Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 175 of 190
Found at i:50832825 original size:62 final size:62
Alignment explanation
Indices: 50832755--50832880 Score: 225
Period size: 62 Copynumber: 2.0 Consensus size: 62
50832745 GAGTATCTAA
*
50832755 AATGATTTACTCTTGTCACAACAAAAGGGTATGCTAAAGCTTTAATTTAAACAGGTTGCTTG
1 AATGATTTACTCTTGTCACAACAAAAAGGTATGCTAAAGCTTTAATTTAAACAGGTTGCTTG
* *
50832817 AATGATTTATTCTTGTCACAACAAAAAGGTATGCTAAAGCTTTAATTTGAACAGGTTGCTTG
1 AATGATTTACTCTTGTCACAACAAAAAGGTATGCTAAAGCTTTAATTTAAACAGGTTGCTTG
50832879 AA
1 AA
50832881 GGAGATCAAT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.34
Consensus pattern (62 bp):
AATGATTTACTCTTGTCACAACAAAAAGGTATGCTAAAGCTTTAATTTAAACAGGTTGCTTG
Found at i:50836052 original size:16 final size:18
Alignment explanation
Indices: 50836013--50836046 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
50836003 TAAGTTTATA
50836013 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
50836030 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
50836047 AATTTAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:50836586 original size:30 final size:31
Alignment explanation
Indices: 50836550--50836618 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
50836540 GGTTTTATTT
*
50836550 CAGTCACTCAAC-TTTTAA-AAAATAACAAAA
1 CAGTCACT-AACGTTATAAGAAAATAACAAAA
* *
50836580 CAGTCACTAACGTTATAAGAAAGTGACAAAA
1 CAGTCACTAACGTTATAAGAAAATAACAAAA
50836611 CAGTCACT
1 CAGTCACT
50836619 GATTAACAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 3 0.09
30 13 0.38
31 18 0.53
ACGTcount: A:0.48, C:0.20, G:0.10, T:0.22
Consensus pattern (31 bp):
CAGTCACTAACGTTATAAGAAAATAACAAAA
Found at i:50842624 original size:24 final size:24
Alignment explanation
Indices: 50842574--50842625 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
50842564 AATCAAAGTC
* **
50842574 AAATATATCATGCTAATAAATGTT
1 AAATATATCATACTAATAAATACT
* *
50842598 AAATATATTATACTCATAAATACT
1 AAATATATCATACTAATAAATACT
50842622 AAAT
1 AAAT
50842626 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATCATACTAATAAATACT
Found at i:50845885 original size:19 final size:19
Alignment explanation
Indices: 50845861--50845909 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
50845851 CTGGTTGTTT
*
50845861 TCCCTTTTGATTCGCAACC
1 TCCCTTTTGATTCACAACC
*
50845880 TCCCTTTTGATTCACAGCC
1 TCCCTTTTGATTCACAACC
50845899 TCCCTTTTGAT
1 TCCCTTTTGAT
50845910 ATTGTTCTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.14, C:0.35, G:0.10, T:0.41
Consensus pattern (19 bp):
TCCCTTTTGATTCACAACC
Found at i:50846985 original size:24 final size:24
Alignment explanation
Indices: 50846935--50846986 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
50846925 AATCAAAGTC
* *
50846935 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
* *
50846959 AAATATATTATACTCATAAATATT
1 AAATATATTATACTAATAAATACT
50846983 AAAT
1 AAAT
50846987 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:50850770 original size:3 final size:3
Alignment explanation
Indices: 50850762--50850787 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
50850752 ATGACTGCTT
50850762 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
50850788 TTTTTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:50855160 original size:30 final size:30
Alignment explanation
Indices: 50855125--50855181 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
50855115 ATCAGTTCCC
*
50855125 CCTCCCCACCTCATCAT-GCATATCATCCAA
1 CCTCCCCACCTCACCATAGC-TATCATCCAA
*
50855155 CCTCCCCTCCTCACCATAGCTATCATC
1 CCTCCCCACCTCACCATAGCTATCATC
50855182 AGCCCACCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.23, C:0.49, G:0.04, T:0.25
Consensus pattern (30 bp):
CCTCCCCACCTCACCATAGCTATCATCCAA
Found at i:50864322 original size:167 final size:167
Alignment explanation
Indices: 50864046--50864364 Score: 629
Period size: 167 Copynumber: 1.9 Consensus size: 167
50864036 GTCCCCTAAC
50864046 TTAAATTGATATGGACTAACTCCCATCTCGTTATGAATTTTGGAACCTTTTAATTTCCATATTTT
1 TTAAATTGATATGGACTAACTCCCATCTCGTTATGAATTTTGGAACCTTTTAATTTCCATATTTT
50864111 TATTTGATTAATAAATTTCGATCCCTTAAATAGCAACATTTTTTTAAATTACTTTTAAATGAACT
66 TATTTGATTAATAAATTTCGATCCCTTAAATAGCAACATTTTTTTAAATTACTTTTAAATGAACT
*
50864176 TAGATTGTTCATAATTCGTTATGAATTTTGGAACCTT
131 TAGATTGTTCATAATTCATTATGAATTTTGGAACCTT
50864213 TTAAATTGATATGGACTAACTCCCATCTCGTTATGAATTTTGGAACCTTTTAATTTCCATATTTT
1 TTAAATTGATATGGACTAACTCCCATCTCGTTATGAATTTTGGAACCTTTTAATTTCCATATTTT
50864278 TATTTGATTAATAAATTTCGATCCCTTAAATAGCAACATTTTTTTAAATTACTTTTAAATGAACT
66 TATTTGATTAATAAATTTCGATCCCTTAAATAGCAACATTTTTTTAAATTACTTTTAAATGAACT
50864343 TAGATTGTTCATAATTCATTAT
131 TAGATTGTTCATAATTCATTAT
50864365 ATATTTTATG
Statistics
Matches: 151, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
167 151 1.00
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.45
Consensus pattern (167 bp):
TTAAATTGATATGGACTAACTCCCATCTCGTTATGAATTTTGGAACCTTTTAATTTCCATATTTT
TATTTGATTAATAAATTTCGATCCCTTAAATAGCAACATTTTTTTAAATTACTTTTAAATGAACT
TAGATTGTTCATAATTCATTATGAATTTTGGAACCTT
Found at i:50869940 original size:18 final size:18
Alignment explanation
Indices: 50869914--50869957 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
50869904 GTTATGAAAC
*
50869914 ATATA-TTTTAATGTTTT
1 ATATATTTTTAATGTATT
* *
50869931 TTATATTTTTGATGTATT
1 ATATATTTTTAATGTATT
50869949 ATATATTTT
1 ATATATTTT
50869958 AAATTTATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (18 bp):
ATATATTTTTAATGTATT
Found at i:50871761 original size:24 final size:25
Alignment explanation
Indices: 50871734--50871781 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
50871724 TATATCGGGT
*
50871734 AGCTCCGAAGAGCAC-TTAACAGAA
1 AGCTCCAAAGAGCACTTTAACAGAA
50871758 AGCTCCAAAGAGCACTTTAACAGA
1 AGCTCCAAAGAGCACTTTAACAGA
50871782 GAGCACCGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.42, C:0.25, G:0.19, T:0.15
Consensus pattern (25 bp):
AGCTCCAAAGAGCACTTTAACAGAA
Found at i:50872124 original size:18 final size:19
Alignment explanation
Indices: 50872095--50872134 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
50872085 ATCAAGCTTC
* *
50872095 ATTCATTTTATCGAGACTT
1 ATTCATTTTATCAAGAATT
50872114 ATTCA-TTTATCAAGAATT
1 ATTCATTTTATCAAGAATT
50872132 ATT
1 ATT
50872135 GGATATGAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.47
Consensus pattern (19 bp):
ATTCATTTTATCAAGAATT
Found at i:50875900 original size:46 final size:46
Alignment explanation
Indices: 50875828--50876061 Score: 423
Period size: 46 Copynumber: 5.1 Consensus size: 46
50875818 ACAATGCTAT
*
50875828 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATTGAAATACCATACCTACTTTTCAC
*
50875874 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATTGAAATACCATACCTACTTTTCAC
*
50875920 AACTCAGTATGGTTTTCTTCATTGAAATATCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATTGAAATACCATACCTACTTTTCAC
*
50875966 AACTCAGTATGGTTTTCTTTATTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATTGAAATACCATACCTACTTTTCAC
*
50876012 AACTCAGTATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATTGAAATACCATACCTACTTTTCAC
50876058 AACT
1 AACT
50876062 TTGCCATGGA
Statistics
Matches: 180, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 180 1.00
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCATTGAAATACCATACCTACTTTTCAC
Found at i:50880919 original size:18 final size:21
Alignment explanation
Indices: 50880883--50880921 Score: 57
Period size: 18 Copynumber: 2.0 Consensus size: 21
50880873 TGAGCTTTTC
50880883 ATTTTTAATATATATTTAAAT
1 ATTTTTAATATATATTTAAAT
50880904 ATTTTT-ATAT-TA-TTAAAT
1 ATTTTTAATATATATTTAAAT
50880922 TATATTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 2 0.11
20 4 0.22
21 6 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTTTTAATATATATTTAAAT
Found at i:50885435 original size:21 final size:20
Alignment explanation
Indices: 50885411--50885480 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 20
50885401 AATAATAAAT
50885411 AAATAAAATAAAAAAT-TAGGA
1 AAATAAAATAAAAAATATA--A
*
50885432 AAATAAAAATAAATAATATAA
1 AAAT-AAAATAAAAAATATAA
50885453 AAATAATAATAAATAAA-AT-A
1 AAATAA-AATAAA-AAATATAA
50885473 AAATAAAA
1 AAATAAAA
50885481 GGGGTAGCTT
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
19 2 0.05
20 9 0.21
21 17 0.40
22 13 0.30
23 2 0.05
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (20 bp):
AAATAAAATAAAAAATATAA
Found at i:50885439 original size:5 final size:5
Alignment explanation
Indices: 50885431--50885480 Score: 50
Period size: 5 Copynumber: 9.8 Consensus size: 5
50885421 AAAAATTAGG
*
50885431 AAAAT AAAA- ATAAAT AATAT AAAAAT AATAAT -AAAT AAAAT AAAAT
1 AAAAT AAAAT A-AAAT AAAAT -AAAAT AA-AAT AAAAT AAAAT AAAAT
50885477 AAAA
1 AAAA
50885481 GGGGTAGCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
4 4 0.11
5 26 0.68
6 8 0.21
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
AAAAT
Found at i:50885467 original size:31 final size:30
Alignment explanation
Indices: 50885401--50885480 Score: 83
Period size: 31 Copynumber: 2.6 Consensus size: 30
50885391 TAAGTATAAG
*
50885401 AATAATAAATAAATAAAATAAAAAATTAGGAA
1 AATAA-AAATAAATAAAATAAAAAAATA-GAA
*
50885433 AATAAAAATAAATAATATAAAAATAATA-ATA
1 AATAAAAATAAATAAAATAAAAA-AATAGA-A
50885464 AAT-AAAATAAAATAAAA
1 AATAAAAAT-AAATAAAA
50885481 GGGGTAGCTT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
30 6 0.14
31 28 0.67
32 8 0.19
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (30 bp):
AATAAAAATAAATAAAATAAAAAAATAGAA
Found at i:50891264 original size:4 final size:4
Alignment explanation
Indices: 50891255--50891279 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
50891245 TCCACCCTAT
50891255 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
50891280 AAATCATTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:50911409 original size:30 final size:31
Alignment explanation
Indices: 50911359--50911421 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 31
50911349 CTTAGATAAT
50911359 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
50911390 TTTAAAGAGTTTT-TTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
50911420 TT
1 TT
50911422 GTCATTTGCC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 19 0.59
31 13 0.41
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.48
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:50912527 original size:24 final size:24
Alignment explanation
Indices: 50912483--50912528 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
50912473 TCACTCCTAT
*
50912483 ACAACCATCATCCTCACTATCCCC
1 ACAACCATCACCCTCACTATCCCC
50912507 ACAACCATCACCACTCA-TATCC
1 ACAACCATCACC-CTCACTATCC
50912529 TACACTTCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.33, C:0.48, G:0.00, T:0.20
Consensus pattern (24 bp):
ACAACCATCACCCTCACTATCCCC
Found at i:50916410 original size:42 final size:42
Alignment explanation
Indices: 50916363--50916442 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
50916353 GTGCTTGATA
*
50916363 ATGTAAAGGAGGAAGACGAGTACTATGAAAAGCCAATAACTG
1 ATGTAAAGAAGGAAGACGAGTACTATGAAAAGCCAATAACTG
* * * *
50916405 ATGTAAAGAAGGAAGGCGAGTACTGTGATAAGCTAATA
1 ATGTAAAGAAGGAAGACGAGTACTATGAAAAGCCAATA
50916443 TCTTGCCTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.44, C:0.10, G:0.28, T:0.19
Consensus pattern (42 bp):
ATGTAAAGAAGGAAGACGAGTACTATGAAAAGCCAATAACTG
Found at i:50917528 original size:47 final size:47
Alignment explanation
Indices: 50917468--50917562 Score: 172
Period size: 47 Copynumber: 2.0 Consensus size: 47
50917458 AAAATTCATT
*
50917468 AATCCATTTCATGAATGGAATCATATAATTCGGGTAAAAGAAAAAAC
1 AATCCATTTCATGAATGGAATCATACAATTCGGGTAAAAGAAAAAAC
*
50917515 AATCCATTTCATGAATGGAATCATACAATTCGGGTAAAAGGAAAAAC
1 AATCCATTTCATGAATGGAATCATACAATTCGGGTAAAAGAAAAAAC
50917562 A
1 A
50917563 TGTCTATTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.46, C:0.14, G:0.16, T:0.24
Consensus pattern (47 bp):
AATCCATTTCATGAATGGAATCATACAATTCGGGTAAAAGAAAAAAC
Found at i:50921790 original size:20 final size:19
Alignment explanation
Indices: 50921754--50921814 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 19
50921744 TATAACTTTT
* *
50921754 ATTTTTAAAATTATTTATA
1 ATTTTTAAATTTTTTTATA
*
50921773 ATTTTTAAATTTCTTTTATT
1 ATTTTTAAATTT-TTTTATA
*
50921793 ATTTTTAATTATTTTTTATA
1 ATTTTTAAAT-TTTTTTATA
50921813 AT
1 AT
50921815 AGTTTGAACC
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
19 11 0.31
20 22 0.63
21 2 0.06
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (19 bp):
ATTTTTAAATTTTTTTATA
Found at i:50935731 original size:61 final size:61
Alignment explanation
Indices: 50935651--50935770 Score: 172
Period size: 61 Copynumber: 2.0 Consensus size: 61
50935641 GGGACTTGGT
* *
50935651 CTCCCAAAATTTTGAGAAATTT-TGATTTCTCCCTTGAATTTTTTAGAAAGTTTTAATTAGA
1 CTCCCAAAATTTTGAGAAATTTAT-ATTTCTCCCTTGAAGTTTTTAGAAAATTTTAATTAGA
* *
50935712 CTCCCAAATTTTTTG-GAAATTTATATTTCTCTCTTGAAGTTTTTAGAAAATTTTAATTA
1 CTCCCAAA-ATTTTGAGAAATTTATATTTCTCCCTTGAAGTTTTTAGAAAATTTTAATTA
50935771 AGCCCTTTCA
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
61 47 0.89
62 6 0.11
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.47
Consensus pattern (61 bp):
CTCCCAAAATTTTGAGAAATTTATATTTCTCCCTTGAAGTTTTTAGAAAATTTTAATTAGA
Found at i:50936902 original size:21 final size:21
Alignment explanation
Indices: 50936878--50936918 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
50936868 AATAAAACCC
50936878 AAATAA-AAACAAAGCCCAAAT
1 AAATAACAAACAAA-CCCAAAT
*
50936899 AAATAACCAACAAACCCAAA
1 AAATAACAAACAAACCCAAA
50936919 ACAAAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.66, C:0.24, G:0.02, T:0.07
Consensus pattern (21 bp):
AAATAACAAACAAACCCAAAT
Found at i:50939576 original size:19 final size:20
Alignment explanation
Indices: 50939539--50939579 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
50939529 ATACTAAAAA
*
50939539 TATTAAAATTGATATAAACT
1 TATTAAAATTGATAAAAACT
50939559 TATTAAAA-TGATAAAAACT
1 TATTAAAATTGATAAAAACT
50939578 TA
1 TA
50939580 AAAGTATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.37
Consensus pattern (20 bp):
TATTAAAATTGATAAAAACT
Found at i:50939638 original size:20 final size:21
Alignment explanation
Indices: 50939593--50939639 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
50939583 GTATTATAAA
50939593 AATAAAAAAATCTAATAAATT
1 AATAAAAAAATCTAATAAATT
* *
50939614 -GTAAAAAAAT-TTATAAATT
1 AATAAAAAAATCTAATAAATT
50939633 AATAAAA
1 AATAAAA
50939640 CTTATTTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (21 bp):
AATAAAAAAATCTAATAAATT
Found at i:50940344 original size:19 final size:17
Alignment explanation
Indices: 50940320--50940358 Score: 60
Period size: 19 Copynumber: 2.2 Consensus size: 17
50940310 TTTATATCAA
50940320 TTTTAATATTTGTAATATT
1 TTTTAATATTTG-AA-ATT
50940339 TTTTAATATTTGAAATT
1 TTTTAATATTTGAAATT
50940356 TTT
1 TTT
50940359 ATTTTTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 6 0.30
18 2 0.10
19 12 0.60
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (17 bp):
TTTTAATATTTGAAATT
Found at i:50941502 original size:92 final size:92
Alignment explanation
Indices: 50941391--50941559 Score: 214
Period size: 92 Copynumber: 1.8 Consensus size: 92
50941381 ACATATCTTA
* * *
50941391 ATAGTTCATGTACCACATTAGACATTTTCAAAGTA-GAGATACCATATTGAACATTTTATAAAAG
1 ATAGTTCAGGTACCACATTAGACATTTTCAAAGTACAAG-TACCACATTGAACATTTTATAAAAG
*
50941455 TATATGCACCAAAATAAAATAAATATTG
65 TATAAGCACCAAAATAAAATAAATATTG
* * ** * * *
50941483 ATAGTTCAGGTACCGCATTAGATATTTTTGAAGTACAAGTACTACATTGGACATTTTATGAAAGT
1 ATAGTTCAGGTACCACATTAGACATTTTCAAAGTACAAGTACCACATTGAACATTTTATAAAAGT
*
50941548 ATAAGTACCAAA
66 ATAAGCACCAAA
50941560 TGGAAAATTA
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
92 62 0.97
93 2 0.03
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (92 bp):
ATAGTTCAGGTACCACATTAGACATTTTCAAAGTACAAGTACCACATTGAACATTTTATAAAAGT
ATAAGCACCAAAATAAAATAAATATTG
Found at i:50941530 original size:29 final size:31
Alignment explanation
Indices: 50941498--50941555 Score: 75
Period size: 29 Copynumber: 1.9 Consensus size: 31
50941488 TCAGGTACCG
*
50941498 CATTAGATATTTT-TG-AAGTACAAGTACTA
1 CATTAGACATTTTATGAAAGTACAAGTACTA
* *
50941527 CATTGGACATTTTATGAAAGTATAAGTAC
1 CATTAGACATTTTATGAAAGTACAAGTAC
50941556 CAAATGGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 11 0.46
30 2 0.08
31 11 0.46
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (31 bp):
CATTAGACATTTTATGAAAGTACAAGTACTA
Found at i:50942415 original size:11 final size:11
Alignment explanation
Indices: 50942399--50942424 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
50942389 TAGAAGAGAC
50942399 GAAACAGGGGA
1 GAAACAGGGGA
50942410 GAAACAGGGGA
1 GAAACAGGGGA
50942421 GAAA
1 GAAA
50942425 GAAGAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.42, T:0.00
Consensus pattern (11 bp):
GAAACAGGGGA
Found at i:50943188 original size:39 final size:40
Alignment explanation
Indices: 50943145--50943231 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 40
50943135 GAATTATGGG
* * *
50943145 ATACTGGATATTGTTTTG-ATTACTG-AGTGAATTGTGAAA
1 ATACTGAATATTGTTATGTA-TAATGCAGTGAATTGTGAAA
*
50943184 ATACTGAATATTGTTATGTATAATGCATTGAATTGTGAAA
1 ATACTGAATATTGTTATGTATAATGCAGTGAATTGTGAAA
*
50943224 TTACTGAA
1 ATACTGAA
50943232 GTAAAGAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
39 20 0.49
40 21 0.51
ACGTcount: A:0.34, C:0.06, G:0.20, T:0.40
Consensus pattern (40 bp):
ATACTGAATATTGTTATGTATAATGCAGTGAATTGTGAAA
Found at i:50943501 original size:45 final size:45
Alignment explanation
Indices: 50943433--50943587 Score: 238
Period size: 45 Copynumber: 3.4 Consensus size: 45
50943423 ATGTGCCGAC
50943433 TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGT
*
50943478 TACTGTTACTGTTACTGACTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGT
* * * ** *
50943523 TACCGTTACTGTTACAGGTTCAACACTTTGTGTGTTGAATACTGT
1 TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGT
*
50943568 TACTGTTACTGTTATTGATT
1 TACTGTTACTGTTACTGATT
50943588 ACTGTATACT
Statistics
Matches: 98, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 98 1.00
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.43
Consensus pattern (45 bp):
TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGT
Found at i:50956331 original size:12 final size:12
Alignment explanation
Indices: 50956314--50956339 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
50956304 GAACTGAACC
50956314 AGGAGAAGCTGA
1 AGGAGAAGCTGA
50956326 AGGAGAAGCTGA
1 AGGAGAAGCTGA
50956338 AG
1 AG
50956340 AAAAATCAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.42, T:0.08
Consensus pattern (12 bp):
AGGAGAAGCTGA
Found at i:50958353 original size:13 final size:14
Alignment explanation
Indices: 50958326--50958352 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
50958316 AAATGTCGAA
50958326 AAAATAGATTTTTT
1 AAAATAGATTTTTT
50958340 AAAATAGATTTTT
1 AAAATAGATTTTT
50958353 AGGGAGAGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (14 bp):
AAAATAGATTTTTT
Found at i:50959864 original size:126 final size:125
Alignment explanation
Indices: 50959724--50960009 Score: 421
Period size: 126 Copynumber: 2.3 Consensus size: 125
50959714 TAATTTAAAA
* * * * * * *
50959724 AAGCTCCCACGTGGACTCTCTTTTGTTATAGTAGCTCTTGAAAAAATAATTTTGAGAAGACGTTT
1 AAGCT-CCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGAAGACATTT
* **
50959789 CTGAGCAAATAGTGTCAAAAACACTTTAAGC-GTGATGTTTTGTCAGCAAAAGTACTGAAAG
65 CTGAGCAAATAGTGTCAAAAACACTTTAAGCAG-GATGCTTTAACAGCAAAAGTACTGAAAG
*
50959850 AAGCTCCAACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACATTT
1 AAGCTCC-ACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGAAGACATTT
*
50959915 CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTAACAGCAAAAGTACTGAAAG
65 CTGAGCAAATAGTGTCAAAAACACTTTAAGCAGGATGCTTTAACAGCAAAAGTACTGAAAG
50959976 AAGCTCTCACGTGGACGCGCTTTTGCTACAGTAG
1 AAGCTC-CACGTGGACGCGCTTTTGCTACAGTAG
50960010 ATCATGTTTG
Statistics
Matches: 145, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
125 2 0.01
126 141 0.97
127 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (125 bp):
AAGCTCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGAAGACATTTC
TGAGCAAATAGTGTCAAAAACACTTTAAGCAGGATGCTTTAACAGCAAAAGTACTGAAAG
Found at i:50963226 original size:116 final size:116
Alignment explanation
Indices: 50963022--50963232 Score: 314
Period size: 116 Copynumber: 1.8 Consensus size: 116
50963012 GTATTATTTA
* *
50963022 TATTTTTTTAAATCAAATAATATGGAAATATTCAAAATATTGACTTATTTAAAAGAAAATCTATT
1 TATTTTATTAAATCAAATAATATAGAAATATTCAAAATATTGACTTATTTAAAAGAAAATCTATT
* *
50963087 TTATTAAAAATATTAAAGTAAATTACAATTACTTTATTCAAAATAACTTTT
66 ATATTAAAAATATAAAAGTAAATTACAATTACTTTATTCAAAATAACTTTT
* ** * **
50963138 TATTTTATTAAATGAAATAATATAGAAATATTCAAAATATTGTGTTATTTAAAATAATTTCTATT
1 TATTTTATTAAATCAAATAATATAGAAATATTCAAAATATTGACTTATTTAAAAGAAAATCTATT
* *
50963203 ATATTAAAAATGTAAAAGTAAATTTCAATT
66 ATATTAAAAATATAAAAGTAAATTACAATT
50963233 TTATTACATG
Statistics
Matches: 83, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
116 83 1.00
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (116 bp):
TATTTTATTAAATCAAATAATATAGAAATATTCAAAATATTGACTTATTTAAAAGAAAATCTATT
ATATTAAAAATATAAAAGTAAATTACAATTACTTTATTCAAAATAACTTTT
Found at i:50965364 original size:39 final size:39
Alignment explanation
Indices: 50965315--50965416 Score: 177
Period size: 39 Copynumber: 2.6 Consensus size: 39
50965305 TTATAAGAAA
50965315 TAATAAAATAAAAATTATTTAAAAATTATAAGAAATTTC
1 TAATAAAATAAAAATTATTTAAAAATTATAAGAAATTTC
*
50965354 TAATAAAATAAAAATTATTTAAAAATTATAGGAAATTTC
1 TAATAAAATAAAAATTATTTAAAAATTATAAGAAATTTC
* *
50965393 TAATAAATTTAAAATTATTTAAAA
1 TAATAAAATAAAAATTATTTAAAA
50965417 TTGCATAAAT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 60 1.00
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (39 bp):
TAATAAAATAAAAATTATTTAAAAATTATAAGAAATTTC
Found at i:50965407 original size:18 final size:18
Alignment explanation
Indices: 50965347--50965408 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
50965337 AAATTATAAG
* *
50965347 AAATTTCTAATAAAATAA
1 AAATTTCTAATAAATTTA
*
50965365 AAATTATTTAA-AAATTATA
1 AAATT-TCTAATAAATT-TA
50965384 GGAAATTTCTAATAAATTTA
1 --AAATTTCTAATAAATTTA
50965404 AAATT
1 AAATT
50965409 ATTTAAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
18 14 0.40
19 5 0.14
20 6 0.17
21 10 0.29
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (18 bp):
AAATTTCTAATAAATTTA
Found at i:50965630 original size:11 final size:11
Alignment explanation
Indices: 50965614--50965683 Score: 72
Period size: 11 Copynumber: 6.4 Consensus size: 11
50965604 AAAAAAATTA
50965614 AGAGGAATTTG
1 AGAGGAATTTG
*
50965625 AGAGGAAATTG
1 AGAGGAATTTG
* *
50965636 AAAAGAATTTG
1 AGAGGAATTTG
50965647 AGAGGAATTTG
1 AGAGGAATTTG
50965658 AGA-GAATATTG
1 AGAGGAAT-TTG
*
50965669 -GAGAGAAATTG
1 AGAG-GAATTTG
50965680 AGAG
1 AGAG
50965684 AAAGGATTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
10 6 0.12
11 36 0.75
12 6 0.12
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.23
Consensus pattern (11 bp):
AGAGGAATTTG
Found at i:50965651 original size:33 final size:33
Alignment explanation
Indices: 50965603--50965683 Score: 101
Period size: 33 Copynumber: 2.5 Consensus size: 33
50965593 TTAAATAATT
* *
50965603 AAAAAAAATTAAGAGGAATTTGAGAGGAA-ATTG
1 AAAAGAAATTGAGAGGAATTTGAGA-GAATATTG
*
50965636 AAAAGAATTTGAGAGGAATTTGAGAGAATATTG
1 AAAAGAAATTGAGAGGAATTTGAGAGAATATTG
* *
50965669 GAGAGAAATTGAGAG
1 AAAAGAAATTGAGAG
50965684 AAAGGATTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
32 3 0.07
33 38 0.93
ACGTcount: A:0.49, C:0.00, G:0.28, T:0.22
Consensus pattern (33 bp):
AAAAGAAATTGAGAGGAATTTGAGAGAATATTG
Found at i:50965674 original size:12 final size:10
Alignment explanation
Indices: 50965608--50965686 Score: 59
Period size: 11 Copynumber: 7.3 Consensus size: 10
50965598 TAATTAAAAA
*
50965608 AAATTAAGAGG
1 AAATTGAGA-G
*
50965619 AATTTGAGAGG
1 AAATTGAGA-G
*
50965630 AAATTGAAAAG
1 AAATTG-AGAG
*
50965641 AATTTGAGAGG
1 AAATTGAGA-G
*
50965652 AATTTGAGAG
1 AAATTGAGAG
50965662 AATATTGGAGAG
1 AA-ATT-GAGAG
50965674 AAATTGAGAG
1 AAATTGAGAG
50965684 AAA
1 AAA
50965687 GGATTTAGGT
Statistics
Matches: 57, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
10 13 0.23
11 35 0.61
12 9 0.16
ACGTcount: A:0.48, C:0.00, G:0.29, T:0.23
Consensus pattern (10 bp):
AAATTGAGAG
Found at i:50965684 original size:22 final size:21
Alignment explanation
Indices: 50965608--50965685 Score: 86
Period size: 22 Copynumber: 3.6 Consensus size: 21
50965598 TAATTAAAAA
*
50965608 AAATTAAGAGGAATTTGAGAGG
1 AAATTGAGA-GAATTTGAGAGG
*
50965630 AAATTGAAAAGAATTTGAGAGG
1 AAATTG-AGAGAATTTGAGAGG
*
50965652 AATTTGAGAGAATATTG-GAGAG
1 AAATTGAGAGAAT-TTGAGAG-G
50965674 AAATTGAGAGAA
1 AAATTGAGAGAA
50965686 AGGATTTAGG
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
21 9 0.19
22 37 0.77
23 2 0.04
ACGTcount: A:0.47, C:0.00, G:0.29, T:0.23
Consensus pattern (21 bp):
AAATTGAGAGAATTTGAGAGG
Found at i:50977184 original size:41 final size:41
Alignment explanation
Indices: 50977139--50977230 Score: 130
Period size: 41 Copynumber: 2.2 Consensus size: 41
50977129 ACCGACTCTT
* *
50977139 AGCCTGCTAGACCTATAGTCCGAAATGTATCACCGGCATTA
1 AGCCTGCTAGACCTAAAGTCCGAAATATATCACCGGCATTA
* * * *
50977180 AGCCTGCTAGACGTAAAGTCTGAATTATTTCACCGGCATTA
1 AGCCTGCTAGACCTAAAGTCCGAAATATATCACCGGCATTA
50977221 AGCCTGCTAG
1 AGCCTGCTAG
50977231 GCACATAGCC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (41 bp):
AGCCTGCTAGACCTAAAGTCCGAAATATATCACCGGCATTA
Found at i:50977244 original size:41 final size:41
Alignment explanation
Indices: 50977168--50977245 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
50977158 CCGAAATGTA
** *
50977168 TCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTATT
1 TCACCGGCATTAAGCCTGCTAGACACAAAGCCTGAATTATT
* *
50977209 TCACCGGCATTAAGCCTGCTAGGCACATAGCCTGAAT
1 TCACCGGCATTAAGCCTGCTAGACACAAAGCCTGAAT
50977246 AACTGAGATA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (41 bp):
TCACCGGCATTAAGCCTGCTAGACACAAAGCCTGAATTATT
Found at i:50977509 original size:2 final size:2
Alignment explanation
Indices: 50977502--50977538 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
50977492 TCTAACCTCT
*
50977502 TA TA TA TA TA TA TA CA 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
50977539 CATAACATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:50977839 original size:2 final size:2
Alignment explanation
Indices: 50977832--50977873 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
50977822 ATAGATTTCC
50977832 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
50977874 TCTAGTTTAA
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:50979452 original size:45 final size:45
Alignment explanation
Indices: 50979388--50979582 Score: 216
Period size: 45 Copynumber: 4.4 Consensus size: 45
50979378 ATATACCGAC
* * * *
50979388 TACTGTTATTGTTACTGATTCGACACTTTGTGTCTCAAATACTGT
1 TACTGTTACTGTTACTGATTCGACACTTTGTATGTCGAATACTGT
* *
50979433 TACTGTTACTATTACTGATTCGACACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACTGATTCGACACTTTGTATGTCGAATACTGT
** * * *
50979478 TAC--CAACTGTTA-TCGATTCGGCACTTTATATGGCGAATACTGT
1 TACTGTTACTGTTACT-GATTCGACACTTTGTATGTCGAATACTGT
* * * * *
50979521 TACCGTTATTGTTACAGATTCAACACTTTGTATGTTGAATACTGT
1 TACTGTTACTGTTACTGATTCGACACTTTGTATGTCGAATACTGT
50979566 TACTGTTACTGTTACTG
1 TACTGTTACTGTTACTG
50979583 TTACTGTTAT
Statistics
Matches: 123, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
42 1 0.01
43 34 0.28
45 88 0.72
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.42
Consensus pattern (45 bp):
TACTGTTACTGTTACTGATTCGACACTTTGTATGTCGAATACTGT
Found at i:50979571 original size:6 final size:6
Alignment explanation
Indices: 50979560--50979601 Score: 66
Period size: 6 Copynumber: 6.8 Consensus size: 6
50979550 GTATGTTGAA
*
50979560 TACTGT TACTGT TACTGT TACTGT TACTGT TATTGAT TACTG
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTG
50979602 ATCAGGTACT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
6 28 0.85
7 5 0.15
ACGTcount: A:0.19, C:0.14, G:0.17, T:0.50
Consensus pattern (6 bp):
TACTGT
Found at i:50985110 original size:4 final size:4
Alignment explanation
Indices: 50985101--50985186 Score: 109
Period size: 4 Copynumber: 21.5 Consensus size: 4
50985091 CTAATACGGA
* *
50985101 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGC ATGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * *
50985149 ATGC ATGT ATGC ATGC ATGC ATGT ATGC ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
50985187 AATGAAAATA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 76 1.00
ACGTcount: A:0.26, C:0.08, G:0.24, T:0.42
Consensus pattern (4 bp):
ATGT
Found at i:50986642 original size:14 final size:15
Alignment explanation
Indices: 50986623--50986651 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
50986613 TCACGAAACT
50986623 TTCACACAT-ATAAA
1 TTCACACATAATAAA
50986637 TTCACACATAATAAA
1 TTCACACATAATAAA
50986652 CACAGAAAAA
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:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:50987445 original size:47 final size:50
Alignment explanation
Indices: 50987381--50987489 Score: 143
Period size: 47 Copynumber: 2.2 Consensus size: 50
50987371 CATGACAATA
* *
50987381 TGTGATATGTGATTTCCGTATAAGACCATAGTTGGGCTATGGCATT-G-G
1 TGTGATATGTGACTTCCGTATAAGACCATAGCTGGGCTATGGCATTGGTG
* * * *
50987429 TGTGATATGTG-CTTCCGTGTAAGACCATGGCTGGGTTATGGCTTTGGTG
1 TGTGATATGTGACTTCCGTATAAGACCATAGCTGGGCTATGGCATTGGTG
50987478 TGTGATATGTGA
1 TGTGATATGTGA
50987490 TTATGCGCAA
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
47 28 0.54
48 12 0.23
49 12 0.23
ACGTcount: A:0.19, C:0.12, G:0.32, T:0.37
Consensus pattern (50 bp):
TGTGATATGTGACTTCCGTATAAGACCATAGCTGGGCTATGGCATTGGTG
Found at i:50988063 original size:25 final size:25
Alignment explanation
Indices: 50988034--50988110 Score: 88
Period size: 25 Copynumber: 3.2 Consensus size: 25
50988024 ACCTTAGTGC
50988034 GCTCTTTGATTATTAGCACATCAGT
1 GCTCTTTGATTATTAGCACATCAGT
* * *
50988059 GCTCTCTGATTATTAGCACGTTAGT
1 GCTCTTTGATTATTAGCACATCAGT
* *
50988084 GCTCTTCG---ATTAGCACATCTGT
1 GCTCTTTGATTATTAGCACATCAGT
50988106 GCTCT
1 GCTCT
50988111 CTGTATAACA
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
22 16 0.36
25 28 0.64
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.39
Consensus pattern (25 bp):
GCTCTTTGATTATTAGCACATCAGT
Found at i:50988143 original size:47 final size:46
Alignment explanation
Indices: 50988045--50988132 Score: 126
Period size: 47 Copynumber: 1.9 Consensus size: 46
50988035 CTCTTTGATT
*
50988045 ATTAGCACATCAGTGCTCTCTGATTATTAGCACGTTAGTGCTCTTCG
1 ATTAGCACATCAGTGCTCTCTGA-TATTAACACGTTAGTGCTCTTCG
* *
50988092 ATTAGCACATCTGTGCTCTCTG-TA-TAACACTTTAGTGCTCT
1 ATTAGCACATCAGTGCTCTCTGATATTAACACGTTAGTGCTCT
50988133 CTGTTCATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
44 15 0.39
45 2 0.05
47 21 0.55
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.38
Consensus pattern (46 bp):
ATTAGCACATCAGTGCTCTCTGATATTAACACGTTAGTGCTCTTCG
Found at i:50990867 original size:25 final size:24
Alignment explanation
Indices: 50990825--50990872 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
50990815 CTGATTAATT
50990825 GCTCTTCGGAGCTACCCGTTATAG
1 GCTCTTCGGAGCTACCCGTTATAG
* *
50990849 GCTCTTTGTGAGCTTCCCGTTATA
1 GCTCTTCG-GAGCTACCCGTTATA
50990873 TTACCTGGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.15, C:0.27, G:0.23, T:0.35
Consensus pattern (24 bp):
GCTCTTCGGAGCTACCCGTTATAG
Found at i:51001817 original size:27 final size:27
Alignment explanation
Indices: 51001779--51001833 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
51001769 ATGAAGTGAC
51001779 TGTTTAAAACGTTCAGAGACATTACAT
1 TGTTTAAAACGTTCAGAGACATTACAT
51001806 TGTTTAAAACGTTCAGAGACATTACAT
1 TGTTTAAAACGTTCAGAGACATTACAT
51001833 T
1 T
51001834 AACAAATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.35
Consensus pattern (27 bp):
TGTTTAAAACGTTCAGAGACATTACAT
Found at i:51006615 original size:33 final size:35
Alignment explanation
Indices: 51006552--51006626 Score: 109
Period size: 34 Copynumber: 2.2 Consensus size: 35
51006542 TATAATGGGA
*
51006552 TTTACATTTTTAAAAGTAAATTTTAAATAAATA-T
1 TTTATATTTTTAAAAGTAAATTTTAAATAAATATT
* *
51006586 TTTATATTTTTATAATTAAA-TTTAAATAAATATT
1 TTTATATTTTTAAAAGTAAATTTTAAATAAATATT
51006620 TTTATAT
1 TTTATAT
51006627 ATTACAAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
33 12 0.32
34 25 0.68
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (35 bp):
TTTATATTTTTAAAAGTAAATTTTAAATAAATATT
Found at i:51007047 original size:16 final size:17
Alignment explanation
Indices: 51007014--51007048 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
51007004 CGATTTTTTG
*
51007014 TATTTTTTAATATTAAA
1 TATTTTTTAATATCAAA
51007031 TATTTTTTAA-ATCAAA
1 TATTTTTTAATATCAAA
51007047 TA
1 TA
51007049 ACATTAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (17 bp):
TATTTTTTAATATCAAA
Found at i:51022362 original size:3 final size:3
Alignment explanation
Indices: 51022348--51022397 Score: 59
Period size: 3 Copynumber: 17.3 Consensus size: 3
51022338 AAATGACATT
* * *
51022348 TTA TTA TT- TTA TTA TTA TTG TTA TTA TTA ATA TTA TTG TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
51022394 TTA T
1 TTA T
51022398 GGAATAAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 4 0.10
3 35 0.90
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:51022383 original size:18 final size:18
Alignment explanation
Indices: 51022351--51022392 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
51022341 TGACATTTTA
*
51022351 TTATT-TTATTATTATTG
1 TTATTATTAATATTATTG
51022368 TTATTATTAATATTATTG
1 TTATTATTAATATTATTG
51022386 TTATTAT
1 TTATTAT
51022393 ATTATGGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (18 bp):
TTATTATTAATATTATTG
Found at i:51031962 original size:17 final size:17
Alignment explanation
Indices: 51031929--51031979 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
51031919 TATGGGAAGT
*
51031929 AATCTTTAGAGGATTTGC
1 AATC-TTAGAAGATTTGC
* *
51031947 AATCTTGGAAGATTTGT
1 AATCTTAGAAGATTTGC
*
51031964 AATCTTAGAAAATTTG
1 AATCTTAGAAGATTTG
51031980 ATTCTGTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
17 24 0.86
18 4 0.14
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (17 bp):
AATCTTAGAAGATTTGC
Found at i:51036532 original size:45 final size:45
Alignment explanation
Indices: 51036462--51036656 Score: 291
Period size: 45 Copynumber: 4.3 Consensus size: 45
51036452 ATATTCCGAC
*
51036462 TACTGTTACTGTTACCGATTCGGCACTTTATGTGTCGAATACTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATACTGT
* * *
51036507 TACTCTTACTGTTACCGATTTGGCACTTTGTGTGTCGAATATTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATACTGT
* *
51036552 TACTGTTACTGTTACCAATTCGGCACTTTGTGTGTCGAATACTAT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATACTGT
* * * *
51036597 TACCGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAATACTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATACTGT
*
51036642 TACTGTTATTGTTAC
1 TACTGTTACTGTTAC
51036657 TGCTACCGTT
Statistics
Matches: 133, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 133 1.00
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.42
Consensus pattern (45 bp):
TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATACTGT
Found at i:51036647 original size:6 final size:6
Alignment explanation
Indices: 51036636--51036679 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
51036626 GTGTGTTGAA
* * *
51036636 TACTGT TACTGT TATTGT TACTGC TACCGT TACTGAT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTGT T
51036680 TAGGTACTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (6 bp):
TACTGT
Found at i:51056471 original size:2 final size:2
Alignment explanation
Indices: 51056464--51056507 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
51056454 ATTTTAGGTC
51056464 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
51056506 AT
1 AT
51056508 GTTATTTTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:51060725 original size:21 final size:21
Alignment explanation
Indices: 51060696--51060802 Score: 83
Period size: 21 Copynumber: 5.1 Consensus size: 21
51060686 AATTAACTCA
51060696 TATGAGTTTCAGTTTAACCCT
1 TATGAGTTTCAGTTTAACCCT
* * * *
51060717 TAT-AGGTTTCAATTCAGCACT
1 TATGA-GTTTCAGTTTAACCCT
* *
51060738 TTTGAGCTTCAGTTTAACCCT
1 TATGAGTTTCAGTTTAACCCT
* * *
51060759 TATGGGTTTCTG-TTAAGCTCT
1 TATGAGTTTCAGTTTAA-CCCT
* *
51060780 TATGAGCTTCTGTTTAACCCT
1 TATGAGTTTCAGTTTAACCCT
51060801 TA
1 TA
51060803 CGGGTTCCCG
Statistics
Matches: 64, Mismatches: 18, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
20 5 0.08
21 54 0.84
22 5 0.08
ACGTcount: A:0.21, C:0.20, G:0.16, T:0.43
Consensus pattern (21 bp):
TATGAGTTTCAGTTTAACCCT
Found at i:51060808 original size:42 final size:42
Alignment explanation
Indices: 51060683--51060808 Score: 155
Period size: 42 Copynumber: 3.0 Consensus size: 42
51060673 TCTCGTGAGC
* * *
51060683 TTCAATTAA-CTCATATGAGTTTCAGTTTAACCCTTATAGGT
1 TTCAATTAAGCTCTTATGAGCTTCAGTTTAACCCTTATGGGT
* * *
51060724 TTCAATTCAGCACTTTTGAGCTTCAGTTTAACCCTTATGGGT
1 TTCAATTAAGCTCTTATGAGCTTCAGTTTAACCCTTATGGGT
** * *
51060766 TTCTGTTAAGCTCTTATGAGCTTCTGTTTAACCCTTACGGGT
1 TTCAATTAAGCTCTTATGAGCTTCAGTTTAACCCTTATGGGT
51060808 T
1 T
51060809 CCCGTTTAGC
Statistics
Matches: 71, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
41 8 0.11
42 63 0.89
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.42
Consensus pattern (42 bp):
TTCAATTAAGCTCTTATGAGCTTCAGTTTAACCCTTATGGGT
Found at i:51060824 original size:42 final size:42
Alignment explanation
Indices: 51060696--51060830 Score: 153
Period size: 42 Copynumber: 3.2 Consensus size: 42
51060686 AATTAACTCA
* * * *
51060696 TATGAGTTTCAGTTTAACCCTTATAGGTTTCAATTCAGCACT
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTCAGTTAAGCACT
* * *
51060738 TTTGAGCTTCAGTTTAACCCTTATGGGTTTCTGTTAAGCTCT
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTCAGTTAAGCACT
* * * * *
51060780 TATGAGCTTCTGTTTAACCCTTACGGGTTCCCGTTTAGCACT
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTCAGTTAAGCACT
*
51060822 TATGTGCTT
1 TATGAGCTT
51060831 TTGTGCAGCT
Statistics
Matches: 78, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 78 1.00
ACGTcount: A:0.19, C:0.21, G:0.18, T:0.42
Consensus pattern (42 bp):
TATGAGCTTCAGTTTAACCCTTATGGGTTTCAGTTAAGCACT
Found at i:51062505 original size:21 final size:22
Alignment explanation
Indices: 51062473--51062513 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
51062463 TTAGTGGTAA
51062473 ATGTGATGCATTTAGGATATTG
1 ATGTGATGCATTTAGGATATTG
*
51062495 ATGTGAT-CATTTATGATAT
1 ATGTGATGCATTTAGGATAT
51062514 CCAACAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.29, C:0.05, G:0.22, T:0.44
Consensus pattern (22 bp):
ATGTGATGCATTTAGGATATTG
Found at i:51063361 original size:17 final size:16
Alignment explanation
Indices: 51063330--51063360 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
51063320 TGATATACGA
51063330 AAAAACGAAAAAAAAG
1 AAAAACGAAAAAAAAG
51063346 AAAAACGAAAAAAAA
1 AAAAACGAAAAAAAA
51063361 ATTTGGGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.84, C:0.06, G:0.10, T:0.00
Consensus pattern (16 bp):
AAAAACGAAAAAAAAG
Found at i:51063564 original size:107 final size:104
Alignment explanation
Indices: 51063354--51063957 Score: 640
Period size: 99 Copynumber: 5.9 Consensus size: 104
51063344 AGAAAAACGA
* *
51063354 AAAAAAAATTTGGGTGTTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAAATTCTTT
1 AAAAAAAATTT-GGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTTAAAAAAAATTC-TT
*
51063419 TTTTATTCGTGTCAGAATCAGATATAAATATACG--------
64 TTTT-TTCATGTCAGAATCAGATATAAATATACGAAAAAAAT
*
51063453 -AAAAAAA-TTGGTGCTGTCCTGTCAATGGCCGGCACCCAGTACAAATTTAAAAAAAATTCTTTT
1 AAAAAAAATTTGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTTAAAAAAAATTCTTTT
*
51063516 TTTTCATGTCAAAATCAGATATAAATATACGAAAAAAATT
66 TTTTCATGTCAGAATCAGATATAAATATACGAAAAAAA-T
*
51063556 AAAAAAAAAATTTGGTGGTGGCCTGTCAATGGCCGGCACCCAGTACAAA--TAAAAAAAA-TCTT
1 --AAAAAAAATTTGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTTAAAAAAAATTCTT
* *
51063618 CTTTTTTCATGTCAGAATCATATATAAATTTACG------A-
64 -TTTTTTCATGTCAGAATCAGATATAAATATACGAAAAAAAT
* ** *
51063653 AAAAAAATTTTGGTGCTGGCCTGTCAATGG-CGGACACTTACTACAAAATTTAAATAAAAATTCT
1 AAAAAAAATTTGGTGCTGGCCTGTCAATGGCCGG-CACCCAGTAC-AAATTTAAA-AAAAATTCT
*
51063717 TTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAAAAAT
63 TTTTTTTCATGTCAGAATCAGATATAAATATACGAAAAAAAT
* * * *
51063759 AAAAAAAATTTTGGGTGTTGCCCTGTCAATGGCCAGCACCCAGTACGAATTTTTAAAAAAAA---
1 AAAAAAAA-TTT-GGTGCTGGCCTGTCAATGGCCGGCACCCAGTAC-AA-ATTTAAAAAAAATTC
*
51063821 ----TTAT--TGTCAGAATCAGATATAAATATACGAAAAAAAT
62 TTTTTTTTCATGTCAGAATCAGATATAAATATACGAAAAAAAT
**
51063858 AAAAAAAATTTGGGTGCTGGCCTGTCAATGGTTGGCACCCAGTACAAATTTTTAAAAAAAATTCT
1 AAAAAAAATTT-GGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAA--TTTAAAAAAAATTCT
* *
51063923 TTTTTTT-GTGTCAGAATCAGATACAAATATACGAA
63 TTTTTTTCATGTCAGAATCAGATATAAATATACGAA
51063958 GTCATATATT
Statistics
Matches: 428, Mismatches: 36, Indels: 75
0.79 0.07 0.14
Matches are distributed among these distances:
94 30 0.07
95 41 0.10
96 50 0.12
97 4 0.01
98 54 0.13
99 77 0.18
100 4 0.01
101 3 0.01
104 4 0.01
105 43 0.10
106 40 0.09
107 39 0.09
108 31 0.07
109 8 0.02
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (104 bp):
AAAAAAAATTTGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTTAAAAAAAATTCTTTT
TTTTCATGTCAGAATCAGATATAAATATACGAAAAAAAT
Found at i:51063580 original size:203 final size:199
Alignment explanation
Indices: 51063353--51063957 Score: 725
Period size: 203 Copynumber: 3.0 Consensus size: 199
51063343 AAGAAAAACG
51063353 AAAAAAAAATTTGGGTGTTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAAATTCTT
1 AAAAAAAAATTTGGGTGTTGGCCTGTCAATGGCCGGCACCCAGTACAAATT-AAAAAAAA-TC-T
*
51063418 TTTTTATTCGTGTCAGAATCAGATATAAATATACG-AAAAAAA-TTGGTGCTGTCCTGTCAATGG
63 TTTTTATTC-TGTCAGAATCAGATATAAATATACGAAAAAAAATTTGGTGCTGGCCTGTCAATGG
* *
51063481 CCGGCACCCAGTACAAATTTAAAAAAAATTCTTTTTTTTCATGTCAAAATCAGATATAAATATAC
127 -CGGCACCCAGTACAAATTTAAAAAAAATTCTTTTTTTTCGTGTCAGAATCAGATATAAATATAC
51063546 GAAAAAAATT
191 GAAAAAAA-T
*
51063556 AAAAAAAAAATTT-GGTGGTGGCCTGTCAATGGCCGGCACCCAGTACAAA-TAAAAAAAATCTTC
1 -AAAAAAAAATTTGGGTGTTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAATCTT-
* *
51063619 TTTT-TTCATGTCAGAATCATATATAAATTTACGAAAAAAAATTTTGGTGCTGGCCTGTCAATGG
64 TTTTATTC-TGTCAGAATCAGATATAAATATACGAAAAAAAA-TTTGGTGCTGGCCTGTCAATGG
** *
51063683 CGGACACTTACTACAAAATTTAAATAAAAATTCTTTTTTTTCGTGTCAGAATCAGATATAAATAT
127 CGG-CACCCAGTAC-AAATTTAAA-AAAAATTCTTTTTTTTCGTGTCAGAATCAGATATAAATAT
51063748 ACGAAAAAAAT
189 ACGAAAAAAAT
* * * *
51063759 AAAAAAAATTTTGGGTGTTGCCCTGTCAATGGCCAGCACCCAGTACGAATTTTTAAAAAAAA---
1 AAAAAAAAATTTGGGTGTTGGCCTGTCAATGGCCGGCACCCAGTAC-AA--ATTAAAAAAAATCT
51063821 ---TTA-T-TGTCAGAATCAGATATAAATATACGAAAAAAATAAAAAAAATTTGGGTGCTGGCCT
63 TTTTTATTCTGTCAGAATCAGATATAAATATACG--------AAAAAAAATTT-GGTGCTGGCCT
*
51063881 GTCAATGGTTGGCACCCAGTACAAATTTTTAAAAAAAATTCTTTTTTTT-GTGTCAGAATCAGAT
119 GTCAATGG-CGGCACCCAGTACAAA--TTTAAAAAAAATTCTTTTTTTTCGTGTCAGAATCAGAT
*
51063945 ACAAATATACGAA
181 ATAAATATACGAA
51063958 GTCATATATT
Statistics
Matches: 354, Mismatches: 22, Indels: 49
0.83 0.05 0.12
Matches are distributed among these distances:
198 23 0.06
199 28 0.08
200 16 0.05
201 11 0.03
202 39 0.11
203 75 0.21
204 62 0.18
205 33 0.09
206 50 0.14
207 17 0.05
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (199 bp):
AAAAAAAAATTTGGGTGTTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAATCTTTT
TTATTCTGTCAGAATCAGATATAAATATACGAAAAAAAATTTGGTGCTGGCCTGTCAATGGCGGC
ACCCAGTACAAATTTAAAAAAAATTCTTTTTTTTCGTGTCAGAATCAGATATAAATATACGAAAA
AAAT
Found at i:51063908 original size:98 final size:99
Alignment explanation
Indices: 51063726--51063920 Score: 329
Period size: 98 Copynumber: 2.0 Consensus size: 99
51063716 TTTTTTTTCG
*
51063726 TGTCAGAATCAGATATAAATATACGAAAAAAATAAAAAAAATTTTGGGTGTTGCCCTGTCAATGG
1 TGTCAGAATCAGATATAAATATACGAAAAAAATAAAAAAAATTTTGGGTGCTGCCCTGTCAATGG
*
51063791 CCAGCACCCAGTACGAATTTTTAAAAAAAATTAT
66 CCAGCACCCAGTACAAATTTTTAAAAAAAATTAT
*
51063825 TGTCAGAATCAGATATAAATATACGAAAAAAATAAAAAAAA-TTTGGGTGCTGGCCTGTCAATGG
1 TGTCAGAATCAGATATAAATATACGAAAAAAATAAAAAAAATTTTGGGTGCTGCCCTGTCAATGG
***
51063889 TTGGCACCCAGTACAAATTTTTAAAAAAAATT
66 CCAGCACCCAGTACAAATTTTTAAAAAAAATT
51063921 CTTTTTTTTG
Statistics
Matches: 90, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
98 49 0.54
99 41 0.46
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.27
Consensus pattern (99 bp):
TGTCAGAATCAGATATAAATATACGAAAAAAATAAAAAAAATTTTGGGTGCTGCCCTGTCAATGG
CCAGCACCCAGTACAAATTTTTAAAAAAAATTAT
Found at i:51068867 original size:103 final size:98
Alignment explanation
Indices: 51068645--51069655 Score: 353
Period size: 112 Copynumber: 9.5 Consensus size: 98
51068635 ATATATATGA
* * *
51068645 TTGTACTGGGTGTCGGCCATTGACAGGCTAGCACCCAAAATTTTTTTTCATTTTTTTCGTATATT
1 TTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCAAAAATTTTTTTTCATTTTTTTCGTATATT
* * * *
51068710 TATATTTGATTCTGACACAATTTTTTTTTTAAAT
66 TATATCTAATTCTGAAACAA-TTTTTTTTAAAAT
* *
51068744 TTGTACTGGGTGCCGACCATTGACAGGCCAGCACCAAAATTTATTTATTTATTTATTTTTTTCGT
1 TTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCAAAA---ATTT-TTT-TTCATTTTTTTCGT
51068809 ATATTTATATCTAATTCTGAAACGAA-TTTTTTTAAAAT
61 ATATTTATATCTAATTCTGAAAC-AATTTTTTTTAAAAT
* *
51068847 TTGTACTGGGTGCCGGCCATTGACAGGTCAGCACCCAAAAAAGTTTTTTTTAAAAATTTTTGTTC
1 TTGTACTGGGTGCCGGCCATTGACAGGCCAGCA-CC-AAAAA-TTTTTTTT---CATTTTT-TTC
* * * * * *
51068912 GTATATTTATGTTTGATCCTGACACGAAAAAAAAAGAAAAACATTTTTTTAAAAT
59 GTATATTTATATCTAAT--T--C-TG--------A-AACAA-TTTTTTTTAAAAT
* ***** *
51068967 TTGTACTGGGTGCCGGCC--T--------A-TATTTTTAA-TTTTTTTCGTATATTTATATC-TG
1 TTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCAAAAATTTTTTTTC--AT-TTT-TTTCGT-
* * * *** *
51069019 AT-TCTGACA-CGAA--AAAAAAGAATTTTTTTT-AAAT
61 ATAT-TTATATCTAATTCTGAAACAATTTTTTTTAAAAT
* *
51069053 TTGTACTGGGTGCCGGCCATTGACAGGCTAGCACCCAAAAATTATATTTTTTAATTTTTTTCGTA
1 TTGTACTGGGTGCCGGCCATTGACAGGCCAGCA-CCAAAAA-T-T-TTTTTTCATTTTTTTCGTA
* *
51069118 TATTTATATCTGATTCTGACACTAAAAAAACAGAATTTTTTTAAAAT
62 TATTTATATCTAATTCTG---------AAACA-ATTTTTTTTAAAAT
* *
51069165 TTGTATTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATAATTTTTTTT-AATTTTTTCGTAT
1 TTGTACTGGGTGCCGGCCATTGACAGGCCAGCA-CC-AAA-AATTTTTTTTCATTTTTTTCGTAT
* *
51069229 ATTTATATCTAATTCTGACATGAAAAAAAAGAAATTTTTATT-AAAT
63 ATTTATATCTAA-T-T--C-TG-----AAA-CAATTTTTTTTAAAAT
* * * *
51069275 TTGTACTGGGTGCCGGCCATTGGCAGACCAGCATCCAAAATAAATTTGTTT-ATTTTTTTCGTAT
1 TTGTACTGGGTGCCGGCCATTGACAGGCCAGCA-CC-AAA-AATTTTTTTTCATTTTTTTCGTAT
* * *
51069339 ATTTATATCTGATTCTGACACGAAAAAAAAGAATTTTTTTAAAAT
63 ATTTATATCTAATTCT-----G---AAACA-ATTTTTTTTAAAAT
* * *
51069384 TTGTACTGGGTGCCGGCTATTGATAGGCTAGCACCCAAAATATTTTTTTT-A-TTTTTTCGTATA
1 TTGTACTGGGTGCCGGCCATTGACAGGCCAGCA-CCAAAA-ATTTTTTTTCATTTTTTTCGTATA
* * * *
51069447 TTTATCTCTGATTCTGACACGAAAAAAAAAGAAATTTTTTTTCTAGAAT
64 TTTATATCTAATTCT-----G------AAA-CAA-TTTTTTT-TAAAAT
* *
51069496 TTGTACTGGGTGCCGGCCATTGACATGCCAACACCCAATATAAATTTTTTTTC-TTTTTTTCGTA
1 TTGTACTGGGTGCCGGCCATTGACAGGCCAGCA-CC-A-A-AAATTTTTTTTCATTTTTTTCGTA
* * * *
51069560 TATTTATATATGATTCTGACACGAAAAAAAAGGAATTTTTTTAAAAAT
62 TATTTATATCTAATTCT-----G-----AAA-CAATTTTTTTTAAAAT
*
51069608 TTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTT
1 TTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCAAAAATTTTTTTT
51069656 TCGTTTTTAT
Statistics
Matches: 723, Mismatches: 95, Indels: 179
0.73 0.10 0.18
Matches are distributed among these distances:
86 22 0.03
87 7 0.01
88 5 0.01
89 1 0.00
96 1 0.00
97 1 0.00
98 10 0.01
99 42 0.06
100 2 0.00
101 3 0.00
102 14 0.02
103 48 0.07
104 46 0.06
105 40 0.06
106 2 0.00
107 38 0.05
108 36 0.05
109 38 0.05
110 109 0.15
111 39 0.05
112 112 0.15
113 12 0.02
114 24 0.03
115 35 0.05
118 4 0.01
119 2 0.00
120 30 0.04
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (98 bp):
TTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCAAAAATTTTTTTTCATTTTTTTCGTATATT
TATATCTAATTCTGAAACAATTTTTTTTAAAAT
Found at i:51069063 original size:86 final size:90
Alignment explanation
Indices: 51068901--51069070 Score: 249
Period size: 86 Copynumber: 1.9 Consensus size: 90
51068891 TTTTTTTAAA
* *
51068901 AATTTTTGTTCGTATATTTATGTTTGATCCTGACACGAAAAAAAAAGAAAAACATTTTTTTAAAA
1 AATTTTTGTTCGTATATTTATATCTGATCCTGACACGAAAAAAAAAG---AACATTTTTTTAAAA
51068966 TTTGTACTGGGTGCCGGCCTATATTTTT
63 TTTGTACTGGGTGCCGGCCTATATTTTT
* *
51068994 AATTTTT-TTCGTATATTTATATCTGATTCTGACACG-AAAAAAAAG-A-ATTTTTTTTAAATTT
1 AATTTTTGTTCGTATATTTATATCTGATCCTGACACGAAAAAAAAAGAACATTTTTTTAAAATTT
51069055 GTACTGGGTGCCGGCC
66 GTACTGGGTGCCGGCC
51069071 ATTGACAGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
86 30 0.41
87 1 0.01
91 9 0.12
92 26 0.36
93 7 0.10
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.41
Consensus pattern (90 bp):
AATTTTTGTTCGTATATTTATATCTGATCCTGACACGAAAAAAAAAGAACATTTTTTTAAAATTT
GTACTGGGTGCCGGCCTATATTTTT
Found at i:51069198 original size:112 final size:109
Alignment explanation
Indices: 51068985--51069656 Score: 935
Period size: 110 Copynumber: 6.1 Consensus size: 109
51068975 GGTGCCGGCC
*
51068985 TATA-TTTTTAATTTTTTTCGTATATTTATATCTGATTCTGACACGAAAAAAAAGAATTTTTTTT
1 TATATTTTTTAATTTTTTTCGTATATTTATATCTGATTCTGACACGAAAAAAAAGAATTTTTTTA
*
51069049 AAATTTGTACTGGGTGCCGGCCATTGACAGGCTAGCACCCAAAAA
66 AAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC-AAAA
*
51069094 TTATATTTTTTAATTTTTTTCGTATATTTATATCTGATTCTGACACTAAAAAAACAGAATTTTTT
1 -TATATTTTTTAATTTTTTTCGTATATTTATATCTGATTCTGACACGAAAAAAA-AGAATTTTTT
*
51069159 TAAAATTTGTATTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA
64 TAAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA
* * *
51069205 TAATTTTTTTTAA-TTTTTTCGTATATTTATATCTAATTCTGACATGAAAAAAAAGAAATTTTTA
1 T-ATATTTTTTAATTTTTTTCGTATATTTATATCTGATTCTGACACGAAAAAAAAG-AATTTTT-
* * *
51069269 TT-AAATTTGTACTGGGTGCCGGCCATTGGCAGACCAGCATCCAAAA
63 TTAAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA
*
51069315 TAAATTTGTTT-ATTTTTTTCGTATATTTATATCTGATTCTGACACGAAAAAAAAGAATTTTTTT
1 TATATTT-TTTAATTTTTTTCGTATATTTATATCTGATTCTGACACGAAAAAAAAGAATTTTTTT
* * *
51069379 AAAATTTGTACTGGGTGCCGGCTATTGATAGGCTAGCACCCAAAA
65 AAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA
* *
51069424 TAT-TTTTTTTA-TTTTTTCGTATATTTATCTCTGATTCTGACACGAAAAAAAAAGAAATTTTTT
1 TATATTTTTTAATTTTTTTCGTATATTTATATCTGATTCTGACACG-AAAAAAAAG-AA--TTTT
* * * *
51069487 TTCTAGAATTTGTACTGGGTGCCGGCCATTGACATGCCAACACCCAATA
62 TT-TAAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA
* ** *
51069536 TAAATTTTTTTTCTTTTTTTCGTATATTTATATATGATTCTGACACGAAAAAAAAGGAATTTTTT
1 TATA-TTTTTTAATTTTTTTCGTATATTTATATCTGATTCTGACACGAAAAAAAA-GAATTTTTT
51069601 TAAAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA
64 T-AAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA
*
51069648 T-TTTTTTTT
1 TATATTTTTT
51069657 CGTTTTTATT
Statistics
Matches: 502, Mismatches: 41, Indels: 38
0.86 0.07 0.07
Matches are distributed among these distances:
107 35 0.07
108 15 0.03
109 56 0.11
110 139 0.28
111 70 0.14
112 138 0.27
114 17 0.03
115 32 0.06
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (109 bp):
TATATTTTTTAATTTTTTTCGTATATTTATATCTGATTCTGACACGAAAAAAAAGAATTTTTTTA
AAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA
Found at i:51069421 original size:331 final size:331
Alignment explanation
Indices: 51068995--51069648 Score: 1021
Period size: 331 Copynumber: 2.0 Consensus size: 331
51068985 TATATTTTTA
*
51068995 ATTTTTTTCGTATATTTATATCTGATTCTGACACGAAAAAAAAGAATTTTTTTTAAATTTGTACT
1 ATTTTTTTCGTATATTTATATCTGATTCTGACACGAAAAAAAAGAATTTTTTTAAAATTTGTACT
51069060 GGGTGCCGGCCATTGACAGGCTAGCACCCAAAAATTATATTTTTTAATTTTTTTCGTATATTTAT
66 GGGTGCCGGCCATTGACAGGCTAGCACCC-AAAA-TAT-TTTTTTAA-TTTTTTCGTATATTTAT
* * *
51069125 ATCTGATTCTGACACTAAAAAAACAG-AA-TTTTTT-TAAAATTTGTATTGGGTGCCGGCCATTG
127 ATCTGATTCTGACACGAAAAAAAAAGAAATTTTTTTCTAAAATTTGTACTGGGTGCCGGCCATTG
* * *
51069187 ACAGGCCAGCACCCAAAAT-AATTTTTTTTAATTTTTTCGTATATTTATATCTAATTCTGACATG
192 ACAGGCCAACACCCAAAATAAATTTTTTTTAATTTTTTCGTATATTTATATATAATTCTGACACG
* *
51069251 AAAAAAAAGAAATTTTTATT-AAATTTGTACTGGGTGCCGGCCATTGGCAGACCAGCATCCAAAA
257 AAAAAAAAGAAATTTTT-TTAAAATTTGTACTGGGTGCCGGCCATTGACAGACCAGCACCCAAAA
51069315 TAAATTTGTTT
321 TAAATTTGTTT
51069326 ATTTTTTTCGTATATTTATATCTGATTCTGACACGAAAAAAAAGAATTTTTTTAAAATTTGTACT
1 ATTTTTTTCGTATATTTATATCTGATTCTGACACGAAAAAAAAGAATTTTTTTAAAATTTGTACT
* * * *
51069391 GGGTGCCGGCTATTGATAGGCTAGCACCCAAAATATTTTTTTTATTTTTTCGTATATTTATCTCT
66 GGGTGCCGGCCATTGACAGGCTAGCACCCAAAATATTTTTTTAATTTTTTCGTATATTTATATCT
*
51069456 GATTCTGACACGAAAAAAAAAGAAATTTTTTTTCTAGAATTTGTACTGGGTGCCGGCCATTGACA
131 GATTCTGACACGAAAAAAAAAGAAA-TTTTTTTCTAAAATTTGTACTGGGTGCCGGCCATTGACA
* * ** *
51069521 TGCCAACACCCAATATAAATTTTTTTTCTTTTTTTCGTATATTTATATATGATTCTGACACGAAA
195 GGCCAACACCCAAAATAAATTTTTTTTAATTTTTTCGTATATTTATATATAATTCTGACACGAAA
* *
51069586 AAAAAGGAATTTTTTTAAAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAT
260 AAAAAGAAATTTTTTT-AAAATTTGTACTGGGTGCCGGCCATTGACAGACCAGCACCCAAAAT
51069649 TTTTTTTTCG
Statistics
Matches: 295, Mismatches: 21, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
327 40 0.14
328 9 0.03
329 3 0.01
330 10 0.03
331 135 0.46
332 56 0.19
333 42 0.14
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.39
Consensus pattern (331 bp):
ATTTTTTTCGTATATTTATATCTGATTCTGACACGAAAAAAAAGAATTTTTTTAAAATTTGTACT
GGGTGCCGGCCATTGACAGGCTAGCACCCAAAATATTTTTTTAATTTTTTCGTATATTTATATCT
GATTCTGACACGAAAAAAAAAGAAATTTTTTTCTAAAATTTGTACTGGGTGCCGGCCATTGACAG
GCCAACACCCAAAATAAATTTTTTTTAATTTTTTCGTATATTTATATATAATTCTGACACGAAAA
AAAAGAAATTTTTTTAAAATTTGTACTGGGTGCCGGCCATTGACAGACCAGCACCCAAAATAAAT
TTGTTT
Found at i:51070618 original size:27 final size:30
Alignment explanation
Indices: 51070588--51070657 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 30
51070578 ATCTCTATAC
51070588 ACTTTTTATATTT-GGAATTT-AGTC-TCT
1 ACTTTTTATATTTAGGAATTTAAGTCTTCT
* *
51070615 AC-TTTTATTTTTAGGAATTTAATTCTTCT
1 ACTTTTTATATTTAGGAATTTAAGTCTTCT
*
51070644 ACTTTTTAAATTTA
1 ACTTTTTATATTTA
51070658 AAAATTTAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 9 0.26
27 9 0.26
28 3 0.09
29 5 0.14
30 9 0.26
ACGTcount: A:0.26, C:0.10, G:0.07, T:0.57
Consensus pattern (30 bp):
ACTTTTTATATTTAGGAATTTAAGTCTTCT
Found at i:51071454 original size:36 final size:37
Alignment explanation
Indices: 51071363--51071454 Score: 91
Period size: 36 Copynumber: 2.5 Consensus size: 37
51071353 ATATAGAGTT
* * *
51071363 AATAATATTTAA-ATAATTTAATATAATAATATTTGTA
1 AATAATATTTAATAT-ATTTAATATAACAATATATGAA
* * * *
51071400 AATACTATTAAATA-ATTTAATATAACGATGTAT-AA
1 AATAATATTTAATATATTTAATATAACAATATATGAA
51071435 AATAATATTTAATATATTTA
1 AATAATATTTAATATATTTA
51071455 TACACCTTTT
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
35 13 0.30
36 20 0.45
37 10 0.23
38 1 0.02
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.43
Consensus pattern (37 bp):
AATAATATTTAATATATTTAATATAACAATATATGAA
Found at i:51071758 original size:31 final size:32
Alignment explanation
Indices: 51071703--51071762 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
51071693 ACATAAACAA
51071703 AATATTTTAAAATTTTAAATATAATGATAAAC
1 AATATTTTAAAATTTTAAATATAATGATAAAC
51071735 AATATTTTAACAA-TTT-AATATAATGATA
1 AATATTTTAA-AATTTTAAATATAATGATA
51071763 TTTTAATCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
31 12 0.44
32 13 0.48
33 2 0.07
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (32 bp):
AATATTTTAAAATTTTAAATATAATGATAAAC
Found at i:51073295 original size:8 final size:8
Alignment explanation
Indices: 51073274--51073343 Score: 81
Period size: 8 Copynumber: 8.8 Consensus size: 8
51073264 CCGCCTTCTC
51073274 AAAAAGAA
1 AAAAAGAA
51073282 AAAAA-AA
1 AAAAAGAA
*
51073289 AAGAA-AA
1 AAAAAGAA
51073296 AAAAAGAA
1 AAAAAGAA
*
51073304 GAAAAGAA
1 AAAAAGAA
51073312 AAAAAGAA
1 AAAAAGAA
51073320 AAAAGAGAA
1 AAAA-AGAA
51073329 ATAAAAGAA
1 A-AAAAGAA
*
51073338 TAAAAG
1 AAAAAG
51073344 TGAATGAAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
7 12 0.22
8 30 0.56
9 9 0.17
10 3 0.06
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (8 bp):
AAAAAGAA
Found at i:51073296 original size:13 final size:13
Alignment explanation
Indices: 51073274--51073323 Score: 75
Period size: 13 Copynumber: 3.9 Consensus size: 13
51073264 CCGCCTTCTC
51073274 AAAAAG-AAAAAA
1 AAAAAGAAAAAAA
51073286 AAAAAGAAAAAAA
1 AAAAAGAAAAAAA
* *
51073299 AAGAAGAAAAGAA
1 AAAAAGAAAAAAA
51073312 AAAAAGAAAAAA
1 AAAAAGAAAAAA
51073324 GAGAAATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
12 6 0.18
13 27 0.82
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAAA
Found at i:51073334 original size:13 final size:11
Alignment explanation
Indices: 51073274--51073342 Score: 61
Period size: 11 Copynumber: 6.1 Consensus size: 11
51073264 CCGCCTTCTC
51073274 AAAAAGAAAAA
1 AAAAAGAAAAA
51073285 AAAAA-AGAAAA
1 AAAAAGA-AAAA
51073296 AAAAAGAAGAAA
1 AAAAAGAA-AAA
*
51073308 AGAAAA-AAAGA
1 A-AAAAGAAAAA
*
51073319 AAAAAGAGAAA
1 AAAAAGAAAAA
*
51073330 TAAAAGAATAAA
1 AAAAAGAA-AAA
51073342 A
1 A
51073343 GTGAATGAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
10 5 0.11
11 27 0.59
12 10 0.22
13 4 0.09
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:51073342 original size:26 final size:27
Alignment explanation
Indices: 51073288--51073343 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
51073278 AGAAAAAAAA
* *
51073288 AAAGAAAAAAAAAG-AAGAAAAGAAAA
1 AAAGAAAAAAAGAGAAAGAAAAGAATA
*
51073314 AAAG-AAAAAAGAGAAATAAAAGAATA
1 AAAGAAAAAAAGAGAAAGAAAAGAATA
51073340 AAAG
1 AAAG
51073344 TGAATGAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 8 0.31
26 18 0.69
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (27 bp):
AAAGAAAAAAAGAGAAAGAAAAGAATA
Found at i:51073353 original size:19 final size:18
Alignment explanation
Indices: 51073280--51073343 Score: 71
Period size: 17 Copynumber: 3.7 Consensus size: 18
51073270 TCTCAAAAAG
* *
51073280 AAAAAAAAAAAGA-AAAA
1 AAAAGAAAAAAGAGAAAT
*
51073297 AAAAGAAGAAA-AGAAA-
1 AAAAGAAAAAAGAGAAAT
51073313 AAAAGAAAAAAGAGAAAT
1 AAAAGAAAAAAGAGAAAT
51073331 AAAAGAATAAAAG
1 AAAAGAA-AAAAG
51073344 TGAATGAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
16 11 0.28
17 17 0.43
18 7 0.17
19 5 0.12
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (18 bp):
AAAAGAAAAAAGAGAAAT
Found at i:51077410 original size:301 final size:301
Alignment explanation
Indices: 51076863--51077763 Score: 1730
Period size: 301 Copynumber: 3.0 Consensus size: 301
51076853 TCTCTATATG
* *
51076863 TATCTATGTGTATATGAATGTATATATTCAGTTTGACGACATGATGGCCTAGCCCTTATGGTAAG
1 TATCCATGTGTATATGAATGTATATATTCAGTTTGACGACATGATGGCCTAGGCCTTATGGTAAG
*
51076928 TAGGATAATTAAAAGACTTGATCCTACCCTCTGGTGGGCGACACTGGTGCCTCACAATGTACATA
66 TAGGATAATTAAAAGACTTGATCCTACCCTCTGGTGGGCGACACTGGTGCCTGACAATGTACATA
* *
51076993 TTGTGGTTATTTATCATACTATTTATGAACATGTACAAGTTCATAAATAGTATGATAAATAATCA
131 CTGTGGTTATTTATCATACTATTTATGAACTTGTACAAGTTCATAAATAGTATGATAAATAATCA
51077058 AAGGGTAGGTGTTTCAAATTTGCAAAAGTTGCAAAATAGCATTTGGCTGTTTTTAATATCCTGAC
196 AAGGGTAGGTGTTTCAAATTTGCAAAAGTTGCAAAATAGCATTTGGCTGTTTTTAATATCCTGAC
51077123 TTATGCTTGGTTCCTGCTGATTTATTTGTCTGCTTCTTTCA
261 TTATGCTTGGTTCCTGCTGATTTATTTGTCTGCTTCTTTCA
51077164 TATCCATGTGTATATGAATGTATATATTCAGTTTGACGACATGATGGCCTAGGCCTTATGGTAAG
1 TATCCATGTGTATATGAATGTATATATTCAGTTTGACGACATGATGGCCTAGGCCTTATGGTAAG
51077229 TAGGATAATTAAAAGACTTGATCCTACCCTCTGGTGGGCGACACTGGTGCCTGACAATGTACATA
66 TAGGATAATTAAAAGACTTGATCCTACCCTCTGGTGGGCGACACTGGTGCCTGACAATGTACATA
51077294 CTGTGGTTATTTATCATACTATTTATGAACTTGTACAAGTTCATAAATAGTATGATAAATAATCA
131 CTGTGGTTATTTATCATACTATTTATGAACTTGTACAAGTTCATAAATAGTATGATAAATAATCA
*
51077359 AAGGGTAGGTGTTTCAAATTTTCAAAAGTTGCAAAATAGCATTTGGCTGTTTTTAATATCCTGAC
196 AAGGGTAGGTGTTTCAAATTTGCAAAAGTTGCAAAATAGCATTTGGCTGTTTTTAATATCCTGAC
51077424 TTATGCTTGGTTCCTGCTGATTTATTTGTCTGCTTCTTTCA
261 TTATGCTTGGTTCCTGCTGATTTATTTGTCTGCTTCTTTCA
51077465 TATCCATGTGTATATGAATGTATATATTCAGTTTGACGACATGATGGCCTAGGCCTTATGGTAAG
1 TATCCATGTGTATATGAATGTATATATTCAGTTTGACGACATGATGGCCTAGGCCTTATGGTAAG
*
51077530 TAGGATAATTAAAAGACTTGATCCTACTCTCTGGTGGGCGACACTGGTGCCTGACAATGTACATA
66 TAGGATAATTAAAAGACTTGATCCTACCCTCTGGTGGGCGACACTGGTGCCTGACAATGTACATA
51077595 CTGTGGTTATTTATCATACTATTTATGAACTTGTACAAGTTCATAAATAGTATGATAAATAATCA
131 CTGTGGTTATTTATCATACTATTTATGAACTTGTACAAGTTCATAAATAGTATGATAAATAATCA
*
51077660 AAGGGTAGGTGTTTCAAATTTGCAAAAGTTGCAAAATAGCATTTGGCTGTTTTTAATATCCCGAC
196 AAGGGTAGGTGTTTCAAATTTGCAAAAGTTGCAAAATAGCATTTGGCTGTTTTTAATATCCTGAC
51077725 TTATGCTTGGTTCCTGCTGATTTATTTGTCTGCTTCTTT
261 TTATGCTTGGTTCCTGCTGATTTATTTGTCTGCTTCTTT
51077764 GTCCTGCAAC
Statistics
Matches: 591, Mismatches: 9, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
301 591 1.00
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.37
Consensus pattern (301 bp):
TATCCATGTGTATATGAATGTATATATTCAGTTTGACGACATGATGGCCTAGGCCTTATGGTAAG
TAGGATAATTAAAAGACTTGATCCTACCCTCTGGTGGGCGACACTGGTGCCTGACAATGTACATA
CTGTGGTTATTTATCATACTATTTATGAACTTGTACAAGTTCATAAATAGTATGATAAATAATCA
AAGGGTAGGTGTTTCAAATTTGCAAAAGTTGCAAAATAGCATTTGGCTGTTTTTAATATCCTGAC
TTATGCTTGGTTCCTGCTGATTTATTTGTCTGCTTCTTTCA
Found at i:51090672 original size:6 final size:6
Alignment explanation
Indices: 51090661--51090689 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
51090651 GGGTGGTGTA
51090661 TATATG TATATG TATATG TATATG TATAT
1 TATATG TATATG TATATG TATATG TATAT
51090690 TTCTTCTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (6 bp):
TATATG
Found at i:51091045 original size:2 final size:2
Alignment explanation
Indices: 51091038--51091064 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
51091028 CAACTCAAAA
51091038 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
51091065 AATCCATTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:51114084 original size:12 final size:12
Alignment explanation
Indices: 51114067--51114100 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
51114057 TTAGAGCAAT
51114067 TGCAAGAACAGA
1 TGCAAGAACAGA
**
51114079 TGCAAGCCCAGA
1 TGCAAGAACAGA
51114091 TGCAAGAACA
1 TGCAAGAACA
51114101 ACTAGAAAAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.44, C:0.24, G:0.24, T:0.09
Consensus pattern (12 bp):
TGCAAGAACAGA
Found at i:51116765 original size:4 final size:4
Alignment explanation
Indices: 51116745--51116777 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
51116735 AAAAATATTT
51116745 AAAG AAA- AAAG -AAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
51116778 AAACATAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 6 0.22
4 21 0.78
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:51118375 original size:44 final size:44
Alignment explanation
Indices: 51118163--51118375 Score: 124
Period size: 44 Copynumber: 4.8 Consensus size: 44
51118153 AAACCACCAG
* * *
51118163 TCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAAA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTGTAAA
* * * * * * *
51118207 TCCTGTCTCTCTAAGCAATAGTGGAGCAGATCAAAAACGGTGAA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTGTAAA
* * ** * * ** ****
51118251 TCTTACCTTTCAAATGGTAGTAG-GGAAGCAGATTTAA-ACCACCAA
1 TCCTATCTCCCTAA--GCAGTAGTGG-AGCAGATCGAAGACTGTAAA
* * * ** *
51118296 TTCTATCTCACTAAGCAGTAGTGGAGTAGGGCGAAGATTGTAAA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTGTAAA
*
51118340 TCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG
51118376 GCAGCGAATC
Statistics
Matches: 118, Mismatches: 46, Indels: 10
0.68 0.26 0.06
Matches are distributed among these distances:
43 12 0.10
44 78 0.66
45 14 0.12
46 14 0.12
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.25
Consensus pattern (44 bp):
TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTGTAAA
Found at i:51118388 original size:133 final size:132
Alignment explanation
Indices: 51118021--51118375 Score: 523
Period size: 133 Copynumber: 2.7 Consensus size: 132
51118011 CAGATCGGTG
* * * * * *
51118021 AAACCACCAGTCCTATCTCCCTGAGCAGCAGTGGAATAGGTCAAAGATTTTAGATCCTGTCTCCC
1 AAACCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAAATCCTGTCTCCC
* * *
51118086 TAAGTAGTAGTGGAGCAAATCGAAGACGGTGAATCTTATATTCTCAATGTAGTAGGGAAGCAGAT
66 TAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTACATTCTCAATGTAGTAGGGAAGCAGAT
51118151 TT
131 TT
*
51118153 AAACCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAAATCCTGTCTCTC
1 AAACCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAAATCCTGTCTCCC
* * * *
51118218 TAAGCAATAGTGGAGCAGATCAAAAACGGTGAATCTTACCTT-TCAAATGGTAGTAGGGAAGCAG
66 TAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTACATTCTC-AAT-GTAGTAGGGAAGCAG
51118282 ATTT
129 ATTT
* * * *
51118286 AAACCACCAATTCTATCTCACTAAGCAGTAGTGGAGTAGGGCGAAGATTGTAAATCCTGTCTCCC
1 AAACCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAAATCCTGTCTCCC
51118351 TAAGCAGTAGTGGAGCAGATCGAAG
66 TAAGCAGTAGTGGAGCAGATCGAAG
51118376 GCAGCGAATC
Statistics
Matches: 199, Mismatches: 22, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
131 2 0.01
132 96 0.48
133 101 0.51
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (132 bp):
AAACCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAAATCCTGTCTCCC
TAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTACATTCTCAATGTAGTAGGGAAGCAGAT
TT
Found at i:51118444 original size:50 final size:50
Alignment explanation
Indices: 51118379--51119195 Score: 507
Period size: 50 Copynumber: 16.3 Consensus size: 50
51118369 ATCGAAGGCA
* * * * *
51118379 GCGAATCTTATTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTGCAACG
1 GCGAATCTTACTTCCCTGACGGTGCAATGGAAAAGATTGAAGCTACAACG
* ** * * *
51118429 GCGAATCTTACTTCCCCGACATTGCAAT-TAAAATATTGAAGCTACAACA
1 GCGAATCTTACTTCCCTGACGGTGCAATGGAAAAGATTGAAGCTACAACG
* * ** * *
51118478 GCGAATCTCACTTTCCCAGGTGGTGCAGTGGAACAGATTGAAGCTACAACG
1 GCGAATCTTAC-TTCCCTGACGGTGCAATGGAAAAGATTGAAGCTACAACG
* * ** * * *
51118529 GTGAATCTTGCTT-CCTCGACATTACAATTGAAAAGATTGAAGCTACAACA
1 GCGAATCTTACTTCCCT-GACGGTGCAATGGAAAAGATTGAAGCTACAACG
* * * * *
51118579 GCGAATCTTACTTCCCTAGATGGTGTAGTGGAATAGATTGAAGCTACAATG
1 GCGAATCTTACTTCCCT-GACGGTGCAATGGAAAAGATTGAAGCTACAACG
* * * ** * ** *
51118630 GTGAATCTTGCTTCCCCGACATTACAATTAAAAAGATTGAAGCCACAACG
1 GCGAATCTTACTTCCCTGACGGTGCAATGGAAAAGATTGAAGCTACAACG
* * * *
51118680 GCGAATCTTACTTCCCTGGCGCTGCAATGGAACAGATTAAAGCTACAACG
1 GCGAATCTTACTTCCCTGACGGTGCAATGGAAAAGATTGAAGCTACAACG
* ** ** *
51118730 GCGAATCTTGCTTCCGC-GACATTGCAATTAAAAAGATTGAAGCCACAACG
1 GCGAATCTTACTTCC-CTGACGGTGCAATGGAAAAGATTGAAGCTACAACG
* * * ** * * * *
51118780 GCAAATCATACTTCCCCAGGTGGTGCAGTGGAACAGATTGAATCTACAACA
1 GCGAATCTTACTT-CCCTGACGGTGCAATGGAAAAGATTGAAGCTACAACG
* * ** * * *
51118831 GCGAATCTTGCTTTCCC-AACATTGCAAT-TAAAAAATTGACGCTACAACG
1 GCGAATCTTAC-TTCCCTGACGGTGCAATGGAAAAGATTGAAGCTACAACG
* ** * *
51118880 GCGAATCTTACTTCCCTGGCGGTGCGGTGGAACAGATTGAAGCTACAACA
1 GCGAATCTTACTTCCCTGACGGTGCAATGGAAAAGATTGAAGCTACAACG
* * * ** * ** *
51118930 GTGAATCTTGCTTCCCCGACATTGAAATTAAAAAGATTGAAG-TCACAACA
1 GCGAATCTTACTTCCCTGACGGTGCAATGGAAAAGATTGAAGCT-ACAACG
* * *** *
51118980 GCGAATCTTACTTCCCTGGCGGTGCAGTGGAACTTATTGAAACTACAACG
1 GCGAATCTTACTTCCCTGACGGTGCAATGGAAAAGATTGAAGCTACAACG
* * * ** * ** *
51119030 GTGAATCTTGCTTCCCCGACATTACAATTAAAAAGATTGAAG-TCACAACA
1 GCGAATCTTACTTCCCTGACGGTGCAATGGAAAAGATTGAAGCT-ACAACG
* * * * *
51119080 GCGAATCTTACTTCCCT-AGCGGTGTAGTGGAACAGATTGAAGCTATAACA
1 GCGAATCTTACTTCCCTGA-CGGTGCAATGGAAAAGATTGAAGCTACAACG
* * ** * * ** * *
51119130 GCGAATCTTGCTTCCCCGACAATGTAGTTAAAAAGATTGAAGCCACAACA
1 GCGAATCTTACTTCCCTGACGGTGCAATGGAAAAGATTGAAGCTACAACG
* *
51119180 GTGAAGCTTACTTCCC
1 GCGAATCTTACTTCCC
51119196 CGACAAACAG
Statistics
Matches: 561, Mismatches: 190, Indels: 32
0.72 0.24 0.04
Matches are distributed among these distances:
48 5 0.01
49 61 0.11
50 389 0.69
51 104 0.19
52 2 0.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.25
Consensus pattern (50 bp):
GCGAATCTTACTTCCCTGACGGTGCAATGGAAAAGATTGAAGCTACAACG
Found at i:51118594 original size:100 final size:100
Alignment explanation
Indices: 51118377--51119195 Score: 1029
Period size: 100 Copynumber: 8.2 Consensus size: 100
51118367 AGATCGAAGG
* * * *
51118377 CAGCGAATCTTATTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTGCAACGGCGAATCTTACTT
1 CAGCGAATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTT
* *
51118442 CCCCGACATTGCAATT-AAAATATTGAAGCTACAA
66 CCCCGACATTACAATTAAAAAGATTGAAGCTACAA
* * *
51118476 CAGCGAATCTCACTTTCCCAGGTGGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGCT
1 CAGCGAATCTTAC-TTCCCAGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCT
* *
51118541 TCCTCGACATTACAATTGAAAAGATTGAAGCTACAA
65 TCCCCGACATTACAATTAAAAAGATTGAAGCTACAA
** * * * *
51118577 CAGCGAATCTTACTTCCCTAGATGGTGTAGTGGAATAGATTGAAGCTACAATGGTGAATCTTGCT
1 CAGCGAATCTTACTTCCC-AGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCT
*
51118642 TCCCCGACATTACAATTAAAAAGATTGAAGCCACAA
65 TCCCCGACATTACAATTAAAAAGATTGAAGCTACAA
* * * * *
51118678 CGGCGAATCTTACTTCCCTGGCGCTGCAATGGAACAGATTAAAGCTACAACGGCGAATCTTGCTT
1 CAGCGAATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTT
* * *
51118743 CCGCGACATTGCAATTAAAAAGATTGAAGCCACAA
66 CCCCGACATTACAATTAAAAAGATTGAAGCTACAA
* * * * * *
51118778 CGGCAAATCATACTTCCCCAGGTGGTGCAGTGGAACAGATTGAATCTACAACAGCGAATCTTGCT
1 CAGCGAATCTTACTT-CCCAGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCT
* * * *
51118843 TTCCCAACATTGCAATTAAAAA-ATTGACGCTACAA
65 TCCCCGACATTACAATTAAAAAGATTGAAGCTACAA
* * * * *
51118878 CGGCGAATCTTACTTCCCTGGCGGTGCGGTGGAACAGATTGAAGCTACAACAGTGAATCTTGCTT
1 CAGCGAATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTT
51118943 CCCCGACATTGA-AATTAAAAAGATTGAAG-TCACAA
66 CCCCGACATT-ACAATTAAAAAGATTGAAGCT-ACAA
* ** * *
51118978 CAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACTTATTGAAACTACAACGGTGAATCTTGCTT
1 CAGCGAATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTT
51119043 CCCCGACATTACAATTAAAAAGATTGAAG-TCACAA
66 CCCCGACATTACAATTAAAAAGATTGAAGCT-ACAA
* * *
51119078 CAGCGAATCTTACTTCCCTA-GCGGTGTAGTGGAACAGATTGAAGCTATAACAGCGAATCTTGCT
1 CAGCGAATCTTACTTCCC-AGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCT
* ** * *
51119142 TCCCCGACAATGTAGTTAAAAAGATTGAAGCCACAA
65 TCCCCGACATTACAATTAAAAAGATTGAAGCTACAA
* *
51119178 CAGTGAAGCTTACTTCCC
1 CAGCGAATCTTACTTCCC
51119196 CGACAAACAG
Statistics
Matches: 633, Mismatches: 77, Indels: 19
0.87 0.11 0.03
Matches are distributed among these distances:
99 75 0.12
100 376 0.59
101 182 0.29
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.25
Consensus pattern (100 bp):
CAGCGAATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTT
CCCCGACATTACAATTAAAAAGATTGAAGCTACAA
Found at i:51120041 original size:17 final size:18
Alignment explanation
Indices: 51120009--51120044 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
51119999 GGGAAATAAT
*
51120009 AAAAGAAAACGGTTCAAA
1 AAAAGAAAACGATTCAAA
51120027 AAAAGAAAA-GATTCAAA
1 AAAAGAAAACGATTCAAA
51120044 A
1 A
51120045 GTTGTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.67, C:0.08, G:0.14, T:0.11
Consensus pattern (18 bp):
AAAAGAAAACGATTCAAA
Found at i:51126289 original size:25 final size:24
Alignment explanation
Indices: 51126261--51126311 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
51126251 TATAATAGGA
*
51126261 AGCTCACAAAGAGCCTAT-AACGGGT
1 AGCTC-CAAAGAG-CAATCAACGGGT
*
51126286 AGCTCCGAAGAGCAATCAACGGGT
1 AGCTCCAAAGAGCAATCAACGGGT
51126310 AG
1 AG
51126312 GAAGAGCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 3 0.13
24 15 0.65
25 5 0.22
ACGTcount: A:0.35, C:0.24, G:0.27, T:0.14
Consensus pattern (24 bp):
AGCTCCAAAGAGCAATCAACGGGT
Found at i:51128623 original size:22 final size:23
Alignment explanation
Indices: 51128585--51128629 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
51128575 CCAACCTATT
51128585 TTTTAATAAATACAAAAAATTTA
1 TTTTAATAAATACAAAAAATTTA
51128608 TTTTAA-AAATTA-AAAAAATTTA
1 TTTTAATAAA-TACAAAAAATTTA
51128630 AAAAGTACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
TTTTAATAAATACAAAAAATTTA
Found at i:51128659 original size:27 final size:28
Alignment explanation
Indices: 51128606--51128671 Score: 91
Period size: 27 Copynumber: 2.4 Consensus size: 28
51128596 ACAAAAAATT
*
51128606 TATTTTAAAAATTAAAAAAATTTAAAAAG
1 TATTTT-AAAATTAAAAAAATTAAAAAAG
51128635 TACTTTTAAAATT-AAAAAA-TAAAAAAG
1 TA-TTTTAAAATTAAAAAAATTAAAAAAG
51128662 TATTTTAAAA
1 TATTTTAAAA
51128672 ATATTTTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
26 8 0.23
27 9 0.26
28 6 0.17
29 8 0.23
30 4 0.11
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.35
Consensus pattern (28 bp):
TATTTTAAAATTAAAAAAATTAAAAAAG
Found at i:51128672 original size:27 final size:29
Alignment explanation
Indices: 51128606--51128701 Score: 103
Period size: 28 Copynumber: 3.4 Consensus size: 29
51128596 ACAAAAAATT
*
51128606 TATTTTAAAAATTAAAAAAATTTAAAAAG
1 TATTTTAAAAATTAAAAAAATTAAAAAAG
51128635 TACTTTT-AAAATT-AAAAAA-TAAAAAAG
1 TA-TTTTAAAAATTAAAAAAATTAAAAAAG
***
51128662 TATTTTAAAAATATTTTAAAATTAAAAAA-
1 TATTTTAAAAAT-TAAAAAAATTAAAAAAG
51128691 -ATTTTAAAAAT
1 TATTTTAAAAAT
51128702 AAATATATTT
Statistics
Matches: 59, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
26 4 0.07
27 14 0.24
28 18 0.31
29 12 0.20
30 11 0.19
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.36
Consensus pattern (29 bp):
TATTTTAAAAATTAAAAAAATTAAAAAAG
Found at i:51128679 original size:37 final size:36
Alignment explanation
Indices: 51128610--51128690 Score: 112
Period size: 37 Copynumber: 2.2 Consensus size: 36
51128600 AAAATTTATT
*
51128610 TTAAAAATTAAAAAAATTTAAAAAGTACTTTTAAAA
1 TTAAAAAATAAAAAAATTTAAAAAGTACTTTTAAAA
51128646 TTAAAAAATAAAAAAGTATTTTAAAAA-TA-TTTTAAAA
1 TTAAAAAATAAAAAA--A-TTTAAAAAGTACTTTTAAAA
51128683 TTAAAAAA
1 TTAAAAAA
51128691 ATTTTAAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
36 14 0.34
37 16 0.39
38 3 0.07
39 8 0.20
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.33
Consensus pattern (36 bp):
TTAAAAAATAAAAAAATTTAAAAAGTACTTTTAAAA
Found at i:51128688 original size:17 final size:17
Alignment explanation
Indices: 51128666--51128711 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
51128656 AAAAAGTATT
51128666 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
*
51128683 TTAAAAAAATTTTAAAA
1 TTAAAAATATTTTAAAA
* *
51128700 ATAAATATATTT
1 TTAAAAATATTT
51128712 ATTATATCGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAAAAATATTTTAAAA
Found at i:51133712 original size:14 final size:14
Alignment explanation
Indices: 51133693--51133721 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
51133683 ATTCTGTGGG
51133693 AGCAAATATGAACA
1 AGCAAATATGAACA
51133707 AGCAAATATGAACA
1 AGCAAATATGAACA
51133721 A
1 A
51133722 ATTAAGTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.14, G:0.14, T:0.14
Consensus pattern (14 bp):
AGCAAATATGAACA
Found at i:51134833 original size:32 final size:32
Alignment explanation
Indices: 51134792--51134914 Score: 210
Period size: 32 Copynumber: 3.8 Consensus size: 32
51134782 ATACTTCAGT
*
51134792 TGACCAGTCTTACTAACAATGAAAATCCTAAA
1 TGACCAGTCTTACTAACAACGAAAATCCTAAA
*
51134824 TGACCAGTCTTACTAACAATGAAAATCCTAAA
1 TGACCAGTCTTACTAACAACGAAAATCCTAAA
*
51134856 TGACCAGTCTTACTAACAGCGAAAATCCTAAA
1 TGACCAGTCTTACTAACAACGAAAATCCTAAA
*
51134888 TGACCAGTCTTACTAACAGCGAAAATC
1 TGACCAGTCTTACTAACAACGAAAATC
51134915 TTTTGATAAA
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 89 1.00
ACGTcount: A:0.41, C:0.24, G:0.11, T:0.24
Consensus pattern (32 bp):
TGACCAGTCTTACTAACAACGAAAATCCTAAA
Found at i:51135192 original size:37 final size:37
Alignment explanation
Indices: 51135151--51135224 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
51135141 TATCCAATAA
51135151 CATGACCCAAAAATGAGATTGATCAGCTATGCAAAAT
1 CATGACCCAAAAATGAGATTGATCAGCTATGCAAAAT
*
51135188 CATGACCCAAGAATGAGATTGATCAGCTATGCAAAAT
1 CATGACCCAAAAATGAGATTGATCAGCTATGCAAAAT
51135225 GATAGCCATA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.22
Consensus pattern (37 bp):
CATGACCCAAAAATGAGATTGATCAGCTATGCAAAAT
Found at i:51143046 original size:45 final size:46
Alignment explanation
Indices: 51142981--51143164 Score: 307
Period size: 46 Copynumber: 4.0 Consensus size: 46
51142971 CATGGAAAAG
*
51142981 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACCGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
51143027 TGTG-AAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
* *
51143072 TATGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
* * *
51143118 TGTGAAAAGTAGGTATGGTATTTCCGTGAAGAAAGCCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
51143164 T
1 T
51143165 ATAGCAATGA
Statistics
Matches: 130, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
45 43 0.33
46 87 0.67
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
Found at i:51151412 original size:16 final size:16
Alignment explanation
Indices: 51151377--51151412 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
51151367 AATTAAGTTT
**
51151377 AAAAAAAGATAACAGC
1 AAAAAAAGATAACAAA
51151393 AAAAAAAGATAACAAA
1 AAAAAAAGATAACAAA
51151409 AAAA
1 AAAA
51151413 TATAAAGTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.78, C:0.08, G:0.08, T:0.06
Consensus pattern (16 bp):
AAAAAAAGATAACAAA
Found at i:51156529 original size:42 final size:42
Alignment explanation
Indices: 51156450--51156530 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
51156440 TGAATTTTCG
***
51156450 TTTAACCCTAATGGGTTTCCATTTAGCTATTTTGAGCTTCAA
1 TTTAACCCTAATGGGTTTCCATTTAGCTATCACGAGCTTCAA
* * *
51156492 TTTAACCCTTATGGGTTTCCGTTTAGCTCTCACGAGCTT
1 TTTAACCCTAATGGGTTTCCATTTAGCTATCACGAGCTT
51156531 TTGTCCAGTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.42
Consensus pattern (42 bp):
TTTAACCCTAATGGGTTTCCATTTAGCTATCACGAGCTTCAA
Found at i:51156674 original size:2 final size:2
Alignment explanation
Indices: 51156667--51156708 Score: 75
Period size: 2 Copynumber: 20.5 Consensus size: 2
51156657 TCATGAAATG
51156667 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CTA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA T
51156709 GTANNNNNNN
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 37 0.95
3 2 0.05
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:51157991 original size:8 final size:9
Alignment explanation
Indices: 51157973--51158052 Score: 54
Period size: 9 Copynumber: 8.3 Consensus size: 9
51157963 AAAATATTTT
51157973 AAAATTAAA
1 AAAATTAAA
51157982 AAAATTAAA
1 AAAATTAAA
51157991 AAAGTATTTTAAA
1 AAA--A--TTAAA
*
51158004 AAAATTTAA
1 AAAATTAAA
*
51158013 AAATTTAAA
1 AAAATTAAA
***
51158022 AAAAGTATTTT
1 AAAA-T-TAAA
51158033 AAAATTAAA
1 AAAATTAAA
51158042 AAAA-TAAA
1 AAAATTAAA
51158050 AAA
1 AAA
51158053 TAATAAAAAT
Statistics
Matches: 55, Mismatches: 10, Indels: 13
0.71 0.13 0.17
Matches are distributed among these distances:
8 7 0.13
9 31 0.56
10 2 0.04
11 7 0.13
13 8 0.15
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (9 bp):
AAAATTAAA
Found at i:51157995 original size:39 final size:40
Alignment explanation
Indices: 51157923--51158025 Score: 136
Period size: 39 Copynumber: 2.5 Consensus size: 40
51157913 ACCAAAAATT
51157923 TATTTTAAAAATTAAAACAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTT-AAAATT--AA-AAAAATTAAAAAAAGTATTTTAAAAA
51157967 TATTTTAAAATTAAAAAAATT-AAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAA
* *
51158006 AATTTAAAAATTTAAAAAAA
1 TATTTTAAAA-TTAAAAAAA
51158026 GTATTTTAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
39 26 0.46
40 16 0.29
41 2 0.04
43 6 0.11
44 6 0.11
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (40 bp):
TATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAA
Found at i:51158008 original size:31 final size:28
Alignment explanation
Indices: 51157962--51158052 Score: 114
Period size: 31 Copynumber: 3.2 Consensus size: 28
51157952 AAAGTATTTT
51157962 AAAAA-TATTTTAAAATTAAAAAAATTA
1 AAAAAGTATTTTAAAATTAAAAAAATTA
* *
51157989 AAAAAGTATTTTAAAAAAATTTAAAAATTTAA
1 AAAAAGTATTTT---AAAATTAAAAAAATT-A
51158021 AAAAAGTATTTTAAAATTAAAAAAA-TA
1 AAAAAGTATTTTAAAATTAAAAAAATTA
51158048 AAAAA
1 AAAAA
51158053 TAATAAAAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
27 11 0.20
28 7 0.13
29 11 0.20
31 13 0.24
32 13 0.24
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (28 bp):
AAAAAGTATTTTAAAATTAAAAAAATTA
Found at i:51158013 original size:32 final size:31
Alignment explanation
Indices: 51157973--51158052 Score: 96
Period size: 32 Copynumber: 2.6 Consensus size: 31
51157963 AAAATATTTT
51157973 AAAATTAAAAAAATT-AAAAAAGTATTTTAAA
1 AAAATT-AAAAAATTAAAAAAAGTATTTTAAA
*
51158004 AAAATTTAAAAATTTAAAAAAAGTATTTT---
1 AAAA-TTAAAAAATTAAAAAAAGTATTTTAAA
*
51158033 AAAATTAAAAAAATAAAAAA
1 AAAATTAAAAAATTAAAAAA
51158053 TAATAAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
28 14 0.32
29 4 0.09
31 11 0.25
32 15 0.34
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (31 bp):
AAAATTAAAAAATTAAAAAAAGTATTTTAAA
Found at i:51158024 original size:20 final size:20
Alignment explanation
Indices: 51158001--51158045 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
51157991 AAAGTATTTT
51158001 AAAAA-AATTTAAAAATTTAA
1 AAAAAGAATTTAAAAA-TTAA
* *
51158021 AAAAAGTATTTTAAAATTAA
1 AAAAAGAATTTAAAAATTAA
51158041 AAAAA
1 AAAAA
51158046 TAAAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (20 bp):
AAAAAGAATTTAAAAATTAA
Found at i:51158025 original size:21 final size:20
Alignment explanation
Indices: 51158001--51158045 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
51157991 AAAGTATTTT
51158001 AAAAAAATTTAAAAATTTAAA
1 AAAAAAATTTAAAAA-TTAAA
** *
51158022 AAAAGTATTTTAAAATTAAA
1 AAAAAAATTTAAAAATTAAA
51158042 AAAA
1 AAAA
51158046 TAAAAAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (20 bp):
AAAAAAATTTAAAAATTAAA
Found at i:51158996 original size:28 final size:27
Alignment explanation
Indices: 51158951--51159009 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 27
51158941 GATTAAATTT
51158951 TTAAAAAAAAATTCAATTCAATTAATAA
1 TTAAAAAAAAATTCAATTCAATTAAT-A
* *
51158979 TTAAAAAATTAATT-AATTCGATTAATA
1 TTAAAAAA-AAATTCAATTCAATTAATA
51159006 TTAA
1 TTAA
51159010 TTCCGTATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 5 0.18
28 19 0.68
29 4 0.14
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (27 bp):
TTAAAAAAAAATTCAATTCAATTAATA
Found at i:51159511 original size:15 final size:15
Alignment explanation
Indices: 51159476--51159515 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
51159466 ATAGTAAAAA
51159476 TATAATTTTATTATT
1 TATAATTTTATTATT
51159491 TAATAATTTATATT-TT
1 T-ATAATTT-TATTATT
51159507 TATAATTTT
1 TATAATTTT
51159516 TAAAAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 1 0.04
15 8 0.35
16 10 0.43
17 4 0.17
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TATAATTTTATTATT
Found at i:51172419 original size:47 final size:47
Alignment explanation
Indices: 51172347--51172470 Score: 126
Period size: 47 Copynumber: 2.6 Consensus size: 47
51172337 ATCTAAACAA
* *
51172347 TACTATAGGATTTGAGATGAACA-TTTCC-CGAACTACAGCATAAAAAG
1 TACTATAAGATTTCAGATGAACATTTTCCAC-AA-TACAGCATAAAAAG
* * ** *
51172394 TACTATAAGATTTCAGATGAGCATTTTCCACAATATAGTGTAAACAG
1 TACTATAAGATTTCAGATGAACATTTTCCACAATACAGCATAAAAAG
* * *
51172441 AACTATAAGATTTCAGATGAATATCTTCCA
1 TACTATAAGATTTCAGATGAACATTTTCCA
51172471 AACTACTGTC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
47 56 0.88
48 7 0.11
49 1 0.02
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.30
Consensus pattern (47 bp):
TACTATAAGATTTCAGATGAACATTTTCCACAATACAGCATAAAAAG
Found at i:51182884 original size:15 final size:16
Alignment explanation
Indices: 51182857--51182892 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
51182847 CTGAACAATT
51182857 ATTTTATTTTTTAAAC
1 ATTTTATTTTTTAAAC
51182873 ATTTTA-TTTTTAAAC
1 ATTTTATTTTTTAAAC
51182888 -TTTTA
1 ATTTTA
51182893 ACAACGAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 5 0.25
15 9 0.45
16 6 0.30
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.64
Consensus pattern (16 bp):
ATTTTATTTTTTAAAC
Found at i:51192389 original size:15 final size:16
Alignment explanation
Indices: 51192369--51192401 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
51192359 TTCTATTTTG
*
51192369 ATAAAAAT-TTAAAAT
1 ATAAAAATGGTAAAAT
51192384 ATAAAAATGGTAAAAT
1 ATAAAAATGGTAAAAT
51192400 AT
1 AT
51192402 CAGAGCTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (16 bp):
ATAAAAATGGTAAAAT
Found at i:51201630 original size:3 final size:3
Alignment explanation
Indices: 51201622--51201646 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
51201612 TATAGATTTC
51201622 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
51201647 GAGTGTTTTT
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:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:51202313 original size:89 final size:89
Alignment explanation
Indices: 51202162--51202328 Score: 280
Period size: 89 Copynumber: 1.9 Consensus size: 89
51202152 AAACCAAAGC
*
51202162 CCAACGACACCGTTTTTTGAGCTTTCGGGGATTTAGTGACGTTTTTAAGTAAACGCAGCTAATGC
1 CCAACGACACCGTTTTTTGAGCTTTCGGGGATTTAGTGACGTTTTTAAGTAAACACAGCTAATGC
51202227 TCAGGGCTTTAGCGGCGGCATTAG
66 TCAGGGCTTTAGCGGCGGCATTAG
* * * * *
51202251 CCAACGACGCCGTTTTTTGAGCTTTCGGGGATTTTGTGGCGTTTTTAAGTAAGCACCGCTAATGC
1 CCAACGACACCGTTTTTTGAGCTTTCGGGGATTTAGTGACGTTTTTAAGTAAACACAGCTAATGC
51202316 TCAGGGCTTTAGC
66 TCAGGGCTTTAGC
51202329 AGCGTTTTTG
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
89 72 1.00
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (89 bp):
CCAACGACACCGTTTTTTGAGCTTTCGGGGATTTAGTGACGTTTTTAAGTAAACACAGCTAATGC
TCAGGGCTTTAGCGGCGGCATTAG
Done.