Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 109 of 203
Found at i:34600331 original size:93 final size:93
Alignment explanation
Indices: 34600042--34600503 Score: 484
Period size: 93 Copynumber: 5.0 Consensus size: 93
34600032 CAATTTTGTG
34600042 TATAAGTGCTGTCCAAATTGCTACATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATT
1 TATAAGTGCTGTCCAAATTGCTACATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATT
* **
34600107 TTGTATATACATGCTGTCC-AATT-TTTT
66 TTGTGTATA-ATGCTGTCCAAATTGTACT
34600134 GTATAAGTGCTGTCCAAATTGCTACATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAAT
1 -TATAAGTGCTGTCCAAATTGCTACATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAAT
* * *
34600199 TTTGTATATACATGCTGTCCAATTTTGT--G
65 TTTGTGTATA-ATGCTGTCCAA-ATTGTACT
34600228 TATAAGTGCTGTCCAAATTGCTACATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATT
1 TATAAGTGCTGTCCAAATTGCTACATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATT
34600293 TTGTGTATAAGTGCTGTCCAAATTGCTACT
66 TTGTGTATAA-TGCTGTCCAAATTG-TACT
* * ** * * * *
34600323 TAT-A-TGCTGCCCAATTTTGGGGA-ATAAATGTTGTCCAATTTT-GT-ATATACATGCTGTCCA
1 TATAAGTGCTGTCCAA-ATT-GCTACATATATGCTGCCCAATTTTGGTGA-ATAAATGCTGTCCA
*
34600383 ATTTTGTGTATAACTGCTGTCCAAATTGCTACA
63 ATTTTGTGTATAA-TGCTGTCCAAATTG-TACT
* * * * * * * *
34600416 TAT-A-TGCTGCCCAATTTTGGTGA-ATAAATGCTGTCCACTTTT-GT-ATATAAATGTTGTCAA
1 TATAAGTGCTGTCCAA-ATTGCT-ACATATATGCTGCCCAATTTTGGTGA-ATAAATGCTGTCCA
34600476 ATTTTGTGTATAAGTGCTGTCCAAATTG
63 ATTTTGTGTATAA-TGCTGTCCAAATTG
34600504 GTATATACAT
Statistics
Matches: 336, Mismatches: 22, Indels: 22
0.88 0.06 0.06
Matches are distributed among these distances:
92 7 0.02
93 301 0.90
94 20 0.06
95 7 0.02
96 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (93 bp):
TATAAGTGCTGTCCAAATTGCTACATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATT
TTGTGTATAATGCTGTCCAAATTGTACT
Found at i:34600481 original size:256 final size:258
Alignment explanation
Indices: 34600024--34600547 Score: 892
Period size: 256 Copynumber: 2.0 Consensus size: 258
34600014 AATNATATAC
*
34600024 ATGCTGTCCAATTTTGTGTATAAGTGCTGTCCAAATTGCTACATATATGCTGCCCAATTTTGGTG
1 ATGCTGTCCAATTTTGTGTATAAGTGCTGTCCAAATTGCTACATATATGCTGCCCAATTTTGGGG
* *
34600089 AATAAATGCTGTCCAATTTTGTATATACATGCTGTCCAATTTTTTGTATAAGTGCTGTCCAAATT
66 AATAAATGCTGTCCAATTTTGTATATACATGCTGTCCAATTTTGTGTATAACTGCTGTCCAAATT
* *
34600154 GCTACATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGCTGTCC
131 GCTACATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATAAATGCTGTCA
* *
34600219 AATTTTGTGTATAAGTGCTGTCCAAATTGCTACATATATGCTGCCCAATTT-TGGTGAATAA-
196 AATTTTGTGTATAAGTGCTGTCCAAATTGCTACATACATGCTGCCCAATTTCTGATGAATAAG
*
34600280 ATGCTGTCCAATTTTGTGTATAAGTGCTGTCCAAATTGCTACTTATATGCTGCCCAATTTTGGGG
1 ATGCTGTCCAATTTTGTGTATAAGTGCTGTCCAAATTGCTACATATATGCTGCCCAATTTTGGGG
*
34600345 AATAAATGTTGTCCAATTTTGTATATACATGCTGTCCAATTTTGTGTATAACTGCTGTCCAAATT
66 AATAAATGCTGTCCAATTTTGTATATACATGCTGTCCAATTTTGTGTATAACTGCTGTCCAAATT
* *
34600410 GCTACATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCACTTTTGTATATAAATGTTGTCA
131 GCTACATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATAAATGCTGTCA
* * * *
34600475 AATTTTGTGTATAAGTGCTGTCCAAATTGGTATATACATGCTGCTCAATTTCTGATGTATAAG
196 AATTTTGTGTATAAGTGCTGTCCAAATTGCTACATACATGCTGCCCAATTTCTGATGAATAAG
34600538 A-GCTGTCCAA
1 ATGCTGTCCAA
34600548 ACTGGGTAGA
Statistics
Matches: 251, Mismatches: 15, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
256 233 0.93
257 17 0.07
258 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.39
Consensus pattern (258 bp):
ATGCTGTCCAATTTTGTGTATAAGTGCTGTCCAAATTGCTACATATATGCTGCCCAATTTTGGGG
AATAAATGCTGTCCAATTTTGTATATACATGCTGTCCAATTTTGTGTATAACTGCTGTCCAAATT
GCTACATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATAAATGCTGTCA
AATTTTGTGTATAAGTGCTGTCCAAATTGCTACATACATGCTGCCCAATTTCTGATGAATAAG
Found at i:34600494 original size:70 final size:68
Alignment explanation
Indices: 34600024--34600499 Score: 367
Period size: 70 Copynumber: 6.8 Consensus size: 68
34600014 AATNATATAC
* * * ** *
34600024 ATGCTGTCCAATTTTGTGTATAAGTGCTGTCCAA-ATTGCTACATATATGCTGCCCAATTTTGGT
1 ATGCTGTCCAATTTTGTATATAAATGCTGTCCAATTTTG-TGTATA-ATGCTGTCCAATTTT-GT
34600088 GAATAA
63 GAATAA
* * *
34600094 ATGCTGTCCAATTTTGTATATACATGCTGTCCAATTTTTTGTATAAGTGCTGTCCAA-ATTGCT-
1 ATGCTGTCCAATTTTGTATATAAATGCTGTCCAATTTTGTGTATAA-TGCTGTCCAATTTTG-TG
*
34600157 ACATAT
64 A-ATAA
* *
34600163 ATGCTGCCCAATTTTGGTGA-ATAAATGCTGTCCAATTTTGTATATACATGCTGTCCAATTTTGT
1 ATGCTGTCCAATTTT-GT-ATATAAATGCTGTCCAATTTTGTGTATA-ATGCTGTCCAATTTTGT
*
34600227 GTATAA
63 GAATAA
* * * * * *
34600233 GTGCTGTCCAA-ATTGCTACATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGT
1 ATGCTGTCCAATTTTG-TATATAAATGCTGTCCAATTTT-GTGTAT-AATGCTGTCCAATTTTGT
*
34600297 GTATAA
63 GAATAA
* * * * * * *
34600303 GTGCTGTCCAA-ATTGCTACT-TATATGCTGCCCAATTTTGGGGAATAAATGTTGTCCAATTTTG
1 ATGCTGTCCAATTTTG-TA-TATAAATGCTGTCCAATTTT-GTGTAT-AATGCTGTCCAATTTTG
*
34600366 T-ATATAC
62 TGA-ATAA
* * * ** *
34600373 ATGCTGTCCAATTTTGTGTATAACTGCTGTCCAA-ATTGCTACATATATGCTGCCCAATTTTGGT
1 ATGCTGTCCAATTTTGTATATAAATGCTGTCCAATTTTG-TGTATA-ATGCTGTCCAATTTT-GT
34600437 GAATAA
63 GAATAA
* * *
34600443 ATGCTGTCCACTTTTGTATATAAATGTTGTCAAATTTTGTGTATAAGTGCTGTCCAA
1 ATGCTGTCCAATTTTGTATATAAATGCTGTCCAATTTTGTGTATAA-TGCTGTCCAA
34600500 ATTGGTATAT
Statistics
Matches: 332, Mismatches: 51, Indels: 46
0.77 0.12 0.11
Matches are distributed among these distances:
68 6 0.02
69 60 0.18
70 251 0.76
71 15 0.05
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (68 bp):
ATGCTGTCCAATTTTGTATATAAATGCTGTCCAATTTTGTGTATAATGCTGTCCAATTTTGTGAA
TAA
Found at i:34601465 original size:40 final size:40
Alignment explanation
Indices: 34601421--34601497 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
34601411 ATGTCAGGGG
* * * *
34601421 ACGTGTCAGCAAATCGTGTCTATGTCAGCGCGGTTTGCTA
1 ACGTGGCAGCAAATCGTGTCCACGTAAGCGCGGTTTGCTA
34601461 ACGTGGCAGCAAATCGTGTCCACGTAAGCGCGGTTTG
1 ACGTGGCAGCAAATCGTGTCCACGTAAGCGCGGTTTG
34601498 TGTCCACGTC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.26
Consensus pattern (40 bp):
ACGTGGCAGCAAATCGTGTCCACGTAAGCGCGGTTTGCTA
Found at i:34601690 original size:14 final size:12
Alignment explanation
Indices: 34601675--34601712 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 12
34601665 AACTAATCCT
*
34601675 CTCTCAAATTTC
1 CTCTCTAATTTC
34601687 CTCT-TAATTTC
1 CTCTCTAATTTC
34601698 CTCTC-AATTTC
1 CTCTCTAATTTC
34601709 CTCT
1 CTCT
34601713 GAATTTGCTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
11 20 0.83
12 4 0.17
ACGTcount: A:0.18, C:0.34, G:0.00, T:0.47
Consensus pattern (12 bp):
CTCTCTAATTTC
Found at i:34601697 original size:11 final size:11
Alignment explanation
Indices: 34601681--34601748 Score: 66
Period size: 11 Copynumber: 6.2 Consensus size: 11
34601671 TCCTCTCTCA
34601681 AATTTCCTCTT
1 AATTTCCTCTT
*
34601692 AATTTCCTCTC
1 AATTTCCTCTT
*
34601703 AATTTCCTCTG
1 AATTTCCTCTT
* **
34601714 AATTTGCTCCC
1 AATTTCCTCTT
*
34601725 AAGTTCCTCTT
1 AATTTCCTCTT
34601736 AAATTT-CTCTT
1 -AATTTCCTCTT
34601747 AA
1 AA
34601749 ATCACTATTT
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
10 2 0.04
11 40 0.87
12 4 0.09
ACGTcount: A:0.22, C:0.28, G:0.04, T:0.46
Consensus pattern (11 bp):
AATTTCCTCTT
Found at i:34601709 original size:22 final size:22
Alignment explanation
Indices: 34601675--34601742 Score: 82
Period size: 22 Copynumber: 3.0 Consensus size: 22
34601665 AACTAATCCT
34601675 CTCTCAAATTTCCTCTTAATTTC
1 CTCTC-AATTTCCTCTTAATTTC
* *
34601698 CTCTCAATTTCCTCTGAATTTG
1 CTCTCAATTTCCTCTTAATTTC
* *
34601720 CTCCCAAGTTCCTCTTAAATTTC
1 CTCTCAATTTCCTCTT-AATTTC
34601743 TCTTAAATCA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
22 28 0.74
23 10 0.26
ACGTcount: A:0.21, C:0.31, G:0.04, T:0.44
Consensus pattern (22 bp):
CTCTCAATTTCCTCTTAATTTC
Found at i:34605004 original size:18 final size:18
Alignment explanation
Indices: 34604962--34605004 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
34604952 AGCCAGGTGC
* *
34604962 GTTTCCTAGCCCTTTTAT
1 GTTTCCTAACCCTTATAT
* *
34604980 ATATCCTAACCCTTATAT
1 GTTTCCTAACCCTTATAT
34604998 GTTTCCT
1 GTTTCCT
34605005 TTTCCGAGTC
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.19, C:0.28, G:0.07, T:0.47
Consensus pattern (18 bp):
GTTTCCTAACCCTTATAT
Found at i:34605298 original size:21 final size:21
Alignment explanation
Indices: 34605255--34605300 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
34605245 TAGATGCCCT
*
34605255 ACCGGAAGAACCAGAATCCCC
1 ACCGGAAGAACCACAATCCCC
*
34605276 ACCGGAGGAACCACAA-CCGCC
1 ACCGGAAGAACCACAATCC-CC
34605297 ACCG
1 ACCG
34605301 AAAGCTCGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.35, C:0.41, G:0.22, T:0.02
Consensus pattern (21 bp):
ACCGGAAGAACCACAATCCCC
Found at i:34605568 original size:22 final size:22
Alignment explanation
Indices: 34605543--34606212 Score: 705
Period size: 22 Copynumber: 31.0 Consensus size: 22
34605533 TTTAATTGAC
* *
34605543 AAACCTTAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAA
34605565 AAACCCTAGCCCTAACCCTTAACTTAA
1 AAACCCTA-----AACCCTTAACTTAA
* *
34605592 AAA-CCTTAACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
*
34605613 AAACCATAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
34605635 AAACCATAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAA
* *
34605657 AAATCCT-AACCTTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
34605678 AAACCCTAAACCCTTAACATAA
1 AAACCCTAAACCCTTAACTTAA
34605700 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
34605722 AAACCTTAAACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
*
34605744 AAACCATAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* * *
34605766 AAACTCTAAACTCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
* *
34605788 AAACTCTAAACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
* *
34605810 AAACACTAAACCCTTAGCTTAA
1 AAACCCTAAACCCTTAACTTAA
** *
34605832 AAACCCT-AACATTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
*
34605853 AAACCTTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
34605875 AAACCGT-AACCCTTAAAATT-A
1 AAACCCTAAACCCTT-AACTTAA
34605896 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
34605918 AACCCCTAACCCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
34605940 AAACCCTAAACCTTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
34605962 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
34605984 AAACCCT-AACACTTAAC-TAA
1 AAACCCTAAACCCTTAACTTAA
** *
34606004 AAAAACTAAACCCTTAACTTCA
1 AAACCCTAAACCCTTAACTTAA
*
34606026 AAACCTTAAA-CC----CTT--
1 AAACCCTAAACCCTTAACTTAA
* *
34606041 AAACCCTAAACCTTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
*
34606063 AAACCCTAAACACTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
34606085 AAA-CCTTAACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
* * *
34606106 AAATCGT-AACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
*
34606127 AAACACTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* * *
34606149 AAATCAT-AACCCTTAAAC-AAA
1 AAACCCTAAACCCTT-AACTTAA
*
34606170 AAACCCT-AACACTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
34606191 AAACCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
34606212 A
1 A
34606213 TATAATTTGA
Statistics
Matches: 542, Mismatches: 82, Indels: 49
0.81 0.12 0.07
Matches are distributed among these distances:
15 9 0.02
16 1 0.00
17 3 0.01
20 13 0.02
21 165 0.30
22 332 0.61
26 3 0.01
27 16 0.03
ACGTcount: A:0.47, C:0.28, G:0.01, T:0.25
Consensus pattern (22 bp):
AAACCCTAAACCCTTAACTTAA
Found at i:34605604 original size:27 final size:27
Alignment explanation
Indices: 34605551--34605604 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
34605541 ACAAACCTTA
*
34605551 AACCCTTAACCTAAAAACCCTAGCCCT
1 AACCCTTAACCTAAAAACCCTAACCCT
* *
34605578 AACCCTTAACTTAAAAACCTTAACCCT
1 AACCCTTAACCTAAAAACCCTAACCCT
34605605 TAAATTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.39, C:0.37, G:0.02, T:0.22
Consensus pattern (27 bp):
AACCCTTAACCTAAAAACCCTAACCCT
Found at i:34605628 original size:43 final size:43
Alignment explanation
Indices: 34605574--34606212 Score: 615
Period size: 43 Copynumber: 15.0 Consensus size: 43
34605564 AAAACCCTAG
34605574 CCCT-AACCCTTAACTTAAAAACCTTAACCCTTAAATTAAAAA
1 CCCTAAACCCTTAACTTAAAAACCTTAACCCTTAAATTAAAAA
* * **
34605616 CCATAAACCCTTAACTTAAAAACCATAAACCCTTAACCTAAAAA
1 CCCTAAACCCTTAACTTAAAAACC-TTAACCCTTAAATTAAAAA
* * *
34605660 TCCT-AACCTTTAACTTAAAAACCCTAAACCCTTAACA-TAAAAA
1 CCCTAAACCCTTAACTTAAAAA-CCTTAACCCTTAA-ATTAAAAA
34605703 CCCTAAACCCTTAACTTAAAAACCTTAAACCCTTAAATTAAAAA
1 CCCTAAACCCTTAACTTAAAAACCTT-AACCCTTAAATTAAAAA
* * *
34605747 CCATAAACCCTTAACTTAAAAACTCTAAACTCTTAAATTAAAAA
1 CCCTAAACCCTTAACTTAAAAAC-CTTAACCCTTAAATTAAAAA
* * * **
34605791 CTCTAAACCCTTAAATTAAAAACACTAAACCCTTAGCTTAAAAA
1 CCCTAAACCCTTAACTTAAAAAC-CTTAACCCTTAAATTAAAAA
** * *
34605835 CCCT-AACATTTAACTTTAAAACCTTAAACCCTTAACTTAAAAA
1 CCCTAAACCCTTAACTTAAAAACCTT-AACCCTTAAATTAAAAA
* * * * * *
34605878 CCGT-AACCCTTAAAATTAAAACCCTAAACCCTTAACTTAAAAC
1 CCCTAAACCCTT-AACTTAAAAACCTTAACCCTTAAATTAAAAA
* * *
34605921 CCCTAACCCCTTAACTTAAAAACCCTAAACCTTTAAATTAAAAA
1 CCCTAAACCCTTAACTTAAAAA-CCTTAACCCTTAAATTAAAAA
* * *
34605965 CCCTAAACCCTTAACTTAAAAACCCTAACACTT-AACTAAAAA
1 CCCTAAACCCTTAACTTAAAAACCTTAACCCTTAAATTAAAAA
** *
34606007 AACTAAACCCTTAACTTCAAAACCTTAAACCC-----TT--AAA
1 CCCTAAACCCTTAACTTAAAAACCTT-AACCCTTAAATTAAAAA
* * * * *
34606044 CCCTAAACCTTTAAATTAAAAACCCTAAACACTTAACTTAAAAA
1 CCCTAAACCCTTAACTTAAAAA-CCTTAACCCTTAAATTAAAAA
* * * *
34606088 -CCTTAACCCTTAACTTTAAAATCGTAACCCTTAAATTAAAAA
1 CCCTAAACCCTTAACTTAAAAACCTTAACCCTTAAATTAAAAA
* * * **
34606130 CACTAAACCCTTAACTTAAAAATCATAACCCTTAAACAAAAAA
1 CCCTAAACCCTTAACTTAAAAACCTTAACCCTTAAATTAAAAA
* * *
34606173 CCCT-AACACTTAACTTAAAAACCCTAACCCTTAACTTAAA
1 CCCTAAACCCTTAACTTAAAAACCTTAACCCTTAAATTAAA
34606213 TATAATTTGA
Statistics
Matches: 491, Mismatches: 84, Indels: 44
0.79 0.14 0.07
Matches are distributed among these distances:
37 24 0.05
38 3 0.01
39 1 0.00
42 83 0.17
43 191 0.39
44 187 0.38
45 2 0.00
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (43 bp):
CCCTAAACCCTTAACTTAAAAACCTTAACCCTTAAATTAAAAA
Found at i:34609604 original size:126 final size:125
Alignment explanation
Indices: 34609334--34610026 Score: 959
Period size: 126 Copynumber: 5.5 Consensus size: 125
34609324 CCCAAACATG
*
34609334 CTACTGTAGCAAAAGCGCGTCCAC-ATGGGCGCAATTTCACAAATTCTTCTCATAAAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGA-GGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTG
* * * * * * *
34609398 CTAGAAGCG-ATTTTATACTATTTGTTCAGAAACGTCAAGTCGAAAGTATTTTTCCAGGAC
65 CTTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGAC
*
34609458 CTACTGTAGCAAAAGCGCGTCCATGAGGGCGCGATTTCACAAATTCTTCTCA-AATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTG
*
34609522 CTT-ACAGCGTTGTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTGTT-CAAGAC
65 CTTGA-AGCGTT-TTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAAGAC
* * * * *
34609584 CTACTATAGAAAAATCGCGTCCACGTGGGCGCAATTTCACAAATTCTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
*
34609649 TTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTCTTCCAAGAC
66 TTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAAGAC
* * *
34609710 CAACTGTAGCAAAAGCGCATCCACGAGGACGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
*
34609775 TTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTCTTCCAAGAC
66 TTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAAGAC
* * *
34609836 CAACTGTAGCAAAAGCGCATCCACGAGGACGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* *
34609901 TTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCTAGGAC
66 TTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGAC
* * * * * * * * *
34609961 CTACTGTAG-AAAAGCCCGTACACGTGGGCGTGATTGT-AAAAATCCTTTTGATAAATCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATT-TCACAAATTCTTCTCATAAAGCATCCTG
34610024 CTT
65 CTT
34610027 TGATTTTATC
Statistics
Matches: 519, Mismatches: 40, Indels: 20
0.90 0.07 0.03
Matches are distributed among these distances:
123 3 0.01
124 107 0.21
125 58 0.11
126 346 0.67
127 5 0.01
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
TTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGAC
Found at i:34610839 original size:13 final size:13
Alignment explanation
Indices: 34610821--34610858 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
34610811 AGTTCTTTAT
34610821 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
*
34610834 TGCTTTAGAGAAG
1 TGCTTTTGAGAAG
*
34610847 TGCTTTTCAGAA
1 TGCTTTTGAGAA
34610859 ATTTGAGTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.26, C:0.11, G:0.26, T:0.37
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:34611064 original size:24 final size:23
Alignment explanation
Indices: 34611037--34611098 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 23
34611027 AATATTTTAA
34611037 TATATAATATTAATTTTAAATATT
1 TATA-AATATTAATTTTAAATATT
* * *
34611061 TATAAGTAATTAATATTAATTATT
1 TATAAAT-ATTAATTTTAAATATT
34611085 TATAAA-ATTTAATT
1 TATAAATA-TTAATT
34611099 AGAATATATA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
22 1 0.03
23 7 0.23
24 23 0.74
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TATAAATATTAATTTTAAATATT
Found at i:34611580 original size:19 final size:20
Alignment explanation
Indices: 34611558--34611604 Score: 51
Period size: 23 Copynumber: 2.2 Consensus size: 20
34611548 AACAATCCAT
34611558 CAATA-TTATCTAAATCATA
1 CAATATTTATCTAAATCATA
*
34611577 CAATAACATTTATTTAAATCATA
1 CAAT---ATTTATCTAAATCATA
34611600 CAATA
1 CAATA
34611605 AGGAGTTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
19 4 0.17
20 1 0.04
22 1 0.04
23 17 0.74
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
CAATATTTATCTAAATCATA
Found at i:34613588 original size:33 final size:33
Alignment explanation
Indices: 34613546--34613611 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
34613536 TATGCAAAGG
34613546 GGATTCCAAATATTTTCATATACTTCAACAATC
1 GGATTCCAAATATTTTCATATACTTCAACAATC
34613579 GGATTCCAAATATTTTCATATACTTCAACAATC
1 GGATTCCAAATATTTTCATATACTTCAACAATC
34613612 TCCCTGTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.21, G:0.06, T:0.36
Consensus pattern (33 bp):
GGATTCCAAATATTTTCATATACTTCAACAATC
Found at i:34621754 original size:21 final size:21
Alignment explanation
Indices: 34621711--34621766 Score: 85
Period size: 21 Copynumber: 2.6 Consensus size: 21
34621701 AAGCAGATGG
*
34621711 AGCCACTGCAAATAAATTATAT
1 AGCCACTGCAAA-CAATTATAT
*
34621733 AGCCACTGCAAACAATTGTAT
1 AGCCACTGCAAACAATTATAT
34621754 AGCCACTGCAAAC
1 AGCCACTGCAAAC
34621767 GGGGGAAACT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 20 0.62
22 12 0.38
ACGTcount: A:0.41, C:0.25, G:0.12, T:0.21
Consensus pattern (21 bp):
AGCCACTGCAAACAATTATAT
Found at i:34622880 original size:33 final size:33
Alignment explanation
Indices: 34622838--34622971 Score: 172
Period size: 33 Copynumber: 4.2 Consensus size: 33
34622828 AAAAATGGCA
*
34622838 AGAGGAACAAAACATGGTACAGAAACAGAAAAT
1 AGAGAAACAAAACATGGTACAGAAACAGAAAAT
**
34622871 AGAGAAACAAAA-A----ACCA-CTACAGAAAAT
1 AGAGAAACAAAACATGGTA-CAGAAACAGAAAAT
*
34622899 AGAGGAACAAAACATGGTACAGAAACAGAAAAT
1 AGAGAAACAAAACATGGTACAGAAACAGAAAAT
*
34622932 AGAGAAACAAAACATGGTACAGAAATAGAAAAT
1 AGAGAAACAAAACATGGTACAGAAACAGAAAAT
34622965 AGAGAAA
1 AGAGAAA
34622972 AATAAAGCAG
Statistics
Matches: 86, Mismatches: 8, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
28 21 0.24
29 3 0.03
32 3 0.03
33 59 0.69
ACGTcount: A:0.60, C:0.12, G:0.19, T:0.09
Consensus pattern (33 bp):
AGAGAAACAAAACATGGTACAGAAACAGAAAAT
Found at i:34625437 original size:20 final size:21
Alignment explanation
Indices: 34625388--34625437 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
34625378 GTGGTTTTCT
34625388 TATATTATTAATAAAATATATA
1 TATATTA-TAATAAAATATATA
* **
34625410 TATGTTATAATAAGGTATA-A
1 TATATTATAATAAAATATATA
34625430 TATATTAT
1 TATATTAT
34625438 TATGTTATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 8 0.33
21 10 0.42
22 6 0.25
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (21 bp):
TATATTATAATAAAATATATA
Found at i:34626163 original size:2 final size:2
Alignment explanation
Indices: 34626156--34626185 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
34626146 TTATTAATTA
*
34626156 AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34626186 TGTATTTGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:34627133 original size:41 final size:41
Alignment explanation
Indices: 34627088--34627302 Score: 324
Period size: 41 Copynumber: 5.2 Consensus size: 41
34627078 GGCTCGGTGC
* * **
34627088 CTAGCAGGCTTGATGCCAGTGATATGTTTCAGACTTTAAGT
1 CTAGCAGGCTTGATGCCGGTGAAACATTTCAGACTTTAAGT
34627129 CTAGCAGGCTTG-TCGCCGGTGAAACATTTCAGACTTTAAGT
1 CTAGCAGGCTTGAT-GCCGGTGAAACATTTCAGACTTTAAGT
* * *
34627170 CTAGCAGGCTTGACGCCGATGAAACATTTTAGACTTTAAGT
1 CTAGCAGGCTTGATGCCGGTGAAACATTTCAGACTTTAAGT
* *
34627211 CTAGCAGGCTTGACGCTGGTGAAACATTTCAGACTTTAAGT
1 CTAGCAGGCTTGATGCCGGTGAAACATTTCAGACTTTAAGT
*
34627252 CTAGCAGGCTTGATGCCGGTGAAACATTTCAGACTTTATGT
1 CTAGCAGGCTTGATGCCGGTGAAACATTTCAGACTTTAAGT
34627293 CTAGCAGGCT
1 CTAGCAGGCT
34627303 AAGTGCCAGT
Statistics
Matches: 159, Mismatches: 13, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
40 1 0.01
41 158 0.99
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (41 bp):
CTAGCAGGCTTGATGCCGGTGAAACATTTCAGACTTTAAGT
Found at i:34629430 original size:30 final size:30
Alignment explanation
Indices: 34629396--34629458 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
34629386 ACTTAACAAG
34629396 CAAATGCCTCCAAAATAATAACAAAATTAA
1 CAAATGCCTCCAAAATAATAACAAAATTAA
**
34629426 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCCAAAATAATAACAAAATTAA
34629456 CAA
1 CAA
34629459 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.17, G:0.03, T:0.22
Consensus pattern (30 bp):
CAAATGCCTCCAAAATAATAACAAAATTAA
Found at i:34629962 original size:43 final size:43
Alignment explanation
Indices: 34629841--34630066 Score: 225
Period size: 43 Copynumber: 5.3 Consensus size: 43
34629831 TTTTTTAGGC
* * *
34629841 CTTTAGCGGCACTAAGGAAATAAACGCCGCTAAAGATCCTATT
1 CTTTAGCGGCGCTAAGGAAATAAACGCCGCTAAAGATCATGTT
* * *
34629884 CTTTAGTGGCGCTTATGAAA-AAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTAAGGAAATAAACGCCGCTAAAGATCATGTT
*
34629926 CTTTAGCAGCGCTAAGGAAATAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTAAGGAAATAAACGCCGCTAAAGATCATGTT
* * * *
34629969 ATTTAGCGGCGTTTA-GAAATAAAACGCCGCTAAA-AGTAATGTT
1 CTTTAGCGGCGCTAAGGAAAT-AAACGCCGCTAAAGA-TCATGTT
* *
34630012 -TTGTAGCGGCGCT-TGGTCAA-AAACGCCGCTAAA-AGT-AGTGTT
1 CTT-TAGCGGCGCTAAGG-AAATAAACGCCGCTAAAGA-TCA-TGTT
34630054 CTTTAGCGGCGCT
1 CTTTAGCGGCGCT
34630067 TATTTCACAA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
41 1 0.01
42 74 0.47
43 80 0.51
44 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (43 bp):
CTTTAGCGGCGCTAAGGAAATAAACGCCGCTAAAGATCATGTT
Found at i:34630044 original size:85 final size:85
Alignment explanation
Indices: 34629841--34630024 Score: 230
Period size: 85 Copynumber: 2.2 Consensus size: 85
34629831 TTTTTTAGGC
* * * * *
34629841 CTTTAGCGGCACTAAGGAAATAAACGCCGCTAAAGATCCTATTCTTTAGTGGCGCTTATGAAAAA
1 CTTTAGCAGCGCTAAGGAAATAAACGCCGCTAAAGATCATATTATTTAGCGGCGCTTATGAAAAA
*
34629906 ACGCCGCTAAAGATCATGTT
66 ACGCCGCTAAAGATAATGTT
* *
34629926 CTTTAGCAGCGCTAAGGAAATAAACGCCGCTAAAGATCATGTTATTTAGCGGCGTTTA-GAAATA
1 CTTTAGCAGCGCTAAGGAAATAAACGCCGCTAAAGATCATATTATTTAGCGGCGCTTATG-AA-A
34629990 AAACGCCGCTAAA-AGTAATGTT
64 AAACGCCGCTAAAGA-TAATGTT
*
34630012 -TTGTAGCGGCGCT
1 CTT-TAGCAGCGCT
34630025 TGGTCAAAAA
Statistics
Matches: 86, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
84 1 0.01
85 56 0.65
86 29 0.34
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.26
Consensus pattern (85 bp):
CTTTAGCAGCGCTAAGGAAATAAACGCCGCTAAAGATCATATTATTTAGCGGCGCTTATGAAAAA
ACGCCGCTAAAGATAATGTT
Found at i:34630538 original size:21 final size:21
Alignment explanation
Indices: 34630514--34630582 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
34630504 ACTTCTATCG
*
34630514 CTGCTTCTCTTGCTGCGGCCT
1 CTGCTTCTCTTGCTGCAGCCT
* *
34630535 CTGCTTCTCTTGTTGTAGCCT
1 CTGCTTCTCTTGCTGCAGCCT
* * * *
34630556 CTGCTTCCCTTACTGCCGCAT
1 CTGCTTCTCTTGCTGCAGCCT
34630577 CTGCTT
1 CTGCTT
34630583 TAAGTTGTTG
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.04, C:0.36, G:0.19, T:0.41
Consensus pattern (21 bp):
CTGCTTCTCTTGCTGCAGCCT
Found at i:34633867 original size:20 final size:20
Alignment explanation
Indices: 34633788--34633869 Score: 61
Period size: 20 Copynumber: 4.4 Consensus size: 20
34633778 AAATTTTATA
*
34633788 TAAGTTATGTATTATGCATG
1 TAAGTTATGTATTATGTATG
*
34633808 TAAGTCATG---TATGTATG
1 TAAGTTATGTATTATGTATG
* * *
34633825 TTA-TTAT-AAGTT-TG-ATT
1 TAAGTTATGTA-TTATGTATG
34633842 TAAGTTATGTATTATGTATG
1 TAAGTTATGTATTATGTATG
34633862 TAAGTTAT
1 TAAGTTAT
34633870 ATATAAGTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
16 3 0.07
17 13 0.28
18 8 0.17
19 4 0.09
20 18 0.39
ACGTcount: A:0.30, C:0.02, G:0.18, T:0.49
Consensus pattern (20 bp):
TAAGTTATGTATTATGTATG
Found at i:34633887 original size:54 final size:54
Alignment explanation
Indices: 34633765--34633887 Score: 142
Period size: 54 Copynumber: 2.3 Consensus size: 54
34633755 ATGTATTATG
* * *
34633765 TAAGTTTATATAAAAATTTTATATAAGTTATGTATTATGCATGTAAGTCATGTA
1 TAAGTTTATATATAAATTTGATATAAGTTATGTATTATGCATGTAAGTCATATA
* * * * *
34633819 TGTA-TGTTAT-TATAAGTTTGATTTAAGTTATGTATTATGTATGTAAGTTATATA
1 T-AAGT-TTATATATAAATTTGATATAAGTTATGTATTATGCATGTAAGTCATATA
34633873 TAAGTTTATATATAA
1 TAAGTTTATATATAA
34633888 CTTATGTAAG
Statistics
Matches: 56, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
53 5 0.09
54 46 0.82
55 5 0.09
ACGTcount: A:0.37, C:0.02, G:0.14, T:0.48
Consensus pattern (54 bp):
TAAGTTTATATATAAATTTGATATAAGTTATGTATTATGCATGTAAGTCATATA
Found at i:34633913 original size:21 final size:22
Alignment explanation
Indices: 34633853--34633915 Score: 58
Period size: 21 Copynumber: 2.9 Consensus size: 22
34633843 AAGTTATGTA
*
34633853 TTATGTATGTAAGTTATATATAAG
1 TTATGTATGTAAG-T-TATGTAAG
* * *
34633877 TT-TATATATAACTTATGTAAG
1 TTATGTATGTAAGTTATGTAAG
34633898 TTAT-TATGTAAGTTATGT
1 TTATGTATGTAAGTTATGT
34633916 GTTGTGTAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
21 21 0.66
22 2 0.06
23 7 0.22
24 2 0.06
ACGTcount: A:0.35, C:0.02, G:0.14, T:0.49
Consensus pattern (22 bp):
TTATGTATGTAAGTTATGTAAG
Found at i:34634012 original size:19 final size:20
Alignment explanation
Indices: 34633990--34634036 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
34633980 TTTTTCAAAT
* *
34633990 ATATATAAAATTTTA-ATAA
1 ATATATAAAACTGTATATAA
34634009 ATATATTAAAACTGTATATAA
1 ATATA-TAAAACTGTATATAA
34634030 ATATATA
1 ATATATA
34634037 TATCAAAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 5 0.21
20 10 0.42
21 9 0.38
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
ATATATAAAACTGTATATAA
Found at i:34634012 original size:21 final size:22
Alignment explanation
Indices: 34633986--34634038 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
34633976 TAAATTTTTC
* *
34633986 AAATATATATAAAATTTTA-AT
1 AAATATATATAAAACTGTATAT
34634007 AAATATAT-TAAAACTGTATAT
1 AAATATATATAAAACTGTATAT
34634028 AAATATATATA
1 AAATATATATA
34634039 TCAAAGATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 8 0.29
21 18 0.64
22 2 0.07
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (22 bp):
AAATATATATAAAACTGTATAT
Found at i:34634543 original size:14 final size:14
Alignment explanation
Indices: 34634519--34634557 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
34634509 AATTAAAACA
34634519 AAAATAT-ACAACT
1 AAAATATAACAACT
34634532 AAAATATAACAACT
1 AAAATATAACAACT
34634546 AAAATATAACAA
1 AAAATATAACAA
34634558 AAAAATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 7 0.28
14 18 0.72
ACGTcount: A:0.67, C:0.13, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAATATAACAACT
Found at i:34638929 original size:40 final size:41
Alignment explanation
Indices: 34638813--34638957 Score: 151
Period size: 40 Copynumber: 3.6 Consensus size: 41
34638803 TTGAATGATG
* * *
34638813 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAA-TTACTAATA
34638852 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGA-TACTAAT-
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGA-ATTACTAATA
* *
34638892 TCCGGGCTAAGCCCCGAAGGCATTTGTGCGAATTACT-ATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAATTACTAATA
* *
34638932 ACCGGACTATGTCCCGAAGGCATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
34638958 AACGAGGAGC
Statistics
Matches: 89, Mismatches: 9, Indels: 15
0.79 0.08 0.13
Matches are distributed among these distances:
39 21 0.24
40 57 0.64
41 10 0.11
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (41 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAATTACTAATA
Found at i:34638976 original size:80 final size:79
Alignment explanation
Indices: 34638813--34638963 Score: 189
Period size: 80 Copynumber: 1.9 Consensus size: 79
34638803 TTGAATGATG
* * *
34638813 TCCGGGCTAAGTCCCGAAGGCTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATTTG
1 TCCGGGCTAAGCCCCGAAGGCTTGTGCGAAGTGACAATAACCGGACTAAGATCCGAAGGCATTTG
**
34638878 TGCGAGATACTAAT
66 AACGAGATACTAAT
* * *
34638892 TCCGGGCTAAGCCCCGAAGGCATTTGTGCGAA-TTACTATAACCGGACTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGCCCCGAAGGC--TTGTGCGAAGTGACAATAACCGGACTAAGAT-CCGAAGGCAT
34638955 TTGAACGAG
63 TTGAACGAG
34638964 GAGCTATATC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
79 21 0.34
80 32 0.52
81 8 0.13
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (79 bp):
TCCGGGCTAAGCCCCGAAGGCTTGTGCGAAGTGACAATAACCGGACTAAGATCCGAAGGCATTTG
AACGAGATACTAAT
Found at i:34639170 original size:153 final size:153
Alignment explanation
Indices: 34638892--34639197 Score: 603
Period size: 153 Copynumber: 2.0 Consensus size: 153
34638882 AGATACTAAT
34638892 TCCGGGCTAAGCCCCGAAGGCATTTGTGCGAATTACTATAACCGGACTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGCCCCGAAGGCATTTGTGCGAATTACTATAACCGGACTATGTCCCGAAGGCATTT
34638957 GAACGAGGAGCTATATCCGGTTAAATTCCGAAGGTACGTGATTTGGGAATGAATGAACTTGCTGT
66 GAACGAGGAGCTATATCCGGTTAAATTCCGAAGGTACGTGATTTGGGAATGAATGAACTTGCTGT
34639022 AAAATTCCAGTTAATACTCTCGA
131 AAAATTCCAGTTAATACTCTCGA
*
34639045 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGACTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGCCCCGAAGGCATTTGTGCGAATTACTATAACCGGACTATGTCCCGAAGGCATTT
34639110 GAACGAGGAGCTATATCCGGTTAAATTCCGAAGGTACGTGATTTGGGAATGAATGAACTTGCTGT
66 GAACGAGGAGCTATATCCGGTTAAATTCCGAAGGTACGTGATTTGGGAATGAATGAACTTGCTGT
34639175 AAAATTCCAGTTAATACTCTCGA
131 AAAATTCCAGTTAATACTCTCGA
34639198 AACATCCCAA
Statistics
Matches: 152, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
153 152 1.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (153 bp):
TCCGGGCTAAGCCCCGAAGGCATTTGTGCGAATTACTATAACCGGACTATGTCCCGAAGGCATTT
GAACGAGGAGCTATATCCGGTTAAATTCCGAAGGTACGTGATTTGGGAATGAATGAACTTGCTGT
AAAATTCCAGTTAATACTCTCGA
Found at i:34664432 original size:29 final size:30
Alignment explanation
Indices: 34664397--34664477 Score: 85
Period size: 31 Copynumber: 2.7 Consensus size: 30
34664387 TAATTCAAGT
*
34664397 TTCATGTAT-ATAATTG-TATTAAATCAAAA
1 TTCATGTATCAT-ATTGATATTAAAACAAAA
34664426 TTCATGTATCATATTGCATATTAAAACAAAA
1 TTCATGTATCATATTG-ATATTAAAACAAAA
* * * *
34664457 TTTATATATAATTTTGATATT
1 TTCATGTATCATATTGATATT
34664478 TATCCTTATA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
29 13 0.30
30 7 0.16
31 24 0.55
ACGTcount: A:0.42, C:0.07, G:0.06, T:0.44
Consensus pattern (30 bp):
TTCATGTATCATATTGATATTAAAACAAAA
Found at i:34669272 original size:19 final size:19
Alignment explanation
Indices: 34669250--34669287 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
34669240 TGTTGTTTTC
*
34669250 TCACAATTTTGTTGCTATT
1 TCACAATTATGTTGCTATT
*
34669269 TCACTATTATGTTGCTATT
1 TCACAATTATGTTGCTATT
34669288 ATTTTGTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.21, C:0.16, G:0.11, T:0.53
Consensus pattern (19 bp):
TCACAATTATGTTGCTATT
Found at i:34672011 original size:34 final size:35
Alignment explanation
Indices: 34671953--34672019 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
34671943 CAAACACCAG
34671953 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
34671988 AAAATATTTTCCCG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAA
34672020 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:34677335 original size:21 final size:22
Alignment explanation
Indices: 34677300--34677340 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
34677290 TTTATTTTTA
*
34677300 TTTTATTTTATGAATCTTATAG
1 TTTTATTTTAAGAATCTTATAG
*
34677322 TTTT-TTTTAAGAATTTTAT
1 TTTTATTTTAAGAATCTTAT
34677341 GAAAATTTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.63
Consensus pattern (22 bp):
TTTTATTTTAAGAATCTTATAG
Found at i:34677807 original size:13 final size:13
Alignment explanation
Indices: 34677789--34677852 Score: 60
Period size: 13 Copynumber: 4.9 Consensus size: 13
34677779 AGTTCTTCAT
34677789 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
34677802 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
34677815 TGC-TGTGAAAAAG
1 TGCTTTTG-AAAAG
*
34677828 TACTTTT-AAGAAG
1 TGCTTTTGAA-AAG
*
34677841 TACTTTTGAAAA
1 TGCTTTTGAAAA
34677853 ATTTGAGTGT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
12 5 0.12
13 33 0.79
14 4 0.10
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:34677852 original size:26 final size:26
Alignment explanation
Indices: 34677791--34677852 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
34677781 TTCTTCATTG
* * *
34677791 CTTTTGAAAAGTGCTTTTGAGAAGTG
1 CTTTTGAAAAGTACTTTTAAGAAGTA
*
34677817 C-TGTGAAAAAGTACTTTTAAGAAGTA
1 CTTTTG-AAAAGTACTTTTAAGAAGTA
34677843 CTTTTGAAAA
1 CTTTTGAAAA
34677853 ATTTGAGTGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
25 3 0.10
26 23 0.79
27 3 0.10
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.35
Consensus pattern (26 bp):
CTTTTGAAAAGTACTTTTAAGAAGTA
Found at i:34680147 original size:27 final size:27
Alignment explanation
Indices: 34680117--34680168 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
34680107 AAGACAAGGA
* *
34680117 GAGAAAGAAATATTGAAACAAGAAAGC
1 GAGAAAGAAAGATTAAAACAAGAAAGC
*
34680144 GAGAAAGGAAGATTAAAACAAGAAA
1 GAGAAAGAAAGATTAAAACAAGAAA
34680169 AGAAACCATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.62, C:0.06, G:0.23, T:0.10
Consensus pattern (27 bp):
GAGAAAGAAAGATTAAAACAAGAAAGC
Found at i:34681448 original size:24 final size:24
Alignment explanation
Indices: 34681408--34681454 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
34681398 AAAGGGAAAT
*
34681408 AAGAGAAAGTGATGGAAAATGTTG
1 AAGAGAAAGTGAAGGAAAATGTTG
*
34681432 AAGAGAAAG-GAAAGGAAAGTGTT
1 AAGAGAAAGTG-AAGGAAAATGTT
34681455 ATAAATTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.49, C:0.00, G:0.34, T:0.17
Consensus pattern (24 bp):
AAGAGAAAGTGAAGGAAAATGTTG
Found at i:34684714 original size:19 final size:19
Alignment explanation
Indices: 34684692--34684743 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
34684682 TTTTTTCATC
*
34684692 AAAATAATTAAAAAATCT-T
1 AAAAT-ATTAAAAAAACTAT
*
34684711 AAAATTATAAAAAAAACTAT
1 AAAA-TATTAAAAAAACTAT
*
34684731 TAAATATTAAAAA
1 AAAATATTAAAAA
34684744 TATGAAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 22 0.81
20 5 0.19
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAATATTAAAAAAACTAT
Found at i:34684778 original size:9 final size:9
Alignment explanation
Indices: 34684764--34684804 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
34684754 GATATCAACT
34684764 TATAAAAAA
1 TATAAAAAA
* *
34684773 TATAAATAC
1 TATAAAAAA
34684782 TATAAAAAA
1 TATAAAAAA
*
34684791 TATTAAAAA
1 TATAAAAAA
34684800 TATAA
1 TATAA
34684805 TAATTTATAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (9 bp):
TATAAAAAA
Found at i:34684854 original size:21 final size:19
Alignment explanation
Indices: 34684830--34684876 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 19
34684820 CATAAAATTA
*
34684830 ATAAAACATATTTAGAATTTT
1 ATAAAACATA-TTA-AATTCT
34684851 ATAAAAACATATTAAATTCT
1 AT-AAAACATATTAAATTCT
34684871 ATAAAA
1 ATAAAA
34684877 ATCATAAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 4 0.17
20 7 0.29
21 5 0.21
22 8 0.33
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.36
Consensus pattern (19 bp):
ATAAAACATATTAAATTCT
Found at i:34684882 original size:21 final size:22
Alignment explanation
Indices: 34684832--34684882 Score: 70
Period size: 20 Copynumber: 2.4 Consensus size: 22
34684822 TAAAATTAAT
*
34684832 AAAACATATTTAGAATTTTATA
1 AAAACATATTTAGAATTCTATA
34684854 AAAACATA-TTA-AATTCTATA
1 AAAACATATTTAGAATTCTATA
34684874 AAAATCATA
1 AAAA-CATA
34684883 AAAGTATTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 12 0.44
21 7 0.26
22 8 0.30
ACGTcount: A:0.55, C:0.08, G:0.02, T:0.35
Consensus pattern (22 bp):
AAAACATATTTAGAATTCTATA
Found at i:34685454 original size:21 final size:20
Alignment explanation
Indices: 34685430--34685470 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
34685420 TTAAGAAATC
34685430 TAGTATGTTTTATTAATTTTA
1 TAGTATGTTTTA-TAATTTTA
* *
34685451 TAGTTTTTTTTATAATTTTA
1 TAGTATGTTTTATAATTTTA
34685471 ATAAGATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (20 bp):
TAGTATGTTTTATAATTTTA
Found at i:34686222 original size:2 final size:2
Alignment explanation
Indices: 34686215--34686256 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
34686205 CATGTAATAA
*
34686215 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC GC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
34686257 GCAGACACTC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.50, G:0.02, T:0.00
Consensus pattern (2 bp):
AC
Found at i:34686264 original size:8 final size:8
Alignment explanation
Indices: 34686218--34686264 Score: 58
Period size: 8 Copynumber: 5.9 Consensus size: 8
34686208 GTAATAAACA
*
34686218 CACACACA
1 CACACACG
*
34686226 CACACACA
1 CACACACG
*
34686234 CACACACA
1 CACACACG
34686242 CACACACG
1 CACACACG
34686250 CACACACG
1 CACACACG
*
34686258 CAGACAC
1 CACACAC
34686265 TCTCTCTTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 37 1.00
ACGTcount: A:0.45, C:0.49, G:0.06, T:0.00
Consensus pattern (8 bp):
CACACACG
Found at i:34696931 original size:13 final size:13
Alignment explanation
Indices: 34696913--34696938 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34696903 TAACTTCCTT
34696913 AACTGTTAACTGC
1 AACTGTTAACTGC
34696926 AACTGTTAACTGC
1 AACTGTTAACTGC
34696939 TATTATTCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
AACTGTTAACTGC
Found at i:34700563 original size:894 final size:894
Alignment explanation
Indices: 34698835--34700622 Score: 3504
Period size: 894 Copynumber: 2.0 Consensus size: 894
34698825 AAACCCCGTA
*
34698835 TAGAACTCTTTGACGAGCAAAACCCATGTTAAAAAGGGAAACATATTTCATTAAACTTAACATGC
1 TAGAACTCTTTGACGAGCAAAACCCATGTTAAAAAGGGAAACACATTTCATTAAACTTAACATGC
*
34698900 CGAGAGAGATACACCCTACCATCTGCAGCTAAGCACTGATACCCCTTTATGTTGGGAGCAGTGCC
66 CGAGAGAGATACACCCTACCATCTGCAGCTAAGCACCGATACCCCTTTATGTTGGGAGCAGTGCC
*
34698965 AAGAAAGACACACTTTTGAGACCTGAACTGGAACTTATGGTGGTGAAAGGATCGCAAATCAGGGA
131 AAGAAAGACACACTTCTGAGACCTGAACTGGAACTTATGGTGGTGAAAGGATCGCAAATCAGGGA
*
34699030 AACAAGCACAACCAAACACCCGAATCAGATCATAGCTAGGCTTATGTTTGTGAAGAACTTCATAT
196 AACAAGCACAACCAAACACCCGAATCAAATCATAGCTAGGCTTATGTTTGTGAAGAACTTCATAT
34699095 GGACTTACGTTATGAAGAACCGGTGTAGGCAGTCTGTTTGTCAAAAACACCGCATGTACGAAAGC
261 GGACTTACGTTATGAAGAACCGGTGTAGGCAGTCTGTTTGTCAAAAACACCGCATGTACGAAAGC
34699160 AAAATACCAGTACTTTAGAGGAATGCTAGATTGGGCAAGAAGAGACAATCCCATATCAACAATTT
326 AAAATACCAGTACTTTAGAGGAATGCTAGATTGGGCAAGAAGAGACAATCCCATATCAACAATTT
34699225 GTCGATGCTTTCGATCAGCAGTACCATTTTGCTCTGAGGTGAAAGGGCAGGTGACCCTATGGTGT
391 GTCGATGCTTTCGATCAGCAGTACCATTTTGCTCTGAGGTGAAAGGGCAGGTGACCCTATGGTGT
34699290 ATTCCCAGGCGAGAGAGCTCCTTCGACAACACCCGATACTCTCCCCCCCAGTCAGTTTGTAGCAT
456 ATTCCCAGGCGAGAGAGCTCCTTCGACAACACCCGATACTCTCCCCCCCAGTCAGTTTGTAGCAT
34699355 TTTAATTGAACAACCAAACTGAACCTTAATCATCTGATGAAAATTGAGAAAACATTGTACTACCT
521 TTTAATTGAACAACCAAACTGAACCTTAATCATCTGATGAAAATTGAGAAAACATTGTACTACCT
34699420 CAGACTTGTTCTTAAGAAAATAAACCCACGTGTATCGACTGTACATATCAACAAAAGATACGTAA
586 CAGACTTGTTCTTAAGAAAATAAACCCACGTGTATCGACTGTACATATCAACAAAAGATACGTAA
34699485 TAGTGAAAACCATTCGAAGCAACACAAGCTGGTCCCCATACATCTGAAACAACTAGTTCAAAAGG
651 TAGTGAAAACCATTCGAAGCAACACAAGCTGGTCCCCATACATCTGAAACAACTAGTTCAAAAGG
34699550 AAGAGAATACACCGTTTTGGAAGAGGAAAACGAGAGTTTATGAGCTTTGCCTAGCTGACAGGCAG
716 AAGAGAATACACCGTTTTGGAAGAGGAAAACGAGAGTTTATGAGCTTTGCCTAGCTGACAGGCAG
34699615 TACATAACCGAGGCAAGCTATTTTGTACAAAAGGAACATTACATGATCTTAGAACACGAGCTAAA
781 TACATAACCGAGGCAAGCTATTTTGTACAAAAGGAACATTACATGATCTTAGAACACGAGCTAAA
34699680 GTGTTGGAACATGGATGTCCAAGCCTGTTATGCCATAAGGCAGCAGAGG
846 GTGTTGGAACATGGATGTCCAAGCCTGTTATGCCATAAGGCAGCAGAGG
*
34699729 TAGAACTCTTTGACGAGCAAAACCCATGTTGAAAAGGGAAACACATTTCATTAAACTTAACATGC
1 TAGAACTCTTTGACGAGCAAAACCCATGTTAAAAAGGGAAACACATTTCATTAAACTTAACATGC
34699794 CGAGAGAGATACACCCTACCATCTGCAGCTAAGCACCGATACCCCTTTATGTTGGGAGCAGTGCC
66 CGAGAGAGATACACCCTACCATCTGCAGCTAAGCACCGATACCCCTTTATGTTGGGAGCAGTGCC
34699859 AAGAAAGACACACTTCTGAGACCTGAACTGGAACTTATGGTGGTGAAAGGATCGCAAATCAGGGA
131 AAGAAAGACACACTTCTGAGACCTGAACTGGAACTTATGGTGGTGAAAGGATCGCAAATCAGGGA
34699924 AACAAGCACAACCAAACACCCGAATCAAATCATAGCTAGGCTTATGTTTGTGAAGAACTTCATAT
196 AACAAGCACAACCAAACACCCGAATCAAATCATAGCTAGGCTTATGTTTGTGAAGAACTTCATAT
*
34699989 GGACTTACGTTATGAAGAACCGGTGTAGGCAGTCTGTTTGTCAAAAACACCGCATGTGCGAAAGC
261 GGACTTACGTTATGAAGAACCGGTGTAGGCAGTCTGTTTGTCAAAAACACCGCATGTACGAAAGC
34700054 AAAATACCAGTACTTTAGAGGAATGCTAGATTGGGCAAGAAGAGACAATCCCATATCAACAATTT
326 AAAATACCAGTACTTTAGAGGAATGCTAGATTGGGCAAGAAGAGACAATCCCATATCAACAATTT
* *
34700119 GTCGATGCTTTCGTTCAGCAGTACCATTTTGCTCTGAGGTGTAAGGGCAGGTGACCCTATGGTGT
391 GTCGATGCTTTCGATCAGCAGTACCATTTTGCTCTGAGGTGAAAGGGCAGGTGACCCTATGGTGT
34700184 ATTCCCAGGCGAGAGAGCTCCTTCGACAACACCCGATACTCTCCCCCCCAGTCAGTTTGTAGCAT
456 ATTCCCAGGCGAGAGAGCTCCTTCGACAACACCCGATACTCTCCCCCCCAGTCAGTTTGTAGCAT
34700249 TTTAATTGAACAACCAAACTGAACCTTAATCATCTGATGAAAATTGAGAAAACATTGTACTACCT
521 TTTAATTGAACAACCAAACTGAACCTTAATCATCTGATGAAAATTGAGAAAACATTGTACTACCT
34700314 CAGACTTGTTCTTAAGAAAATAAACCCACGTGTATCGACTGTACATATCAACAAAAGATACGTAA
586 CAGACTTGTTCTTAAGAAAATAAACCCACGTGTATCGACTGTACATATCAACAAAAGATACGTAA
34700379 TAGTGAAAACCATTCGAAGCAACACAAGCTGGTCCCCATACATCTGAAACAACTAGTTCAAAAGG
651 TAGTGAAAACCATTCGAAGCAACACAAGCTGGTCCCCATACATCTGAAACAACTAGTTCAAAAGG
34700444 AAGAGAATACACCGTTTTGGAAGAGGAAAACGAGAGTTTATGAGCTTTGCCTAGCTGACAGGCAG
716 AAGAGAATACACCGTTTTGGAAGAGGAAAACGAGAGTTTATGAGCTTTGCCTAGCTGACAGGCAG
34700509 TACATAACCGAGGCAAGCTATTTTGTACAAAAGGAACATTACATGATCTTAGAACACGAGCTAAA
781 TACATAACCGAGGCAAGCTATTTTGTACAAAAGGAACATTACATGATCTTAGAACACGAGCTAAA
34700574 GTGTTGGAACATGGATGTCCAAGCCTGTTATGCCATAAGGCAGCAGAGG
846 GTGTTGGAACATGGATGTCCAAGCCTGTTATGCCATAAGGCAGCAGAGG
34700623 AGAGTTGAAC
Statistics
Matches: 886, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
894 886 1.00
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (894 bp):
TAGAACTCTTTGACGAGCAAAACCCATGTTAAAAAGGGAAACACATTTCATTAAACTTAACATGC
CGAGAGAGATACACCCTACCATCTGCAGCTAAGCACCGATACCCCTTTATGTTGGGAGCAGTGCC
AAGAAAGACACACTTCTGAGACCTGAACTGGAACTTATGGTGGTGAAAGGATCGCAAATCAGGGA
AACAAGCACAACCAAACACCCGAATCAAATCATAGCTAGGCTTATGTTTGTGAAGAACTTCATAT
GGACTTACGTTATGAAGAACCGGTGTAGGCAGTCTGTTTGTCAAAAACACCGCATGTACGAAAGC
AAAATACCAGTACTTTAGAGGAATGCTAGATTGGGCAAGAAGAGACAATCCCATATCAACAATTT
GTCGATGCTTTCGATCAGCAGTACCATTTTGCTCTGAGGTGAAAGGGCAGGTGACCCTATGGTGT
ATTCCCAGGCGAGAGAGCTCCTTCGACAACACCCGATACTCTCCCCCCCAGTCAGTTTGTAGCAT
TTTAATTGAACAACCAAACTGAACCTTAATCATCTGATGAAAATTGAGAAAACATTGTACTACCT
CAGACTTGTTCTTAAGAAAATAAACCCACGTGTATCGACTGTACATATCAACAAAAGATACGTAA
TAGTGAAAACCATTCGAAGCAACACAAGCTGGTCCCCATACATCTGAAACAACTAGTTCAAAAGG
AAGAGAATACACCGTTTTGGAAGAGGAAAACGAGAGTTTATGAGCTTTGCCTAGCTGACAGGCAG
TACATAACCGAGGCAAGCTATTTTGTACAAAAGGAACATTACATGATCTTAGAACACGAGCTAAA
GTGTTGGAACATGGATGTCCAAGCCTGTTATGCCATAAGGCAGCAGAGG
Found at i:34702299 original size:13 final size:13
Alignment explanation
Indices: 34702281--34702306 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34702271 TAACTTCCTT
34702281 AACTGTTAACTGC
1 AACTGTTAACTGC
34702294 AACTGTTAACTGC
1 AACTGTTAACTGC
34702307 TATTATTCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
AACTGTTAACTGC
Found at i:34707192 original size:16 final size:16
Alignment explanation
Indices: 34707164--34707209 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
34707154 AATAATAGCC
34707164 TTATATATAAAATATA
1 TTATATATAAAATATA
34707180 TTATCATAT-AAATAT-
1 TTAT-ATATAAAATATA
34707195 TTGATATA-AAAATAT
1 TT-ATATATAAAATAT
34707210 TCAAAAGGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 11 0.41
16 12 0.44
17 4 0.15
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (16 bp):
TTATATATAAAATATA
Found at i:34707909 original size:9 final size:9
Alignment explanation
Indices: 34707895--34707919 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
34707885 ATTCAGGCAT
34707895 AAATAAAAA
1 AAATAAAAA
34707904 AAATAAAAA
1 AAATAAAAA
34707913 AAATAAA
1 AAATAAA
34707920 CCCTAAACGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
AAATAAAAA
Found at i:34727065 original size:2 final size:2
Alignment explanation
Indices: 34727058--34727086 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
34727048 AGACAAAGGC
34727058 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
34727087 GTTATCACCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:34729007 original size:6 final size:6
Alignment explanation
Indices: 34728996--34729052 Score: 114
Period size: 6 Copynumber: 9.5 Consensus size: 6
34728986 TTAAATTCCT
34728996 CTTCTC CTTCTC CTTCTC CTTCTC CTTCTC CTTCTC CTTCTC CTTCTC
1 CTTCTC CTTCTC CTTCTC CTTCTC CTTCTC CTTCTC CTTCTC CTTCTC
34729044 CTTCTC CTT
1 CTTCTC CTT
34729053 TTTCTACTCT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 51 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (6 bp):
CTTCTC
Found at i:34731786 original size:17 final size:17
Alignment explanation
Indices: 34731764--34731799 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
34731754 ATTTTTTTTC
34731764 ATTTT-AAAAATACAATT
1 ATTTTAAAAAATA-AATT
34731781 ATTTTAAAAAATAAATT
1 ATTTTAAAAAATAAATT
34731798 AT
1 AT
34731800 AATATATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTTTAAAAAATAAATT
Found at i:34732056 original size:24 final size:24
Alignment explanation
Indices: 34732024--34732074 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
34732014 CCGTCGTATG
34732024 ATTCATTTACCCTATTATGGTTTA
1 ATTCATTTACCCTATTATGGTTTA
34732048 ATTCATTTACCCTATTATGGTTTA
1 ATTCATTTACCCTATTATGGTTTA
34732072 ATT
1 ATT
34732075 TCCAAATGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.25, C:0.16, G:0.08, T:0.51
Consensus pattern (24 bp):
ATTCATTTACCCTATTATGGTTTA
Found at i:34733858 original size:10 final size:9
Alignment explanation
Indices: 34733834--34733876 Score: 50
Period size: 9 Copynumber: 4.4 Consensus size: 9
34733824 TAAAAATAAA
34733834 AAAATATTTT
1 AAAAT-TTTT
34733844 AAAAATATTTT
1 -AAAAT-TTTT
*
34733855 AAAATTTTA
1 AAAATTTTT
34733864 AAAATTTTT
1 AAAATTTTT
34733873 AAAA
1 AAAA
34733877 AATATATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
9 15 0.50
10 5 0.17
11 10 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
AAAATTTTT
Found at i:34733861 original size:19 final size:18
Alignment explanation
Indices: 34733839--34733876 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 18
34733829 ATAAAAAAAT
34733839 ATTTTAAAAATATTTTAAA
1 ATTTTAAAAAT-TTTTAAA
34733858 ATTTTAAAAATTTTTAAA
1 ATTTTAAAAATTTTTAAA
34733876 A
1 A
34733877 AATATATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTTTAAAAATTTTTAAA
Found at i:34733879 original size:11 final size:11
Alignment explanation
Indices: 34733833--34733877 Score: 62
Period size: 10 Copynumber: 4.5 Consensus size: 11
34733823 TTAAAAATAA
34733833 AAAAATATTTT
1 AAAAATATTTT
34733844 AAAAATATTTT
1 AAAAATATTTT
34733855 --AAA-ATTTT
1 AAAAATATTTT
34733863 AAAAAT-TTTT
1 AAAAATATTTT
34733873 AAAAA
1 AAAAA
34733878 ATATATATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
8 5 0.16
9 3 0.10
10 12 0.39
11 11 0.35
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:34733881 original size:30 final size:30
Alignment explanation
Indices: 34733819--34733877 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
34733809 ACCAAAAATT
34733819 TATTTTAAAAATAAAAAAATATTTTAAAAA
1 TATTTTAAAAATAAAAAAATATTTTAAAAA
* **
34733849 TATTTTAAAATTTTAAAAAT-TTTTAAAAA
1 TATTTTAAAAATAAAAAAATATTTTAAAAA
34733878 ATATATATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 9 0.35
30 17 0.65
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (30 bp):
TATTTTAAAAATAAAAAAATATTTTAAAAA
Found at i:34734821 original size:55 final size:55
Alignment explanation
Indices: 34734754--34734861 Score: 162
Period size: 55 Copynumber: 2.0 Consensus size: 55
34734744 AATGCGAAAG
* *
34734754 TCACATAATTGGGTGCTCAACCACCGGAATGAAATATACGAATTAGTGCATTGAA
1 TCACATAATTGGGTGCTCAACCACCAGAATGAAATATACGAATGAGTGCATTGAA
* * * *
34734809 TCACATCATTGGGTGCTCAACTACTAGAATGAAATATACGAATGGGTGCATTG
1 TCACATAATTGGGTGCTCAACCACCAGAATGAAATATACGAATGAGTGCATTG
34734862 GATCTGTCAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (55 bp):
TCACATAATTGGGTGCTCAACCACCAGAATGAAATATACGAATGAGTGCATTGAA
Found at i:34739251 original size:16 final size:16
Alignment explanation
Indices: 34739230--34739263 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
34739220 TTTATTTTAA
34739230 TATTTATATTTATATT
1 TATTTATATTTATATT
* *
34739246 TATTTATTTTTATCTT
1 TATTTATATTTATATT
34739262 TA
1 TA
34739264 AATTTGACGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (16 bp):
TATTTATATTTATATT
Found at i:34745080 original size:20 final size:23
Alignment explanation
Indices: 34745045--34745085 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
34745035 GTGACGGAGC
34745045 GATCATCTTGCTTGAA-AGCATT
1 GATCATCTTGCTTGAAGAGCATT
34745067 GATC-TCTT-CTTGAAGAGCA
1 GATCATCTTGCTTGAAGAGCA
34745086 GAAATGGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 8 0.44
22 4 0.22
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (23 bp):
GATCATCTTGCTTGAAGAGCATT
Found at i:34748852 original size:28 final size:28
Alignment explanation
Indices: 34748799--34748852 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
34748789 CAACTTCCCT
**
34748799 TTGAGTTTTTCTTTTTTAAGAATTTTTC
1 TTGAGTTTTTCTTTTAGAAGAATTTTTC
*
34748827 TTGAG-TTTTCTTTTAGAAGAGTTTTT
1 TTGAGTTTTTCTTTTAGAAGAATTTTT
34748853 ACAATCTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 18 0.78
28 5 0.22
ACGTcount: A:0.19, C:0.06, G:0.15, T:0.61
Consensus pattern (28 bp):
TTGAGTTTTTCTTTTAGAAGAATTTTTC
Found at i:34750822 original size:45 final size:45
Alignment explanation
Indices: 34750767--34750856 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
34750757 ATTTAGACCT
*
34750767 TAATTATCCTCTTAAATAGTTGTATTATGATGAATTCAATTTACA
1 TAATTATCCTCTTAAAGAGTTGTATTATGATGAATTCAATTTACA
34750812 TAATTATCCTCTTAAAGAGTTGTATTATGATGAATTCAATTTACA
1 TAATTATCCTCTTAAAGAGTTGTATTATGATGAATTCAATTTACA
34750857 AACTTTTTGT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.43
Consensus pattern (45 bp):
TAATTATCCTCTTAAAGAGTTGTATTATGATGAATTCAATTTACA
Found at i:34751031 original size:14 final size:14
Alignment explanation
Indices: 34751012--34751041 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
34751002 ACATTGAAAA
*
34751012 AAAGAATCTATTTG
1 AAAGAATCTACTTG
34751026 AAAGAATCTACTTG
1 AAAGAATCTACTTG
34751040 AA
1 AA
34751042 TTTGTCTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.10, G:0.13, T:0.30
Consensus pattern (14 bp):
AAAGAATCTACTTG
Found at i:34752269 original size:21 final size:21
Alignment explanation
Indices: 34752245--34752285 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
34752235 TCTACTCTAC
* *
34752245 TTCCATCGCTGCTGCCTCTGT
1 TTCCATCACTGCTGCATCTGT
*
34752266 TTCCTTCACTGCTGCATCTG
1 TTCCATCACTGCTGCATCTG
34752286 CTTTAAGTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.07, C:0.37, G:0.17, T:0.39
Consensus pattern (21 bp):
TTCCATCACTGCTGCATCTGT
Found at i:34755737 original size:17 final size:17
Alignment explanation
Indices: 34755715--34755749 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
34755705 CTTTATATCC
34755715 TTCAAATACGAACTTGA
1 TTCAAATACGAACTTGA
*
34755732 TTCAAATATGAACTTGA
1 TTCAAATACGAACTTGA
34755749 T
1 T
34755750 AAGAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.34
Consensus pattern (17 bp):
TTCAAATACGAACTTGA
Found at i:34757034 original size:18 final size:18
Alignment explanation
Indices: 34757005--34757062 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 18
34756995 TTGACTTTTA
*
34757005 ATATTAATATATGATATG
1 ATATAAATATATGATATG
*
34757023 ATATAAGA-ATATGGTATTG
1 ATATAA-ATATATGATA-TG
34757042 A-ATAAATATATGATATG
1 ATATAAATATATGATATG
34757059 ATAT
1 ATAT
34757063 TGAATAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
17 4 0.12
18 25 0.76
19 4 0.12
ACGTcount: A:0.47, C:0.00, G:0.14, T:0.40
Consensus pattern (18 bp):
ATATAAATATATGATATG
Found at i:34757740 original size:30 final size:29
Alignment explanation
Indices: 34757706--34757782 Score: 100
Period size: 29 Copynumber: 2.6 Consensus size: 29
34757696 TTCCTGTAAA
* *
34757706 CCTTAAACCCTAAACCCTAAGCCCCCTGAC
1 CCTTAAACCTTAAACCCTAAG-CCACTGAC
* *
34757736 CCTTAAACCTTAAACCTTAAGCCATTGAC
1 CCTTAAACCTTAAACCCTAAGCCACTGAC
*
34757765 CCCTAAACCTTAAACCCT
1 CCTTAAACCTTAAACCCT
34757783 TAACAAACAC
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
29 22 0.54
30 19 0.46
ACGTcount: A:0.32, C:0.40, G:0.05, T:0.22
Consensus pattern (29 bp):
CCTTAAACCTTAAACCCTAAGCCACTGAC
Found at i:34757774 original size:29 final size:30
Alignment explanation
Indices: 34757709--34757785 Score: 93
Period size: 30 Copynumber: 2.6 Consensus size: 30
34757699 CTGTAAACCT
* * * *
34757709 TAAACCCTAAACCCTAAGCCCCCTGACCCT
1 TAAACCTTAAACCTTAAGCCCACTGACCCC
*
34757739 TAAACCTTAAACCTTAAG-CCATTGACCCC
1 TAAACCTTAAACCTTAAGCCCACTGACCCC
34757768 TAAACCTTAAACCCTTAA
1 TAAACCTTAAA-CCTTAA
34757786 CAAACACCCT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
29 19 0.46
30 22 0.54
ACGTcount: A:0.35, C:0.38, G:0.05, T:0.22
Consensus pattern (30 bp):
TAAACCTTAAACCTTAAGCCCACTGACCCC
Found at i:34757938 original size:7 final size:7
Alignment explanation
Indices: 34757936--34758002 Score: 62
Period size: 7 Copynumber: 9.6 Consensus size: 7
34757926 TATTAAACTT
34757936 TAAACCC
1 TAAACCC
34757943 TAAACCC
1 TAAACCC
**
34757950 TAAACAT
1 TAAACCC
*
34757957 TAAACTC
1 TAAACCC
34757964 TAAACCC
1 TAAACCC
**
34757971 TAAATAC
1 TAAACCC
* *
34757978 TAAATCA
1 TAAACCC
34757985 TAAACCC
1 TAAACCC
*
34757992 TAAACAC
1 TAAACCC
34757999 TAAA
1 TAAA
34758003 AGTAATTAAA
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 48 1.00
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.21
Consensus pattern (7 bp):
TAAACCC
Found at i:34757953 original size:21 final size:21
Alignment explanation
Indices: 34757929--34757996 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
34757919 TCTTAAATAT
34757929 TAAACTTTAAACCCTAAACCC
1 TAAACTTTAAACCCTAAACCC
* *
34757950 TAAACATTAAACTCTAAACCC
1 TAAACTTTAAACCCTAAACCC
* * *
34757971 TAAA-TACTAAATCATAAACCC
1 TAAACT-TTAAACCCTAAACCC
34757992 TAAAC
1 TAAAC
34757997 ACTAAAAGTA
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.24
Consensus pattern (21 bp):
TAAACTTTAAACCCTAAACCC
Found at i:34757980 original size:28 final size:28
Alignment explanation
Indices: 34757922--34758002 Score: 92
Period size: 28 Copynumber: 2.9 Consensus size: 28
34757912 AAAATAATCT
* * *
34757922 TAAATATTAAACTTTAAACCCTAAACCC
1 TAAACATTAAACTCTAAACCCTAAACAC
*
34757950 TAAACATTAAACTCTAAACCCTAAATAC
1 TAAACATTAAACTCTAAACCCTAAACAC
* *
34757978 TAAATCA-TAAACCCTAAACACTAAA
1 TAAA-CATTAAACTCTAAACCCTAAA
34758003 AGTAATTAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 44 0.96
29 2 0.04
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.25
Consensus pattern (28 bp):
TAAACATTAAACTCTAAACCCTAAACAC
Found at i:34758000 original size:21 final size:21
Alignment explanation
Indices: 34757936--34758002 Score: 91
Period size: 21 Copynumber: 3.2 Consensus size: 21
34757926 TATTAAACTT
* *
34757936 TAAACCCTAAACCCTAAACAT
1 TAAACTCTAAACCCTAAACAC
*
34757957 TAAACTCTAAACCCTAAATAC
1 TAAACTCTAAACCCTAAACAC
34757978 TAAA-TCATAAACCCTAAACAC
1 TAAACTC-TAAACCCTAAACAC
34757999 TAAA
1 TAAA
34758003 AGTAATTAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 2 0.05
21 39 0.95
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.21
Consensus pattern (21 bp):
TAAACTCTAAACCCTAAACAC
Found at i:34758095 original size:21 final size:21
Alignment explanation
Indices: 34758071--34758144 Score: 62
Period size: 21 Copynumber: 3.5 Consensus size: 21
34758061 CTTCAAACTC
*
34758071 TAAAACCTAAACACTAAATCG
1 TAAAACCTAAACACTAAATCA
*** *
34758092 TAAATTATAAACACTAAACCA
1 TAAAACCTAAACACTAAATCA
34758113 -AAAACCCTAAATC-CTAAATCA
1 TAAAA-CCTAAA-CACTAAATCA
*
34758134 TAAACCCTAAA
1 TAAAACCTAAA
34758145 ATAAAACTTA
Statistics
Matches: 40, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
20 3 0.08
21 33 0.82
22 4 0.10
ACGTcount: A:0.54, C:0.24, G:0.01, T:0.20
Consensus pattern (21 bp):
TAAAACCTAAACACTAAATCA
Found at i:34760620 original size:91 final size:90
Alignment explanation
Indices: 34760465--34760680 Score: 258
Period size: 91 Copynumber: 2.4 Consensus size: 90
34760455 TTTTGGAGGT
* * * *
34760465 TCTGGCGTGTTATCAGTTGAAAAGCTTTTATGAGTAATTTGGCGTGTTATTAGGAGAGAATATTT
1 TCTGGCGTGTTATCAGTTG-AAAGCTCTTATGAGCAATTTGACATGTTATTAGGAGAGAATATTT
*
34760530 AGCCTACGA-GCTTTGTACTATGTGCA
65 AGCCTA-GAGGCTTTGGACTATGTGCA
* *
34760556 TCTGGTGTGTTATCGGTTAGAAAGCTCTTATGAGCAATTTGACATGTTATCGTA-G-GAGAATAT
1 TCTGGCGTGTTATCAGTT-GAAAGCTCTTATGAGCAATTTGACATGTTAT--TAGGAGAGAATAT
*
34760619 TTAGCCTATAGGCTTTGGACTATGTGCA
63 TTAGCCTAGAGGCTTTGGACTATGTGCA
* *
34760647 TCTAGCGTGTTATCAGTTGGAATAACTCTTATGA
1 TCTGGCGTGTTATCAGTT-GAA-AGCTCTTATGA
34760681 TCAAACTGGT
Statistics
Matches: 107, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
90 1 0.01
91 92 0.86
92 12 0.11
93 2 0.02
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.37
Consensus pattern (90 bp):
TCTGGCGTGTTATCAGTTGAAAGCTCTTATGAGCAATTTGACATGTTATTAGGAGAGAATATTTA
GCCTAGAGGCTTTGGACTATGTGCA
Found at i:34768534 original size:18 final size:17
Alignment explanation
Indices: 34768495--34768536 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
34768485 TAATTTTAAA
*
34768495 ATATATT-TACAAATTC
1 ATATATTATAAAAATTC
*
34768511 AAATATTATAAAAATTAC
1 ATATATTATAAAAATT-C
34768529 ATATATTA
1 ATATATTA
34768537 AACCCCATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 6 0.29
17 7 0.33
18 8 0.38
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATATTATAAAAATTC
Found at i:34769032 original size:18 final size:18
Alignment explanation
Indices: 34768966--34769032 Score: 61
Period size: 16 Copynumber: 3.9 Consensus size: 18
34768956 AAATTATAAA
* *
34768966 AATAAAAATACCAAAATA
1 AATAAAAATATCAAAATT
*
34768984 AAT-CAAA-ATCAAAATT
1 AATAAAAATATCAAAATT
*
34769000 AA-AAAAATATAAAAAGTT
1 AATAAAAATATCAAAA-TT
34769018 AATAAAAAT-TCAAAA
1 AATAAAAATATCAAAA
34769033 AAAATAGCAA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
16 12 0.31
17 9 0.23
18 12 0.31
19 6 0.15
ACGTcount: A:0.70, C:0.07, G:0.01, T:0.21
Consensus pattern (18 bp):
AATAAAAATATCAAAATT
Found at i:34770482 original size:25 final size:25
Alignment explanation
Indices: 34770435--34770487 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
34770425 TACATTAATC
*
34770435 AAAGTTTAAGTGGGAAACTAAAAAT
1 AAAGTTTAAGTGGGAAACGAAAAAT
* *
34770460 AAAGTTTAATTGGGAGAA-GAAAAGT
1 AAAGTTTAAGTGGGA-AACGAAAAAT
34770485 AAA
1 AAA
34770488 AAAATACGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 22 0.92
26 2 0.08
ACGTcount: A:0.53, C:0.02, G:0.23, T:0.23
Consensus pattern (25 bp):
AAAGTTTAAGTGGGAAACGAAAAAT
Found at i:34780238 original size:20 final size:21
Alignment explanation
Indices: 34780210--34780248 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
34780200 TTAGGTCAGT
34780210 AAGCGACTTCT-GTCTATCTG
1 AAGCGACTTCTAGTCTATCTG
* *
34780230 AAGCTACTTTTAGTCTATC
1 AAGCGACTTCTAGTCTATC
34780249 CCGAGTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (21 bp):
AAGCGACTTCTAGTCTATCTG
Found at i:34801965 original size:11 final size:12
Alignment explanation
Indices: 34801949--34801977 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
34801939 AAACTACCTG
34801949 AAATAAAA-TAA
1 AAATAAAACTAA
34801960 AAATAAAACTAA
1 AAATAAAACTAA
34801972 AAATAA
1 AAATAA
34801978 GAAATAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 8 0.47
12 9 0.53
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.17
Consensus pattern (12 bp):
AAATAAAACTAA
Found at i:34815210 original size:18 final size:18
Alignment explanation
Indices: 34815187--34815222 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
34815177 ATCCCAAGGA
34815187 GAAAACATTGTTAATCAC
1 GAAAACATTGTTAATCAC
34815205 GAAAACATTGTTAATCAC
1 GAAAACATTGTTAATCAC
34815223 CAAATGACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.28
Consensus pattern (18 bp):
GAAAACATTGTTAATCAC
Found at i:34815848 original size:8 final size:8
Alignment explanation
Indices: 34815835--34815863 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
34815825 TAACAACCAC
34815835 AATTTTGT
1 AATTTTGT
34815843 AATTTTGT
1 AATTTTGT
34815851 AATTTTGT
1 AATTTTGT
34815859 AATTT
1 AATTT
34815864 CAAAAGTACG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (8 bp):
AATTTTGT
Found at i:34816506 original size:18 final size:18
Alignment explanation
Indices: 34816485--34816519 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
34816475 ATTAAAAAGA
*
34816485 AAAATATTTTTAATAATG
1 AAAATATATTTAATAATG
*
34816503 AAAATATATTTGATAAT
1 AAAATATATTTAATAAT
34816520 TATTATTCTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (18 bp):
AAAATATATTTAATAATG
Found at i:34817495 original size:28 final size:27
Alignment explanation
Indices: 34817463--34817523 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
34817453 AAAAAATAAT
* * *
34817463 CAAAATATTATAACTTTTTTTATTTAC
1 CAAAAAATTATAAATTTATTTATTTAC
34817490 CAAAAAATTATAAATTTATTTATTTAC
1 CAAAAAATTATAAATTTATTTATTTAC
34817517 CAAAAAA
1 CAAAAAA
34817524 AACTTAACAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.43
Consensus pattern (27 bp):
CAAAAAATTATAAATTTATTTATTTAC
Found at i:34817593 original size:27 final size:27
Alignment explanation
Indices: 34817555--34817606 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
34817545 GGCTAATCAC
*
34817555 ATTGGCTGCACCAAAGGTGCCAAAGAG
1 ATTGGCGGCACCAAAGGTGCCAAAGAG
*
34817582 ATTGGCGGCACCAATGGTGCCAAAG
1 ATTGGCGGCACCAAAGGTGCCAAAG
34817607 GACTAAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.31, C:0.23, G:0.31, T:0.15
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAAAGAG
Found at i:34818201 original size:19 final size:19
Alignment explanation
Indices: 34818177--34818272 Score: 115
Period size: 19 Copynumber: 5.2 Consensus size: 19
34818167 TCTAATTAAG
*
34818177 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTCATT
* *
34818196 TAATAAAT-TATTCTCATT
1 TAATAACTCTATTTTCATT
* *
34818214 TAACAACTCTATTTTAATT
1 TAATAACTCTATTTTCATT
* *
34818233 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTCATT
34818251 TAATAACTCTATTTTCATT
1 TAATAACTCTATTTTCATT
34818270 TAA
1 TAA
34818273 AATATAAAAT
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
18 29 0.47
19 33 0.53
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATAACTCTATTTTCATT
Found at i:34818222 original size:37 final size:37
Alignment explanation
Indices: 34818181--34818272 Score: 157
Period size: 37 Copynumber: 2.5 Consensus size: 37
34818171 ATTAAGTAAT
*
34818181 AACTCTATTTTAATTTAATAAATTATTCTCATTTAAC
1 AACTCTATTTTAATTTAATAAACTATTCTCATTTAAC
*
34818218 AACTCTATTTTAATTTAATAAACTATTCTCATTTAAT
1 AACTCTATTTTAATTTAATAAACTATTCTCATTTAAC
*
34818255 AACTCTATTTTCATTTAA
1 AACTCTATTTTAATTTAA
34818273 AATATAAAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 52 1.00
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (37 bp):
AACTCTATTTTAATTTAATAAACTATTCTCATTTAAC
Found at i:34818520 original size:19 final size:19
Alignment explanation
Indices: 34818498--34818563 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
34818488 TTTAATTTTT
34818498 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
* * *
34818517 TTAAATGAGAATAG-TTTA
1 TTAAATTAAAATAGAGTTA
*
34818535 TTACATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
34818554 TTAAATTAAA
1 TTAAATTAAA
34818564 CTATTTTAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
18 14 0.37
19 24 0.63
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.38
Consensus pattern (19 bp):
TTAAATTAAAATAGAGTTA
Found at i:34818916 original size:27 final size:27
Alignment explanation
Indices: 34818875--34818926 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
34818865 CATTTTAGTC
34818875 CTTTGGCACCATTGGTGCCGCCAATCT
1 CTTTGGCACCATTGGTGCCGCCAATCT
*
34818902 CTTTGGCACCTTTGGTGCCGCCAAT
1 CTTTGGCACCATTGGTGCCGCCAAT
34818927 GTGATTGGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.13, C:0.33, G:0.23, T:0.31
Consensus pattern (27 bp):
CTTTGGCACCATTGGTGCCGCCAATCT
Found at i:34818934 original size:27 final size:27
Alignment explanation
Indices: 34818877--34818935 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
34818867 TTTTAGTCCT
*
34818877 TTGGCACCATTGGTGCCGCCAATCTCT
1 TTGGCACCATTGGTGCCGCCAATCTCA
* * *
34818904 TTGGCACCTTTGGTGCCGCCAATGTGA
1 TTGGCACCATTGGTGCCGCCAATCTCA
34818931 TTGGC
1 TTGGC
34818936 CTGATCAGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.14, C:0.29, G:0.27, T:0.31
Consensus pattern (27 bp):
TTGGCACCATTGGTGCCGCCAATCTCA
Found at i:34819039 original size:20 final size:20
Alignment explanation
Indices: 34818995--34819032 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
34818985 GCGATTCAAT
34818995 ATATATAATAATTATTTAAC
1 ATATATAATAATTATTTAAC
34819015 ATATATAATTAATT-TTTA
1 ATATATAA-TAATTATTTA
34819033 TAATATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATATAATAATTATTTAAC
Found at i:34821982 original size:14 final size:14
Alignment explanation
Indices: 34821963--34821997 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
34821953 AAACCCCAAA
34821963 CTTAAATCTCGAAC
1 CTTAAATCTCGAAC
* *
34821977 CTTAAACCTTGAAC
1 CTTAAATCTCGAAC
34821991 CTTAAAT
1 CTTAAAT
34821998 TTTAAACCCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (14 bp):
CTTAAATCTCGAAC
Found at i:34823578 original size:14 final size:14
Alignment explanation
Indices: 34823559--34823593 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
34823549 AAACCCCAAA
34823559 CTTAAATCTCGAAC
1 CTTAAATCTCGAAC
* *
34823573 CTTAAACCTTGAAC
1 CTTAAATCTCGAAC
34823587 CTTAAAT
1 CTTAAAT
34823594 TTTAAACCCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (14 bp):
CTTAAATCTCGAAC
Found at i:34827156 original size:10 final size:10
Alignment explanation
Indices: 34827141--34827176 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
34827131 TGAAATGAAA
34827141 TAGAAAATTT
1 TAGAAAATTT
*
34827151 TAGAAAAATT
1 TAGAAAATTT
34827161 TA-AAAATTT
1 TAGAAAATTT
34827170 TAGAAAA
1 TAGAAAA
34827177 AAAGGTCACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 8 0.35
10 15 0.65
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.33
Consensus pattern (10 bp):
TAGAAAATTT
Found at i:34833705 original size:12 final size:12
Alignment explanation
Indices: 34833688--34833713 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
34833678 ATTTTTATGA
34833688 TTTTTATAATTT
1 TTTTTATAATTT
34833700 TTTTTATAATTT
1 TTTTTATAATTT
34833712 TT
1 TT
34833714 ACGATTTTAT
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTTATAATTT
Found at i:34833712 original size:9 final size:9
Alignment explanation
Indices: 34833671--34833804 Score: 69
Period size: 9 Copynumber: 14.4 Consensus size: 9
34833661 TTTTGTTGCA
*
34833671 TTTTATTAT
1 TTTTATAAT
*
34833680 TTTTATGAT
1 TTTTATAAT
34833689 TTTTATAATTTT
1 TTTTATAA---T
34833701 TTTTATAAT
1 TTTTATAAT
**
34833710 TTTTACGA-
1 TTTTATAAT
34833718 TTTTATAAT
1 TTTTATAAT
*
34833727 TTTTAATAAA
1 TTTT-ATAAT
*
34833737 TTTTAGATAT
1 TTTTATA-AT
*
34833747 TTTTATTAAAA
1 TTTTA-T-AAT
* *
34833758 TTTAATCAT
1 TTTTATAAT
*
34833767 TTTTATAAC
1 TTTTATAAT
*
34833776 TTTTATTGAT
1 TTTTA-TAAT
34833786 TTTTAT--T
1 TTTTATAAT
34833793 TTTTAT-AT
1 TTTTATAAT
34833801 TTTT
1 TTTT
34833805 TTTGTCACAT
Statistics
Matches: 96, Mismatches: 19, Indels: 21
0.71 0.14 0.15
Matches are distributed among these distances:
7 7 0.07
8 11 0.11
9 41 0.43
10 22 0.23
11 5 0.05
12 10 0.10
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (9 bp):
TTTTATAAT
Found at i:34833712 original size:29 final size:30
Alignment explanation
Indices: 34833671--34833730 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 30
34833661 TTTTGTTGCA
*
34833671 TTTTATT-ATTTTTATGATTTTTATAATTTT
1 TTTTATTAATTTTTACGA-TTTTATAATTTT
34833701 TTTTA-TAATTTTTACGATTTTATAATTTT
1 TTTTATTAATTTTTACGATTTTATAATTTT
34833730 T
1 T
34833731 AATAAATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 14 0.50
30 14 0.50
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.70
Consensus pattern (30 bp):
TTTTATTAATTTTTACGATTTTATAATTTT
Found at i:34833712 original size:30 final size:29
Alignment explanation
Indices: 34833671--34833730 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 29
34833661 TTTTGTTGCA
* *
34833671 TTTTATTATTTTTATGATTTTTATAATTTT
1 TTTTATAATTTTTACGA-TTTTATAATTTT
34833701 TTTTATAATTTTTACGATTTTATAATTTT
1 TTTTATAATTTTTACGATTTTATAATTTT
34833730 T
1 T
34833731 AATAAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
29 13 0.46
30 15 0.54
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.70
Consensus pattern (29 bp):
TTTTATAATTTTTACGATTTTATAATTTT
Found at i:34833720 original size:21 final size:21
Alignment explanation
Indices: 34833679--34833721 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
34833669 CATTTTATTA
* *
34833679 TTTTTATGATTTTTATAATTT
1 TTTTTATAATTTTTACAATTT
*
34833700 TTTTTATAATTTTTACGATTT
1 TTTTTATAATTTTTACAATTT
34833721 T
1 T
34833722 ATAATTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.02, G:0.05, T:0.70
Consensus pattern (21 bp):
TTTTTATAATTTTTACAATTT
Found at i:34833739 original size:19 final size:19
Alignment explanation
Indices: 34833717--34833781 Score: 60
Period size: 20 Copynumber: 3.4 Consensus size: 19
34833707 AATTTTTACG
34833717 ATTTTATAATTTTTAATAA
1 ATTTTATAATTTTTAATAA
* *
34833736 ATTTTAGATATTTTTATTAAA
1 ATTTTATA-ATTTTTAAT-AA
* *
34833757 ATTTAATCATTTTT-ATAA
1 ATTTTATAATTTTTAATAA
*
34833775 CTTTTAT
1 ATTTTAT
34833782 TGATTTTTAT
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
18 7 0.19
19 8 0.22
20 14 0.39
21 7 0.19
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (19 bp):
ATTTTATAATTTTTAATAA
Found at i:34833750 original size:20 final size:20
Alignment explanation
Indices: 34833725--34833790 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
34833715 CGATTTTATA
34833725 ATTTTTAATAAATTTTAGAT-
1 ATTTTTAATAAATTTTA-ATC
* *
34833745 ATTTTTATTAAAATTTAATC
1 ATTTTTAATAAATTTTAATC
* * *
34833765 ATTTTT-ATAACTTTTATTG
1 ATTTTTAATAAATTTTAATC
34833784 ATTTTTA
1 ATTTTTA
34833791 TTTTTTATAT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 16 0.43
20 21 0.57
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (20 bp):
ATTTTTAATAAATTTTAATC
Found at i:34851133 original size:131 final size:131
Alignment explanation
Indices: 34850958--34851256 Score: 493
Period size: 131 Copynumber: 2.3 Consensus size: 131
34850948 ATTTACAAAT
* *
34850958 GTAACCAATTGAATTTTCCAATTAA---TCATACAATCATAATCAAATCAGAGTTTGTTCAAATA
1 GTAATCAATTGAATTATCCAATTAATTGTCATACAATCATAATCAAATCAGAGTTTGTTCAAATA
* *
34851020 TAAACCCAAAACTCATGTACTCATTTCTTGAACTATGAACGTAATTCCTTAAAAATAATTATGAA
66 TAAACCCAAAACTCATGTACTCATTTCTTAAACTATGAACATAATTCCTTAAAAATAATTATGAA
34851085 C
131 C
*
34851086 GTAATCAATTGAATTATCCAATTAATTGTCATACAATCATAATCAAATCAGAGTTTGTTTAAATA
1 GTAATCAATTGAATTATCCAATTAATTGTCATACAATCATAATCAAATCAGAGTTTGTTCAAATA
* *
34851151 TATACCCAAAACTCATGTACTCATTTCTTAAATTATGAACATAATTCCTTAAAAATAATTATGAA
66 TAAACCCAAAACTCATGTACTCATTTCTTAAACTATGAACATAATTCCTTAAAAATAATTATGAA
34851216 C
131 C
34851217 GTAATCAATTGAATTATCCAATTAATTG---TACAATCATAAT
1 GTAATCAATTGAATTATCCAATTAATTGTCATACAATCATAAT
34851257 TTTACAGTTG
Statistics
Matches: 161, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
128 35 0.22
131 126 0.78
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.35
Consensus pattern (131 bp):
GTAATCAATTGAATTATCCAATTAATTGTCATACAATCATAATCAAATCAGAGTTTGTTCAAATA
TAAACCCAAAACTCATGTACTCATTTCTTAAACTATGAACATAATTCCTTAAAAATAATTATGAA
C
Found at i:34851424 original size:110 final size:110
Alignment explanation
Indices: 34851224--34851424 Score: 246
Period size: 110 Copynumber: 1.8 Consensus size: 110
34851214 AACGTAATCA
**
34851224 ATTGAATTATCCAATTAATTGTACAATCATAATTTTACAGTTGGAACATAATTTGTTCGAATATA
1 ATTGAATTATCCAATTAATTGTACAATCATAAACTTACAGTTGGAACATAATTTGTTCGAATATA
* **
34851289 AGCCCTAAACACATATACACGTGTCTTGAATTACTAACATAATTG
66 AACCCTAAACACATATACAAATGTCTTGAATTACTAACATAATTG
* * * * *
34851334 ATTGAATTA-CTCAATTGATTGTACACTCATAAACTTATAGTT-GAATCGA-ATTTTGTTTGAAT
1 ATTGAATTATC-CAATTAATTGTACAATCATAAACTTACAGTTGGAA-C-ATAATTTGTTCGAAT
* *
34851396 ATAAACCCTAAACTCATATATAAATGTCT
63 ATAAACCCTAAACACATATACAAATGTCT
34851425 CAAATTACGA
Statistics
Matches: 76, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
109 4 0.05
110 71 0.93
111 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (110 bp):
ATTGAATTATCCAATTAATTGTACAATCATAAACTTACAGTTGGAACATAATTTGTTCGAATATA
AACCCTAAACACATATACAAATGTCTTGAATTACTAACATAATTG
Found at i:34851712 original size:132 final size:131
Alignment explanation
Indices: 34851544--34851786 Score: 335
Period size: 132 Copynumber: 1.8 Consensus size: 131
34851534 ATTGATTGCA
* *
34851544 TTATTCAATTAATCTATAATCATAAAGTTACAATTGAATCGAAAGTTGTT-AAAGTGTAAACCCT
1 TTATCCAATTAATCTATAATCATAAAGTTACAATTGAATCGAAAGTTGTTCAAA-TATAAACCCT
* ** * *
34851608 ACACTCATATCCACATGTCTTGAATTATGAACGTAACCGATTGAATTCTAATTAATTGTACAATC
65 AAACTCATATCCACATGTCTCAAATTATGAACATAACCAATTGAATTCTAATTAATTGTACAATC
34851673 AT
130 AT
* * * *
34851675 TTATCCAATTAATCGTATAATCATGAATTTACAATTGAATCGAAATTTGTTCAAATATGAACCCT
1 TTATCCAATTAATC-TATAATCATAAAGTTACAATTGAATCGAAAGTTGTTCAAATATAAACCCT
** *
34851740 AAACTCATATGTACATGTCTCAAATTTTGAACATAACCAATTGAATT
65 AAACTCATATCCACATGTCTCAAATTATGAACATAACCAATTGAATT
34851787 ATCCAATTAA
Statistics
Matches: 96, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
131 13 0.14
132 80 0.83
133 3 0.03
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (131 bp):
TTATCCAATTAATCTATAATCATAAAGTTACAATTGAATCGAAAGTTGTTCAAATATAAACCCTA
AACTCATATCCACATGTCTCAAATTATGAACATAACCAATTGAATTCTAATTAATTGTACAATCA
T
Found at i:34852167 original size:18 final size:17
Alignment explanation
Indices: 34852119--34852167 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 17
34852109 TTAATCCTAC
34852119 AATCATAAATTTATATTTG
1 AATCA-AAATTT-TATTTG
34852138 AATCAAAA-TTTATTTG
1 AATCAAAATTTTATTTG
*
34852154 AATATAAAATTTTA
1 AAT-CAAAATTTTA
34852168 AGTGTGTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 9 0.33
17 6 0.22
18 7 0.26
19 5 0.19
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (17 bp):
AATCAAAATTTTATTTG
Found at i:34852501 original size:24 final size:24
Alignment explanation
Indices: 34852458--34852519 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
34852448 CCCTTCAAAG
*
34852458 ATAATGAAATTATAAGTTAATATA
1 ATAATAAAATTATAAGTTAATATA
* * *
34852482 ATGATAAAATTGTAATTTAATATA
1 ATAATAAAATTATAAGTTAATATA
*
34852506 ATAATAAAACTATA
1 ATAATAAAATTATA
34852520 CTTTTAATCC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (24 bp):
ATAATAAAATTATAAGTTAATATA
Found at i:34865272 original size:114 final size:114
Alignment explanation
Indices: 34865072--34865302 Score: 435
Period size: 114 Copynumber: 2.0 Consensus size: 114
34865062 TGCACAATTG
34865072 TGTTTTAAGTGATGTTATTTTGAAAATGTTTCAAAATAGCCAAAATTGGTGCCACAAGGGCGACC
1 TGTTTTAAGTGATGTTATTTTGAAAATGTTTCAAAATAGCCAAAATTGGTGCCACAAGGGCGACC
*
34865137 ATATGGCCGTATGAGATACACAGGCCAGAGGCACGATCGTGTTCTTATT
66 ATACGGCCGTATGAGATACACAGGCCAGAGGCACGATCGTGTTCTTATT
*
34865186 TGTTTTAAGTGATGTTATTTTGAAAATGTTTCAAAATAGCCAAAATTGGTGCCACAAGGGCGGCC
1 TGTTTTAAGTGATGTTATTTTGAAAATGTTTCAAAATAGCCAAAATTGGTGCCACAAGGGCGACC
*
34865251 ATACGGCCGTATGAGATACACAGGCTAGAGGCACGATCGTGTTCTTATT
66 ATACGGCCGTATGAGATACACAGGCCAGAGGCACGATCGTGTTCTTATT
34865300 TGT
1 TGT
34865303 AAATTTTTTA
Statistics
Matches: 114, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
114 114 1.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (114 bp):
TGTTTTAAGTGATGTTATTTTGAAAATGTTTCAAAATAGCCAAAATTGGTGCCACAAGGGCGACC
ATACGGCCGTATGAGATACACAGGCCAGAGGCACGATCGTGTTCTTATT
Found at i:34869320 original size:11 final size:11
Alignment explanation
Indices: 34869304--34869336 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
34869294 TATTTTTTAA
34869304 TTTTAAAATAT
1 TTTTAAAATAT
34869315 TTTTAAAATAT
1 TTTTAAAATAT
34869326 TTTTAAAATAT
1 TTTTAAAATAT
34869337 ATATTTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:34871980 original size:21 final size:19
Alignment explanation
Indices: 34871936--34871980 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
34871926 ATTTTACATG
*
34871936 CACACATGATTCCACTAAT
1 CACACACGATTCCACTAAT
34871955 CACACACGATTCCACTAAT
1 CACACACGATTCCACTAAT
*
34871974 CAGACAC
1 CACACAC
34871981 CATTAACGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.38, C:0.36, G:0.07, T:0.20
Consensus pattern (19 bp):
CACACACGATTCCACTAAT
Found at i:34878190 original size:17 final size:17
Alignment explanation
Indices: 34878168--34878200 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
34878158 TTTCAGATTT
34878168 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
34878185 TGATACCCATATCTTT
1 TGATACCCATATCTTT
34878201 GACTTTCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.27, G:0.06, T:0.42
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:34879014 original size:3 final size:3
Alignment explanation
Indices: 34879006--34879044 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
34878996 CATTTGACCC
34879006 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
34879045 CATCATCATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:34879049 original size:3 final size:3
Alignment explanation
Indices: 34879043--34879089 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
34879033 TATTATTATT
34879043 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
34879090 TAAAACTAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:34888011 original size:26 final size:26
Alignment explanation
Indices: 34887975--34888036 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
34887965 ACATGTTTTC
* *
34887975 TCAAATTTTTACT-AGGAGCAAAATTG
1 TCAAAATTTTACTAAAG-GCAAAATTG
* *
34888001 TCAAAATTTTATTAAAGGTAAAATTG
1 TCAAAATTTTACTAAAGGCAAAATTG
34888027 TCAAAATTTT
1 TCAAAATTTT
34888037 GCTGGGGGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 29 0.94
27 2 0.06
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (26 bp):
TCAAAATTTTACTAAAGGCAAAATTG
Found at i:34899935 original size:20 final size:20
Alignment explanation
Indices: 34899904--34899965 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 20
34899894 TAAAAAATTC
34899904 AAATATTAAAAATTAGAAAAA
1 AAATA-TAAAAATTAGAAAAA
* *
34899925 AAATATAAAAATCATAAAAA
1 AAATATAAAAATTAGAAAAA
34899945 AAATTATAAAACATATAGAAA
1 AAA-TATAAAA-AT-TAGAAA
34899966 TATAAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
20 16 0.47
21 12 0.35
22 2 0.06
23 4 0.12
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (20 bp):
AAATATAAAAATTAGAAAAA
Found at i:34899943 original size:19 final size:18
Alignment explanation
Indices: 34899921--34899973 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
34899911 AAAAATTAGA
34899921 AAAAAAATATAAAAATCAT
1 AAAAAAATATAAAAA-CAT
34899940 AAAAAAA-ATTATAAAACAT
1 AAAAAAATA-TA-AAAACAT
* *
34899959 ATAGAAATATAAAAA
1 AAAAAAATATAAAAA
34899974 AATTATAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
18 5 0.17
19 19 0.66
20 5 0.17
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.21
Consensus pattern (18 bp):
AAAAAAATATAAAAACAT
Done.