Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold407
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: 4418299
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 127125 characters in sequence are not A, C, G, or T
File 26 of 28
Found at i:4010725 original size:34 final size:34
Alignment explanation
Indices: 4010682--4010751 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
4010672 AAAGGAGATT
4010682 ACTTATTTGCCTTGGAAAGGTGCAAGTGAAGGGA
1 ACTTATTTGCCTTGGAAAGGTGCAAGTGAAGGGA
4010716 ACTTATTTGCCTTGGAAAGGTGCAAGTGAAGGGA
1 ACTTATTTGCCTTGGAAAGGTGCAAGTGAAGGGA
4010750 AC
1 AC
4010752 CTGATTATGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.30, C:0.13, G:0.31, T:0.26
Consensus pattern (34 bp):
ACTTATTTGCCTTGGAAAGGTGCAAGTGAAGGGA
Found at i:4015581 original size:13 final size:13
Alignment explanation
Indices: 4015563--4015588 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4015553 ATACTTTTTG
4015563 TGTATCGATACAT
1 TGTATCGATACAT
4015576 TGTATCGATACAT
1 TGTATCGATACAT
4015589 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4015599 original size:32 final size:33
Alignment explanation
Indices: 4015542--4015606 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
4015532 TACAAGCCAA
4015542 TGTATCGATACATACTTTTTGTGTATCGATACAT
1 TGTATCGATACATAC-TTTTGTGTATCGATACAT
4015576 TGTATCGATACATA-TTTTGTGTATCGATACA
1 TGTATCGATACATACTTTTGTGTATCGATACA
4015607 AGTTTGGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 17 0.55
34 14 0.45
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATACTTTTGTGTATCGATACAT
Found at i:4015600 original size:19 final size:19
Alignment explanation
Indices: 4015542--4015606 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
4015532 TACAAGCCAA
4015542 TGTATCGATACATACTTTTTG
1 TGTATCGATACATA--TTTTG
4015563 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
4015576 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
4015595 TGTATCGATACA
1 TGTATCGATACA
4015607 AGTTTGGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
15 1 0.03
18 1 0.03
19 13 0.34
21 11 0.29
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.43
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:4015711 original size:20 final size:20
Alignment explanation
Indices: 4015658--4015713 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
4015648 ACATCTTTTT
*
4015658 CATGTATCGATACATTGCAA
1 CATGTATCGATACTTTGCAA
4015678 CATGTATCGATACTTTG-AA
1 CATGTATCGATACTTTGCAA
*
4015697 CTGTGTATCGATACTTT
1 C-ATGTATCGATACTTT
4015714 TAAGGGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (20 bp):
CATGTATCGATACTTTGCAA
Found at i:4019477 original size:52 final size:51
Alignment explanation
Indices: 4019397--4019515 Score: 202
Period size: 52 Copynumber: 2.3 Consensus size: 51
4019387 AAAAGTTGCT
*
4019397 TGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTACC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA-TTACC
* *
4019449 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTACC
4019500 TGCATGTATCGATACA
1 TGCATGTATCGATACA
4019516 AAGATCAATG
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
51 20 0.31
52 44 0.69
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (51 bp):
TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTACC
Found at i:4019526 original size:51 final size:52
Alignment explanation
Indices: 4019397--4019535 Score: 185
Period size: 52 Copynumber: 2.7 Consensus size: 52
4019387 AAAAGTTGCT
* *
4019397 TGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAATTTACC
1 TGCATGTATCGATACA-TAAGATAATGTATCGATACATCTGGGCAAATTTACC
*** *
4019449 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAA-TTGCC
1 TGCATGTATCGATACATAAGATAATGTATCGATACATCTGGGCAAATTTACC
4019500 TGCATGTATCGATACA-AAGATCAATGTATCGATACA
1 TGCATGTATCGATACATAAGAT-AATGTATCGATACA
4019536 ATGTATCGAT
Statistics
Matches: 79, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
50 2 0.03
51 36 0.46
52 41 0.52
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Consensus pattern (52 bp):
TGCATGTATCGATACATAAGATAATGTATCGATACATCTGGGCAAATTTACC
Found at i:4019539 original size:13 final size:13
Alignment explanation
Indices: 4019521--4019548 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4019511 ATACAAAGAT
4019521 CAATGTATCGATA
1 CAATGTATCGATA
4019534 CAATGTATCGATA
1 CAATGTATCGATA
4019547 CA
1 CA
4019549 TTTGAGTAAT
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:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:4019626 original size:33 final size:33
Alignment explanation
Indices: 4019589--4019655 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
4019579 AGTAGCTTAA
4019589 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
4019622 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
4019655 A
1 A
4019656 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:4019629 original size:13 final size:13
Alignment explanation
Indices: 4019611--4019635 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4019601 CAAAAAAATA
4019611 TGTATCGATACAT
1 TGTATCGATACAT
4019624 TGTATCGATACA
1 TGTATCGATACA
4019636 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4020547 original size:52 final size:52
Alignment explanation
Indices: 4020415--4020626 Score: 199
Period size: 52 Copynumber: 4.2 Consensus size: 52
4020405 GAAAAGTGAT
* * * * * * * *
4020415 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGCTGAGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-G-A
* * *
4020469 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
*
4020522 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
* * *
4020565 AAAGGTGCCAATGTGCTGATTCAAGGTCGGCTACATTGGACTTAAAGATGGA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
4020617 AAAGGTGCCA
1 AAAGGTGCCA
4020627 CCGATTTGTG
Statistics
Matches: 129, Mismatches: 19, Indels: 22
0.76 0.11 0.13
Matches are distributed among these distances:
43 37 0.29
44 1 0.01
46 1 0.01
49 1 0.01
51 1 0.01
52 42 0.33
53 6 0.05
54 5 0.04
55 35 0.27
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
Found at i:4020583 original size:43 final size:43
Alignment explanation
Indices: 4020522--4020611 Score: 144
Period size: 43 Copynumber: 2.1 Consensus size: 43
4020512 TAAAGATGGA
*
4020522 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* * *
4020565 AAAGGTGCCAATGTGCTGATTCAAGGTCGGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
4020608 AAAG
1 AAAG
4020612 ATGGAAAAGG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.27
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
Found at i:4020714 original size:28 final size:29
Alignment explanation
Indices: 4020646--4020785 Score: 187
Period size: 30 Copynumber: 4.9 Consensus size: 29
4020636 GGTCTTCGGA
* *
4020646 AAAGGGTGCCACTGATTTGTGGGC-TTTG
1 AAAGGTTGCCACTGACTTGTGGGCTTTTG
4020674 -AAGGTTGCCACTGACTTGTGGGCTTTT-
1 AAAGGTTGCCACTGACTTGTGGGCTTTTG
4020701 AAAGGTTGCCACTGACTTGTGGGCTTTTG
1 AAAGGTTGCCACTGACTTGTGGGCTTTTG
**
4020730 AAAAATATGCCACTGACTTGTGGGCTTTTG
1 AAAGGT-TGCCACTGACTTGTGGGCTTTTG
* *
4020760 AAAAGGGTGCCACTAACTTGTGGGCT
1 -AAAGGTTGCCACTGACTTGTGGGCT
4020786 AAAAAGAGTG
Statistics
Matches: 99, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
27 21 0.21
28 30 0.30
29 4 0.04
30 41 0.41
31 3 0.03
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.32
Consensus pattern (29 bp):
AAAGGTTGCCACTGACTTGTGGGCTTTTG
Found at i:4020721 original size:85 final size:86
Alignment explanation
Indices: 4020617--4020785 Score: 207
Period size: 85 Copynumber: 2.0 Consensus size: 86
4020607 TAAAGATGGA
* * * * * *
4020617 AAAGGTGCCACCGATTTGTGGTCTTCGGAAAAGGGTGCCACTGATTTGTGGGC-TTTG-AAGGTT
1 AAAGGTGCCACCGACTTGTGGGCTTCGGAAAAAGATGCCACTGACTTGTGGGCTTTTGAAAGGGT
*
4020680 GCCACTGACTTGTGGGCTTTT
66 GCCACTAACTTGTGGGCTTTT
* ** *
4020701 AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTTTTGAAAAGG
1 AAAGG-TGCCACCGACTTGTGGGCTTCGGAAAAAGATGCCACTGACTTGTGGGCTTTTG-AAAGG
4020766 GTGCCACTAACTTGTGGGCT
64 GTGCCACTAACTTGTGGGCT
4020786 AAAAAGAGTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
84 5 0.07
85 39 0.56
86 4 0.06
88 22 0.31
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (86 bp):
AAAGGTGCCACCGACTTGTGGGCTTCGGAAAAAGATGCCACTGACTTGTGGGCTTTTGAAAGGGT
GCCACTAACTTGTGGGCTTTT
Found at i:4020743 original size:30 final size:29
Alignment explanation
Indices: 4020615--4020785 Score: 177
Period size: 30 Copynumber: 5.9 Consensus size: 29
4020605 CTTAAAGATG
* * * * **
4020615 GAAAAGGTGCCACCGATTTGTGGTCTTCG
1 GAAAAGTTGCCACTGACTTGTGGGCTTTT
* *
4020644 GAAAAGGGTGCCACTGATTTGTGGGC-TTT
1 GAAAA-GTTGCCACTGACTTGTGGGCTTTT
*
4020673 G-AAGGTTGCCACTGACTTGTGGGCTTTT
1 GAAAAGTTGCCACTGACTTGTGGGCTTTT
*
4020701 -AAAGGTTGCCACTGACTTGTGGGCTTTT
1 GAAAAGTTGCCACTGACTTGTGGGCTTTT
*
4020729 GAAAAATATGCCACTGACTTGTGGGCTTTT
1 GAAAAGT-TGCCACTGACTTGTGGGCTTTT
* *
4020759 GAAAAGGGTGCCACTAACTTGTGGGCT
1 GAAAA-GTTGCCACTGACTTGTGGGCT
4020786 AAAAAGAGTG
Statistics
Matches: 124, Mismatches: 12, Indels: 11
0.84 0.08 0.07
Matches are distributed among these distances:
27 18 0.15
28 32 0.26
29 11 0.09
30 63 0.51
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (29 bp):
GAAAAGTTGCCACTGACTTGTGGGCTTTT
Found at i:4020857 original size:30 final size:30
Alignment explanation
Indices: 4020822--4020909 Score: 106
Period size: 30 Copynumber: 3.0 Consensus size: 30
4020812 TTACAAAAGA
* * *
4020822 AAAAGAGTGCCACGGAGTTGTGGACTTTGG
1 AAAAGAGTGCCACCGACTTGTGGGCTTTGG
*
4020852 AAAAGA-TGCCACCGACTTGTGGGCTTCGG
1 AAAAGAGTGCCACCGACTTGTGGGCTTTGG
* * *
4020881 AAAAGGGTGCCACTGATTTGTGGGCTTTG
1 AAAAGAGTGCCACCGACTTGTGGGCTTTG
4020910 AAGGTTGATG
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
29 24 0.49
30 25 0.51
ACGTcount: A:0.24, C:0.17, G:0.34, T:0.25
Consensus pattern (30 bp):
AAAAGAGTGCCACCGACTTGTGGGCTTTGG
Found at i:4022356 original size:1 final size:1
Alignment explanation
Indices: 4022352--4022448 Score: 68
Period size: 1 Copynumber: 97.0 Consensus size: 1
4022342 CCGGACCCCC
* * * * * ** * **
4022352 TTTTTTGTTTTTTTATTGTTTTTGTTTTTTTGTTTTTTTTTTTTTTCCTTTTGTTTTTTTTTTGG
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
** **
4022417 TTTTTCATTTTTTTCGTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4022449 GGAGGACGCC
Statistics
Matches: 74, Mismatches: 22, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 74 1.00
ACGTcount: A:0.02, C:0.04, G:0.08, T:0.86
Consensus pattern (1 bp):
T
Found at i:4022373 original size:17 final size:16
Alignment explanation
Indices: 4022353--4022446 Score: 88
Period size: 15 Copynumber: 5.9 Consensus size: 16
4022343 CGGACCCCCT
4022353 TTTTTGTTTTTTTATTG
1 TTTTTGTTTTTTT-TTG
4022370 TTTTTG--TTTTTTTG
1 TTTTTGTTTTTTTTTG
*
4022384 TTTTT-TTTTTTTTTC
1 TTTTTGTTTTTTTTTG
*
4022399 CTTTTGTTTTTTTTTTGG
1 TTTTTG-TTTTTTTTT-G
** *
4022417 TTTTTCATTTTTTTCG
1 TTTTTGTTTTTTTTTG
4022433 TTTTT-TTTTTTTTT
1 TTTTTGTTTTTTTTT
4022447 TTGGAGGACG
Statistics
Matches: 63, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
14 8 0.13
15 23 0.37
16 6 0.10
17 22 0.35
18 4 0.06
ACGTcount: A:0.02, C:0.04, G:0.09, T:0.85
Consensus pattern (16 bp):
TTTTTGTTTTTTTTTG
Found at i:4022411 original size:16 final size:14
Alignment explanation
Indices: 4022352--4022445 Score: 77
Period size: 14 Copynumber: 6.4 Consensus size: 14
4022342 CCGGACCCCC
4022352 TTTTTTGTTTTTTTAT
1 TTTTTTG-TTTTTT-T
4022368 TGTTTTTGTTTTTTT
1 T-TTTTTGTTTTTTT
4022383 GTTTTTT-TTTTTTT
1 -TTTTTTGTTTTTTT
*
4022397 TCCTTTTG--TTTTT
1 T-TTTTTGTTTTTTT
*
4022410 TTTTTGGTTTTTCATT
1 TTTTTTGTTTTT--TT
*
4022426 TTTTTCGTTTTTTT
1 TTTTTTGTTTTTTT
4022440 TTTTTT
1 TTTTTT
4022446 TTTGGAGGAC
Statistics
Matches: 65, Mismatches: 5, Indels: 18
0.74 0.06 0.20
Matches are distributed among these distances:
12 4 0.06
13 7 0.11
14 21 0.32
15 6 0.09
16 21 0.32
17 6 0.09
ACGTcount: A:0.02, C:0.04, G:0.09, T:0.85
Consensus pattern (14 bp):
TTTTTTGTTTTTTT
Found at i:4022447 original size:17 final size:16
Alignment explanation
Indices: 4022352--4022447 Score: 93
Period size: 16 Copynumber: 5.9 Consensus size: 16
4022342 CCGGACCCCC
* *
4022352 TTTTTTGTTTTTTTAT
1 TTTTTTTTTTTTTTGT
*
4022368 TGTTTTTGTTTTTTTGT
1 T-TTTTTTTTTTTTTGT
**
4022385 TTTTTTTTTTTTTCCT
1 TTTTTTTTTTTTTTGT
*
4022401 TTTGTTTTTTTTTTGGT
1 TTT-TTTTTTTTTTTGT
** *
4022418 TTTTCATTTTTTTCGT
1 TTTTTTTTTTTTTTGT
4022434 TTTTTTTTTTTTTT
1 TTTTTTTTTTTTTT
4022448 TGGAGGACGC
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
16 37 0.56
17 29 0.44
ACGTcount: A:0.02, C:0.04, G:0.08, T:0.85
Consensus pattern (16 bp):
TTTTTTTTTTTTTTGT
Found at i:4022450 original size:34 final size:33
Alignment explanation
Indices: 4022370--4022447 Score: 104
Period size: 33 Copynumber: 2.4 Consensus size: 33
4022360 TTTTTTATTG
* **
4022370 TTTTTGTTTTTTT-GTTTTTTTTTTTTTTCCTT
1 TTTTTTTTTTTTTGGTTTTTCATTTTTTTCCTT
* *
4022402 TTGTTTTTTTTTTGGTTTTTCATTTTTTTCGTT
1 TTTTTTTTTTTTTGGTTTTTCATTTTTTTCCTT
4022435 TTTTTTTTTTTTT
1 TTTTTTTTTTTTT
4022448 TGGAGGACGC
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
32 11 0.28
33 28 0.72
ACGTcount: A:0.01, C:0.05, G:0.08, T:0.86
Consensus pattern (33 bp):
TTTTTTTTTTTTTGGTTTTTCATTTTTTTCCTT
Found at i:4032167 original size:10 final size:10
Alignment explanation
Indices: 4032152--4032178 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
4032142 ATGTATCAAG
4032152 CAAAAACAAA
1 CAAAAACAAA
4032162 CAAAAACAAA
1 CAAAAACAAA
4032172 CAAAAAC
1 CAAAAAC
4032179 TTAGTTAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.78, C:0.22, G:0.00, T:0.00
Consensus pattern (10 bp):
CAAAAACAAA
Found at i:4036393 original size:52 final size:51
Alignment explanation
Indices: 4036313--4036431 Score: 202
Period size: 52 Copynumber: 2.3 Consensus size: 51
4036303 AAAAGTTGCT
*
4036313 TGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTACC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA-TTACC
* *
4036365 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTACC
4036416 TGCATGTATCGATACA
1 TGCATGTATCGATACA
4036432 AAGATCAGTG
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
51 20 0.31
52 44 0.69
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (51 bp):
TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTACC
Found at i:4036458 original size:13 final size:13
Alignment explanation
Indices: 4036440--4036464 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4036430 CAAAGATCAG
4036440 TGTATCGATACAA
1 TGTATCGATACAA
4036453 TGTATCGATACA
1 TGTATCGATACA
4036465 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4036542 original size:33 final size:33
Alignment explanation
Indices: 4036505--4036571 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
4036495 AGTAGCTTAA
4036505 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
4036538 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
4036571 A
1 A
4036572 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:4036545 original size:13 final size:13
Alignment explanation
Indices: 4036527--4036551 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4036517 CAAAAAAATA
4036527 TGTATCGATACAT
1 TGTATCGATACAT
4036540 TGTATCGATACA
1 TGTATCGATACA
4036552 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4038719 original size:13 final size:13
Alignment explanation
Indices: 4038701--4038738 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
4038691 ATAATCCCCC
4038701 TGTATCGATACAG
1 TGTATCGATACAG
*
4038714 TGTATCGATACAT
1 TGTATCGATACAG
4038727 TGTATCGATACA
1 TGTATCGATACA
4038739 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:4040817 original size:15 final size:15
Alignment explanation
Indices: 4040797--4040827 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4040787 ATTTCGTTTA
*
4040797 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
4040812 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
4040827 G
1 G
4040828 CACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:4044796 original size:13 final size:13
Alignment explanation
Indices: 4044778--4044803 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4044768 ATACTTTTTG
4044778 TGTATCGATACAT
1 TGTATCGATACAT
4044791 TGTATCGATACAT
1 TGTATCGATACAT
4044804 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4044814 original size:32 final size:33
Alignment explanation
Indices: 4044757--4044821 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
4044747 TACAAGCCAA
4044757 TGTATCGATACATACTTTTTGTGTATCGATACAT
1 TGTATCGATACATAC-TTTTGTGTATCGATACAT
4044791 TGTATCGATACATA-TTTTGTGTATCGATACA
1 TGTATCGATACATACTTTTGTGTATCGATACA
4044822 AGTTTGGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 17 0.55
34 14 0.45
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATACTTTTGTGTATCGATACAT
Found at i:4044815 original size:19 final size:19
Alignment explanation
Indices: 4044757--4044821 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
4044747 TACAAGCCAA
4044757 TGTATCGATACATACTTTTTG
1 TGTATCGATACATA--TTTTG
4044778 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
4044791 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
4044810 TGTATCGATACA
1 TGTATCGATACA
4044822 AGTTTGGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
15 1 0.03
18 1 0.03
19 13 0.34
21 11 0.29
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.43
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:4044926 original size:20 final size:20
Alignment explanation
Indices: 4044873--4044928 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
4044863 ACATCTTTTT
*
4044873 CATGTATCGATACATTGCAA
1 CATGTATCGATACTTTGCAA
4044893 CATGTATCGATACTTTG-AA
1 CATGTATCGATACTTTGCAA
*
4044912 CTGTGTATCGATACTTT
1 C-ATGTATCGATACTTT
4044929 TAAGGGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (20 bp):
CATGTATCGATACTTTGCAA
Found at i:4045981 original size:80 final size:80
Alignment explanation
Indices: 4045747--4046161 Score: 258
Period size: 79 Copynumber: 5.2 Consensus size: 80
4045737 TTTTTTGGCC
* * * * * * *
4045747 AAAATATCAATTTTTTTTACCATTGGGGAGACTCTAACCCCGTTA-TTTCTGAGGGGATACTCTA
1 AAAATATCAA-ATTTTTCACCATCGAGGATACTCCAACCCCGTTATTTTC-GAAGGGATACTCTA
*
4045811 ACCTTGGTTTTATCTCT
64 ACCCTGGTTTTATCTCT
* * * * * * * *
4045828 AAAATATC-GATTTTTCACAATC-AGAAATACTCTAATCTCGTTATTTTTG-AGGAGATAGT-TC
1 AAAATATCAAATTTTTCACCATCGAG-GATACTCCAACCCCGTTATTTTCGAAGG-GATACTCT-
* * *
4045889 AA-CCTCGTTTTTATTTTT
63 AACCCT-GGTTTTATCTCT
* *
4045907 AAAATATCAAATTTTTCACCATCGAGGATACTCCAATCCAGTTATTTTCGAAGGGATACTCTAAC
1 AAAATATCAAATTTTTCACCATCGAGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCTAAC
*
4045972 CCTGGTTTTATCTCC
66 CCTGGTTTTATCTCT
** ** * * *
4045987 AAAATAT-TGATTTTTCACTTTCAAGGATACTCCAACCCCGTTATTTTCTAAGAGGATACTCCAA
1 AAAATATCAAATTTTTCACCATCGAGGATACTCCAACCCCGTTATTTTCGAAG-GGATACTCTAA
** * * **
4046051 CCC-CATTTTTTTTAA
65 CCCTGGTTTTATCTCT
* * * * * **
4046066 AAAATATTAAAATTTTCATC-TTG-TGATACTCCAACCCCGTTATTTT-TTAGAGGATACTCTAA
1 AAAATATCAAATTTTTCACCATCGAGGATACTCCAACCCCGTTATTTTCGAAG-GGATACTCTAA
* * *
4046128 CCCCGTTTTTATCTCC
65 CCCTGGTTTTATCTCT
* *
4046144 AAATTATTAAATTTTTCA
1 AAAATATCAAATTTTTCA
4046162 TTGGGAGATA
Statistics
Matches: 259, Mismatches: 62, Indels: 29
0.74 0.18 0.08
Matches are distributed among these distances:
77 17 0.07
78 50 0.19
79 99 0.38
80 76 0.29
81 17 0.07
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.39
Consensus pattern (80 bp):
AAAATATCAAATTTTTCACCATCGAGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCTAAC
CCTGGTTTTATCTCT
Found at i:4046021 original size:79 final size:77
Alignment explanation
Indices: 4045786--4046053 Score: 229
Period size: 80 Copynumber: 3.4 Consensus size: 77
4045776 GACTCTAACC
* * *
4045786 CCGTTA-TTTCTGAGGGGATACTCTAACCTTGGTTTTATCTCTAAAATATCGATTTTTCACAATC
1 CCGTTATTTTC-GAAGGGATACTCTAACCCTGGTTTTATCTCTAAAATATAGATTTTTCACAATC
* *
4045850 AGAAATACTCTAAT
65 AG-GATACTCCAAT
* * * * * *
4045864 CTCGTTATTTTTG-AGGAGATAGT-TCAA-CCTCGTTTTTATTTTTAAAATATCAAATTTTTCAC
1 C-CGTTATTTTCGAAGG-GATACTCT-AACCCT-GGTTTTATCTCTAAAATAT-AGATTTTTCAC
*
4045926 CATCGAGGATACTCCAAT
61 AATC-AGGATACTCCAAT
* * **
4045944 CCAGTTATTTTCGAAGGGATACTCTAACCCTGGTTTTATCTCCAAAATATTGATTTTTCACTTTC
1 CC-GTTATTTTCGAAGGGATACTCTAACCCTGGTTTTATCTCTAAAATATAGATTTTTCACAATC
*
4046009 AAGGATACTCCAACC
65 -AGGATACTCCAA-T
* *
4046024 CCGTTATTTTCTAAGAGGATACTCCAACCC
1 CCGTTATTTTCGAAG-GGATACTCTAACCC
4046054 CATTTTTTTT
Statistics
Matches: 151, Mismatches: 26, Indels: 24
0.75 0.13 0.12
Matches are distributed among these distances:
78 6 0.04
79 65 0.43
80 71 0.47
81 9 0.06
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (77 bp):
CCGTTATTTTCGAAGGGATACTCTAACCCTGGTTTTATCTCTAAAATATAGATTTTTCACAATCA
GGATACTCCAAT
Found at i:4046029 original size:159 final size:158
Alignment explanation
Indices: 4045720--4046161 Score: 410
Period size: 159 Copynumber: 2.8 Consensus size: 158
4045710 CATCAAAAGG
* *** * * * *
4045720 GGATACTCCAACCCTATTTTTTTGGCCAAAATATCAATTTTTTTTACCATTGGGGAGACTCTAAC
1 GGATACTCCAACCCCATTTTTTT-TAAAAAATATCAA-ATTTTTCACCATT-GGGATACTCCAAC
* * * *
4045785 CCCGTTA-TTTCTGAGGGGATACTCTAACCTTGGTTTTATCTCTAAAATATCGATTTTTCACAAT
63 CCCGTTATTTTC-GAAGGGATACTCTAACCCTGGTTTTATCTCCAAAATATTGATTTTTCACAAT
* * * *
4045849 CAGAAATACTCTAATCTCGTTATTTT-TGAG-
127 CAGAAATACTCCAACCCCGTTATTTTCTAAGA
* * * * ** * *
4045879 GAGATAGTTCAACCTCGTTTTTATTTTTAAAATATCAAATTTTTCACCATCGAGGATACTCCAAT
1 G-GATACTCCAACCCCATTTTT-TTTAAAAAATATCAAATTTTTCACCATTG-GGATACTCCAAC
* **
4045944 CCAGTTATTTTCGAAGGGATACTCTAACCCTGGTTTTATCTCCAAAATATTGATTTTTCACTTTC
63 CCCGTTATTTTCGAAGGGATACTCTAACCCTGGTTTTATCTCCAAAATATTGATTTTTCACAATC
*
4046009 A-AGGATACTCCAACCCCGTTATTTTCTAAGA
128 AGA-AATACTCCAACCCCGTTATTTTCTAAGA
* * * *
4046040 GGATACTCCAACCCCATTTTTTTTAAAAAATATTAAAATTTTCATC-TTGTGATACTCCAACCCC
1 GGATACTCCAACCCCATTTTTTTTAAAAAATATCAAATTTTTCACCATTGGGATACTCCAACCCC
** * * * *
4046104 GTTATTTT-TTAGAGGATACTCTAACCCCGTTTTTATCTCCAAATTATTAAATTTTTCA
66 GTTATTTTCGAAG-GGATACTCTAACCCTGGTTTTATCTCCAAAATATT-GATTTTTCA
4046162 TTGGGAGATA
Statistics
Matches: 229, Mismatches: 45, Indels: 19
0.78 0.15 0.06
Matches are distributed among these distances:
156 2 0.01
157 52 0.23
158 12 0.05
159 112 0.49
160 48 0.21
161 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (158 bp):
GGATACTCCAACCCCATTTTTTTTAAAAAATATCAAATTTTTCACCATTGGGATACTCCAACCCC
GTTATTTTCGAAGGGATACTCTAACCCTGGTTTTATCTCCAAAATATTGATTTTTCACAATCAGA
AATACTCCAACCCCGTTATTTTCTAAGA
Found at i:4046152 original size:78 final size:78
Alignment explanation
Indices: 4045933--4046162 Score: 245
Period size: 78 Copynumber: 2.9 Consensus size: 78
4045923 CACCATCGAG
* * * * * *
4045933 GATACTCCAATCCAGTTATTTTCGAAG-GGATACTCTAACCCTGGTTTTATCTCCAAAATATT-G
1 GATACTCCAACCCCGTTATTTT-TAAGAGGATACTCTAACCCCGTTTTTATCTCCAAAATATTAA
4045996 ATTTTTCA-CTTTCAA
65 ATTTTTCATCTTT--A
* * * **
4046011 GGATACTCCAACCCCGTTATTTTCTAAGAGGATACTCCAACCCCATTTTT-TTTAAAAAATATTA
1 -GATACTCCAACCCCGTTATTTT-TAAGAGGATACTCTAACCCCGTTTTTATCTCCAAAATATTA
*
4046075 AAATTTTCATCTTGT-
64 AATTTTTCATCTT-TA
* *
4046090 GATACTCCAACCCCGTTATTTTTTAGAGGATACTCTAACCCCGTTTTTATCTCCAAATTATTAAA
1 GATACTCCAACCCCGTTATTTTTAAGAGGATACTCTAACCCCGTTTTTATCTCCAAAATATTAAA
4046155 TTTTTCAT
66 TTTTTCAT
4046163 TGGGAGATAT
Statistics
Matches: 126, Mismatches: 20, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
77 23 0.18
78 41 0.33
79 34 0.27
80 24 0.19
81 3 0.02
82 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.10, T:0.39
Consensus pattern (78 bp):
GATACTCCAACCCCGTTATTTTTAAGAGGATACTCTAACCCCGTTTTTATCTCCAAAATATTAAA
TTTTTCATCTTTA
Found at i:4048301 original size:2 final size:2
Alignment explanation
Indices: 4048294--4048330 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
4048284 TACTTTTCTT
*
4048294 TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4048331 TTTCCAACCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4050812 original size:17 final size:17
Alignment explanation
Indices: 4050783--4050835 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
4050773 TCTCCCTTTT
4050783 TTTTTA-ATT-AATTTA
1 TTTTTATATTAAATTTA
4050798 TTTTTATATTAAATTATA
1 TTTTTATATTAAATT-TA
*
4050816 TTTTAATA-TAAATATTA
1 TTTTTATATTAAAT-TTA
4050833 TTT
1 TTT
4050836 CATCATTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
15 6 0.18
16 3 0.09
17 14 0.42
18 10 0.30
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTTATATTAAATTTA
Found at i:4050950 original size:41 final size:40
Alignment explanation
Indices: 4050901--4050992 Score: 106
Period size: 37 Copynumber: 2.4 Consensus size: 40
4050891 TAATATAAGA
* *
4050901 ATAATTTTAATAATTTATTTTTTTAATATAAATATA-ATTT
1 ATAATTTTAATAATTTA-TTATTTAACATAAATATACATTT
4050941 ATTAATTTT-A-AA-TTATTATTTAACATAAATATACATTT
1 A-TAATTTTAATAATTTATTATTTAACATAAATATACATTT
4050979 AT--TTTTAATAATTT
1 ATAATTTTAATAATTT
4050993 TTAATTATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
35 4 0.09
36 1 0.02
37 19 0.42
38 10 0.22
39 2 0.04
40 2 0.04
41 7 0.16
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.55
Consensus pattern (40 bp):
ATAATTTTAATAATTTATTATTTAACATAAATATACATTT
Found at i:4052536 original size:24 final size:25
Alignment explanation
Indices: 4052508--4052555 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
4052498 TTTTTATTAA
4052508 TTTTAAAATTTACA-TAAAATATTT
1 TTTTAAAATTTACATTAAAATATTT
** *
4052532 TTTTAATCTTTACATTATAATATT
1 TTTTAAAATTTACATTAAAATATT
4052556 ACACATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (25 bp):
TTTTAAAATTTACATTAAAATATTT
Found at i:4052708 original size:18 final size:17
Alignment explanation
Indices: 4052685--4052728 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
4052675 ATTTCATTTA
4052685 TTTTTAAATAAAATAAAT
1 TTTTTAAAT-AAATAAAT
** *
4052703 TTTTTATCTAAATTAAT
1 TTTTTAAATAAATAAAT
4052720 TTTTTAAAT
1 TTTTTAAAT
4052729 TTAATAATTT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTTTAAATAAATAAAT
Found at i:4055891 original size:18 final size:16
Alignment explanation
Indices: 4055866--4055918 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
4055856 AGTAGTCTTT
*
4055866 AAATATATGTTTTATA
1 AAATATATATTTTATA
4055882 AAATATATATTTTATA
1 AAATATATATTTTATA
*
4055898 AAAT-T-TAGTTTATTA
1 AAATATATATTTTA-TA
4055913 AAATAT
1 AAATAT
4055919 TCAAAATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
14 6 0.18
15 7 0.21
16 20 0.61
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (16 bp):
AAATATATATTTTATA
Found at i:4059345 original size:13 final size:13
Alignment explanation
Indices: 4059327--4059351 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4059317 CATAAAGTGT
4059327 TGTATCGATACAA
1 TGTATCGATACAA
4059340 TGTATCGATACA
1 TGTATCGATACA
4059352 TATTTTTTTT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4059505 original size:20 final size:21
Alignment explanation
Indices: 4059479--4059532 Score: 76
Period size: 20 Copynumber: 2.6 Consensus size: 21
4059469 ATTTGCCCAG
4059479 ATGTATCGATACATT-ATA-A
1 ATGTATCGATACATTGATATA
*
4059498 AGTGTATCGATACATTGTTATA
1 A-TGTATCGATACATTGATATA
4059520 ATGTATCGATACA
1 ATGTATCGATACA
4059533 AGGTCCCAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 1 0.03
20 14 0.45
21 14 0.45
22 2 0.06
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (21 bp):
ATGTATCGATACATTGATATA
Found at i:4059608 original size:13 final size:13
Alignment explanation
Indices: 4059590--4059614 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4059580 CATAAAGTGT
4059590 TGTATCGATACAA
1 TGTATCGATACAA
4059603 TGTATCGATACA
1 TGTATCGATACA
4059615 TATTTTTTTT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4059667 original size:263 final size:263
Alignment explanation
Indices: 4059237--4059775 Score: 1051
Period size: 263 Copynumber: 2.0 Consensus size: 263
4059227 TTGGTCCAAA
4059237 TGTATCGATACATTGTTATAATGTATCGATACAAGGTCCCAACGGTCAAAAATTTTGAATTTCAA
1 TGTATCGATACATTGTTATAATGTATCGATACAAGGTCCCAACGGTCAAAAATTTTGAATTTCAA
4059302 CGATTTGTATCGATACATAAAGTGTTGTATCGATACAATGTATCGATACATATTTTTTTTGTATC
66 CGATTTGTATCGATACATAAAGTGTTGTATCGATACAATGTATCGATACATATTTTTTTTGTATC
4059367 GATACAATTTAAGCTACTGCCAAAAAATGTATCGATACATTACTCAAATATATCGATACATTGTA
131 GATACAATTTAAGCTACTGCCAAAAAATGTATCGATACATTACTCAAATATATCGATACATTGTA
*
4059432 TCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATA
196 TCGATACACTGATCTTTGTATCGATACATGCAGCCAAATTTGCCCAGATGTATCGATACATTATA
4059497 AAG
261 AAG
4059500 TGTATCGATACATTGTTATAATGTATCGATACAAGGTCCCAACGGTCAAAAATTTTGAATTTCAA
1 TGTATCGATACATTGTTATAATGTATCGATACAAGGTCCCAACGGTCAAAAATTTTGAATTTCAA
4059565 CGATTTGTATCGATACATAAAGTGTTGTATCGATACAATGTATCGATACATATTTTTTTTGTATC
66 CGATTTGTATCGATACATAAAGTGTTGTATCGATACAATGTATCGATACATATTTTTTTTGTATC
*
4059630 GATACAATTTAAGCTACTGCCAAAAAATGTATCGATACATTACTCAAATGTATCGATACATTGTA
131 GATACAATTTAAGCTACTGCCAAAAAATGTATCGATACATTACTCAAATATATCGATACATTGTA
*
4059695 TCGATACACTGATCTTTGTATCGATACATGCAGCCAAATTTGCCTAGATGTATCGATACATTATA
196 TCGATACACTGATCTTTGTATCGATACATGCAGCCAAATTTGCCCAGATGTATCGATACATTATA
4059760 AAG
261 AAG
4059763 TGTATCGATACAT
1 TGTATCGATACAT
4059776 GCAGGCAAAT
Statistics
Matches: 273, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
263 273 1.00
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (263 bp):
TGTATCGATACATTGTTATAATGTATCGATACAAGGTCCCAACGGTCAAAAATTTTGAATTTCAA
CGATTTGTATCGATACATAAAGTGTTGTATCGATACAATGTATCGATACATATTTTTTTTGTATC
GATACAATTTAAGCTACTGCCAAAAAATGTATCGATACATTACTCAAATATATCGATACATTGTA
TCGATACACTGATCTTTGTATCGATACATGCAGCCAAATTTGCCCAGATGTATCGATACATTATA
AAG
Found at i:4059696 original size:13 final size:13
Alignment explanation
Indices: 4059678--4059702 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4059668 ATTACTCAAA
4059678 TGTATCGATACAT
1 TGTATCGATACAT
4059691 TGTATCGATACA
1 TGTATCGATACA
4059703 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4059767 original size:52 final size:52
Alignment explanation
Indices: 4059711--4059830 Score: 197
Period size: 52 Copynumber: 2.3 Consensus size: 52
4059701 CACTGATCTT
* *
4059711 TGTATCGATACATGCAGCCAAATTTGCCTAGATGTATCGATACATTA-TAAA
1 TGTATCGATACATGCAGCCAAATTTGCCCAGATGTATCGATACACTATTAAA
*
4059762 GTGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 -TGTATCGATACATGCAGCCAAATTTGCCCAGATGTATCGATACACTATTAAA
4059815 TGTATCGATACATGCA
1 TGTATCGATACATGCA
4059831 AGCAACTTTT
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
52 60 0.94
53 4 0.06
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGCCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:4064456 original size:161 final size:162
Alignment explanation
Indices: 4064150--4064472 Score: 549
Period size: 161 Copynumber: 2.0 Consensus size: 162
4064140 ATCCCCTCGT
**
4064150 AAGAATGGGGTTGGAGTATCCCTTCAGAAGTATAAGGCTGGAGTATCCTCGTGAATAAAAATTTT
1 AAGAATGGCATTGGAGTATCCCTTCAGAAGTATAAGGCTGGAGTATCCTCGTGAATAAAAATTTT
* * *
4064215 GATATTTTTTTGATAAAGAAAATTGATGCGAATGAGGATGGTAAAGATGTCAAAGTATTCGTGCC
66 GATA-TTTTTTGATAAAGAAAATTGATGCAAATGAGGATGATAAAGATGTAAAAGTATTCGTGCC
4064280 TTGATACTATCTAAGAGAGGTCTAAAAAGGATG
130 TTGATACTATCTAAGAGAGGTCTAAAAAGGATG
** *
4064313 AAGAATGGCATTGGAGTATCCCTTTGGAAGTATAAGGTTGGAGTATCCTCGTGAATAAAAATTTT
1 AAGAATGGCATTGGAGTATCCCTTCAGAAGTATAAGGCTGGAGTATCCTCGTGAATAAAAATTTT
4064378 GATA-TTTTTGATAAAGAAAATTGATGCAAATGAGGATGATAAAGATGTAAAAGTATTCGTGCCT
66 GATATTTTTTGATAAAGAAAATTGATGCAAATGAGGATGATAAAGATGTAAAAGTATTCGTGCCT
*
4064442 TGATACTGTCTAAGAGAGGTCTAAAAAGGAT
131 TGATACTATCTAAGAGAGGTCTAAAAAGGAT
4064473 TTTGAGGCTG
Statistics
Matches: 151, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
161 87 0.58
163 64 0.42
ACGTcount: A:0.36, C:0.09, G:0.24, T:0.30
Consensus pattern (162 bp):
AAGAATGGCATTGGAGTATCCCTTCAGAAGTATAAGGCTGGAGTATCCTCGTGAATAAAAATTTT
GATATTTTTTGATAAAGAAAATTGATGCAAATGAGGATGATAAAGATGTAAAAGTATTCGTGCCT
TGATACTATCTAAGAGAGGTCTAAAAAGGATG
Found at i:4066729 original size:51 final size:51
Alignment explanation
Indices: 4066653--4066767 Score: 160
Period size: 51 Copynumber: 2.3 Consensus size: 51
4066643 ATTTAATTGG
* * * *
4066653 ATGTATCCATACATTGAAGAATGTATCGATACATTTGGCTTAAAACCCTAA
1 ATGTATCAATACATTGAAGAATGTATCGATACATTTGGATCAAAACCCAAA
* *
4066704 ATGTATTAATACGATT-AAGAATGTATCGATACATTTGGATCGAAACCCAAA
1 ATGTATCAATAC-ATTGAAGAATGTATCGATACATTTGGATCAAAACCCAAA
4066755 ATGTATCAATACA
1 ATGTATCAATACA
4066768 ATAAAATTGT
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
50 1 0.02
51 52 0.93
52 3 0.05
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (51 bp):
ATGTATCAATACATTGAAGAATGTATCGATACATTTGGATCAAAACCCAAA
Found at i:4067939 original size:105 final size:104
Alignment explanation
Indices: 4067754--4068095 Score: 382
Period size: 105 Copynumber: 3.3 Consensus size: 104
4067744 TTCAAGGCCA
* * *
4067754 ACAATAAAAGGTGCCAATATACTGATTTAAGGCCAGC-ACTATTGGACTTAAAGATGGTAAGAGT
1 ACAATAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGA-TATTGGACTTAAAGATAG-AAGAGT
** *
4067818 GTTAATGTACTGATTCAAGGCTAGTGACATTGGACTTAAAG
64 GCCAATGTGCTGATTCAAGGCTAGTGACATTGGACTTAAAG
* * *
4067859 ACAATAAAAAGTGCCAATATGCTGATTCAAGGCTAGCGATATTAGACTTAAAGATAAGAAGAGTG
1 ACAATAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-AGAAGAGTG
* * * * *
4067924 CCAGTATGCTAATTCAAGGAC-AATGATATTGGACTTAAAG
65 CCAATGTGCTGATTCAAGG-CTAGTGACATTGGACTTAAAG
** * * * * * *
4067964 ATGATAAGAGGAGCCAATATGCTAATTCAAGACCAGCGACATTGGACTTAAAGATGACAAGAGTG
1 ACAATAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-AGAAGAGTG
* *
4068029 CCAACGTGCTGATTCAAGGCTAGTGACATTGGACTTAGAG
65 CCAATGTGCTGATTCAAGGCTAGTGACATTGGACTTAAAG
** *
4068069 ATGATAAAAGGTGCTAATATGCTGATT
1 ACAATAAAAGGTGCCAATATGCTGATT
4068096 AAAAGCTAGT
Statistics
Matches: 196, Mismatches: 37, Indels: 8
0.81 0.15 0.03
Matches are distributed among these distances:
104 1 0.01
105 192 0.98
106 3 0.02
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.25
Consensus pattern (104 bp):
ACAATAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAGAAGAGTGC
CAATGTGCTGATTCAAGGCTAGTGACATTGGACTTAAAG
Found at i:4067952 original size:52 final size:52
Alignment explanation
Indices: 4067759--4068091 Score: 221
Period size: 52 Copynumber: 6.4 Consensus size: 52
4067749 GGCCAACAAT
* * * * *
4067759 AAAAG-GTGCCAATATACTGATTTAAGGCCAGC-ACTATTGGACTTAAAGATG
1 AAAAGAGTGCCAATATGCTAATTCAAGGACAGCGA-TATTGGACTTAAAGATA
** ** * * * * * *
4067810 GTAAGAGTGTTAATGTACTGATTCAAGG-CTAGTGACATTGGACTTAAAGACA
1 AAAAGAGTGCCAATATGCTAATTCAAGGAC-AGCGATATTGGACTTAAAGATA
* * *
4067862 ATAAAAAGTGCCAATATGCTGATTCAAGG-CTAGCGATATTAGACTTAAAGATA
1 A-AAAGAGTGCCAATATGCTAATTCAAGGAC-AGCGATATTGGACTTAAAGATA
* * ** *
4067915 AGAAGAGTGCCAGTATGCTAATTCAAGGACAATGATATTGGACTTAAAGATG
1 AAAAGAGTGCCAATATGCTAATTCAAGGACAGCGATATTGGACTTAAAGATA
* * * *
4067967 ATAAGAGGAGCCAATATGCTAATTCAA-GACCAGCGACATTGGACTTAAAGATG
1 AAAAGA-GTGCCAATATGCTAATTCAAGGA-CAGCGATATTGGACTTAAAGATA
* ** * * * *
4068020 ACAAGAGTGCCAACGTGCTGATTCAAGG-CTAGTGACATTGGACTTAGAGATGA
1 AAAAGAGTGCCAATATGCTAATTCAAGGAC-AGCGATATTGGACTTAAAGAT-A
*
4068073 TAAAAG-GTGCTAATATGCT
1 -AAAAGAGTGCCAATATGCT
4068092 GATTAAAAGC
Statistics
Matches: 224, Mismatches: 47, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
51 5 0.02
52 117 0.52
53 98 0.44
54 4 0.02
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.25
Consensus pattern (52 bp):
AAAAGAGTGCCAATATGCTAATTCAAGGACAGCGATATTGGACTTAAAGATA
Found at i:4068187 original size:80 final size:80
Alignment explanation
Indices: 4068034--4068187 Score: 209
Period size: 80 Copynumber: 1.9 Consensus size: 80
4068024 GAGTGCCAAC
* ** * * * * *
4068034 GTGCTGATTCAAGGCTAGTGACATTGGACTTAGAGATGATAAAAGGTGCTAATATGCTGATTAAA
1 GTGCTGATTCAAGACTAACGACATTGGACTTAAAGATAACAAAAAGTGCCAATATGCTGATTAAA
*
4068099 AGCTAGTGTGCTAAT
66 AGCCAGTGTGCTAAT
*
4068114 GTGCTGATTCAAGACTAACGACATTGGACTTAAAGATAACAAAAAGTGCCAATATGCTGATTCAA
1 GTGCTGATTCAAGACTAACGACATTGGACTTAAAGATAACAAAAAGTGCCAATATGCTGATTAAA
*
4068179 GGCCAGTGT
66 AGCCAGTGT
4068188 TATTGGACTT
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
80 63 1.00
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.27
Consensus pattern (80 bp):
GTGCTGATTCAAGACTAACGACATTGGACTTAAAGATAACAAAAAGTGCCAATATGCTGATTAAA
AGCCAGTGTGCTAAT
Found at i:4068193 original size:53 final size:52
Alignment explanation
Indices: 4068136--4068243 Score: 144
Period size: 52 Copynumber: 2.1 Consensus size: 52
4068126 GACTAACGAC
* * *
4068136 ATTGGACTTAAAGATAACAAAAAGTGCCAATATGCTGATTCAAGGCCAGTGTT
1 ATTGGACTTAAAAAT-ACAAAAAGTGCCAATATGCTGATTCAAGGACAGTGAT
*** *
4068189 ATTGGACTTAAAAATGGTAAGAGTGCCAATATGCTGATTCAAGGACAGTGAT
1 ATTGGACTTAAAAATACAAAAAGTGCCAATATGCTGATTCAAGGACAGTGAT
4068241 ATT
1 ATT
4068244 AGATGTTAGG
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
52 34 0.71
53 14 0.29
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (52 bp):
ATTGGACTTAAAAATACAAAAAGTGCCAATATGCTGATTCAAGGACAGTGAT
Found at i:4068225 original size:132 final size:132
Alignment explanation
Indices: 4067983--4068227 Score: 339
Period size: 132 Copynumber: 1.9 Consensus size: 132
4067973 GGAGCCAATA
* * * *
4067983 TGCTAATTCAAGACCAGCGACATTGGACTTAAAGATGACAAGAGTGCCAACGTGCTGATTCAAGG
1 TGCTAATTCAAGACCAACGACATTGGACTTAAAGATAACAAAAGTGCCAACATGCTGATTCAAGG
* * * *
4068048 CTAGTGACATTGGACTTAGAGATGATAAAAGGTGCTAATATGCTGATTAAAAGCTAGTGTGCTAA
66 CCAGTGACATTGGACTTAAAAATGATAAAAGGTGCCAATATGCTGATTAAAAGCTAGTGTGCTAA
4068113 TG
131 TG
* * *
4068115 TGCTGATTCAAGACTAACGACATTGGACTTAAAGATAACAAAAAGTGCCAATATGCTGATTCAAG
1 TGCTAATTCAAGACCAACGACATTGGACTTAAAGATAAC-AAAAGTGCCAACATGCTGATTCAAG
** * *
4068180 GCCAGTGTTATTGGACTTAAAAATGGTAAGA-GTGCCAATATGCTGATT
65 GCCAGTGACATTGGACTTAAAAATGATAAAAGGTGCCAATATGCTGATT
4068228 CAAGGACAGT
Statistics
Matches: 97, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
132 51 0.53
133 46 0.47
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (132 bp):
TGCTAATTCAAGACCAACGACATTGGACTTAAAGATAACAAAAGTGCCAACATGCTGATTCAAGG
CCAGTGACATTGGACTTAAAAATGATAAAAGGTGCCAATATGCTGATTAAAAGCTAGTGTGCTAA
TG
Found at i:4069229 original size:13 final size:13
Alignment explanation
Indices: 4069211--4069236 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4069201 CAATTTTTTG
4069211 TGTATCGATACAT
1 TGTATCGATACAT
4069224 TGTATCGATACAT
1 TGTATCGATACAT
4069237 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4069251 original size:32 final size:33
Alignment explanation
Indices: 4069191--4069254 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
4069181 TACAAGCCAA
** *
4069191 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
4069224 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
4069255 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:4071783 original size:13 final size:13
Alignment explanation
Indices: 4071765--4071802 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
4071755 ATAATCCCCC
4071765 TGTATCGATACAG
1 TGTATCGATACAG
*
4071778 TGTATCGATACAT
1 TGTATCGATACAG
4071791 TGTATCGATACA
1 TGTATCGATACA
4071803 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:4073914 original size:15 final size:15
Alignment explanation
Indices: 4073878--4073915 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
4073868 TTCATCAATT
* *
4073878 TCATTTGGAGCTTCT
1 TCATTTTGAGCTTCC
4073893 TCATTTTGAGCTTCC
1 TCATTTTGAGCTTCC
4073908 TCATTTTG
1 TCATTTTG
4073916 GACATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.13, C:0.21, G:0.16, T:0.50
Consensus pattern (15 bp):
TCATTTTGAGCTTCC
Found at i:4078001 original size:13 final size:13
Alignment explanation
Indices: 4077983--4078008 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4077973 CAATTTTTTG
4077983 TGTATCGATACAT
1 TGTATCGATACAT
4077996 TGTATCGATACAT
1 TGTATCGATACAT
4078009 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4080123 original size:28 final size:28
Alignment explanation
Indices: 4080067--4080143 Score: 84
Period size: 28 Copynumber: 2.8 Consensus size: 28
4080057 GGAATAAAGC
***
4080067 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGATGAAGTAA
4080095 CGGGGTTGGAGTATCCCCGATG-AGATAA
1 CGGGGTTGGAGTATCCCCGATGAAG-TAA
** *
4080123 CGATGTTGGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
4080144 TGTGAAAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
27 2 0.05
28 40 0.95
ACGTcount: A:0.22, C:0.19, G:0.34, T:0.25
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAGTAA
Found at i:4080189 original size:54 final size:51
Alignment explanation
Indices: 4080129--4080250 Score: 154
Period size: 51 Copynumber: 2.3 Consensus size: 51
4080119 ATAACGATGT
* * * *
4080129 TGGAGTATCCTCGATTGTGAAAAAAATTGGTGTTTTTGGAAATAAAATCGGAGC
1 TGGAGTATCCCCGATTGT-AAAAAAA-TAGTG-TTTTGAAAATAAAATCGGAGA
* *
4080183 TGGAGTATCCCCGATTATAGAAAAATAGTGTTTTGAAAATAAAATCGGAGA
1 TGGAGTATCCCCGATTGTAAAAAAATAGTGTTTTGAAAATAAAATCGGAGA
*
4080234 TGGAATATCCCCGATTG
1 TGGAGTATCCCCGATTG
4080251 CGGAGAATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
51 34 0.57
52 4 0.07
53 6 0.10
54 16 0.27
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (51 bp):
TGGAGTATCCCCGATTGTAAAAAAATAGTGTTTTGAAAATAAAATCGGAGA
Found at i:4082630 original size:13 final size:13
Alignment explanation
Indices: 4082612--4082637 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4082602 ACAAAGATCC
4082612 ATGTATCGATACA
1 ATGTATCGATACA
4082625 ATGTATCGATACA
1 ATGTATCGATACA
4082638 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4082633 original size:33 final size:33
Alignment explanation
Indices: 4082591--4082657 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
4082581 AAAATTTCCA
***
4082591 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
4082624 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
4082657 A
1 A
4082658 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:4082701 original size:19 final size:18
Alignment explanation
Indices: 4082677--4082744 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
4082667 CAGTAGCTAA
4082677 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
4082696 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
4082711 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
4082728 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
4082745 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:4082717 original size:13 final size:13
Alignment explanation
Indices: 4082699--4082723 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4082689 ACAATACTTA
4082699 TGTATCGATACAT
1 TGTATCGATACAT
4082712 TGTATCGATACA
1 TGTATCGATACA
4082724 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4082721 original size:32 final size:32
Alignment explanation
Indices: 4082680--4082742 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
4082670 TAGCTAATTA
*
4082680 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
4082712 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
4082743 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:4082823 original size:21 final size:21
Alignment explanation
Indices: 4082799--4082844 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
4082789 CATTTGTAGG
4082799 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
4082820 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
4082841 ATGT
1 ATGT
4082845 CCATTTGGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:4091548 original size:13 final size:13
Alignment explanation
Indices: 4091530--4091556 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4091520 ACATATTGCT
4091530 TTGTATCGATACA
1 TTGTATCGATACA
4091543 TTGTATCGATACA
1 TTGTATCGATACA
4091556 T
1 T
4091557 GTTCTTGGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:4091554 original size:33 final size:32
Alignment explanation
Indices: 4091512--4091574 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
4091502 ACACCAAGAA
*
4091512 GTATCGATACATATTGCTTTGTATCGATACATT
1 GTATCGATACATATT-CTTGGTATCGATACATT
* *
4091545 GTATCGATACATGTTCTTGGTATTGATACA
1 GTATCGATACATATTCTTGGTATCGATACA
4091575 CAGTGAATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.41
Consensus pattern (32 bp):
GTATCGATACATATTCTTGGTATCGATACATT
Found at i:4091651 original size:13 final size:13
Alignment explanation
Indices: 4091635--4091660 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4091625 ATCAATATAG
4091635 TGTATCGATACAT
1 TGTATCGATACAT
4091648 TGTATCGATACAT
1 TGTATCGATACAT
4091661 GGTGAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4091969 original size:34 final size:35
Alignment explanation
Indices: 4091930--4092003 Score: 89
Period size: 34 Copynumber: 2.1 Consensus size: 35
4091920 ATTTTCGACA
*
4091930 TTTCAAAGAGCTTTTATATTC-TTTGTTG-TTATTC
1 TTTCAAAGAGCATTTATATTCTTTTG-TGCTTATTC
** *
4091964 TTTCAAAGCTCATTTGTATTCTTTTGTGCTTATTC
1 TTTCAAAGAGCATTTATATTCTTTTGTGCTTATTC
4091999 TTTCA
1 TTTCA
4092004 CAAACACCAG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
34 19 0.56
35 15 0.44
ACGTcount: A:0.19, C:0.15, G:0.11, T:0.55
Consensus pattern (35 bp):
TTTCAAAGAGCATTTATATTCTTTTGTGCTTATTC
Found at i:4092523 original size:52 final size:52
Alignment explanation
Indices: 4092416--4093039 Score: 553
Period size: 52 Copynumber: 11.9 Consensus size: 52
4092406 CCTTGAGCTT
* *
4092416 ACATTAGACTTAAAGATGATAAGAGGTGCTC-ATATGCTGATTCAAGGCTAACG
1 ACATTGGACTTAAAGATGATAAGA-GTGC-CAATATGCTGATTCAAGGCTAGCG
* * **
4092469 ACATTGGACTTAAAGATGACAAGACTGCCAACGTGCTGATTCAAGGCTAGCG
1 ACATTGGACTTAAAGATGATAAGAGTGCCAATATGCTGATTCAAGGCTAGCG
* * *
4092521 ACATTGGACTTAAAGATGATAAAATGTGCCAATATGCTGATTAAAGGCTAGTG
1 ACATTGGACTTAAAGATGATAAGA-GTGCCAATATGCTGATTCAAGGCTAGCG
* * * * *
4092574 ACATTGGACTTAAAGATGACAAGAGTGCCAATGTGCTGATTCAAGGCCAACA
1 ACATTGGACTTAAAGATGATAAGAGTGCCAATATGCTGATTCAAGGCTAGCG
* * * * * *
4092626 ACATTAGATTTAAAGATGATAAAATATGCTAATATGCTAATTCAAGG-TGAGCG
1 ACATTGGACTTAAAGATGATAAGA-GTGCCAATATGCTGATTCAAGGCT-AGCG
* * * * * * * *
4092679 ATATTTGACTTAAAAAATGATAAGAGTGCCATTGTGCCGCTTCGAGGCTAGCG
1 ACATTGGACTT-AAAGATGATAAGAGTGCCAATATGCTGATTCAAGGCTAGCG
* * *
4092732 ACATT-GACTTAAAGATGACAAGAGTGCCAATATGTTGATTCAAGGCTAGCA
1 ACATTGGACTTAAAGATGATAAGAGTGCCAATATGCTGATTCAAGGCTAGCG
* * * ** *
4092783 ATATTGGACTTAAAGATGATAAAAAGGGTCCAATATGCTGATTCAAATCCAGCG
1 ACATTGGACTTAAAGATGAT-AAGAGTG-CCAATATGCTGATTCAAGGCTAGCG
* * * *
4092837 ATATTAGG-CTTAGAGATGATAA-AGGTGCCAATATGCTGATTCTAGGCCAGCG
1 ACATT-GGACTTAAAGATGATAAGA-GTGCCAATATGCTGATTCAAGGCTAGCG
* ** * * * *
4092889 ACATTGGACTTAAAAAAAATAATG-GTGCTAATGTGCTGATTCTAGGCCAGCG
1 ACATTGGACTTAAAGATGATAA-GAGTGCCAATATGCTGATTCAAGGCTAGCG
** * * * *
4092941 ACATTGGACTTAAAGAAAATAATG-GTGCCAATGTGCTGATTCTAGGCCAGGG
1 ACATTGGACTTAAAGATGATAA-GAGTGCCAATATGCTGATTCAAGGCTAGCG
** * *
4092993 ACATTGGACTTAAAGAAAATAATG-GTGCCAATATGCTAATTCGAGGC
1 ACATTGGACTTAAAGATGATAA-GAGTGCCAATATGCTGATTCAAGGC
4093040 CAATGATATT
Statistics
Matches: 475, Mismatches: 82, Indels: 29
0.81 0.14 0.05
Matches are distributed among these distances:
51 39 0.08
52 260 0.55
53 126 0.27
54 48 0.10
55 2 0.00
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (52 bp):
ACATTGGACTTAAAGATGATAAGAGTGCCAATATGCTGATTCAAGGCTAGCG
Found at i:4092560 original size:105 final size:105
Alignment explanation
Indices: 4092416--4093008 Score: 576
Period size: 105 Copynumber: 5.7 Consensus size: 105
4092406 CCTTGAGCTT
* * * *
4092416 ACATTAGACTTAAAGATGATAAGAGGTGCTC-ATATGCTGATTCAAGGCTAACGACATTGGACTT
1 ACATTGGACTTAAAGATGATAAAATGTGC-CAATATGCTGATTCAAGGCTAGCGACATTGGACTT
* * *
4092480 AAAGATGACAAGACTGCCAACGTGCTGATTCAAGGCTAGCG
65 AAAGATGACAAGAGTGCCAATGTGCTGATTCAAGGCCAGCG
* *
4092521 ACATTGGACTTAAAGATGATAAAATGTGCCAATATGCTGATTAAAGGCTAGTGACATTGGACTTA
1 ACATTGGACTTAAAGATGATAAAATGTGCCAATATGCTGATTCAAGGCTAGCGACATTGGACTTA
* *
4092586 AAGATGACAAGAGTGCCAATGTGCTGATTCAAGGCCAACA
66 AAGATGACAAGAGTGCCAATGTGCTGATTCAAGGCCAGCG
* * * * * * *
4092626 ACATTAGATTTAAAGATGATAAAATATGCTAATATGCTAATTCAAGG-TGAGCGATATTTGACTT
1 ACATTGGACTTAAAGATGATAAAATGTGCCAATATGCTGATTCAAGGCT-AGCGACATTGGACTT
* * * * * * *
4092690 AAAAAATGATAAGAGTGCCATTGTGCCGCTTCGAGGCTAGCG
65 -AAAGATGACAAGAGTGCCAATGTGCTGATTCAAGGCCAGCG
* * * * *
4092732 ACATT-GACTTAAAGATGACAAGA-GTGCCAATATGTTGATTCAAGGCTAGCAATATTGGACTTA
1 ACATTGGACTTAAAGATGATAAAATGTGCCAATATGCTGATTCAAGGCTAGCGACATTGGACTTA
* * * * **
4092795 AAGATGATAAAAAGGGTCCAATATGCTGATTCAAATCCAGCG
66 AAGATGA-CAAGAGTG-CCAATGTGCTGATTCAAGGCCAGCG
* * * * *
4092837 ATATTAGG-CTTAGAGATGAT-AAAGGTGCCAATATGCTGATTCTAGGCCAGCGACATTGGACTT
1 ACATT-GGACTTAAAGATGATAAAATGTGCCAATATGCTGATTCAAGGCTAGCGACATTGGACTT
* ** * * *
4092900 AAAAAAAATAATG-GTGCTAATGTGCTGATTCTAGGCCAGCG
65 AAAGATGACAA-GAGTGCCAATGTGCTGATTCAAGGCCAGCG
* * * *
4092941 ACATTGGACTTAAAGA--A-AATAATGGTGCCAATGTGCTGATTCTAGGCCAGGGACATTGGACT
1 ACATTGGACTTAAAGATGATAA-AAT-GTGCCAATATGCTGATTCAAGGCTAGCGACATTGGACT
4093003 TAAAGA
64 TAAAGA
4093009 AAATAATGGT
Statistics
Matches: 398, Mismatches: 76, Indels: 29
0.79 0.15 0.06
Matches are distributed among these distances:
102 2 0.01
103 11 0.03
104 110 0.28
105 188 0.47
106 86 0.22
107 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (105 bp):
ACATTGGACTTAAAGATGATAAAATGTGCCAATATGCTGATTCAAGGCTAGCGACATTGGACTTA
AAGATGACAAGAGTGCCAATGTGCTGATTCAAGGCCAGCG
Found at i:4092856 original size:157 final size:155
Alignment explanation
Indices: 4092416--4093039 Score: 538
Period size: 158 Copynumber: 4.0 Consensus size: 155
4092406 CCTTGAGCTT
* * *
4092416 ACATTAGACTTAAAGATGATAAGAGGTGCTC-ATATGCTGATTCAAGGCTAACGACATTGGACTT
1 ACATTGGACTTAAAGATGACAAGA-GTGC-CAATATGCTGATTCAAGGCTAACAACATTGGACTT
* * * ** * * *
4092480 AAAGATGACAAGACTGCCAACGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGATAAAA
64 AAAGATGATAAAAATGCCAATATGCTGATTCAAGTCCAGCGATATTGG-CTTAAAGATGAT-AAA
* * *
4092545 TGTGCCAATATGCTGATTAAAGGCTAGTG
127 GGTGCCAATATGCTGATTCAAGGCTAGCG
* * * *
4092574 ACATTGGACTTAAAGATGACAAGAGTGCCAATGTGCTGATTCAAGGCCAACAACATTAGATTTAA
1 ACATTGGACTTAAAGATGACAAGAGTGCCAATATGCTGATTCAAGGCTAACAACATTGGACTTAA
* * * * *
4092639 AGATGATAAAATATGCTAATATGCTAATTCAAGGT-GAGCGATATTTGACTTAAAAAATGAT-AA
66 AGATGATAAAA-ATGCCAATATGCTGATTCAA-GTCCAGCGATA-TTGGCTT-AAAGATGATAAA
* * * * *
4092702 GAGTGCCATTGTGCCGCTTCGAGGCTAGCG
127 G-GTGCCAATATGCTGATTCAAGGCTAGCG
* * *
4092732 ACATT-GACTTAAAGATGACAAGAGTGCCAATATGTTGATTCAAGGCTAGCAATATTGGACTTAA
1 ACATTGGACTTAAAGATGACAAGAGTGCCAATATGCTGATTCAAGGCTAACAACATTGGACTTAA
* * *
4092796 AGATGATAAAAAGGGTCCAATATGCTGATTCAAATCCAGCGATATTAGGCTTAGAGATGATAAAG
66 AGATGATAAAAA-TG-CCAATATGCTGATTCAAGTCCAGCGATATT-GGCTTAAAGATGATAAAG
* *
4092861 GTGCCAATATGCTGATTCTAGGCCAGCG
128 GTGCCAATATGCTGATTCAAGGCTAGCG
* ** * * * * * * *
4092889 ACATTGGACTTAAAAAAAATAATG-GTGCTAATGTGCTGATTCTAGGCCAGCGACATTGGACTTA
1 ACATTGGACTTAAAGATGACAA-GAGTGCCAATATGCTGATTCAAGGCTAACAACATTGGACTTA
** *** * * * * * ** *
4092953 AAGAAAATAATGGTGCCAATGTGCTGATTCTAGGCCAGGGACATTGGACTTAAAGAAAATAATGG
65 AAGATGATAAAAATGCCAATATGCTGATTCAAGTCCAGCGATATTGG-CTTAAAGATGATAAAGG
* *
4093018 TGCCAATATGCTAATTCGAGGC
129 TGCCAATATGCTGATTCAAGGC
4093040 CAATGATATT
Statistics
Matches: 375, Mismatches: 77, Indels: 30
0.78 0.16 0.06
Matches are distributed among these distances:
155 2 0.01
156 59 0.16
157 147 0.39
158 154 0.41
159 13 0.03
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (155 bp):
ACATTGGACTTAAAGATGACAAGAGTGCCAATATGCTGATTCAAGGCTAACAACATTGGACTTAA
AGATGATAAAAATGCCAATATGCTGATTCAAGTCCAGCGATATTGGCTTAAAGATGATAAAGGTG
CCAATATGCTGATTCAAGGCTAGCG
Found at i:4093263 original size:58 final size:62
Alignment explanation
Indices: 4093144--4093472 Score: 166
Period size: 61 Copynumber: 5.5 Consensus size: 62
4093134 TGTGGGCCTT
*
4093144 GAAAAGCGTTGCCACAAAGTTGTGGACTTTTACAAATAGGGTGGCACGAAGTTGTGGACTTT-
1 GAAAAG-GTTGCCACAAAGTTGTGGACTTTTACAAATAGGGTGGCACAAAGTTGTGGACTTTA
* * * * * *
4093206 GTAAAGGTTGTCACGAAGTTGTGGAC-TTT-GAAA-AGGTTGTCACAAAGTTGTGGACTTTA
1 GAAAAGGTTGCCACAAAGTTGTGGACTTTTACAAATAGGGTGGCACAAAGTTGTGGACTTTA
* * * * * *
4093265 GAAAAGG-TACCATGAAA-TTGTGGAC--TT-CAAAAAAGGT-GC-CAGGAGTTGTGGACTTTG
1 GAAAAGGTTGCCA-CAAAGTTGTGGACTTTTACAAATAGGGTGGCACA-AAGTTGTGGACTTTA
* * * ** * * * * * *
4093322 GAAAAAGGGTGCCATAGAGTTGTAAACTTTGA-AAAAAGCGTGCCACAGAGTTATGGACTTT-
1 G-AAAAGGTTGCCACAAAGTTGTGGACTTTTACAAATAGGGTGGCACAAAGTTGTGGACTTTA
* * * ** * * * *** *
4093383 GAAAGGGGTGCTATTAAGTTGTGGAC-TTTAGAAA-AGGTTGCCAGGGAGTTGTGAACTTTA
1 GAAAAGGTTGCCACAAAGTTGTGGACTTTTACAAATAGGGTGGCACAAAGTTGTGGACTTTA
* *
4093443 GAAAAAGGTTGCCATAAAGTTATGGACTTT
1 G-AAAAGGTTGCCACAAAGTTGTGGACTTT
4093473 GAAAAGGATG
Statistics
Matches: 205, Mismatches: 46, Indels: 32
0.72 0.16 0.11
Matches are distributed among these distances:
56 2 0.01
57 20 0.10
58 44 0.21
59 43 0.21
60 26 0.13
61 47 0.23
62 21 0.10
63 2 0.01
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.28
Consensus pattern (62 bp):
GAAAAGGTTGCCACAAAGTTGTGGACTTTTACAAATAGGGTGGCACAAAGTTGTGGACTTTA
Found at i:4093380 original size:119 final size:117
Alignment explanation
Indices: 4093230--4093506 Score: 308
Period size: 119 Copynumber: 2.3 Consensus size: 117
4093220 GAAGTTGTGG
* * *
4093230 ACTTTGAAAAGGTTGTCACAAAGTTGTGGACTTTAGAAAAGGTACCATGAAATTGTGGACTTCAA
1 ACTTTGAAAAGGATGCCAC-AAGTTATGGACTTT-GAAAAGGTACCATGAAATTGTGGACTTCAA
* * * *
4093295 AAAAGG-TGCCA-GGAGTTGTGGACTTTGGAAAAAGGGTGCCATAGAGTTGTAA
64 AAAAGGTTGCCAGGGAGTTGTGAACTTTAGAAAAAGGGTGCCATAAAGTTATAA
* * * * *
4093347 ACTTTGAAAAAAGCG-TGCCACAGAGTTATGGACTTTGAAAGGGGTGCTATTAAGTTGTGGACTT
1 ACTTTG--AAAAG-GATGCCACA-AGTTATGGACTTTGAAA-AGGTACCATGAAATTGTGGACTT
* * * **
4093411 TAGAAAAGGTTGCCAGGGAGTTGTGAACTTTAGAAAAAGGTTGCCATAAAGTTATGG
61 CAAAAAAGGTTGCCAGGGAGTTGTGAACTTTAGAAAAAGGGTGCCATAAAGTTATAA
4093468 ACTTTGAAAAGGATGCCACTAAGTTATGGACTTTGAAAA
1 ACTTTGAAAAGGATGCCAC-AAGTTATGGACTTTGAAAA
4093507 AATGTGCCAC
Statistics
Matches: 134, Mismatches: 17, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
117 6 0.04
118 6 0.04
119 75 0.56
120 7 0.05
121 40 0.30
ACGTcount: A:0.34, C:0.11, G:0.27, T:0.27
Consensus pattern (117 bp):
ACTTTGAAAAGGATGCCACAAGTTATGGACTTTGAAAAGGTACCATGAAATTGTGGACTTCAAAA
AAGGTTGCCAGGGAGTTGTGAACTTTAGAAAAAGGGTGCCATAAAGTTATAA
Found at i:4093419 original size:90 final size:89
Alignment explanation
Indices: 4093192--4093689 Score: 288
Period size: 90 Copynumber: 5.6 Consensus size: 89
4093182 GGGTGGCACG
* * * * * * * * *
4093192 AAGTTGTGGACTTTGTAAAGGTTGTCACGAAGTTGTGGACTTTGAAAAGGTTGTCACAAAGTTGT
1 AAGTTATGGACTTTGAAAAGGATGCCACTAAGTTGTGGACTTTGAAAAGGGTGCCAGAGAGTTGT
** * *
4093257 GGACTTTAG-AAAAGG-TACCATGA
66 AAACTTTAGAAAAAGGTTGCCA-CA
* ** ** *
4093280 AA-TTGTGGACTTCAAAAAAGG-TGCCA-GGAGTTGTGGACTTTGGAAAAAGGGTGCCATAGAGT
1 AAGTTATGGACTT-TGAAAAGGATGCCACTAAGTTGTGGACTTT-G-AAAAGGGTGCCAGAGAGT
4093342 TGTAAACTTT-GAAAAAAGCG-TGCCACA
63 TGTAAACTTTAG-AAAAAG-GTTGCCACA
* * * * * * *
4093369 GAGTTATGGACTTTGAAAGGGGTGCTATTAAGTTGTGGACTTTAGAAAAGGTTGCCAGGGAGTTG
1 AAGTTATGGACTTTGAAAAGGATGCCACTAAGTTGTGGACTTT-GAAAAGGGTGCCAGAGAGTTG
* *
4093434 TGAACTTTAGAAAAAGGTTGCCATA
65 TAAACTTTAGAAAAAGGTTGCCACA
* ** ** *
4093459 AAGTTATGGACTTTGAAAAGGATGCCACTAAGTTATGGACTTTGAAAAAATGTGCCACTGAGTCG
1 AAGTTATGGACTTTGAAAAGGATGCCACTAAGTTGTGGACTTTG-AAAAGGGTGCCAGAGAGTTG
* * * *
4093524 TAGACTTTA-AGAAGGGATGCCAC-
65 TAAACTTTAGAAAAAGGTTGCCACA
* * * ** * **
4093547 -TGTGATGGACTTTGAAGAAGGGTGCCACTAAGTTGTGGACTTTGGGAATGGTGACCATTGA-TT
1 AAGTTATGGACTTTGAA-AAGGATGCCACTAAGTTGTGGACTTTGAAAAGGGTG-CCAGAGAGTT
* ** * * * *
4093610 CATGGACTTT-GAGAAGGGATGCCACT
64 -GTAAACTTTAGAAAAAGGTTGCCACA
**
4093636 AAGTCGTGGACTTTGAGAAAGG-TGCCACTAAG-TGTGGAC-TTGAAAAGGGTGCCA
1 AAGTTATGGACTTTGA-AAAGGATGCCACTAAGTTGTGGACTTTGAAAAGGGTGCCA
4093690 CTAAGTTATG
Statistics
Matches: 328, Mismatches: 63, Indels: 40
0.76 0.15 0.09
Matches are distributed among these distances:
86 17 0.05
87 45 0.14
88 88 0.27
89 34 0.10
90 128 0.39
91 16 0.05
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.27
Consensus pattern (89 bp):
AAGTTATGGACTTTGAAAAGGATGCCACTAAGTTGTGGACTTTGAAAAGGGTGCCAGAGAGTTGT
AAACTTTAGAAAAAGGTTGCCACA
Found at i:4093588 original size:88 final size:92
Alignment explanation
Indices: 4093464--4093681 Score: 260
Period size: 88 Copynumber: 2.5 Consensus size: 92
4093454 CCATAAAGTT
* * *
4093464 ATGGACTTTGAA-AAGGATGCCACTAAGTTATGGACTTTGAAAAAAT-GTG-CCACTGAGTCGTA
1 ATGGACTTTGAAGAAGGGTGCCACTAAGTTGTGGACTTTGAAAAAATGGTGACCACTGAGTCATA
4093526 GACTTTAAGAAGGGATGCCACT-GT-G
66 GACTTTAAGAAGGGATGCCACTAGTCG
** * * *
4093551 ATGGACTTTGAAGAAGGGTGCCACTAAGTTGTGGACTTTG--GGAATGGTGACCATTGATTCATG
1 ATGGACTTTGAAGAAGGGTGCCACTAAGTTGTGGACTTTGAAAAAATGGTGACCACTGAGTCATA
*
4093614 GACTTTGAGAAGGGATGCCACTAAGTCG
66 GACTTTAAGAAGGGATGCCACT-AGTCG
*
4093642 -TGGACTTTG-AGAAAGGTGCCACTAAG-TGTGGAC-TTGAAAA
1 ATGGACTTTGAAGAAGGGTGCCACTAAGTTGTGGACTTTGAAAA
4093682 GGGTGCCACT
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
86 3 0.03
87 18 0.16
88 62 0.56
89 16 0.14
90 11 0.10
91 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.27
Consensus pattern (92 bp):
ATGGACTTTGAAGAAGGGTGCCACTAAGTTGTGGACTTTGAAAAAATGGTGACCACTGAGTCATA
GACTTTAAGAAGGGATGCCACTAGTCG
Found at i:4093737 original size:28 final size:28
Alignment explanation
Indices: 4093141--4093731 Score: 234
Period size: 29 Copynumber: 20.1 Consensus size: 28
4093131 TTGTGTGGGC
* *
4093141 CTTGAAAAGCGTTGCCACAAAGTTGTGGA
1 CTTGAAAAG-GGTGCCACGAAGTTGTGGA
* *
4093170 CTTTTACAAATAGGGTGGCACGAAGTTGTGGA
1 C--TT-GAAA-AGGGTGCCACGAAGTTGTGGA
* * *
4093202 CTTTGTAAAGGTTGTCACGAAGTTGTGGA
1 C-TTGAAAAGGGTGCCACGAAGTTGTGGA
* * *
4093231 CTTTGAAAAGGTTGTCACAAAGTTGTGGA
1 C-TTGAAAAGGGTGCCACGAAGTTGTGGA
* * *
4093260 CTTTAGAAAA-GGTACCATGAAATTGTGGA
1 C-TT-GAAAAGGGTGCCACGAAGTTGTGGA
* * *
4093289 CTTCAAAAAAGGTGCCA-GGAGTTGTGGA
1 CTT-GAAAAGGGTGCCACGAAGTTGTGGA
* **
4093317 CTTTGGAAAAAGGGTGCCA-TAGAGTTGTAAA
1 C-TT-G-AAAAGGGTGCCACGA-AGTTGTGGA
* *
4093348 CTTTGAAAAAAGCGTGCCAC-AGAGTTATGGA
1 C-TTG--AAAAGGGTGCCACGA-AGTTGTGGA
* * **
4093379 CTTTGAAAGGGGTGCTATTAAGTTGTGGA
1 C-TTGAAAAGGGTGCCACGAAGTTGTGGA
* * * *
4093408 CTTTAGAAAAGGTTGCCAGGGAGTTGTGAA
1 C-TT-GAAAAGGGTGCCACGAAGTTGTGGA
* ** *
4093438 CTTTAGAAAAAGGTTGCCATAAAGTTATGGA
1 C-TT-G-AAAAGGGTGCCACGAAGTTGTGGA
* * *
4093469 CTTTGAAAAGGATGCCACTAAGTTATGGA
1 C-TTGAAAAGGGTGCCACGAAGTTGTGGA
** * *
4093498 CTTTGAAAAAATGTGCCACTG-AGTCGTAGA
1 C-TTG-AAAAGGGTGCCAC-GAAGTTGTGGA
* *
4093528 CTTTAAGAAGGGATGCCAC--TG-TGATGGA
1 CTTGAA-AAGGG-TGCCACGAAGTTG-TGGA
*
4093556 CTTTGAAGAAGGGTGCCACTAAGTTGTGGA
1 C-TTGAA-AAGGGTGCCACGAAGTTGTGGA
** * * *
4093586 CTTTGGGAATGGTGACCATTG-A-TTCATGGA
1 C-TTGAAAAGGGTG-CCA-CGAAGTT-GTGGA
* * *
4093616 CTTTGAGAAGGGATGCCACTAAGTCGTGGA
1 C-TTGAAAAGGG-TGCCACGAAGTTGTGGA
*
4093646 CTTTGAGAAA-GGTGCCACTAAG-TGTGGA
1 C-TTGA-AAAGGGTGCCACGAAGTTGTGGA
* *
4093674 CTTGAAAAGGGTGCCACTAAGTTATGGA
1 CTTGAAAAGGGTGCCACGAAGTTGTGGA
*
4093702 CTTGAAAAGGGTGCCACGGAGTTGTGGA
1 CTTGAAAAGGGTGCCACGAAGTTGTGGA
4093730 CT
1 CT
4093732 AAAAAATAAT
Statistics
Matches: 445, Mismatches: 85, Indels: 65
0.75 0.14 0.11
Matches are distributed among these distances:
26 3 0.01
27 17 0.04
28 67 0.15
29 153 0.34
30 112 0.25
31 71 0.16
32 20 0.04
33 2 0.00
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.27
Consensus pattern (28 bp):
CTTGAAAAGGGTGCCACGAAGTTGTGGA
Found at i:4094129 original size:9 final size:9
Alignment explanation
Indices: 4094115--4094146 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
4094105 ATGCAAACAA
4094115 TGATGTTAT
1 TGATGTTAT
4094124 TGATGTTAT
1 TGATGTTAT
4094133 TGATGTTA-
1 TGATGTTAT
4094141 TGATGT
1 TGATGT
4094147 CATGATCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 6 0.26
9 17 0.74
ACGTcount: A:0.22, C:0.00, G:0.25, T:0.53
Consensus pattern (9 bp):
TGATGTTAT
Found at i:4094146 original size:8 final size:8
Alignment explanation
Indices: 4094114--4094152 Score: 51
Period size: 9 Copynumber: 4.6 Consensus size: 8
4094104 GATGCAAACA
4094114 ATGATGTT
1 ATGATGTT
4094122 ATTGATGTT
1 A-TGATGTT
4094131 ATTGATGTT
1 A-TGATGTT
*
4094140 ATGATGTC
1 ATGATGTT
4094148 ATGAT
1 ATGAT
4094153 CATGGTGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
8 12 0.41
9 17 0.59
ACGTcount: A:0.26, C:0.03, G:0.23, T:0.49
Consensus pattern (8 bp):
ATGATGTT
Found at i:4101839 original size:20 final size:21
Alignment explanation
Indices: 4101798--4101845 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
4101788 AGAATAAGGT
*
4101798 AATGTATCGATACATAAGT-A
1 AATGTATCGATACATAACTAA
**
4101818 AATGTATCGATACATGTCTAA
1 AATGTATCGATACATAACTAA
4101839 AATGTAT
1 AATGTAT
4101846 TAATACAGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (21 bp):
AATGTATCGATACATAACTAA
Found at i:4101951 original size:52 final size:52
Alignment explanation
Indices: 4101883--4101982 Score: 155
Period size: 52 Copynumber: 1.9 Consensus size: 52
4101873 TTTTGAAAGA
* * *
4101883 AAATGTATCGATACATTTTTCATTGTATCAATACATTTTGGGTTTTTGACCC
1 AAATGTATCGATACATTATTCATCGTATCAATACATTTTGGGGTTTTGACCC
* *
4101935 AAATGTATTGATACATTATTCATCGTATCGATACATTTTGGGGTTTTG
1 AAATGTATCGATACATTATTCATCGTATCAATACATTTTGGGGTTTTG
4101983 TCAAGGCATG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.44
Consensus pattern (52 bp):
AAATGTATCGATACATTATTCATCGTATCAATACATTTTGGGGTTTTGACCC
Found at i:4102314 original size:50 final size:50
Alignment explanation
Indices: 4102239--4102354 Score: 223
Period size: 50 Copynumber: 2.3 Consensus size: 50
4102229 ATACATGTTT
*
4102239 AAAATGTATCGATATAGGACCATGTCGAGGCAAATTTGCATTCTAAAATC
1 AAAATGTATCGATACAGGACCATGTCGAGGCAAATTTGCATTCTAAAATC
4102289 AAAATGTATCGATACAGGACCATGTCGAGGCAAATTTGCATTCTAAAATC
1 AAAATGTATCGATACAGGACCATGTCGAGGCAAATTTGCATTCTAAAATC
4102339 AAAATGTATCGATACA
1 AAAATGTATCGATACA
4102355 TTTTTCATTG
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 65 1.00
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27
Consensus pattern (50 bp):
AAAATGTATCGATACAGGACCATGTCGAGGCAAATTTGCATTCTAAAATC
Found at i:4102404 original size:34 final size:35
Alignment explanation
Indices: 4102358--4102426 Score: 104
Period size: 34 Copynumber: 2.0 Consensus size: 35
4102348 CGATACATTT
*
4102358 TTCATTGTATCGATACATTAT-GGGTTTTGACCCA
1 TTCATTGGATCGATACATTATAGGGTTTTGACCCA
* *
4102392 TTCATTGGATCGATACATTCTAGGTTTTTGACCCA
1 TTCATTGGATCGATACATTATAGGGTTTTGACCCA
4102427 AATGTATCGA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
34 19 0.61
35 12 0.39
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.41
Consensus pattern (35 bp):
TTCATTGGATCGATACATTATAGGGTTTTGACCCA
Found at i:4104579 original size:98 final size:98
Alignment explanation
Indices: 4104416--4104623 Score: 240
Period size: 98 Copynumber: 2.1 Consensus size: 98
4104406 AGGATACTCT
* * * *
4104416 AACCTCATTTTTAAAACTTATCAAGATTTAAACCTTAATTTTGCTTAAATTTCCTTAATTAGGGA
1 AACCCCATTTTTAAAACTTATCAAAATTTAAACCTTAATTTTGCTTAAATTTCATTAATCAGGGA
* * * *
4104481 TACTCCATCCCCATTCTTCAGAGGGGATACCCC
66 TACTCCAACCCCATTCCTCAGAGGGCATACCAC
* ** * *
4104514 AACCCTATTTTTAAAACTTATCAAAATTTAATTCTT-ATCTTTGCTTAAATTATCATT-GTCGGG
1 AACCCCATTTTTAAAACTTATCAAAATTTAAACCTTAAT-TTTGCTTAAATT-TCATTAATCAGG
* * *
4104577 GATACTCCAACCTCATTCCTCCGAGGGCATACTAC
64 GATACTCCAACCCCATTCCTCAGAGGGCATACCAC
4104612 AACCCCATTTTT
1 AACCCCATTTTT
4104624 CAACCGAAAG
Statistics
Matches: 91, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
97 2 0.02
98 85 0.93
99 4 0.04
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.37
Consensus pattern (98 bp):
AACCCCATTTTTAAAACTTATCAAAATTTAAACCTTAATTTTGCTTAAATTTCATTAATCAGGGA
TACTCCAACCCCATTCCTCAGAGGGCATACCAC
Found at i:4105523 original size:28 final size:28
Alignment explanation
Indices: 4105491--4105548 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
4105481 TTTCGATCAT
4105491 TTCCTCTAAAATAATAAGGTTGGAAAAA
1 TTCCTCTAAAATAATAAGGTTGGAAAAA
*
4105519 TTCCTCTAAAATGATAAGGTTGGAAAAA
1 TTCCTCTAAAATAATAAGGTTGGAAAAA
4105547 TT
1 TT
4105549 TTTGGTTACA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.31
Consensus pattern (28 bp):
TTCCTCTAAAATAATAAGGTTGGAAAAA
Found at i:4112404 original size:20 final size:21
Alignment explanation
Indices: 4112379--4112420 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
4112369 GGAGATGTTG
4112379 AACATA-CTAAAAATGCATGA
1 AACATAGCTAAAAATGCATGA
*
4112399 AACATAGCTCAAAATGCATGA
1 AACATAGCTAAAAATGCATGA
4112420 A
1 A
4112421 CATGGCTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.52, C:0.17, G:0.12, T:0.19
Consensus pattern (21 bp):
AACATAGCTAAAAATGCATGA
Found at i:4112422 original size:20 final size:19
Alignment explanation
Indices: 4112377--4112423 Score: 67
Period size: 21 Copynumber: 2.4 Consensus size: 19
4112367 ATGGAGATGT
4112377 TGAACATACTAAAAATGCA
1 TGAACATACTAAAAATGCA
*
4112396 TGAAACATAGCTCAAAATGCA
1 TG-AACATA-CTAAAAATGCA
4112417 TGAACAT
1 TGAACAT
4112424 GGCTGTTTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 11 0.44
21 12 0.48
ACGTcount: A:0.49, C:0.17, G:0.13, T:0.21
Consensus pattern (19 bp):
TGAACATACTAAAAATGCA
Found at i:4114355 original size:105 final size:104
Alignment explanation
Indices: 4114205--4114504 Score: 252
Period size: 104 Copynumber: 2.9 Consensus size: 104
4114195 ATTGGAAGAA
* ** * * * *
4114205 TGCTAATGT-ACTGATTCAAGGCTAGCAACATTGAACTTAGGAATGA-TAAAGATGCTAGGATGC
1 TGCTAATGTGA-TGATTCAAGGCCAGCAACATTGAACTTAAAAATGACGAAAG-CGCCAAGATGC
* ***
4114268 TGACTT-AAAGCCAGTGATATCGGACTTAAAAAATGAAAAAGG
64 T-AATTCAAAGCCAACAATATCGGACTTAAAAAA-GAAAAAGG
* *
4114310 TGCTAATGTGATGATTCAAGGCCAGCGACATT-AGACTTAAAAATGACGAAAGCGCCAATATGCT
1 TGCTAATGTGATGATTCAAGGCCAGCAACATTGA-ACTTAAAAATGACGAAAGCGCCAAGATGCT
* * *
4114374 AATTCAAGGCCAACAATATTGGACTTAAGAAAGAAAAAGG
65 AATTCAAAGCCAACAATATCGGACTTAAAAAAGAAAAAGG
* * * * * * *
4114414 TGCCAATGTGCTGATTCAAGGCCAGTAATATTAAACTTAAGAAA-GACAAAAGTGCCAATG-TGC
1 TGCTAATGTGATGATTCAAGGCCAGCAACATTGAACTTAA-AAATGACGAAAGCGCCAA-GATGC
* * * *
4114477 TAATTCAAGGCCAGCGATATTGGACTTA
64 TAATTCAAAGCCAACAATATCGGACTTA
4114505 GAAAGAGATG
Statistics
Matches: 162, Mismatches: 26, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
104 86 0.53
105 71 0.44
106 5 0.03
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.24
Consensus pattern (104 bp):
TGCTAATGTGATGATTCAAGGCCAGCAACATTGAACTTAAAAATGACGAAAGCGCCAAGATGCTA
ATTCAAAGCCAACAATATCGGACTTAAAAAAGAAAAAGG
Found at i:4114381 original size:52 final size:52
Alignment explanation
Indices: 4114290--4114510 Score: 234
Period size: 52 Copynumber: 4.2 Consensus size: 52
4114280 AGTGATATCG
* * * * * *
4114290 GACTTAAAAAATGA-AAAAGGTGCTAATGTGATGATTCAAGGCCAGCGACATTA
1 GACTTAAGAAA-GACAAAA-GTGCCAATGTGCTAATTCAAGGCCAGCAATATTA
* * * * *
4114343 GACTTAA-AAATGACGAAAGCGCCAATATGCTAATTCAAGGCCAACAATATTG
1 GACTTAAGAAA-GACAAAAGTGCCAATGTGCTAATTCAAGGCCAGCAATATTA
* *
4114395 GACTTAAGAAAGA-AAAAGGTGCCAATGTGCTGATTCAAGGCCAGTAATATTA
1 GACTTAAGAAAGACAAAA-GTGCCAATGTGCTAATTCAAGGCCAGCAATATTA
* * *
4114447 AACTTAAGAAAGACAAAAGTGCCAATGTGCTAATTCAAGGCCAGCGATATTG
1 GACTTAAGAAAGACAAAAGTGCCAATGTGCTAATTCAAGGCCAGCAATATTA
4114499 GACTT-AGAAAGA
1 GACTTAAGAAAGA
4114511 GATGGTTTGA
Statistics
Matches: 141, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
51 10 0.07
52 114 0.81
53 17 0.12
ACGTcount: A:0.42, C:0.15, G:0.21, T:0.22
Consensus pattern (52 bp):
GACTTAAGAAAGACAAAAGTGCCAATGTGCTAATTCAAGGCCAGCAATATTA
Found at i:4114436 original size:104 final size:104
Alignment explanation
Indices: 4114284--4114510 Score: 305
Period size: 104 Copynumber: 2.2 Consensus size: 104
4114274 AAAGCCAGTG
* * * * *
4114284 ATATCGGACTTAAAAAATGAAAAAGGTGCTAATGTGATGATTCAAGGCCAGCGACATTAGACTTA
1 ATATTGGACTTAAGAAA-GAAAAAGGTGCCAATGTGATGATTCAAGGCCAGCAACATTAAACTTA
*
4114349 A-AAATGACGAAAGCGCCAATATGCTAATTCAAGGCCAACA
65 AGAAA-GACAAAAGCGCCAATATGCTAATTCAAGGCCAACA
* * *
4114389 ATATTGGACTTAAGAAAGAAAAAGGTGCCAATGTGCTGATTCAAGGCCAGTAATATTAAACTTAA
1 ATATTGGACTTAAGAAAGAAAAAGGTGCCAATGTGATGATTCAAGGCCAGCAACATTAAACTTAA
* * * *
4114454 GAAAGACAAAAGTGCCAATGTGCTAATTCAAGGCCAGCG
66 GAAAGACAAAAGCGCCAATATGCTAATTCAAGGCCAACA
4114493 ATATTGGACTT-AGAAAGA
1 ATATTGGACTTAAGAAAGA
4114511 GATGGTTTGA
Statistics
Matches: 108, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
103 7 0.06
104 83 0.77
105 18 0.17
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.22
Consensus pattern (104 bp):
ATATTGGACTTAAGAAAGAAAAAGGTGCCAATGTGATGATTCAAGGCCAGCAACATTAAACTTAA
GAAAGACAAAAGCGCCAATATGCTAATTCAAGGCCAACA
Found at i:4114610 original size:32 final size:32
Alignment explanation
Indices: 4114572--4115467 Score: 714
Period size: 32 Copynumber: 28.0 Consensus size: 32
4114562 TAGAAGGAGA
*
4114572 TGCCACCAACTTGTGTGGGCTTTTGAGAGGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAGAGGGT
* * * *
4114604 TACCACCGACTTATGTGGGCTTTTGAGAGAGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAGAG-GGT
** * *
4114637 TGCCACTGACTTGTGTAGACTTTAGAG-GGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAGAGGGT
* ** * *
4114668 TGCCACTAACTTGTGTGCACTTTTGAAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAGAGGGT
** * * * *
4114700 TGCCACCGGCATGTGTGGGCTTTAGAAAAAGAT
1 TGCCACCAACTTGTGTGGGCTTTAG-AGAGGGT
** *
4114733 TGCCACTGACTTGTGTGGGCTTTAGAGAAGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAGAGGGT
* * **
4114765 TGCCACCAACTTATGTGGGCTTTAGAAAAAGT
1 TGCCACCAACTTGTGTGGGCTTTAGAGAGGGT
* * * *
4114797 TGCCA-TAGACTTGTGTGGGATTTTGAAGAAGGT
1 TGCCACCA-ACTTGTGTGGGCTTTAG-AGAGGGT
* * *
4114830 TGCCACCAACTTGTATGGGCTTT-GAGAATGAT
1 TGCCACCAACTTGTGTGGGCTTTAGAG-AGGGT
* *
4114862 TGCCACCGACTTGTGTGGGCTTT-TAGAGGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAGAGGGT
* * *
4114893 CGCCACTACCTTGTGTGGGCTTTAGA-AGGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAGAGGGT
** * **
4114924 TGCCACTGACTTGTGTGGACTTTAGAGAAAGT
1 TGCCACCAACTTGTGTGGGCTTTAGAGAGGGT
*** * *
4114956 TGCCACTGCCTCGTATGGGCTTTA-AGAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAG-AGGGT
* **
4114988 TGCCACCAACTTGTGTGGGCTTTTGA-AGATAT
1 TGCCACCAACTTGTGTGGGCTTTAGAGAG-GGT
* *
4115020 TGCCACCGACTTGTGTGGGCTTCAGAG-GGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAGAGGGT
* *
4115051 TGCCACCGATTTGTGTGGGCTTTAGAGAAGGGTTT
1 TGCCACCAACTTGTGTGGGCTTTAGAG-AGGG--T
* * *
4115086 TGCCACCAACTTGTGTAGGCTTTTGAGAAGG-
1 TGCCACCAACTTGTGTGGGCTTTAGAGAGGGT
4115117 TGCCACCAACTTGTGTGGGCTTTAGA-AGAGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAGAG-GGT
* * *
4115149 TGCCACTAACTTTTGTGGGCTTTA-A-AGGGG
1 TGCCACCAACTTGTGTGGGCTTTAGAGAGGGT
* * * *
4115179 TGCCATCGACTTATGTGGGCTTTAAAGAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAG-AGGGT
**
4115212 TGCCACTGACTTGTGTGGGCTTTAGA-AGGGTT
1 TGCCACCAACTTGTGTGGGCTTTAGAGAGGG-T
*
4115244 TGCCACCAACTTGTGTTGGCTTTAGAG-GGG-
1 TGCCACCAACTTGTGTGGGCTTTAGAGAGGGT
* * * * *
4115274 TGCCATCGACTTGTGTAGGCTTTAAAAGAAGGT
1 TGCCACCAACTTGTGTGGGCTTT-AGAGAGGGT
* *
4115307 TGCCACCGACTTATGTGGGCTTTAGAAGAGGGT
1 TGCCACCAACTTGTGTGGGCTTTAG-AGAGGGT
* *
4115340 TGCCACCAACTTGTGTGGGCTTTTAAAGA-AGT
1 TGCCACCAACTTGTGTGGGC-TTTAGAGAGGGT
* *
4115372 TGCCACCAACTTGTGTGGGCTTGA-AAAGGGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAGA-GGGT
* *** *
4115404 TGTCACTGTCTTGTGTGGGCTTTAGA-AGAAGT
1 TGCCACCAACTTGTGTGGGCTTTAGAGAG-GGT
* *
4115436 TGCCACCAACTTATGTGGGCTTGAGA-AGGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAGAGGGT
4115467 T
1 T
4115468 ACTATCGACT
Statistics
Matches: 697, Mismatches: 134, Indels: 67
0.78 0.15 0.07
Matches are distributed among these distances:
30 45 0.06
31 151 0.22
32 317 0.45
33 152 0.22
34 8 0.01
35 24 0.03
ACGTcount: A:0.21, C:0.18, G:0.31, T:0.31
Consensus pattern (32 bp):
TGCCACCAACTTGTGTGGGCTTTAGAGAGGGT
Found at i:4115091 original size:256 final size:252
Alignment explanation
Indices: 4114563--4115467 Score: 884
Period size: 256 Copynumber: 3.5 Consensus size: 252
4114553 CATCGAGCTT
* * * * * *
4114563 AGAAGGAGATGCCACCAACTTGTGTGGGCTTTTGAGAGGGTTACCACCGACTTATGTGGGCTTTT
1 AGAAGG-GTTGCCACCAACTTGTGTGGGCTTTTGAGAAGATTGCCACCAACTTGTGTGGGCTTTT
* * * * * *
4114628 GAGAGAGGTTGCCACTGACTTGTGTAGACTTTAGAGGGGTTGCCACTAACTTGTGTGCACTTTTG
65 -AGAGAGGTTGCCACT-ACTTGTGTGGGCTTTAGAAGGGTTGCCACTGACTTGTGTGGACTTTAG
* * * * * **
4114693 A-AAGGGTTGCCACCGGCATGTGTGGGCTTTAGAAAAAGATTGCCACTGACTTGTGTGGGCTTTA
128 AGAAGGGTTGCCA-CTGCCTGTGTGGGCTTTA-AGAAGGGTTGCCACCAACTTGTGTGGGCTTTA
* * * * * ** * *
4114757 GAGAAGGTTGCCACCAACTTATGTGGGCTTTAGAAAAAGTTGCCATAGACTTGTGTGGGATTTTG
191 GAGAA--TTGCCACCGACTTGTGTGGGCTTAAG-AGAGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
4114822 AAGAA-GGTTGCCACCAACTTGTATGGGC-TTTGAGAATGATTGCCACCGACTTGTGTGGGCTTT
1 -AGAAGGGTTGCCACCAACTTGTGTGGGCTTTTGAGAA-GATTGCCACCAACTTGTGTGGGCTTT
*
4114885 TAGAG-GGTCGCCACTACCTTGTGTGGGCTTTAGAAGGGTTGCCACTGACTTGTGTGGACTTTAG
64 TAGAGAGGTTGCCACTA-CTTGTGTGGGCTTTAGAAGGGTTGCCACTGACTTGTGTGGACTTTAG
* * *
4114949 AGAA-AGTTGCCACTGCCTCGTATGGGCTTTAAGAAGGGTTGCCACCAACTTGTGTGGGCTTTTG
128 AGAAGGGTTGCCACTGCCT-GTGTGGGCTTTAAGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
* * *
4115013 AAGATATTGCCACCGACTTGTGTGGGCTTCAGAGGGGTTGCCACCGATTTGTGTGGGCTTTAG
192 -AGA-ATTGCCACCGACTTGTGTGGGCTTAAGAGAGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
4115076 AGAAGGGTTTTGCCACCAACTTGTGTAGGCTTTTGAGAAG-GTGCCACCAACTTGTGTGGGC-TT
1 AGAAGGG--TTGCCACCAACTTGTGTGGGCTTTTGAGAAGATTGCCACCAACTTGTGTGGGCTTT
* * * *
4115139 TAGAAGAGGTTGCCACTAACTTTTGTGGGCTTTA-AAGGGGTGCCA-TCGACTTATGTGGGCTTT
64 TAG-AGAGGTTGCCACT-ACTTGTGTGGGCTTTAGAAGGGTTGCCACT-GACTTGTGTGGACTTT
* * *
4115202 AAAGAAGGGTTGCCACTGACTTGTGTGGGCTTT-AGAAGGGTTTGCCACCAACTTGTGTTGGCTT
126 AGAGAAGGGTTGCCACTG-CCTGTGTGGGCTTTAAGAAGGG-TTGCCACCAACTTGTGTGGGCTT
*** * * * *
4115266 TAGAGGGGTGCCATCGACTTGTGTAGGCTTTAAAAGAAGGTTGCCACCGACTTATGTGGGCTTTA
189 TAGAGAATTGCCACCGACTTGTGTGGGC-TTAAGAG-AGGTTGCCACCGACTTGTGTGGGCTTTA
4115331 G
252 G
* *
4115332 A-AGAGGGTTGCCACCAACTTGTGTGGGCTTTTAAAGAAG-TTGCCACCAACTTGTGTGGGCTTG
1 AGA-AGGGTTGCCACCAACTTGTGTGGGCTTTT-GAGAAGATTGCCACCAACTTGTGTGGGCTTT
* * * * * * ** * *
4115395 AAAAGGGGTTGTCACTGTCTTGTGTGGGCTTTAGAAGAAGTTGCCACCAACTTATGTGGGC-TT-
64 TAGAGAGGTTGCCACT-ACTTGTGTGGGCTTTAGAAG-GGTTGCCACTGACTTGTGTGGACTTTA
4115458 GAGAAGGGTT
127 GAGAAGGGTT
4115468 ACTATCGACT
Statistics
Matches: 545, Mismatches: 75, Indels: 55
0.81 0.11 0.08
Matches are distributed among these distances:
253 4 0.01
254 73 0.13
255 179 0.33
256 197 0.36
257 43 0.08
258 44 0.08
259 1 0.00
260 4 0.01
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.30
Consensus pattern (252 bp):
AGAAGGGTTGCCACCAACTTGTGTGGGCTTTTGAGAAGATTGCCACCAACTTGTGTGGGCTTTTA
GAGAGGTTGCCACTACTTGTGTGGGCTTTAGAAGGGTTGCCACTGACTTGTGTGGACTTTAGAGA
AGGGTTGCCACTGCCTGTGTGGGCTTTAAGAAGGGTTGCCACCAACTTGTGTGGGCTTTAGAGAA
TTGCCACCGACTTGTGTGGGCTTAAGAGAGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:4115532 original size:34 final size:34
Alignment explanation
Indices: 4115490--4115625 Score: 113
Period size: 34 Copynumber: 4.1 Consensus size: 34
4115480 TGCAGGCTTC
* *
4115490 AAAA-GAAAAAAGATGCCACAGAGTTATGGATTT
1 AAAAGGAAAAAAGATGCCACAGAGTTGTGGAATT
* *
4115523 AAAAGGAAAAAGGATGCCAC-GAACTTGTGGAATT
1 AAAAGGAAAAAAGATGCCACAG-AGTTGTGGAATT
* * *
4115557 AAAAGG--AAAAGGTACCACAGAGTTGTGGACTT
1 AAAAGGAAAAAAGATGCCACAGAGTTGTGGAATT
* * * *
4115589 AAAAGGGAAAAGGCA--CCACGGAGTTGTGGACTT
1 AAAAGGAAAAAAG-ATGCCACAGAGTTGTGGAATT
4115622 AAAA
1 AAAA
4115626 AAGAAAAGGC
Statistics
Matches: 85, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
32 25 0.29
33 27 0.32
34 33 0.39
ACGTcount: A:0.44, C:0.12, G:0.26, T:0.18
Consensus pattern (34 bp):
AAAAGGAAAAAAGATGCCACAGAGTTGTGGAATT
Found at i:4115575 original size:66 final size:66
Alignment explanation
Indices: 4115505--4115659 Score: 188
Period size: 66 Copynumber: 2.3 Consensus size: 66
4115495 AAAAAAGATG
* *
4115505 CCACAGAGTTATGGATTTAAAAGGAAAAAGG-ATGCCACGAACTTGTGGAATT-AAAAGGAAAAG
1 CCACAGAGTTATGGACTTAAAAGGAAAAAGGCA--CCACGAACTTGTGGAATTAAAAAAGAAAAG
*
4115568 GTA
64 GCA
* * * * *
4115571 CCACAGAGTTGTGGACTTAAAAGGGAAAAGGCACCACGGAGTTGTGGACTTAAAAAAGAAAAGGC
1 CCACAGAGTTATGGACTTAAAAGGAAAAAGGCACCACGAACTTGTGGAATTAAAAAAGAAAAGGC
4115636 A
66 A
**
4115637 CCATGGAGTTATGGACTTAAAAG
1 CCACAGAGTTATGGACTTAAAAG
4115660 AGTGCCACAG
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
65 15 0.20
66 60 0.79
67 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.27, T:0.19
Consensus pattern (66 bp):
CCACAGAGTTATGGACTTAAAAGGAAAAAGGCACCACGAACTTGTGGAATTAAAAAAGAAAAGGC
A
Found at i:4115607 original size:33 final size:33
Alignment explanation
Indices: 4115505--4115659 Score: 154
Period size: 33 Copynumber: 4.7 Consensus size: 33
4115495 AAAAAAGATG
* * *
4115505 CCACAGAGTTATGGATTTAAAAGGAAAAAGG-A
1 CCACAGAGTTGTGGACTTAAAAGGGAAAAGGCA
* * *
4115537 TGCCAC-GAACTTGTGGAATTAAAA-GGAAAAGGTA
1 --CCACAG-AGTTGTGGACTTAAAAGGGAAAAGGCA
4115571 CCACAGAGTTGTGGACTTAAAAGGGAAAAGGCA
1 CCACAGAGTTGTGGACTTAAAAGGGAAAAGGCA
* **
4115604 CCACGGAGTTGTGGACTTAAAAAAGAAAAGGCA
1 CCACAGAGTTGTGGACTTAAAAGGGAAAAGGCA
** *
4115637 CCATGGAGTTATGGACTTAAAAG
1 CCACAGAGTTGTGGACTTAAAAG
4115660 AGTGCCACAG
Statistics
Matches: 104, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
32 18 0.17
33 68 0.65
34 18 0.17
ACGTcount: A:0.41, C:0.13, G:0.27, T:0.19
Consensus pattern (33 bp):
CCACAGAGTTGTGGACTTAAAAGGGAAAAGGCA
Found at i:4115678 original size:27 final size:27
Alignment explanation
Indices: 4115642--4115744 Score: 107
Period size: 27 Copynumber: 3.6 Consensus size: 27
4115632 AGGCACCATG
*
4115642 GAGTTATGGACTTAAAAGAGTGCCACA
1 GAGTTGTGGACTTAAAAGAGTGCCACA
* * *
4115669 GAGTGGTGGACTTGAAAAAAAAAAGCTGCCACG
1 GAGTTGTGGACTT-----AAAAGAG-TGCCACA
*
4115702 GAGTTGTGGACTTAAAAGAGTGCCACT
1 GAGTTGTGGACTTAAAAGAGTGCCACA
4115729 GAGTTGTGGACTTAAA
1 GAGTTGTGGACTTAAA
4115745 GGGAAAAGGT
Statistics
Matches: 63, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
27 33 0.52
28 6 0.10
32 6 0.10
33 18 0.29
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.22
Consensus pattern (27 bp):
GAGTTGTGGACTTAAAAGAGTGCCACA
Found at i:4115687 original size:60 final size:60
Alignment explanation
Indices: 4115604--4115744 Score: 194
Period size: 60 Copynumber: 2.4 Consensus size: 60
4115594 GGAAAAGGCA
* * *
4115604 CCACGGAGTTGTGGACTTAAAAAAGAAAAGGC-ACCATGGAGTTATGGACTTAAAAGAGTG
1 CCACAGAGTTGTGGACTTAAAAAA-AAAAAGCTACCACGGAGTTATGGACTTAAAAGAGTG
* * * *
4115664 CCACAGAGTGGTGGACTTGAAAAAAAAAAGCTGCCACGGAGTTGTGGACTTAAAAGAGTG
1 CCACAGAGTTGTGGACTTAAAAAAAAAAAGCTACCACGGAGTTATGGACTTAAAAGAGTG
*
4115724 CCACTGAGTTGTGGACTTAAA
1 CCACAGAGTTGTGGACTTAAA
4115745 GGGAAAAGGT
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
59 6 0.09
60 64 0.91
ACGTcount: A:0.36, C:0.15, G:0.28, T:0.21
Consensus pattern (60 bp):
CCACAGAGTTGTGGACTTAAAAAAAAAAAGCTACCACGGAGTTATGGACTTAAAAGAGTG
Found at i:4115779 original size:60 final size:60
Alignment explanation
Indices: 4115643--4115779 Score: 168
Period size: 60 Copynumber: 2.3 Consensus size: 60
4115633 GGCACCATGG
* **
4115643 AGTTATGGACTTAAAAGAGTGCCACAGAGTGGTGGACTTGAAAAAAAAAAGCTGCCACGG
1 AGTTGTGGACTTAAAAGAGTGCCACAGAGTGGTGGACTTGAAAAAAAAAAGCTGCCACAA
* * *** *
4115703 AGTTGTGGACTTAAAAGAGTGCCACTGAGTTGTGGACTT-AAAGGGAAAAGGTGCCACAA
1 AGTTGTGGACTTAAAAGAGTGCCACAGAGTGGTGGACTTGAAAAAAAAAAGCTGCCACAA
*
4115762 ATTTGTGGACTTGAAAAG
1 AGTTGTGGACTT-AAAAG
4115780 CAAAATGGGT
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
59 25 0.38
60 41 0.62
ACGTcount: A:0.36, C:0.13, G:0.29, T:0.22
Consensus pattern (60 bp):
AGTTGTGGACTTAAAAGAGTGCCACAGAGTGGTGGACTTGAAAAAAAAAAGCTGCCACAA
Found at i:4115839 original size:29 final size:29
Alignment explanation
Indices: 4115805--4115939 Score: 114
Period size: 29 Copynumber: 4.5 Consensus size: 29
4115795 GGAGTTGTGA
* *
4115805 ACTTTAAAAGAGATGCCATTAGGTCATGG
1 ACTTTAAAAGAGAAGCCACTAGGTCATGG
*
4115834 ATTTTAAAAGAGAAGCCACTAGGTCATGG
1 ACTTTAAAAGAGAAGCCACTAGGTCATGG
*
4115863 ACTTTAAAAGAAAAAGGGTGCCAC-AGAGTCATGG
1 ACTTTAAAAG-AGAA----GCCACTAG-GTCATGG
* *
4115897 ACTTTGAGAAGAGATGCCACT-GAGTCATGG
1 ACTTT-AAAAGAGAAGCCACTAG-GTCATGG
*
4115927 ACTTGAAAA-AGAA
1 ACTTTAAAAGAGAA
4115940 AAAAGGTGTC
Statistics
Matches: 87, Mismatches: 11, Indels: 17
0.76 0.10 0.15
Matches are distributed among these distances:
28 3 0.03
29 38 0.44
30 21 0.24
33 2 0.02
34 19 0.22
35 4 0.05
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.22
Consensus pattern (29 bp):
ACTTTAAAAGAGAAGCCACTAGGTCATGG
Found at i:4115878 original size:64 final size:65
Alignment explanation
Indices: 4115810--4115969 Score: 168
Period size: 64 Copynumber: 2.5 Consensus size: 65
4115800 TGTGAACTTT
* * *
4115810 AAAAGAGATGCCATTAG-GTCATGGA-TTTTAAAAGAGAAGCCACT-AGGTCATGGACTT-TAAA
1 AAAAG-GATGCCA-CAGAGTCATGGACTTTGAAAAGAGAAGCCACTGA-GTCATGGACTTGAAAA
4115871 AGA
63 AGA
* * *
4115874 AAAAGGGTGCCACAGAGTCATGGACTTTGAGAAGAGATGCCACTGAGTCATGGACTTGAAAAAGA
1 AAAAGGATGCCACAGAGTCATGGACTTTGAAAAGAGAAGCCACTGAGTCATGGACTTGAAAAAG-
4115939 A
65 A
* * *
4115940 AAAAGG-TGTCACGGAGTCGTGGACTTTGAA
1 AAAAGGATGCCACAGAGTCATGGACTTTGAA
4115970 GAAGGAAAAA
Statistics
Matches: 81, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
62 2 0.02
63 14 0.17
64 32 0.40
65 26 0.32
66 7 0.09
ACGTcount: A:0.38, C:0.14, G:0.28, T:0.21
Consensus pattern (65 bp):
AAAAGGATGCCACAGAGTCATGGACTTTGAAAAGAGAAGCCACTGAGTCATGGACTTGAAAAAGA
Found at i:4115966 original size:65 final size:65
Alignment explanation
Indices: 4115827--4115973 Score: 185
Period size: 65 Copynumber: 2.3 Consensus size: 65
4115817 ATGCCATTAG
* * *
4115827 GTCATGGA-TTTTAA-AAGAGAAGCCACTAGGTCATGGACTTTAAAAGAAAAAGGGTGCCACAGA
1 GTCATGGACTTTGAAGAAGAGAAGCCACTAGGTCATGGACTTAAAAAGAAAAAAGGTGCCACAGA
* * *
4115890 GTCATGGACTTTG-AGAAGAGATGCCACT-GAGTCATGGACTTGAAAAAGAAAAAAGGTGTCACG
1 GTCATGGACTTTGAAGAAGAGAAGCCACTAG-GTCATGGACTT-AAAAAGAAAAAAGGTGCCACA
4115953 GA
64 GA
*
4115955 GTCGTGGACTTTGAAGAAG
1 GTCATGGACTTTGAAGAAG
4115974 GAAAAAATTG
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
63 10 0.14
64 26 0.36
65 31 0.43
66 5 0.07
ACGTcount: A:0.37, C:0.14, G:0.29, T:0.21
Consensus pattern (65 bp):
GTCATGGACTTTGAAGAAGAGAAGCCACTAGGTCATGGACTTAAAAAGAAAAAAGGTGCCACAGA
Found at i:4124466 original size:13 final size:13
Alignment explanation
Indices: 4124448--4124474 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4124438 ATTTTAGGCA
4124448 TGTATCGATACAT
1 TGTATCGATACAT
4124461 TGTATCGATACAT
1 TGTATCGATACAT
4124474 T
1 T
4124475 TACTGTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4126018 original size:128 final size:128
Alignment explanation
Indices: 4125884--4126125 Score: 353
Period size: 128 Copynumber: 1.9 Consensus size: 128
4125874 CTTAAAAAGC
* * *
4125884 ATCATTTCGTACCTTAATAGATACCCGCAAAGATATGAAAAG-TTTTGAAACCTTTTATAATCCT
1 ATCATTTCATACCTTAATAGATACCCGAAAAGATATGAAAAGTTTTTG-AACCTTTTATAACCCT
*
4125948 AC-AGATACCCATAGGAATATACAAGATTAAAAATGATTAATATTTATTTATTTTTGGAAAAAAA
65 ACGA-ATACCCATAGGAATATAAAAGATTAAAAATGATTAATATTTATTTATTTTTGGAAAAAAA
* * * * * *
4126012 ATCATTTCATACGTTAATGGATAGCTGAAAAGATATGAAAAGTTTTTGAATCTTTTATACCCCTA
1 ATCATTTCATACCTTAATAGATACCCGAAAAGATATGAAAAGTTTTTGAACCTTTTATAACCCTA
*
4126077 CGAATACCCATAGGAATATAAAAGATTAAAAATGATTAATATTTGTTTA
66 CGAATACCCATAGGAATATAAAAGATTAAAAATGATTAATATTTATTTA
4126126 AATCATAAGG
Statistics
Matches: 101, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
128 95 0.94
129 6 0.06
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.34
Consensus pattern (128 bp):
ATCATTTCATACCTTAATAGATACCCGAAAAGATATGAAAAGTTTTTGAACCTTTTATAACCCTA
CGAATACCCATAGGAATATAAAAGATTAAAAATGATTAATATTTATTTATTTTTGGAAAAAAA
Found at i:4127066 original size:13 final size:13
Alignment explanation
Indices: 4127048--4127082 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
4127038 TTTCACTATT
4127048 TTTCTCTCTTTTC
1 TTTCTCTCTTTTC
4127061 TTTCTCT-TTTTC
1 TTTCTCTCTTTTC
4127073 -TTCTCTCTTT
1 TTTCTCTCTTT
4127083 GCTAGCTGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 6 0.29
12 8 0.38
13 7 0.33
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTCTCTCTTTTC
Found at i:4127670 original size:165 final size:166
Alignment explanation
Indices: 4127459--4128367 Score: 873
Period size: 166 Copynumber: 5.4 Consensus size: 166
4127449 AAAAACAGTA
* *** * * * **
4127459 TATGAGTTTTAAAAATCCTAAACTAAGAAAAATCCCCCCAAAAAAATTTACGAAGAAGAAAATTC
1 TATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTCAAAAAAATTTACGAAGTAGAAAACAC
* ** * * *
4127524 AGT-TTCTCTA-AAAAAGAGGCATTTCAACAAAAAAATCCAAAACTCATGAAAATGAATTAAGTT
66 CGTATT-TCTAGAAAAAG-GAAATTTCAAGAAAAAAATCAAAAACTCATGAAAATGAATGAA-TT
* *
4127587 TTT-AAAACTGAATTACTATGAATCAAATAATGATATTT
128 TTTGAAAACTGAATTAATATGAATCAAATAATAATATTT
* * * * *
4127625 TATGAATTTT-AAAATTTAAAACTAAGAAAAATCCCCTCGAAAAAATTTACGGAGTGGAAAACAC
1 TATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTCAAAAAAATTTACGAAGTAGAAAACAC
* *
4127689 CGTATTT-TAGAAAAAGGAAAATTTCAAGAAAAAAATCAAACATTCATGAAAATGAATGAATTTT
66 CGTATTTCTAGAAAAAGG-AAATTTCAAGAAAAAAATCAAAAACTCATGAAAATGAATGAATTTT
* *
4127753 TGAAAAATGAATTAATATGAATCAAATAATGATATTT
130 TGAAAACTGAATTAATATGAATCAAATAATAATATTT
* *
4127790 TATGAATTTTAAAATTTAAAAACCAAG-AAAATCCCCTCCAAAAAAATTTACGAAGTAGGAAACA
1 TATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCT-CAAAAAAATTTACGAAGTAGAAAACA
* * * *
4127854 CTGTATTTCGA-AAAAAGGAAAGTTTCAA-AGAAAAAATCAAAAACTTATGAAAATGATTGAATT
65 CCGTATTTCTAGAAAAAGGAAA-TTTCAAGA-AAAAAATCAAAAACTCATGAAAATGAATGAATT
* *
4127917 TTTGAAAA-TAGAATTAATATAAAAT-AAATGATAATATTT
128 TTTGAAAACT-GAATTAATAT-GAATCAAATAATAATATTT
* *
4127956 GATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCT-AAAAACAA-TTACGAAGTAGAAAATA
1 TATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTCAAAAA-AATTTACGAAGTAGAAAACA
* * * *
4128019 CCGTATTTC-AGAAAATGAGG-AATGTCAAGGGAAAAAATCAAAAATTAATGAAAATGAATGAAT
65 CCGTATTTCTAGAAAA--AGGAAATTTCAA-GAAAAAAATCAAAAACTCATGAAAATGAATGAAT
* * *
4128082 TTTTGAAAACGGAATTGATATGAATCAAATGATAATATTT
127 TTTTGAAAACTGAATTAATATGAATCAAATAATAATATTT
* * * *
4128122 TATGCATTTTAAAAATTAAAAACCAAGAAAAATCCCCTCGAAAAAAA-TTAGGGAGTAGAAAATA
1 TATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTC-AAAAAAATTTACGAAGTAGAAAACA
* * * * * * * * *
4128186 CCGTATTT-TGGACAAATGAGAGTTTCAAGAAAAAATTAAAAAACTCATGAAAATAAATTAATTG
65 CCGTATTTCTAGAAAAAGGA-AATTTCAAGAAAAAAATCAAAAACTCATGAAAATGAATGAATTT
*
4128250 TT-ACAAACTGATTTAATATGAAAT-AAATAATAATATTT
129 TTGA-AAACTGAATTAATATG-AATCAAATAATAATATTT
* * ** * * * *
4128288 GATAAAATTACAAAATTAAAAATTAAAAATTAAAAAAAATCCTCTCAAAAAAATTTACAAAGAAG
1 TAT-GAATT------TTAAAAATTAAAAACCAAGAAAAATCCCCTCAAAAAAATTTACGAAGTAG
*
4128353 AAAACCCCGTTATTT
59 AAAACACCG-TATTT
4128368 GAAAATAAGA
Statistics
Matches: 623, Mismatches: 84, Indels: 64
0.81 0.11 0.08
Matches are distributed among these distances:
164 9 0.01
165 189 0.30
166 309 0.50
167 58 0.09
168 5 0.01
172 7 0.01
173 41 0.07
174 5 0.01
ACGTcount: A:0.51, C:0.10, G:0.11, T:0.27
Consensus pattern (166 bp):
TATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTCAAAAAAATTTACGAAGTAGAAAACAC
CGTATTTCTAGAAAAAGGAAATTTCAAGAAAAAAATCAAAAACTCATGAAAATGAATGAATTTTT
GAAAACTGAATTAATATGAATCAAATAATAATATTT
Found at i:4128324 original size:8 final size:7
Alignment explanation
Indices: 4128291--4128323 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
4128281 AATATTTGAT
4128291 AAAATTA
1 AAAATTA
4128298 CAAAATTA
1 -AAAATTA
4128306 AAAATTA
1 AAAATTA
4128313 AAAATTA
1 AAAATTA
4128320 AAAA
1 AAAA
4128324 AAATCCTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAATTA
Found at i:4137170 original size:86 final size:86
Alignment explanation
Indices: 4137023--4137186 Score: 285
Period size: 86 Copynumber: 1.9 Consensus size: 86
4137013 ATTCATGGTA
* *
4137023 TACATTGCTTGGCCGAATGTTTGGAATGAATTTGTGGTGTGTTTCACTTTTGATTTGATGTATTT
1 TACATTGCTTGGCCGAATGTTTGGAATGAATTTATGGTGTGTTTCACTTTTGATTTAATGTATTT
4137088 TATATTAAATTTTGTGATGTG
66 TATATTAAATTTTGTGATGTG
4137109 TACATTGCTTGGCCGAATGTTTGGAATGAATTTATGGTGTGTTTCAC-TTTGATTTTAATGTATT
1 TACATTGCTTGGCCGAATGTTTGGAATGAATTTATGGTGTGTTTCACTTTTGA-TTTAATGTATT
*
4137173 TTATATTTAATTTT
65 TTATATTAAATTTT
4137187 ATGGATTTTT
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
85 5 0.07
86 69 0.93
ACGTcount: A:0.22, C:0.07, G:0.21, T:0.50
Consensus pattern (86 bp):
TACATTGCTTGGCCGAATGTTTGGAATGAATTTATGGTGTGTTTCACTTTTGATTTAATGTATTT
TATATTAAATTTTGTGATGTG
Found at i:4140749 original size:155 final size:156
Alignment explanation
Indices: 4139895--4140760 Score: 656
Period size: 156 Copynumber: 5.6 Consensus size: 156
4139885 ATGAGAAGAG
* * ** * *
4139895 GAACCTATCCGTAAGA-CCCACCTTCGGCATAAAAGTAGACTTGGTGACAACCTAGGAAT-TGAT
1 GAACCTATCC-TAA-ATCCCACCTTCGACATAAAAGCAGACCCGGTGACAACCTAGGACTCAG-T
* * * ** * * * ** * * *
4139958 TCTAAAAAAATTACGAAAATATGCCC-CTAGAAGATACCTTCGACGTGAAAGTATCTTGGTATCT
63 TCTAAGAAAATTAC-AAAA-ATACCCTATAGGGGATACCTTCGACATAAAAGTACCCCGATAACC
* * *
4140022 CTAAAGGACTTAAAGAGGATATAAAATGGGAT
126 CTAAAGGACTTAAA-AAGATTTTAAATGGGAT
* * *
4140054 GAACTTATCCTAAATGCCCATCTTCGACATAAAAACAGACCCGGTGACAACCTAGGACTC-GATT
1 GAACCTATCCTAAAT-CCCACCTTCGACATAAAAGCAGACCCGGTGACAACCTAGGACTCAG-TT
* * * * * *
4140118 CT-AGAAAAATACTAAAATACCC-CTAGGGGATACCTTCGATATAAAAGTA-CTCGATACCCCTA
64 CTAAGAAAATTACAAAAATACCCTATAGGGGATACCTTCGACATAAAAGTACCCCGATAACCCTA
*
4140180 AAGGAGTTAAAAAGGATTTTAAA-GGGAT
129 AAGGACTTAAAAA-GATTTTAAATGGGAT
* ** * **
4140208 GAACCTATCCTAAATGCCCATCTTCGACATAAAAGTGGACCCGGTGGCAACCTAGGAGC-CAACT
1 GAACCTATCCTAAAT-CCCACCTTCGACATAAAAGCAGACCCGGTGACAACCTAGGA-CTCAGTT
* * * *
4140272 CTAAG-AAATTACAAAAATGCCTCTAT-GGGTATACCTTCAACATAAAAGTATCCCGATAACCCT
64 CTAAGAAAATTACAAAAATACC-CTATAGGGGATACCTTCGACATAAAAGTACCCCGATAACCCT
* *
4140335 AAAAGACTTAAAAAGA-TTAAAGATGGGAT
128 AAAGGACTTAAAAAGATTTTAA-ATGGGAT
* * *
4140364 GAACCTATCCTAATTTCCCACCTTC-AGCATAAAAGCAGACCTGGTGACAACCTAGGACTCGACT
1 GAACCTATCCTAA-ATCCCACCTTCGA-CATAAAAGCAGACCCGGTGACAACCTAGGACTC-AGT
** * *
4140428 T-T-AGAAAATTATGAAAATACCCATATAGGTG-TACCTTCGACATGAAAA-TATCCCGATAACC
63 TCTAAGAAAATTACAAAAATACCC-TATAGGGGATACCTTCGACAT-AAAAGTACCCCGATAACC
* ** *
4140489 CTAGAGGACTTAAAAAGATTAGAGATGGGAT
126 CTAAAGGACTTAAAAAGATTTTAAATGGGAT
*** * * *** * * * * * *
4140520 GAACCTATCCTAAATGCTTGCCTTTGCCATAAAAATGGACTCAGTGACAAGCTAGAACTCGGTTT
1 GAACCTATCCTAAAT-CCCACCTTCGACATAAAAGCAGACCCGGTGACAACCTAGGACTCAGTTC
* * * *
4140585 TAA-AAAATTACAAAAATACTCT-TAGGGGATACCTTTGACGTAAAAGTACCCC-AGCAACCCTA
65 TAAGAAAATTACAAAAATACCCTATAGGGGATACCTTCGACATAAAAGTACCCCGA-TAACCCTA
* * * *
4140647 GAGCACTTAAAAGGCTTTTAAATGGGAT
129 AAGGACTTAAAAAGATTTTAAATGGGAT
* * * * * *
4140675 GAACCTATCCTAAATACCACCATCGACGTGAAAGCAGACTCGGTGACAACCTAAGACTCAGTTCT
1 GAACCTATCCTAAATCCCACCTTCGACATAAAAGCAGACCCGGTGACAACCTAGGACTCAGTTCT
*
4140740 AAGAAAATTACAAAAACACCC
66 AAGAAAATTACAAAAATACCC
4140761 CTAAAGAACT
Statistics
Matches: 565, Mismatches: 113, Indels: 62
0.76 0.15 0.08
Matches are distributed among these distances:
154 123 0.22
155 138 0.24
156 226 0.40
157 16 0.03
158 11 0.02
159 51 0.09
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.23
Consensus pattern (156 bp):
GAACCTATCCTAAATCCCACCTTCGACATAAAAGCAGACCCGGTGACAACCTAGGACTCAGTTCT
AAGAAAATTACAAAAATACCCTATAGGGGATACCTTCGACATAAAAGTACCCCGATAACCCTAAA
GGACTTAAAAAGATTTTAAATGGGAT
Found at i:4142150 original size:20 final size:20
Alignment explanation
Indices: 4142125--4142178 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
4142115 CTATCATTGT
*
4142125 TTGTATCGATACATGGGATA
1 TTGTATCGATACATGGGACA
*
4142145 TTGTATCGATACATTGGACA
1 TTGTATCGATACATGGGACA
4142165 TTGTATCGATACAT
1 TTGTATCGATACAT
4142179 AGTAAAATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGGGACA
Found at i:4142189 original size:20 final size:20
Alignment explanation
Indices: 4142125--4142197 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
4142115 CTATCATTGT
* *
4142125 TTGTATCGATACATGGGATA
1 TTGTATCGATACATAGGAAA
* *
4142145 TTGTATCGATACATTGGACA
1 TTGTATCGATACATAGGAAA
*
4142165 TTGTATCGATACATAGTAAA
1 TTGTATCGATACATAGGAAA
* *
4142185 ATGTATCAATACA
1 TTGTATCGATACA
4142198 ATGTGCCCAA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (20 bp):
TTGTATCGATACATAGGAAA
Found at i:4146866 original size:20 final size:20
Alignment explanation
Indices: 4146841--4146915 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
4146831 TTTTACCTAG
4146841 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
4146861 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
4146881 ACT-TATCGATACATTCTTCA
1 A-TGTATCGATACATTTTTCA
*
4146901 ATGTATCAATACATT
1 ATGTATCGATACATT
4146916 CTGTCTTTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 1 0.02
20 43 0.96
21 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:4156031 original size:13 final size:13
Alignment explanation
Indices: 4156013--4156038 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4156003 AATTTTTTGG
4156013 TGTATCGATACAT
1 TGTATCGATACAT
4156026 TGTATCGATACAT
1 TGTATCGATACAT
4156039 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4158472 original size:21 final size:21
Alignment explanation
Indices: 4158448--4158494 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
4158438 TTTGAAGCTG
4158448 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
*
4158468 AATTTGAAGTGAAAAACAAGT
1 ATTTTGAAGTGAAAAACAAGT
4158489 ATTTTG
1 ATTTTG
4158495 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 5 0.22
21 10 0.43
22 8 0.35
ACGTcount: A:0.45, C:0.04, G:0.19, T:0.32
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:4158633 original size:13 final size:13
Alignment explanation
Indices: 4158615--4158653 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
4158605 ATAATCCCCC
*
4158615 TGTATCGATACAG
1 TGTATCGATACAA
4158628 TGTATCGATACAA
1 TGTATCGATACAA
4158641 TGTATCGATACAA
1 TGTATCGATACAA
4158654 AGAAAGATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4163211 original size:9 final size:9
Alignment explanation
Indices: 4163197--4163229 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
4163187 TCTTCATCAA
4163197 CATCTTCAT
1 CATCTTCAT
4163206 CATCTTCAT
1 CATCTTCAT
4163215 CATCTTCAT
1 CATCTTCAT
*
4163224 CGTCTT
1 CATCTT
4163230 TGATAGTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.18, C:0.33, G:0.03, T:0.45
Consensus pattern (9 bp):
CATCTTCAT
Found at i:4164841 original size:13 final size:13
Alignment explanation
Indices: 4164823--4164848 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4164813 AATTTTTTGG
4164823 TGTATCGATACAT
1 TGTATCGATACAT
4164836 TGTATCGATACAT
1 TGTATCGATACAT
4164849 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4165675 original size:17 final size:19
Alignment explanation
Indices: 4165653--4165690 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
4165643 AATTTGATGT
4165653 TTAATTATG-TTG-TTAAA
1 TTAATTATGTTTGTTTAAA
4165670 TTAATTATGTTTGTTTAAA
1 TTAATTATGTTTGTTTAAA
4165689 TT
1 TT
4165691 TGAATTTAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.47
18 3 0.16
19 7 0.37
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.58
Consensus pattern (19 bp):
TTAATTATGTTTGTTTAAA
Done.