0.00, C:0.17, G:0.09, T:0.74
Consensus pattern (17 bp):
TTTTGCTCTTGTTTCTC
Found at i:36983 original size:16 final size:16
Alignment explanation
Indices: 36938--36990 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
36928 TTCTTGTTTC
* *
36938 TCTTTTTCTTTGTTTTT
1 TCTTTTGCTTT-TTTGT
*
36955 TTTTTTGCTTTTTTGCT
1 TCTTTTGCTTTTTTG-T
36972 TCTTTT-CTTTTTTGT
1 TCTTTTGCTTTTTTGT
36987 TCTT
1 TCTT
36991 GATTAGATCT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
15 5 0.16
16 11 0.35
17 15 0.48
ACGTcount: A:0.00, C:0.13, G:0.08, T:0.79
Consensus pattern (16 bp):
TCTTTTGCTTTTTTGT
Found at i:40208 original size:14 final size:16
Alignment explanation
Indices: 40178--40212 Score: 56
Period size: 14 Copynumber: 2.3 Consensus size: 16
40168 ATATAAAAAC
40178 ATAAAATATAGGATAA
1 ATAAAATATAGGATAA
40194 ATAAAA-ATA-GATAA
1 ATAAAATATAGGATAA
40208 ATAAA
1 ATAAA
40213 TGAGTAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 10 0.53
15 3 0.16
16 6 0.32
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.23
Consensus pattern (16 bp):
ATAAAATATAGGATAA
Found at i:43289 original size:32 final size:31
Alignment explanation
Indices: 43231--43332 Score: 134
Period size: 31 Copynumber: 3.3 Consensus size: 31
43221 ATGACGATTG
* * *
43231 AGTGATCATTTTGTTACAAATTAATAACGTT
1 AGTGACCATTTTGTTACAAATCAATAAAGTT
*
43262 AGTGACCATTTTTGTTACGAATCAATAAAGTT
1 AGTGACCA-TTTTGTTACAAATCAATAAAGTT
*
43294 AGTGACCATTTTGTTACAAATCAGA-AATGTT
1 AGTGACCATTTTGTTACAAATCA-ATAAAGTT
43325 AGTGACCA
1 AGTGACCA
43333 ATTTATCACT
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
31 34 0.54
32 29 0.46
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (31 bp):
AGTGACCATTTTGTTACAAATCAATAAAGTT
Found at i:45245 original size:18 final size:22
Alignment explanation
Indices: 45227--45274 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
45217 TGAGAATTAT
45227 AAATAAAAA-AAT-TA-ATATA
1 AAATAAAAATAATATATATATA
45246 AAATAAAAATAATATATATATA
1 AAATAAAAATAATATATATATA
45268 AAATAAA
1 AAATAAA
45275 CCATGTATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.35
20 3 0.12
21 2 0.08
22 12 0.46
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (22 bp):
AAATAAAAATAATATATATATA
Found at i:46037 original size:19 final size:19
Alignment explanation
Indices: 45995--46046 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 19
45985 ATTAAAAAAT
* *
45995 AATTAT-ATATATATATAA
1 AATTATAATATATTTGTAA
* *
46013 ATTTATAATTTATTTGTAA
1 AATTATAATATATTTGTAA
46032 AATTATAATATATTT
1 AATTATAATATATTT
46047 TTTTTAAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
18 5 0.19
19 22 0.81
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
AATTATAATATATTTGTAA
Found at i:52513 original size:19 final size:19
Alignment explanation
Indices: 52461--52520 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 19
52451 TGTTCATAAT
*
52461 AATAAGTGTTGGAAAAAAA
1 AATAAGTGTTGAAAAAAAA
* * * **
52480 ATTAATTATCCAAAAAAAA
1 AATAAGTGTTGAAAAAAAA
*
52499 AATAAGTGTTGAAAAAATA
1 AATAAGTGTTGAAAAAAAA
52518 AAT
1 AAT
52521 TTTAAGGGTA
Statistics
Matches: 29, Mismatches: 12, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.60, C:0.03, G:0.12, T:0.25
Consensus pattern (19 bp):
AATAAGTGTTGAAAAAAAA
Found at i:52853 original size:25 final size:26
Alignment explanation
Indices: 52825--52882 Score: 64
Period size: 28 Copynumber: 2.2 Consensus size: 26
52815 TAGAAAAAAC
* * *
52825 TAAATTATAAAA-AGGCCTCTAATAA
1 TAAATTAAAAAATAAGCCTATAATAA
52850 TAAATATTAAAAAATAAGCCTATAATAA
1 T-AA-ATTAAAAAATAAGCCTATAATAA
52878 TAAAT
1 TAAAT
52883 ATTAAAGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
25 1 0.04
26 4 0.15
27 10 0.37
28 12 0.44
ACGTcount: A:0.57, C:0.09, G:0.05, T:0.29
Consensus pattern (26 bp):
TAAATTAAAAAATAAGCCTATAATAA
Found at i:59675 original size:128 final size:129
Alignment explanation
Indices: 59466--59707 Score: 389
Period size: 128 Copynumber: 1.9 Consensus size: 129
59456 ACTTGTAAGC
* * * *
59466 ATTTTATTTTATCGACTGAGTTTAGTTTGACTAGTATCGTTTTTTATGTAACATACATAAGAAAT
1 ATTTTATTTTATCAACTGAATTTAATTTGACTAGTATAGTTTTTTATGTAACATACATAAGAAAT
* *
59531 AGTATCTAACATGTTTAATTAATTAATTCTTTAATTTATTTAAATATAAACATAAAATTAAAAT
66 AATATCTAACATGTTTAATTAATTAATTATTTAATTTATTTAAATATAAACATAAAATTAAAAT
*
59595 ATTTTATTTTATCAACTGAATTTAATTTGACTAGTATAG-TTTTTATGTAGCATACATAAGAAAT
1 ATTTTATTTTATCAACTGAATTTAATTTGACTAGTATAGTTTTTTATGTAACATACATAAGAAAT
*
59659 AATA-CATAACGTGTTTAATTAATTAATTATTTAATTTATTTAAATATAA
66 AATATC-TAACATGTTTAATTAATTAATTATTTAATTTATTTAAATATAA
59708 TTTAATATTA
Statistics
Matches: 104, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
127 1 0.01
128 68 0.65
129 35 0.34
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.45
Consensus pattern (129 bp):
ATTTTATTTTATCAACTGAATTTAATTTGACTAGTATAGTTTTTTATGTAACATACATAAGAAAT
AATATCTAACATGTTTAATTAATTAATTATTTAATTTATTTAAATATAAACATAAAATTAAAAT
Found at i:64948 original size:28 final size:26
Alignment explanation
Indices: 64904--64957 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 26
64894 AAATATCTAG
64904 ATTATTTTATGAATATTTATAGATATAT
1 ATTATTTTATGAATATTT-TAGA-ATAT
*
64932 ATTATTTTTAT-ATTATTTTAGAATAT
1 ATTA-TTTTATGAATATTTTAGAATAT
64958 TCTCAAGATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 4 0.17
27 4 0.17
28 10 0.42
29 6 0.25
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (26 bp):
ATTATTTTATGAATATTTTAGAATAT
Found at i:65986 original size:21 final size:21
Alignment explanation
Indices: 65944--65986 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
65934 TTATTTGATA
*
65944 TTATGTTTGATATTTATAAAT
1 TTATGTTTGATATATATAAAT
* *
65965 TTATGTTTGGTATATATTAAT
1 TTATGTTTGATATATATAAAT
65986 T
1 T
65987 AATTCAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (21 bp):
TTATGTTTGATATATATAAAT
Found at i:66614 original size:22 final size:21
Alignment explanation
Indices: 66566--66614 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 21
66556 AGTTATCTTT
*
66566 TGGGCATAAATAAATTCAGGG
1 TGGGCACAAATAAATTCAGGG
* * *
66587 TAGGCACAAATTAATTTTAGGG
1 TGGGCACAAA-TAAATTCAGGG
66609 TGGGCA
1 TGGGCA
66615 TGTATATAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.35, C:0.10, G:0.29, T:0.27
Consensus pattern (21 bp):
TGGGCACAAATAAATTCAGGG
Found at i:67513 original size:42 final size:43
Alignment explanation
Indices: 67436--67523 Score: 151
Period size: 42 Copynumber: 2.0 Consensus size: 43
67426 TCATGTATAT
*
67436 ATAGTTGCATGGAGTAGGGAGAGAGGCATAGATAGGTAGATTTA
1 ATAGTTGCATGGAGTA-GGAGAGACGCATAGATAGGTAGATTTA
67480 ATAGTTGCATGGAGTA-GAGAGACGCATAGATAGGTAGATTTA
1 ATAGTTGCATGGAGTAGGAGAGACGCATAGATAGGTAGATTTA
67522 AT
1 AT
67524 GGGCACATGG
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
42 27 0.63
44 16 0.37
ACGTcount: A:0.35, C:0.06, G:0.33, T:0.26
Consensus pattern (43 bp):
ATAGTTGCATGGAGTAGGAGAGACGCATAGATAGGTAGATTTA
Found at i:67533 original size:42 final size:43
Alignment explanation
Indices: 67443--67534 Score: 123
Period size: 42 Copynumber: 2.1 Consensus size: 43
67433 TATATAGTTG
* ***
67443 CATGGAGTAGGGAGAGAGGCATAGATAGGTAGATTTAATAGTTG
1 CATGGAGTA-GGAGAGACGCATAGATAGGTAGATTTAATAGGCA
*
67487 CATGGAGTA-GAGAGACGCATAGATAGGTAGATTTAATGGGCA
1 CATGGAGTAGGAGAGACGCATAGATAGGTAGATTTAATAGGCA
67529 CATGGA
1 CATGGA
67535 ATCATGTCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 34 0.79
44 9 0.21
ACGTcount: A:0.35, C:0.08, G:0.35, T:0.23
Consensus pattern (43 bp):
CATGGAGTAGGAGAGACGCATAGATAGGTAGATTTAATAGGCA
Found at i:68200 original size:6 final size:6
Alignment explanation
Indices: 68189--68264 Score: 117
Period size: 6 Copynumber: 13.5 Consensus size: 6
68179 GACACGTATT
68189 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
68237 ACC-CG ACC-CG ACC-CG ACC-CG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
68265 CGAGACGAGA
Statistics
Matches: 70, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 25 0.36
6 45 0.64
ACGTcount: A:0.29, C:0.54, G:0.17, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:68757 original size:6 final size:6
Alignment explanation
Indices: 68748--68780 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
68738 CGCCGTCTCG
68748 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
68781 AATACGTGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.15, G:0.52, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:68908 original size:22 final size:19
Alignment explanation
Indices: 68858--68956 Score: 90
Period size: 20 Copynumber: 4.8 Consensus size: 19
68848 ATGCAACTTG
*
68858 GAATCGCGTTGCGATTTTCT
1 GAATCGCGTTGCGATTTT-A
68878 GAATCGCGTTGCGATTCTTA
1 GAATCGCGTTGCGATT-TTA
*
68898 GAAGATCGCGTTACGATTTTA
1 G-A-ATCGCGTTGCGATTTTA
* *
68919 TGAATCGCATTGCGATTCTTG
1 -GAATCGCGTTGCGATT-TTA
68940 GAAGATCGCGTTGCGAT
1 G-A-ATCGCGTTGCGAT
68957 CTTCTTTTCA
Statistics
Matches: 66, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
20 30 0.45
21 10 0.15
22 26 0.39
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.34
Consensus pattern (19 bp):
GAATCGCGTTGCGATTTTA
Found at i:68923 original size:42 final size:42
Alignment explanation
Indices: 68860--68956 Score: 158
Period size: 42 Copynumber: 2.3 Consensus size: 42
68850 GCAACTTGGA
* *
68860 ATCGCGTTGCGATTTTCTGAATCGCGTTGCGATTCTTAGAAG
1 ATCGCGTTGCGATTTTATGAATCGCATTGCGATTCTTAGAAG
* *
68902 ATCGCGTTACGATTTTATGAATCGCATTGCGATTCTTGGAAG
1 ATCGCGTTGCGATTTTATGAATCGCATTGCGATTCTTAGAAG
68944 ATCGCGTTGCGAT
1 ATCGCGTTGCGAT
68957 CTTCTTTTCA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.35
Consensus pattern (42 bp):
ATCGCGTTGCGATTTTATGAATCGCATTGCGATTCTTAGAAG
Found at i:70187 original size:16 final size:17
Alignment explanation
Indices: 70156--70188 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
70146 CTTTCGATTC
70156 AATAATAATTTAATAAA
1 AATAATAATTTAATAAA
*
70173 AATAA-AATTTTATAAA
1 AATAATAATTTAATAAA
70189 TTAATATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AATAATAATTTAATAAA
Found at i:71607 original size:22 final size:22
Alignment explanation
Indices: 71579--71632 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
71569 CCCACACCAA
71579 TATCGATACTCTCAAGCTATAG
1 TATCGATACTCTCAAGCTATAG
* *
71601 TATCGATACTCTCATGTTATAG
1 TATCGATACTCTCAAGCTATAG
71623 TATCGATACT
1 TATCGATACT
71633 ACTAGGGTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (22 bp):
TATCGATACTCTCAAGCTATAG
Found at i:72665 original size:2 final size:2
Alignment explanation
Indices: 72658--72685 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
72648 GGGTTTTTAA
72658 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
72686 TTAATTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:74384 original size:3 final size:3
Alignment explanation
Indices: 74376--74403 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
74366 ACCGTTGTAA
74376 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
74404 TCGTAACTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:78588 original size:11 final size:11
Alignment explanation
Indices: 78574--78643 Score: 54
Period size: 11 Copynumber: 6.0 Consensus size: 11
78564 TATATAACTT
78574 AATAATAATAA
1 AATAATAATAA
*
78585 AATAATCATGAA
1 AATAATAAT-AA
*
78597 GATAATAATTTAA
1 AATAATAA--TAA
78610 ACAT-AT-ATCAA
1 A-ATAATAAT-AA
78621 AAGTAATAATAA
1 AA-TAATAATAA
78633 AATAATAATAA
1 AATAATAATAA
78644 TTAAAATGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 16
0.70 0.06 0.24
Matches are distributed among these distances:
10 2 0.04
11 21 0.45
12 15 0.32
13 6 0.13
14 3 0.06
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (11 bp):
AATAATAATAA
Found at i:80010 original size:2 final size:2
Alignment explanation
Indices: 80003--80069 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
79993 TGGGCTTGTA
80003 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
80045 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
80070 ATAATAATAA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:80075 original size:3 final size:3
Alignment explanation
Indices: 80067--80119 Score: 54
Period size: 3 Copynumber: 17.3 Consensus size: 3
80057 ATATATATAT
* * *
80067 ATA ATA ATA ATA ATA ATA ATA TTTA GTA ATA ATA A-A TTTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA -ATA ATA ATA
80113 ATA ATA A
1 ATA ATA A
80120 AATTTAAATG
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
2 1 0.02
3 38 0.90
4 3 0.07
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:80088 original size:22 final size:23
Alignment explanation
Indices: 80001--80119 Score: 90
Period size: 22 Copynumber: 5.1 Consensus size: 23
79991 TTTGGGCTTG
80001 TAAT-ATATAT-ATATAT-AT-A
1 TAATAATATATAATATATAATAA
80020 TATATATATATATATATATATATATATA
1 TA-ATA-ATATATA-ATATATA-ATA-A
80048 TATATATATATATATATATATAATAA
1 TA-ATA-ATATATA-ATATATAATAA
* *
80074 TAATAATA-ATAATATTTAGTAA
1 TAATAATATATAATATATAATAA
*
80096 TAATAA-ATTTAATA-ATAATAA
1 TAATAATATATAATATATAATAA
80117 TAA
1 TAA
80120 AATTTAAATG
Statistics
Matches: 85, Mismatches: 5, Indels: 18
0.79 0.05 0.17
Matches are distributed among these distances:
19 2 0.02
20 2 0.02
21 9 0.11
22 26 0.31
23 3 0.04
24 9 0.11
25 3 0.04
26 5 0.06
27 3 0.04
28 23 0.27
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.45
Consensus pattern (23 bp):
TAATAATATATAATATATAATAA
Found at i:80088 original size:28 final size:28
Alignment explanation
Indices: 80027--80118 Score: 82
Period size: 31 Copynumber: 3.1 Consensus size: 28
80017 ATATATATAT
80027 ATATATATATAT-ATATAT-ATATATATATA
1 ATATATATATATAATA-ATAATA-ATA-ATA
80056 TATATATATATATAATAATAATAATAATA
1 -ATATATATATATAATAATAATAATAATA
*
80085 ATATTTAGTA-ATAATAAATTTAATAATAATA
1 ATATATA-TATATAAT-AA--TAATAATAATA
80116 ATA
1 ATA
80119 AAATTTAAAT
Statistics
Matches: 55, Mismatches: 1, Indels: 11
0.82 0.01 0.16
Matches are distributed among these distances:
28 11 0.20
29 7 0.13
30 17 0.31
31 20 0.36
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (28 bp):
ATATATATATATAATAATAATAATAATA
Found at i:80467 original size:120 final size:120
Alignment explanation
Indices: 80254--80480 Score: 418
Period size: 120 Copynumber: 1.9 Consensus size: 120
80244 ATGTTTGAAA
* *
80254 ACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAG
1 ACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGATCCCGAAG
80319 GCTTTTTGGAAACATCATGCACTGAAGGACTTACAAATGACCTGCATGGGCCACC
66 GCTTTTTGGAAACATCATGCACTGAAGGACTTACAAATGACCTGCATGGGCCACC
*
80374 ACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAG
1 ACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGATCCCGAAG
*
80439 GCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACC
66 GCTTTTTGGAAACATCATGCACTGAAGGACTTACAAATGACC
80481 CTAAGGCTTT
Statistics
Matches: 103, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 103 1.00
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.21
Consensus pattern (120 bp):
ACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGATCCCGAAG
GCTTTTTGGAAACATCATGCACTGAAGGACTTACAAATGACCTGCATGGGCCACC
Found at i:80500 original size:76 final size:76
Alignment explanation
Indices: 80374--80933 Score: 1084
Period size: 76 Copynumber: 7.4 Consensus size: 76
80364 ATGGGCCACC
*
80374 ACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAG
1 ACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAG
80439 GCTTTTTGGAA
66 GCTTTTTGGAA
*
80450 ACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAG
1 ACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAG
80515 GCTTTTTGGAA
66 GCTTTTTGGAA
*
80526 ACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAG
1 ACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAG
80591 GCTTTTTGGAA
66 GCTTTTTGGAA
*
80602 ACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAG
1 ACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAG
80667 GCTTTTTGGAA
66 GCTTTTTGGAA
80678 ACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAG
1 ACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAG
80743 GCTTTTTGGAA
66 GCTTTTTGGAA
80754 ACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAG
1 ACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAG
80819 GCTTTTTGGAA
66 GCTTTTTGGAA
80830 ACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAG
1 ACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAG
80895 GCTTTTTGGAA
66 GCTTTTTGGAA
80906 ACATCATGCACTGAAGGACTTACAGATG
1 ACATCATGCACTGAAGGACTTACAGATG
80934 TGGGAAATAG
Statistics
Matches: 479, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 479 1.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (76 bp):
ACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAG
GCTTTTTGGAA
Found at i:82083 original size:54 final size:53
Alignment explanation
Indices: 82001--82156 Score: 240
Period size: 54 Copynumber: 2.9 Consensus size: 53
81991 AGAATAGCAG
***
82001 GTTCGTAAAACATTTGACAGTGCATTCATCCTTTCTTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTC-TGTGGCTTCTGCTCAGAT
* *
82055 GTTCGTAAAACATTTGACAACACATTCATCCTTTCATGTGGTTTCTGTTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTC-TGTGGCTTCTGCTCAGAT
82109 GTTCGTAAAACATTTGACAACACATTCATCCTTTACTGTGGCTTCTGC
1 GTTCGTAAAACATTTGACAACACATTCATCCTTT-CTGTGGCTTCTGC
82157 CAAGATTTCT
Statistics
Matches: 93, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 92 0.99
55 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (53 bp):
GTTCGTAAAACATTTGACAACACATTCATCCTTTCTGTGGCTTCTGCTCAGAT
Found at i:83159 original size:74 final size:76
Alignment explanation
Indices: 83030--83199 Score: 220
Period size: 74 Copynumber: 2.3 Consensus size: 76
83020 ATTGTGGGCC
* *
83030 TTCAGCATGCCCCAACA-TTGGCTAATACAAGTGTTCAAAATGCATCAACAGTTCTGATTCTGAT
1 TTCAGCATGCCCCAACATTTGGCTAATACAAGTATTCAAAATACATCAACAGTTCTGATTCTGAT
*
83094 TGAAATGGGTT
66 TGAAAAGGGTT
* * ** * *
83105 TTCAGCATGCCCCAACATTTTGCTGATA-AA-TATTCAAAATATTTCAACATTTCTGATTCTGTT
1 TTCAGCATGCCCCAACATTTGGCTAATACAAGTATTCAAAATACATCAACAGTTCTGATTCTGAT
*
83168 TGAAAAGTGTT
66 TGAAAAGGGTT
*
83179 TTCAGCATGCCCCAATATTTG
1 TTCAGCATGCCCCAACATTTG
83200 CTTCTTGTTA
Statistics
Matches: 82, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
74 55 0.67
75 19 0.23
76 8 0.10
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (76 bp):
TTCAGCATGCCCCAACATTTGGCTAATACAAGTATTCAAAATACATCAACAGTTCTGATTCTGAT
TGAAAAGGGTT
Found at i:84500 original size:114 final size:114
Alignment explanation
Indices: 84300--84527 Score: 339
Period size: 114 Copynumber: 2.0 Consensus size: 114
84290 ATGATCATGC
* * * * *
84300 AATTCATCTTTCAATTCCAATGATCGGTTCTGGGGTTCCTACCGAATCAGATCAGATAACTCAAA
1 AATTCATCTTTCAAATCCAATGATCGATTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAA
* *
84365 GAATACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCA
66 GAACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCA
* * * *
84414 AATTCATCTTTTAAATCTAATGATTGATTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAA
1 AATTCATCTTTCAAATCCAATGATCGATTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAA
* *
84479 GAACACTTCTAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCA
66 GAACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCA
84528 CATGGAACTT
Statistics
Matches: 101, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
114 101 1.00
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (114 bp):
AATTCATCTTTCAAATCCAATGATCGATTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAA
GAACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCA
Found at i:91522 original size:34 final size:32
Alignment explanation
Indices: 91469--91538 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
91459 ACCTTACAAC
*
91469 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
*
91501 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACCTT
91535 TCCC
1 TCCC
91539 CTTTACAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 22 0.65
ACGTcount: A:0.21, C:0.31, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
Found at i:91847 original size:21 final size:21
Alignment explanation
Indices: 91821--91862 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
91811 CCAGAATGGG
*
91821 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
91842 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
91863 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:91992 original size:19 final size:19
Alignment explanation
Indices: 91968--92034 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
91958 GAGCCTCGGG
*
91968 TTACTGTTCAAACAGTGAT
1 TTACTGTTCAAACAGTAAT
*
91987 TTACTGTTCAAATAGTAAT
1 TTACTGTTCAAACAGTAAT
* *
92006 TTACTGTTCAAATAGTAAA
1 TTACTGTTCAAACAGTAAT
*
92025 TTACTATTCA
1 TTACTGTTCA
92035 TAAAAACAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 44 1.00
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.40
Consensus pattern (19 bp):
TTACTGTTCAAACAGTAAT
Found at i:92147 original size:30 final size:31
Alignment explanation
Indices: 92100--92190 Score: 168
Period size: 31 Copynumber: 3.0 Consensus size: 31
92090 AAATTTTGAA
92100 TAAATTCAATT-AAGTCCAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
92129 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
92160 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
92191 CCTTAAATTG
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
29 11 0.18
30 11 0.18
31 38 0.63
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.33
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:92462 original size:24 final size:23
Alignment explanation
Indices: 92416--92492 Score: 68
Period size: 24 Copynumber: 3.3 Consensus size: 23
92406 AAATAAAATG
*
92416 AAATAT-TAATAATAATATATAT
1 AAATATATAAAAATAATATATAT
*
92438 AAATACTATAAAAATAATATGTAT
1 AAATA-TATAAAAATAATATATAT
* * * *
92462 ATATATATATATAATTATAAAT-T
1 AAATATATA-AAAATAATATATAT
92485 AAATATAT
1 AAATATAT
92493 GAAATTTTTA
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
22 5 0.11
23 13 0.30
24 26 0.59
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (23 bp):
AAATATATAAAAATAATATATAT
Found at i:94765 original size:3 final size:3
Alignment explanation
Indices: 94757--94808 Score: 52
Period size: 3 Copynumber: 17.0 Consensus size: 3
94747 ATATATATAT
* * *
94757 TAA TAA TAA TAA TAA TAA TATT TAG TAA TAA TAA -ATT TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TA-A TAA TAA TAA
94803 TAA TAA
1 TAA TAA
94809 AATTTAAATG
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
2 1 0.02
3 37 0.90
4 3 0.07
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:94770 original size:31 final size:36
Alignment explanation
Indices: 94735--94807 Score: 87
Period size: 37 Copynumber: 2.0 Consensus size: 36
94725 TTTGGGCTTG
*
94735 TAATATATA-T-ATATATATATATTAATAATAATAATAA
1 TAATATATAGTAATA-ATAAAT-TTAATAATAATAAT-A
*
94772 TAATATTTAGTAATAATAAATTTAATAATAATAATA
1 TAATATATAGTAATAATAAATTTAATAATAATAATA
94808 AAATTTAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
36 1 0.03
37 22 0.69
38 6 0.19
39 3 0.09
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.42
Consensus pattern (36 bp):
TAATATATAGTAATAATAAATTTAATAATAATAATA
Found at i:94777 original size:25 final size:25
Alignment explanation
Indices: 94735--94804 Score: 68
Period size: 28 Copynumber: 2.6 Consensus size: 25
94725 TTTGGGCTTG
*
94735 TAATATATATATATATATATATTAATAA
1 TAATA-ATA-ATA-ATATATAGTAATAA
*
94763 TAATAATAATAATATTTAGTAATAA
1 TAATAATAATAATATATAGTAATAA
94788 TAAATTTAATAATAATA
1 T-AA--TAATAATAATA
94805 ATAAAATTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
25 13 0.35
26 5 0.14
27 3 0.08
28 16 0.43
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (25 bp):
TAATAATAATAATATATAGTAATAA
Found at i:94894 original size:16 final size:17
Alignment explanation
Indices: 94863--94907 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
94853 CTTTCGATTC
94863 AATAATAATTTAATAAA
1 AATAATAATTTAATAAA
*
94880 AATAA-AATTTTATAAA
1 AATAATAATTTAATAAA
*
94896 ATTAAT-ATTTAA
1 AATAATAATTTAA
94908 AAATTATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 19 0.79
17 5 0.21
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AATAATAATTTAATAAA
Found at i:94912 original size:14 final size:13
Alignment explanation
Indices: 94885--94935 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 13
94875 ATAAAAATAA
94885 AATTTTATAAAATT
1 AATTTTA-AAAATT
94899 AATATTTAAAAATT
1 AAT-TTTAAAAATT
*
94913 -ATTTTAAAAGTAT
1 AATTTTAAAAAT-T
94926 AATGTTTAAA
1 AAT-TTTAAA
94936 CTATTATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
12 8 0.25
13 3 0.09
14 11 0.34
15 10 0.31
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (13 bp):
AATTTTAAAAATT
Found at i:94916 original size:27 final size:28
Alignment explanation
Indices: 94886--94945 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
94876 TAAAAATAAA
94886 ATTTTATAAAAT-TAATATTTAAA-AATT
1 ATTTTA-AAAATATAATATTTAAACAATT
* * *
94913 ATTTTAAAAGTATAATGTTTAAACTATT
1 ATTTTAAAAATATAATATTTAAACAATT
94941 ATTTT
1 ATTTT
94946 TTATTCTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 4 0.14
27 16 0.57
28 8 0.29
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (28 bp):
ATTTTAAAAATATAATATTTAAACAATT
Found at i:96766 original size:3 final size:3
Alignment explanation
Indices: 96758--96782 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
96748 AGCGTTGTAA
96758 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
96783 TCGTAACTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:97496 original size:29 final size:29
Alignment explanation
Indices: 97450--97515 Score: 107
Period size: 29 Copynumber: 2.3 Consensus size: 29
97440 TGAATTCTAC
97450 AGCGACCTTGGAGGTCGCCATGGCATCCG
1 AGCGACCTTGGAGGTCGCCATGGCATCCG
*
97479 -GACGACCTTGGAGTTCGCCATGGCATCCG
1 AG-CGACCTTGGAGGTCGCCATGGCATCCG
97508 AGCGACCT
1 AGCGACCT
97516 GTGTGGTGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
28 1 0.03
29 32 0.94
30 1 0.03
ACGTcount: A:0.18, C:0.32, G:0.32, T:0.18
Consensus pattern (29 bp):
AGCGACCTTGGAGGTCGCCATGGCATCCG
Found at i:97592 original size:20 final size:20
Alignment explanation
Indices: 97567--97604 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
97557 GTATTGGAGC
*
97567 ATGCATGGGGGAGTTGTGGG
1 ATGCATGGGGGAGCTGTGGG
*
97587 ATGCATGTGGGAGCTGTG
1 ATGCATGGGGGAGCTGTG
97605 CATGGGACGT
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:0.16, C:0.08, G:0.50, T:0.26
Consensus pattern (20 bp):
ATGCATGGGGGAGCTGTGGG
Found at i:97616 original size:20 final size:20
Alignment explanation
Indices: 97593--97630 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
97583 TGGGATGCAT
*
97593 GTGGGAGCTGTGCATGGGAC
1 GTGGGAACTGTGCATGGGAC
97613 GTGGGAACTGTGCATGGG
1 GTGGGAACTGTGCATGGG
97631 CCATGCACGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.13, G:0.50, T:0.21
Consensus pattern (20 bp):
GTGGGAACTGTGCATGGGAC
Found at i:98186 original size:21 final size:21
Alignment explanation
Indices: 98161--98204 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
98151 AATCTAGTTA
98161 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
98182 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
98203 AT
1 AT
98205 ATTATATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:98214 original size:28 final size:27
Alignment explanation
Indices: 98181--98240 Score: 102
Period size: 28 Copynumber: 2.2 Consensus size: 27
98171 TAGTATAAAT
*
98181 TATTAGTTTGTTAGTTTAAGTTATATTA
1 TATTAGTTTATTAGTTTAAGTTATA-TA
98209 TATTAGTTTATTAGTTTAAGTTATATA
1 TATTAGTTTATTAGTTTAAGTTATATA
98236 TATTA
1 TATTA
98241 TATAAAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 7 0.23
28 24 0.77
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.57
Consensus pattern (27 bp):
TATTAGTTTATTAGTTTAAGTTATATA
Found at i:98300 original size:42 final size:45
Alignment explanation
Indices: 98203--98312 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 45
98193 AGTTTAAGTT
98203 ATATTATATTAGTTTATTAGTTTAAGTTATATATATTATATAAAAAA
1 ATATTA-ATTAGTTTATTAGTTTAAGTTATATATA-TATATAAAAAA
* *
98250 TTAGTTAATTAGTTTCTTAGTTTAAGTTAT-TA-A-ATATAAAAAA
1 ATA-TTAATTAGTTTATTAGTTTAAGTTATATATATATATAAAAAA
* *
98293 ATATTAATTAATTTGTTAGT
1 ATATTAATTAGTTTATTAGT
98313 GTCTTTAAAC
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
42 15 0.26
43 12 0.21
45 1 0.02
46 2 0.04
47 24 0.42
48 3 0.05
ACGTcount: A:0.42, C:0.01, G:0.08, T:0.49
Consensus pattern (45 bp):
ATATTAATTAGTTTATTAGTTTAAGTTATATATATATATAAAAAA
Found at i:98789 original size:20 final size:21
Alignment explanation
Indices: 98745--98789 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
98735 AAATATTGTG
**
98745 TTTAAAAATATTTAGTGTTGT
1 TTTAAAAATATTTAGTGTTAA
*
98766 TTTAAAAATATTTTGT-TTAA
1 TTTAAAAATATTTAGTGTTAA
98786 TTTA
1 TTTA
98790 CATTGTATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.56
Consensus pattern (21 bp):
TTTAAAAATATTTAGTGTTAA
Found at i:99079 original size:26 final size:25
Alignment explanation
Indices: 99050--99108 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
99040 AAATCATATT
*
99050 ATTATTAAATCATTAAATATCAAATC
1 ATTATTAAAT-AGTAAATATCAAATC
*
99076 ATTAGATT-AATAGTAATTATCAAATC
1 ATT--ATTAAATAGTAAATATCAAATC
99102 ATTATTA
1 ATTATTA
99109 GATTTATTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
24 3 0.11
26 19 0.68
27 3 0.11
28 3 0.11
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.41
Consensus pattern (25 bp):
ATTATTAAATAGTAAATATCAAATC
Found at i:102000 original size:26 final size:26
Alignment explanation
Indices: 101971--102444 Score: 352
Period size: 26 Copynumber: 19.1 Consensus size: 26
101961 TAATGATTTG
*
101971 ATGATTTGATAATAATCATTATAGTA
1 ATGATTTGATAATAATCATTATAATA
101997 ATGATTTGATAATAATCATTATAATA
1 ATGATTTGATAATAATCATTATAATA
*
102023 ATGATTT-AGTAATAATCATTATAAAA
1 ATGATTTGA-TAATAATCATTATAATA
* *
102049 ATGATTTAATAATGAT--TTA-AATA
1 ATGATTTGATAATAATCATTATAATA
* * * * * * *
102072 TTTA-ATGAT-TTGATGATT-TAGTA
1 ATGATTTGATAATAATCATTATAATA
*
102095 ATGATTTGATAATAATCATTATAGTA
1 ATGATTTGATAATAATCATTATAATA
102121 ATGATTTGATAATAATCATTATAATA
1 ATGATTTGATAATAATCATTATAATA
*
102147 ATGATTT-AGTAATAATCATTATAAAA
1 ATGATTTGA-TAATAATCATTATAATA
* *
102173 ATGATTTAATAATGAT--TTA-AATA
1 ATGATTTGATAATAATCATTATAATA
* * * * * * *
102196 TTTA-ATGAT-TTGATGATT-TAGTA
1 ATGATTTGATAATAATCATTATAATA
*
102219 ATGATTTGATAATAATCATTATAGTA
1 ATGATTTGATAATAATCATTATAATA
102245 ATGATTTGATAATAATCATTATAATA
1 ATGATTTGATAATAATCATTATAATA
*
102271 ATGATTT-AGTAATAATCATTATAAAA
1 ATGATTTGA-TAATAATCATTATAATA
* *
102297 ATGATTTAATAATGAT--TTA-AATA
1 ATGATTTGATAATAATCATTATAATA
* * * * * * *
102320 TTTA-ATGAT-TTGATGATT-TAGTA
1 ATGATTTGATAATAATCATTATAATA
102343 ATGATTTGATAATAATCATTATAATA
1 ATGATTTGATAATAATCATTATAATA
* * * *
102369 ATGATTTTATAATAATTATT-TAGTT
1 ATGATTTGATAATAATCATTATAATA
* *
102394 ATTATTT-AGTAATTAT--TTATAATA
1 ATGATTTGA-TAATAATCATTATAATA
* * *
102418 ATGATTTAATACTAATGATT-TAATA
1 ATGATTTGATAATAATCATTATAATA
102443 AT
1 AT
102445 TATTACTAAT
Statistics
Matches: 359, Mismatches: 60, Indels: 59
0.75 0.13 0.12
Matches are distributed among these distances:
21 12 0.03
22 9 0.03
23 38 0.11
24 36 0.10
25 44 0.12
26 217 0.60
27 3 0.01
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (26 bp):
ATGATTTGATAATAATCATTATAATA
Found at i:102108 original size:124 final size:124
Alignment explanation
Indices: 101971--102428 Score: 823
Period size: 124 Copynumber: 3.7 Consensus size: 124
101961 TAATGATTTG
101971 ATGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAAT
1 ATGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAAT
102036 AATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTA
66 AATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTA
102095 ATGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAAT
1 ATGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAAT
102160 AATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTA
66 AATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTA
102219 ATGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAAT
1 ATGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAAT
102284 AATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTA
66 AATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTA
* * * * * *
102343 ATGATTTGATAATAATCATTATAATAATGATTTTATAATAATTATT-TAGTTATTATTTAGTAAT
1 ATGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAAT
* *
102407 TAT--TTATAATAATGATTTAATA
66 AATCATTATAAAAATGATTTAATA
102429 CTAATGATTT
Statistics
Matches: 326, Mismatches: 8, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
121 18 0.06
123 17 0.05
124 291 0.89
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (124 bp):
ATGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAAT
AATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTA
Found at i:102467 original size:38 final size:38
Alignment explanation
Indices: 102397--102470 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 38
102387 TTTAGTTATT
* **
102397 ATTTAGTAATTATTTATAATAATGATTTAATACTAATG
1 ATTTAATAATTATTTATAATAATGATAGAATACTAATG
*
102435 ATTTAATAATTA-TTACTAATAATTATAGAATACTAA
1 ATTTAATAATTATTTA-TAATAATGATAGAATACTAA
102471 CAAATGAGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 3 0.10
38 28 0.90
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (38 bp):
ATTTAATAATTATTTATAATAATGATAGAATACTAATG
Found at i:102677 original size:17 final size:17
Alignment explanation
Indices: 102652--102684 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
102642 ACTAAATATT
*
102652 TAATTATTTGATACTAG
1 TAATGATTTGATACTAG
102669 TAATGATTTGATACTA
1 TAATGATTTGATACTA
102685 AAAATCATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (17 bp):
TAATGATTTGATACTAG
Found at i:102677 original size:25 final size:23
Alignment explanation
Indices: 102598--102677 Score: 67
Period size: 24 Copynumber: 3.3 Consensus size: 23
102588 GATTTATTGT
102598 TAATATTTAATTATTTGATAC--
1 TAATATTTAATTATTTGATACTA
* *
102619 TAATGATTTAAAATAGTTGATTTACTA
1 TAAT-ATTT-AATTATTTGA--TACTA
102646 -AATATTTAATTATTTGATACTA
1 TAATATTTAATTATTTGATACTA
102668 GTAATGATTT
1 -TAAT-ATTT
102678 GATACTAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
21 4 0.09
22 9 0.20
23 8 0.17
24 11 0.24
25 11 0.24
26 3 0.07
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.49
Consensus pattern (23 bp):
TAATATTTAATTATTTGATACTA
Found at i:104858 original size:15 final size:14
Alignment explanation
Indices: 104835--104865 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
104825 TACAACACTA
104835 AACTTTAATATAAT
1 AACTTTAATATAAT
104849 AACTTATAATATAAT
1 AACTT-TAATATAAT
104864 AA
1 AA
104866 ACTAACAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (14 bp):
AACTTTAATATAAT
Found at i:105142 original size:46 final size:47
Alignment explanation
Indices: 105041--105143 Score: 131
Period size: 46 Copynumber: 2.2 Consensus size: 47
105031 CAACAAACAA
* *
105041 ATATAACTTAACTATTTAACTAACACAAACTAATTAAATAATTTTTTT
1 ATATAAC-TAACTATTTAACTAAAACAAACTAATTAAATAATTTTTTC
*
105089 ATATAACTAACTA-TTAAC-AAAACAAACTAATT-AATTATTTTTTAAC
1 ATATAACTAACTATTTAACTAAAACAAACTAATTAAATAATTTTTT--C
105135 ATATAACTA
1 ATATAACTA
105144 TCAAACATAT
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
44 10 0.20
45 13 0.26
46 14 0.28
47 6 0.12
48 7 0.14
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.39
Consensus pattern (47 bp):
ATATAACTAACTATTTAACTAAAACAAACTAATTAAATAATTTTTTC
Found at i:105739 original size:29 final size:29
Alignment explanation
Indices: 105706--105809 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
105696 TCGTGAGCTA
**
105706 GGACTACATGGCGACCTACTTGGTCGCCG
1 GGACTACATGGCGACCTACAAGGTCGCCG
*
105735 GGACTACATGGCGGCCTACAAGGTCGCCG
1 GGACTACATGGCGACCTACAAGGTCGCCG
*
105764 GGACTACATGGCGACCTACAAGGTCGCCC
1 GGACTACATGGCGACCTACAAGGTCGCCG
* *
105793 AGACTGCATGGCGACCT
1 GGACTACATGGCGACCT
105810 CTCCATTGGC
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 68 1.00
ACGTcount: A:0.21, C:0.32, G:0.31, T:0.16
Consensus pattern (29 bp):
GGACTACATGGCGACCTACAAGGTCGCCG
Found at i:105830 original size:9 final size:9
Alignment explanation
Indices: 105816--105854 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
105806 ACCTCTCCAT
105816 TGGCTCGTA
1 TGGCTCGTA
105825 TGGCTCGTATA
1 TGGCTCG--TA
*
105836 TGGCTTGTA
1 TGGCTCGTA
105845 TGGCTCGTA
1 TGGCTCGTA
105854 T
1 T
105855 TCGTATGTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
9 18 0.69
11 8 0.31
ACGTcount: A:0.13, C:0.18, G:0.31, T:0.38
Consensus pattern (9 bp):
TGGCTCGTA
Found at i:105845 original size:20 final size:20
Alignment explanation
Indices: 105816--105854 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
105806 ACCTCTCCAT
105816 TGGCTCGTATGGCTCGTATA
1 TGGCTCGTATGGCTCGTATA
*
105836 TGGCTTGTATGGCTCGTAT
1 TGGCTCGTATGGCTCGTAT
105855 TCGTATGTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.18, G:0.31, T:0.38
Consensus pattern (20 bp):
TGGCTCGTATGGCTCGTATA
Found at i:116459 original size:2 final size:2
Alignment explanation
Indices: 116452--116485 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
116442 TGGCGGAGTC
116452 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
116486 GATGGCATGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:116723 original size:21 final size:21
Alignment explanation
Indices: 116697--116748 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
116687 AAAATAAATT
116697 ACTGGAATTTGAATTACTGGA
1 ACTGGAATTTGAATTACTGGA
**
116718 ACTGGAAAATGAATTACTGGA
1 ACTGGAATTTGAATTACTGGA
* *
116739 ATTTGAATTT
1 ACTGGAATTT
116749 TGGAAAATGA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.37, C:0.08, G:0.21, T:0.35
Consensus pattern (21 bp):
ACTGGAATTTGAATTACTGGA
Found at i:116759 original size:14 final size:15
Alignment explanation
Indices: 116718--116763 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
116708 AATTACTGGA
116718 ACTGGAAAATGAATT
1 ACTGGAAAATGAATT
**
116733 ACTGGAATTTGAATT
1 ACTGGAAAATGAATT
*
116748 -TTGGAAAATGAATT
1 ACTGGAAAATGAATT
116762 AC
1 AC
116764 ATTTCTGAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.33
Consensus pattern (15 bp):
ACTGGAAAATGAATT
Found at i:116805 original size:14 final size:14
Alignment explanation
Indices: 116772--116805 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
116762 ACATTTCTGA
*
116772 AAAATATTTTCCGG
1 AAAATGTTTTCCGG
*
116786 AAAATGTTTTCCGT
1 AAAATGTTTTCCGG
116800 AAAATG
1 AAAATG
116806 AATTATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (14 bp):
AAAATGTTTTCCGG
Found at i:117156 original size:23 final size:23
Alignment explanation
Indices: 117107--117169 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
117097 GTGTTATATT
* **
117107 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAATATATTAATTAAA
* *
117130 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAATATATTAATTAAA
117153 ATATTATTTAAATATAT
1 ATA-T-TTTAAATATAT
117170 AAATAATATT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
23 21 0.66
24 1 0.03
25 10 0.31
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTAAATATATTAATTAAA
Found at i:117197 original size:19 final size:20
Alignment explanation
Indices: 117145--117197 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
117135 TTAAATATCT
117145 TTATTAAA-ATATTATTTAA
1 TTATTAAATATATTATTTAA
* *
117164 ATATATAAATAATATTA-TTCA
1 TTAT-TAAAT-ATATTATTTAA
117185 TTATTAAATATAT
1 TTATTAAATATAT
117198 AAAAAAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 7 0.25
20 9 0.32
21 6 0.21
22 6 0.21
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
TTATTAAATATATTATTTAA
Found at i:117198 original size:30 final size:29
Alignment explanation
Indices: 117153--117257 Score: 94
Period size: 29 Copynumber: 3.6 Consensus size: 29
117143 CTTTATTAAA
* *
117153 ATATTATTTAAATATATAAATAA-TATTAT
1 ATATTATTAAAATATA-AAAAAATTATTAT
117182 -TCATTATTAAATATATAAAAAAATTATTAT
1 AT-ATTATTAAA-ATATAAAAAAATTATTAT
117212 ATATTATTAAAATA-AAAATATAA-TATCT-T
1 ATATTATTAAAATATAAAA-A-AATTAT-TAT
*
117241 ATATTATTATAATATAA
1 ATATTATTAAAATATAA
117258 TTGATTATTT
Statistics
Matches: 65, Mismatches: 3, Indels: 15
0.78 0.04 0.18
Matches are distributed among these distances:
28 5 0.08
29 34 0.52
30 25 0.38
31 1 0.02
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (29 bp):
ATATTATTAAAATATAAAAAAATTATTAT
Found at i:117295 original size:22 final size:23
Alignment explanation
Indices: 117270--117313 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
117260 GATTATTTTA
117270 TATAATATTAAAAATA-TAATAT
1 TATAATATTAAAAATATTAATAT
* *
117292 TATATTATTATAAATATTAATA
1 TATAATATTAAAAATATTAATA
117314 AATAAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATATTAAAAATATTAATAT
Found at i:117313 original size:59 final size:58
Alignment explanation
Indices: 117153--117315 Score: 146
Period size: 54 Copynumber: 2.9 Consensus size: 58
117143 CTTTATTAAA
* * * *
117153 ATATTATTTAAATATATAA-ATAATATTAT-TCATTATTAAATATATAAAAAAATTATTAT
1 ATATTATTAAAATA-AAAATATAATATTATATTATTA-TAAATAT-TAATAAAATTATTAT
**
117212 ATATTATTAAAATAAAAATATAATATCTTATATTATTAT-AATA-TAAT-TGATTATT-T
1 ATATTATTAAAATAAAAATATAATA--TTATATTATTATAAATATTAATAAAATTATTAT
*
117268 -TA-TA-TAATATTAAAAATATAATATTATATTATTATAAATATTAATAAA
1 ATATTATTAA-AATAAAAATATAATATTATATTATTATAAATATTAATAAA
117316 TAAAAAAATA
Statistics
Matches: 87, Mismatches: 9, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
52 12 0.14
53 7 0.08
54 20 0.23
55 2 0.02
56 1 0.01
57 6 0.07
58 6 0.07
59 19 0.22
60 4 0.05
61 5 0.06
62 5 0.06
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (58 bp):
ATATTATTAAAATAAAAATATAATATTATATTATTATAAATATTAATAAAATTATTAT
Found at i:117600 original size:42 final size:43
Alignment explanation
Indices: 117507--117616 Score: 177
Period size: 42 Copynumber: 2.6 Consensus size: 43
117497 TACATTTCGG
* *
117507 AAAACCAATTACGTGAAACAAACACGGGAAAAACATTTTTCAA
1 AAAACAAATTACGTGAAACAAACACGAGAAAAACATTTTTCAA
*
117550 AAAACAAATTACGTGAAACAAACACGAG-AAAATATTTTTCAA
1 AAAACAAATTACGTGAAACAAACACGAGAAAAACATTTTTCAA
*
117592 AAAACAAATTACGTAAAACAAACAC
1 AAAACAAATTACGTGAAACAAACAC
117617 AAAAATTCAA
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
42 37 0.59
43 26 0.41
ACGTcount: A:0.55, C:0.17, G:0.09, T:0.18
Consensus pattern (43 bp):
AAAACAAATTACGTGAAACAAACACGAGAAAAACATTTTTCAA
Found at i:125949 original size:37 final size:36
Alignment explanation
Indices: 125890--126007 Score: 161
Period size: 37 Copynumber: 3.3 Consensus size: 36
125880 ATCACATTAT
* *
125890 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAAAAAACATTTACCAAACTTTG-AAAAC
*
125926 TATTTTTCAAAAAAACATTTACCAAACTTT-AAAAC
1 CATTTTTCAAAAAAACATTTACCAAACTTTGAAAAC
*
125961 CA-TTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAAAAACATTTACCAAACTTTGAAAAC
125996 CATTTTTTCAAA
1 CA-TTTTTCAAA
126008 GTTGGTTACC
Statistics
Matches: 73, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
34 26 0.36
35 13 0.18
36 7 0.10
37 27 0.37
ACGTcount: A:0.45, C:0.20, G:0.03, T:0.32
Consensus pattern (36 bp):
CATTTTTCAAAAAAACATTTACCAAACTTTGAAAAC
Found at i:125995 original size:35 final size:35
Alignment explanation
Indices: 125893--126001 Score: 150
Period size: 34 Copynumber: 3.1 Consensus size: 35
125883 ACATTATCAT
* * *
125893 TTTTC-AACAAACATCTACCAAACTTTGAAAAACTA
1 TTTTCAAAAAAACATTTACCAAACTTTG-AAAACCA
125928 TTTTTCAAAAAAACATTTACCAAACTTT-AAAACCA
1 -TTTTCAAAAAAACATTTACCAAACTTTGAAAACCA
*
125963 TTTTCAAAGAAACATTTACCAAACTTTGAAAACCA
1 TTTTCAAAAAAACATTTACCAAACTTTGAAAACCA
125998 TTTT
1 TTTT
126002 TTCAAAGTTG
Statistics
Matches: 67, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
34 26 0.39
35 17 0.25
36 5 0.07
37 19 0.28
ACGTcount: A:0.45, C:0.20, G:0.03, T:0.32
Consensus pattern (35 bp):
TTTTCAAAAAAACATTTACCAAACTTTGAAAACCA
Found at i:130574 original size:32 final size:33
Alignment explanation
Indices: 130483--130626 Score: 152
Period size: 32 Copynumber: 4.2 Consensus size: 33
130473 TTATCCCATT
*
130483 ATCATTTTTCAAA-CATCTACCAAACTTTGAAA
1 ATCATTTTTCAAAGCATTTACCAAACTTTGAAA
*
130515 AACTATTTTTCAAAGAAAACATTTACCAAACTTTGAAA
1 ATC-ATTTTTCAAAG----CATTTACCAAACTTTGAAA
130553 ATCA-TTTTCAAAGCATTTACCAAACTTTGAAA
1 ATCATTTTTCAAAGCATTTACCAAACTTTGAAA
* *
130585 ACCATTTTTTCAAAG-GTGGTTACCAAAC-TTGAAA
1 ATCA-TTTTTCAAAGCAT--TTACCAAACTTTGAAA
130619 ATCATTTT
1 ATCATTTT
130627 AATACTTTCA
Statistics
Matches: 96, Mismatches: 6, Indels: 19
0.79 0.05 0.16
Matches are distributed among these distances:
32 24 0.25
33 15 0.16
34 18 0.19
35 9 0.09
36 9 0.09
37 1 0.01
38 20 0.21
ACGTcount: A:0.40, C:0.18, G:0.07, T:0.35
Consensus pattern (33 bp):
ATCATTTTTCAAAGCATTTACCAAACTTTGAAA
Done.