Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007800.1 Hibiscus syriacus cultivar Beakdansim tig00110114_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 4652821
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 21 of 23
Found at i:4094115 original size:9 final size:9
Alignment explanation
Indices: 4094101--4094127 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
4094091 ACACTCTCCT
4094101 TTCATTTTA
1 TTCATTTTA
4094110 TTCATTTTA
1 TTCATTTTA
4094119 TTCATTTTA
1 TTCATTTTA
4094128 AACCAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.67
Consensus pattern (9 bp):
TTCATTTTA
Found at i:4095269 original size:31 final size:28
Alignment explanation
Indices: 4095211--4095287 Score: 86
Period size: 31 Copynumber: 2.6 Consensus size: 28
4095201 CTTTTTCATT
4095211 TAAGTACTTAAAGTATTTTTGATCAAAA
1 TAAGTACTTAAAGTATTTTTGATCAAAA
4095239 TAAGTACTTAAAGTTATCTTTTTGGA-CAAAA
1 TAAGTACTTAAAG-TA--TTTTT-GATCAAAA
*
4095270 T-AGATACCTAAAGTATTT
1 TAAG-TACTTAAAGTATTT
4095288 AATTTTTTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
28 16 0.37
29 2 0.05
30 4 0.09
31 19 0.44
32 2 0.05
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.39
Consensus pattern (28 bp):
TAAGTACTTAAAGTATTTTTGATCAAAA
Found at i:4095400 original size:29 final size:30
Alignment explanation
Indices: 4095363--4095431 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 30
4095353 AAAAATATTG
* * *
4095363 AATAATTTATGTACATGTTTTGA-CAAAAA
1 AATATTTTAGGTACATATTTTGATCAAAAA
4095392 AATATTTTAGGTACATATTTTGATCAAAAA
1 AATATTTTAGGTACATATTTTGATCAAAAA
*
4095422 GATAATTTTA
1 AAT-ATTTTA
4095432 AATATTTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 20 0.59
30 8 0.24
31 6 0.18
ACGTcount: A:0.43, C:0.06, G:0.10, T:0.41
Consensus pattern (30 bp):
AATATTTTAGGTACATATTTTGATCAAAAA
Found at i:4103402 original size:31 final size:29
Alignment explanation
Indices: 4103367--4103463 Score: 97
Period size: 31 Copynumber: 3.2 Consensus size: 29
4103357 AGTTAATTTT
4103367 TAATTTGACCCCTAAACTTTAGATAAAATA
1 TAATTT-ACCCCTAAACTTTAGATAAAATA
* * * *
4103397 CTAATTTA-ACTTAAACTTTATATACAATA
1 -TAATTTACCCCTAAACTTTAGATAAAATA
*
4103426 TCATTCTTACCCCTAAACTTTAGATAAAATA
1 T-AAT-TTACCCCTAAACTTTAGATAAAATA
4103457 TCAATTT
1 T-AATTT
4103464 TGATCTCTAA
Statistics
Matches: 53, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
28 1 0.02
29 19 0.36
30 6 0.11
31 27 0.51
ACGTcount: A:0.41, C:0.18, G:0.03, T:0.38
Consensus pattern (29 bp):
TAATTTACCCCTAAACTTTAGATAAAATA
Found at i:4112367 original size:16 final size:16
Alignment explanation
Indices: 4112346--4112378 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
4112336 TAATAAATAA
4112346 ACGAACATAAAGGAAC
1 ACGAACATAAAGGAAC
*
4112362 ACGAACATAAATGAAC
1 ACGAACATAAAGGAAC
4112378 A
1 A
4112379 AAAATTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.58, C:0.18, G:0.15, T:0.09
Consensus pattern (16 bp):
ACGAACATAAAGGAAC
Found at i:4112471 original size:16 final size:16
Alignment explanation
Indices: 4112448--4112492 Score: 81
Period size: 16 Copynumber: 2.8 Consensus size: 16
4112438 TAATAAATAA
4112448 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
4112464 ATGAACATAAACGAAC
1 ACGAACATAAACGAAC
4112480 ACGAACATAAACG
1 ACGAACATAAACG
4112493 TTGGAGGTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.56, C:0.22, G:0.13, T:0.09
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:4113596 original size:10 final size:10
Alignment explanation
Indices: 4113581--4113628 Score: 51
Period size: 10 Copynumber: 4.4 Consensus size: 10
4113571 ATAAATGAAT
4113581 GAACATAAAC
1 GAACATAAAC
4113591 GAACATAACCGAAC
1 GAACAT-A---AAC
4113605 GAACATAAAC
1 GAACATAAAC
*
4113615 GAACATAACC
1 GAACATAAAC
4113625 GAAC
1 GAAC
4113629 GTTCACGAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
10 22 0.67
11 1 0.03
13 1 0.03
14 9 0.27
ACGTcount: A:0.54, C:0.25, G:0.12, T:0.08
Consensus pattern (10 bp):
GAACATAAAC
Found at i:4113605 original size:14 final size:14
Alignment explanation
Indices: 4113588--4113629 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
4113578 AATGAACATA
4113588 AACGAACATAACCG
1 AACGAACATAACCG
4113602 AACGAACAT-A---
1 AACGAACATAACCG
4113612 AACGAACATAACCG
1 AACGAACATAACCG
4113626 AACG
1 AACG
4113630 TTCACGAACG
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
10 9 0.38
11 1 0.04
13 1 0.04
14 13 0.54
ACGTcount: A:0.52, C:0.26, G:0.14, T:0.07
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:4113608 original size:24 final size:24
Alignment explanation
Indices: 4113581--4113629 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
4113571 ATAAATGAAT
4113581 GAACATAAACGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
4113605 GAACATAAACGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
4113629 G
1 G
4113630 TTCACGAACG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.53, C:0.24, G:0.14, T:0.08
Consensus pattern (24 bp):
GAACATAAACGAACATAACCGAAC
Found at i:4121252 original size:26 final size:28
Alignment explanation
Indices: 4121223--4121278 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
4121213 TTTATATCAA
4121223 TATTCATTAAAA-T-ATAAATATTATAT
1 TATTCATTAAAATTAATAAATATTATAT
**
4121249 TATTTTTTAAAATTCAATAAATATTATAT
1 TATTCATTAAAATT-AATAAATATTATAT
4121278 T
1 T
4121279 TATAATTAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 10 0.40
27 1 0.04
29 14 0.56
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (28 bp):
TATTCATTAAAATTAATAAATATTATAT
Found at i:4138060 original size:35 final size:34
Alignment explanation
Indices: 4137975--4138061 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
4137965 AATATAATTT
*
4137975 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAATGG
* *
4138009 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--GA-ATTAAATGG
4138047 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
4138062 AGTGAATACA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 5 0.11
38 10 0.22
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.26
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAATGG
Found at i:4138679 original size:18 final size:18
Alignment explanation
Indices: 4138656--4138690 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4138646 AAGGCGCCGG
*
4138656 CATCATATATGGCTGCGA
1 CATCATAAATGGCTGCGA
4138674 CATCATAAATGGCTGCG
1 CATCATAAATGGCTGCG
4138691 GTGGCTACTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (18 bp):
CATCATAAATGGCTGCGA
Found at i:4140465 original size:10 final size:10
Alignment explanation
Indices: 4140450--4140474 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
4140440 CTTAAACTGA
4140450 GAGAGTATTT
1 GAGAGTATTT
4140460 GAGAGTATTT
1 GAGAGTATTT
4140470 GAGAG
1 GAGAG
4140475 AATATGGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (10 bp):
GAGAGTATTT
Found at i:4143780 original size:35 final size:35
Alignment explanation
Indices: 4143715--4143781 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
4143705 GTCTTAAGTC
* *
4143715 TATAAGGAATTACCAGTTCGATCGGTCTGAACCTA
1 TATAAGGAATTACCAATTCGACCGGTCTGAACCTA
*
4143750 TATAAGGAATTACCAATTTGACCGAG-CTGAAC
1 TATAAGGAATTACCAATTCGACCG-GTCTGAAC
4143782 TTGCAGAGAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 27 0.96
36 1 0.04
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.27
Consensus pattern (35 bp):
TATAAGGAATTACCAATTCGACCGGTCTGAACCTA
Found at i:4147411 original size:24 final size:23
Alignment explanation
Indices: 4147378--4147429 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 23
4147368 AACTATCACA
4147378 TAGAATTGCACCGAAGTGCCACG
1 TAGAATTGCACCGAAGTGCCACG
4147401 TAGAATATGCACCGAAGTGCCACG
1 TAGAAT-TGCACCGAAGTGCCACG
4147425 TAGAA
1 TAGAA
4147430 ATGTCCCGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 6 0.21
24 22 0.79
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (23 bp):
TAGAATTGCACCGAAGTGCCACG
Found at i:4147446 original size:23 final size:23
Alignment explanation
Indices: 4147388--4147512 Score: 84
Period size: 23 Copynumber: 5.4 Consensus size: 23
4147378 TAGAATTGCA
4147388 CCGAAGTG-CCACGTAGAATATG-C
1 CCGAAG-GACCACGTAGAA-ATGTC
4147411 ACCGAAGTG-CCACGTAGAAATGTC
1 -CCGAAG-GACCACGTAGAAATGTC
4147435 CCGAAGGACCAC--A-AATATTGTC
1 CCGAAGGACCACGTAGAA-A-TGTC
* *
4147457 CCGAAGGACCGCTTAGAAATGTCC
1 CCGAAGGACCACGTAGAAATGT-C
* * *
4147481 CCG-AGGACCACATAGAATTATC
1 CCGAAGGACCACGTAGAAATGTC
*
4147503 CCGTAGGACC
1 CCGAAGGACC
4147513 GCATAGAACC
Statistics
Matches: 87, Mismatches: 5, Indels: 19
0.78 0.05 0.17
Matches are distributed among these distances:
20 2 0.02
21 2 0.02
22 20 0.23
23 36 0.41
24 25 0.29
25 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.23, T:0.17
Consensus pattern (23 bp):
CCGAAGGACCACGTAGAAATGTC
Found at i:4147474 original size:45 final size:46
Alignment explanation
Indices: 4147425--4147520 Score: 126
Period size: 46 Copynumber: 2.1 Consensus size: 46
4147415 AAGTGCCACG
* *
4147425 TAGAAATGT-CCCGAAGGACCACA-A-ATATTGTCCCGAAGGACCGCT
1 TAGAAATGTCCCCG-AGGACCACATAGA-ATTATCCCGAAGGACCGCA
*
4147470 TAGAAATGTCCCCGAGGACCACATAGAATTATCCCGTAGGACCGCA
1 TAGAAATGTCCCCGAGGACCACATAGAATTATCCCGAAGGACCGCA
4147516 TAGAA
1 TAGAA
4147521 CCCTCAACTC
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
45 18 0.40
46 26 0.58
47 1 0.02
ACGTcount: A:0.34, C:0.26, G:0.22, T:0.18
Consensus pattern (46 bp):
TAGAAATGTCCCCGAGGACCACATAGAATTATCCCGAAGGACCGCA
Found at i:4147517 original size:23 final size:22
Alignment explanation
Indices: 4147455--4147520 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 22
4147445 ACAAATATTG
* *
4147455 TCCCGAAGGACCGCTTAGAAATG
1 TCCCG-AGGACCGCATAGAAATA
* *
4147478 TCCCCGAGGACCACATAGAATTA
1 T-CCCGAGGACCGCATAGAAATA
4147501 TCCCGTAGGACCGCATAGAA
1 TCCCG-AGGACCGCATAGAA
4147521 CCCTCAACTC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 4 0.11
23 28 0.78
24 4 0.11
ACGTcount: A:0.32, C:0.29, G:0.23, T:0.17
Consensus pattern (22 bp):
TCCCGAGGACCGCATAGAAATA
Found at i:4149644 original size:32 final size:30
Alignment explanation
Indices: 4149604--4149673 Score: 86
Period size: 32 Copynumber: 2.3 Consensus size: 30
4149594 ATGAACATAT
*
4149604 GATATGTGAACATAAGAGATTAAGTGACATGA
1 GATATGTGAACATAAGAGAAT-A-TGACATGA
* * *
4149636 GCTATGTGACCATATGAGAATATGACATGA
1 GATATGTGAACATAAGAGAATATGACATGA
4149666 GATATGTG
1 GATATGTG
4149674 TTATGTGTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
30 15 0.45
31 1 0.03
32 17 0.52
ACGTcount: A:0.39, C:0.09, G:0.26, T:0.27
Consensus pattern (30 bp):
GATATGTGAACATAAGAGAATATGACATGA
Found at i:4151742 original size:21 final size:21
Alignment explanation
Indices: 4151716--4151755 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
4151706 AATTTAAAAT
4151716 GTGTACCGATGCACTGCTACA
1 GTGTACCGATGCACTGCTACA
4151737 GTGTACCGATGCACTGCTA
1 GTGTACCGATGCACTGCTA
4151756 TAGTAATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.25
Consensus pattern (21 bp):
GTGTACCGATGCACTGCTACA
Found at i:4154624 original size:30 final size:29
Alignment explanation
Indices: 4154590--4154679 Score: 83
Period size: 31 Copynumber: 2.9 Consensus size: 29
4154580 AATCAAATGT
4154590 AACTTTTCAAAATTATCATTTTGGTC-CCTA
1 AACTTTTCAAAATTAT-ATTTTGGTCACC-A
* *
4154620 AACTTTTCCAAAGTTTATTTTTTGGTCACCA
1 AACTTTT-CAAA-ATTATATTTTGGTCACCA
* *
4154651 AACTTTACAAAATCTTATAATTTGGTCAC
1 AACTTTTCAAAA--TTATATTTTGGTCAC
4154680 TACTAATCCA
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
30 11 0.22
31 32 0.65
32 6 0.12
ACGTcount: A:0.31, C:0.19, G:0.08, T:0.42
Consensus pattern (29 bp):
AACTTTTCAAAATTATATTTTGGTCACCA
Found at i:4157838 original size:20 final size:20
Alignment explanation
Indices: 4157799--4157963 Score: 208
Period size: 20 Copynumber: 8.3 Consensus size: 20
4157789 AAAATGTTTT
4157799 TATGAATAGTACTG-TACTG
1 TATGAATAGTACTGATACTG
4157818 TATGAATAGTACTGATACTG
1 TATGAATAGTACTGATACTG
4157838 TATGAATAGTACTGATACTG
1 TATGAATAGTACTGATACTG
4157858 TATGAATAGTACTGATACTG
1 TATGAATAGTACTGATACTG
* *
4157878 TGTGAATAGTGCTGATACTG
1 TATGAATAGTACTGATACTG
* * *
4157898 TGTGAATAGTACCGATACAG
1 TATGAATAGTACTGATACTG
* *
4157918 TGTGAATAGTA-TCGATATTG
1 TATGAATAGTACT-GATACTG
* * *
4157938 TATGAACAGTGCCGATACTG
1 TATGAATAGTACTGATACTG
*
4157958 TGTGAA
1 TATGAA
4157964 CAATATCAAT
Statistics
Matches: 129, Mismatches: 14, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
19 14 0.11
20 115 0.89
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (20 bp):
TATGAATAGTACTGATACTG
Found at i:4160819 original size:23 final size:23
Alignment explanation
Indices: 4160785--4160963 Score: 155
Period size: 23 Copynumber: 7.8 Consensus size: 23
4160775 AGAATATGGA
4160785 CCGAAGTG-CCACATAGAAATGTC
1 CCGAAG-GACCACATAGAAATGTC
* *
4160808 CCGAAGGACCACATAGTATTGTC
1 CCGAAGGACCACATAGAAATGTC
** * *
4160831 TAGAAGGGCCGCATAGAAATGTC
1 CCGAAGGACCACATAGAAATGTC
* * *
4160854 CAGAAGGGCCGCATAGAAATGTC
1 CCGAAGGACCACATAGAAATGTC
* *
4160877 CCGAAGGACCACATAGTATTGTC
1 CCGAAGGACCACATAGAAATGTC
** *
4160900 CAAAAGGACCGCATAGAAATGTC
1 CCGAAGGACCACATAGAAATGTC
* *
4160923 CCGACA-GACCACATAGAATTATC
1 CCGA-AGGACCACATAGAAATGTC
* * *
4160946 CTGTAGGACCGCATAGAA
1 CCGAAGGACCACATAGAA
4160964 CACTCGACTC
Statistics
Matches: 126, Mismatches: 27, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
22 2 0.02
23 123 0.98
24 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.17
Consensus pattern (23 bp):
CCGAAGGACCACATAGAAATGTC
Found at i:4160883 original size:46 final size:46
Alignment explanation
Indices: 4160785--4160963 Score: 180
Period size: 46 Copynumber: 3.9 Consensus size: 46
4160775 AGAATATGGA
* * * * *
4160785 CCGAAGTGCCACATAGAAATGTCCCGAAGGACCACATAGTATTGTC
1 CCGAAGGGCCACATAGAAATGTCCAGAAGGACCGCATAGAAATGTC
** * *
4160831 TAGAAGGGCCGCATAGAAATGTCCAGAAGGGCCGCATAGAAATGTC
1 CCGAAGGGCCACATAGAAATGTCCAGAAGGACCGCATAGAAATGTC
* * * *
4160877 CCGAAGGACCACATAGTATTGTCCAAAAGGACCGCATAGAAATGTC
1 CCGAAGGGCCACATAGAAATGTCCAGAAGGACCGCATAGAAATGTC
* * * * *
4160923 CCGACA-GACCACATAGAATTATCCTGTAGGACCGCATAGAA
1 CCGA-AGGGCCACATAGAAATGTCCAGAAGGACCGCATAGAA
4160964 CACTCGACTC
Statistics
Matches: 110, Mismatches: 22, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
46 109 0.99
47 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.17
Consensus pattern (46 bp):
CCGAAGGGCCACATAGAAATGTCCAGAAGGACCGCATAGAAATGTC
Found at i:4160912 original size:69 final size:69
Alignment explanation
Indices: 4160787--4160940 Score: 229
Period size: 69 Copynumber: 2.2 Consensus size: 69
4160777 AATATGGACC
* * * *
4160787 GAAGTGCCACATAGAAATGTCCCGAAGGACCACATAGTATTGTCTAGAAGGGCCGCATAGAAATG
1 GAAGGGCCACATAGAAATGTCCCGAAGGACCACATAGTATTGTCCAAAAGGACCGCATAGAAATG
4160852 TCCA
66 TCCA
*
4160856 GAAGGGCCGCATAGAAATGTCCCGAAGGACCACATAGTATTGTCCAAAAGGACCGCATAGAAATG
1 GAAGGGCCACATAGAAATGTCCCGAAGGACCACATAGTATTGTCCAAAAGGACCGCATAGAAATG
*
4160921 TCCC
66 TCCA
*
4160925 GACA-GACCACATAGAA
1 GA-AGGGCCACATAGAA
4160941 TTATCCTGTA
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
69 75 0.99
70 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.16
Consensus pattern (69 bp):
GAAGGGCCACATAGAAATGTCCCGAAGGACCACATAGTATTGTCCAAAAGGACCGCATAGAAATG
TCCA
Found at i:4163156 original size:31 final size:30
Alignment explanation
Indices: 4163115--4163195 Score: 108
Period size: 31 Copynumber: 2.6 Consensus size: 30
4163105 TCAATATGTT
4163115 CCGAAGAACATAGGTAACCTGTCCATATATC
1 CCGAA-AACATAGGTAACCTGTCCATATATC
* *
4163146 CCGAATAACATAGGTAAACTGTCCATATGTC
1 CCGAA-AACATAGGTAACCTGTCCATATATC
*
4163177 TCGAAAGACATAGGTAACC
1 CCGAAA-ACATAGGTAACC
4163196 CTCGACTCTT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
30 1 0.02
31 43 0.98
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.22
Consensus pattern (30 bp):
CCGAAAACATAGGTAACCTGTCCATATATC
Found at i:4163341 original size:16 final size:17
Alignment explanation
Indices: 4163322--4163365 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
4163312 TATCTCATAT
*
4163322 CATATAACATGT-GTCA
1 CATATAACATGTAATCA
4163338 CATAT-ACATGTAATCA
1 CATATAACATGTAATCA
*
4163354 CATATATCATGT
1 CATATAACATGT
4163366 CTCATAGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.25
16 13 0.54
17 5 0.21
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (17 bp):
CATATAACATGTAATCA
Found at i:4163791 original size:2 final size:2
Alignment explanation
Indices: 4163735--4163772 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
4163725 TATATCAGTA
4163735 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4163773 CATAACATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4168489 original size:2 final size:2
Alignment explanation
Indices: 4168482--4168510 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4168472 CAGTCATACG
4168482 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4168511 AATCAATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4168738 original size:31 final size:31
Alignment explanation
Indices: 4168698--4168793 Score: 104
Period size: 31 Copynumber: 3.1 Consensus size: 31
4168688 GTCTCGAAGG
* *
4168698 ACCTATCCATATGTTCCGAAGAACAGAGGTA
1 ACCTGTCCATATGTCCCGAAGAACAGAGGTA
* *
4168729 ACCTGTCCATATGTCCCGAAGGACATAGGTA
1 ACCTGTCCATATGTCCCGAAGAACAGAGGTA
* * * *
4168760 AACTGTTCATATGTCTCGAA-AGACATAGGTA
1 ACCTGTCCATATGTCCCGAAGA-ACAGAGGTA
4168791 ACC
1 ACC
4168794 CTCGACTCTT
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
31 55 1.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (31 bp):
ACCTGTCCATATGTCCCGAAGAACAGAGGTA
Found at i:4168938 original size:16 final size:17
Alignment explanation
Indices: 4168917--4168960 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
4168907 TATCTCATAT
*
4168917 CATATAACATGT-GTCA
1 CATATAACATGTAATCA
4168933 CATAT-ACATGTAATCA
1 CATATAACATGTAATCA
*
4168949 CATATAGCATGT
1 CATATAACATGT
4168961 CTCATAGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.25
16 13 0.54
17 5 0.21
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (17 bp):
CATATAACATGTAATCA
Found at i:4174420 original size:24 final size:26
Alignment explanation
Indices: 4174393--4174449 Score: 75
Period size: 24 Copynumber: 2.3 Consensus size: 26
4174383 AATCCCTCAT
4174393 TATTTATATATGAA-TTT-TTAAAA-A
1 TATTTATATAT-AATTTTCTTAAAATA
*
4174417 TATTTAAATATAATTTTCTTAAAATA
1 TATTTATATATAATTTTCTTAAAATA
4174443 TATTTAT
1 TATTTAT
4174450 TGAATAATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 2 0.07
24 13 0.46
25 6 0.21
26 7 0.25
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (26 bp):
TATTTATATATAATTTTCTTAAAATA
Found at i:4175793 original size:2 final size:2
Alignment explanation
Indices: 4175786--4175819 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4175776 TGCTTAAAGA
4175786 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4175820 TTTTGGAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4176255 original size:2 final size:2
Alignment explanation
Indices: 4176244--4176279 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
4176234 TTAACTCATT
4176244 TA TA -A TA TA TA TA TA TA TA TA TA TA TA 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
4176280 TTCTTCTACA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4180127 original size:26 final size:26
Alignment explanation
Indices: 4180086--4180136 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
4180076 TGCTTATTGA
*
4180086 AAAACTACCTAACTTT-TCATTTAAAC
1 AAAACTACCCAACTTTCT-ATTTAAAC
*
4180112 AAAACTACCCATCTTTCTATTTAAA
1 AAAACTACCCAACTTTCTATTTAAA
4180137 ATATTTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 21 0.95
27 1 0.05
ACGTcount: A:0.41, C:0.24, G:0.00, T:0.35
Consensus pattern (26 bp):
AAAACTACCCAACTTTCTATTTAAAC
Found at i:4180421 original size:12 final size:12
Alignment explanation
Indices: 4180359--4180423 Score: 60
Period size: 14 Copynumber: 5.1 Consensus size: 12
4180349 AAATAACTAA
4180359 ATATTATAAAAAT
1 ATATT-TAAAAAT
*
4180372 ATATATTCAAAAAA
1 ATAT-TT-AAAAAT
*
4180386 ATATATAATTAAAT
1 ATATTTAA--AAAT
4180400 ATATTT-AAAAT
1 ATATTTAAAAAT
4180411 ATATTTAAAAAT
1 ATATTTAAAAAT
4180423 A
1 A
4180424 GAAGACTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
11 10 0.23
12 8 0.19
13 7 0.16
14 18 0.42
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (12 bp):
ATATTTAAAAAT
Found at i:4181966 original size:11 final size:11
Alignment explanation
Indices: 4181950--4181984 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
4181940 ACTGATACCC
4181950 CTGCTACAGTA
1 CTGCTACAGTA
*
4181961 CTGCTACAATA
1 CTGCTACAGTA
*
4181972 CTGTTACAGTA
1 CTGCTACAGTA
4181983 CT
1 CT
4181985 TTCGTAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (11 bp):
CTGCTACAGTA
Found at i:4182761 original size:32 final size:31
Alignment explanation
Indices: 4182717--4182824 Score: 87
Period size: 31 Copynumber: 3.5 Consensus size: 31
4182707 CCTCGGCAAC
*
4182717 TGTCTATA-GTTCCTGAAGAAACTAGGTAAAT
1 TGTCCATATGTTCCT-AAGAAACTAGGTAAAT
* * *
4182748 TGTCCATATGTTCCTTAG-AACATAGGTATAC
1 TGTCCATATGTTCCTAAGAAAC-TAGGTAAAT
* * * *
4182779 TGTCCATATGTCCCTAA-AGACATAGCTAATT
1 TGTCCATATGTTCCTAAGAAAC-TAGGTAAAT
4182810 CTGTCCATATGTTCC
1 -TGTCCATATGTTCC
4182825 GTAGAACATA
Statistics
Matches: 61, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
30 3 0.05
31 39 0.64
32 19 0.31
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (31 bp):
TGTCCATATGTTCCTAAGAAACTAGGTAAAT
Found at i:4182775 original size:31 final size:31
Alignment explanation
Indices: 4182739--4182840 Score: 107
Period size: 31 Copynumber: 3.3 Consensus size: 31
4182729 CTGAAGAAAC
*
4182739 TAGGTAAATTGTCCATATGTTCCTTAGAACA
1 TAGGTAAATTGTCCATATGTTCCCTAGAACA
* * *
4182770 TAGGTATACTGTCCATATG-TCCCTAAAGACA
1 TAGGTAAATTGTCCATATGTTCCCTAGA-ACA
* * *
4182801 TAGCTAATTCTGTCCATATGTTCCGTAGAACA
1 TAGGTAAAT-TGTCCATATGTTCCCTAGAACA
*
4182833 TAAGTAAA
1 TAGGTAAA
4182841 CCCTCGACTC
Statistics
Matches: 55, Mismatches: 13, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
30 6 0.11
31 25 0.45
32 18 0.33
33 6 0.11
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (31 bp):
TAGGTAAATTGTCCATATGTTCCCTAGAACA
Found at i:4182834 original size:32 final size:31
Alignment explanation
Indices: 4182748--4182834 Score: 104
Period size: 32 Copynumber: 2.8 Consensus size: 31
4182738 CTAGGTAAAT
* *
4182748 TGTCCATATGTTCCTTAGAACATAGGTATAC
1 TGTCCATATGTTCCCTAGAACATAGCTATAC
* *
4182779 TGTCCATATG-TCCCTAAAGACATAGCTAATTC
1 TGTCCATATGTTCCCTAGA-ACATAGCT-ATAC
*
4182811 TGTCCATATGTTCCGTAGAACATA
1 TGTCCATATGTTCCCTAGAACATA
4182835 AGTAAACCCT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
30 6 0.13
31 17 0.36
32 18 0.38
33 6 0.13
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (31 bp):
TGTCCATATGTTCCCTAGAACATAGCTATAC
Found at i:4184318 original size:26 final size:26
Alignment explanation
Indices: 4184286--4184335 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
4184276 GCATGGTCTT
* *
4184286 GTGCATCGATGCTTCAAATGCATTGA
1 GTGCATCGATGCATAAAATGCATTGA
4184312 GTGCATCGATGCATAAAATGCATT
1 GTGCATCGATGCATAAAATGCATT
4184336 CGATGTTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (26 bp):
GTGCATCGATGCATAAAATGCATTGA
Found at i:4186933 original size:17 final size:18
Alignment explanation
Indices: 4186900--4186934 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
4186890 TTTTTGTTGA
*
4186900 TTTAGAGCAAGAGGAGAG
1 TTTAGAGCAAGAAGAGAG
4186918 TTTAGAG-AAGAAGAGAG
1 TTTAGAGCAAGAAGAGAG
4186935 GCGTATAGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.43, C:0.03, G:0.37, T:0.17
Consensus pattern (18 bp):
TTTAGAGCAAGAAGAGAG
Found at i:4193018 original size:45 final size:46
Alignment explanation
Indices: 4192931--4193022 Score: 150
Period size: 45 Copynumber: 2.0 Consensus size: 46
4192921 TGAAAAAGCC
* * *
4192931 TGAGTGCATCGATGCATGGTCTTGTGCATCGATGCTTCAAATGCAT
1 TGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCAT
4192977 TGAGTGCATCGATGCATGGT-ATGTGCATCGATGCATAAAATGCAT
1 TGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCAT
4193022 T
1 T
4193023 CGATGTTTGA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
45 23 0.53
46 20 0.47
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (46 bp):
TGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCAT
Found at i:4193064 original size:20 final size:20
Alignment explanation
Indices: 4193039--4193076 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
4193029 TTGAAAATTA
4193039 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
4193059 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
4193077 CACTTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:4194353 original size:12 final size:12
Alignment explanation
Indices: 4194336--4194360 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4194326 AGATGACAAG
4194336 TCAAATTCAACT
1 TCAAATTCAACT
4194348 TCAAATTCAACT
1 TCAAATTCAACT
4194360 T
1 T
4194361 ATCAAGTCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (12 bp):
TCAAATTCAACT
Found at i:4196531 original size:22 final size:22
Alignment explanation
Indices: 4196506--4196550 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
4196496 AATGTCAGAG
*
4196506 GGGAACCGATTCCCCTGCTACA
1 GGGAACCGATACCCCTGCTACA
4196528 GGGAACCGATACCCCTGCTACA
1 GGGAACCGATACCCCTGCTACA
4196550 G
1 G
4196551 TGCTGCTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (22 bp):
GGGAACCGATACCCCTGCTACA
Found at i:4197382 original size:32 final size:32
Alignment explanation
Indices: 4197281--4197387 Score: 114
Period size: 31 Copynumber: 3.4 Consensus size: 32
4197271 TAGGCCCCGA
* * *
4197281 AGAACCTAGGTAA-ACTGTCCATATGTTCCAT
1 AGAACATAGGTAATATTGTCCATATGTTCCGT
*
4197312 AGAACATAGGT-ATATTGTCCATATGTCCCG-
1 AGAACATAGGTAATATTGTCCATATGTTCCGT
* *
4197342 AAATACATAGGTAAT-TATGTCCATATGTTCTGT
1 AGA-ACATAGGTAATAT-TGTCCATATGTTCCGT
4197375 AGAACATAGGTAA
1 AGAACATAGGTAA
4197388 ACACTCGACT
Statistics
Matches: 63, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
30 3 0.05
31 33 0.52
32 25 0.40
33 2 0.03
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.31
Consensus pattern (32 bp):
AGAACATAGGTAATATTGTCCATATGTTCCGT
Found at i:4198666 original size:30 final size:30
Alignment explanation
Indices: 4198632--4198693 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
4198622 TTATATGAGT
* *
4198632 TATGTGATAAAGGTATGTAAATGATATGTC
1 TATGTGATAAAGGTATGGAAATAATATGTC
4198662 TATGTGATAAAGGTATGGAAATAATATGTC
1 TATGTGATAAAGGTATGGAAATAATATGTC
4198692 TA
1 TA
4198694 CGCGATATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.39, C:0.03, G:0.23, T:0.35
Consensus pattern (30 bp):
TATGTGATAAAGGTATGGAAATAATATGTC
Found at i:4199023 original size:24 final size:23
Alignment explanation
Indices: 4198935--4199020 Score: 104
Period size: 23 Copynumber: 3.7 Consensus size: 23
4198925 ACGTATTATA
*
4198935 TGGCACTACGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
4198958 TGGCACTTCGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
* *
4198981 CGGTC-CTTTGG-GACAAATTCTACG
1 TGG-CACTTCGGTG-C-AATTCTACG
4199005 TGGCACTTCGGTGCAA
1 TGGCACTTCGGTGCAA
4199021 ATTTATATGA
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
22 1 0.02
23 33 0.62
24 18 0.34
25 1 0.02
ACGTcount: A:0.20, C:0.26, G:0.27, T:0.28
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:4201476 original size:12 final size:12
Alignment explanation
Indices: 4201459--4201483 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4201449 AGATGACAAG
4201459 TCAAATTCAACT
1 TCAAATTCAACT
4201471 TCAAATTCAACT
1 TCAAATTCAACT
4201483 T
1 T
4201484 ATCAACTCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (12 bp):
TCAAATTCAACT
Found at i:4203340 original size:730 final size:724
Alignment explanation
Indices: 4201940--4203385 Score: 2339
Period size: 730 Copynumber: 2.0 Consensus size: 724
4201930 TCAAAGTTGA
* * *
4201940 ATGAAACCTTCTTTATATAGGGTGAGGAGTCCTTGTTGTAACATGACTAATGAATAAAGATAATG
1 ATGAAACCTCCTTTATATAGGGTGAGGAGTCCTTGTTGCAACATGACTAATGAATAAAGATAATA
4202005 TTTCGATTCTATCCTAATTCCTAATAAAATAATAATACACTAAGAATTATGTTTTAACTCAATAT
66 TTTCGATTCTATCCTAATTCCTAATAAAATAATAATACACTAAGAATTATGTTTTAACTCAATAT
4202070 TAATTCCTAATAAAATAATAAATCTAATCTTAAAAGATAATACATCATCTATATTAAATTATATT
131 TAATTCCTAATAAAATAATAAATCTAATCTTAAAAGATAATACATCATCTATATTAAATTATATT
* * *
4202135 ACAAATAATCAATAAAAATATTGAAAATTCGTAATATTTATAAAATCTCATAGTAATCACTTATA
196 ACAAATAATCAATAAAAATATTGAAAACTCGTAATATTTATAAAATCTCACAGTAATCACGTATA
* * * *
4202200 GGAATTTCTGTATGTGTTGTCTTTAGTAAAATGAACGAATCTTGAGTTTCCGATATAGGATTGAT
261 AGAATTTATGCATGCGTTGTCTTTAGTAAAATGAACGAATCTTGAGTTTCCGATATAGGATTGAT
* *
4202265 GCGATTAAAAAACCGTTGGAAAGCTGGTCATATTTCTAGAAGAAATGTTGACCGAATAAGATCAG
326 GCAATTAAAAAACCGTTGGAAAGCTGGTCATATCTCTAGAAGAAATGTTGACCGAATAAGATCAG
* *** * *
4202330 GATTCCATTCAAAAAGCAGTTGTAATTCTTTTGTTATGCTATTATTTTTTTCCAAGGCTTGTTTG
391 GATTCCATTCAAAAAGAAGTCACAATTC-----TTATGCTATTATTCTTTTCCAAGGCTTGTTCG
*
4202395 TGTGGATCAATTGGAAGTGCTACTCTATATTCCTTTGATGTGAGCCTTGTAATGCATGTATCACC
451 TGTGGATCAATTGGAAGTACTACTCTATATTCCTTTGATGTGAGCCTTGTAATGCATGTATCACC
4202460 TCAATATTCTTGTGTATTTTATTTTCCATTTTATTTTATTTAACCAGGAACGACATCAATCTTAA
516 TCAATATTCTTGTGTA--TTATTTTCCATTTTATTTTATTTAACCAGGAACGACATCAATCTTAA
*
4202525 TATTATTTGTCGATCGTTGGTGAATATTAGTTCTCTTGGTTTTTCATATTATGTCATTTGTTTTC
579 TATTAGTTGTCGATCGTTGGTGAATATTAGTTCTCTTGGTTTTTCATATTATGTCATTTGTTTTC
* * *
4202590 CTTTTTCTTAAGTTTTCCCCCTCTATTTTGAATAAGAATC-TGTCCTTGTGACACGTGTTTTCTC
644 CTTTTTCTTAAGTTTTCCCCCTCAATTTTGAATAAAAATCTTGTCCTTGTGACACGCGTTTTCTC
4202654 ATATTAGATTTTTCAT
709 ATATTAGATTTTTCAT
*
4202670 ATGAAACCTCCTTTATATATGGTGAGGAGTCCTTGTTGCAACATGACTAATGAATAAAGATAATA
1 ATGAAACCTCCTTTATATAGGGTGAGGAGTCCTTGTTGCAACATGACTAATGAATAAAGATAATA
4202735 TTTCGATTCTATCCTAATTCCTAATAAAATAATAATACACTAAGAATTATGTTTTAACTCAATAT
66 TTTCGATTCTATCCTAATTCCTAATAAAATAATAATACACTAAGAATTATGTTTTAACTCAATAT
4202800 TAATTCCTAATAAAATAATAAATCTAATCTTAAAAGATAATACATCATCTATATTAAATTATATT
131 TAATTCCTAATAAAATAATAAATCTAATCTTAAAAGATAATACATCATCTATATTAAATTATATT
* * *
4202865 ACAAATAATCAATAAAAATATTGAAAACTCGTAATATTTATAAAATCTCGCATTAATCCCCGTAT
196 ACAAATAATCAATAAAAATATTGAAAACTCGTAATATTTATAAAATCTCACAGTAAT-CACGTAT
* * *
4202930 AAGAATTTATGCATGCGTTGTCTTTAGTAAAATGAATGTATCTTGAGTTTCTGATATAGGATTGA
260 AAGAATTTATGCATGCGTTGTCTTTAGTAAAATGAACGAATCTTGAGTTTCCGATATAGGATTGA
* *
4202995 TGCAATTCAAAAACCTTTGGAAAGTTAAGAGACATCCGGTCATATCTCTAGAAGAAATGTTGACC
325 TGCAATTAAAAAACCGTT-G---G--AA-AG-C-T--GGTCATATCTCTAGAAGAAATGTTGACC
4203060 GAATAAGATCAGGA-TCTCATTCAAAAAGAAGTCACAATTC-T-T-CTATTATTCTTTTCCAAGG
379 GAATAAGATCAGGATTC-CATTCAAAAAGAAGTCACAATTCTTATGCTATTATTCTTTTCCAAGG
*
4203121 CTTGTTCGTGTGGATCAATTGGAAGTACTACTCTATATTCCTTTGATGTGAGCCTTGTGATGCAT
443 CTTGTTCGTGTGGATCAATTGGAAGTACTACTCTATATTCCTTTGATGTGAGCCTTGTAATGCAT
4203186 GTATCACCTCAATATTCTTGTGTA-T-TTTTCCATTTTATTTTATTTAACCAGGAACGACATCAA
508 GTATCACCTCAATATTCTTGTGTATTATTTTCCATTTTATTTTATTTAACCAGGAACGACATCAA
*
4203249 TCTTAATATTAGTTGTCGATCGTTGGTGATTATTAGTTCTCTTGGTTTTTCATATTATGTCATTT
573 TCTTAATATTAGTTGTCGATCGTTGGTGAATATTAGTTCTCTTGGTTTTTCATATTATGTCATTT
*
4203314 GTTTTCCTTTTTCTTGAGTTTTCCCCCTCAATTTTGAATAAAAATCTTTGTCCTTGTGACACGCG
638 GTTTTCCTTTTTCTTAAGTTTTCCCCCTCAATTTTGAATAAAAATC-TTGTCCTTGTGACACGCG
4203379 TTTTCTC
702 TTTTCTC
4203386 TGCTCTTGTG
Statistics
Matches: 666, Mismatches: 35, Indels: 28
0.91 0.05 0.04
Matches are distributed among these distances:
730 388 0.58
731 79 0.12
732 24 0.04
734 104 0.16
735 2 0.00
736 1 0.00
737 2 0.00
738 2 0.00
739 1 0.00
740 1 0.00
741 2 0.00
742 60 0.09
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (724 bp):
ATGAAACCTCCTTTATATAGGGTGAGGAGTCCTTGTTGCAACATGACTAATGAATAAAGATAATA
TTTCGATTCTATCCTAATTCCTAATAAAATAATAATACACTAAGAATTATGTTTTAACTCAATAT
TAATTCCTAATAAAATAATAAATCTAATCTTAAAAGATAATACATCATCTATATTAAATTATATT
ACAAATAATCAATAAAAATATTGAAAACTCGTAATATTTATAAAATCTCACAGTAATCACGTATA
AGAATTTATGCATGCGTTGTCTTTAGTAAAATGAACGAATCTTGAGTTTCCGATATAGGATTGAT
GCAATTAAAAAACCGTTGGAAAGCTGGTCATATCTCTAGAAGAAATGTTGACCGAATAAGATCAG
GATTCCATTCAAAAAGAAGTCACAATTCTTATGCTATTATTCTTTTCCAAGGCTTGTTCGTGTGG
ATCAATTGGAAGTACTACTCTATATTCCTTTGATGTGAGCCTTGTAATGCATGTATCACCTCAAT
ATTCTTGTGTATTATTTTCCATTTTATTTTATTTAACCAGGAACGACATCAATCTTAATATTAGT
TGTCGATCGTTGGTGAATATTAGTTCTCTTGGTTTTTCATATTATGTCATTTGTTTTCCTTTTTC
TTAAGTTTTCCCCCTCAATTTTGAATAAAAATCTTGTCCTTGTGACACGCGTTTTCTCATATTAG
ATTTTTCAT
Found at i:4203400 original size:24 final size:24
Alignment explanation
Indices: 4203366--4203424 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
4203356 AATCTTTGTC
*
4203366 CTTGTGACACGCGTTTTCTCTGCT
1 CTTGTGGCACGCGTTTTCTCTGCT
* *
4203390 CTTGTGGCACGTGTTTTTTCTGCT
1 CTTGTGGCACGCGTTTTCTCTGCT
*
4203414 TTTGTGGCACG
1 CTTGTGGCACG
4203425 ATTCTTATGG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.07, C:0.24, G:0.25, T:0.44
Consensus pattern (24 bp):
CTTGTGGCACGCGTTTTCTCTGCT
Found at i:4204863 original size:7 final size:7
Alignment explanation
Indices: 4204848--4204881 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
4204838 GGTTATTATA
4204848 TAAACCC
1 TAAACCC
*
4204855 TAAATCC
1 TAAACCC
*
4204862 TAAACCG
1 TAAACCC
4204869 TAAACCC
1 TAAACCC
4204876 TAAACC
1 TAAACC
4204882 AACATAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.44, C:0.35, G:0.03, T:0.18
Consensus pattern (7 bp):
TAAACCC
Found at i:4206376 original size:21 final size:20
Alignment explanation
Indices: 4206350--4206395 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
4206340 TAATATATAG
4206350 TTAAAAATAT-TAAAATTAAAA
1 TTAAAAAT-TGTAAAA-TAAAA
*
4206371 TTAAAAATTGTAAAATATAA
1 TTAAAAATTGTAAAATAAAA
4206391 TTAAA
1 TTAAA
4206396 CTGATAGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (20 bp):
TTAAAAATTGTAAAATAAAA
Found at i:4207991 original size:28 final size:28
Alignment explanation
Indices: 4207935--4207991 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
4207925 CTCTTTGTTT
* * * *
4207935 ACATTATGTCGTTGAGCCATTGCTTGAA
1 ACATTATGTCGTCGAGCCAGTGATCGAA
*
4207963 ACATTATGTTGTCGAGCCAGTGATCGAA
1 ACATTATGTCGTCGAGCCAGTGATCGAA
4207991 A
1 A
4207992 GTAATGGTGG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.32
Consensus pattern (28 bp):
ACATTATGTCGTCGAGCCAGTGATCGAA
Found at i:4209442 original size:58 final size:58
Alignment explanation
Indices: 4209305--4209469 Score: 172
Period size: 58 Copynumber: 2.8 Consensus size: 58
4209295 TGATCTCCAA
* * * *
4209305 TTTAAATTGGTTCTTAAATTTTTGAATATTCAAATTTTATCCTCAAAATACGACTCTCAT
1 TTTAAATTGG-TCTTAAACTTTTGAATATTCCAATTTCATCCTCAAAATA-GACCCTCAT
* *
4209365 TTTAAATTAGTCTTTAAACTTTTGAATATTCCTATTTCAT-CTCCAAAAT-GACCCTCAT
1 TTTAAATTGGTC-TTAAACTTTTGAATATTCCAATTTCATCCT-CAAAATAGACCCTCAT
* * * * *
4209423 TTTAAATTGGTCTACAAACTTTTAAATCTTCCAATTTAATTCTCAAA
1 TTTAAATTGGTCT-TAAACTTTTGAATATTCCAATTTCATCCTCAAA
4209470 TTTATCCAAA
Statistics
Matches: 89, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
57 1 0.01
58 44 0.49
59 6 0.07
60 38 0.43
ACGTcount: A:0.33, C:0.18, G:0.05, T:0.44
Consensus pattern (58 bp):
TTTAAATTGGTCTTAAACTTTTGAATATTCCAATTTCATCCTCAAAATAGACCCTCAT
Found at i:4215334 original size:27 final size:27
Alignment explanation
Indices: 4215296--4215386 Score: 70
Period size: 27 Copynumber: 3.6 Consensus size: 27
4215286 ATTAAAGGAA
*
4215296 TAAATTATAATATTTCTTATTTATAAT
1 TAAAATATAATATTTCTTATTTATAAT
**
4215323 TAAAATATAATA------ATAAAT-AT
1 TAAAATATAATATTTCTTATTTATAAT
* *
4215343 GAAAATCACAAATATTTCTTATTTATAAT
1 TAAAAT-A-TAATATTTCTTATTTATAAT
4215372 TAAAATATAATATTT
1 TAAAATATAATATTT
4215387 TCGGCAGAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 18
0.63 0.12 0.25
Matches are distributed among these distances:
20 7 0.15
21 5 0.11
22 4 0.09
27 18 0.39
28 5 0.11
29 7 0.15
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (27 bp):
TAAAATATAATATTTCTTATTTATAAT
Found at i:4215669 original size:2 final size:2
Alignment explanation
Indices: 4215664--4215705 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
4215654 CATTTTTTAA
4215664 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4215706 CAATTAGTTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4218835 original size:29 final size:29
Alignment explanation
Indices: 4218782--4218847 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
4218772 TCATTTTCAT
*
4218782 CATTAAATTTTTAAAATTTATAAAATAAG
1 CATTAAATTTTTAAAATTTACAAAATAAG
* * *
4218811 CATTAAATTTATTAAGA-TTACAAAATTAT
1 CATTAAATTT-TTAAAATTTACAAAATAAG
4218840 CATTAAAT
1 CATTAAAT
4218848 ATAATTTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 27 0.84
30 5 0.16
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (29 bp):
CATTAAATTTTTAAAATTTACAAAATAAG
Found at i:4222392 original size:14 final size:14
Alignment explanation
Indices: 4222374--4222411 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
4222364 GTTTTCCATT
*
4222374 TTTTTCTTTCATGTC
1 TTTTTCTTTC-TCTC
4222389 TTTTT-TTTCTCTC
1 TTTTTCTTTCTCTC
4222402 TTTTTCTTTC
1 TTTTTCTTTC
4222412 GAACAACTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 8 0.38
14 8 0.38
15 5 0.24
ACGTcount: A:0.03, C:0.21, G:0.03, T:0.74
Consensus pattern (14 bp):
TTTTTCTTTCTCTC
Found at i:4237314 original size:35 final size:35
Alignment explanation
Indices: 4237266--4237340 Score: 107
Period size: 35 Copynumber: 2.1 Consensus size: 35
4237256 AAAATATTTC
*
4237266 AATTTAGGATTTAGAATGTAATT-AAAGTATTTTGG
1 AATTTAGGATTTAGAATGTAATTGAAA-TATTTTAG
* *
4237301 AATTTGGGGTTTAGAATGTAATTGAAATATTTTAG
1 AATTTAGGATTTAGAATGTAATTGAAATATTTTAG
4237336 AATTT
1 AATTT
4237341 TGAACATGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 33 0.92
36 3 0.08
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.44
Consensus pattern (35 bp):
AATTTAGGATTTAGAATGTAATTGAAATATTTTAG
Found at i:4245008 original size:20 final size:18
Alignment explanation
Indices: 4244970--4245019 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 18
4244960 TTATAAATCA
*
4244970 TTTTTCAAAATTTAATTTT
1 TTTTTCAAAA-TCAATTTT
4244989 GTTTTTCAAAATCAACTTTT
1 -TTTTTCAAAATCAA-TTTT
*
4245009 TCTTTCAAAAT
1 TTTTTCAAAAT
4245020 TAAATCATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.32, C:0.12, G:0.02, T:0.54
Consensus pattern (18 bp):
TTTTTCAAAATCAATTTT
Found at i:4246449 original size:2 final size:2
Alignment explanation
Indices: 4246442--4246498 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
4246432 TATATGAAAT
4246442 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4246484 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
4246499 GCATATAGTA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4249715 original size:16 final size:16
Alignment explanation
Indices: 4249689--4249726 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
4249679 TCTACTAAAG
4249689 CATGATTGGGTAGATAT
1 CATG-TTGGGTAGATAT
*
4249706 CATGTTGGGTATATAT
1 CATGTTGGGTAGATAT
4249722 CATGT
1 CATGT
4249727 GAATAAGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.39
Consensus pattern (16 bp):
CATGTTGGGTAGATAT
Found at i:4259735 original size:14 final size:15
Alignment explanation
Indices: 4259708--4259751 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
4259698 AAAATGAGTG
4259708 AAAAAATGAAAAAAAT
1 AAAAAAT-AAAAAAAT
4259724 AAAAAAATAAAAAAAT
1 -AAAAAATAAAAAAAT
*
4259740 -AATAATAAAAAA
1 AAAAAATAAAAAA
4259752 TGAATGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 11 0.42
16 8 0.31
17 7 0.27
ACGTcount: A:0.84, C:0.00, G:0.02, T:0.14
Consensus pattern (15 bp):
AAAAAATAAAAAAAT
Found at i:4260956 original size:110 final size:110
Alignment explanation
Indices: 4260763--4261141 Score: 557
Period size: 110 Copynumber: 3.5 Consensus size: 110
4260753 AGGTTTTCCA
*
4260763 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTG
1 ACGATTGTTGAAGATTATTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTG
4260828 AAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
66 AAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* *
4260873 ACGATTGTTGAAGATTATTCGAGTCTCATACTCTCTGAATAAATAGGGAGTAGACACGATTGTTG
1 ACGATTGTTGAAGATTATTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTG
*
4260938 AAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGTGAGCAGAC
66 AAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
*
4260983 ACGATTGTTGAAGATTATTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCATACACGATTGTTG
1 ACGATTGTTGAAGATTATTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTG
* * * * *
4261048 AAGATTGTTCGAGTTTTATACTCCCT-AGAGAAAGAGGGAGCAAAC
66 AAGATTGTTCGAGTCTCATACTCTCTGA-AGAAATAGGGAGCAGAC
* * ** * * * *
4261093 CCGTTTGAAGAAGA-TATTCGAGT-TCTATTCTCCCTGAAAAAAGAGGGAG
1 ACGATTGTTGAAGATTATTCGAGTCTC-ATACTCTCTGAAGAAATAGGGAG
4261142 TGAACCCGTT
Statistics
Matches: 246, Mismatches: 21, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
108 2 0.01
109 29 0.12
110 215 0.87
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (110 bp):
ACGATTGTTGAAGATTATTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTG
AAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
Found at i:4261107 original size:55 final size:55
Alignment explanation
Indices: 4260763--4261089 Score: 548
Period size: 55 Copynumber: 5.9 Consensus size: 55
4260753 AGGTTTTCCA
4260763 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
4260818 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* * *
4260873 ACGATTGTTGAAGATTATTCGAGTCTCATACTCTCTGAATAAATAGGGAGTAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
*
4260928 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGTGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* *
4260983 ACGATTGTTGAAGATTATTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCATAC
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* * * *
4261038 ACGATTGTTGAAGATTGTTCGAGTTTTATACTCCCT-AGAGAAAGAGGGAGCA
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGA-AGAAATAGGGAGCA
4261090 AACCCGTTTG
Statistics
Matches: 256, Mismatches: 15, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
54 1 0.00
55 255 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (55 bp):
ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
Found at i:4261136 original size:54 final size:54
Alignment explanation
Indices: 4260772--4261236 Score: 257
Period size: 55 Copynumber: 8.6 Consensus size: 54
4260762 AACGATTGTT
* * * * * **
4260772 GAAGATTGTTCGAG-TCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTT
1 GAAGA-TGTTCGAGTTCT-ATACTCCCTGAAGAAAGAGGGAGCAAACCCGTTTGAA
* * * * * **
4260827 GAAGATTGTTCGAG-TCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTT
1 GAAGA-TGTTCGAGTTCT-ATACTCCCTGAAGAAAGAGGGAGCAAACCCGTTTGAA
* * * * * * * * **
4260882 GAAGATTATTCGAG-TCTCATACTCTCTGAATAAATAGGGAGTAGACACGATTGTT
1 GAAGA-TGTTCGAGTTCT-ATACTCCCTGAAGAAAGAGGGAGCAAACCCGTTTGAA
* * * * * * **
4260937 GAAGATTGTTCGAG-TCTCATACTCTCTGAAGAAATAGTGAGCAGACACGATTGTT
1 GAAGA-TGTTCGAGTTCT-ATACTCCCTGAAGAAAGAGGGAGCAAACCCGTTTGAA
* * * * * * **
4260992 GAAGATTATTCGAG-TCTCATACTCTCTGAAGAAATAGGGAGCATACACGATTGTT
1 GAAGA-TGTTCGAGTTCT-ATACTCCCTGAAGAAAGAGGGAGCAAACCCGTTTGAA
*
4261047 GAAGATTGTTCGAGTTTTATACTCCCT-AGAGAAAGAGGGAGCAAACCCGTTTGAA
1 GAAGA-TGTTCGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCAAACCCGTTTGAA
* * * **
4261102 GAAGATATTCGAGTTCTATTCTCCCTGAAAAAAGAGGGAGTGAACCCGTTT--A
1 GAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCAAACCCGTTTGAA
* * * * * **
4261154 -AAGACGTTCGAGTTCCATACTCCCT-AGATAAAGAGGGAACGAACCCGTAAGAA
1 GAAGATGTTCGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCAAACCCGTTTGAA
*
4261207 GAAGATGTTCGAGTTCTATACTCTCTGAAG
1 GAAGATGTTCGAGTTCTATACTCCCTGAAG
4261237 GACTGGGGTG
Statistics
Matches: 364, Mismatches: 38, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
50 1 0.00
51 39 0.11
52 1 0.00
53 1 0.00
54 62 0.17
55 258 0.71
56 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (54 bp):
GAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCAAACCCGTTTGAA
Found at i:4261187 original size:51 final size:53
Alignment explanation
Indices: 4261054--4261229 Score: 187
Period size: 54 Copynumber: 3.3 Consensus size: 53
4261044 GTTGAAGATT
* * * *
4261054 GTTCGAGTTTTATACTCCCTAGAGAAAGAGGGAGCAAACCCGTTTGAAGAAGAT
1 GTTCGAGTTCTATACTCCCTAGAAAAAGAGGGAGCGAACCCGTTT-AAGAAGAC
* * *
4261108 ATTCGAGTTCTATTCTCCCT-GAAAAAAGAGGGAGTGAACCCGTTT-A-AAGAC
1 GTTCGAGTTCTATACTCCCTAG-AAAAAGAGGGAGCGAACCCGTTTAAGAAGAC
* * * ** *
4261159 GTTCGAGTTCCATACTCCCTAGATAAAGAGGGAACGAACCCGTAAGAAGAAGAT
1 GTTCGAGTTCTATACTCCCTAGAAAAAGAGGGAGCGAACCCGT-TTAAGAAGAC
4261213 GTTCGAGTTCTATACTC
1 GTTCGAGTTCTATACTC
4261230 TCTGAAGGAC
Statistics
Matches: 100, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
51 39 0.39
52 2 0.02
53 2 0.02
54 57 0.57
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.24
Consensus pattern (53 bp):
GTTCGAGTTCTATACTCCCTAGAAAAAGAGGGAGCGAACCCGTTTAAGAAGAC
Found at i:4265046 original size:84 final size:84
Alignment explanation
Indices: 4264929--4265108 Score: 288
Period size: 84 Copynumber: 2.1 Consensus size: 84
4264919 ACCTTGAGAG
* * * *
4264929 TATCGATACTTCTCTTACCTTTAGTATCAGTACCACATGAACAATATCGGCACTGTTCATATAGT
1 TATCAATACTTCTCATACCTTTAGTATCAGTACCACATGAACAATATCGACACTGTTCATATAAT
*
4264994 ATCGGTACTGTAAGAACAA
66 ATCGATACTGTAAGAACAA
* *
4265013 TATCAATACTTCTCATACCTTTGGTATCAGTACCACATGAACAATATCGATACTGTTCATATAAT
1 TATCAATACTTCTCATACCTTTAGTATCAGTACCACATGAACAATATCGACACTGTTCATATAAT
*
4265078 ATCGATATTGTAAGAACAA
66 ATCGATACTGTAAGAACAA
4265097 TATCAATACTTC
1 TATCAATACTTC
4265109 ATACCTAGAA
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
84 88 1.00
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.33
Consensus pattern (84 bp):
TATCAATACTTCTCATACCTTTAGTATCAGTACCACATGAACAATATCGACACTGTTCATATAAT
ATCGATACTGTAAGAACAA
Found at i:4265073 original size:44 final size:44
Alignment explanation
Indices: 4264929--4265066 Score: 142
Period size: 44 Copynumber: 3.2 Consensus size: 44
4264919 ACCTTGAGAG
*
4264929 TATCGATACTTCTCTTACCTTTAGTATCAGTACCACATGAACAA
1 TATCGATACTTCTCATACCTTTAGTATCAGTACCACATGAACAA
** * *** *
4264973 TATCGGCACTGT-TCATA----TAGTATCGGTACTGTAAGAACAA
1 TATCGATACT-TCTCATACCTTTAGTATCAGTACCACATGAACAA
* *
4265013 TATCAATACTTCTCATACCTTTGGTATCAGTACCACATGAACAA
1 TATCGATACTTCTCATACCTTTAGTATCAGTACCACATGAACAA
4265057 TATCGATACT
1 TATCGATACT
4265067 GTTCATATAA
Statistics
Matches: 70, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
39 1 0.01
40 30 0.43
44 38 0.54
45 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (44 bp):
TATCGATACTTCTCATACCTTTAGTATCAGTACCACATGAACAA
Found at i:4265851 original size:2 final size:2
Alignment explanation
Indices: 4265846--4265873 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4265836 ACTTTGTATG
4265846 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4265874 CACATATGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4267313 original size:16 final size:16
Alignment explanation
Indices: 4267292--4267324 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
4267282 TAATAAATAA
4267292 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
4267308 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
4267324 A
1 A
4267325 AATTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:4267411 original size:16 final size:16
Alignment explanation
Indices: 4267390--4267448 Score: 100
Period size: 16 Copynumber: 3.7 Consensus size: 16
4267380 CATTTAATAA
4267390 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
4267406 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
* *
4267422 ATAAATGAACAAGAAC
1 ATAAACGAACACGAAC
4267438 ATAAACGAACA
1 ATAAACGAACA
4267449 TAAACGTTGG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.59, C:0.20, G:0.12, T:0.08
Consensus pattern (16 bp):
ATAAACGAACACGAAC
Found at i:4268547 original size:14 final size:14
Alignment explanation
Indices: 4268530--4268566 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
4268520 GATTGGGTTA
*
4268530 AACATAAATGAACG
1 AACATAAACGAACG
*
4268544 AACATAACCGAACG
1 AACATAAACGAACG
4268558 AACATAAAC
1 AACATAAAC
4268567 AAACATAACC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.57, C:0.22, G:0.11, T:0.11
Consensus pattern (14 bp):
AACATAAACGAACG
Found at i:4277783 original size:21 final size:22
Alignment explanation
Indices: 4277752--4277792 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
4277742 TCTTGTCGGC
4277752 GTCTTATCGAGCAAGATGATAA
1 GTCTTATCGAGCAAGATGATAA
*
4277774 GTCTT-TCGAGCATGATGAT
1 GTCTTATCGAGCAAGATGAT
4277793 TAAATCCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (22 bp):
GTCTTATCGAGCAAGATGATAA
Found at i:4278462 original size:3 final size:3
Alignment explanation
Indices: 4278454--4278511 Score: 55
Period size: 3 Copynumber: 19.0 Consensus size: 3
4278444 AAATAAAAAT
* * *
4278454 TAA TAA TAA TAA T-A TAAA TAA AAA TAA TAA TAA TAA TAT TAT TAGA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
*
4278500 TAT TAA TAA TAA
1 TAA TAA TAA TAA
4278512 CCCGAACAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
2 2 0.04
3 40 0.87
4 4 0.09
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:4278481 original size:24 final size:25
Alignment explanation
Indices: 4278444--4278511 Score: 93
Period size: 24 Copynumber: 2.8 Consensus size: 25
4278434 AAAAAAATGA
4278444 AAATAAAAATTAATAATAATAATAT
1 AAATAAAAATTAATAATAATAATAT
4278469 AAATAAAAA-TAATAATAATAATAT
1 AAATAAAAATTAATAATAATAATAT
* * * *
4278493 TATTAGATATTAATAATAA
1 AAATAAAAATTAATAATAA
4278512 CCCGAACAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
24 20 0.53
25 18 0.47
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (25 bp):
AAATAAAAATTAATAATAATAATAT
Found at i:4279195 original size:42 final size:43
Alignment explanation
Indices: 4279115--4279218 Score: 115
Period size: 42 Copynumber: 2.5 Consensus size: 43
4279105 CGAAGGTCTT
* * * * *
4279115 ATAGATGGCCCAAAGGACTT-ATCATCTTGCTCGAAAGAC-TA
1 ATAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTA
4279156 ATAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTA
1 ATAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTA
* * *
4279199 CT-GATGTCCTGAAGGATTTA
1 ATAGATGACCCGAAGGATTTA
4279219 CTAATTTTAG
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
41 17 0.32
42 33 0.62
43 3 0.06
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (43 bp):
ATAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTA
Found at i:4279409 original size:260 final size:258
Alignment explanation
Indices: 4278651--4279603 Score: 1352
Period size: 258 Copynumber: 3.7 Consensus size: 258
4278641 TAGATAACTT
** * *
4278651 GAAGGATTTAATTATCATGCTCGAAAGACTTACTAATGGCCTGAAAGACTTACTAATTTTGGAAA
1 GAAGGATTTAAGCATCATGCTCGAAAGACTTACTAATGGCCCGAAGGACTTACTAATTTTGGAAA
* **
4278716 TAATTTACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTAAAAAAATTTCATTTTCTGAAA
66 TAATTTACTGGGTAAGAAACTTTGAAAATCACTTTCTTACTTTTCAAAAATTTCATTTTCTGAAA
* ** *
4278781 ACATTAAATAAGAAACTTTGGAAATCACTTTCTCATTTTTTGAAAATCATGTGAAAACATCCTGT
131 ACATTAAATAAGAAACTTTGAAAATCACTTTCTCATTTTTCAAAAATCATGTGAAAACATCCTGC
* * * * * * * * **
4278846 CTGAAGGTCTCATAGATAGCCCGAACGACTTATAATCCTGCTTGAAAGACTGACAGATGGTCC
196 CCGAAGGTCTAATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTAACAGATGACCC
* * * *
4278909 AAAGGATTTAATCATCATGCTCGAAAGACTTACTAATAGCCCGAAGGACTTACCAATTTTGGAAA
1 GAAGGATTTAAGCATCATGCTCGAAAGACTTACTAATGGCCCGAAGGACTTACTAATTTTGGAAA
* * * *
4278974 TAGTCTACTGGGTAAGAAACTTT-AAATATCGCTTTCTTACTTTTCAAAAATTTCATTTTATGAA
66 TAATTTACTGGGTAAGAAACTTTGAAA-ATCACTTTCTTACTTTTCAAAAATTTCATTTTCTGAA
**
4279038 AACATTAAATAAGAAACTTTGAAAATTGCTTTCTCATTTTTCAAAAATCATGTGAAAACATCCTG
130 AACATTAAATAAGAAACTTTGAAAATCACTTTCTCATTTTTCAAAAATCATGTGAAAACATCCTG
* * *
4279103 CCCGAAGGTCTTATAGATGGCCCAAAGGACTTATCATCTTGCTCGAAAGACTAATAGATGACCC
195 CCCGAAGGTCTAATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTAACAGATGACCC
* * * * *
4279167 GAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGTCCTGAAGGATTTACTAATTTTAGAAA
1 GAAGGATTTAAGCATCATGCTCGAAAGACTTACTAATGGCCCGAAGGACTTACTAATTTTGGAAA
* *
4279232 TAATTTACTGGGTATGAAACTTTGAAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTCTGAAA
66 TAATTTACTGGGTAAGAAACTTTGAAAATCACTTTCTTACTTTTCAAAAATTTCATTTTCTG-AA
* * *
4279297 AAGATTTAAATGAGAAACTTTGGAAATCACTTTCTCATTTTTCAAAAATCATGTGAAAACATCCT
130 AACA-TTAAATAAGAAACTTTGAAAATCACTTTCTCATTTTTCAAAAATCATGTGAAAACATCCT
* * * *
4279362 GCCCAAAGGTCTAATAGATGGCTCGAAGGACTTATCATCTTGCTCGAAAGACTTACAGATAACCC
194 GCCCGAAGGTCTAATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTAACAGATGACCC
* *
4279427 GAAGGATTTAAGCATCATGTTCGAAAGACTTACTGATGGCCCGAAGGACTTACTAATTTTGGAAA
1 GAAGGATTTAAGCATCATGCTCGAAAGACTTACTAATGGCCCGAAGGACTTACTAATTTTGGAAA
* *
4279492 TAATTTACTGGGTAAGAAACTTTGGAAACCACTTTCTTACTTTTCAAAAATTTCATTTTCT-AAA
66 TAATTTACTGGGTAAGAAACTTTGAAAATCACTTTCTTACTTTTCAAAAATTTCATTTTCTGAAA
* * * *
4279556 CACATTAAATGAGAAAATTTGAAAATCGCTTTCTCATTTTTCGAAAAT
131 -ACATTAAATAAGAAACTTTGAAAATCACTTTCTCATTTTTCAAAAAT
4279604 AACTTAATGG
Statistics
Matches: 620, Mismatches: 70, Indels: 10
0.89 0.10 0.01
Matches are distributed among these distances:
257 2 0.00
258 377 0.61
259 10 0.02
260 231 0.37
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.33
Consensus pattern (258 bp):
GAAGGATTTAAGCATCATGCTCGAAAGACTTACTAATGGCCCGAAGGACTTACTAATTTTGGAAA
TAATTTACTGGGTAAGAAACTTTGAAAATCACTTTCTTACTTTTCAAAAATTTCATTTTCTGAAA
ACATTAAATAAGAAACTTTGAAAATCACTTTCTCATTTTTCAAAAATCATGTGAAAACATCCTGC
CCGAAGGTCTAATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTAACAGATGACCC
Found at i:4280699 original size:14 final size:13
Alignment explanation
Indices: 4280673--4280697 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4280663 TTTATTTTCA
4280673 AAATTTGAAAAAT
1 AAATTTGAAAAAT
4280686 AAATTTGAAAAA
1 AAATTTGAAAAA
4280698 ATTCAAAAAT
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:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (13 bp):
AAATTTGAAAAAT
Found at i:4288780 original size:65 final size:65
Alignment explanation
Indices: 4288643--4288805 Score: 224
Period size: 65 Copynumber: 2.5 Consensus size: 65
4288633 AGGTGCACTC
* * * *
4288643 TTAGTGCACCGATGCATGAAATGCATTCGATG-TTTCAAACAAGCCAGAGTGCATCGATGTATAA
1 TTAGTGCATCGATGCATAAAATGCATTCGATGTTTTCAAACAACCCAGAGTGCATCGATGCATAA
* *
4288707 TTAGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAA-AACCCTGAGTGCATCGATGCATG
1 TTAGTGCATCGATGCATAAAATGCATTCGATGTTTTCA-AACAACCCAGAGTGCATCGATGCATA
*
4288771 G
65 A
4288772 TATA-TGCATCGATGCATAAAATGCATTCGATGTT
1 T-TAGTGCATCGATGCATAAAATGCATTCGATGTT
4288806 CATTTTATTC
Statistics
Matches: 89, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
64 30 0.34
65 55 0.62
66 4 0.04
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (65 bp):
TTAGTGCATCGATGCATAAAATGCATTCGATGTTTTCAAACAACCCAGAGTGCATCGATGCATAA
Found at i:4288845 original size:65 final size:63
Alignment explanation
Indices: 4288646--4288847 Score: 182
Period size: 65 Copynumber: 3.1 Consensus size: 63
4288636 TGCACTCTTA
* * * * *
4288646 GTGCACCGATGCATGAAATGCATTCGATG-TTTCA-AACAAGCCAGAGTGCATCGATGTAT-AAT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCATAA-AA--CTGAGTGCATCGATGCATGGAT
4288708 T
63 T
4288709 AGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAACCCTGAGTGCATCGATGCATGG-T
1 -GTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAA--CTGAGTGCATCGATGCATGGAT
4288773 AT
63 -T
* * **
4288775 ATGCATCGATGCATAAAATGCATTCGATGTTCATTTTATTCAA-TG-GTGCATCGATGCATGGAT
1 GTGCATCGATGCATAAAATGCATTCGATG-T--TTTCATAAAACTGAGTGCATCGATGCATGGAT
4288838 T
63 T
4288839 GGTGCATCG
1 -GTGCATCG
4288848 GTACACTCCT
Statistics
Matches: 118, Mismatches: 11, Indels: 17
0.81 0.08 0.12
Matches are distributed among these distances:
64 44 0.37
65 63 0.53
66 4 0.03
68 7 0.06
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (63 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAACTGAGTGCATCGATGCATGGATT
Found at i:4290848 original size:43 final size:45
Alignment explanation
Indices: 4290772--4290893 Score: 121
Period size: 43 Copynumber: 2.8 Consensus size: 45
4290762 TAACCCGACA
* * * * *
4290772 GATGCATCGATGCA-TGTCCTTGTGCATCAATGCACATTC-AAGG
1 GATGCATCGATGCACTTTCATAGTGTATCGATGCACATTCAAAGG
4290815 CG-TGCATCG-TGCA-TCTTCAT-GATGTATCGATGCACATTCAAAGG
1 -GATGCATCGATGCACT-TTCATAG-TGTATCGATGCACATTCAAAGG
*
4290859 GATGCATTGATGCACTTTCATAGTGTATCGATGCA
1 GATGCATCGATGCACTTTCATAGTGTATCGATGCA
4290894 TTATGCACAA
Statistics
Matches: 66, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
42 6 0.09
43 26 0.39
44 11 0.17
45 21 0.32
46 2 0.03
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.30
Consensus pattern (45 bp):
GATGCATCGATGCACTTTCATAGTGTATCGATGCACATTCAAAGG
Found at i:4290888 original size:45 final size:43
Alignment explanation
Indices: 4290801--4290893 Score: 111
Period size: 45 Copynumber: 2.1 Consensus size: 43
4290791 TTGTGCATCA
4290801 ATGCACATTCAAGGCGTGCATCGTGCATCTTCATGATGTATCG
1 ATGCACATTCAAGGCGTGCATCGTGCATCTTCATGATGTATCG
*
4290844 ATGCACATTCAAAGG-GATGCATTGATGCA-CTTTCAT-AGTGTATCG
1 ATGCACATTC-AAGGCG-TGCATCG-TGCATC-TTCATGA-TGTATCG
4290889 ATGCA
1 ATGCA
4290894 TTATGCACAA
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
43 11 0.25
44 12 0.27
45 21 0.48
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (43 bp):
ATGCACATTCAAGGCGTGCATCGTGCATCTTCATGATGTATCG
Found at i:4296641 original size:3 final size:3
Alignment explanation
Indices: 4296633--4296688 Score: 71
Period size: 3 Copynumber: 19.0 Consensus size: 3
4296623 CAATAAGAAT
*
4296633 TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA TAA TAA T-A TAT TAGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
*
4296677 TAT TAA TAA TAA
1 TAA TAA TAA TAA
4296689 CCCGGGAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
2 4 0.09
3 40 0.87
4 2 0.04
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:4297556 original size:18 final size:19
Alignment explanation
Indices: 4297533--4297570 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
4297523 CTCAAATTCG
4297533 AGATCTTATATATA-AAAA
1 AGATCTTATATATATAAAA
4297551 AGATCTTATATATATAAAA
1 AGATCTTATATATATAAAA
4297570 A
1 A
4297571 AATTATACTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.34
Consensus pattern (19 bp):
AGATCTTATATATATAAAA
Found at i:4298305 original size:13 final size:13
Alignment explanation
Indices: 4298284--4298319 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
4298274 TAATCAAAAC
*
4298284 ATATCAAATATAA
1 ATATTAAATATAA
4298297 ATATTAAATATAA
1 ATATTAAATATAA
4298310 ATACTTAAAT
1 ATA-TTAAAT
4298320 TATGAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 15 0.71
14 6 0.29
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (13 bp):
ATATTAAATATAA
Found at i:4313090 original size:12 final size:12
Alignment explanation
Indices: 4313046--4313096 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
4313036 CAAAGAATTT
4313046 TTATTTTACTTG
1 TTATTTTACTTG
*
4313058 TTCATTTT-TTTG
1 TT-ATTTTACTTG
4313070 TATAGTTTTACTTG
1 T-TA-TTTTACTTG
*
4313084 TTATTTTCCTTG
1 TTATTTTACTTG
4313096 T
1 T
4313097 CTTTTTCAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
12 16 0.50
13 12 0.38
14 4 0.12
ACGTcount: A:0.14, C:0.10, G:0.10, T:0.67
Consensus pattern (12 bp):
TTATTTTACTTG
Found at i:4316309 original size:15 final size:16
Alignment explanation
Indices: 4316289--4316318 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4316279 CCCTTCCACT
4316289 TAGAGTG-TGGGATGG
1 TAGAGTGATGGGATGG
4316304 TAGAGTGATGGGATG
1 TAGAGTGATGGGATG
4316319 ACTCCCCTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.23, C:0.00, G:0.50, T:0.27
Consensus pattern (16 bp):
TAGAGTGATGGGATGG
Found at i:4352204 original size:21 final size:21
Alignment explanation
Indices: 4352180--4352235 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
4352170 TGAAAGTATT
*
4352180 CATTTTAGGTAGCGAAATTAA
1 CATTTTAGGTAGCGAAAATAA
* **
4352201 CATTTTCGGTAGAAAAAATAA
1 CATTTTAGGTAGCGAAAATAA
*
4352222 AATTTTAGGTAGCG
1 CATTTTAGGTAGCG
4352236 CTCTATCGGA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.32
Consensus pattern (21 bp):
CATTTTAGGTAGCGAAAATAA
Found at i:4357611 original size:45 final size:45
Alignment explanation
Indices: 4357560--4357663 Score: 199
Period size: 45 Copynumber: 2.3 Consensus size: 45
4357550 ATGCATAGGA
*
4357560 AGTGCATCGATGCACCCATTAAAAATGGAAACATCGAATGCAGTT
1 AGTGCATCGATGCACCCATTAAAAATGGAAACATCAAATGCAGTT
4357605 AGTGCATCGATGCACCCATTAAAAATGGAAACATCAAATGCAGTT
1 AGTGCATCGATGCACCCATTAAAAATGGAAACATCAAATGCAGTT
4357650 AGTGCATCGATGCA
1 AGTGCATCGATGCA
4357664 TAAGGAGTGC
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (45 bp):
AGTGCATCGATGCACCCATTAAAAATGGAAACATCAAATGCAGTT
Found at i:4357673 original size:64 final size:64
Alignment explanation
Indices: 4357604--4357745 Score: 166
Period size: 64 Copynumber: 2.2 Consensus size: 64
4357594 CGAATGCAGT
*
4357604 TAGTGCATCGATGCACC-CATTAAAAATGGAAACATC-AA-ATGCAGTTAGTGCATCGATGCATA
1 TAGTGCATCGATGCACCTCATT-AAAATGAAAACATCGAAGATG-A-TTAGTGCATCGATGCAT-
4357666 AGG
62 AGG
* * * * *
4357669 -AGTGCATCGATGCACCTCCTTAAAATGAAAACATCGAAGGTGATTTGTGTATCGATGCATGGG
1 TAGTGCATCGATGCACCTCATTAAAATGAAAACATCGAAGATGATTAGTGCATCGATGCATAGG
4357732 TAGTGCATCGATGC
1 TAGTGCATCGATGC
4357746 GCTTCAAGGG
Statistics
Matches: 67, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
63 2 0.03
64 57 0.85
65 6 0.09
66 2 0.03
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.25
Consensus pattern (64 bp):
TAGTGCATCGATGCACCTCATTAAAATGAAAACATCGAAGATGATTAGTGCATCGATGCATAGG
Found at i:4358834 original size:23 final size:23
Alignment explanation
Indices: 4358808--4358881 Score: 103
Period size: 23 Copynumber: 3.2 Consensus size: 23
4358798 TGGCACTCTA
* * *
4358808 GTGCATTTCTACGCGGCACTACG
1 GTGCAATTCTACGTGGCACTTCG
*
4358831 GTGCAATTCTATGTGGCACTTCG
1 GTGCAATTCTACGTGGCACTTCG
*
4358854 GTGTAATTCTACGTGGCACTTCG
1 GTGCAATTCTACGTGGCACTTCG
4358877 GTGCA
1 GTGCA
4358882 TTTATATGGG
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.18, C:0.24, G:0.27, T:0.31
Consensus pattern (23 bp):
GTGCAATTCTACGTGGCACTTCG
Found at i:4364859 original size:52 final size:52
Alignment explanation
Indices: 4364802--4364961 Score: 125
Period size: 52 Copynumber: 3.1 Consensus size: 52
4364792 GGTTCAAACC
4364802 AAAATTGGTAGCAACAGGGTTCACTTAATCATATGAGATTAACTATAAAAAG
1 AAAATTGGTAGCAACAGGGTTCACTTAATCATATGAGATTAACTATAAAAAG
* * ** * ** ** * * **
4364854 AAAA-T--TA-CAA-ATGTTCTCAAAGTAAACATAGTTTGGGTAAGGT-TCAAACC
1 AAAATTGGTAGCAACAGGGT-TC-ACTTAATCATA-TGAGATTAA-CTATAAAAAG
4364904 AAAATTGGTAGCAACAGGGTTCACTTAATCATATGAGATTAACTATAAAAAG
1 AAAATTGGTAGCAACAGGGTTCACTTAATCATATGAGATTAACTATAAAAAG
4364956 AAAATT
1 AAAATT
4364962 ACAAATGTTC
Statistics
Matches: 72, Mismatches: 26, Indels: 20
0.61 0.22 0.17
Matches are distributed among these distances:
47 3 0.04
48 5 0.07
49 10 0.14
50 13 0.18
51 4 0.06
52 19 0.26
53 10 0.14
54 5 0.07
55 3 0.04
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (52 bp):
AAAATTGGTAGCAACAGGGTTCACTTAATCATATGAGATTAACTATAAAAAG
Found at i:4364966 original size:102 final size:102
Alignment explanation
Indices: 4364790--4364995 Score: 412
Period size: 102 Copynumber: 2.0 Consensus size: 102
4364780 GAACTATTAA
4364790 AAGGTTCAAACCAAAATTGGTAGCAACAGGGTTCACTTAATCATATGAGATTAACTATAAAAAGA
1 AAGGTTCAAACCAAAATTGGTAGCAACAGGGTTCACTTAATCATATGAGATTAACTATAAAAAGA
4364855 AAATTACAAATGTTCTCAAAGTAAACATAGTTTGGGT
66 AAATTACAAATGTTCTCAAAGTAAACATAGTTTGGGT
4364892 AAGGTTCAAACCAAAATTGGTAGCAACAGGGTTCACTTAATCATATGAGATTAACTATAAAAAGA
1 AAGGTTCAAACCAAAATTGGTAGCAACAGGGTTCACTTAATCATATGAGATTAACTATAAAAAGA
4364957 AAATTACAAATGTTCTCAAAGTAAACATAGTTTGGGT
66 AAATTACAAATGTTCTCAAAGTAAACATAGTTTGGGT
4364994 AA
1 AA
4364996 TATTGTCATT
Statistics
Matches: 104, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
102 104 1.00
ACGTcount: A:0.44, C:0.13, G:0.17, T:0.27
Consensus pattern (102 bp):
AAGGTTCAAACCAAAATTGGTAGCAACAGGGTTCACTTAATCATATGAGATTAACTATAAAAAGA
AAATTACAAATGTTCTCAAAGTAAACATAGTTTGGGT
Found at i:4366039 original size:13 final size:14
Alignment explanation
Indices: 4366014--4366044 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
4366004 TATACTTAGC
4366014 ATAATGAAAAGAAA
1 ATAATGAAAAGAAA
4366028 ATAATG-AAAGAAA
1 ATAATGAAAAGAAA
4366041 ATAA
1 ATAA
4366045 AGAGATGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.16
Consensus pattern (14 bp):
ATAATGAAAAGAAA
Found at i:4366890 original size:39 final size:39
Alignment explanation
Indices: 4366847--4366973 Score: 202
Period size: 39 Copynumber: 3.3 Consensus size: 39
4366837 TCTATTTGAT
* *
4366847 AATAGTATATGACAGCATTTGTTTGAGATTAGTAATGAC
1 AATAGTATATGAGAGCATTTGTTTGAGAATAGTAATGAC
**
4366886 AATAGTATATGAGAATATTTGTTTGAGAATAGTAATGAC
1 AATAGTATATGAGAGCATTTGTTTGAGAATAGTAATGAC
4366925 AATAGTATATGAGAGCATTTGTTTGAGAATAGTAATGAC
1 AATAGTATATGAGAGCATTTGTTTGAGAATAGTAATGAC
4366964 AAATAG-ATAT
1 -AATAGTATAT
4366974 CAACATTTGC
Statistics
Matches: 81, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
39 76 0.94
40 5 0.06
ACGTcount: A:0.40, C:0.05, G:0.20, T:0.35
Consensus pattern (39 bp):
AATAGTATATGAGAGCATTTGTTTGAGAATAGTAATGAC
Found at i:4374126 original size:35 final size:35
Alignment explanation
Indices: 4374080--4374200 Score: 129
Period size: 35 Copynumber: 3.4 Consensus size: 35
4374070 CTTTAGGTCC
*
4374080 ATAAGGAATTACCAACTAATCGGTGATGAACCTAT
1 ATAAGGAATTACCAACTGATCGGTGATGAACCTAT
* * *
4374115 ATAAGGAATTACCAGCTTGATCAG-AATTGAACCTGCA-
1 ATAAGGAATTACCAAC-TGATCGGTGA-TGAACCT--AT
* * *
4374152 ATAAGGAATTACCAATTGATCGGTGTTAAACCTAT
1 ATAAGGAATTACCAACTGATCGGTGATGAACCTAT
4374187 ATAAGGAATTACCA
1 ATAAGGAATTACCA
4374201 GCTTGATCAG
Statistics
Matches: 70, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
34 1 0.01
35 30 0.43
36 24 0.34
37 14 0.20
38 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (35 bp):
ATAAGGAATTACCAACTGATCGGTGATGAACCTAT
Found at i:4374171 original size:36 final size:36
Alignment explanation
Indices: 4374106--4374223 Score: 150
Period size: 36 Copynumber: 3.3 Consensus size: 36
4374096 TAATCGGTGA
4374106 TGAACCTATATAAGGAATTACCAGCTTGATCAGAAT
1 TGAACCTATATAAGGAATTACCAGCTTGATCAGAAT
* * **
4374142 TGAACCTGCA-ATAAGGAATTACCA-ATTGATCGGTGT
1 TGAACCT--ATATAAGGAATTACCAGCTTGATCAGAAT
* *
4374178 TAAACCTATATAAGGAATTACCAGCTTGATCAGAAC
1 TGAACCTATATAAGGAATTACCAGCTTGATCAGAAT
4374214 TGAACCTATA
1 TGAACCTATA
4374224 GAGACCTCAT
Statistics
Matches: 67, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
34 1 0.01
35 14 0.21
36 37 0.55
37 14 0.21
38 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (36 bp):
TGAACCTATATAAGGAATTACCAGCTTGATCAGAAT
Found at i:4374197 original size:72 final size:72
Alignment explanation
Indices: 4374080--4374220 Score: 237
Period size: 72 Copynumber: 2.0 Consensus size: 72
4374070 CTTTAGGTCC
* *
4374080 ATAAGGAATTACCAACTAATCGGTGATGAACCTATATAAGGAATTACCAGCTTGATCAGAATTGA
1 ATAAGGAATTACCAACTAATCGGTGATAAACCTATATAAGGAATTACCAGCTTGATCAGAACTGA
4374145 ACCTGCA
66 ACCTGCA
* * *
4374152 ATAAGGAATTACCAATTGATCGGTGTTAAACCTATATAAGGAATTACCAGCTTGATCAGAACTGA
1 ATAAGGAATTACCAACTAATCGGTGATAAACCTATATAAGGAATTACCAGCTTGATCAGAACTGA
4374217 ACCT
66 ACCT
4374221 ATAGAGACCT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 64 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (72 bp):
ATAAGGAATTACCAACTAATCGGTGATAAACCTATATAAGGAATTACCAGCTTGATCAGAACTGA
ACCTGCA
Found at i:4375967 original size:20 final size:20
Alignment explanation
Indices: 4375939--4375982 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
4375929 GGTCAACGAG
4375939 TCAGACTGGTTTAG-GTTGAC
1 TCAGACTGG-TTAGAGTTGAC
* *
4375959 TCAGGCTGGTTCGAGTTGAC
1 TCAGACTGGTTAGAGTTGAC
4375979 TCAG
1 TCAG
4375983 TTCGATCCGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.32
Consensus pattern (20 bp):
TCAGACTGGTTAGAGTTGAC
Found at i:4375993 original size:20 final size:20
Alignment explanation
Indices: 4375970--4376019 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
4375960 CAGGCTGGTT
4375970 CGAGTTGACTCAGTTCGATC
1 CGAGTTGACTCAGTTCGATC
* *
4375990 CGAGTTGACTCGGTTCGGTC
1 CGAGTTGACTCAGTTCGATC
4376010 CGAGTTGACT
1 CGAGTTGACT
4376020 GAGATCAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.16, C:0.24, G:0.30, T:0.30
Consensus pattern (20 bp):
CGAGTTGACTCAGTTCGATC
Found at i:4378703 original size:36 final size:36
Alignment explanation
Indices: 4378591--4378704 Score: 95
Period size: 36 Copynumber: 3.2 Consensus size: 36
4378581 TGATCGGTGT
* * *
4378591 TGAACCTATATAAGGAATTACCAGCTTGATCAGAAA
1 TGAACCAATATAAGGAATTAACAGCTTGATTAGAAA
* * * * * ***
4378627 TAAACTAGTAATAAGAAATTAACAG-TTGATTGGTGT
1 TGAACCAAT-ATAAGGAATTAACAGCTTGATTAGAAA
* *
4378663 TGAACCAATATAAGGAATTATCAGCTTGATTAGAAC
1 TGAACCAATATAAGGAATTAACAGCTTGATTAGAAA
4378699 TGAACC
1 TGAACC
4378705 TGTAGAGACT
Statistics
Matches: 56, Mismatches: 20, Indels: 4
0.70 0.25 0.05
Matches are distributed among these distances:
35 13 0.23
36 30 0.54
37 13 0.23
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (36 bp):
TGAACCAATATAAGGAATTAACAGCTTGATTAGAAA
Found at i:4381276 original size:20 final size:23
Alignment explanation
Indices: 4381247--4381287 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
4381237 TATTCAACCC
4381247 AAAATAATTT-AAA-TCAACCGA
1 AAAATAATTTGAAACTCAACCGA
4381268 AAAAT-ATTTGAAACTCAACC
1 AAAATAATTTGAAACTCAACC
4381288 AAATCGGCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 8 0.44
22 6 0.33
ACGTcount: A:0.54, C:0.17, G:0.05, T:0.24
Consensus pattern (23 bp):
AAAATAATTTGAAACTCAACCGA
Found at i:4382445 original size:45 final size:45
Alignment explanation
Indices: 4382380--4382471 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
4382370 CATCATTTGG
* *
4382380 AATGATTGGATTTATGTTTTGATATTGTTTGATTAGTAAGAGAGT
1 AATGATTGGATTTATATTTTGATATTGTTTGATTAGCAAGAGAGT
4382425 AATGATTGGATTTATATTTTGATATTGTTTGATTAGCAAGAGAGT
1 AATGATTGGATTTATATTTTGATATTGTTTGATTAGCAAGAGAGT
4382470 AA
1 AA
4382472 GGAGAGCCCT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.32, C:0.01, G:0.23, T:0.45
Consensus pattern (45 bp):
AATGATTGGATTTATATTTTGATATTGTTTGATTAGCAAGAGAGT
Found at i:4395710 original size:31 final size:29
Alignment explanation
Indices: 4395675--4395744 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 29
4395665 GGGTTTGTTT
4395675 GATCGGGTTTA-TACGCCAAAATTTCAGGTCA
1 GATCGGGTTTAGTA-G--AAAATTTCAGGTCA
* *
4395706 GATCGGATTTAGGTAGAAAATTTCAGGTCG
1 GATCGGGTTTA-GTAGAAAATTTCAGGTCA
4395736 GATCGGGTT
1 GATCGGGTT
4395745 CAGGTAGAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
30 21 0.62
31 10 0.29
32 1 0.03
33 2 0.06
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (29 bp):
GATCGGGTTTAGTAGAAAATTTCAGGTCA
Found at i:4395727 original size:30 final size:30
Alignment explanation
Indices: 4395692--4395752 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
4395682 TTTATACGCC
*
4395692 AAAATTTCAGGTCAGATCGGATTTAGGTAG
1 AAAATTTCAGGTCAGATCGGATTCAGGTAG
* *
4395722 AAAATTTCAGGTCGGATCGGGTTCAGGTAG
1 AAAATTTCAGGTCAGATCGGATTCAGGTAG
4395752 A
1 A
4395753 GAAAATGTGC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.31, C:0.11, G:0.30, T:0.28
Consensus pattern (30 bp):
AAAATTTCAGGTCAGATCGGATTCAGGTAG
Found at i:4397001 original size:17 final size:17
Alignment explanation
Indices: 4396981--4397013 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4396971 AACCTAGCCC
*
4396981 ATGCTCATCCCTAATCT
1 ATGCCCATCCCTAATCT
4396998 ATGCCCATCCCTAATC
1 ATGCCCATCCCTAATC
4397014 CAAACCAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.39, G:0.06, T:0.30
Consensus pattern (17 bp):
ATGCCCATCCCTAATCT
Found at i:4398556 original size:18 final size:18
Alignment explanation
Indices: 4398533--4398589 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
4398523 TAAAATTTTA
4398533 AAAATTCACTATTAACAT
1 AAAATTCACTATTAACAT
** **
4398551 AAAATT-AAAATT-TTA-
1 AAAATTCACTATTAACAT
4398566 AAAATTCACTATTAACAT
1 AAAATTCACTATTAACAT
4398584 AAAATT
1 AAAATT
4398590 ATGTGTCCGT
Statistics
Matches: 28, Mismatches: 8, Indels: 6
0.67 0.19 0.14
Matches are distributed among these distances:
15 6 0.21
16 5 0.18
17 5 0.18
18 12 0.43
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAATTCACTATTAACAT
Found at i:4398559 original size:33 final size:33
Alignment explanation
Indices: 4398522--4398590 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
4398512 TCATTTCCTC
4398522 TTAAAATTTTAAAAATTCACTATTAACATAAAA
1 TTAAAATTTTAAAAATTCACTATTAACATAAAA
4398555 TTAAAATTTTAAAAATTCACTATTAACATAAAA
1 TTAAAATTTTAAAAATTCACTATTAACATAAAA
4398588 TTA
1 TTA
4398591 TGTGTCCGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.38
Consensus pattern (33 bp):
TTAAAATTTTAAAAATTCACTATTAACATAAAA
Found at i:4399018 original size:58 final size:61
Alignment explanation
Indices: 4398890--4399019 Score: 169
Period size: 59 Copynumber: 2.2 Consensus size: 61
4398880 TTATGGCCTT
* * * * *
4398890 CATTTTAATTTGATCCTTGAATATTTTTAATATTCCAATTTCATCCTCAAATTATGACTCT
1 CATTTTAAATTAATCATTGAATATTTTTAACATTCCAATTTCATCCTCAAATTATGACTCA
*
4398951 CATTCTAAATTAATCATT-AAT-TTTTTAACATTCCAATTTCATCC-CACAA-TATGACTCA
1 CATTTTAAATTAATCATTGAATATTTTTAACATTCCAATTTCATCCTCA-AATTATGACTCA
4399009 CATTTTAAATT
1 CATTTTAAATT
4399020 GGTCCTCAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
58 20 0.33
59 24 0.39
60 3 0.05
61 14 0.23
ACGTcount: A:0.33, C:0.19, G:0.03, T:0.45
Consensus pattern (61 bp):
CATTTTAAATTAATCATTGAATATTTTTAACATTCCAATTTCATCCTCAAATTATGACTCA
Found at i:4400566 original size:17 final size:18
Alignment explanation
Indices: 4400538--4400571 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
4400528 GTGAATAATT
4400538 AAAACAAAATTCAATTTC
1 AAAACAAAATTCAATTTC
4400556 AAAAC-AAATTCAATTT
1 AAAACAAAATTCAATTT
4400572 TAAATATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAACAAAATTCAATTTC
Found at i:4402830 original size:13 final size:13
Alignment explanation
Indices: 4402812--4402837 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4402802 TTTCATTTGG
4402812 GTATATGTATATA
1 GTATATGTATATA
4402825 GTATATGTATATA
1 GTATATGTATATA
4402838 ATATGATCCG
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:0.00, G:0.15, T:0.46
Consensus pattern (13 bp):
GTATATGTATATA
Found at i:4406006 original size:20 final size:20
Alignment explanation
Indices: 4405981--4406034 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
4405971 GACCAACAAA
4405981 TTCGCAACGCGAATTCCAAT
1 TTCGCAACGCGAATTCCAAT
* *
4406001 TTCGCAAC-CCAGTTTCCAAT
1 TTCGCAACGCGA-ATTCCAAT
4406021 TTCGCAACGCGAAT
1 TTCGCAACGCGAAT
4406035 ATGTAAATCG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 2 0.07
20 24 0.86
21 2 0.07
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (20 bp):
TTCGCAACGCGAATTCCAAT
Found at i:4407026 original size:23 final size:24
Alignment explanation
Indices: 4407000--4407052 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
4406990 GTATTATAAA
4407000 TTTGATCTT-GTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
4407023 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
4407047 TTTGAT
1 TTTGAT
4407053 GATGTGATGG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 9 0.33
24 18 0.67
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.42
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:4407235 original size:3 final size:3
Alignment explanation
Indices: 4407227--4407251 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4407217 ATATAACCCT
4407227 GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA G
4407252 TCCCCGAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:4410061 original size:7 final size:7
Alignment explanation
Indices: 4410049--4410089 Score: 64
Period size: 7 Copynumber: 5.9 Consensus size: 7
4410039 GTCAAAGAAA
4410049 GTCAACG
1 GTCAACG
*
4410056 GTCAACA
1 GTCAACG
4410063 GTCAACG
1 GTCAACG
*
4410070 GTCAACA
1 GTCAACG
4410077 GTCAACG
1 GTCAACG
4410084 GTCAAC
1 GTCAAC
4410090 AGTCGGGTCG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.34, C:0.29, G:0.22, T:0.15
Consensus pattern (7 bp):
GTCAACG
Found at i:4410067 original size:14 final size:14
Alignment explanation
Indices: 4410048--4410093 Score: 92
Period size: 14 Copynumber: 3.3 Consensus size: 14
4410038 GGTCAAAGAA
4410048 AGTCAACGGTCAAC
1 AGTCAACGGTCAAC
4410062 AGTCAACGGTCAAC
1 AGTCAACGGTCAAC
4410076 AGTCAACGGTCAAC
1 AGTCAACGGTCAAC
4410090 AGTC
1 AGTC
4410094 GGGTCGGGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.35, C:0.28, G:0.22, T:0.15
Consensus pattern (14 bp):
AGTCAACGGTCAAC
Found at i:4410101 original size:5 final size:5
Alignment explanation
Indices: 4410091--4410147 Score: 60
Period size: 5 Copynumber: 10.6 Consensus size: 5
4410081 ACGGTCAACA
* *
4410091 GTCGG GTCGG GTCGG GTCAACG GTCGG GTCGG GTCGG GTCAACG GTCGG
1 GTCGG GTCGG GTCGG GTC--GG GTCGG GTCGG GTCGG GTC--GG GTCGG
4410140 GTCGG GTC
1 GTCGG GTC
4410148 TGACCGGTCA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 36 0.82
7 8 0.18
ACGTcount: A:0.07, C:0.23, G:0.51, T:0.19
Consensus pattern (5 bp):
GTCGG
Done.