Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 312 of 316
Found at i:102238642 original size:35 final size:34
Alignment explanation
Indices: 102238603--102238708 Score: 126
Period size: 34 Copynumber: 3.1 Consensus size: 34
102238593 AGTAATGAAT
*
102238603 GTCTTGCTCCCGCAA-ATGGAGGAAGGCTTACGGAG
1 GTCTTGCTCCC-AAACATGG-GGAAGGCTTACGGAG
*
102238638 GTCTTGGTCCCAAACATGGGGAA-GCTTACGGGAG
1 GTCTTGCTCCCAAACATGGGGAAGGCTTAC-GGAG
* *
102238672 GTCCTGCTCCCAAACATAGGGAAGGCTTACGAGAG
1 GTCTTGCTCCCAAACATGGGGAAGGCTTACG-GAG
102238707 GT
1 GT
102238709 ATCATATGTT
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
33 6 0.10
34 31 0.50
35 25 0.40
ACGTcount: A:0.25, C:0.23, G:0.33, T:0.20
Consensus pattern (34 bp):
GTCTTGCTCCCAAACATGGGGAAGGCTTACGGAG
Found at i:102244058 original size:21 final size:21
Alignment explanation
Indices: 102244034--102244078 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
102244024 TAGCAATAAC
102244034 AAAGGGGAGTCAAATACCATG
1 AAAGGGGAGTCAAATACCATG
** **
102244055 AAAGTTGCTTCAAATACCATG
1 AAAGGGGAGTCAAATACCATG
102244076 AAA
1 AAA
102244079 CCTGCAAGGC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.20
Consensus pattern (21 bp):
AAAGGGGAGTCAAATACCATG
Found at i:102254920 original size:23 final size:23
Alignment explanation
Indices: 102254875--102254920 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
102254865 TTTGTTTCCT
* * *
102254875 TTTGCCTTCTCTTTTGCTGGAAA
1 TTTGCCTTCTCGTTTGATAGAAA
*
102254898 TTTGTCTTCTCGTTTGATAGAAA
1 TTTGCCTTCTCGTTTGATAGAAA
102254921 ATGCCTCTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.48
Consensus pattern (23 bp):
TTTGCCTTCTCGTTTGATAGAAA
Found at i:102260199 original size:21 final size:22
Alignment explanation
Indices: 102260170--102260216 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
102260160 CAGAAGGAGT
*
102260170 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
102260192 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
102260213 GAGT
1 GAGT
102260217 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:102268547 original size:7 final size:7
Alignment explanation
Indices: 102268525--102268586 Score: 58
Period size: 7 Copynumber: 8.9 Consensus size: 7
102268515 AACCCAATCT
102268525 TTATTT-
1 TTATTTA
102268531 TTATTT-
1 TTATTTA
102268537 TTATTTA
1 TTATTTA
102268544 TTATTT-
1 TTATTTA
**
102268550 TCCTTTA
1 TTATTTA
102268557 TTTTATTTTA
1 --TTA-TTTA
102268567 TTATTTA
1 TTATTTA
102268574 TTATTTA
1 TTATTTA
102268581 TTATTT
1 TTATTT
102268587 TATTTTATTT
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
6 16 0.34
7 23 0.49
8 3 0.06
9 1 0.02
10 4 0.09
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (7 bp):
TTATTTA
Found at i:102268574 original size:27 final size:27
Alignment explanation
Indices: 102268522--102268596 Score: 84
Period size: 27 Copynumber: 2.7 Consensus size: 27
102268512 GGCAACCCAA
102268522 TCTTTATTTTTATTTTTATTTATTATT-T
1 TCTTTA-TTTTA-TTTTATTTATTATTAT
102268550 TCCTTTATTTTATTTTA-TTATTTATTAT
1 T-CTTTATTTTATTTTATTTA-TTATTAT
102268578 T-TATTATTTTATTTTATTT
1 TCT-TTATTTTATTTTATTT
102268597 TAGTTAAATA
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
26 4 0.10
27 23 0.55
28 10 0.24
29 5 0.12
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (27 bp):
TCTTTATTTTATTTTATTTATTATTAT
Found at i:102268587 original size:37 final size:34
Alignment explanation
Indices: 102268524--102268598 Score: 105
Period size: 37 Copynumber: 2.1 Consensus size: 34
102268514 CAACCCAATC
*
102268524 TTTATTTTTATTTTTATTTATTATTTTCCTTTAT
1 TTTATTTTTATTTTTATTTATTATTTTACTTTAT
*
102268558 TTTATTTTATTATTTATTATTTATTATTTTATTTTAT
1 TTTA-TTT-TTATTT-TTATTTATTATTTTACTTTAT
102268595 TTTA
1 TTTA
102268599 GTTAAATATT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
34 4 0.11
35 3 0.08
36 6 0.17
37 23 0.64
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (34 bp):
TTTATTTTTATTTTTATTTATTATTTTACTTTAT
Found at i:102268597 original size:10 final size:10
Alignment explanation
Indices: 102268524--102268598 Score: 53
Period size: 10 Copynumber: 6.9 Consensus size: 10
102268514 CAACCCAATC
102268524 TTTATTTTTATT
1 TTTA-TTTTA-T
102268536 TTTATTTATTAT
1 TTTA-TT-TTAT
**
102268548 TTTCCTTTAT
1 TTTATTTTAT
102268558 TTTATTTTATT
1 TTTATTTTA-T
102268569 ATTTATTATT-T
1 -TTTATT-TTAT
*
102268580 ATTATTTTAT
1 TTTATTTTAT
102268590 TTTATTTTA
1 TTTATTTTA
102268599 GTTAAATATT
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
9 2 0.04
10 25 0.48
11 3 0.06
12 17 0.33
13 5 0.10
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTATTTTAT
Found at i:102268753 original size:42 final size:42
Alignment explanation
Indices: 102268705--102268809 Score: 129
Period size: 42 Copynumber: 2.5 Consensus size: 42
102268695 ATCCATGGTA
* * * **
102268705 CCAAACAGTTCTATTCCGGCCCAGAATGCCATATCCCTGCTT
1 CCAAACAGTTCTATTCCAGCCCAAAATACCATATCCCTGCAG
* *
102268747 CCAAACAGTTCTATTCCAGCCCAAAATATCATATCTCTGCAG
1 CCAAACAGTTCTATTCCAGCCCAAAATACCATATCCCTGCAG
* *
102268789 CCAAACAGTCCTATTTCAGCC
1 CCAAACAGTTCTATTCCAGCC
102268810 TTAGAATCCC
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.29, C:0.34, G:0.11, T:0.26
Consensus pattern (42 bp):
CCAAACAGTTCTATTCCAGCCCAAAATACCATATCCCTGCAG
Found at i:102276625 original size:44 final size:44
Alignment explanation
Indices: 102276558--102276641 Score: 150
Period size: 44 Copynumber: 1.9 Consensus size: 44
102276548 ATGAATTAAC
102276558 TCGGTCCAATGTATAACACTAACAACATATATAATTGCTCCAAG
1 TCGGTCCAATGTATAACACTAACAACATATATAATTGCTCCAAG
* *
102276602 TCGGTCCAATGTATAGCATTAACAACATATATAATTGCTC
1 TCGGTCCAATGTATAACACTAACAACATATATAATTGCTC
102276642 AAACTCGATC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (44 bp):
TCGGTCCAATGTATAACACTAACAACATATATAATTGCTCCAAG
Found at i:102277840 original size:18 final size:19
Alignment explanation
Indices: 102277817--102277853 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
102277807 TTTAAATCTC
*
102277817 AATTTTG-ATTAAATAAAT
1 AATTTTGAATTAAAAAAAT
102277835 AATTTTGAATTAAAAAAAT
1 AATTTTGAATTAAAAAAAT
102277854 GGTATATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (19 bp):
AATTTTGAATTAAAAAAAT
Found at i:102278588 original size:13 final size:13
Alignment explanation
Indices: 102278570--102278594 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
102278560 ATATAAAATT
102278570 TATTTTATATTTA
1 TATTTTATATTTA
102278583 TATTTTATATTT
1 TATTTTATATTT
102278595 CGAAAATATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TATTTTATATTTA
Found at i:102279473 original size:23 final size:23
Alignment explanation
Indices: 102279429--102279473 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
102279419 TTATATCATG
* * *
102279429 TAAATATTAAATATATTATAATA
1 TAAATATTAAAAAAATGATAATA
*
102279452 TAAATATTAAAAAAATGCTAAT
1 TAAATATTAAAAAAATGATAAT
102279474 TACTTTATTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (23 bp):
TAAATATTAAAAAAATGATAATA
Found at i:102279504 original size:13 final size:13
Alignment explanation
Indices: 102279486--102279520 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
102279476 CTTTATTTTT
102279486 AAAAATTTAATAA
1 AAAAATTTAATAA
*
102279499 AAAAATATAATAA
1 AAAAATTTAATAA
*
102279512 AATAATTTA
1 AAAAATTTA
102279521 TATATAATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAAATTTAATAA
Found at i:102288961 original size:19 final size:20
Alignment explanation
Indices: 102288920--102288969 Score: 75
Period size: 19 Copynumber: 2.5 Consensus size: 20
102288910 ATGGAAGTAT
*
102288920 GAATTTAAATTTTTACATTG
1 GAATTTAAATTATTACATTG
*
102288940 GAATTTAAATTATTA-TTTG
1 GAATTTAAATTATTACATTG
102288959 GAATTTAAATT
1 GAATTTAAATT
102288970 TGTTTATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (20 bp):
GAATTTAAATTATTACATTG
Found at i:102299609 original size:16 final size:16
Alignment explanation
Indices: 102299590--102299631 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
102299580 AGTTTATACT
102299590 ATTTTAAATTCGAGTC
1 ATTTTAAATTCGAGTC
* *
102299606 ATTTCAAA-TCGATTC
1 ATTTTAAATTCGAGTC
102299621 ATATTTAAATT
1 AT-TTTAAATT
102299632 GACAATTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
15 8 0.38
16 12 0.57
17 1 0.05
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (16 bp):
ATTTTAAATTCGAGTC
Found at i:102301786 original size:18 final size:20
Alignment explanation
Indices: 102301753--102301794 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
102301743 GAAAGAAAAT
102301753 CAAACCTTTTTATTTTACAC
1 CAAACCTTTTTATTTTACAC
*
102301773 CAAA-CTTTTT-TTTTAGAC
1 CAAACCTTTTTATTTTACAC
102301791 CAAA
1 CAAA
102301795 ATTTGTAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.52
19 6 0.29
20 4 0.19
ACGTcount: A:0.33, C:0.21, G:0.02, T:0.43
Consensus pattern (20 bp):
CAAACCTTTTTATTTTACAC
Found at i:102306935 original size:15 final size:15
Alignment explanation
Indices: 102306912--102306959 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
102306902 TATCAAATTT
102306912 ATATTGATTGAAATC
1 ATATTGATTGAAATC
* *
102306927 ATTTTGATT-AAATTT
1 ATATTGATTGAAA-TC
102306942 ATATTGATTGAAAT-
1 ATATTGATTGAAATC
102306956 ATAT
1 ATAT
102306960 ATTATATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 7 0.25
15 18 0.64
16 3 0.11
ACGTcount: A:0.40, C:0.02, G:0.10, T:0.48
Consensus pattern (15 bp):
ATATTGATTGAAATC
Found at i:102307613 original size:18 final size:19
Alignment explanation
Indices: 102307592--102307632 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
102307582 AATGAAATGA
102307592 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
102307610 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
102307629 GAAA
1 GAAA
102307633 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:102310112 original size:84 final size:82
Alignment explanation
Indices: 102309971--102310134 Score: 292
Period size: 84 Copynumber: 2.0 Consensus size: 82
102309961 ATGGTGTGCT
102309971 GCATACATCTCGTGTTGATGTACAAGGACCACTTTTGAATAGTATATTTGCATGAGTTTTTTTTA
1 GCATACATCTCGTGTTGATGTACAAGGACCACTTTTGAATAGTATATTTGCATGAGTTTTTTTT-
102310036 AAAAAAAGAACTAATTTCC
65 AAAAAAA-AACTAATTTCC
* *
102310055 GCATACATCTCGTGTTGATGTACAGGGACCACTTTTGAATAGTATCTTTGCATGAGTTTTTTTTA
1 GCATACATCTCGTGTTGATGTACAAGGACCACTTTTGAATAGTATATTTGCATGAGTTTTTTTTA
102310120 AAAAAAAACTAATTT
66 AAAAAAAACTAATTT
102310135 ACTCTTTGAT
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
82 9 0.12
83 7 0.09
84 62 0.79
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (82 bp):
GCATACATCTCGTGTTGATGTACAAGGACCACTTTTGAATAGTATATTTGCATGAGTTTTTTTTA
AAAAAAAACTAATTTCC
Found at i:102337360 original size:18 final size:19
Alignment explanation
Indices: 102337339--102337379 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
102337329 AATGAAATGA
102337339 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
102337357 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
102337376 GAAA
1 GAAA
102337380 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:102339767 original size:83 final size:79
Alignment explanation
Indices: 102339626--102339782 Score: 251
Period size: 83 Copynumber: 1.9 Consensus size: 79
102339616 CATGTGTGCT
102339626 GCATACTCTCGTGTTGTGTACAAGGACCACTTTTGAATAGTATATTTGCATGAGTTTTTTTTTTA
1 GCATACTCTCGTGTTGTGTACAAGGACCACTTTTGAATAGTATATTTGCATGAG--TTTTTTTTA
*
102339691 AAAAAAGACTATTTCC
64 AAAAAAAACTATTTCC
* *
102339707 GCATACATCTCGTGTTGATGTACAGGGACCACTTTTGAATAGTATCTTTGCATGAGTTTTTTTTA
1 GCATAC-TCTCGTGTTG-TGTACAAGGACCACTTTTGAATAGTATATTTGCATGAGTTTTTTTTA
102339772 AAAAAAAACTA
64 AAAAAAAACTA
102339783 ATTTACTCTT
Statistics
Matches: 71, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
81 25 0.35
82 10 0.14
83 36 0.51
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.39
Consensus pattern (79 bp):
GCATACTCTCGTGTTGTGTACAAGGACCACTTTTGAATAGTATATTTGCATGAGTTTTTTTTAAA
AAAAAACTATTTCC
Found at i:102355989 original size:22 final size:23
Alignment explanation
Indices: 102355951--102355995 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
102355941 ATTAATTTTT
*
102355951 TATTTTTATGATGTAAAAATAAA
1 TATTTTTATGATCTAAAAATAAA
*
102355974 TATTTTTAT-ATCTAAAATTAAA
1 TATTTTTATGATCTAAAAATAAA
102355996 AATAAACTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (23 bp):
TATTTTTATGATCTAAAAATAAA
Found at i:102358383 original size:29 final size:29
Alignment explanation
Indices: 102358341--102358400 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
102358331 GCTCCAAGCG
102358341 TTGTCATCAACCCTGTTTACCTTTCAATT
1 TTGTCATCAACCCTGTTTACCTTTCAATT
102358370 TTGTCATCAACCCTGTTTACCTTTCAATT
1 TTGTCATCAACCCTGTTTACCTTTCAATT
102358399 TT
1 TT
102358401 CTTTCTGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.20, C:0.27, G:0.07, T:0.47
Consensus pattern (29 bp):
TTGTCATCAACCCTGTTTACCTTTCAATT
Found at i:102367604 original size:31 final size:29
Alignment explanation
Indices: 102367564--102367624 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 29
102367554 CAAAATCTAT
*
102367564 AAAATTAATGTTTCTTACAATAGTTGACATTC
1 AAAATTAATGCTTCTTAC---AGTTGACATTC
102367596 AAAA-TAATGCTTCTTACAGTTGACATTC
1 AAAATTAATGCTTCTTACAGTTGACATTC
102367624 A
1 A
102367625 TTTATTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 12 0.43
31 12 0.43
32 4 0.14
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (29 bp):
AAAATTAATGCTTCTTACAGTTGACATTC
Found at i:102373365 original size:26 final size:26
Alignment explanation
Indices: 102373329--102373392 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
102373319 ACATATTTTC
*
102373329 TCAAAATTTTATCAATGG-CAAAATCG
1 TCAAAATTTTA-CAAGGGACAAAATCG
* *
102373355 TCAAAATTTTACTAGGGATAAAATCG
1 TCAAAATTTTACAAGGGACAAAATCG
102373381 TCAAAATTTTAC
1 TCAAAATTTTAC
102373393 TGCAGGTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 4 0.12
26 30 0.88
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.33
Consensus pattern (26 bp):
TCAAAATTTTACAAGGGACAAAATCG
Found at i:102374657 original size:21 final size:22
Alignment explanation
Indices: 102374611--102374656 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
102374601 TTTAATATTG
102374611 TTTT-TTATTTTGATCTTAATT
1 TTTTATTATTTTGATCTTAATT
102374632 TTTTATTATTTTGATCTTAATT
1 TTTTATTATTTTGATCTTAATT
102374654 TTT
1 TTT
102374657 AAAATTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.72
Consensus pattern (22 bp):
TTTTATTATTTTGATCTTAATT
Found at i:102374663 original size:21 final size:22
Alignment explanation
Indices: 102374617--102374664 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
102374607 ATTGTTTTTT
**
102374617 ATTTTGATCTTAATTTTTTATT
1 ATTTTGATCTTAATTTTTTAAA
102374639 ATTTTGATCTTAA-TTTTTAAA
1 ATTTTGATCTTAATTTTTTAAA
102374660 ATTTT
1 ATTTT
102374665 AATTAAAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (22 bp):
ATTTTGATCTTAATTTTTTAAA
Found at i:102376136 original size:11 final size:11
Alignment explanation
Indices: 102376122--102376168 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
102376112 ATATCCAAAT
*
102376122 AATAACAACAA
1 AATAACAGCAA
*
102376133 AATAA-TGCAA
1 AATAACAGCAA
*
102376143 AATAACAGTAA
1 AATAACAGCAA
*
102376154 AATGACAGCAA
1 AATAACAGCAA
102376165 AATA
1 AATA
102376169 GTGGAAAAAC
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
10 8 0.29
11 20 0.71
ACGTcount: A:0.64, C:0.13, G:0.09, T:0.15
Consensus pattern (11 bp):
AATAACAGCAA
Found at i:102383927 original size:25 final size:25
Alignment explanation
Indices: 102383898--102383957 Score: 120
Period size: 25 Copynumber: 2.4 Consensus size: 25
102383888 TGGTCCTTTT
102383898 ATTAAAAATTCCATCCATTTTTACA
1 ATTAAAAATTCCATCCATTTTTACA
102383923 ATTAAAAATTCCATCCATTTTTACA
1 ATTAAAAATTCCATCCATTTTTACA
102383948 ATTAAAAATT
1 ATTAAAAATT
102383958 GGTCCCTGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (25 bp):
ATTAAAAATTCCATCCATTTTTACA
Found at i:102391400 original size:5 final size:5
Alignment explanation
Indices: 102391390--102391417 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
102391380 CTGTTTGGAT
102391390 GAAAA GAAAA GAAAA GAAAA GAAAA GAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA GAA
102391418 TTTGATTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:102392519 original size:21 final size:20
Alignment explanation
Indices: 102392461--102392526 Score: 78
Period size: 21 Copynumber: 3.2 Consensus size: 20
102392451 TTATCAAATG
102392461 TATATAAAAATTAAAATATA
1 TATATAAAAATTAAAATATA
* ** *
102392481 TATATAAAGTATGGAAATAAA
1 TATATAAA-AATTAAAATATA
102392502 TATATAAAAATTCAAAATATA
1 TATATAAAAATT-AAAATATA
102392523 TATA
1 TATA
102392527 ATCAAGAAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
20 10 0.28
21 26 0.72
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.33
Consensus pattern (20 bp):
TATATAAAAATTAAAATATA
Found at i:102392541 original size:42 final size:41
Alignment explanation
Indices: 102392461--102392541 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 41
102392451 TTATCAAATG
***
102392461 TATATAAAAATTAAAATATATATATAAAGTATGGAAATAAA
1 TATATAAAAATTAAAATATATATATAAAGTAAAAAAATAAA
*
102392502 TATATAAAAATTCAAAATATATATAATCAAG-AAAAAAATA
1 TATATAAAAATT-AAAATATATAT-ATAAAGTAAAAAAATA
102392542 TAACTCATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 12 0.35
42 17 0.50
43 5 0.15
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (41 bp):
TATATAAAAATTAAAATATATATATAAAGTAAAAAAATAAA
Found at i:102392652 original size:19 final size:19
Alignment explanation
Indices: 102392624--102392661 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
102392614 AATATGAAAA
*
102392624 AAAAACTTGTAACTATTAT
1 AAAAACTTGTAAATATTAT
*
102392643 AAAAATTTGTAAATATTAT
1 AAAAACTTGTAAATATTAT
102392662 TTTAAATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.39
Consensus pattern (19 bp):
AAAAACTTGTAAATATTAT
Found at i:102392688 original size:20 final size:20
Alignment explanation
Indices: 102392624--102392689 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
102392614 AATATGAAAA
* *
102392624 AAAAACTTGTAACTATTA-T
1 AAAAATTTGTAAATATTATT
102392643 AAAAATTTGTAAATATTATT
1 AAAAATTTGTAAATATTATT
** * *
102392663 TTAAATTTTTAAATTTTATT
1 AAAAATTTGTAAATATTATT
102392683 AAAAATT
1 AAAAATT
102392690 ATAAAAATAA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 16 0.42
20 22 0.58
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (20 bp):
AAAAATTTGTAAATATTATT
Found at i:102392883 original size:23 final size:23
Alignment explanation
Indices: 102392857--102392900 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
102392847 AAAATTTATA
* *
102392857 TTTTAATTAAAAA-TTGTTATTT
1 TTTTTATTAAAAACGTGTTATTT
*
102392879 TTTTTGTTAAAAACGTGTTATT
1 TTTTTATTAAAAACGTGTTATT
102392901 AATAATATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (23 bp):
TTTTTATTAAAAACGTGTTATTT
Found at i:102393238 original size:37 final size:36
Alignment explanation
Indices: 102393161--102393235 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
102393151 CAGAGGCAAC
102393161 TTTACGCCCTAGCTCCTTAAAATAAAAAATTATTGT
1 TTTACGCCCTAGCTCCTTAAAATAAAAAATTATTGT
*
102393197 TTTACGCCCTAGTTCCTTAAAATAAAAAATTATTGT
1 TTTACGCCCTAGCTCCTTAAAATAAAAAATTATTGT
102393233 TTT
1 TTT
102393236 TACCATTTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.35, C:0.17, G:0.08, T:0.40
Consensus pattern (36 bp):
TTTACGCCCTAGCTCCTTAAAATAAAAAATTATTGT
Found at i:102394727 original size:14 final size:13
Alignment explanation
Indices: 102394690--102394728 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
102394680 TTAACATATA
102394690 TAATTAATATAAT
1 TAATTAATATAAT
**
102394703 TAATTTTTATAACT
1 TAATTAATATAA-T
102394717 TAATTAATATAA
1 TAATTAATATAA
102394729 ATATATATAG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (13 bp):
TAATTAATATAAT
Found at i:102398177 original size:17 final size:17
Alignment explanation
Indices: 102398155--102398189 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
102398145 CGAGCTTGTG
102398155 TTAGTCTAACTAGACTC
1 TTAGTCTAACTAGACTC
102398172 TTAGTCTAACTAGACTC
1 TTAGTCTAACTAGACTC
102398189 T
1 T
102398190 CCAATTGTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (17 bp):
TTAGTCTAACTAGACTC
Found at i:102413077 original size:11 final size:12
Alignment explanation
Indices: 102413063--102413091 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
102413053 TTATTAATGG
102413063 TGAATG-ATATT
1 TGAATGAATATT
102413074 TGAATGAATATT
1 TGAATGAATATT
102413086 TGAATG
1 TGAATG
102413092 TTCTTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (12 bp):
TGAATGAATATT
Found at i:102416547 original size:12 final size:12
Alignment explanation
Indices: 102416532--102416615 Score: 80
Period size: 12 Copynumber: 6.8 Consensus size: 12
102416522 AGGTATAAAT
*
102416532 ATAATGATAGTA
1 ATAATAATAGTA
102416544 ATAATAATAGTA
1 ATAATAATAGTA
* *
102416556 GTAATAATACTA
1 ATAATAATAGTA
*
102416568 ACAATAATAGTAAA
1 ATAATAATAGT--A
102416582 GATAATAATAGTAA
1 -ATAATAATAGT-A
*
102416596 ATAATAATAATA
1 ATAATAATAGTA
102416608 ATAA-AATA
1 ATAATAATA
102416616 AACAAAATAA
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
11 4 0.07
12 34 0.56
13 10 0.16
14 3 0.05
15 10 0.16
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.30
Consensus pattern (12 bp):
ATAATAATAGTA
Found at i:102416628 original size:3 final size:3
Alignment explanation
Indices: 102416532--102416616 Score: 66
Period size: 3 Copynumber: 28.3 Consensus size: 3
102416522 AGGTATAAAT
* * * * * * *
102416532 ATA ATG ATA GTA ATA ATA ATA GTA GTA ATA ATA CTA ACA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
102416580 A-A GATA ATA ATA GTAA ATA ATA ATA ATA ATA A-A ATA A
1 ATA -ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA A
102416617 ACAAAATAAT
Statistics
Matches: 64, Mismatches: 14, Indels: 8
0.74 0.16 0.09
Matches are distributed among these distances:
2 3 0.05
3 58 0.91
4 3 0.05
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:102434830 original size:42 final size:42
Alignment explanation
Indices: 102434771--102434854 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
102434761 GGTCCTTATA
102434771 CTTTTTTGCGCATTTTGAGTTTAGCCTTTGTACTTTTATTTT
1 CTTTTTTGCGCATTTTGAGTTTAGCCTTTGTACTTTTATTTT
*
102434813 CTTTTTTGCGCATTTTGAGTTTAGTCTTTGTACTTTTATTTT
1 CTTTTTTGCGCATTTTGAGTTTAGCCTTTGTACTTTTATTTT
102434855 GAAAAACAAG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.12, C:0.13, G:0.14, T:0.61
Consensus pattern (42 bp):
CTTTTTTGCGCATTTTGAGTTTAGCCTTTGTACTTTTATTTT
Found at i:102442652 original size:17 final size:19
Alignment explanation
Indices: 102442614--102442652 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
102442604 TTTATACATA
*
102442614 TTAAATTACACTTATCATT
1 TTAAATTACACTTATCAAT
102442633 TTAAATTA-AC-TATCAAT
1 TTAAATTACACTTATCAAT
102442650 TTA
1 TTA
102442653 TTATTATTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 2 0.11
19 8 0.42
ACGTcount: A:0.41, C:0.13, G:0.00, T:0.46
Consensus pattern (19 bp):
TTAAATTACACTTATCAAT
Found at i:102450006 original size:32 final size:31
Alignment explanation
Indices: 102449958--102450039 Score: 84
Period size: 31 Copynumber: 2.7 Consensus size: 31
102449948 ATAAATCTAA
*
102449958 AAATT-ATATATG-AACTTTTATT-CAATTTAC
1 AAATTGATACATGAAACTTTTATTGCAA-TT-C
*
102449988 AAATTGATACATGAAACTTTGATTGCAATTC
1 AAATTGATACATGAAACTTTTATTGCAATTC
102450019 AAA-TGTATACATGAAA-TTTTA
1 AAATTG-ATACATGAAACTTTTA
102450040 ATTTTGATAT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
30 11 0.24
31 20 0.44
32 11 0.24
33 3 0.07
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (31 bp):
AAATTGATACATGAAACTTTTATTGCAATTC
Found at i:102451330 original size:21 final size:22
Alignment explanation
Indices: 102451304--102451344 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
102451294 ATGGGTTTTC
102451304 AGTTTAGATTTATTT-GATTTA
1 AGTTTAGATTTATTTCGATTTA
102451325 AGTTTAGATTTATTTCGATT
1 AGTTTAGATTTATTTCGATT
102451345 ATCCCATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.27, C:0.02, G:0.15, T:0.56
Consensus pattern (22 bp):
AGTTTAGATTTATTTCGATTTA
Found at i:102454402 original size:3 final size:3
Alignment explanation
Indices: 102454384--102454434 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
102454374 TTAAATATCC
* * * * *
102454384 TTA TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA CTA TTA TTA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
102454431 TTA T
1 TTA T
102454435 GTACTAGTGT
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:102454566 original size:3 final size:3
Alignment explanation
Indices: 102454558--102454584 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
102454548 TATTCCAATG
102454558 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
102454585 GTTTATGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:102466813 original size:132 final size:132
Alignment explanation
Indices: 102466572--102467861 Score: 2190
Period size: 132 Copynumber: 9.8 Consensus size: 132
102466562 AAGGAACATA
* * *
102466572 TCCTATCTTCCTATATTAGTAGGAAGTGGATCAAATATGCAGATCTTGTCTTCCCATA-TGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGG
* * * *
102466636 CGAAGTAGATCACAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTA
66 CGAAGTAGATCGCAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
102466701 GG
131 GG
* * * * *
102466703 TCTTGTCTTCCTATATTGGTAGGAAGTAGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGG
*
102466768 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
66 CGAAGTAGATCGCAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
102466833 GG
131 GG
* * *
102466835 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGACGACGCAGATCTTGTCTTCCTATACTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGG
102466900 CGAAGTAGATCGCAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
66 CGAAGTAGATCGCAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
102466965 GG
131 GG
*
102466967 TCCTATCTTCCTATATTGGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATACTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGG
102467032 CGAAGTAGATCGCAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
66 CGAAGTAGATCGCAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
102467097 GG
131 GG
* * * *
102467099 TCCTATCTTTCTATATTGGTAAGAAGTGGATCGAAGACGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGG
* * * *
102467164 CGAAGTAGATCACAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTA
66 CGAAGTAGATCGCAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
102467229 GG
131 GG
* * * *
102467231 TCTTGTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGG
*
102467296 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
66 CGAAGTAGATCGCAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
102467361 GG
131 GG
* *
102467363 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGACGACGCAGATCTTGTCTTCCCATACTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGG
102467428 CGAAGTAGATCGCAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
66 CGAAGTAGATCGCAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
102467493 GG
131 GG
*
102467495 TCCTATCTTCCTATATTGGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATACTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGG
102467560 CGAAGTAGATCGCAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
66 CGAAGTAGATCGCAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
102467625 GG
131 GG
* * *
102467627 TCCTATCTTTCTATATTGGTAAGAAGTGGATCGAAGACGCAGATCTTGTCTTCCCATACTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGG
*
102467692 CGAAGTAGATCGCAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCA
66 CGAAGTAGATCGCAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
102467757 GG
131 GG
* *
102467759 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTTCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGG
* *
102467824 CGAAGTAGATCGAAGAAAGCAGATCTTGTC--CATGTATT
66 CGAAGTAGATCGCAGAAAACAGATCTTGTCTTCATGTATT
102467862 TGACAGTGGA
Statistics
Matches: 1099, Mismatches: 59, Indels: 3
0.95 0.05 0.00
Matches are distributed among these distances:
130 8 0.01
131 51 0.05
132 1040 0.95
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (132 bp):
TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGG
CGAAGTAGATCGCAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
GG
Found at i:102469602 original size:3 final size:3
Alignment explanation
Indices: 102469594--102469645 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
102469584 ATTAAATATC
* * * * *
102469594 ATT ATT ATT TTT A-T ATT ATT AGT ATT ATT AGT ATT ACT ATT ATT ATA
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
102469641 ATT AT
1 ATT AT
102469646 GTACTAGTGT
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:102469774 original size:3 final size:3
Alignment explanation
Indices: 102469766--102469795 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
102469756 TATTCCAATG
102469766 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
102469796 GTTTATGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:102472768 original size:29 final size:30
Alignment explanation
Indices: 102472707--102472769 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
102472697 TGTATAAGAG
* * *
102472707 AATTGGATAAAATTAAAATTTCATGTATCA
1 AATTGCATAAAATTAAAATTTCATATATAA
102472737 AATTGCATAAAATTAAAA-TTCATATATAA
1 AATTGCATAAAATTAAAATTTCATATATAA
102472766 AATT
1 AATT
102472770 ACACATTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 13 0.43
30 17 0.57
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (30 bp):
AATTGCATAAAATTAAAATTTCATATATAA
Found at i:102473643 original size:78 final size:78
Alignment explanation
Indices: 102473509--102473666 Score: 255
Period size: 78 Copynumber: 2.0 Consensus size: 78
102473499 TTTTGAGAAT
* *
102473509 CAATACTAAACAAAACCTAAATTAAGCTCTAAGTTTGAACCTAGCTTCTTATAGCTTGATA-TTG
1 CAATACTAAACAAAACCTAAATTAAACTCTAAGTTTGAACCTAGCTTCTTATAGCTTGA-ACTCG
*
102473573 GTTTTACTCAATTA
65 ATTTTACTCAATTA
* *
102473587 CAATGCTAAACAAAACCTAAATTAAACTCTAAGTTTGGACCTAGCTTCTTATAGCTTGAACTCGA
1 CAATACTAAACAAAACCTAAATTAAACTCTAAGTTTGAACCTAGCTTCTTATAGCTTGAACTCGA
102473652 TTTTACTCAATTA
66 TTTTACTCAATTA
102473665 CA
1 CA
102473667 CTTAAAAAGG
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
77 1 0.01
78 73 0.99
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (78 bp):
CAATACTAAACAAAACCTAAATTAAACTCTAAGTTTGAACCTAGCTTCTTATAGCTTGAACTCGA
TTTTACTCAATTA
Found at i:102490087 original size:18 final size:16
Alignment explanation
Indices: 102490050--102490092 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 16
102490040 TTTTTAAGTT
102490050 TGTAATGTTTTATATAA
1 TGTAAT-TTTTATATAA
*
102490067 TGTTATTTTTATATATGA
1 TGTAATTTTTATATA--A
102490085 TGTAATTT
1 TGTAATTT
102490093 ATAACTCATG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 9 0.41
17 5 0.23
18 8 0.36
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (16 bp):
TGTAATTTTTATATAA
Found at i:102491110 original size:24 final size:25
Alignment explanation
Indices: 102491076--102491126 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
102491066 TTTTTAAAGT
*
102491076 CTAATATTAACATTTAATACCTGAA
1 CTAATATTAACATTTAATACCTAAA
*
102491101 CTAATA-TAACATTTGATACCTAAA
1 CTAATATTAACATTTAATACCTAAA
102491125 CT
1 CT
102491127 TGACATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.43, C:0.18, G:0.04, T:0.35
Consensus pattern (25 bp):
CTAATATTAACATTTAATACCTAAA
Found at i:102499630 original size:26 final size:26
Alignment explanation
Indices: 102499597--102499654 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
102499587 AATTTTTATT
*
102499597 TTTA-TTTTTAAAATTTTTAAA-ATA
1 TTTATTTTTTAAAATTATTAAACATA
*
102499621 TTATATTTTTTAATATTATTAAACATA
1 TT-TATTTTTTAAAATTATTAAACATA
102499648 TTTATTT
1 TTTATTT
102499655 AATTATTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 2 0.07
25 2 0.07
26 20 0.69
27 5 0.17
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (26 bp):
TTTATTTTTTAAAATTATTAAACATA
Found at i:102499703 original size:22 final size:22
Alignment explanation
Indices: 102499678--102499721 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
102499668 TAGTCTTATA
102499678 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
102499700 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
102499722 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:102499924 original size:23 final size:24
Alignment explanation
Indices: 102499898--102499942 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
102499888 GTAATTTAGT
* *
102499898 ATTTTGTACTTTTA-TTTTCAAGA
1 ATTTAGTACCTTTACTTTTCAAGA
*
102499921 ATTTAGTCCCTTTACTTTTCAA
1 ATTTAGTACCTTTACTTTTCAA
102499943 ATTTAAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 11 0.61
24 7 0.39
ACGTcount: A:0.24, C:0.16, G:0.07, T:0.53
Consensus pattern (24 bp):
ATTTAGTACCTTTACTTTTCAAGA
Found at i:102503318 original size:13 final size:14
Alignment explanation
Indices: 102503300--102503329 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
102503290 TTAATATTAT
102503300 AATTATAATAAT-A
1 AATTATAATAATGA
102503313 AATTATAATAATGA
1 AATTATAATAATGA
102503327 AAT
1 AAT
102503330 AAAAAAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (14 bp):
AATTATAATAATGA
Found at i:102503542 original size:26 final size:25
Alignment explanation
Indices: 102503491--102503541 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
102503481 ATTTATCAAA
102503491 AATTTAAAAATAAATAAGTATTTTT
1 AATTTAAAAATAAATAAGTATTTTT
* *
102503516 AATTTATAAAATGAATGAGTTATTTT
1 AATTTA-AAAATAAATAAG-TATTTT
102503542 AGTAATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 6 0.27
26 10 0.45
27 6 0.27
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (25 bp):
AATTTAAAAATAAATAAGTATTTTT
Found at i:102507776 original size:29 final size:29
Alignment explanation
Indices: 102507742--102507797 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
102507732 ATAGAGACTT
* *
102507742 GATCAAATTAGTCCCTCTATTATTAAATG
1 GATCAAATTAATCCCTATATTATTAAATG
* *
102507771 GATCAATTTAATCTCTATATTATTAAA
1 GATCAAATTAATCCCTATATTATTAAA
102507798 AAGAATCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (29 bp):
GATCAAATTAATCCCTATATTATTAAATG
Found at i:102508037 original size:29 final size:29
Alignment explanation
Indices: 102507981--102508045 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
102507971 TTAGCCTTAT
* *
102507981 TTGATTCTTTTTAATAATATAGAAACTAAA
1 TTGA-TCTATTTAATAATAGAGAAACTAAA
** *
102508011 TTGATCTATTTAATAATAGAGGGACTAAT
1 TTGATCTATTTAATAATAGAGAAACTAAA
102508040 TTGATC
1 TTGATC
102508046 AGGTTACTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 26 0.87
30 4 0.13
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (29 bp):
TTGATCTATTTAATAATAGAGAAACTAAA
Found at i:102511650 original size:19 final size:20
Alignment explanation
Indices: 102511614--102511656 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
102511604 TTATTTTATT
102511614 TAAATTTAATTATAAAATA-
1 TAAATTTAATTATAAAATAG
* * *
102511633 TAAATTTATTTTTTAAATAG
1 TAAATTTAATTATAAAATAG
102511653 TAAA
1 TAAA
102511657 ATGGGCCATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
TAAATTTAATTATAAAATAG
Found at i:102530828 original size:23 final size:26
Alignment explanation
Indices: 102530801--102530857 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 26
102530791 ATATGTTCAA
*
102530801 ATTAAATA-TTAAAAATA-ATTT-AT
1 ATTAAATACTTAAAAAAACATTTAAT
*
102530824 ATTAATTACTTAAAAAAACATTTAAT
1 ATTAAATACTTAAAAAAACATTTAAT
102530850 ATTTAAAT
1 A-TTAAAT
102530858 TCAACAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 7 0.26
24 8 0.30
25 4 0.15
26 3 0.11
27 5 0.19
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (26 bp):
ATTAAATACTTAAAAAAACATTTAAT
Found at i:102531130 original size:69 final size:69
Alignment explanation
Indices: 102531049--102531184 Score: 236
Period size: 69 Copynumber: 2.0 Consensus size: 69
102531039 TTTCCACAAT
*
102531049 AAGAAAGCATACAATTCCATAAAAAAGAGATACATAAAAGAGTAGAAATCAACAATCACTAAATT
1 AAGAAAGCATACAATTCCATAAAAAAGAGATACATAAAAGAGTAGAAATCAACAATCACCAAATT
102531114 TGAC
66 TGAC
* * *
102531118 AAGAAATCATACAATTCCATAAAAATGAGATACATAAAATAGTAGAAATCAACAATCACCAAATT
1 AAGAAAGCATACAATTCCATAAAAAAGAGATACATAAAAGAGTAGAAATCAACAATCACCAAATT
102531183 TG
66 TG
102531185 GCAACAATAA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.54, C:0.15, G:0.10, T:0.21
Consensus pattern (69 bp):
AAGAAAGCATACAATTCCATAAAAAAGAGATACATAAAAGAGTAGAAATCAACAATCACCAAATT
TGAC
Found at i:102536398 original size:13 final size:13
Alignment explanation
Indices: 102536380--102536407 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
102536370 AGTTAACGAG
102536380 TCGTATTTTATCA
1 TCGTATTTTATCA
102536393 TCGTATTTTATCA
1 TCGTATTTTATCA
102536406 TC
1 TC
102536408 CTAATTTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.18, G:0.07, T:0.54
Consensus pattern (13 bp):
TCGTATTTTATCA
Found at i:102536744 original size:11 final size:11
Alignment explanation
Indices: 102536730--102536763 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
102536720 ATATTTTAAG
102536730 TTTTAATTTTT
1 TTTTAATTTTT
102536741 TTTTGAATTTTT
1 TTTT-AATTTTT
*
102536753 TTGTAATTTTT
1 TTTTAATTTTT
102536764 GTTGAGAGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (11 bp):
TTTTAATTTTT
Found at i:102540820 original size:16 final size:16
Alignment explanation
Indices: 102540796--102540829 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
102540786 ACCCTTCAGC
*
102540796 TATACATACATACACA
1 TATACATACAAACACA
*
102540812 TATATATACAAACACA
1 TATACATACAAACACA
102540828 TA
1 TA
102540830 CATGGAGATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.53, C:0.21, G:0.00, T:0.26
Consensus pattern (16 bp):
TATACATACAAACACA
Found at i:102543913 original size:18 final size:18
Alignment explanation
Indices: 102543886--102543952 Score: 61
Period size: 18 Copynumber: 3.9 Consensus size: 18
102543876 AATATTTATT
*
102543886 TATAATAATTAATAATTG
1 TATAAGAATTAATAATTG
102543904 TATAAGAATTAA-AATT-
1 TATAAGAATTAATAATTG
* *
102543920 AAT-AG-TTTAATAATTG
1 TATAAGAATTAATAATTG
* *
102543936 TATAATAATTATTAATT
1 TATAAGAATTAATAATT
102543953 ATTATAAATA
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
14 4 0.11
15 6 0.16
16 4 0.11
17 5 0.13
18 19 0.50
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (18 bp):
TATAAGAATTAATAATTG
Found at i:102543950 original size:21 final size:20
Alignment explanation
Indices: 102543926--102543968 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
102543916 AATTAATAGT
* *
102543926 TTAATAATTGTATAATAATTA
1 TTAATAATTATA-AATAAATA
*
102543947 TTAATTATTATAAATAAATA
1 TTAATAATTATAAATAAATA
102543967 TT
1 TT
102543969 TAGTTTAATG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
TTAATAATTATAAATAAATA
Found at i:102544968 original size:23 final size:23
Alignment explanation
Indices: 102544941--102544989 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
102544931 TATAGACATC
*
102544941 AATGCATAGCAAATACAGATTCA
1 AATGCATAACAAATACAGATTCA
* *
102544964 AATGCATAACAGATATAGATTCA
1 AATGCATAACAAATACAGATTCA
102544987 AAT
1 AAT
102544990 CCTACCATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.49, C:0.14, G:0.12, T:0.24
Consensus pattern (23 bp):
AATGCATAACAAATACAGATTCA
Found at i:102547767 original size:39 final size:39
Alignment explanation
Indices: 102547721--102547848 Score: 220
Period size: 39 Copynumber: 3.3 Consensus size: 39
102547711 GCTCTGATGA
102547721 GCTTCAGTTAGCCTCCAGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCAGGCTTCCGTTTAGCACTTATGT
* *
102547760 GCTTCAGTTAGCCTCCGGGCTTCTGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCAGGCTTCCGTTTAGCACTTATGT
* *
102547799 GCTTCAGTTAGCCTTCAGGCTTCCGTTTAACACTTATGT
1 GCTTCAGTTAGCCTCCAGGCTTCCGTTTAGCACTTATGT
102547838 GCTTCAGTTAG
1 GCTTCAGTTAG
102547849 ATTTCGGGCT
Statistics
Matches: 83, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 83 1.00
ACGTcount: A:0.16, C:0.26, G:0.21, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGCCTCCAGGCTTCCGTTTAGCACTTATGT
Found at i:102549970 original size:22 final size:22
Alignment explanation
Indices: 102549945--102549989 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
102549935 TTTAATCTTT
*
102549945 ATATTTTTATTTTAGGAATTTA
1 ATATTTTTATTTTACGAATTTA
*
102549967 ATATTTTTATTTTTCGAATTTA
1 ATATTTTTATTTTACGAATTTA
102549989 A
1 A
102549990 AAATTTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.31, C:0.02, G:0.07, T:0.60
Consensus pattern (22 bp):
ATATTTTTATTTTACGAATTTA
Found at i:102554023 original size:18 final size:18
Alignment explanation
Indices: 102554000--102554282 Score: 151
Period size: 18 Copynumber: 15.3 Consensus size: 18
102553990 GAATAATTAT
102554000 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* * *
102554018 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * **
102554036 TTATTCAATAATAACCAG
1 TTATTCAGTAACAGTCAG
**
102554054 TTATTCAGTATCGATCAATTGATTGG
1 TTATTCAGTA---A-C-A--G-TCAG
* *
102554080 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
*
102554098 TTATTCAGTAA-AATCAG
1 TTATTCAGTAACAGTCAG
* * *
102554115 ATATTCAGTAACTATTAAG
1 TTATTCAGTAAC-AGTCAG
*
102554134 TTATTCAGTAGCAGTCA-
1 TTATTCAGTAACAGTCAG
* *
102554151 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAG
* *
102554170 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAG
* *
102554188 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAG
*
102554206 TTATTCAATAACAGTCTA-
1 TTATTCAGTAACAGTC-AG
* * *
102554224 ATATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* * *
102554242 TTATCCGGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* *
102554260 TTATTCAGTAATAATCAG
1 TTATTCAGTAACAGTCAG
102554278 TTATT
1 TTATT
102554283 TTATACCTTT
Statistics
Matches: 198, Mismatches: 51, Indels: 32
0.70 0.18 0.11
Matches are distributed among these distances:
17 17 0.09
18 148 0.75
19 18 0.09
21 2 0.01
22 1 0.01
23 2 0.01
26 10 0.05
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:102554042 original size:36 final size:36
Alignment explanation
Indices: 102554000--102554282 Score: 187
Period size: 36 Copynumber: 7.6 Consensus size: 36
102553990 GAATAATTAT
* *
102554000 TTATTCAGTAACAGTCAGTTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * * * *
102554036 TTATTCAATAATAACCAGTTATTCAGTATCGATCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* *
102554072 TTGATTGGTTATCCAGTAACAGTCAATTATTCAGTAA-AATCAGA
1 TT-A-----T-T-CAGTAACAATCAGTTATTCAGTAACAATCA-A
* * * *
102554116 -TATTCAGTAACTATTAAGTTATTCAGTAGCAGTC-A
1 TTATTCAGTAAC-AATCAGTTATTCAGTAACAATCAA
* **
102554151 TTCATTCAGTGACAATCAGTTATTCAGTAATGATCAA
1 TT-ATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * * *
102554188 TTATTCAGTAATATTCAGTTATTCAATAACAGTCTAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATC-AA
* * * * * *
102554225 -TATCCAGTAACAGTCAATTATCCGGTAACAGTCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
*
102554260 TTATTCAGTAATAATCAGTTATT
1 TTATTCAGTAACAATCAGTTATT
102554283 TTATACCTTT
Statistics
Matches: 186, Mismatches: 45, Indels: 32
0.71 0.17 0.12
Matches are distributed among these distances:
35 10 0.05
36 130 0.70
37 19 0.10
42 2 0.01
43 6 0.03
44 19 0.10
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (36 bp):
TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
Found at i:102554221 original size:72 final size:71
Alignment explanation
Indices: 102554081--102554282 Score: 219
Period size: 72 Copynumber: 2.8 Consensus size: 71
102554071 ATTGATTGGT
* * * *
102554081 TATCCAGTAACAGTCAATTATTCAGTAAAATCAGA-TATTCAGTAACTATTAAGTTATTCAGTAG
1 TATCCAGTAACAATCAATTATTCAGTAAAATCA-ATTATTCAGTAA-TATTCAGTTATTCAATAA
*
102554145 CAGTC-AT
64 CAGTCTAA
* * * *
102554152 TCATTCAGTGACAATCAGTTATTCAGTAATGATCAATTATTCAGTAATATTCAGTTATTCAATAA
1 T-ATCCAGTAACAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATTCAATAA
102554217 CAGTCTAA
64 CAGTCTAA
* * * * *
102554225 TATCCAGTAACAGTCAATTATCCGGTAACAGTCAATTATTCAGTAATAATCAGTTATT
1 TATCCAGTAACAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATT
102554283 TTATACCTTT
Statistics
Matches: 108, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
71 1 0.01
72 91 0.84
73 16 0.15
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (71 bp):
TATCCAGTAACAATCAATTATTCAGTAAAATCAATTATTCAGTAATATTCAGTTATTCAATAACA
GTCTAA
Found at i:102554396 original size:6 final size:6
Alignment explanation
Indices: 102554387--102554423 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
102554377 CCGAAGCCGG
*
102554387 AACAGT AACAGT AACAGT AACAGT AACAGT AGCAGT A
1 AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT A
102554424 CGGTACACAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.49, C:0.16, G:0.19, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:102554531 original size:45 final size:45
Alignment explanation
Indices: 102554462--102554650 Score: 279
Period size: 45 Copynumber: 4.2 Consensus size: 45
102554452 ATCCGGAATA
* * * *
102554462 GTAATAGTAACAGTATTCAACACACAAAGTGCTGAATCAGTAACG
1 GTAACAGTAACAATATTCGACACACAAAGTGCTGAATCGGTAACG
**
102554507 GTAACAGTAACAATATTCGACACACAAAGTGCAAAATCGGTAACG
1 GTAACAGTAACAATATTCGACACACAAAGTGCTGAATCGGTAACG
* *
102554552 GTAACAGTAACAATATTCGACACACACAGTGCCGAATCGGTAACG
1 GTAACAGTAACAATATTCGACACACAAAGTGCTGAATCGGTAACG
* *
102554597 GTAGCAGTAACAATATTCGACACACAAAGTGCTGAATCGGTAACA
1 GTAACAGTAACAATATTCGACACACAAAGTGCTGAATCGGTAACG
*
102554642 GTAGCAGTA
1 GTAACAGTA
102554651 GCGGTAACAG
Statistics
Matches: 131, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 131 1.00
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.20
Consensus pattern (45 bp):
GTAACAGTAACAATATTCGACACACAAAGTGCTGAATCGGTAACG
Found at i:102555071 original size:5 final size:5
Alignment explanation
Indices: 102555061--102555094 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
102555051 ATTAATCATA
* *
102555061 ATTCC ATTCC ATTCC ATTCA ATTCC ATTCA ATTC
1 ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTC
102555095 AAATTCACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.26, C:0.32, G:0.00, T:0.41
Consensus pattern (5 bp):
ATTCC
Found at i:102555074 original size:10 final size:10
Alignment explanation
Indices: 102555060--102555094 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
102555050 AATTAATCAT
102555060 AATTCCATTC
1 AATTCCATTC
*
102555070 CATTCCATTC
1 AATTCCATTC
102555080 AATTCCATTC
1 AATTCCATTC
102555090 AATTC
1 AATTC
102555095 AAATTCACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.29, C:0.31, G:0.00, T:0.40
Consensus pattern (10 bp):
AATTCCATTC
Found at i:102555084 original size:15 final size:15
Alignment explanation
Indices: 102555060--102555096 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
102555050 AATTAATCAT
*
102555060 AATTCCATTCCATTC
1 AATTCAATTCCATTC
*
102555075 CATTCAATTCCATTC
1 AATTCAATTCCATTC
102555090 AATTCAA
1 AATTCAA
102555097 ATTCACTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.32, C:0.30, G:0.00, T:0.38
Consensus pattern (15 bp):
AATTCAATTCCATTC
Found at i:102568266 original size:21 final size:21
Alignment explanation
Indices: 102568223--102568265 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
102568213 TTTTTACGGA
* *
102568223 TTAATATATAATTTTATTATT
1 TTAAAATATAATTTTAATATT
102568244 TTAAAATA-AATTTTAATATT
1 TTAAAATATAATTTTAATATT
102568264 TT
1 TT
102568266 TTTCATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TTAAAATATAATTTTAATATT
Found at i:102568827 original size:15 final size:16
Alignment explanation
Indices: 102568800--102568829 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
102568790 AAAGAAAGAG
102568800 ATTTAAGAAAAAAAAT
1 ATTTAAGAAAAAAAAT
102568816 ATTTAA-AAAAAAAA
1 ATTTAAGAAAAAAAA
102568830 AAGGAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (16 bp):
ATTTAAGAAAAAAAAT
Found at i:102568830 original size:16 final size:16
Alignment explanation
Indices: 102568800--102568830 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
102568790 AAAGAAAGAG
*
102568800 ATTTAAGAAAAAAAAT
1 ATTTAAAAAAAAAAAT
102568816 ATTTAAAAAAAAAAA
1 ATTTAAAAAAAAAAA
102568831 AGGAAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (16 bp):
ATTTAAAAAAAAAAAT
Found at i:102570068 original size:17 final size:16
Alignment explanation
Indices: 102570024--102570076 Score: 88
Period size: 16 Copynumber: 3.2 Consensus size: 16
102570014 TTTGGTTCGC
102570024 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
102570040 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
102570056 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
102570073 TGTA
1 TGTA
102570077 ATAGCTAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
16 20 0.59
17 14 0.41
ACGTcount: A:0.25, C:0.02, G:0.38, T:0.36
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:102570508 original size:120 final size:120
Alignment explanation
Indices: 102570295--102573197 Score: 5637
Period size: 120 Copynumber: 24.2 Consensus size: 120
102570285 ATCATATTTA
102570295 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAAT-AAATTTCTTAATAATTA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAA-TTCTTAATAATTA
*
102570359 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
65 ATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
* *
102570415 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
102570480 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
102570535 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
102570600 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
102570655 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
102570720 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
102570775 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
102570840 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
102570895 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
102570960 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
102571015 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
*
102571080 TATTCTTACATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
* *
102571135 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
102571200 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
102571255 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
102571320 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
102571375 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
*
102571440 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
* *
102571495 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
102571560 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
102571615 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
102571680 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
102571735 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
102571800 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
102571855 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
102571920 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
102571975 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
102572040 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
102572095 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
102572160 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
102572215 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
102572280 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
102572335 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
102572400 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
102572455 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
102572520 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
* *
102572575 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
102572640 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
102572695 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
102572760 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
* *
102572815 AACATCATTATTATTAAATATATTTTAATTAAACTATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
102572880 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
* *
102572935 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
102573000 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
* *
102573055 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
102573120 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
102573175 AACATAATTATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
102573198 AACTTGAAAA
Statistics
Matches: 2758, Mismatches: 24, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
120 2755 1.00
121 3 0.00
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:102571078 original size:54 final size:54
Alignment explanation
Indices: 102571018--102571203 Score: 133
Period size: 54 Copynumber: 3.2 Consensus size: 54
102571008 ATAAATTAAC
102571018 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTA
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTA
* * * * * * * *
102571072 ATAATTAATATTCTTACAT-TAATTT-ACTCAAATCATAATATATGATACTGTAAAATATAAATT
1 ATAA-T--TATTATTAAATATATTTTAATTAAAAT-AT-ATA-AT-TTAATG--AAAT-T--CTT
102571135 AA
54 -A
* *
102571137 CATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTA
1 -ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTA
*
102571192 ATAATTAATATT
1 ATAATTATTATT
102571204 CTTATATTAA
Statistics
Matches: 97, Mismatches: 19, Indels: 32
0.66 0.13 0.22
Matches are distributed among these distances:
54 15 0.15
55 8 0.08
56 9 0.09
57 12 0.12
58 3 0.03
59 8 0.08
61 7 0.07
62 3 0.03
63 12 0.12
64 9 0.09
65 7 0.07
66 4 0.04
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (54 bp):
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTA
Found at i:102579779 original size:36 final size:36
Alignment explanation
Indices: 102579738--102579816 Score: 140
Period size: 36 Copynumber: 2.2 Consensus size: 36
102579728 GGTTGTGAAG
*
102579738 CAGCTAAACTGAAACAGAAGGAAGAAATAGAAGGAA
1 CAGCTAAACTGAAACAGAAAGAAGAAATAGAAGGAA
102579774 CAGCTAAACTGAAACAGAAAGAAGAAATAGAAGGAA
1 CAGCTAAACTGAAACAGAAAGAAGAAATAGAAGGAA
*
102579810 CGGCTAA
1 CAGCTAA
102579817 GTTGTGAAGT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.54, C:0.13, G:0.24, T:0.09
Consensus pattern (36 bp):
CAGCTAAACTGAAACAGAAAGAAGAAATAGAAGGAA
Found at i:102582164 original size:20 final size:20
Alignment explanation
Indices: 102582139--102582178 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
102582129 TTTAATTTAA
102582139 TATATGTATTT-TATTAAAAT
1 TATATGT-TTTGTATTAAAAT
102582159 TATATGTTTTGGTATTAAAA
1 TATATGTTTT-GTATTAAAA
102582179 GGTATCATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.17
20 7 0.39
21 8 0.44
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.53
Consensus pattern (20 bp):
TATATGTTTTGTATTAAAAT
Found at i:102591749 original size:15 final size:16
Alignment explanation
Indices: 102591719--102591752 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
102591709 AAATTTATAA
102591719 AAATATTCAGAAAAAT
1 AAATATTCAGAAAAAT
*
102591735 AAATATT-ATAAAAAT
1 AAATATTCAGAAAAAT
102591750 AAA
1 AAA
102591753 AATAACATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (16 bp):
AAATATTCAGAAAAAT
Found at i:102593083 original size:35 final size:35
Alignment explanation
Indices: 102593036--102593113 Score: 95
Period size: 35 Copynumber: 2.2 Consensus size: 35
102593026 GGCTGAACAA
*
102593036 AAAAACCGACCAG-AATATTATAAAATGCAAGTTC
1 AAAAACCAACCAGTAATATTATAAAATGCAAGTTC
** * *
102593070 ATAAAACCAACCAGTTTTTTTATGAAATGCAAGTTC
1 A-AAAACCAACCAGTAATATTATAAAATGCAAGTTC
102593106 AAAAACCA
1 AAAAACCA
102593114 CGATTACCTG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
34 1 0.03
35 18 0.49
36 18 0.49
ACGTcount: A:0.47, C:0.18, G:0.10, T:0.24
Consensus pattern (35 bp):
AAAAACCAACCAGTAATATTATAAAATGCAAGTTC
Found at i:102596825 original size:15 final size:16
Alignment explanation
Indices: 102596805--102596837 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
102596795 TAACAAAATT
102596805 AATTTTT-TTATTAAA
1 AATTTTTATTATTAAA
*
102596820 AATTTTTATTGTTAAA
1 AATTTTTATTATTAAA
102596836 AA
1 AA
102596838 AATTGGCTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
AATTTTTATTATTAAA
Found at i:102609699 original size:14 final size:14
Alignment explanation
Indices: 102609680--102609712 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
102609670 TTAAGACCTA
*
102609680 ATATATACATATGT
1 ATATATACATATAT
102609694 ATATATACATATAT
1 ATATATACATATAT
102609708 ATATA
1 ATATA
102609713 GTTTTGATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (14 bp):
ATATATACATATAT
Found at i:102615610 original size:31 final size:31
Alignment explanation
Indices: 102615575--102615635 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
102615565 ATTAATATAA
* *
102615575 ATTCAAAATAGATAAAATAAATCACCTCTAC
1 ATTCAAAACAAATAAAATAAATCACCTCTAC
102615606 ATTCAAAACAAATAAAATAAATCACCTCTA
1 ATTCAAAACAAATAAAATAAATCACCTCTA
102615636 GACAAATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.54, C:0.20, G:0.02, T:0.25
Consensus pattern (31 bp):
ATTCAAAACAAATAAAATAAATCACCTCTAC
Found at i:102615957 original size:22 final size:23
Alignment explanation
Indices: 102615932--102615976 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
102615922 ATACTCACAC
102615932 AACCA-TATCAACTTCAG-AAGCA
1 AACCATTATCAAC-TCAGTAAGCA
102615954 AACCATTATCAACTCAGTAAGCA
1 AACCATTATCAACTCAGTAAGCA
102615977 TACAGATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.44, C:0.27, G:0.09, T:0.20
Consensus pattern (23 bp):
AACCATTATCAACTCAGTAAGCA
Found at i:102616656 original size:31 final size:30
Alignment explanation
Indices: 102616613--102616692 Score: 97
Period size: 31 Copynumber: 2.6 Consensus size: 30
102616603 CATGTGTACT
*
102616613 TTAATATACTAAATTAAACACTAAAATTAAA
1 TTAA-ATACTAAATTAAACACTAAAATCAAA
***
102616644 CTTAAATACTAAATTAAATTTTAAAATCAAA
1 -TTAAATACTAAATTAAACACTAAAATCAAA
102616675 TTAAAATACTAAATTAAA
1 TT-AAATACTAAATTAAA
102616693 AAAATTCTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
30 2 0.05
31 37 0.86
32 4 0.09
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (30 bp):
TTAAATACTAAATTAAACACTAAAATCAAA
Found at i:102616668 original size:19 final size:19
Alignment explanation
Indices: 102616622--102616661 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
102616612 TTTAATATAC
102616622 TAAA-TTAAACACTAAAAT
1 TAAACTTAAACACTAAAAT
*
102616640 TAAACTTAAATACT-AAAT
1 TAAACTTAAACACTAAAAT
102616658 TAAA
1 TAAA
102616662 TTTTAAAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (19 bp):
TAAACTTAAACACTAAAAT
Found at i:102617480 original size:14 final size:14
Alignment explanation
Indices: 102617463--102617495 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
102617453 ATAATATCCG
102617463 AATAATAACAATAA
1 AATAATAACAATAA
*
102617477 AATAATAACAATAT
1 AATAATAACAATAA
102617491 AATAA
1 AATAA
102617496 CAATATGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (14 bp):
AATAATAACAATAA
Found at i:102617492 original size:22 final size:22
Alignment explanation
Indices: 102617466--102617521 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
102617456 ATATCCGAAT
*
102617466 AATAACAATAAAATAATAACAA
1 AATAACAACAAAATAATAACAA
* * * *
102617488 TATAATAACAATATGATAACAA
1 AATAACAACAAAATAATAACAA
102617510 AATAACAACAAA
1 AATAACAACAAA
102617522 TAACAAGAAA
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.68, C:0.11, G:0.02, T:0.20
Consensus pattern (22 bp):
AATAACAACAAAATAATAACAA
Found at i:102629871 original size:29 final size:29
Alignment explanation
Indices: 102629829--102629890 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
102629819 ACCAAAGTGT
102629829 GGTAAAATGACTCCATCAATCTTACATTA
1 GGTAAAATGACTCCATCAATCTTACATTA
102629858 GGTAAAATGACTCCATCAATCTTACATTA
1 GGTAAAATGACTCCATCAATCTTACATTA
102629887 GGTA
1 GGTA
102629891 CAAGAGAAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (29 bp):
GGTAAAATGACTCCATCAATCTTACATTA
Found at i:102633703 original size:2 final size:2
Alignment explanation
Indices: 102633696--102633730 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
102633686 TCATACATAC
*
102633696 AT AT AT AT AT AT AT AT AT AT AT AT -T AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
102633731 CTAAAGATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
AT
Found at i:102640941 original size:18 final size:18
Alignment explanation
Indices: 102640918--102640955 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
102640908 TGCCACGGCG
*
102640918 AGGTGAGCGAAATCTAAT
1 AGGTGAACGAAATCTAAT
*
102640936 AGGTGAACGAGATCTAAT
1 AGGTGAACGAAATCTAAT
102640954 AG
1 AG
102640956 AACATAAGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.29, T:0.21
Consensus pattern (18 bp):
AGGTGAACGAAATCTAAT
Found at i:102652984 original size:16 final size:16
Alignment explanation
Indices: 102652963--102652995 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
102652953 AAAATTTGTG
102652963 AGTACAACAATAATTC
1 AGTACAACAATAATTC
102652979 AGTACAACAATAATTC
1 AGTACAACAATAATTC
102652995 A
1 A
102652996 ATCTAAGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.18, G:0.06, T:0.24
Consensus pattern (16 bp):
AGTACAACAATAATTC
Found at i:102654701 original size:16 final size:16
Alignment explanation
Indices: 102654680--102654716 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
102654670 ATATAGGACA
102654680 TGGTTCAAACTACGAT
1 TGGTTCAAACTACGAT
102654696 TGGTTCAAACTACGAT
1 TGGTTCAAACTACGAT
102654712 TGGTT
1 TGGTT
102654717 GAATGAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (16 bp):
TGGTTCAAACTACGAT
Found at i:102679627 original size:27 final size:27
Alignment explanation
Indices: 102679592--102679652 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
102679582 AAATTATATT
* *
102679592 TTAATTTTTTATTTATAAAAT-AAATTAA
1 TTAA-TTTTTATATATAAAATCAAA-GAA
*
102679620 TTAATTTTTATATATTAAATCAAAGAA
1 TTAATTTTTATATATAAAATCAAAGAA
102679647 TTAATT
1 TTAATT
102679653 AATTATTTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 22 0.76
28 7 0.24
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (27 bp):
TTAATTTTTATATATAAAATCAAAGAA
Found at i:102681482 original size:26 final size:24
Alignment explanation
Indices: 102681428--102681502 Score: 89
Period size: 24 Copynumber: 3.1 Consensus size: 24
102681418 CACTAAATCT
**
102681428 TTAAAAAAA-ACCTATTTAATTAA
1 TTAAAAAAAGACCTATTTAACCAA
102681451 TTAAAAAAAGACCTATTTAACCAA
1 TTAAAAAAAGACCTATTTAACCAA
* *
102681475 TTAAAAAAATCGACATTTTTAACCAA
1 TTAAAAAAA--GACCTATTTAACCAA
102681501 TT
1 TT
102681503 TAACCCAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
23 9 0.20
24 21 0.47
26 15 0.33
ACGTcount: A:0.52, C:0.13, G:0.03, T:0.32
Consensus pattern (24 bp):
TTAAAAAAAGACCTATTTAACCAA
Found at i:102697274 original size:19 final size:19
Alignment explanation
Indices: 102697244--102697315 Score: 108
Period size: 19 Copynumber: 3.7 Consensus size: 19
102697234 AAAAAAATAA
102697244 ATTTTGGAATTTTTAAAATT
1 ATTTT-GAATTTTTAAAATT
*
102697264 ATTTTGAATTTTAAAAATT
1 ATTTTGAATTTTTAAAATT
102697283 ATTTTGAATTTTTGAAAATT
1 ATTTTGAATTTTT-AAAATT
*
102697303 ACTTTGAATTTTT
1 ATTTTGAATTTTT
102697316 TTTTGTAATT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
19 25 0.52
20 23 0.48
ACGTcount: A:0.35, C:0.01, G:0.08, T:0.56
Consensus pattern (19 bp):
ATTTTGAATTTTTAAAATT
Found at i:102699642 original size:31 final size:32
Alignment explanation
Indices: 102699607--102699670 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 32
102699597 TTTAAAGTTG
102699607 AGTGACC-AAAATGTAAATTTACC-AATAATTT
1 AGTGACCTAAAATGT-AATTTACCAAATAATTT
*
102699638 AGTGACCTTAAATGTAATTTACCTAAATAATTT
1 AGTGACCTAAAATGTAATTTACC-AAATAATTT
102699671 TATATAAAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 15 0.52
32 6 0.21
33 8 0.28
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.36
Consensus pattern (32 bp):
AGTGACCTAAAATGTAATTTACCAAATAATTT
Found at i:102701797 original size:12 final size:12
Alignment explanation
Indices: 102701780--102701806 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
102701770 GAATGATGCG
102701780 TTAAATCAAACT
1 TTAAATCAAACT
102701792 TTAAATCAAACT
1 TTAAATCAAACT
102701804 TTA
1 TTA
102701807 TTTGATAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (12 bp):
TTAAATCAAACT
Found at i:102712454 original size:13 final size:14
Alignment explanation
Indices: 102712432--102712461 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
102712422 TGAGTTTAAA
102712432 TTCAAGGTTTAGGG
1 TTCAAGGTTTAGGG
102712446 TTCAA-GTTTAGGG
1 TTCAAGGTTTAGGG
102712459 TTC
1 TTC
102712462 GAGATTCAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.20, C:0.10, G:0.30, T:0.40
Consensus pattern (14 bp):
TTCAAGGTTTAGGG
Found at i:102714137 original size:13 final size:13
Alignment explanation
Indices: 102714119--102714143 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
102714109 ATGTATAATT
102714119 CAAGAACTAGTAC
1 CAAGAACTAGTAC
102714132 CAAGAACTAGTA
1 CAAGAACTAGTA
102714144 TCAATAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.20, G:0.16, T:0.16
Consensus pattern (13 bp):
CAAGAACTAGTAC
Found at i:102722716 original size:21 final size:20
Alignment explanation
Indices: 102722679--102722717 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
102722669 AAAGAAGATT
*
102722679 TATATTTTTCAATAATTTTA
1 TATATTTTTCAAGAATTTTA
*
102722699 TATATTTTTAGAAGAATTT
1 TATATTTTT-CAAGAATTT
102722718 AAATAGCAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (20 bp):
TATATTTTTCAAGAATTTTA
Found at i:102724100 original size:24 final size:24
Alignment explanation
Indices: 102724073--102724118 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
102724063 TTTGTGTAAA
* *
102724073 TTTTGCATTAGTTTTTTTGTTTTT
1 TTTTGCATTAGATTTTATGTTTTT
* *
102724097 TTTTTCTTTAGATTTTATGTTT
1 TTTTGCATTAGATTTTATGTTT
102724119 AACAATACTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.11, C:0.04, G:0.11, T:0.74
Consensus pattern (24 bp):
TTTTGCATTAGATTTTATGTTTTT
Found at i:102724409 original size:196 final size:196
Alignment explanation
Indices: 102723741--102724638 Score: 871
Period size: 198 Copynumber: 4.6 Consensus size: 196
102723731 TATTTGATTG
** * * *
102723741 AATGGGTTTTTGTT-TTCCATTGAATTATGCTTATTTTAGATCTTTAACTTGGTGGGATTACAAG
1 AATGGGTTTTTGTTATTGTATTGAATTATGCTTATTTGAGATCCTTAACTTGGTGAGATTACAAG
* ** * * ** ** * **
102723805 TAACTTGTGATGGGTAATCTTAATATGTTGAAGCTTGCAAAGAGACTAAAATTAATGGGGTTTTG
66 AAAAATGTGATGGGTACTATTAATATGTTGGGGCTTGCAAAGAGTGTGAAATTAATGGTTTTTTG
* * * * * * * *** ****
102723870 TGTC-AGTTTTGCATTAGTTTTTGGTTTTTTCTCTTTACACTTCTATG-ATAGTTTATGTTATT-
131 TATCGA-ATTTGCATTAGGTTTTGGTGTTTT-TCTTTA-GCTTTTATGTTTA-ACAAAACCATTC
**
102723932 TGATT
192 AAATT
* * * * *
102723937 GAATGGGGTTTTGTTTTTTTATTGAATTATGCTTATTTAAGATCATTAACTTGGTGAGATTACAA
1 -AATGGGTTTTTGTTATTGTATTGAATTATGCTTATTTGAGATCCTTAACTTGGTGAGATTACAA
** * * * * *
102724002 GAAATTTATGATGGG-ACTCTTAATATGTTGAGGCTTGCAAAGAGAGTGAAATTAATGGGTTTTT
65 GAAAAATGTGATGGGTACTATTAATATGTTGGGGCTTGCAAAGAGTGTGAAATTAATGGTTTTTT
* * * * * * * *
102724066 GTGT-AAATTTTGCATTAGTTTTTTTGTTTTTTTTTTCTTTAGATTTTATGTTTAACAATACTAT
130 GTATCGAA-TTTGCATTAG--GTTTTG--GTGTTTTTCTTTAGCTTTTATGTTTAACAAAACCAT
* *
102724130 TCGAGTT
190 TCAAATT
* * *
102724137 AATGGGTTTTTGTT-TTTTATTGAATTATGCTTATTTGAGATCTTTAACTTAGTGAGATTACAAG
1 AATGGGTTTTTGTTATTGTATTGAATTATGCTTATTTGAGATCCTTAACTTGGTGAGATTACAAG
* * * *
102724201 AGAAATGTGATGGGTACTATTGATATGTTGCGGCTTGCAAAGAGTGTGAATTTAATGGTTTTTTG
66 AAAAATGTGATGGGTACTATTAATATGTTGGGGCTTGCAAAGAGTGTGAAATTAATGGTTTTTTG
* * * **
102724266 TATCGAGTTTGCATTAGGTTTTGGGGGTTTTCTTTAGCTTTTATGTTTAACAAAACGGTTCAAAT
131 TATCGAATTTGCATTAGGTTTTGGTGTTTTTCTTTAGCTTTTATGTTTAACAAAACCATTCAAAT
102724331 T
196 T
*
102724332 GATGGGTTTTTGTTATTGT-TTGAATTATTGCTTATTTGAGATCCTTAACTTGGTGAGATTACAA
1 AATGGGTTTTTGTTATTGTATTGAATTA-TGCTTATTTGAGATCCTTAACTTGGTGAGATTACAA
* * * *
102724396 GAAAAATGTGATGGGTACTATTAATATGTTGGGGCTTGTAAAGAGTGTAAAATTAGTGTTTTTTT
65 GAAAAATGTGATGGGTACTATTAATATGTTGGGGCTTGCAAAGAGTGTGAAATTAATGGTTTTTT
* * *
102724461 GTATCGAATTCGCATTAGGTTTTGGTGTTTTTCTTTTGCTTTTATGTTTAACGAAACCATTCAAA
130 GTATCGAATTTGCATTAGGTTTTGGTGTTTTTCTTTAGCTTTTATGTTTAACAAAACCATTC---
102724526 AAATT
192 AAATT
* *
102724531 AATGGGTTTTTGTTATTG-GTTGAATTATGTTTATTTGAGATCCTTAACTTGGTGA-AGTTACAA
1 AATGGGTTTTTGTTATTGTATTGAATTATGCTTATTTGAGATCCTTAACTTGGTGAGA-TTACAA
* * *
102724594 GACAAATGTGATGGGTACTCTTAACATGTTGGGGCTTGCAAAGAG
65 GAAAAATGTGATGGGTACTATTAATATGTTGGGGCTTGCAAAGAG
102724639 AGTTGGGGCC
Statistics
Matches: 601, Mismatches: 82, Indels: 35
0.84 0.11 0.05
Matches are distributed among these distances:
195 54 0.09
196 148 0.25
197 78 0.13
198 187 0.31
199 117 0.19
200 11 0.02
201 6 0.01
ACGTcount: A:0.26, C:0.08, G:0.21, T:0.45
Consensus pattern (196 bp):
AATGGGTTTTTGTTATTGTATTGAATTATGCTTATTTGAGATCCTTAACTTGGTGAGATTACAAG
AAAAATGTGATGGGTACTATTAATATGTTGGGGCTTGCAAAGAGTGTGAAATTAATGGTTTTTTG
TATCGAATTTGCATTAGGTTTTGGTGTTTTTCTTTAGCTTTTATGTTTAACAAAACCATTCAAAT
T
Found at i:102729553 original size:16 final size:15
Alignment explanation
Indices: 102729524--102729576 Score: 61
Period size: 16 Copynumber: 3.4 Consensus size: 15
102729514 AATCTTTGAC
* *
102729524 AATTTTTTTTATTTA
1 AATTATTTTAATTTA
*
102729539 ATTTACTTTTAATTTA
1 AATTA-TTTTAATTTA
102729555 AATTATTTTAAATTTA
1 AATTATTTT-AATTTA
102729571 AATTAT
1 AATTAT
102729577 AAATCGAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
15 7 0.22
16 25 0.78
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (15 bp):
AATTATTTTAATTTA
Found at i:102735627 original size:17 final size:17
Alignment explanation
Indices: 102735601--102735637 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
102735591 GTTGAACTAA
* *
102735601 TTTAATAAAATTTATAT
1 TTTAAAAAAATATATAT
102735618 TTTAAAAAAATATATAT
1 TTTAAAAAAATATATAT
102735635 TTT
1 TTT
102735638 TATGAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTTAAAAAAATATATAT
Found at i:102737992 original size:23 final size:22
Alignment explanation
Indices: 102737940--102737994 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
102737930 TTATTTAGAA
*
102737940 TTTGAATTA-AAATGATGAATT
1 TTTGAATTATAAATGATAAATT
* *
102737961 TTGTAAATTATAAATGCTAAATT
1 TT-TGAATTATAAATGATAAATT
102737984 TGTTGAATTAT
1 T-TTGAATTAT
102737995 TTACAGTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
21 2 0.07
22 6 0.22
23 18 0.67
24 1 0.04
ACGTcount: A:0.40, C:0.02, G:0.13, T:0.45
Consensus pattern (22 bp):
TTTGAATTATAAATGATAAATT
Found at i:102738852 original size:15 final size:15
Alignment explanation
Indices: 102738832--102738863 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
102738822 AATAGGTAGG
102738832 GGACCGGACTAGACC
1 GGACCGGACTAGACC
*
102738847 GGACCGGACTGGACC
1 GGACCGGACTAGACC
102738862 GG
1 GG
102738864 CTAGTAGCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.31, G:0.41, T:0.06
Consensus pattern (15 bp):
GGACCGGACTAGACC
Found at i:102741810 original size:6 final size:6
Alignment explanation
Indices: 102741775--102741802 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
102741765 GAGGAAAAAT
102741775 TAAAGA TAAAGA TAAAGA TAAAGA TAAA
1 TAAAGA TAAAGA TAAAGA TAAAGA TAAA
102741803 AGAGAAAGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.14, T:0.18
Consensus pattern (6 bp):
TAAAGA
Found at i:102747682 original size:76 final size:76
Alignment explanation
Indices: 102747552--102747704 Score: 288
Period size: 76 Copynumber: 2.0 Consensus size: 76
102747542 TTAATTTAAA
102747552 ATCTTAATCATAATTTGAGATATATGATGCAATAAATCCTTTGTACTTGAGAACAATGCTCCCAA
1 ATCTTAATCATAATTTGAGATATATGATGCAATAAATCCTTTGTACTTGAGAACAATGCTCCCAA
102747617 AGTTGATCTTC
66 AGTTGATCTTC
* *
102747628 ATCTTAATCATAATTTGAGATATATGATGCAATTAATCCTTTGTACTTGGGAACAATGCTCCCAA
1 ATCTTAATCATAATTTGAGATATATGATGCAATAAATCCTTTGTACTTGAGAACAATGCTCCCAA
102747693 AGTTGATCTTC
66 AGTTGATCTTC
102747704 A
1 A
102747705 CATTGAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (76 bp):
ATCTTAATCATAATTTGAGATATATGATGCAATAAATCCTTTGTACTTGAGAACAATGCTCCCAA
AGTTGATCTTC
Done.