Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 15 of 362
Found at i:4745773 original size:17 final size:17
Alignment explanation
Indices: 4745753--4745786 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4745743 GATTAAATGA
4745753 AAAAAATTTATTTTAAG
1 AAAAAATTTATTTTAAG
*
4745770 AAAAATTTTATTTTAAG
1 AAAAAATTTATTTTAAG
4745787 GGAATCAGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
AAAAAATTTATTTTAAG
Found at i:4749940 original size:21 final size:23
Alignment explanation
Indices: 4749898--4749942 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
4749888 TAAAATGATA
*
4749898 AAATACTATTTTTAAGTAATATT
1 AAATAATATTTTTAAGTAATATT
4749921 AAATAATATTTTT-A-TAATATT
1 AAATAATATTTTTAAGTAATATT
4749942 A
1 A
4749943 TTTATATACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 8 0.38
22 1 0.05
23 12 0.57
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (23 bp):
AAATAATATTTTTAAGTAATATT
Found at i:4751612 original size:30 final size:27
Alignment explanation
Indices: 4751553--4751613 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 27
4751543 TTATGTTATA
*
4751553 AAATAATACTATATAATTATATATGTT
1 AAATAATACTATATAATTATATATATT
* *
4751580 AAATAATAATTATATATTTATATTTATATT
1 AAATAAT-ACTATATAATTATA--TATATT
4751610 AAAT
1 AAAT
4751614 CACTAACCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 7 0.25
28 12 0.43
30 9 0.32
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (27 bp):
AAATAATACTATATAATTATATATATT
Found at i:4754739 original size:9 final size:9
Alignment explanation
Indices: 4754703--4754800 Score: 62
Period size: 9 Copynumber: 10.6 Consensus size: 9
4754693 AAAATTTAGA
*
4754703 AAAATGATT
1 AAAATTATT
4754712 AAAATTGATAT
1 AAAATT-AT-T
*
4754723 AAACTTATT
1 AAAATTATT
4754732 AAAATTA-T
1 AAAATTATT
4754740 AAATATTA-T
1 AAA-ATTATT
4754749 AAAA-TATAT
1 AAAATTAT-T
4754758 AAAATT-TT
1 AAAATTATT
4754766 AATAAATTA-T
1 -A-AAATTATT
*
4754776 AAAATTAAT
1 AAAATTATT
4754785 AAAATTTATTT
1 AAAA-TTA-TT
4754796 AAAAT
1 AAAAT
4754801 AAAAAACGTA
Statistics
Matches: 73, Mismatches: 4, Indels: 23
0.73 0.04 0.23
Matches are distributed among these distances:
7 2 0.03
8 12 0.16
9 33 0.45
10 15 0.21
11 11 0.15
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.40
Consensus pattern (9 bp):
AAAATTATT
Found at i:4754742 original size:17 final size:17
Alignment explanation
Indices: 4754703--4754790 Score: 81
Period size: 18 Copynumber: 4.9 Consensus size: 17
4754693 AAAATTTAGA
*
4754703 AAAATGATTAAAATTGAT
1 AAAATTATTAAAATT-AT
4754721 ATAAACTTATTAAAATTAT
1 A-AAA-TTATTAAAATTAT
4754740 AAATATTA-TAAAATATAT
1 AAA-ATTATTAAAAT-TAT
4754758 AAAATT-TTAATAAATTAT
1 AAAATTATT-A-AAATTAT
*
4754776 AAAATTAATAAAATT
1 AAAATTATTAAAATT
4754791 TATTTAAAAT
Statistics
Matches: 60, Mismatches: 2, Indels: 17
0.76 0.03 0.22
Matches are distributed among these distances:
17 15 0.25
18 23 0.38
19 12 0.20
20 10 0.17
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.39
Consensus pattern (17 bp):
AAAATTATTAAAATTAT
Found at i:4754756 original size:7 final size:8
Alignment explanation
Indices: 4754720--4754790 Score: 70
Period size: 9 Copynumber: 8.1 Consensus size: 8
4754710 TTAAAATTGA
*
4754720 TATAAACT
1 TATAAAAT
4754728 TATTAAAAT
1 TA-TAAAAT
4754737 TATAAATAT
1 TATAAA-AT
4754746 TATAAAAT
1 TATAAAAT
4754754 ATATAAAAT
1 -TATAAAAT
*
4754763 TTTAATAAAT
1 TAT-A-AAAT
4754773 TATAAAAT
1 TATAAAAT
4754781 TAATAAAAT
1 T-ATAAAAT
4754790 T
1 T
4754791 TATTTAAAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
8 15 0.28
9 33 0.61
10 6 0.11
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (8 bp):
TATAAAAT
Found at i:4754777 original size:27 final size:26
Alignment explanation
Indices: 4754720--4754791 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 26
4754710 TTAAAATTGA
* * * *
4754720 TATAAACTTATTAAAATTATAAATAT
1 TATAAAATTAATAAAATTTTAAAAAT
4754746 TATAAAA-TATATAAAATTTTAATAAAT
1 TATAAAATTA-ATAAAATTTTAA-AAAT
4754773 TATAAAATTAATAAAATTT
1 TATAAAATTAATAAAATTT
4754792 ATTTAAAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
25 2 0.05
26 16 0.41
27 19 0.49
28 2 0.05
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (26 bp):
TATAAAATTAATAAAATTTTAAAAAT
Found at i:4754793 original size:18 final size:17
Alignment explanation
Indices: 4754720--4754790 Score: 74
Period size: 17 Copynumber: 4.1 Consensus size: 17
4754710 TTAAAATTGA
* *
4754720 TATAAACTTATTAAAAT
1 TATAAAATTAATAAAAT
4754737 TATAAATATT-ATAAAAT
1 TATAAA-ATTAATAAAAT
4754754 ATATAAAATTTTAAT-AAAT
1 -TATAAAA--TTAATAAAAT
4754773 TATAAAATTAATAAAAT
1 TATAAAATTAATAAAAT
4754790 T
1 T
4754791 TATTTAAAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
16 5 0.11
17 18 0.39
18 15 0.33
19 6 0.13
20 2 0.04
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (17 bp):
TATAAAATTAATAAAAT
Found at i:4755802 original size:181 final size:180
Alignment explanation
Indices: 4755512--4755885 Score: 536
Period size: 181 Copynumber: 2.1 Consensus size: 180
4755502 CGGCTGCGAC
* * *
4755512 ACACGCCCGTGTGGTCAAGGGACACGCCTGTGTGACCATAGGACATGCCCTTGCTGTAAGCCGTG
1 ACACGCCCGTGTGATCAAGGGACACGCCTGTGTGACCATAGGACACGCCCGTGCTGTAAGCCGTG
* * *
4755577 TCTGACCCACTGTAACTCTCTGACTTGTACCACACGGCTAGCCACATGCCCG-TGTGCCAGGCCA
66 TCTGACCCACTGTAACTCTCTAACTTGTACCACACGACTAGCCACACG-CCGTTGTGCCAGG-C-
* *
4755641 TGTA-ATCAATTTAATTTTCTAAAATTAGATGTAAGTTTCACACGGCCAATAT
128 TGTAGATCAATTTAATTTTCTAAAATTAGATGCAAGTTTCACACGGCCAAAAT
* * * * **
4755693 ACATGCCCGTGTGATCAAGGGACACGTCTGTGTGACTATAGGACACGTCCGTGCTGTAAGTTGTG
1 ACACGCCCGTGTGATCAAGGGACACGCCTGTGTGACCATAGGACACGCCCGTGCTGTAAGCCGTG
* * *
4755758 TCTGACCCAGTGTAACTCTTTAACTTGTACCACACGACTAGCCACACGCCGTTGTGCTAGGCTGT
66 TCTGACCCACTGTAACTCTCTAACTTGTACCACACGACTAGCCACACGCCGTTGTGCCAGGCTGT
4755823 ATGATCAATTTAATTTTCTAAAATTAGATGCAAGTTTCACACGGCCAAAAT
131 A-GATCAATTTAATTTTCTAAAATTAGATGCAAGTTTCACACGGCCAAAAT
*
4755874 ACACACCCGTGT
1 ACACGCCCGTGT
4755886 TCTGGGCCAT
Statistics
Matches: 171, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
179 4 0.02
180 4 0.02
181 163 0.95
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (180 bp):
ACACGCCCGTGTGATCAAGGGACACGCCTGTGTGACCATAGGACACGCCCGTGCTGTAAGCCGTG
TCTGACCCACTGTAACTCTCTAACTTGTACCACACGACTAGCCACACGCCGTTGTGCCAGGCTGT
AGATCAATTTAATTTTCTAAAATTAGATGCAAGTTTCACACGGCCAAAAT
Found at i:4765519 original size:19 final size:19
Alignment explanation
Indices: 4765495--4765533 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
4765485 AGGCTGAATC
4765495 ATTGCTGCAACTTAATTTA
1 ATTGCTGCAACTTAATTTA
4765514 ATTGCTGCAACTTAATTTA
1 ATTGCTGCAACTTAATTTA
4765533 A
1 A
4765534 CTATCTGTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.41
Consensus pattern (19 bp):
ATTGCTGCAACTTAATTTA
Found at i:4785790 original size:20 final size:21
Alignment explanation
Indices: 4785753--4785791 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
4785743 ATCATAACAA
*
4785753 GTTTTTATGATTAAATATATT
1 GTTTTTATGAATAAATATATT
*
4785774 GTTTTTAT-AATATATATA
1 GTTTTTATGAATAAATATA
4785792 ATGAATACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (21 bp):
GTTTTTATGAATAAATATATT
Found at i:4788722 original size:21 final size:21
Alignment explanation
Indices: 4788698--4788737 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
4788688 ACTGACCAAT
*
4788698 CCATTGAAGATTTTTATGTAA
1 CCATTGAAGATATTTATGTAA
4788719 CCATTGAAGATATTTATGT
1 CCATTGAAGATATTTATGT
4788738 TAAGTTCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (21 bp):
CCATTGAAGATATTTATGTAA
Found at i:4792552 original size:20 final size:21
Alignment explanation
Indices: 4792524--4792563 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
4792514 ACATAAAATA
4792524 TTTAAAGA-TATCTAATATTG
1 TTTAAAGATTATCTAATATTG
* *
4792544 TTTATAGATTTTCTAATATT
1 TTTAAAGATTATCTAATATT
4792564 TCTTTTGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.53
Consensus pattern (21 bp):
TTTAAAGATTATCTAATATTG
Found at i:4793828 original size:26 final size:26
Alignment explanation
Indices: 4793792--4793841 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
4793782 CATTTATTAC
4793792 ATTGTATATATATAAGAAAAACAAAT
1 ATTGTATATATATAAGAAAAACAAAT
4793818 ATTGTATATATATAAGAAAAACAA
1 ATTGTATATATATAAGAAAAACAA
4793842 CAATTTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.30
Consensus pattern (26 bp):
ATTGTATATATATAAGAAAAACAAAT
Found at i:4794448 original size:9 final size:9
Alignment explanation
Indices: 4794434--4794459 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
4794424 ATGCCATCCA
4794434 CCACCTGCT
1 CCACCTGCT
4794443 CCACCTGCT
1 CCACCTGCT
4794452 CCACCTGC
1 CCACCTGC
4794460 AAAACAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.58, G:0.12, T:0.19
Consensus pattern (9 bp):
CCACCTGCT
Found at i:4796531 original size:11 final size:11
Alignment explanation
Indices: 4796510--4796539 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
4796500 TACATTTTTC
4796510 ATATATATATGT
1 ATATAT-TATGT
4796522 ATATATTATGT
1 ATATATTATGT
4796533 ATATATT
1 ATATATT
4796540 TTAACATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.67
12 6 0.33
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (11 bp):
ATATATTATGT
Found at i:4798184 original size:23 final size:22
Alignment explanation
Indices: 4798158--4798201 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
4798148 TTTATTGTGT
4798158 TTAGGGTTTTAA-GTTTAATTAAA
1 TTAGGG-TTTAATG-TTAATTAAA
4798181 TTAGGGTTTAATGTTAATTAA
1 TTAGGGTTTAATGTTAATTAA
4798202 TTAAATTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.48
Consensus pattern (22 bp):
TTAGGGTTTAATGTTAATTAAA
Found at i:4798489 original size:18 final size:18
Alignment explanation
Indices: 4798466--4798503 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
4798456 GAAAAAGAAA
*
4798466 ACATATAACGGTTAGGAT
1 ACATATAACGGCTAGGAT
*
4798484 ACATATAAGGGCTAGGAT
1 ACATATAACGGCTAGGAT
4798502 AC
1 AC
4798504 GCACTTGGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.24
Consensus pattern (18 bp):
ACATATAACGGCTAGGAT
Found at i:4799131 original size:7 final size:7
Alignment explanation
Indices: 4799119--4799144 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
4799109 AGTTATATAT
4799119 AATACTA
1 AATACTA
4799126 AATACTA
1 AATACTA
4799133 AATACTA
1 AATACTA
4799140 AATAC
1 AATAC
4799145 GAAACAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:4804710 original size:34 final size:33
Alignment explanation
Indices: 4804672--4804745 Score: 96
Period size: 34 Copynumber: 2.2 Consensus size: 33
4804662 TATATTATTT
*
4804672 TTTATATAAAAATATTAAAAT-ATTAAAATAAATA
1 TTTATATAAAAAT-TAAAAATAATTAAAA-AAATA
*
4804706 TTTATCTAAAAATTAAAAATAAATTAAAAAAATA
1 TTTATATAAAAATTAAAAAT-AATTAAAAAAATA
4804740 TTTATA
1 TTTATA
4804746 CTTAAATGAC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
33 6 0.17
34 22 0.63
35 7 0.20
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (33 bp):
TTTATATAAAAATTAAAAATAATTAAAAAAATA
Found at i:4810226 original size:3 final size:3
Alignment explanation
Indices: 4810218--4810242 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4810208 CGTGAAACTC
4810218 GAG GAG GAG GAG GAG GAG GAG GAG G
1 GAG GAG GAG GAG GAG GAG GAG GAG G
4810243 TAGGTTTGTA
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:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:4814886 original size:18 final size:19
Alignment explanation
Indices: 4814857--4814892 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
4814847 AATAAACAAA
4814857 TTGCTCGTTTTTTCTTTCC
1 TTGCTCGTTTTTTCTTTCC
*
4814876 TTGCT-GTTTTTTGTTTC
1 TTGCTCGTTTTTTCTTTC
4814893 TTTTTTCTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.00, C:0.19, G:0.14, T:0.67
Consensus pattern (19 bp):
TTGCTCGTTTTTTCTTTCC
Found at i:4815436 original size:10 final size:10
Alignment explanation
Indices: 4815421--4815474 Score: 56
Period size: 10 Copynumber: 5.3 Consensus size: 10
4815411 ATACATATAT
4815421 AAAAAATCTA
1 AAAAAATCTA
4815431 AAAAAATCTA
1 AAAAAATCTA
* *
4815441 AAGAACATAT-
1 AA-AAAATCTA
*
4815451 AAAAAATTTAA
1 AAAAAATCT-A
4815462 AAAAAATCTA
1 AAAAAATCTA
4815472 AAA
1 AAA
4815475 TAATAAATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
9 5 0.14
10 18 0.50
11 13 0.36
ACGTcount: A:0.70, C:0.07, G:0.02, T:0.20
Consensus pattern (10 bp):
AAAAAATCTA
Found at i:4815465 original size:11 final size:11
Alignment explanation
Indices: 4815421--4815474 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
4815411 ATACATATAT
4815421 AAAAAATCT-A
1 AAAAAATCTAA
4815431 AAAAAATCTAA
1 AAAAAATCTAA
* * *
4815442 AGAACA--TAT
1 AAAAAATCTAA
*
4815451 AAAAAATTTAA
1 AAAAAATCTAA
4815462 AAAAAATCTAA
1 AAAAAATCTAA
4815473 AA
1 AA
4815475 TAATAAATTT
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
9 6 0.18
10 9 0.26
11 19 0.56
ACGTcount: A:0.70, C:0.07, G:0.02, T:0.20
Consensus pattern (11 bp):
AAAAAATCTAA
Found at i:4816941 original size:16 final size:16
Alignment explanation
Indices: 4816921--4816975 Score: 85
Period size: 16 Copynumber: 3.4 Consensus size: 16
4816911 GTTTGGTTTA
4816921 CTGTAATGGAATAG-G
1 CTGTAATGGAATAGAG
*
4816936 ACTGTAATTGAATAGAG
1 -CTGTAATGGAATAGAG
4816953 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
4816969 CTGTAAT
1 CTGTAAT
4816976 TAGTAATTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
16 35 0.97
17 1 0.03
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.29
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:4817042 original size:44 final size:45
Alignment explanation
Indices: 4816957--4817045 Score: 121
Period size: 44 Copynumber: 2.0 Consensus size: 45
4816947 ATAGAGCTGT
*
4816957 AATGGAATAGAGCTGTAATTAGTAATTCAATTTTTTGGTTGAATGG
1 AATGAAATAGAGCTGTAATTAGTAATTC-ATTTTTTGGTTGAATGG
4817003 AATGAAATAGAGCTGTAA-TAG-AATTC-TTATGTTTGGTTGAATG
1 AATGAAATAGAGCTGTAATTAGTAATTCATT-T-TTTGGTTGAATG
4817046 AAATAGATGT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
42 2 0.05
43 1 0.03
44 17 0.43
45 3 0.08
46 17 0.43
ACGTcount: A:0.34, C:0.04, G:0.24, T:0.38
Consensus pattern (45 bp):
AATGAAATAGAGCTGTAATTAGTAATTCATTTTTTGGTTGAATGG
Found at i:4817210 original size:59 final size:57
Alignment explanation
Indices: 4817143--4817280 Score: 170
Period size: 59 Copynumber: 2.4 Consensus size: 57
4817133 TTATTATTAA
* * * * *
4817143 ATTTTAATAAAATTATTGTTAAATATATTTTATTAAAAAATAATAAATAATTTAATCAT
1 ATTTTAATAAAATTATTATTAAATATAATTTAATAAAAAATAAT--ATAATTTAATAAC
* *
4817202 ATTTTAATATAATTATTATTAAATATAATTTAATAAAATATAATATAATTTAATAAC
1 ATTTTAATAAAATTATTATTAAATATAATTTAATAAAAAATAATATAATTTAATAAC
4817259 ATTCTTAATATAAA-TATTATTA
1 ATT-TTAATA-AAATTATTATTA
4817281 TACGAATTAA
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
57 14 0.20
58 14 0.20
59 41 0.59
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (57 bp):
ATTTTAATAAAATTATTATTAAATATAATTTAATAAAAAATAATATAATTTAATAAC
Found at i:4817240 original size:15 final size:15
Alignment explanation
Indices: 4817207--4817250 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
4817197 ATCATATTTT
* *
4817207 AATATAATTATTATTA
1 AATATAATT-TAATAA
4817223 AATATAATTTAATAA
1 AATATAATTTAATAA
*
4817238 AATATAATATAAT
1 AATATAATTTAAT
4817251 TTAATAACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 16 0.64
16 9 0.36
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AATATAATTTAATAA
Found at i:4817308 original size:58 final size:54
Alignment explanation
Indices: 4817174--4817301 Score: 143
Period size: 57 Copynumber: 2.3 Consensus size: 54
4817164 AATATATTTT
* * * *
4817174 ATTAAAAAATAATAA-ATAATTTAATCATATTTTAATATAATTATTATTAAATATA
1 ATTAAAAAAT-ATAATATAATTTAATAACATTTTAATATAAATATTATT-AATAGA
4817229 ATTTAATAAAATATAATATAATTTAATAACATTCTTAATATAAATATTATT-ATACGA
1 A-TTAA-AAAATATAATATAATTTAATAACATT-TTAATATAAATATTATTAATA-GA
4817286 ATTAAAAAATCATAAT
1 ATTAAAAAAT-ATAAT
4817302 TTATAATACT
Statistics
Matches: 63, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
55 6 0.10
56 20 0.32
57 21 0.33
58 16 0.25
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (54 bp):
ATTAAAAAATATAATATAATTTAATAACATTTTAATATAAATATTATTAATAGA
Found at i:4819917 original size:49 final size:47
Alignment explanation
Indices: 4819793--4820053 Score: 198
Period size: 46 Copynumber: 5.6 Consensus size: 47
4819783 GGTATAATGT
* ** * * * * *
4819793 CGATGTCATGTCCCAGACATGGAATTACTCTGGCTCATCCATC-AAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCAAACGAAGC
4819840 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCGAAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATC-AAA-CGAAGC
* * * *
4819889 CGATTCCATGTCCCAGACATGGTCTTACACT-AGCTCTCACAC-ATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGA-CTATCAAACGAAGC
** * *
4819935 CGATGTTATGTCCCAGACATGGTCTTACACTGAC-ACCTCTATACGTA-C
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTA--TC-AAACGAAGC
* ** * *
4819983 CGATGCCATGTCCCAGACATGGTCTTATACTGAC-A-CATCTCGTAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCA-AACGAAGC
4820029 CGATG-CATGTCCCAGACAT-GTCTTA
1 CGATGCCATGTCCCAGACATGGTCTTA
4820054 TACTAGTTTT
Statistics
Matches: 178, Mismatches: 25, Indels: 25
0.78 0.11 0.11
Matches are distributed among these distances:
44 7 0.04
45 19 0.11
46 40 0.22
47 35 0.20
48 40 0.22
49 37 0.21
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.27
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAACGAAGC
Found at i:4820005 original size:48 final size:49
Alignment explanation
Indices: 4819840--4820053 Score: 209
Period size: 48 Copynumber: 4.6 Consensus size: 49
4819830 TCCATCAAGT
* * *
4819840 CGATGCCATGTCCCAGACATGGTCTTACACTGACTA--TCAAAATCGAAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGAC-ACCTCTATA-CGTAGC
* * * *
4819889 CGATTCCATGTCCCAGACATGGTCTTACACT---AGCTCTCACACAT-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCT-ATACGTAGC
**
4819935 CGATGTTATGTCCCAGACATGGTCTTACACTGACACCTCTATACGTA-C
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACGTAGC
* * *
4819983 CGATGCCATGTCCCAGACATGGTCTTATACTGACACATC--T-CGTAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACGTAGC
4820029 CGATG-CATGTCCCAGACAT-GTCTTA
1 CGATGCCATGTCCCAGACATGGTCTTA
4820054 TACTAGTTTT
Statistics
Matches: 141, Mismatches: 16, Indels: 21
0.79 0.09 0.12
Matches are distributed among these distances:
44 6 0.04
45 19 0.13
46 36 0.26
47 3 0.02
48 42 0.30
49 35 0.25
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.27
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACGTAGC
Found at i:4825577 original size:26 final size:25
Alignment explanation
Indices: 4825541--4825592 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
4825531 TTTATTATTT
*
4825541 TTTTAATAAAATATATTTAACAATAA
1 TTTTAATAAAATATA-ATAACAATAA
* *
4825567 TTTTATTAAAATTTAATAACAATAA
1 TTTTAATAAAATATAATAACAATAA
4825592 T
1 T
4825593 AATAATCATC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (25 bp):
TTTTAATAAAATATAATAACAATAA
Found at i:4825742 original size:44 final size:45
Alignment explanation
Indices: 4825670--4825765 Score: 115
Period size: 44 Copynumber: 2.1 Consensus size: 45
4825660 TATTACAACA
*
4825670 TCTATTCCATTCAACCAAACACAAGAATT-TTATTACAGCTCTAT
1 TCTATTCCATTCAACCAAACACAAGAATTATGATTACAGCTCTAT
* * * *
4825714 TCTATTTCATTCAACCAAATA-ATTGAATTACTGATTCCAGCTCTAT
1 TCTATTCCATTCAACCAAACACA-AGAATTA-TGATTACAGCTCTAT
4825760 TCTATT
1 TCTATT
4825766 ATAGCTCTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
43 1 0.02
44 24 0.55
46 19 0.43
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.39
Consensus pattern (45 bp):
TCTATTCCATTCAACCAAACACAAGAATTATGATTACAGCTCTAT
Found at i:4825773 original size:16 final size:16
Alignment explanation
Indices: 4825752--4825798 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
4825742 TACTGATTCC
*
4825752 AGCTCTATTCTATTAT
1 AGCTCTATTCAATTAT
4825768 AGCTCTATTCAATTAT
1 AGCTCTATTCAATTAT
* *
4825784 AGCCCTATTCCATTA
1 AGCTCTATTCAATTA
4825799 CAATGAACCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.28, C:0.23, G:0.06, T:0.43
Consensus pattern (16 bp):
AGCTCTATTCAATTAT
Found at i:4826745 original size:16 final size:16
Alignment explanation
Indices: 4826726--4826757 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4826716 TCTAAATGAC
*
4826726 AATTGTTCTAAACATA
1 AATTGTCCTAAACATA
4826742 AATTGTCCTAAACATA
1 AATTGTCCTAAACATA
4826758 GTTGTTCTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.34
Consensus pattern (16 bp):
AATTGTCCTAAACATA
Found at i:4830439 original size:34 final size:34
Alignment explanation
Indices: 4830401--4830468 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
4830391 AATACAAACA
4830401 ATCTTCTTCTACAAATCATTTTATGAAGATTCCC
1 ATCTTCTTCTACAAATCATTTTATGAAGATTCCC
4830435 ATCTTCTTCTACAAATCATTTTATGAAGATTCCC
1 ATCTTCTTCTACAAATCATTTTATGAAGATTCCC
4830469 CTTTCACAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.41
Consensus pattern (34 bp):
ATCTTCTTCTACAAATCATTTTATGAAGATTCCC
Found at i:4832180 original size:32 final size:32
Alignment explanation
Indices: 4832139--4832203 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
4832129 TTGTAAAAGG
4832139 TGTGGTAGATCAAAATGGAATGATTGCAACTT
1 TGTGGTAGATCAAAATGGAATGATTGCAACTT
4832171 TGTGGTAGATCAAAATGGAATGATTGCAACTT
1 TGTGGTAGATCAAAATGGAATGATTGCAACTT
4832203 T
1 T
4832204 ATTGTTCAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.34, C:0.09, G:0.25, T:0.32
Consensus pattern (32 bp):
TGTGGTAGATCAAAATGGAATGATTGCAACTT
Found at i:4833173 original size:16 final size:16
Alignment explanation
Indices: 4833152--4833183 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
4833142 AGACATCAAA
4833152 CTATAATTTTACCATG
1 CTATAATTTTACCATG
4833168 CTATAATTTTACCATG
1 CTATAATTTTACCATG
4833184 GGGTAAAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.06, T:0.44
Consensus pattern (16 bp):
CTATAATTTTACCATG
Found at i:4833900 original size:18 final size:17
Alignment explanation
Indices: 4833877--4833922 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
4833867 ATTTAAATTG
4833877 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCG-TTT
*
4833895 CGGTCGC-GTCGTGTTT
1 CGGTCGCGGTCGCGTTT
4833911 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
4833923 GACATAACGG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
14 5 0.20
15 5 0.20
16 3 0.12
17 5 0.20
18 7 0.28
ACGTcount: A:0.00, C:0.28, G:0.41, T:0.30
Consensus pattern (17 bp):
CGGTCGCGGTCGCGTTT
Found at i:4834500 original size:5 final size:5
Alignment explanation
Indices: 4834484--4834518 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
4834474 AAATTATTAA
4834484 ATAAT A-AA- ATAAT ATAAT ATAAT ATAAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT
4834519 TTTTTAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 1 0.04
4 4 0.14
5 23 0.82
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
ATAAT
Found at i:4836468 original size:36 final size:36
Alignment explanation
Indices: 4836395--4836468 Score: 103
Period size: 36 Copynumber: 2.1 Consensus size: 36
4836385 TGGTGGTTTT
* ** *
4836395 CATTATTGATTGTCTCCCATTAATGTTAATGGCAAC
1 CATTATTAATTGTCTCCCATTAATGTTAACAGAAAC
*
4836431 CATTATTAATTGTCTTCCATTAATGTTAACAGAAAC
1 CATTATTAATTGTCTCCCATTAATGTTAACAGAAAC
4836467 CA
1 CA
4836469 CCCTTTGTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (36 bp):
CATTATTAATTGTCTCCCATTAATGTTAACAGAAAC
Found at i:4841930 original size:42 final size:42
Alignment explanation
Indices: 4841875--4841956 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
4841865 TATTTGGTTT
* *
4841875 TAAGCACCATAGATAGGATTGTGGAGCATAATTATTGTTTTA
1 TAAGCACCATAGATAGGATTGTGGAGCACAATTACTGTTTTA
* * * *
4841917 TAAGCGCCTTAGATAGGATTTTGGAGTACAATTACTGTTT
1 TAAGCACCATAGATAGGATTGTGGAGCACAATTACTGTTT
4841957 CATATTTTTG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.37
Consensus pattern (42 bp):
TAAGCACCATAGATAGGATTGTGGAGCACAATTACTGTTTTA
Found at i:4846750 original size:6 final size:7
Alignment explanation
Indices: 4846725--4846757 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
4846715 CCAGCTCTAA
4846725 CCCTCTC
1 CCCTCTC
4846732 CCCTCTC
1 CCCTCTC
4846739 CCCTCT-
1 CCCTCTC
4846745 CCCTCTTC
1 CCCTC-TC
4846753 CCCTC
1 CCCTC
4846758 CATAGCTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 5 0.21
7 14 0.58
8 5 0.21
ACGTcount: A:0.00, C:0.70, G:0.00, T:0.30
Consensus pattern (7 bp):
CCCTCTC
Found at i:4858186 original size:20 final size:20
Alignment explanation
Indices: 4858161--4858201 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
4858151 ACTTACGTAA
4858161 GCAGAACACTATCTATCAAG
1 GCAGAACACTATCTATCAAG
4858181 GCAGAACACTATCTATCAAG
1 GCAGAACACTATCTATCAAG
4858201 G
1 G
4858202 TCGAAGGTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (20 bp):
GCAGAACACTATCTATCAAG
Found at i:4860102 original size:14 final size:14
Alignment explanation
Indices: 4860083--4860133 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
4860073 ATTTTATAAT
4860083 TATATTTAAAACTA
1 TATATTTAAAACTA
* *
4860097 TATATTTGAAGCTA
1 TATATTTAAAACTA
4860111 TA-ACTTTAAAA-TA
1 TATA-TTTAAAACTA
*
4860124 AATATTTAAA
1 TATATTTAAA
4860134 TTGAAATATT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
13 10 0.33
14 20 0.67
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.41
Consensus pattern (14 bp):
TATATTTAAAACTA
Found at i:4860133 original size:13 final size:14
Alignment explanation
Indices: 4860115--4860147 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
4860105 AAGCTATAAC
4860115 TTTAAAAT-AAATA
1 TTTAAAATGAAATA
*
4860128 TTTAAATTGAAATA
1 TTTAAAATGAAATA
4860142 TTTAAA
1 TTTAAA
4860148 GTCTTTTGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (14 bp):
TTTAAAATGAAATA
Found at i:4860454 original size:20 final size:21
Alignment explanation
Indices: 4860429--4860476 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
4860419 ACATTAGAAA
4860429 ATATAAAAA-TAGAAATAA-AT
1 ATATAAAAATTAGAAA-AATAT
4860449 ATATAAAAATTTAGAAAAATAT
1 ATATAAAAA-TTAGAAAAATAT
4860471 ATATAA
1 ATATAA
4860477 TCTAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.36
21 2 0.08
22 14 0.56
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (21 bp):
ATATAAAAATTAGAAAAATAT
Found at i:4860565 original size:11 final size:12
Alignment explanation
Indices: 4860532--4860565 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
4860522 AAACTATTAC
4860532 AAAA-TGTAAAA
1 AAAATTGTAAAA
4860543 AAAATTGTAAAA
1 AAAATTGTAAAA
4860555 AAAATTG-AAAA
1 AAAATTGTAAAA
4860566 TAATTCTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 8 0.36
12 14 0.64
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.21
Consensus pattern (12 bp):
AAAATTGTAAAA
Found at i:4860668 original size:21 final size:22
Alignment explanation
Indices: 4860644--4860690 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 22
4860634 TTACTTGAAA
*
4860644 TTTAAATACATTTTTTTAA-TT
1 TTTAAATACATTATTTTAACTT
*
4860665 TTT--ATATATTATTTTAACTT
1 TTTAAATACATTATTTTAACTT
4860685 TTTAAA
1 TTTAAA
4860691 ATTTAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
19 12 0.57
20 5 0.24
21 3 0.14
22 1 0.05
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTAAATACATTATTTTAACTT
Found at i:4860950 original size:28 final size:29
Alignment explanation
Indices: 4860896--4860956 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 29
4860886 GTTAAAAGTG
*
4860896 TTTTTTAATATTTAATATTATATTTTTCTA
1 TTTTTTAATATTAAATATTATATTTTT-TA
4860926 TTTTTTAAT-TTAAAT-TTA-ATGTTTTTA
1 TTTTTTAATATTAAATATTATAT-TTTTTA
4860953 TTTT
1 TTTT
4860957 AAATAAACCT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 8 0.28
28 7 0.24
29 5 0.17
30 9 0.31
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (29 bp):
TTTTTTAATATTAAATATTATATTTTTTA
Found at i:4861763 original size:27 final size:28
Alignment explanation
Indices: 4861724--4861800 Score: 97
Period size: 30 Copynumber: 2.8 Consensus size: 28
4861714 AGAGAAGAGA
4861724 TTTTTTTTT-AGATTCAAGAAGAGG-TT
1 TTTTTTTTTGAGATTCAAGAAGAGGTTT
*
4861750 TTTTTTTTTGAGATTCAAG-AGGGGATTTT
1 TTTTTTTTTGAGATTCAAGAAGAGG--TTT
4861779 TCTTTTTTTTGAGATTCAAGAA
1 T-TTTTTTTTGAGATTCAAGAA
4861801 CAAAAAATCA
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
26 13 0.30
27 9 0.20
29 3 0.07
30 18 0.41
31 1 0.02
ACGTcount: A:0.25, C:0.05, G:0.19, T:0.51
Consensus pattern (28 bp):
TTTTTTTTTGAGATTCAAGAAGAGGTTT
Found at i:4862527 original size:16 final size:15
Alignment explanation
Indices: 4862496--4862538 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
4862486 CCTTCATTCC
*
4862496 ATTATTATTATTACT
1 ATTATTATTTTTACT
4862511 ATTATTATATTTTACT
1 ATTATTAT-TTTTACT
*
4862527 ATCATTATTTTT
1 ATTATTATTTTT
4862539 CATACGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTTTACT
Found at i:4862663 original size:16 final size:16
Alignment explanation
Indices: 4862642--4862673 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4862632 CTATTGTTAC
4862642 TGTTATTATCATCACT
1 TGTTATTATCATCACT
*
4862658 TGTTATTCTCATCACT
1 TGTTATTATCATCACT
4862674 ATTATTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (16 bp):
TGTTATTATCATCACT
Found at i:4862818 original size:12 final size:13
Alignment explanation
Indices: 4862783--4862820 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
4862773 TAGCACTACT
4862783 TTTATTACTATTA
1 TTTATTACTATTA
*
4862796 TTTAATA-TATTA
1 TTTATTACTATTA
4862808 TTT-TTACTATTA
1 TTTATTACTATTA
4862820 T
1 T
4862821 CGTCATATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 2 0.09
12 14 0.64
13 6 0.27
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTATTACTATTA
Found at i:4862896 original size:22 final size:22
Alignment explanation
Indices: 4862866--4862926 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
4862856 TTATTATATC
*
4862866 TTTTACTATTATTATTGTTGTA
1 TTTTACTATTATTATTGTTATA
* * *
4862888 TTTTTCTATTATTGTTATTATA
1 TTTTACTATTATTATTGTTATA
* *
4862910 TTTTCCT-TTATTTTTGT
1 TTTTACTATTATTATTGT
4862927 ATTTACTTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.18, C:0.07, G:0.07, T:0.69
Consensus pattern (22 bp):
TTTTACTATTATTATTGTTATA
Found at i:4869382 original size:40 final size:41
Alignment explanation
Indices: 4869327--4869431 Score: 178
Period size: 40 Copynumber: 2.6 Consensus size: 41
4869317 CCTCATAATC
4869327 GTTTGAGAGATTAAGTGCAGGATTAAGCAGCAACAACA-CA
1 GTTTGAGAGATTAAGTGCAGGATTAAGCAGCAACAACATCA
* *
4869367 GTTTGAGAGATTAAGTGCAAGATTAAGCAGCAACGACATCA
1 GTTTGAGAGATTAAGTGCAGGATTAAGCAGCAACAACATCA
4869408 -TTTGAGAGATTAAGTGCAGGATTA
1 GTTTGAGAGATTAAGTGCAGGATTA
4869432 TAGTAATGTT
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
40 59 0.97
41 2 0.03
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.24
Consensus pattern (41 bp):
GTTTGAGAGATTAAGTGCAGGATTAAGCAGCAACAACATCA
Found at i:4873562 original size:16 final size:16
Alignment explanation
Indices: 4873543--4873598 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
4873533 GGATTCAGAA
4873543 TTTTTTGGGCTTAAGT
1 TTTTTTGGGCTTAAGT
*
4873559 TTTTTTCGGGATT-AGAT
1 TTTTTT-GGGCTTAAG-T
* *
4873576 TTTTTTGGGCTCAATT
1 TTTTTTGGGCTTAAGT
4873592 TTTTTTG
1 TTTTTTG
4873599 TGCTCGGGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
16 20 0.61
17 13 0.39
ACGTcount: A:0.12, C:0.07, G:0.21, T:0.59
Consensus pattern (16 bp):
TTTTTTGGGCTTAAGT
Found at i:4873585 original size:33 final size:34
Alignment explanation
Indices: 4873533--4873597 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
4873523 AATTTTCTTT
*
4873533 GGATTCAGAATTTTTTGGGCTTAAGTTTTTTTCG
1 GGATTCAGAATTTTTTGGGCTCAAGTTTTTTTCG
* *
4873567 GGATT-AGATTTTTTTGGGCTCAATTTTTTTT
1 GGATTCAGAATTTTTTGGGCTCAAGTTTTTTT
4873598 GTGCTCGGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 23 0.82
34 5 0.18
ACGTcount: A:0.17, C:0.08, G:0.22, T:0.54
Consensus pattern (34 bp):
GGATTCAGAATTTTTTGGGCTCAAGTTTTTTTCG
Found at i:4873860 original size:13 final size:13
Alignment explanation
Indices: 4873842--4873875 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
4873832 TGTAAAATTC
4873842 ATTATATT-TTATT
1 ATTATATTATTA-T
4873855 ATTATATTATTAT
1 ATTATATTATTAT
4873868 ATTATATT
1 ATTATATT
4873876 GTCAATTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 17 0.85
14 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
ATTATATTATTAT
Found at i:4875214 original size:24 final size:24
Alignment explanation
Indices: 4875158--4875214 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
4875148 GCAATTGCAG
4875158 TTCAGATACAGAGTTAGATGCAAA
1 TTCAGATACAGAGTTAGATGCAAA
* * * * *
4875182 ATCATATACATATTTAGATGCATA
1 TTCAGATACAGAGTTAGATGCAAA
4875206 TTCAGATAC
1 TTCAGATAC
4875215 TACCATCATC
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (24 bp):
TTCAGATACAGAGTTAGATGCAAA
Found at i:4880331 original size:16 final size:15
Alignment explanation
Indices: 4880312--4880350 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
4880302 GTGTGATCTC
*
4880312 AAATTTAAATATTCTT
1 AAATTTAAATATT-TA
*
4880328 AAATTCAAATATTTA
1 AAATTTAAATATTTA
4880343 AAATTTAA
1 AAATTTAA
4880351 CTTTTGAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (15 bp):
AAATTTAAATATTTA
Found at i:4887739 original size:16 final size:16
Alignment explanation
Indices: 4887719--4887774 Score: 78
Period size: 16 Copynumber: 3.5 Consensus size: 16
4887709 CGTTTGGTTG
4887719 GCTGTAATGGAATA-A
1 GCTGTAATGGAATAGA
*
4887734 GGCTGTAATTGAATAGA
1 -GCTGTAATGGAATAGA
*
4887751 GTTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
4887767 GCTGTAAT
1 GCTGTAAT
4887775 AAGTAATTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
16 34 0.97
17 1 0.03
ACGTcount: A:0.36, C:0.05, G:0.29, T:0.30
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:4887809 original size:46 final size:44
Alignment explanation
Indices: 4887756--4887849 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 44
4887746 ATAGAGTTGT
* *
4887756 AATGGAATAGAGCTGTAATAAGTAATTCAACTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAAT-AGT-ATTCAACTGTCTGGTTGAATGG
***
4887802 AATGGAATAGAACTGTAATAGTATTCTTGTGTCTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGTATTCAACTGTCTGGTTGAATGG
4887846 AATG
1 AATG
4887850 ATGTTGTAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 22 0.51
45 3 0.07
46 18 0.42
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.34
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTCAACTGTCTGGTTGAATGG
Found at i:4887999 original size:58 final size:58
Alignment explanation
Indices: 4887936--4888055 Score: 143
Period size: 58 Copynumber: 2.1 Consensus size: 58
4887926 ATTGTTATTC
* *
4887936 TTATTAAAAATAATTTAATAAATATAATAAATAATTTAATCATATT-TTAACATAATTA
1 TTATTAAAAATAATTTAATAAA-ATAATAAATAATTTAATAAAATTCTTAACATAATTA
** ** * **
4887994 TTATTAATTATAATTTAATAAAATGGTATATAATTTAATAAAATTCTTAATGTAATTA
1 TTATTAAAAATAATTTAATAAAATAATAAATAATTTAATAAAATTCTTAACATAATTA
4888052 TTAT
1 TTAT
4888056 ATGAATTAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
57 18 0.35
58 34 0.65
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (58 bp):
TTATTAAAAATAATTTAATAAAATAATAAATAATTTAATAAAATTCTTAACATAATTA
Found at i:4891167 original size:33 final size:33
Alignment explanation
Indices: 4891130--4891194 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
4891120 ATGAAGGAAA
*
4891130 GAAGAAAGCTCCAGACGTGAGAAAGAAATGGAT
1 GAAGAAAGCTCCAGACGTAAGAAAGAAATGGAT
*
4891163 GAAGAAAGGTCCAGACGTAAGAAAGAAATGGA
1 GAAGAAAGCTCCAGACGTAAGAAAGAAATGGA
4891195 AGGGTAAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.48, C:0.11, G:0.31, T:0.11
Consensus pattern (33 bp):
GAAGAAAGCTCCAGACGTAAGAAAGAAATGGAT
Found at i:4894746 original size:3 final size:3
Alignment explanation
Indices: 4894738--4894778 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
4894728 GATTTAGTCC
4894738 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
4894779 CCTATTTGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:4900009 original size:44 final size:44
Alignment explanation
Indices: 4899942--4900572 Score: 441
Period size: 44 Copynumber: 13.8 Consensus size: 44
4899932 GAAAAATTTC
* * *
4899942 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
* * *
4899986 AGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTAG
1 AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
* * ** *
4900030 TA-ATCCTATCTCTCTGAAGTTACAGTGGAGCGGATT-AAAATAA
1 -AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
*
4900073 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGATTGAAGCCAG
1 A-GATCTTATCTCTCTGAAGTTACAGT-G-G-AG-------CAGATTGAAGCTAG
* * ** ** **
4900128 AGATCTTATCTCCCTG-AGATTACAGTGGAACAGACCGAAAAATTTC
1 AGATCTTATCTCTCTGAAG-TTACAGTGGAGCAGATTG--AAGCTAG
* * *
4900174 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
* * *
4900218 AGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTAG
1 AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
* * ** *
4900262 TA-ATCCTATCTCTCTGAAGTTACAGTGGAGCGGATT-AAAATAA
1 -AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
*
4900305 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGATTGAAGCCAG
1 A-GATCTTATCTCTCTGAAGTTACAGT-G-G-AG-------CAGATTGAAGCTAG
* * ** ** **
4900360 AGATCTTATCTCCCTG-AGATTACAGTGGAACAGACCGAAAAATTTC
1 AGATCTTATCTCTCTGAAG-TTACAGTGGAGCAGATTG--AAGCTAG
* * *
4900406 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
* * *
4900450 AGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTAG
1 AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
* * ** *
4900494 TA-ATCCTATCTCTCTGAAGTTACAGTGGAGCGGATT-AAAATAA
1 -AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
* *
4900537 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGAT
1 A-GATCTTATCTCTCTGAAGTTACAGTGGAGCAGAT
4900573 CACATCAGAT
Statistics
Matches: 454, Mismatches: 94, Indels: 78
0.73 0.15 0.12
Matches are distributed among these distances:
42 3 0.01
43 12 0.03
44 290 0.64
45 5 0.01
46 68 0.15
47 6 0.01
51 2 0.00
52 2 0.00
53 6 0.01
54 52 0.11
55 8 0.02
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (44 bp):
AGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAG
Found at i:4900305 original size:232 final size:232
Alignment explanation
Indices: 4899899--4900632 Score: 1407
Period size: 232 Copynumber: 3.2 Consensus size: 232
4899889 ATTATACAGG
* **
4899899 TCTTATCTCCCTGAGTTTACAGTGGAGTAGACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTA
4899964 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTA
66 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTA
4900029 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
131 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
4900094 TACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGA
196 TACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGA
4900131 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTA
4900196 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTA
66 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTA
4900261 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
131 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
4900326 TACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGA
196 TACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGA
4900363 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTA
4900428 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTA
66 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTA
4900493 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
131 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
4900558 TACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGA
196 TACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGA
* *
4900595 TCTTATCTCCCTGATG-TTGCAGTGGAACAGACTGAAAA
1 TCTTATCTCCCTGA-GATTACAGTGGAACAGACCGAAAA
4900633 CATAAATTTC
Statistics
Matches: 496, Mismatches: 5, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
232 495 1.00
233 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (232 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTA
CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTA
GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
TACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGA
Found at i:4902289 original size:3 final size:3
Alignment explanation
Indices: 4902281--4902315 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
4902271 GATTTAGTCC
4902281 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
4902316 CCTATTTGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:4906469 original size:16 final size:16
Alignment explanation
Indices: 4906448--4906499 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
4906438 CAATAATGTT
*
4906448 ATTACAGCTCTATTCC
1 ATTACAGTTCTATTCC
* *
4906464 ATTACAGTTTTATTTC
1 ATTACAGTTCTATTCC
* *
4906480 ATTACAATTGTATTCC
1 ATTACAGTTCTATTCC
4906496 ATTA
1 ATTA
4906500 TAATCTTATT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.29, C:0.19, G:0.06, T:0.46
Consensus pattern (16 bp):
ATTACAGTTCTATTCC
Found at i:4906509 original size:16 final size:15
Alignment explanation
Indices: 4906458--4906514 Score: 60
Period size: 16 Copynumber: 3.6 Consensus size: 15
4906448 ATTACAGCTC
*
4906458 TATTCCATTACAGTTT
1 TATTCCATTACA-ATT
*
4906474 TATTTCATTACAATT
1 TATTCCATTACAATT
*
4906489 GTATTCCATTATAATCT
1 -TATTCCATTACAAT-T
4906506 TATTCCATT
1 TATTCCATT
4906515 CCAGTGAACC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
15 2 0.06
16 32 0.91
17 1 0.03
ACGTcount: A:0.28, C:0.18, G:0.04, T:0.51
Consensus pattern (15 bp):
TATTCCATTACAATT
Found at i:4913762 original size:27 final size:28
Alignment explanation
Indices: 4913731--4913800 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 28
4913721 TAAAAATTAT
*
4913731 TAAAATATTATAATA-ATT-TAAAAACA
1 TAAAAAATTATAATATATTATAAAAACA
* *
4913757 TAAAAAATTATTAATATATTATGAAAATA
1 TAAAAAATTA-TAATATATTATAAAAACA
*
4913786 TGAAAACATTATAAT
1 T-AAAAAATTATAAT
4913801 TTTTTAGAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 9 0.25
27 5 0.14
28 3 0.08
29 11 0.31
30 8 0.22
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (28 bp):
TAAAAAATTATAATATATTATAAAAACA
Found at i:4913792 original size:37 final size:37
Alignment explanation
Indices: 4913722--4913794 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
4913712 ATTTAAACTT
*
4913722 AAAAATTATTAAAATATTATAATAATTTAAAAACATA
1 AAAAATTATTAAAATATTATAATAATATAAAAACATA
* *
4913759 AAAAATTATTAATATATTATGAA-AATATGAAAACAT
1 AAAAATTATTAAAATATTAT-AATAATATAAAAACAT
4913795 TATAATTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
37 30 0.94
38 2 0.06
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (37 bp):
AAAAATTATTAAAATATTATAATAATATAAAAACATA
Found at i:4914002 original size:20 final size:20
Alignment explanation
Indices: 4913965--4914002 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4913955 TTTGTTATTT
*
4913965 TTAAAAAATATTAGAAATTA
1 TTAAAAAATATTAAAAATTA
4913985 TTAAAAAAT-TATAAAAAT
1 TTAAAAAATAT-TAAAAAT
4914003 AGAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.06
20 15 0.94
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (20 bp):
TTAAAAAATATTAAAAATTA
Found at i:4914205 original size:19 final size:20
Alignment explanation
Indices: 4914163--4914210 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
4914153 TTTTTTACTA
**
4914163 TTTTAATATTTTTATATAAC
1 TTTTAATAAATTTATATAAC
* *
4914183 TTTTTATAAATTTA-ATAAT
1 TTTTAATAAATTTATATAAC
4914202 TTTTAATAA
1 TTTTAATAA
4914211 TAAGTTTATT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTAATAAATTTATATAAC
Found at i:4916721 original size:18 final size:18
Alignment explanation
Indices: 4916685--4916743 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 18
4916675 TGAATAAAGG
* *
4916685 TACTGAATGACTGACTGT
1 TACTGAATAACTGATTGT
* *
4916703 TATTGAATAATTGATTGT
1 TACTGAATAACTGATTGT
*
4916721 TACTGAATAACTGATTGC
1 TACTGAATAACTGATTGT
4916739 TACTG
1 TACTG
4916744 GATGATAATT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.39
Consensus pattern (18 bp):
TACTGAATAACTGATTGT
Found at i:4917489 original size:21 final size:21
Alignment explanation
Indices: 4917450--4917505 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
4917440 CGGGCTCTCA
*
4917450 ACACGGCCATGTGACCTAGCG
1 ACACGGCCGTGTGACCTAGCG
** * *
4917471 ACATTGCCGTGTGATCTAGTG
1 ACACGGCCGTGTGACCTAGCG
4917492 ACACGGCCGTGTGA
1 ACACGGCCGTGTGA
4917506 GTCACACAAG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.21, C:0.27, G:0.30, T:0.21
Consensus pattern (21 bp):
ACACGGCCGTGTGACCTAGCG
Found at i:4925096 original size:8 final size:8
Alignment explanation
Indices: 4925085--4925136 Score: 63
Period size: 8 Copynumber: 6.8 Consensus size: 8
4925075 ATATATTAAT
4925085 TTATATTA
1 TTATATTA
4925093 TTATATTA
1 TTATATTA
*
4925101 TTACATTA
1 TTATATTA
*
4925109 TTAAATTA
1 TTATATTA
*
4925117 -TGTA-TA
1 TTATATTA
4925123 TTATATTA
1 TTATATTA
4925131 TTATAT
1 TTATAT
4925137 ATATGTAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
6 2 0.05
7 5 0.14
8 30 0.81
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (8 bp):
TTATATTA
Found at i:4932403 original size:28 final size:28
Alignment explanation
Indices: 4932372--4932444 Score: 130
Period size: 28 Copynumber: 2.6 Consensus size: 28
4932362 CGGTTTCTAT
4932372 TAAAAAGAGAGAATTTTCATTTTCACCC
1 TAAAAAGAGAGAATTTTCATTTTCACCC
4932400 TAAAAAGAGAGAATTTTCATTTTCACCC
1 TAAAAAGAGAGAATTTTCATTTTCACCC
4932428 TAAAAA-AGAGAAATTTT
1 TAAAAAGAGAG-AATTTT
4932445 TTTCTCGTTC
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
27 4 0.09
28 40 0.91
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.32
Consensus pattern (28 bp):
TAAAAAGAGAGAATTTTCATTTTCACCC
Found at i:4937825 original size:40 final size:40
Alignment explanation
Indices: 4937770--4937950 Score: 326
Period size: 40 Copynumber: 4.5 Consensus size: 40
4937760 TATGTGCATA
4937770 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
*
4937810 GCATTCGTGCGGGTTATTATAATCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
*
4937850 GCATTCGTGCGGGTTATTATAATCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
4937890 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
* *
4937930 GCATTCGTGCTGGTTGTTATA
1 GCATTCGTGCGGGTTATTATA
4937951 TCCGAGCCAA
Statistics
Matches: 137, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 137 1.00
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
Found at i:4941154 original size:32 final size:33
Alignment explanation
Indices: 4941097--4941159 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
4941087 CTTAAGATTG
*
4941097 TTATATTCAAAATTAAAAAAAGAAAA-AAAATA
1 TTATACTCAAAATTAAAAAAAGAAAAGAAAATA
** *
4941129 TTATACTCAAAATTGTAAAAGGAAAAGAAAA
1 TTATACTCAAAATTAAAAAAAGAAAAGAAAA
4941160 AAAAAACATG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 22 0.85
33 4 0.15
ACGTcount: A:0.63, C:0.05, G:0.08, T:0.24
Consensus pattern (33 bp):
TTATACTCAAAATTAAAAAAAGAAAAGAAAATA
Found at i:4942437 original size:45 final size:44
Alignment explanation
Indices: 4942353--4942437 Score: 100
Period size: 44 Copynumber: 1.9 Consensus size: 44
4942343 TTAAATTATA
* ** *
4942353 AAATTGTTTGATATATTATTTAAAATTAATTATGGAATATAATT
1 AAATTATTTGATATATTATTTAAAATTAAAAATAGAATATAATT
*
4942397 AAATTATTTGATATA-TATTTTTAAATTATAAAATAGAATAT
1 AAATTATTTGATATATTA-TTTAAAATTA-AAAATAGAATAT
4942438 TTTATATTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
43 2 0.06
44 23 0.68
45 9 0.26
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.47
Consensus pattern (44 bp):
AAATTATTTGATATATTATTTAAAATTAAAAATAGAATATAATT
Found at i:4943889 original size:20 final size:19
Alignment explanation
Indices: 4943860--4943900 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
4943850 TAATTTGATT
4943860 TTAAAAAATT-ATAAAATAA
1 TTAAAAAATTAATAAAA-AA
4943879 TTAATAAAATTAATAAAAAA
1 TTAA-AAAATTAATAAAAAA
4943899 TT
1 TT
4943901 TATTTAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.20
20 10 0.50
21 6 0.30
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
TTAAAAAATTAATAAAAAA
Found at i:4948744 original size:11 final size:11
Alignment explanation
Indices: 4948716--4948745 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
4948706 TTTTAAAGCA
*
4948716 AAAAAAAAAAG
1 AAAAAAGAAAG
4948727 AAAAAAGAAAG
1 AAAAAAGAAAG
4948738 AAAAAAGA
1 AAAAAAGA
4948746 GATACTTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAG
Found at i:4958783 original size:29 final size:30
Alignment explanation
Indices: 4958736--4958803 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
4958726 TGGCCTAAGA
* * *
4958736 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TAAAAAGTTGAAGGACTAATAGT
4958766 GTAAATATAAAAAGTTGAAGGACTAATAGT
1 GTAAATATAAAAAGTTGAAGGACTAATAGT
*
4958796 GCAAATAT
1 GTAAATAT
4958804 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.49, C:0.06, G:0.18, T:0.28
Consensus pattern (30 bp):
GTAAATATAAAAAGTTGAAGGACTAATAGT
Found at i:4961267 original size:46 final size:46
Alignment explanation
Indices: 4961215--4961488 Score: 415
Period size: 46 Copynumber: 6.0 Consensus size: 46
4961205 AGTGTGCTCT
*
4961215 CTGATATGAAATGTGTAAGACCATGGATGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
4961261 CTGATATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
4961307 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
4961353 CTGATATGAAATGTGTAAGACCATGGTTGAAATATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
4961399 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
4961445 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
4961489 TCATGTCAAA
Statistics
Matches: 211, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 210 1.00
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:4962091 original size:5 final size:5
Alignment explanation
Indices: 4962081--4962122 Score: 63
Period size: 5 Copynumber: 9.0 Consensus size: 5
4962071 AATAATTAAG
4962081 TATAT TATAT TATAT TATAT TATA- T-TAT TATAT TATA- TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
4962123 AAAAGAAACA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 2 0.06
4 6 0.18
5 26 0.76
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:4962101 original size:15 final size:14
Alignment explanation
Indices: 4962081--4962122 Score: 68
Period size: 13 Copynumber: 3.0 Consensus size: 14
4962071 AATAATTAAG
4962081 TATATTATATTATAT
1 TATATTATA-TATAT
4962096 TATATTATAT-TAT
1 TATATTATATATAT
4962109 TATATTATATATAT
1 TATATTATATATAT
4962123 AAAAGAAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.50
14 4 0.15
15 9 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TATATTATATATAT
Found at i:4962111 original size:18 final size:17
Alignment explanation
Indices: 4962088--4962122 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
4962078 AAGTATATTA
4962088 TATTATATTATATTATAT
1 TATTATATTATA-TATAT
4962106 TATTATATTATATATAT
1 TATTATATTATATATAT
4962123 AAAAGAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TATTATATTATATATAT
Found at i:4966007 original size:57 final size:58
Alignment explanation
Indices: 4965912--4966052 Score: 144
Period size: 57 Copynumber: 2.4 Consensus size: 58
4965902 ATGTATACAA
* * *** * * * *
4965912 CAGGATTATCAGTCTAGGCTAAATCTTTTTTATGACATATGCTCTA-AGGAGCTT-GAT
1 CAGGATTACCCGTCTAGGCTAAATCCAATTCATAACATATGCTCAAGAGGA-CTTATAT
4965969 CTA-GATTACCCGTCTAGGCTAAATCCAATTCATAACATATGCTCAAGAGGACTTATAT
1 C-AGGATTACCCGTCTAGGCTAAATCCAATTCATAACATATGCTCAAGAGGACTTATAT
* *
4966027 CAGGATTACCCGTCTGGGCTGAATCC
1 CAGGATTACCCGTCTAGGCTAAATCC
4966053 TTTCTGTAAT
Statistics
Matches: 69, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
57 40 0.58
58 29 0.42
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (58 bp):
CAGGATTACCCGTCTAGGCTAAATCCAATTCATAACATATGCTCAAGAGGACTTATAT
Found at i:4966327 original size:15 final size:15
Alignment explanation
Indices: 4966295--4966323 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4966285 ATTTTCTGTG
4966295 TTTATAATGTGTGAA
1 TTTATAATGTGTGAA
4966310 TTTAT-ATGTGTGAA
1 TTTATAATGTGTGAA
4966324 ATTTTTGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (15 bp):
TTTATAATGTGTGAA
Found at i:4966858 original size:15 final size:15
Alignment explanation
Indices: 4966838--4966867 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4966828 ATTATGAAAG
4966838 ATATGTTTTGGATTA
1 ATATGTTTTGGATTA
*
4966853 ATATGTTTTGTATTA
1 ATATGTTTTGGATTA
4966868 GAATTTTTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.57
Consensus pattern (15 bp):
ATATGTTTTGGATTA
Found at i:4967503 original size:43 final size:43
Alignment explanation
Indices: 4967440--4967568 Score: 131
Period size: 43 Copynumber: 3.0 Consensus size: 43
4967430 ATAGGATTTC
* *
4967440 CGATATGTGTTCTCGTGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATGTATTCTCGAGTAAGACCACGTCTGGGACGTTGGCAT
*
4967483 CGATATGTATTCTCGAGTAAGACC-CTGTCTAGGACAG-TGGCAT
1 CGATATGTATTCTCGAGTAAGACCAC-GTCTGGGAC-GTTGGCAT
* * * *
4967526 CGATATGTGATT-AC-ATGTAAGACCACATTTGGGACGTTTGCAT
1 CGATATGT-ATTCTCGA-GTAAGACCACGTCTGGGACGTTGGCAT
4967569 TGTACGATAT
Statistics
Matches: 72, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
42 3 0.04
43 64 0.89
44 5 0.07
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.30
Consensus pattern (43 bp):
CGATATGTATTCTCGAGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:4971484 original size:45 final size:47
Alignment explanation
Indices: 4971431--4971531 Score: 143
Period size: 49 Copynumber: 2.1 Consensus size: 47
4971421 TCTATATAGA
* *
4971431 ACTACACTTCTTTTATTT-TATT-TTAGAATAAGGTTTTTCAACCTT
1 ACTACACTTCGTTTATTTATATTATTAGAATAAGGTGTTTCAACCTT
*
4971476 ATTACACTTCGTTTATTTGATATTGATTAGAATAAGGTGTTTCAACCTT
1 ACTACACTTCGTTTATTT-ATATT-ATTAGAATAAGGTGTTTCAACCTT
4971525 ACTACAC
1 ACTACAC
4971532 ACCTTCTATT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
45 16 0.33
47 4 0.08
49 28 0.58
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.46
Consensus pattern (47 bp):
ACTACACTTCGTTTATTTATATTATTAGAATAAGGTGTTTCAACCTT
Found at i:4974502 original size:6 final size:6
Alignment explanation
Indices: 4974493--4974519 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
4974483 AAAAGAAAAG
4974493 AAAGCC AAAGCC AAAGCC AAAGCC AAA
1 AAAGCC AAAGCC AAAGCC AAAGCC AAA
4974520 CGAAAACAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.30, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAGCC
Found at i:4975484 original size:19 final size:17
Alignment explanation
Indices: 4975436--4975470 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
4975426 GTGAATTTTA
*
4975436 AATATTCAATTGTGCTT
1 AATATTTAATTGTGCTT
4975453 AATATTTAATTGTGCTT
1 AATATTTAATTGTGCTT
4975470 A
1 A
4975471 TTATATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.09, G:0.11, T:0.49
Consensus pattern (17 bp):
AATATTTAATTGTGCTT
Found at i:4983397 original size:31 final size:31
Alignment explanation
Indices: 4983362--4983423 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
4983352 AAATGGAGTT
4983362 GCAAGTAATCTTAGAAATAGGACGATATAAA
1 GCAAGTAATCTTAGAAATAGGACGATATAAA
4983393 GCAAGTAATCTTAGAAATAGGACGATATAAA
1 GCAAGTAATCTTAGAAATAGGACGATATAAA
4983424 TCTACTGGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.48, C:0.10, G:0.19, T:0.23
Consensus pattern (31 bp):
GCAAGTAATCTTAGAAATAGGACGATATAAA
Found at i:4986959 original size:16 final size:15
Alignment explanation
Indices: 4986919--4986959 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 15
4986909 TTAAAATTTT
4986919 ATTTTAATAAT-AAA
1 ATTTTAATAATAAAA
*
4986933 A-TTTAACAATAAAA
1 ATTTTAATAATAAAA
4986947 ATTTTAAATAATA
1 ATTTT-AATAATA
4986960 TTTTTAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 8 0.36
14 5 0.23
15 3 0.14
16 6 0.27
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (15 bp):
ATTTTAATAATAAAA
Found at i:4987056 original size:21 final size:21
Alignment explanation
Indices: 4987033--4987084 Score: 68
Period size: 23 Copynumber: 2.4 Consensus size: 21
4987023 ATATTTAATA
*
4987033 ATAAATGTTTTATAGTATATAAT
1 ATAAATATTTTA-AGTATAT-AT
*
4987056 ATAAATATTTTAATTATATAT
1 ATAAATATTTTAAGTATATAT
4987077 ATAAATAT
1 ATAAATAT
4987085 GAGTATTTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 10 0.37
22 6 0.22
23 11 0.41
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (21 bp):
ATAAATATTTTAAGTATATAT
Found at i:4987075 original size:24 final size:23
Alignment explanation
Indices: 4987023--4987084 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 23
4987013 CAATTTATAA
* *
4987023 ATATTTAATAATAAATGTTTTAT
1 ATATATAATAATAAATATTTTAT
4987046 AGTATATAAT-ATAAATATTTTA-
1 A-TATATAATAATAAATATTTTAT
4987068 AT-TAT-ATATATAAATAT
1 ATATATAATA-ATAAATAT
4987085 GAGTATTTGC
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
19 2 0.06
20 3 0.09
21 9 0.26
22 1 0.03
23 12 0.35
24 7 0.21
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (23 bp):
ATATATAATAATAAATATTTTAT
Found at i:4993282 original size:42 final size:41
Alignment explanation
Indices: 4993223--4993341 Score: 148
Period size: 43 Copynumber: 2.8 Consensus size: 41
4993213 TAGGGTTAGT
4993223 TGAGATTACGTGTAAGACCATATCTGGGATATGGAATCGATA
1 TGAGATT-CGTGTAAGACCATATCTGGGATATGGAATCGATA
* * * *
4993265 TGAGACTTCGTGTAAGACCATAGCTGAGCTATTGGCATCGATA
1 TGAGA-TTCGTGTAAGACCATATCTGGGATA-TGGAATCGATA
* *
4993308 TGAGATCCCATGTAAGACCATATCTGGGATATGG
1 TGAGAT-TCGTGTAAGACCATATCTGGGATATGG
4993342 CATTGGTATG
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
42 29 0.45
43 36 0.55
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (41 bp):
TGAGATTCGTGTAAGACCATATCTGGGATATGGAATCGATA
Found at i:4993473 original size:20 final size:20
Alignment explanation
Indices: 4993428--4993473 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
4993418 GGAAAAGTTT
*
4993428 AAGTTGTGAAAGACTATGGT
1 AAGTTGTGAAAGACTATGGC
* *
4993448 ATGTTGTGAAAGATTATGGC
1 AAGTTGTGAAAGACTATGGC
4993468 AAGTTG
1 AAGTTG
4993474 CAAGTTTGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.30, T:0.33
Consensus pattern (20 bp):
AAGTTGTGAAAGACTATGGC
Found at i:4998547 original size:33 final size:33
Alignment explanation
Indices: 4998510--4998661 Score: 94
Period size: 32 Copynumber: 4.7 Consensus size: 33
4998500 TACCCAAATG
* *
4998510 GTACAACTTGAAAAGGTTATGTACACTTTGTGT
1 GTACAACTTGAAAAGGTAAGGTACACTTTGTGT
* * * *
4998543 GTAC-ATTTGGAAAGGTTAGGTATACTTTGTGT
1 GTACAACTTGAAAAGGTAAGGTACACTTTGTGT
* * * * *
4998575 ATACCA-TATGAAAATGAAAGGTATACTTTGTGT
1 GTACAACT-TGAAAAGGTAAGGTACACTTTGTGT
* * * * ***
4998608 GTACCACTTGGAAAGG-AATGTACACCTCAAGT
1 GTACAACTTGAAAAGGTAAGGTACACTTTGTGT
* *
4998640 GTACAACTGGAAAAGGAAAGGT
1 GTACAACTTGAAAAGGTAAGGT
4998662 CCATCGGAAA
Statistics
Matches: 93, Mismatches: 22, Indels: 8
0.76 0.18 0.07
Matches are distributed among these distances:
32 51 0.55
33 41 0.44
34 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (33 bp):
GTACAACTTGAAAAGGTAAGGTACACTTTGTGT
Found at i:4998558 original size:32 final size:33
Alignment explanation
Indices: 4998521--4998632 Score: 102
Period size: 33 Copynumber: 3.5 Consensus size: 33
4998511 TACAACTTGA
* *
4998521 AAAGGTTATGTACACTTTGTGTGTA-CATTTGG
1 AAAGGTAAGGTACACTTTGTGTGTACCATTTGG
* * * * *
4998553 AAAGGTTAGGTATACTTTGTGTATACCATATGA
1 AAAGGTAAGGTACACTTTGTGTGTACCATTTGG
* * * *
4998586 AAATGAAAGGTATACTTTGTGTGTACCACTTGG
1 AAAGGTAAGGTACACTTTGTGTGTACCATTTGG
*
4998619 AAAGG-AATGTACAC
1 AAAGGTAAGGTACAC
4998633 CTCAAGTGTA
Statistics
Matches: 64, Mismatches: 15, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
32 29 0.45
33 35 0.55
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (33 bp):
AAAGGTAAGGTACACTTTGTGTGTACCATTTGG
Found at i:4998835 original size:16 final size:16
Alignment explanation
Indices: 4998814--4998856 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
4998804 ATTGAATAAG
4998814 TTAATGAACATATTAC
1 TTAATGAACATATTAC
* * *
4998830 TTAATGTATAAATTAC
1 TTAATGAACATATTAC
*
4998846 TTGATGAACAT
1 TTAATGAACAT
4998857 GAATGGTAAG
Statistics
Matches: 20, Mismatches: 7, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (16 bp):
TTAATGAACATATTAC
Found at i:5003691 original size:8 final size:8
Alignment explanation
Indices: 5003680--5003709 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
5003670 TTAAAAATTT
5003680 TAAAATAA
1 TAAAATAA
5003688 TAAAATAA
1 TAAAATAA
*
5003696 TATAATAA
1 TAAAATAA
5003704 TAAAAT
1 TAAAAT
5003710 TATATTCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (8 bp):
TAAAATAA
Found at i:5003720 original size:16 final size:16
Alignment explanation
Indices: 5003683--5003714 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
5003673 AAAATTTTAA
5003683 AATAATAAAATAATAT
1 AATAATAAAATAATAT
*
5003699 AATAATAAAATTATAT
1 AATAATAAAATAATAT
5003715 TCTAATCCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AATAATAAAATAATAT
Found at i:5005810 original size:18 final size:18
Alignment explanation
Indices: 5005783--5005875 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
5005773 TACGACCGTT
5005783 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
5005801 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
5005819 TATGGTACTATTCACATA
1 TACGGTACTATTCACGTA
*
5005837 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
5005855 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
5005873 TAC
1 TAC
5005876 AGTAGTTGGG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:5005833 original size:36 final size:36
Alignment explanation
Indices: 5005783--5005875 Score: 159
Period size: 36 Copynumber: 2.6 Consensus size: 36
5005773 TACGACCGTT
5005783 TACGGTACTATTCACGTATACGGCACTATTCACGTA
1 TACGGTACTATTCACGTATACGGCACTATTCACGTA
* *
5005819 TATGGTACTATTCACATATACGGCACTATTCACGTA
1 TACGGTACTATTCACGTATACGGCACTATTCACGTA
*
5005855 TACGGTACTGTTCACGTATAC
1 TACGGTACTATTCACGTATAC
5005876 AGTAGTTGGG
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 52 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (36 bp):
TACGGTACTATTCACGTATACGGCACTATTCACGTA
Found at i:5018361 original size:16 final size:16
Alignment explanation
Indices: 5018340--5018382 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
5018330 CCAATATCCA
*
5018340 ATTATCATATTTGCAC
1 ATTATCATATTTACAC
*
5018356 ATTATCACATTTACAC
1 ATTATCATATTTACAC
5018372 ATATAT-ATATT
1 AT-TATCATATT
5018383 CATTTCAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 20 0.87
17 3 0.13
ACGTcount: A:0.37, C:0.16, G:0.02, T:0.44
Consensus pattern (16 bp):
ATTATCATATTTACAC
Found at i:5019367 original size:18 final size:19
Alignment explanation
Indices: 5019336--5019381 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
5019326 GTTCTTTTTC
*
5019336 TTTC-TTTATGTTTCCTT-
1 TTTCTTTTATCTTTCCTTA
*
5019353 TTTCTTTTATCTTTCTTTA
1 TTTCTTTTATCTTTCCTTA
5019372 TTTCTTTTAT
1 TTTCTTTTAT
5019382 TACTATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 4 0.16
18 11 0.44
19 10 0.40
ACGTcount: A:0.09, C:0.15, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTCTTTTATCTTTCCTTA
Found at i:5019442 original size:29 final size:31
Alignment explanation
Indices: 5019410--5019471 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 31
5019400 TACTTAAATA
*
5019410 TTAAACATATTA-TAATATAT-ATATTAATT
1 TTAAACATATTAGTAATATATAATAATAATT
**
5019439 TT-AATTTATTAGTAATATATAATAATAATT
1 TTAAACATATTAGTAATATATAATAATAATT
5019469 TTA
1 TTA
5019472 CACCTTATGT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
28 7 0.26
29 10 0.37
30 10 0.37
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (31 bp):
TTAAACATATTAGTAATATATAATAATAATT
Found at i:5023656 original size:2 final size:2
Alignment explanation
Indices: 5023649--5023681 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
5023639 TTTATTTTGA
5023649 AT AT 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 AT AT A
5023682 ATTTTTCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5026872 original size:14 final size:14
Alignment explanation
Indices: 5026853--5026975 Score: 59
Period size: 14 Copynumber: 9.3 Consensus size: 14
5026843 TATAAAATTT
5026853 TTATTTATCATATA
1 TTATTTATCATATA
*
5026867 TTATTT-TCCTATA
1 TTATTTATCATATA
*
5026880 TATATTTA-AAT-TA
1 T-TATTTATCATATA
*
5026893 -TATTTATTATATA
1 TTATTTATCATATA
**
5026906 ACATTTAT--TATA
1 TTATTTATCATATA
*
5026918 TT-TTTATTATATA
1 TTATTTATCATATA
*
5026931 TTACTTAT--TATA
1 TTATTTATCATATA
* *
5026943 TT-TTTATTATATG
1 TTATTTATCATATA
*
5026956 TTATGTATATCGTATA
1 TTAT-T-TATCATATA
5026972 TTAT
1 TTAT
5026976 CTGTTATATT
Statistics
Matches: 83, Mismatches: 13, Indels: 24
0.69 0.11 0.20
Matches are distributed among these distances:
11 15 0.18
12 12 0.14
13 22 0.27
14 23 0.28
15 1 0.01
16 10 0.12
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.59
Consensus pattern (14 bp):
TTATTTATCATATA
Found at i:5026905 original size:11 final size:11
Alignment explanation
Indices: 5026878--5026954 Score: 57
Period size: 11 Copynumber: 6.5 Consensus size: 11
5026868 TATTTTCCTA
5026878 TATATATTTA-
1 TATATATTTAT
*
5026888 AATTATATTTAT
1 TA-TATATTTAT
5026900 TATATAACATTTAT
1 TATAT---ATTTAT
*
5026914 TATATTTTTAT
1 TATATATTTAT
5026925 TATATATTACTTAT
1 TATATA-T--TTAT
*
5026939 TATATTTTTAT
1 TATATATTTAT
5026950 TATAT
1 TATAT
5026955 GTTATGTATA
Statistics
Matches: 54, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
10 1 0.02
11 30 0.56
12 2 0.04
13 1 0.02
14 20 0.37
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (11 bp):
TATATATTTAT
Found at i:5026911 original size:25 final size:24
Alignment explanation
Indices: 5026889--5026954 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 24
5026879 ATATATTTAA
5026889 ATTATA-TTTATTATATAACATTT
1 ATTATATTTTATTATATAACATTT
** *
5026912 ATTATATTTTTATTATATATTACTT
1 ATTATA-TTTTATTATATAACATTT
5026937 ATTATATTTTTATTATAT
1 ATTATA-TTTTATTATAT
5026955 GTTATGTATA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
23 6 0.16
25 32 0.84
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (24 bp):
ATTATATTTTATTATATAACATTT
Found at i:5027010 original size:12 final size:12
Alignment explanation
Indices: 5026995--5027019 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5026985 TATTTATGTT
5026995 TTATATTATTCA
1 TTATATTATTCA
5027007 TTATATTATTCA
1 TTATATTATTCA
5027019 T
1 T
5027020 AATTTTAAAA
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:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (12 bp):
TTATATTATTCA
Found at i:5030105 original size:26 final size:26
Alignment explanation
Indices: 5030075--5030126 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
5030065 CACCACTGAA
*
5030075 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
5030101 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
5030127 CTTTTCATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.23, T:0.13
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:5030207 original size:26 final size:26
Alignment explanation
Indices: 5030178--5030229 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
5030168 ACCAATGAAA
*
5030178 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
5030204 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
5030230 CTTTCACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.23, T:0.13
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:5030222 original size:103 final size:103
Alignment explanation
Indices: 5030044--5030306 Score: 424
Period size: 103 Copynumber: 2.6 Consensus size: 103
5030034 AACCGTTATT
* *
5030044 GGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGAA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGAA
*
5030109 TCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATAC
66 TCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
5030146 GGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
*
5030211 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAT
65 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
5030250 GGTGGATCA-CGCACATAGCACCACCAATGAA-CGGGGAATCAGCACACAGCAACCCCT
1 GGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
5030307 TTTATATACA
Statistics
Matches: 151, Mismatches: 7, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
102 51 0.34
103 60 0.40
104 39 0.26
105 1 0.01
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.18
Consensus pattern (103 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGAA
TCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Done.