Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 26 of 196
Found at i:7389862 original size:20 final size:18
Alignment explanation
Indices: 7389825--7389863 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
7389815 GGTGGTTTAC
*
7389825 TATTTTTTTTCTTTCGAT
1 TATTTTTTTTATTTCGAT
7389843 TATTATTTTTTATTTACGAT
1 TATT-TTTTTTATTT-CGAT
7389863 T
1 T
7389864 TTAAAAAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 9 0.50
20 5 0.28
ACGTcount: A:0.18, C:0.08, G:0.05, T:0.69
Consensus pattern (18 bp):
TATTTTTTTTATTTCGAT
Found at i:7390267 original size:23 final size:23
Alignment explanation
Indices: 7390227--7390279 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
7390217 ATGTACACAT
7390227 ATATATTTTTAAACGAATATTTTC
1 ATAT-TTTTTAAACGAATATTTTC
* * *
7390251 CTATTTTTTTAATGAATATTTTC
1 ATATTTTTTAAACGAATATTTTC
7390274 ATATTT
1 ATATTT
7390280 ATATGTATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 22 0.88
24 3 0.12
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.57
Consensus pattern (23 bp):
ATATTTTTTAAACGAATATTTTC
Found at i:7391058 original size:98 final size:98
Alignment explanation
Indices: 7390938--7391132 Score: 345
Period size: 98 Copynumber: 2.0 Consensus size: 98
7390928 TTAAAAATAA
* *
7390938 TAAAGGAAATATTCCGAATTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAATTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
7391003 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
** *
7391036 TAAAGGAAATATTCCGGGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAATTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
7391101 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
7391133 ATTTTATTGT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAATTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:7392694 original size:19 final size:20
Alignment explanation
Indices: 7392670--7392716 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
7392660 AGGTTTTAGT
7392670 TTATTTTATATTAATAT-AA
1 TTATTTTATATTAATATAAA
*
7392689 TTATTTAATATTAATATAAA
1 TTATTTTATATTAATATAAA
7392709 TT-TTTTAT
1 TTATTTTAT
7392717 TTATTTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 21 0.84
20 4 0.16
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TTATTTTATATTAATATAAA
Found at i:7392766 original size:19 final size:20
Alignment explanation
Indices: 7392713--7392754 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
7392703 TATAAATTTT
**
7392713 TTATTTATTTTTTATAATAA
1 TTATTTATAATTTATAATAA
7392733 TTATTTATAATTTAT-ATAA
1 TTATTTATAATTTATAATAA
7392752 TTA
1 TTA
7392755 ATTTTACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTATTTATAATTTATAATAA
Found at i:7401185 original size:7 final size:7
Alignment explanation
Indices: 7401168--7401199 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
7401158 TTCCAAATTT
7401168 TTAAT-A
1 TTAATAA
7401174 TTAATAA
1 TTAATAA
7401181 TTAATAA
1 TTAATAA
7401188 TTAATAA
1 TTAATAA
7401195 TTAAT
1 TTAAT
7401200 TTATTTATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.20
7 20 0.80
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TTAATAA
Found at i:7401753 original size:19 final size:19
Alignment explanation
Indices: 7401725--7401787 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 19
7401715 CAAAAAAATC
*
7401725 AAAATAAATTTCAAAAATTT
1 AAAAT-AATTTTAAAAATTT
*
7401745 AAAATAATTTTTAAAATTT
1 AAAATAATTTTAAAAATTT
7401764 AAAAT-ATTTATAAAAATTT
1 AAAATAATTT-TAAAAATTT
*
7401783 TAAAT
1 AAAAT
7401788 TTTGTATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
18 4 0.11
19 29 0.76
20 5 0.13
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAATAATTTTAAAAATTT
Found at i:7401772 original size:28 final size:28
Alignment explanation
Indices: 7401730--7401783 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
7401720 AAATCAAAAT
7401730 AAATTTCAAAAATTTA-AAATAATTTTTA
1 AAATTTCAAAAATTTATAAA-AATTTTTA
7401758 AAATTT-AAAATATTTATAAAAATTTT
1 AAATTTCAAAA-ATTTATAAAAATTTT
7401784 AAATTTTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 4 0.17
28 17 0.71
29 3 0.12
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (28 bp):
AAATTTCAAAAATTTATAAAAATTTTTA
Found at i:7401786 original size:9 final size:9
Alignment explanation
Indices: 7401730--7401786 Score: 53
Period size: 9 Copynumber: 6.1 Consensus size: 9
7401720 AAATCAAAAT
*
7401730 AAATTTCAA
1 AAATTTTAA
*
7401739 AAATTTAAA
1 AAATTTTAA
*
7401748 ATAATTTTTA
1 A-AATTTTAA
7401758 AAA-TTTAA
1 AAATTTTAA
7401766 AATATTTATAA
1 AA-ATTT-TAA
7401777 AAATTTTAA
1 AAATTTTAA
7401786 A
1 A
7401787 TTTTGTATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
8 6 0.15
9 16 0.40
10 13 0.32
11 5 0.12
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (9 bp):
AAATTTTAA
Found at i:7402199 original size:21 final size:21
Alignment explanation
Indices: 7402175--7402214 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
7402165 ACCTTATCTA
*
7402175 AAGTTAAAAGTCAAAACTATT
1 AAGTTAAAAGGCAAAACTATT
7402196 AAGTTAAAAGGCAAAACTA
1 AAGTTAAAAGGCAAAACTA
7402215 CGTTGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.10, G:0.12, T:0.23
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAACTATT
Found at i:7402627 original size:9 final size:8
Alignment explanation
Indices: 7402613--7402651 Score: 51
Period size: 9 Copynumber: 4.5 Consensus size: 8
7402603 ATTGTGTTAT
7402613 TTTTCTCTC
1 TTTTCT-TC
7402622 TTTTCTTC
1 TTTTCTTC
7402630 TTTTTCTTC
1 -TTTTCTTC
7402639 TTCTTCTTC
1 TT-TTCTTC
7402648 TTTT
1 TTTT
7402652 TTTTTTCACC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 6 0.21
9 22 0.79
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTTCTTC
Found at i:7402635 original size:18 final size:18
Alignment explanation
Indices: 7402612--7402652 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
7402602 TATTGTGTTA
7402612 TTTTTCTCTCTT-TTCTTC
1 TTTTTCT-TCTTCTTCTTC
7402630 TTTTTCTTCTTCTTCTTC
1 TTTTTCTTCTTCTTCTTC
7402648 TTTTT
1 TTTTT
7402653 TTTTTCACCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTTCTTCTTCTTCTTC
Found at i:7405171 original size:91 final size:90
Alignment explanation
Indices: 7405014--7405223 Score: 275
Period size: 91 Copynumber: 2.3 Consensus size: 90
7405004 ACTGATAGTT
* * * * * *
7405014 TTAA-CTACAAACACTAGTGGTTTATCCATAA-AT-TACTGGCAGCTTTCATCTGTAAAACCGTT
1 TTAACCTAC-AACACTTGTGGTATATCCACAACTTATACTGGCAACTTTCATCTGCAAAACCGTT
*
7405076 GTGTATTCACAACTACTAGCAACATA
65 GTGTATTCACAACTACTAACAACATA
* *
7405102 TTAACCTACAAGCATTTGTGGTATATCCACAACTTATACTGGCAACTATT-ATCTGCAAACCCGT
1 TTAACCTACAA-CACTTGTGGTATATCCACAACTTATACTGGCAACT-TTCATCTGCAAAACCGT
7405166 TGTGTATTCACAACTACTAACAACATA
64 TGTGTATTCACAACTACTAACAACATA
*
7405193 TTAACCTACAACACTTGTGGTTTATCCACAA
1 TTAACCTACAACACTTGTGGTATATCCACAA
7405224 TATAAAGTGT
Statistics
Matches: 106, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
88 6 0.06
89 20 0.19
90 19 0.18
91 59 0.56
92 2 0.02
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.31
Consensus pattern (90 bp):
TTAACCTACAACACTTGTGGTATATCCACAACTTATACTGGCAACTTTCATCTGCAAAACCGTTG
TGTATTCACAACTACTAACAACATA
Found at i:7405223 original size:45 final size:45
Alignment explanation
Indices: 7405083--7405223 Score: 130
Period size: 42 Copynumber: 3.1 Consensus size: 45
7405073 GTTGTGTATT
*
7405083 CACAACTACTAGCAACATATTAACCTACAAGCATTTGTGGTATATC
1 CACAACTACTAGCAACATATTAACCTACAA-CACTTGTGGTATATC
* * * *
7405129 CACAACTTATACTGGCAAC-TATT-ATCTGCAAACCCGTTGT-GTAT-T-
1 CACAAC---TACTAGCAACATATTAACCTAC-AACAC-TTGTGGTATATC
* *
7405174 CACAACTACTAACAACATATTAACCTACAACACTTGTGGTTTATC
1 CACAACTACTAGCAACATATTAACCTACAACACTTGTGGTATATC
7405219 CACAA
1 CACAA
7405224 TATAAAGTGT
Statistics
Matches: 74, Mismatches: 11, Indels: 21
0.70 0.10 0.20
Matches are distributed among these distances:
42 12 0.16
43 11 0.15
44 5 0.07
45 11 0.15
46 7 0.09
47 9 0.12
48 10 0.14
49 9 0.12
ACGTcount: A:0.35, C:0.26, G:0.10, T:0.29
Consensus pattern (45 bp):
CACAACTACTAGCAACATATTAACCTACAACACTTGTGGTATATC
Found at i:7406017 original size:331 final size:331
Alignment explanation
Indices: 7405415--7406390 Score: 1925
Period size: 331 Copynumber: 2.9 Consensus size: 331
7405405 GTTATTACAT
7405415 ATGCTTGGATTATTATTTGGCACTGATTCATGTGATGGAATTCACACTGAGCGTCACAGCTTACT
1 ATGCTTGGATTATTATTTGGCACTGATTCATGTGATGGAATTCACACTGAGCGTCACAGCTTACT
*
7405480 CTCCCTTTAATTTTCATCATTACAGATAACCTATCAATTTAAGACTTAGATGCGACATCCAGAGG
66 CTCCCTTTAATTTTCATCATTACAGATAACCTATCAATTTAAGACTCAGATGCGACATCCAGAGG
7405545 GCCTCGGCTCGATTTCTAATTACAAAATTATTTTAGGTTCATTATATGATTTATTATATTATTCG
131 GCCTCGGCTCGATTTCTAATTACAAAATTATTTTAGGTTCATTATATGATTTATTATATTATTCG
7405610 AGTACTGTAATATTTTACTATAAACTGTGGCATAGGACTTAAGGTTTTGATTTTATTTTGTATTA
196 AGTACTGTAATATTTTACTATAAACTGTGGCATAGGACTTAAGGTTTTGATTTTATTTTGTATTA
7405675 CACTTAATTTATTCAGGATAATAATAGATGATTATTAATAAGCTATGCATGAAATTCATGTGATT
261 CACTTAATTTATTCAGGATAATAATAGATGATTATTAATAAGCTATGCATGAAATTCATGTGATT
7405740 CATGTG
326 CATGTG
7405746 ATGCTTGGATTATTATTTGGCACTGATTCATGTGATGGAATTCACACTGAGCGTCACAGCTTACT
1 ATGCTTGGATTATTATTTGGCACTGATTCATGTGATGGAATTCACACTGAGCGTCACAGCTTACT
7405811 CTCCCTTTAATTTTCATCATTACAGATAACCTATCAATTTAAGACTCAGATGCGACATCCAGAGG
66 CTCCCTTTAATTTTCATCATTACAGATAACCTATCAATTTAAGACTCAGATGCGACATCCAGAGG
7405876 GCCTCGGCTCGATTTCTAATTACAAAATTATTTTAGGTTCATTATATGATTTATTATATTATTCG
131 GCCTCGGCTCGATTTCTAATTACAAAATTATTTTAGGTTCATTATATGATTTATTATATTATTCG
7405941 AGTACTGTAATATTTTACTATAAACTGTGGCATAGGACTTAAGGTTTTGATTTTATTTTGTATTA
196 AGTACTGTAATATTTTACTATAAACTGTGGCATAGGACTTAAGGTTTTGATTTTATTTTGTATTA
7406006 CACTTAATTTATTCAGGATAATAATAGATGATTATTAATAAGCTATGCATGAAATTCATGTGATT
261 CACTTAATTTATTCAGGATAATAATAGATGATTATTAATAAGCTATGCATGAAATTCATGTGATT
7406071 CATGTG
326 CATGTG
*
7406077 ATGCTTGGATTATTATTTGGCACTGATTCATGTGATGGAATTCACACTGAGCGTCACAACTTACT
1 ATGCTTGGATTATTATTTGGCACTGATTCATGTGATGGAATTCACACTGAGCGTCACAGCTTACT
7406142 CTCCCTTTAATTTTCATCATTACAGATAACCTATCAATTTAAGACTCAGATGCGACATCCAGAGG
66 CTCCCTTTAATTTTCATCATTACAGATAACCTATCAATTTAAGACTCAGATGCGACATCCAGAGG
7406207 GCCTCGGCTCGATTTCTAATTACAAAATTATTTTAGGTTCATTATATGATTTATTATATTATTCG
131 GCCTCGGCTCGATTTCTAATTACAAAATTATTTTAGGTTCATTATATGATTTATTATATTATTCG
7406272 AGTACTGTAATATTTTACTATAAACTGTGGCATAGGACTTAAGGTTTTGATTTTATTTTGTATTA
196 AGTACTGTAATATTTTACTATAAACTGTGGCATAGGACTTAAGGTTTTGATTTTATTTTGTATTA
*
7406337 CACTTAATTTATTCAGGATAATAATAGATGATTATTAGTAAGCTATGCATGAAA
261 CACTTAATTTATTCAGGATAATAATAGATGATTATTAATAAGCTATGCATGAAA
7406391 CCCCAGGTTT
Statistics
Matches: 642, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
331 642 1.00
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (331 bp):
ATGCTTGGATTATTATTTGGCACTGATTCATGTGATGGAATTCACACTGAGCGTCACAGCTTACT
CTCCCTTTAATTTTCATCATTACAGATAACCTATCAATTTAAGACTCAGATGCGACATCCAGAGG
GCCTCGGCTCGATTTCTAATTACAAAATTATTTTAGGTTCATTATATGATTTATTATATTATTCG
AGTACTGTAATATTTTACTATAAACTGTGGCATAGGACTTAAGGTTTTGATTTTATTTTGTATTA
CACTTAATTTATTCAGGATAATAATAGATGATTATTAATAAGCTATGCATGAAATTCATGTGATT
CATGTG
Found at i:7413834 original size:39 final size:40
Alignment explanation
Indices: 7413744--7413949 Score: 213
Period size: 45 Copynumber: 5.0 Consensus size: 40
7413734 GTAACGGTAG
* *
7413744 CAGTAACAGTATTCAACACACAAAGTGCTGAATCTGTAACAGTAA
1 CAGTAACAGTATTCGACACACAAAGTGCCGAATC-G----AGTAA
**
7413789 TGGTAACAGTATTCGACACACAAAGTGCCGAATCGATAACAGTAA
1 CAGTAACAGTATTCGACACACAAAGTGCCGAATCG-----AGTAA
*
7413834 CAGTAACAGTATTCGACACACAAAGTGCCGAGTCG-GTAA
1 CAGTAACAGTATTCGACACACAAAGTGCCGAATCGAGTAA
7413873 CAGTAACAGTATTCGACACACAAAGTGCCGAATC-AGTAA
1 CAGTAACAGTATTCGACACACAAAGTGCCGAATCGAGTAA
* * * *
7413912 CAGTAACAGTAGTCGGCACA-TAAGTGCCTAATC-AGTAA
1 CAGTAACAGTATTCGACACACAAAGTGCCGAATCGAGTAA
7413950 GCCGGCAAAT
Statistics
Matches: 147, Mismatches: 12, Indels: 11
0.86 0.07 0.06
Matches are distributed among these distances:
38 16 0.11
39 59 0.40
44 1 0.01
45 71 0.48
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.20
Consensus pattern (40 bp):
CAGTAACAGTATTCGACACACAAAGTGCCGAATCGAGTAA
Found at i:7413910 original size:33 final size:34
Alignment explanation
Indices: 7413832--7413916 Score: 109
Period size: 39 Copynumber: 2.4 Consensus size: 34
7413822 CGATAACAGT
7413832 AACAGTAACAGTATTCGACACACAAAGTGCCGAGTCGG
1 AACAGTAACAGTATTCGACACACAAAGTGCCGA----G
7413870 TAACAGTAACAGTATTCGACACACAAAGTGCCGA-
1 -AACAGTAACAGTATTCGACACACAAAGTGCCGAG
*
7413904 ATCAGTAACAGTA
1 AACAGTAACAGTA
7413917 ACAGTAGTCG
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
33 12 0.27
39 33 0.73
ACGTcount: A:0.40, C:0.22, G:0.20, T:0.18
Consensus pattern (34 bp):
AACAGTAACAGTATTCGACACACAAAGTGCCGAG
Found at i:7413918 original size:45 final size:45
Alignment explanation
Indices: 7413729--7413922 Score: 258
Period size: 45 Copynumber: 4.4 Consensus size: 45
7413719 GGTATACAGT
* * * *
7413729 AATCAGTAACGGTAGCAGTAACAGTATTCAACACACAAAGTGCTG
1 AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
* **
7413774 AATCTGTAACAGTAATGGTAACAGTATTCGACACACAAAGTGCCG
1 AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
7413819 AATC-GATAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
1 AATCAG-TAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
*
7413864 ----AGT--CGGTAACAGTAACAGTATTCGACACACAAAGTGCCG
1 AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
7413903 AATCAGTAACAGTAACAGTA
1 AATCAGTAACAGTAACAGTA
7413923 GTCGGCACAT
Statistics
Matches: 130, Mismatches: 11, Indels: 16
0.83 0.07 0.10
Matches are distributed among these distances:
39 35 0.27
41 1 0.01
42 1 0.01
43 3 0.02
44 1 0.01
45 89 0.68
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.20
Consensus pattern (45 bp):
AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
Found at i:7426387 original size:32 final size:32
Alignment explanation
Indices: 7426346--7426408 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
7426336 GTGAAGTGAC
7426346 AATTTAAAAATTGGTATAATAATAAATTTAGT
1 AATTTAAAAATTGGTATAATAATAAATTTAGT
7426378 AATTTAAAAATTGGTATAATAATAAATTTAG
1 AATTTAAAAATTGGTATAATAATAAATTTAG
7426409 CTCATAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.40
Consensus pattern (32 bp):
AATTTAAAAATTGGTATAATAATAAATTTAGT
Found at i:7428297 original size:3 final size:3
Alignment explanation
Indices: 7428291--7428322 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
7428281 ACTAATTAGT
7428291 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
7428323 TCTCTTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:7430751 original size:20 final size:21
Alignment explanation
Indices: 7430705--7430751 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
7430695 AAACAGACCT
*
7430705 AACCCAAAACAATAAAATTAC
1 AACCCAAAACAATAAAATTAA
*
7430726 AGCCCAAAA-AGA-AAAATTAA
1 AACCCAAAACA-ATAAAATTAA
7430746 AACCCA
1 AACCCA
7430752 GCCCAAAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.62, C:0.23, G:0.04, T:0.11
Consensus pattern (21 bp):
AACCCAAAACAATAAAATTAA
Found at i:7431849 original size:15 final size:16
Alignment explanation
Indices: 7431826--7431858 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
7431816 TTTGTTTTAA
7431826 ATTTATATATATTATT
1 ATTTATATATATTATT
7431842 ATTT-TATATATTATT
1 ATTTATATATATTATT
7431857 AT
1 AT
7431859 CTATGTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATTTATATATATTATT
Found at i:7432807 original size:109 final size:111
Alignment explanation
Indices: 7432616--7432913 Score: 519
Period size: 109 Copynumber: 2.7 Consensus size: 111
7432606 AAAGAAAAGT
*
7432616 ATTTTAAAATAAAGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
1 ATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
7432681 TCGATTTTTCTCGTTCAACCAAAGGGCTTAATATCC-TTTT-AAAA
66 TCGATTTTTCTCGTTCAACCAAAGGGCTTAATATCCTTTTTAAAAA
*
7432725 ATTTTAAAATAAGGTAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
1 ATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
*
7432790 TCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTTAAAAAA
66 TCGATTTTTCTCGTTCAACCAAAGGGCTTAATATCCTTTTT-AAAAA
* * *
7432837 ATTTCAAAATAAGGCAATGTTTTGCATTTGAAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
1 ATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
7432902 TCGATTTTTCTC
66 TCGATTTTTCTC
7432914 ATTTAAACAA
Statistics
Matches: 179, Mismatches: 7, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
109 98 0.55
110 4 0.02
112 77 0.43
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (111 bp):
ATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
TCGATTTTTCTCGTTCAACCAAAGGGCTTAATATCCTTTTTAAAAA
Found at i:7436169 original size:17 final size:17
Alignment explanation
Indices: 7436147--7436190 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
7436137 CTAAGTTGAT
*
7436147 TAATTAAAATCTCTTTC
1 TAATTAAAACCTCTTTC
7436164 TAATTAAAACCTCTTTC
1 TAATTAAAACCTCTTTC
7436181 TAATTAAAAC
1 TAATTAAAAC
7436191 ACATATTGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (17 bp):
TAATTAAAACCTCTTTC
Found at i:7436835 original size:30 final size:30
Alignment explanation
Indices: 7436786--7436842 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
7436776 CACTGGCTGG
*
7436786 CACAAGGGCGTGTGTCCAGCCCGTGTGTCC
1 CACAAGGGCGTGTGCCCAGCCCGTGTGTCC
* *
7436816 CACATGGGTGTGTGCCCAGCCCGTGTG
1 CACAAGGGCGTGTGCCCAGCCCGTGTG
7436843 GCTTCTGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.12, C:0.32, G:0.35, T:0.21
Consensus pattern (30 bp):
CACAAGGGCGTGTGCCCAGCCCGTGTGTCC
Found at i:7442621 original size:135 final size:135
Alignment explanation
Indices: 7442379--7442644 Score: 424
Period size: 135 Copynumber: 2.0 Consensus size: 135
7442369 CCAATTTACT
* * * * *
7442379 TGCAGGGGAAGAGTTTCAACTTTGCTTGGCAGTGATTTCCGAGATACAATGGACCGATTAATGAC
1 TGCAGGGGAAGAGTTTCAACTTTACTTGACAGTGATTTCCGAGAGAAAATGAACCGATTAATGAC
*
7442444 TTCTCGTGTACAAATGCAAGCGGATGGGGCTGAAAGTCAACAAGAAGTGGATGATAAGGAAGGAA
66 TTCTCGTGTACAAATGCAAGCGGATGGGGCTGAAAGTCAACAAGAAGTGGAGGATAAGGAAGGAA
7442509 TTATA
131 TTATA
* *
7442514 TGCAGGGGAAGAGTTTCAACTTTATTTGACAGTGATTTCCTAGAGAAAATGAACCGATTAATGAC
1 TGCAGGGGAAGAGTTTCAACTTTACTTGACAGTGATTTCCGAGAGAAAATGAACCGATTAATGAC
* ** *
7442579 TTCTCGTGTACAAATGCAAGCTGATGTTGCTGAAAGTCAACAAGAAGTTGAGGATAAGGAAGGAA
66 TTCTCGTGTACAAATGCAAGCGGATGGGGCTGAAAGTCAACAAGAAGTGGAGGATAAGGAAGGAA
7442644 T
131 T
7442645 GGTCCAACCA
Statistics
Matches: 119, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
135 119 1.00
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.26
Consensus pattern (135 bp):
TGCAGGGGAAGAGTTTCAACTTTACTTGACAGTGATTTCCGAGAGAAAATGAACCGATTAATGAC
TTCTCGTGTACAAATGCAAGCGGATGGGGCTGAAAGTCAACAAGAAGTGGAGGATAAGGAAGGAA
TTATA
Found at i:7442783 original size:3 final size:3
Alignment explanation
Indices: 7442664--7442765 Score: 159
Period size: 3 Copynumber: 34.0 Consensus size: 3
7442654 AGTGTCTTAC
*
7442664 GAA GAA GAA GAA GAA GAA GAG GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* * * *
7442712 GAA GAA GAA GAA GAA GAA GAA GAA GAG GAA GAG GAA GAG GAA GAG GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
7442760 GAA GAA
1 GAA GAA
7442766 TACGACGATG
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 89 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:7445620 original size:32 final size:32
Alignment explanation
Indices: 7445559--7445620 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
7445549 TTAAAAAGAT
*
7445559 TATAATTGTTTAATAATTCATTGTATTTTTTC
1 TATAATTGTTTAATAATTCATTATATTTTTTC
*
7445591 TATAATTGTTTTAT-ATT-ATTAATATTTTTT
1 TATAATTGTTTAATAATTCATT-ATATTTTTT
7445621 AAAAGATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 3 0.11
31 11 0.41
32 13 0.48
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (32 bp):
TATAATTGTTTAATAATTCATTATATTTTTTC
Found at i:7445679 original size:18 final size:19
Alignment explanation
Indices: 7445656--7445691 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
7445646 AAATTTATTG
7445656 TAATTT-TATATTTTTTAA
1 TAATTTATATATTTTTTAA
*
7445674 TAATTTATGTATTTTTTA
1 TAATTTATATATTTTTTA
7445692 TATTTTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (19 bp):
TAATTTATATATTTTTTAA
Found at i:7445681 original size:28 final size:28
Alignment explanation
Indices: 7445647--7445701 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
7445637 TTAAAATTTA
7445647 AATTTATTGTA-ATTTTATATTTTTTAAT
1 AATTTA-TGTATATTTTATATTTTTTAAT
*
7445675 AATTTATGTATTTTTTATATTTTTTAA
1 AATTTATGTATATTTTATATTTTTTAA
7445702 GCAGAAGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 4 0.16
28 21 0.84
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (28 bp):
AATTTATGTATATTTTATATTTTTTAAT
Found at i:7447190 original size:12 final size:13
Alignment explanation
Indices: 7447172--7447202 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
7447162 CTCTTTACCC
7447172 CCTTCATACAAGT
1 CCTTCATACAAGT
7447185 -CTTCATACAAGT
1 CCTTCATACAAGT
7447197 CCTTCA
1 CCTTCA
7447203 GGGAGACCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.29, C:0.32, G:0.06, T:0.32
Consensus pattern (13 bp):
CCTTCATACAAGT
Found at i:7452434 original size:26 final size:24
Alignment explanation
Indices: 7452396--7452444 Score: 80
Period size: 26 Copynumber: 2.0 Consensus size: 24
7452386 TGGCTCAATT
7452396 TTTTATTATAAGTTATTTATGTTA
1 TTTTATTATAAGTTATTTATGTTA
7452420 TTTTATATATAAAGTTATTTATGTT
1 TTTTAT-TAT-AAGTTATTTATGTT
7452445 TGACACCGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 6 0.26
25 3 0.13
26 14 0.61
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (24 bp):
TTTTATTATAAGTTATTTATGTTA
Found at i:7456420 original size:31 final size:31
Alignment explanation
Indices: 7456385--7456445 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
7456375 TATCCTTATG
*
7456385 ACTTAAATAAAAAC-TTCTGAATAGTTCAATA
1 ACTTAAATAAAAACTTTC-GAATAATTCAATA
*
7456416 ACTTAAATGAAAACTTTCGAATAATTCAAT
1 ACTTAAATAAAAACTTTCGAATAATTCAAT
7456446 GATTATTTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 24 0.89
32 3 0.11
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.33
Consensus pattern (31 bp):
ACTTAAATAAAAACTTTCGAATAATTCAATA
Found at i:7459214 original size:62 final size:59
Alignment explanation
Indices: 7459110--7459226 Score: 162
Period size: 62 Copynumber: 1.9 Consensus size: 59
7459100 ATCACTTTAA
* *
7459110 TATTAAATTAATATAATACTTATCAAGATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAATTAATAGAATACTTATCAAGATAAATATTAAATTAAATTTAATATTAAATCT
* * *
7459169 TATTAAATTGATAGAATATTTATCTATAAGATAAATATTAAATTAATTTTAATATTAA
1 TATTAAATTAATAGAATACTTATC---AAGATAAATATTAAATTAAATTTAATATTAA
7459227 GATAATCAGT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 21 0.42
62 29 0.58
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.44
Consensus pattern (59 bp):
TATTAAATTAATAGAATACTTATCAAGATAAATATTAAATTAAATTTAATATTAAATCT
Found at i:7459252 original size:20 final size:17
Alignment explanation
Indices: 7459202--7459252 Score: 59
Period size: 20 Copynumber: 2.8 Consensus size: 17
7459192 CTATAAGATA
7459202 AATATTAAATTAATTTT
1 AATATTAAATTAATTTT
7459219 AATATTAAGA-TAATCAGTTT
1 AATATTAA-ATTAAT---TTT
7459239 AATATTAAATTAAT
1 AATATTAAATTAAT
7459253 AAAATACTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
17 12 0.41
18 1 0.03
19 1 0.03
20 15 0.52
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (17 bp):
AATATTAAATTAATTTT
Found at i:7463589 original size:25 final size:25
Alignment explanation
Indices: 7463572--7463626 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
7463562 GCTCGTAATG
7463572 GCTTCCCATTATTCAGCTCACATGA
1 GCTTCCCATTATTCAGCTCACATGA
* *
7463597 GCTTTCCATTATTCAGCTCAAATGA
1 GCTTCCCATTATTCAGCTCACATGA
7463622 GCTTC
1 GCTTC
7463627 TCGTTTACAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.24, C:0.29, G:0.13, T:0.35
Consensus pattern (25 bp):
GCTTCCCATTATTCAGCTCACATGA
Found at i:7465491 original size:29 final size:29
Alignment explanation
Indices: 7465458--7465521 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
7465448 TAATCCACCA
7465458 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
7465487 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
7465517 CCCAA
1 CCCAA
7465522 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:7465495 original size:30 final size:30
Alignment explanation
Indices: 7465465--7465521 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
7465455 CCACCCAACT
7465465 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
7465494 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
7465522 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:7488729 original size:18 final size:18
Alignment explanation
Indices: 7488687--7488729 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
7488677 ACCCACCCAC
* *
7488687 ATTTTAAGTGTGAATGCT
1 ATTTCAAGTGTGAATACT
*
7488705 -CTTCAAGTGTGAATACT
1 ATTTCAAGTGTGAATACT
7488722 ATTTCAAG
1 ATTTCAAG
7488730 GTTACGGGGG
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.40
Consensus pattern (18 bp):
ATTTCAAGTGTGAATACT
Found at i:7500766 original size:25 final size:23
Alignment explanation
Indices: 7500738--7500830 Score: 80
Period size: 25 Copynumber: 3.8 Consensus size: 23
7500728 AGCTCTAAAG
7500738 AGCCATTAATCAGGAAGCTCCGGA
1 AGCCA-TAATCAGGAAGCTCCGGA
* * * *
7500762 TAGCCATATATCGGGAAGTTCAAGCA
1 -AGCCATA-ATCAGGAAGCTC-CGGA
*
7500788 AGCTAT-ATCAGGAAGCTCCGGA
1 AGCCATAATCAGGAAGCTCCGGA
7500810 GAGCCATTAATCAGGAAGCTC
1 -AGCCA-TAATCAGGAAGCTC
7500831 ACAAAGAGTC
Statistics
Matches: 53, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
22 2 0.04
23 14 0.26
24 3 0.06
25 32 0.60
26 2 0.04
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.19
Consensus pattern (23 bp):
AGCCATAATCAGGAAGCTCCGGA
Found at i:7501188 original size:20 final size:20
Alignment explanation
Indices: 7501163--7501201 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
7501153 ACACTTATAC
7501163 AATTC-ACATATACAATATTA
1 AATTCAACATATA-AATATTA
7501183 AATTCAAACATATAAATAT
1 AATTC-AACATATAAATAT
7501202 ATAATTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.29
21 5 0.29
22 7 0.41
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (20 bp):
AATTCAACATATAAATATTA
Found at i:7508510 original size:23 final size:23
Alignment explanation
Indices: 7508480--7508600 Score: 154
Period size: 23 Copynumber: 5.3 Consensus size: 23
7508470 GTGTTATTGA
*
7508480 TCAGTGGTAGCTTCGGCTACGTT
1 TCAGTGGTAGCTTCGGCTACATT
* *
7508503 TCAATGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
*
7508526 ACAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
* *
7508549 TCAGTGGTAGCTTCGGCTGCATAA
1 TCAGTGGTAGCTTCGGCTACAT-T
* *
7508573 T-AGTGGTAGCTTCGACTACATA
1 TCAGTGGTAGCTTCGGCTACATT
7508595 TCAGTG
1 TCAGTG
7508601 TTGCACTTAT
Statistics
Matches: 85, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
22 2 0.02
23 82 0.96
24 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.31
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:7508599 original size:46 final size:46
Alignment explanation
Indices: 7508481--7508600 Score: 186
Period size: 46 Copynumber: 2.6 Consensus size: 46
7508471 TGTTATTGAT
* *
7508481 CAGTGGTAGCTTCGGCTACGTTTCAATGGTAGCTTCGGCTACATAA
1 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATAA
*
7508527 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTGCATAA
1 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATAA
* * *
7508573 TAGTGGTAGCTTCGACTACATATCAGTG
1 CAGTGGTAGCTTCGGCTACATTTCAGTG
7508601 TTGCACTTAT
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 68 1.00
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.31
Consensus pattern (46 bp):
CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATAA
Found at i:7511947 original size:21 final size:21
Alignment explanation
Indices: 7511923--7511989 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
7511913 TGTTTTACTG
7511923 TCTGTTAAGCTCTTACGAGCT
1 TCTGTTAAGCTCTTACGAGCT
*
7511944 TCTGTTTAGCTCTTACGAGCT
1 TCTGTTAAGCTCTTACGAGCT
* * *
7511965 TCTATTCAGCT-TT-CAAGCT
1 TCTGTTAAGCTCTTACGAGCT
7511984 TCTGTT
1 TCTGTT
7511990 GCGTATTCGG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
19 10 0.24
20 2 0.05
21 29 0.71
ACGTcount: A:0.16, C:0.24, G:0.16, T:0.43
Consensus pattern (21 bp):
TCTGTTAAGCTCTTACGAGCT
Found at i:7512845 original size:30 final size:30
Alignment explanation
Indices: 7512809--7512879 Score: 124
Period size: 30 Copynumber: 2.4 Consensus size: 30
7512799 GCGTGTGTCT
*
7512809 CAGCCGTGTGTGACACACAGCCAAGTGACA
1 CAGCCGTGTGTGACAAACAGCCAAGTGACA
*
7512839 CGGCCGTGTGTGACAAACAGCCAAGTGACA
1 CAGCCGTGTGTGACAAACAGCCAAGTGACA
7512869 CAGCCGTGTGT
1 CAGCCGTGTGT
7512880 CCCCTGTATC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.27, C:0.28, G:0.30, T:0.15
Consensus pattern (30 bp):
CAGCCGTGTGTGACAAACAGCCAAGTGACA
Found at i:7517616 original size:51 final size:51
Alignment explanation
Indices: 7517536--7517697 Score: 270
Period size: 51 Copynumber: 3.2 Consensus size: 51
7517526 CTGATCAGTA
* * *
7517536 ACAAGTGATAAGTTGTAGCTTTAGCTACACTTATCTAATCAGTGACAAGTG
1 ACAAGTGATAAGTGGTAGCTTTAGTTACACTTATCTGATCAGTGACAAGTG
* * *
7517587 ACAAGTAATAAGTGGTAACTTTAGTTACACTTATCTGATCAGTGACAATTG
1 ACAAGTGATAAGTGGTAGCTTTAGTTACACTTATCTGATCAGTGACAAGTG
7517638 ACAAGTGATAAGTGGTAGCTTTAGTTACACTTATCTGATCAGTGACAAGTG
1 ACAAGTGATAAGTGGTAGCTTTAGTTACACTTATCTGATCAGTGACAAGTG
7517689 ACAAGTGAT
1 ACAAGTGAT
7517698 GTGATATGTG
Statistics
Matches: 102, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 102 1.00
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.31
Consensus pattern (51 bp):
ACAAGTGATAAGTGGTAGCTTTAGTTACACTTATCTGATCAGTGACAAGTG
Found at i:7518615 original size:19 final size:19
Alignment explanation
Indices: 7518587--7518697 Score: 168
Period size: 19 Copynumber: 5.8 Consensus size: 19
7518577 AATCTTAAGG
7518587 GATATACAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
7518606 GATATGCAATCTTAGATAT
1 GATATACAATCTTAGATAT
* *
7518625 AATATATAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
7518644 GATATGCAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
7518663 GATATATAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
7518682 GATATGCAATCTTAGA
1 GATATACAATCTTAGA
7518698 AGATATGATT
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 81 1.00
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.38
Consensus pattern (19 bp):
GATATACAATCTTAGATAT
Found at i:7518636 original size:38 final size:38
Alignment explanation
Indices: 7518588--7518697 Score: 202
Period size: 38 Copynumber: 2.9 Consensus size: 38
7518578 ATCTTAAGGG
*
7518588 ATATACAATCTTAGATATGATATGCAATCTTAGATATA
1 ATATATAATCTTAGATATGATATGCAATCTTAGATATA
*
7518626 ATATATAATCTTAGATATGATATGCAATCTTAGATATG
1 ATATATAATCTTAGATATGATATGCAATCTTAGATATA
7518664 ATATATAATCTTAGATATGATATGCAATCTTAGA
1 ATATATAATCTTAGATATGATATGCAATCTTAGA
7518698 AGATATGATT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 70 1.00
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (38 bp):
ATATATAATCTTAGATATGATATGCAATCTTAGATATA
Found at i:7518723 original size:22 final size:21
Alignment explanation
Indices: 7518600--7518723 Score: 111
Period size: 19 Copynumber: 6.2 Consensus size: 21
7518590 ATACAATCTT
*
7518600 AGATATGATATGCAATCTT--
1 AGATATGATATGTAATCTTAG
* *
7518619 AGATATAATATATAATCTT--
1 AGATATGATATGTAATCTTAG
*
7518638 AGATATGATATGCAATCTT--
1 AGATATGATATGTAATCTTAG
*
7518657 AGATATGATATATAATCTT--
1 AGATATGATATGTAATCTTAG
*
7518676 AGATATGATATGCAATCTTAG
1 AGATATGATATGTAATCTTAG
*
7518697 AAGATATGATTTTGTAATCTTAG
1 -AGATATGA-TATGTAATCTTAG
7518720 AGAT
1 AGAT
7518724 TTAATTTGTA
Statistics
Matches: 89, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
19 66 0.74
22 12 0.13
23 11 0.12
ACGTcount: A:0.40, C:0.07, G:0.15, T:0.39
Consensus pattern (21 bp):
AGATATGATATGTAATCTTAG
Found at i:7525777 original size:132 final size:132
Alignment explanation
Indices: 7525529--7526560 Score: 1737
Period size: 132 Copynumber: 7.8 Consensus size: 132
7525519 CTGCATTGAC
* *
7525529 AGTGAAGCAGATCGAAGATGGCGGATTTTACCTCCTTGTGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
*
7525594 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCTCTAAGCA
66 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
7525659 GT
131 GT
*
7525661 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
*
7525726 GTAATTCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTC-GAATCTTATCTCCCTAAGC
66 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAG-ATCTTATCTCCCTAAGC
7525790 AGT
130 AGT
* *
7525793 AGTGGAGTAGATCGAAGATGGCGGATTTTATCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
* * *
7525858 GTAATTCTACTTCCCTGAACAACAGTGGAATAGATTGAAAATTTTAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
7525923 GT
131 GT
* * *
7525925 AGTGGAGTAGATCGAAAATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
* * *
7525990 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATATCCCTAAGTA
66 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
7526055 GT
131 GT
7526057 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
* *
7526122 GTAATTCTACTTCCCTGGACAACAATGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
7526187 GT
131 GT
*
7526189 AGTGGAGCAGATCGAAGATGACGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
*
7526254 GTAATTCTACTTCCCTGGACAACAGTGGAATAAATTGAAGATTTCAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
7526319 GT
131 GT
*
7526321 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
* * *
7526386 GTAATTCTACTTCCCTAGACAACAGTAGAATGGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
7526451 GT
131 GT
* *
7526453 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTCTGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
* * * * *
7526518 GTAA-GCATA-TCTCTCTGGTCAGCAGTGGAATAGGTTGAAGATT
66 GTAATTC-TACT-TCCCTGGACAACAGTGGAATAGATTGAAGATT
7526561 GTAAGTCCTA
Statistics
Matches: 848, Mismatches: 48, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
131 3 0.00
132 844 1.00
133 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (132 bp):
AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
GT
Found at i:7526909 original size:19 final size:19
Alignment explanation
Indices: 7526885--7526995 Score: 168
Period size: 19 Copynumber: 5.8 Consensus size: 19
7526875 AATCTTCAGG
7526885 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
7526904 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* * **
7526923 AATGTATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
7526942 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
7526961 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
7526980 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
7526996 AGATATGATT
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 80 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:7526935 original size:38 final size:38
Alignment explanation
Indices: 7526892--7526995 Score: 190
Period size: 38 Copynumber: 2.7 Consensus size: 38
7526882 AGGGATATGC
*
7526892 AATCTTAGATATGATATGCAATCTTAGATATAATGTAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
7526930 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
7526968 AATCTTAGATATGATATGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
7526996 AGATATGATT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 64 1.00
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.38
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:7527021 original size:22 final size:21
Alignment explanation
Indices: 7526885--7527021 Score: 107
Period size: 19 Copynumber: 6.9 Consensus size: 21
7526875 AATCTTCAGG
*
7526885 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
* *
7526904 GATATGCAATCTTAGATATAAT
1 GATATGTAATCTTAGAGAT-AT
7526926 G-TA--TAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
7526942 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
7526961 GATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
7526980 GATATGCAATCTTAGAAGATAT
1 GATATGTAATCTTAG-AGATAT
*
7527002 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTAGAGAT
7527022 TTAATTTGTA
Statistics
Matches: 98, Mismatches: 10, Indels: 17
0.78 0.08 0.14
Matches are distributed among these distances:
16 3 0.03
17 5 0.05
19 59 0.60
21 5 0.05
22 15 0.15
23 11 0.11
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (21 bp):
GATATGTAATCTTAGAGATAT
Found at i:7529016 original size:27 final size:27
Alignment explanation
Indices: 7528957--7529021 Score: 64
Period size: 27 Copynumber: 2.4 Consensus size: 27
7528947 TCTGACTTGG
*
7528957 AATCAA-TCC-AAAATAATAGAGAATC
1 AATCAATTCCAAAAAGAATAGAGAATC
* *
7528982 AATTAATTCCAAAAAGAATAGA-AACTT
1 AATCAATTCCAAAAAGAATAGAGAA-TC
7529009 AATCAATTTCCAA
1 AATCAA-TTCCAA
7529022 TGATTTGACA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
25 5 0.16
26 5 0.16
27 16 0.50
28 6 0.19
ACGTcount: A:0.54, C:0.15, G:0.06, T:0.25
Consensus pattern (27 bp):
AATCAATTCCAAAAAGAATAGAGAATC
Found at i:7531547 original size:44 final size:44
Alignment explanation
Indices: 7531484--7531571 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 44
7531474 TTTTACCTCC
*
7531484 TACGTTCACCCTACCCATGAGAATTATGAAGTGGAGACAAGTGT
1 TACGTTCACCCTACCCATGACAATTATGAAGTGGAGACAAGTGT
*
7531528 TACGTTCACCC-AGCTCATGACAATTATGAAGTGGAGACAAGTGT
1 TACGTTCACCCTA-CCCATGACAATTATGAAGTGGAGACAAGTGT
7531572 ATGTACCAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
43 1 0.02
44 40 0.98
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (44 bp):
TACGTTCACCCTACCCATGACAATTATGAAGTGGAGACAAGTGT
Found at i:7534631 original size:4 final size:4
Alignment explanation
Indices: 7534622--7534654 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
7534612 CTTTCTCTAT
7534622 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
7534655 ATCATAATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:7535049 original size:16 final size:16
Alignment explanation
Indices: 7535028--7535061 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7535018 TGTAATTATG
* *
7535028 TAAATATTATTAAAAT
1 TAAATAATAGTAAAAT
7535044 TAAATAATAGTAAAAT
1 TAAATAATAGTAAAAT
7535060 TA
1 TA
7535062 CCGAATATCA
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:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (16 bp):
TAAATAATAGTAAAAT
Found at i:7535352 original size:31 final size:29
Alignment explanation
Indices: 7535304--7535383 Score: 79
Period size: 31 Copynumber: 2.7 Consensus size: 29
7535294 ATACTAAAAC
* * *
7535304 TATACATTAACTATGATTTAATGTGTAAATG
1 TATACATGAACTTTGATTT--TGTGCAAATG
* *
7535335 TATACATGAACTTTGATTTTGTGCAATTT
1 TATACATGAACTTTGATTTTGTGCAAATG
*
7535364 TATACATGAAATTTTGATTT
1 TATACATG-AACTTTGATTT
7535384 GATCCAATTC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 15 0.36
30 10 0.24
31 17 0.40
ACGTcount: A:0.34, C:0.07, G:0.12, T:0.46
Consensus pattern (29 bp):
TATACATGAACTTTGATTTTGTGCAAATG
Found at i:7535384 original size:29 final size:31
Alignment explanation
Indices: 7535335--7535398 Score: 80
Period size: 30 Copynumber: 2.1 Consensus size: 31
7535325 TGTGTAAATG
*
7535335 TATACATGAACTTTGATTTTG-TGCAATT-T
1 TATACATGAACTTTGATTTTGATCCAATTCT
*
7535364 TATACATGAAATTTTGA-TTTGATCCAATTCT
1 TATACATG-AACTTTGATTTTGATCCAATTCT
7535395 TATA
1 TATA
7535399 AATTATTAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 12 0.40
30 13 0.43
31 5 0.17
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (31 bp):
TATACATGAACTTTGATTTTGATCCAATTCT
Found at i:7557320 original size:15 final size:15
Alignment explanation
Indices: 7557296--7557333 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
7557286 TATTGTTCTA
7557296 ATTT-TTTTTGGAAC
1 ATTTATTTTTGGAAC
7557310 ATTTATTTTTGGAAC
1 ATTTATTTTTGGAAC
7557325 ATTTATTTT
1 ATTTATTTT
7557334 GGATTACTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 4 0.17
15 19 0.83
ACGTcount: A:0.24, C:0.05, G:0.11, T:0.61
Consensus pattern (15 bp):
ATTTATTTTTGGAAC
Found at i:7565714 original size:27 final size:27
Alignment explanation
Indices: 7565678--7565745 Score: 111
Period size: 27 Copynumber: 2.5 Consensus size: 27
7565668 AAATAAAAAA
*
7565678 TTACCAAAATGT-TATAACTTTTTTTAT
1 TTACCAAAATATATATAA-TTTTTTTAT
7565705 TTACCAAAATATATATAATTTTTTTAT
1 TTACCAAAATATATATAATTTTTTTAT
7565732 TTACCAAAATATAT
1 TTACCAAAATATAT
7565746 CAAAAAAGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 34 0.87
28 5 0.13
ACGTcount: A:0.40, C:0.10, G:0.01, T:0.49
Consensus pattern (27 bp):
TTACCAAAATATATATAATTTTTTTAT
Found at i:7565761 original size:9 final size:9
Alignment explanation
Indices: 7565747--7565789 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
7565737 AAAATATATC
7565747 AAAAAAGAA
1 AAAAAAGAA
*
7565756 AAAAAACAA
1 AAAAAAGAA
7565765 AAAAATAGAA
1 AAAAA-AGAA
*
7565775 AAAATAGAA
1 AAAAAAGAA
7565784 AAAAAA
1 AAAAAA
7565790 CCTGGACTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
9 22 0.76
10 7 0.24
ACGTcount: A:0.86, C:0.02, G:0.07, T:0.05
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:7565769 original size:19 final size:19
Alignment explanation
Indices: 7565747--7565789 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
7565737 AAAATATATC
7565747 AAAAAAGAAAAAAAACAAA
1 AAAAAAGAAAAAAAACAAA
* * *
7565766 AAAATAGAAAAAATAGAAA
1 AAAAAAGAAAAAAAACAAA
7565785 AAAAA
1 AAAAA
7565790 CCTGGACTGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.86, C:0.02, G:0.07, T:0.05
Consensus pattern (19 bp):
AAAAAAGAAAAAAAACAAA
Found at i:7565860 original size:27 final size:27
Alignment explanation
Indices: 7565830--7565896 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
7565820 AGGGAAGCAG
7565830 GTTGGCGGCACCAAACAAGGGAACCCT
1 GTTGGCGGCACCAAACAAGGGAACCCT
** *
7565857 GTTGGCGGCACCAAACAAGGGTTCCTT
1 GTTGGCGGCACCAAACAAGGGAACCCT
7565884 GTTGGCGGCACCA
1 GTTGGCGGCACCA
7565897 CCCTTGAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.24, C:0.28, G:0.31, T:0.16
Consensus pattern (27 bp):
GTTGGCGGCACCAAACAAGGGAACCCT
Found at i:7565970 original size:10 final size:10
Alignment explanation
Indices: 7565951--7566066 Score: 51
Period size: 10 Copynumber: 11.2 Consensus size: 10
7565941 GGGGAATAAG
*
7565951 AAGAAAGAAA
1 AAGAAGGAAA
7565961 AAGAAGGAAA
1 AAGAAGGAAA
*
7565971 AGGAAAGGAGAGGA
1 AAG-AAGGA-A--A
*
7565985 AAGAAAGAAA
1 AAGAAGGAAA
7565995 AAGAAGGAAA
1 AAGAAGGAAA
7566005 GAA-AAGGAAA
1 -AAGAAGGAAA
** *
7566015 GGGGAGG--A
1 AAGAAGGAAA
*
7566023 AAGAAAGAAA
1 AAGAAGGAAA
*
7566033 AATAAGGAAA
1 AAGAAGGAAA
7566043 GAA-AAGGAAA
1 -AAGAAGGAAA
*
7566053 GGAGAAGAGAAA
1 -AAGAAG-GAAA
7566065 AA
1 AA
7566067 AAAAAGAAAG
Statistics
Matches: 79, Mismatches: 16, Indels: 21
0.68 0.14 0.18
Matches are distributed among these distances:
8 4 0.05
10 49 0.62
11 13 0.16
12 6 0.08
13 4 0.05
14 3 0.04
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (10 bp):
AAGAAGGAAA
Found at i:7566009 original size:38 final size:38
Alignment explanation
Indices: 7565951--7566074 Score: 170
Period size: 38 Copynumber: 3.4 Consensus size: 38
7565941 GGGGAATAAG
7565951 AAGAAAGAAAAAGAA-G---GAAAAGGAAAGGAGAGGA
1 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAGGA
*
7565985 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGGGAGGA
1 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAGGA
* *
7566023 AAGAAAGAAAAATAAGGAAAGAAAAGGAAAGGAGAAGA
1 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAGGA
7566061 GAA-AAA-AAAAAGAA
1 -AAGAAAGAAAAAGAA
7566075 AGAAGAAGAA
Statistics
Matches: 80, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
34 15 0.19
35 1 0.01
37 7 0.09
38 55 0.69
39 2 0.03
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (38 bp):
AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAGGA
Found at i:7566093 original size:33 final size:32
Alignment explanation
Indices: 7565949--7566109 Score: 110
Period size: 38 Copynumber: 4.5 Consensus size: 32
7565939 GAGGGGAATA
* *
7565949 AGAAGAAAGAAAAAGAAGGAAAAGGAAAGGAGAGGAA
1 AGAA-AAA-AAAAAGAAAGAAAAGGAAAGG-GA--AG
*
7565986 AGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGGGAGGAA
1 AGAAA-AAAAA-AA-GAAAGAAAAGGAAA-GGGA--AG
7566024 AGAAAGAAAAATAAGGAAAGAAAAGGAAAGGAGAAG
1 AGAAA-AAAAA-AA-GAAAGAAAAGGAAAGG-GAAG
7566060 AGAAAAAAAAAAGAAAGAAGAA-GAAGAGGGAAG
1 AGAAAAAAAAAAGAAAGAA-AAGGAA-AGGGAAG
7566093 A-AAGGAAAAAAAAGAAA
1 AGAA--AAAAAAAAGAAA
7566110 TAAGGTAATT
Statistics
Matches: 112, Mismatches: 3, Indels: 21
0.82 0.02 0.15
Matches are distributed among these distances:
32 2 0.02
33 15 0.13
34 19 0.17
35 5 0.04
36 10 0.09
37 10 0.09
38 49 0.44
39 2 0.02
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.01
Consensus pattern (32 bp):
AGAAAAAAAAAAGAAAGAAAAGGAAAGGGAAG
Found at i:7566840 original size:19 final size:19
Alignment explanation
Indices: 7566792--7566843 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
7566782 AAAAAATATA
** *
7566792 TAATATTTTGGTATTTTTT
1 TAATATTTTATTATTTTTG
7566811 TAATATTTTATTATTTTTG
1 TAATATTTTATTATTTTTG
*
7566830 TAATCTTTTATTAT
1 TAATATTTTATTAT
7566844 GGGTTTTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.25, C:0.02, G:0.06, T:0.67
Consensus pattern (19 bp):
TAATATTTTATTATTTTTG
Found at i:7566911 original size:28 final size:26
Alignment explanation
Indices: 7566880--7566950 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 26
7566870 AAAATAAAAA
7566880 TTACCAAAATATTATAACTTTTTTTTAT
1 TTACCAAAATATTATAA--TTTTTTTAT
* *
7566908 TTACCAAAAAATACATAATTTTTTTAT
1 TTACCAAAATAT-TATAATTTTTTTAT
7566935 TTACCAAAATA-TATAA
1 TTACCAAAATATTATAA
7566951 AAAAAAGTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
25 4 0.11
27 19 0.50
28 11 0.29
29 4 0.11
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.45
Consensus pattern (26 bp):
TTACCAAAATATTATAATTTTTTTAT
Found at i:7566986 original size:10 final size:10
Alignment explanation
Indices: 7566949--7566987 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
7566939 CAAAATATAT
7566949 AAAAAAA-AG
1 AAAAAAACAG
*
7566958 TAAAAAACAG
1 AAAAAAACAG
7566968 AAAAAAAACAG
1 -AAAAAAACAG
7566979 AAAAAAACA
1 AAAAAAACA
7566988 CACTAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
9 6 0.23
10 11 0.42
11 9 0.35
ACGTcount: A:0.82, C:0.08, G:0.08, T:0.03
Consensus pattern (10 bp):
AAAAAAACAG
Found at i:7568084 original size:15 final size:14
Alignment explanation
Indices: 7568044--7568072 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
7568034 TTTTTGTATC
7568044 AATTTAATTATTCT
1 AATTTAATTATTCT
7568058 AATTTAATTATTCT
1 AATTTAATTATTCT
7568072 A
1 A
7568073 GTTTTAGTTA
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:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (14 bp):
AATTTAATTATTCT
Found at i:7568308 original size:10 final size:10
Alignment explanation
Indices: 7568280--7568395 Score: 84
Period size: 10 Copynumber: 11.9 Consensus size: 10
7568270 ACACATAAAA
7568280 TTTT-TTTCTC
1 TTTTCTTTC-C
7568290 TTCTTCTTTCC
1 TT-TTCTTTCC
7568301 TTTTCTTTCC
1 TTTTCTTTCC
7568311 TTATT-TTT-C
1 TT-TTCTTTCC
7568320 -TTTCTTTCC
1 TTTTCTTTCC
***
7568329 TCCCCTTTCC
1 TTTTCTTTCC
7568339 TTTTCTTTCC
1 TTTTCTTTCC
7568349 TTCTT-TTT-C
1 TT-TTCTTTCC
7568358 -TTTCTTTCC
1 TTTTCTTTCC
* *
7568367 TCTCCTTTCC
1 TTTTCTTTCC
* *
7568377 TTTTCCTTCT
1 TTTTCTTTCC
7568387 TTTTCTTTC
1 TTTTCTTTC
7568396 TTCCTTTCTT
Statistics
Matches: 83, Mismatches: 13, Indels: 20
0.72 0.11 0.17
Matches are distributed among these distances:
7 4 0.05
8 8 0.10
9 4 0.05
10 54 0.65
11 9 0.11
12 4 0.05
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTTCTTTCC
Found at i:7568323 original size:18 final size:18
Alignment explanation
Indices: 7568302--7568412 Score: 95
Period size: 18 Copynumber: 6.1 Consensus size: 18
7568292 CTTCTTTCCT
*
7568302 TTTCTTTCCTTATTTTTC
1 TTTCTTTCCTTCTTTTTC
* * *
7568320 TTTCTTTCCTCCCCTTTCC
1 TTTCTTTCCT-TCTTTTTC
7568339 TTTTCTTTCCTTCTTTTTC
1 -TTTCTTTCCTTCTTTTTC
*
7568358 TTTCTTTCC-TCTCCTTTC
1 TTTCTTTCCTTCT-TTTTC
*
7568376 -CT-TTTCCTTCTTTTTC
1 TTTCTTTCCTTCTTTTTC
7568392 TTTC-TTCCTTTCTTTCTTC
1 TTTCTTTCC-TTCTTT-TTC
7568411 TT
1 TT
7568413 CTTCCCCTCT
Statistics
Matches: 74, Mismatches: 11, Indels: 15
0.74 0.11 0.15
Matches are distributed among these distances:
16 9 0.12
17 12 0.16
18 29 0.39
19 14 0.19
20 10 0.14
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTCTTTCCTTCTTTTTC
Found at i:7568338 original size:38 final size:38
Alignment explanation
Indices: 7568295--7568403 Score: 157
Period size: 38 Copynumber: 2.9 Consensus size: 38
7568285 TTCTCTTCTT
7568295 CTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCCTCCC
1 CTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCCTCCC
* *
7568333 CTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCCTCTC
1 CTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCCTCCC
* * *
7568371 CTTTCCTTTTCCTT-CTTTTTCTTTCTTCCTTTC
1 CTTTCCTTTTCTTTCCTTATT-TTTCTTTCTTTC
7568404 TTTCTTCTTC
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
37 5 0.08
38 60 0.92
ACGTcount: A:0.01, C:0.34, G:0.00, T:0.65
Consensus pattern (38 bp):
CTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCCTCCC
Found at i:7568356 original size:14 final size:14
Alignment explanation
Indices: 7568339--7568412 Score: 55
Period size: 14 Copynumber: 5.1 Consensus size: 14
7568329 TCCCCTTTCC
7568339 TTTTCTTTCCTTCT
1 TTTTCTTTCCTTCT
*
7568353 TTTTCTTTCTTTCCT
1 TTTTCTTTCCTT-CT
7568368 CTCCTTTCCTTTTCCTTCT
1 -T--TTT-C-TTTCCTTCT
7568387 TTTTCTTT-CTTC-
1 TTTTCTTTCCTTCT
*
7568399 CTTTCTTT-CTTCT
1 TTTTCTTTCCTTCT
7568412 T
1 T
7568413 CTTCCCCTCT
Statistics
Matches: 49, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
12 11 0.22
13 4 0.08
14 14 0.29
15 3 0.06
16 4 0.08
18 4 0.08
19 3 0.06
20 6 0.12
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTCTTTCCTTCT
Found at i:7568364 original size:28 final size:28
Alignment explanation
Indices: 7568333--7568412 Score: 85
Period size: 34 Copynumber: 2.8 Consensus size: 28
7568323 CTTTCCTCCC
7568333 CTTTCCTTTTCTTTCCTTCTTTTTCTTT
1 CTTTCCTTTTCTTTCCTTCTTTTTCTTT
7568361 CTTTCCTCTCCTTTCCTTTTCCTTCTTTTTCTTT
1 CTTT-C-CT--TTT-C-TTTCCTTCTTTTTCTTT
7568395 C-TTCC-TTTCTTT-CTTCTT
1 CTTTCCTTTTCTTTCCTTCTT
7568413 CTTCCCCTCT
Statistics
Matches: 46, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
25 6 0.13
26 3 0.07
27 1 0.02
28 7 0.15
29 1 0.02
30 2 0.04
31 1 0.02
32 4 0.09
33 3 0.07
34 18 0.39
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (28 bp):
CTTTCCTTTTCTTTCCTTCTTTTTCTTT
Found at i:7568396 original size:10 final size:10
Alignment explanation
Indices: 7568344--7568415 Score: 54
Period size: 10 Copynumber: 6.6 Consensus size: 10
7568334 TTTCCTTTTC
*
7568344 TTTCCTTCTT
1 TTTCTTTCTT
7568354 TTTCTTTCTT
1 TTTCTTTCTT
*
7568364 TCCTCTCCTTTCCT
1 T--T-T-CTTTCTT
*
7568378 TTTCCTTCTT
1 TTTCTTTCTT
7568388 TTTCTTTCTT
1 TTTCTTTCTT
7568398 CCTTTCTTTCTT
1 --TTTCTTTCTT
*
7568410 CTTCTT
1 TTTCTT
7568416 CCCCTCTCCT
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
10 29 0.58
11 1 0.02
12 12 0.24
13 1 0.02
14 7 0.14
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:7568413 original size:28 final size:30
Alignment explanation
Indices: 7568335--7568416 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 30
7568325 TTCCTCCCCT
*
7568335 TTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCC
1 TTCC-TTTCTTT-CTTCTTCTTCTTTCTTTCC
*
7568367 TCTCCTTTCCTTT-TCCTTCTT-TTTCTTT-C
1 T-TCCTTT-CTTTCTTCTTCTTCTTTCTTTCC
7568396 TTCCTTTCTTTCTTCTTCTTC
1 TTCCTTTCTTTCTTCTTCTTC
7568417 CCCTCTCCTT
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
27 4 0.09
28 13 0.30
29 2 0.05
30 7 0.16
31 6 0.14
32 4 0.09
33 7 0.16
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (30 bp):
TTCCTTTCTTTCTTCTTCTTCTTTCTTTCC
Found at i:7568426 original size:42 final size:40
Alignment explanation
Indices: 7568314--7568429 Score: 105
Period size: 42 Copynumber: 2.9 Consensus size: 40
7568304 TCTTTCCTTA
* *
7568314 TTTTTCTTTCTTTCCTCCCCTT-TCCT-T--TTCTTTCCTTC
1 TTTTTCTTTCTTTCCTCTCCTTCCCCTCTCCTTCTTT--TTC
* * *
7568352 TTTTTCTTTCTTTCCTCTCCTTTCCTTTTCCTTCTTTTTC
1 TTTTTCTTTCTTTCCTCTCCTTCCCCTCTCCTTCTTTTTC
* *
7568392 TTTCTTCCTTTCTTTCTTCTTCTTCCCCTCTCCTTCTT
1 TTT-TT-CTTTCTTTCCTCTCCTTCCCCTCTCCTTCTT
7568430 CCCCCCACCA
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
38 21 0.33
39 2 0.03
40 7 0.11
41 2 0.03
42 32 0.50
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (40 bp):
TTTTTCTTTCTTTCCTCTCCTTCCCCTCTCCTTCTTTTTC
Found at i:7568502 original size:27 final size:27
Alignment explanation
Indices: 7568464--7568530 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
7568454 AATTCAAGGG
7568464 TGGTGCCGCCAACAAGGAACCCTTGTT
1 TGGTGCCGCCAACAAGGAACCCTTGTT
* **
7568491 TGGTGCCGCCAACAGGGTTCCCTTGTT
1 TGGTGCCGCCAACAAGGAACCCTTGTT
7568518 TGGTGCCGCCAAC
1 TGGTGCCGCCAAC
7568531 CTGCTTCCCT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.16, C:0.31, G:0.28, T:0.24
Consensus pattern (27 bp):
TGGTGCCGCCAACAAGGAACCCTTGTT
Found at i:7568538 original size:27 final size:27
Alignment explanation
Indices: 7568464--7568540 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
7568454 AATTCAAGGG
**
7568464 TGGTGCCGCCAACAAGG-AACCCTTGTT
1 TGGTGCCGCCAAC-AGGCTTCCCTTGTT
*
7568491 TGGTGCCGCCAACAGGGTTCCCTTGTT
1 TGGTGCCGCCAACAGGCTTCCCTTGTT
**
7568518 TGGTGCCGCCAACCTGCTTCCCT
1 TGGTGCCGCCAACAGGCTTCCCT
7568541 CCACCCAGGA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 3 0.07
27 41 0.93
ACGTcount: A:0.14, C:0.34, G:0.26, T:0.26
Consensus pattern (27 bp):
TGGTGCCGCCAACAGGCTTCCCTTGTT
Found at i:7568596 original size:18 final size:17
Alignment explanation
Indices: 7568570--7568607 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
7568560 ATCAGTCCAG
7568570 TTTTTTTTTCTGTTTTT
1 TTTTTTTTTCTGTTTTT
*
7568587 TTTTTGTTTTTTGTTTTT
1 TTTTT-TTTTCTGTTTTT
7568605 TTT
1 TTT
7568608 GATATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.00, C:0.03, G:0.08, T:0.89
Consensus pattern (17 bp):
TTTTTTTTTCTGTTTTT
Found at i:7568607 original size:11 final size:11
Alignment explanation
Indices: 7568569--7568607 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
7568559 AATCAGTCCA
7568569 GTTTTTTTTTCT
1 GTTTTTTTTT-T
7568581 GTTTTTTTTTT
1 GTTTTTTTTTT
7568592 GTTTTTTGTTTT
1 GTTTTTT-TTTT
7568604 -TTTT
1 GTTTT
7568608 GATATATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 12 0.46
12 14 0.54
ACGTcount: A:0.00, C:0.03, G:0.10, T:0.87
Consensus pattern (11 bp):
GTTTTTTTTTT
Found at i:7568639 original size:27 final size:28
Alignment explanation
Indices: 7568609--7568672 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 28
7568599 GTTTTTTTTG
7568609 ATATATTTTGGTAAATAAAAAAA-TTAT
1 ATATATTTTGGTAAATAAAAAAAGTTAT
7568636 ATATATTTTGGTAAATAAAAAAAGTTAT
1 ATATATTTTGGTAAATAAAAAAAGTTAT
*
7568664 A-ACATTTTG
1 ATATATTTTG
7568673 ATAATTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 30 0.86
28 5 0.14
ACGTcount: A:0.48, C:0.02, G:0.09, T:0.41
Consensus pattern (28 bp):
ATATATTTTGGTAAATAAAAAAAGTTAT
Found at i:7568796 original size:28 final size:28
Alignment explanation
Indices: 7568759--7568844 Score: 147
Period size: 28 Copynumber: 3.1 Consensus size: 28
7568749 ATGAAAATGT
7568759 TATAACTTTTTTTTATTTACCAAAATATA
1 TATAA-TTTTTTTTATTTACCAAAATATA
*
7568788 TATAATTTTTTTTATTTACCAAAAAATA
1 TATAATTTTTTTTATTTACCAAAATATA
7568816 TATAA-TTTTTTTATTTACCAAAATATA
1 TATAATTTTTTTTATTTACCAAAATATA
7568843 TA
1 TA
7568845 AAAAAAAAAC
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
27 23 0.42
28 27 0.49
29 5 0.09
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (28 bp):
TATAATTTTTTTTATTTACCAAAATATA
Found at i:7568857 original size:21 final size:20
Alignment explanation
Indices: 7568832--7568872 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
7568822 TTTTTTATTT
*
7568832 ACCAAAATATATAAAAAAAAA
1 ACCAAAA-AAATAAAAAAAAA
7568853 ACCAAAAAAATAAAAAAAAA
1 ACCAAAAAAATAAAAAAAAA
7568873 CCTGGACCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.80, C:0.10, G:0.00, T:0.10
Consensus pattern (20 bp):
ACCAAAAAAATAAAAAAAAA
Found at i:7568942 original size:27 final size:27
Alignment explanation
Indices: 7568911--7568979 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 27
7568901 CAAGGGAACA
7568911 CTGTTGGCGGCACCAAACAAGGATTCC
1 CTGTTGGCGGCACCAAACAAGGATTCC
* *
7568938 TTGTTGGCGGCACCAAACAAGGGTTCC
1 CTGTTGGCGGCACCAAACAAGGATTCC
* *
7568965 CTATTGGCAGCACCA
1 CTGTTGGCGGCACCA
7568980 CTCGTGTTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.25, C:0.29, G:0.26, T:0.20
Consensus pattern (27 bp):
CTGTTGGCGGCACCAAACAAGGATTCC
Found at i:7570051 original size:18 final size:18
Alignment explanation
Indices: 7570020--7570065 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
7570010 TTGATATGGT
* *
7570020 TGGTGGTGAAGAAGAAGG
1 TGGTGGCGATGAAGAAGG
*
7570038 TGGTTGCGATGAAGAAGG
1 TGGTGGCGATGAAGAAGG
7570056 TGGTGGCGAT
1 TGGTGGCGAT
7570066 CATTGGGATG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.26, C:0.04, G:0.48, T:0.22
Consensus pattern (18 bp):
TGGTGGCGATGAAGAAGG
Found at i:7572462 original size:14 final size:14
Alignment explanation
Indices: 7572443--7572471 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
7572433 TAACTGAAAG
7572443 TAGAATAATTAAAT
1 TAGAATAATTAAAT
7572457 TAGAATAATTAAAT
1 TAGAATAATTAAAT
7572471 T
1 T
7572472 GATACAAAAA
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:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (14 bp):
TAGAATAATTAAAT
Found at i:7574794 original size:16 final size:17
Alignment explanation
Indices: 7574765--7574797 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7574755 TTTTTTCCTT
*
7574765 TTTTTTATTCTTTTTTG
1 TTTTTTACTCTTTTTTG
7574782 TTTTTTACT-TTTTTTG
1 TTTTTTACTCTTTTTTG
7574798 ATATATTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.06, C:0.06, G:0.06, T:0.82
Consensus pattern (17 bp):
TTTTTTACTCTTTTTTG
Found at i:7574827 original size:26 final size:27
Alignment explanation
Indices: 7574798--7574866 Score: 95
Period size: 27 Copynumber: 2.5 Consensus size: 27
7574788 ACTTTTTTTG
*
7574798 ATATATTTTGGTAAATAATAAAAATTAT
1 ATATATTTTGGTAAATAA-AAAAAGTAT
*
7574826 ATATATTTTGGTCAATAAAAAAAGT-T
1 ATATATTTTGGTAAATAAAAAAAGTAT
7574852 ATAATATTTTGGTAA
1 AT-ATATTTTGGTAA
7574867 TTTTTTATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
26 3 0.08
27 17 0.46
28 17 0.46
ACGTcount: A:0.46, C:0.01, G:0.10, T:0.42
Consensus pattern (27 bp):
ATATATTTTGGTAAATAAAAAAAGTAT
Found at i:7574858 original size:27 final size:28
Alignment explanation
Indices: 7574798--7574866 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
7574788 ACTTTTTTTG
7574798 ATATATTTTGGTAAATAATAAAAATTAT
1 ATATATTTTGGTAAATAATAAAAATTAT
*
7574826 ATATATTTTGGTCAATAA-AAAAAGTTAT
1 ATATATTTTGGTAAATAATAAAAA-TTAT
7574854 A-ATATTTTGGTAA
1 ATATATTTTGGTAA
7574867 TTTTTTATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 16 0.42
28 22 0.58
ACGTcount: A:0.46, C:0.01, G:0.10, T:0.42
Consensus pattern (28 bp):
ATATATTTTGGTAAATAATAAAAATTAT
Found at i:7574925 original size:19 final size:19
Alignment explanation
Indices: 7574901--7574941 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
7574891 TATAAAACCC
7574901 ATAATAAAACA-TTACAAAA
1 ATAATAAAACATTTA-AAAA
*
7574920 ATAATAAAATATTTAAAAA
1 ATAATAAAACATTTAAAAA
7574939 ATA
1 ATA
7574942 CAAAAATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (19 bp):
ATAATAAAACATTTAAAAA
Found at i:7575672 original size:10 final size:10
Alignment explanation
Indices: 7575659--7575826 Score: 54
Period size: 10 Copynumber: 17.0 Consensus size: 10
7575649 CTTCCTTCCC
7575659 TCTTCTTCTT
1 TCTTCTTCTT
* *
7575669 TCTTTTTTTTTT
1 TC--TTCTTCTT
7575681 CTCTTCTTCTT
1 -TCTTCTTCTT
7575692 TCCTT-TTCTT
1 T-CTTCTTCTT
*
7575702 TC--CTTATT
1 TCTTCTTCTT
7575710 T-TTCTTTCTT
1 TCTTC-TTCTT
* *
7575720 TCCTCTCCTT
1 TCTTCTTCTT
7575730 TCCTT-TTCTT
1 T-CTTCTTCTT
*
7575740 TC--CTTATT
1 TCTTCTTCTT
7575748 T-TTCTTTCTT
1 TCTTC-TTCTT
* *
7575758 TCCTCTCCTT
1 TCTTCTTCTT
7575768 TC--CTT-TT
1 TCTTCTTCTT
*
7575775 CCTTCTT-TT
1 TCTTCTTCTT
* *
7575784 TCTTTTTTCCT
1 TC-TTCTTCTT
*
7575795 TCTTTTTCTT
1 TCTTCTTCTT
7575805 TCTTCCTTTCTT
1 TCTT-C-TTCTT
7575817 TCTTCTTCTT
1 TCTTCTTCTT
7575827 CCCCTCTCCT
Statistics
Matches: 116, Mismatches: 21, Indels: 42
0.65 0.12 0.23
Matches are distributed among these distances:
7 3 0.03
8 12 0.10
9 10 0.09
10 55 0.47
11 19 0.16
12 15 0.13
13 2 0.02
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.70
Consensus pattern (10 bp):
TCTTCTTCTT
Found at i:7575697 original size:5 final size:5
Alignment explanation
Indices: 7575689--7575778 Score: 57
Period size: 5 Copynumber: 18.6 Consensus size: 5
7575679 TTCTCTTCTT
* * * *
7575689 CTTTC CTTTT CTTTC CTTAT- -TTTT CTTT- CTTTC CTCTC CTTTC CTTTT
1 CTTTC CTTTC CTTTC CTT-TC CTTTC CTTTC CTTTC CTTTC CTTTC CTTTC
* *
7575737 CTTTC CTTAT- -TTTT CTTT- CTTTC CTCTC CTTTC CTTTTC CTT
1 CTTTC CTT-TC CTTTC CTTTC CTTTC CTTTC CTTTC C-TTTC CTT
7575779 CTTTTTCTTT
Statistics
Matches: 68, Mismatches: 8, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
3 2 0.03
4 12 0.18
5 47 0.69
6 7 0.10
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (5 bp):
CTTTC
Found at i:7575701 original size:33 final size:36
Alignment explanation
Indices: 7575664--7575820 Score: 161
Period size: 38 Copynumber: 4.5 Consensus size: 36
7575654 TTCCCTCTTC
7575664 TTCTTTCTTTTTTT-TTTCTCTT-CT-T-CTTTCCTT
1 TTCTTTCTTTTTTTCTTTCT-TTCCTCTCCTTTCCTT
7575697 TTCTTTCCTTATTTTTCTTTCTTTCCTCTCCTTTCCTT
1 TTCTTT-CTT-TTTTTCTTTCTTTCCTCTCCTTTCCTT
7575735 TTCTTTCCTTATTTTTCTTTCTTTCCTCTCCTTTCCTT
1 TTCTTT-CTT-TTTTTCTTTCTTTCCTCTCCTTTCCTT
* * *
7575773 TTCCTTC--TTTTTCTTT-TTTCCT-TCTTTTTC-T
1 TTCTTTCTTTTTTTCTTTCTTTCCTCTCCTTTCCTT
* *
7575804 TTCTTCCTTTCTTTCTT
1 TTCTTTCTTTTTTTCTT
7575821 CTTCTTCCCC
Statistics
Matches: 110, Mismatches: 6, Indels: 16
0.83 0.05 0.12
Matches are distributed among these distances:
31 6 0.05
32 6 0.05
33 19 0.17
34 12 0.11
35 7 0.06
36 7 0.06
37 2 0.02
38 51 0.46
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.70
Consensus pattern (36 bp):
TTCTTTCTTTTTTTCTTTCTTTCCTCTCCTTTCCTT
Found at i:7575737 original size:38 final size:38
Alignment explanation
Indices: 7575689--7575775 Score: 174
Period size: 38 Copynumber: 2.3 Consensus size: 38
7575679 TTCTCTTCTT
7575689 CTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCCTCTC
1 CTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCCTCTC
7575727 CTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCCTCTC
1 CTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCCTCTC
7575765 CTTTCCTTTTC
1 CTTTCCTTTTC
7575776 CTTCTTTTTC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (38 bp):
CTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCCTCTC
Found at i:7575780 original size:28 final size:28
Alignment explanation
Indices: 7575727--7575782 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
7575717 CTTTCCTCTC
* * *
7575727 CTTTCCTTTTCTTTCCTTATTTTTCTTT
1 CTTTCCTCTCCTTTCCTTATTCTTCTTT
7575755 CTTTCCTCTCCTTTCCTT-TTCCTTCTTT
1 CTTTCCTCTCCTTTCCTTATT-CTTCTTT
7575783 TTCTTTTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 2 0.08
28 22 0.92
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (28 bp):
CTTTCCTCTCCTTTCCTTATTCTTCTTT
Found at i:7575953 original size:27 final size:27
Alignment explanation
Indices: 7575875--7575937 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
7575865 ATATTTAAGG
* * *
7575875 TGGTGCCGCCAACAAGGAAT-CCTTATT
1 TGGTGCCGCAAACAAGG-TTCCCTTGTT
7575902 TGGTGCCGCAAACAAGGTTCCCTTGTT
1 TGGTGCCGCAAACAAGGTTCCCTTGTT
7575929 TGGTGCCGC
1 TGGTGCCGC
7575938 CAACCGTGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
26 1 0.03
27 31 0.97
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (27 bp):
TGGTGCCGCAAACAAGGTTCCCTTGTT
Found at i:7576066 original size:26 final size:23
Alignment explanation
Indices: 7576009--7576054 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
7575999 GGTTTTTTTG
* *
7576009 ATATATTTTGGTAAATAAAAAAA
1 ATATAATTTAGTAAATAAAAAAA
7576032 ATATAATTTAGTAAATAAAAAAA
1 ATATAATTTAGTAAATAAAAAAA
7576055 TGTATAACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.33
Consensus pattern (23 bp):
ATATAATTTAGTAAATAAAAAAA
Found at i:7577864 original size:1 final size:1
Alignment explanation
Indices: 7577858--7577897 Score: 80
Period size: 1 Copynumber: 40.0 Consensus size: 1
7577848 CCTCTTCCTC
7577858 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
7577898 AAGATAAGAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:7578003 original size:20 final size:20
Alignment explanation
Indices: 7577978--7578015 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7577968 ACTGATAAAA
*
7577978 CAGTTATTCAAGTTTTAATT
1 CAGTTACTCAAGTTTTAATT
*
7577998 CAGTTACTCAATTTTTAA
1 CAGTTACTCAAGTTTTAA
7578016 AAAATAACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.47
Consensus pattern (20 bp):
CAGTTACTCAAGTTTTAATT
Found at i:7578652 original size:16 final size:16
Alignment explanation
Indices: 7578633--7578665 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
7578623 GAAAACAAAA
*
7578633 AACATGTTGAAAATTT
1 AACATGTCGAAAATTT
7578649 AACATGTCGAAAATTT
1 AACATGTCGAAAATTT
7578665 A
1 A
7578666 CCCATCTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.33
Consensus pattern (16 bp):
AACATGTCGAAAATTT
Found at i:7583070 original size:13 final size:13
Alignment explanation
Indices: 7583052--7583077 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7583042 GTTATATTTT
7583052 CGTTTAGTTCTCA
1 CGTTTAGTTCTCA
7583065 CGTTTAGTTCTCA
1 CGTTTAGTTCTCA
7583078 TATTCGTTGC
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:0.15, C:0.23, G:0.15, T:0.46
Consensus pattern (13 bp):
CGTTTAGTTCTCA
Found at i:7584601 original size:25 final size:25
Alignment explanation
Indices: 7584540--7584660 Score: 86
Period size: 24 Copynumber: 4.8 Consensus size: 25
7584530 ATGCTCATAC
*
7584540 GAGCACATA-AACGGGAAGCTCTCTCTT
1 GAGC-CATATAACGGGAAGCTC-AT-TT
7584567 GAGCCATATAACGGGAAGCTCATTT
1 GAGCCATATAACGGGAAGCTCATTT
** * * *
7584592 GAGCTGTATAACAGAAAGCTCATTA
1 GAGCCATATAACGGGAAGCTCATTT
* * ***
7584617 AAGCCATA-ATCGGGAAGCTCAAGC
1 GAGCCATATAACGGGAAGCTCATTT
*
7584641 GAGCCA-ATATCGGGAAGCTC
1 GAGCCATATAACGGGAAGCTC
7584661 CAGATAGCCA
Statistics
Matches: 76, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
23 1 0.01
24 27 0.36
25 27 0.36
26 5 0.07
27 16 0.21
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATTT
Found at i:7584684 original size:26 final size:25
Alignment explanation
Indices: 7584618--7584685 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 25
7584608 AGCTCATTAA
*
7584618 AGCC-ATAATCGGGAAGCTCAAGCG
1 AGCCAATAATCGGGAAGCTCAAGAG
* *
7584642 AGCCAAT-ATCGGGAAGCTCCAGAT
1 AGCCAATAATCGGGAAGCTCAAGAG
*
7584666 AGCCAATTAATCGAGAAGCT
1 AGCCAA-TAATCGGGAAGCT
7584686 TATGAAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
24 24 0.65
25 3 0.08
26 10 0.27
ACGTcount: A:0.35, C:0.24, G:0.25, T:0.16
Consensus pattern (25 bp):
AGCCAATAATCGGGAAGCTCAAGAG
Found at i:7594163 original size:17 final size:18
Alignment explanation
Indices: 7594127--7594163 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
7594117 CTCCCTTACA
7594127 AGTATCGATACCATGTTCT
1 AGTATCGATACCA-GTTCT
7594146 AGTATCGATACC-GTTCT
1 AGTATCGATACCAGTTCT
7594163 A
1 A
7594164 CGATTTTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
19 12 0.67
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (18 bp):
AGTATCGATACCAGTTCT
Found at i:7599005 original size:11 final size:11
Alignment explanation
Indices: 7598964--7599009 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
7598954 TTATTATTAA
*
7598964 TTTTTTTTACT
1 TTTTTTTTTCT
*
7598975 TCTTTTTTCTCT
1 T-TTTTTTTTCT
*
7598987 TTTCTTTTTCT
1 TTTTTTTTTCT
7598998 TTTTTTTTTCT
1 TTTTTTTTTCT
7599009 T
1 T
7599010 AAAAATATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
11 20 0.69
12 9 0.31
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTTTTTCT
Found at i:7619419 original size:36 final size:35
Alignment explanation
Indices: 7619328--7619419 Score: 123
Period size: 34 Copynumber: 2.6 Consensus size: 35
7619318 ACTATTTGTT
7619328 TTGGTGTGTTTCAGATGGA-TAGCTCTTATGAGCA
1 TTGGTGTGTTTCAGATGGATTAGCTCTTATGAGCA
* *
7619362 TTGGTGTGTTTTAGATAGATTAGCTCTTATGAGCA
1 TTGGTGTGTTTCAGATGGATTAGCTCTTATGAGCA
* * *
7619397 TCTGGTATGTTTCGGTTGGATTA
1 T-TGGTGTGTTTCAGATGGATTA
7619420 TCGATGTACT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
34 17 0.35
35 16 0.33
36 16 0.33
ACGTcount: A:0.20, C:0.10, G:0.28, T:0.42
Consensus pattern (35 bp):
TTGGTGTGTTTCAGATGGATTAGCTCTTATGAGCA
Found at i:7620891 original size:11 final size:11
Alignment explanation
Indices: 7620871--7620900 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
7620861 ATAATATATA
7620871 TTTTTAAAATT
1 TTTTTAAAATT
*
7620882 TTTTTTAAATT
1 TTTTTAAAATT
7620893 TTTTTAAA
1 TTTTTAAA
7620901 CACATTTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TTTTTAAAATT
Found at i:7621962 original size:9 final size:9
Alignment explanation
Indices: 7621948--7621984 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
7621938 GGTTGCAAAA
7621948 AGGACGATG
1 AGGACGATG
7621957 AGGACGATG
1 AGGACGATG
7621966 AGGACGATG
1 AGGACGATG
*
7621975 AGGATGATG
1 AGGACGATG
7621984 A
1 A
7621985 CGTTTCTTCG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.35, C:0.08, G:0.43, T:0.14
Consensus pattern (9 bp):
AGGACGATG
Found at i:7626908 original size:12 final size:12
Alignment explanation
Indices: 7626875--7626902 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
7626865 TGAATTTCAT
7626875 GCAGCACAAGAA
1 GCAGCACAAGAA
7626887 GCAGCACAAGAA
1 GCAGCACAAGAA
7626899 GCAG
1 GCAG
7626903 ATCAAGCTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.25, G:0.29, T:0.00
Consensus pattern (12 bp):
GCAGCACAAGAA
Found at i:7637168 original size:30 final size:30
Alignment explanation
Indices: 7637131--7637201 Score: 108
Period size: 30 Copynumber: 2.3 Consensus size: 30
7637121 AATATTTTTT
*
7637131 TATTTTTTTATTTTTAAAATACTTTTTTAAA
1 TATTTTTTTATTTTTAAAATA-TTTTTAAAA
7637162 -ATTTTTTTATTTTTAAAATATTTTTAAAA
1 TATTTTTTTATTTTTAAAATATTTTTAAAA
7637191 TACTTTTTTTA
1 TA-TTTTTTTA
7637202 AAAAAATTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
29 8 0.22
30 21 0.57
31 8 0.22
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (30 bp):
TATTTTTTTATTTTTAAAATATTTTTAAAA
Found at i:7637183 original size:11 final size:11
Alignment explanation
Indices: 7637139--7637198 Score: 58
Period size: 11 Copynumber: 5.6 Consensus size: 11
7637129 TTTATTTTTT
7637139 TATTTTTAAAA
1 TATTTTTAAAA
7637150 TACTTTTTTAAAA
1 TA--TTTTTAAAA
7637163 T-TTTTT----
1 TATTTTTAAAA
7637169 TATTTTTAAAA
1 TATTTTTAAAA
7637180 TATTTTTAAAA
1 TATTTTTAAAA
7637191 TACTTTTT
1 TA-TTTTT
7637199 TTAAAAAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 15
0.73 0.00 0.27
Matches are distributed among these distances:
6 1 0.02
7 5 0.12
10 5 0.12
11 15 0.37
12 5 0.12
13 10 0.24
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:7637193 original size:41 final size:39
Alignment explanation
Indices: 7637119--7637204 Score: 120
Period size: 38 Copynumber: 2.1 Consensus size: 39
7637109 CCGAATATAA
*
7637119 TAAATATTTTTTTATTTTTTTATTTTTAAAATAC-TTTTT
1 TAAA-ATTTTTTTATTTTTATATTTTTAAAATACTTTTTT
7637158 TAAAATTTTTTTATTTTTAAAATATTTTTAAAATACTTTTTT
1 TAAAATTTTTTTATTTTT---ATATTTTTAAAATACTTTTTT
7637200 TAAAA
1 TAAAA
7637205 AAATTTTAGT
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
38 14 0.33
39 4 0.10
41 14 0.33
42 10 0.24
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (39 bp):
TAAAATTTTTTTATTTTTATATTTTTAAAATACTTTTTT
Found at i:7638378 original size:19 final size:19
Alignment explanation
Indices: 7638322--7638378 Score: 96
Period size: 19 Copynumber: 3.0 Consensus size: 19
7638312 CCACTGTCAC
* *
7638322 CCACTGTAATCAAATTTGC
1 CCACCGTAATCAAATTTGT
7638341 CCACCGTAATCAAATTTGT
1 CCACCGTAATCAAATTTGT
7638360 CCACCGTAATCAAATTTGT
1 CCACCGTAATCAAATTTGT
7638379 TATTAACTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.32
Consensus pattern (19 bp):
CCACCGTAATCAAATTTGT
Found at i:7639842 original size:21 final size:21
Alignment explanation
Indices: 7639794--7639835 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
7639784 TTCTACTTAA
7639794 GCCCAAAAATACAATTTTTTT
1 GCCCAAAAATACAATTTTTTT
7639815 GCCCAAAAATACAATTTTTTT
1 GCCCAAAAATACAATTTTTTT
7639836 CTTCAAATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (21 bp):
GCCCAAAAATACAATTTTTTT
Found at i:7643077 original size:22 final size:21
Alignment explanation
Indices: 7643024--7643078 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 21
7643014 TTTATTGTTG
* *
7643024 TTTGTTGTTGTTTGCTGCCAT
1 TTTGTTGTTATTTGCTACCAT
* * *
7643045 TTTGCTATTATATTGCTACTAT
1 TTTGTTGTTAT-TTGCTACCAT
7643067 TTTGTTGTTATT
1 TTTGTTGTTATT
7643079 GTTTGGATAT
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
21 9 0.35
22 17 0.65
ACGTcount: A:0.13, C:0.11, G:0.16, T:0.60
Consensus pattern (21 bp):
TTTGTTGTTATTTGCTACCAT
Found at i:7648424 original size:41 final size:41
Alignment explanation
Indices: 7648362--7648554 Score: 271
Period size: 41 Copynumber: 4.7 Consensus size: 41
7648352 CCTTTCGGGG
* *
7648362 CTTTAGCGAC-TTTTTAAAAAAAGCGCCGCTAATGCTCAGAT
1 CTTTAGCGGCATTTTT-GAAAAAGCGCCGCTAATGCTCAGAT
* *
7648403 CTTTAGCGGCATTTTTGAAAAAGAGCCGCTAGTGCTCAGAT
1 CTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCAGAT
7648444 CTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCAGAT
1 CTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCAGAT
** * *
7648485 CTTTAGCGGCGCTTTTGAAAAAGCACCGCTAATTCTCAGAT
1 CTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCAGAT
* * *
7648526 CTTGAGCAGCGTTTTTGAAAAAGCGCCGC
1 CTTTAGCGGCATTTTTGAAAAAGCGCCGC
7648555 AAAAACATTT
Statistics
Matches: 137, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
41 132 0.96
42 5 0.04
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Consensus pattern (41 bp):
CTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCAGAT
Found at i:7648908 original size:20 final size:21
Alignment explanation
Indices: 7648871--7648914 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
7648861 TATCATTATA
*
7648871 GTTTAGGGTTTAATATATATG
1 GTTTAGGGTATAATATATATG
7648892 GTTTAGGGTAT-ATATATATG
1 GTTTAGGGTATAATATATATG
7648912 GTT
1 GTT
7648915 AATTTAGGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (21 bp):
GTTTAGGGTATAATATATATG
Done.