Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 226 of 250
Found at i:69733987 original size:177 final size:178
Alignment explanation
Indices: 69733667--69734148 Score: 666
Period size: 177 Copynumber: 2.7 Consensus size: 178
69733657 CTTGGGGCTT
* * **
69733667 AAATCTACTCCATAGCCGATACACGGAGATAAGATTCGCC-TCTTTCGATCTAATCCGCTT-CTG
1 AAATCTGCTCCATAGCCGATACATGGAGATAAGATTCGCCATC-TTCGATCTGTTCCG-TTACTG
* * * * * *
69733730 TTTAGGGAAATAAGATCTTCAATCTTTAGTCTGCTTCCTTGCTACCTTAGGAAGATAATACTA-C
64 CTTAGGGAGATAAGATATTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTATC
69733794 AATCGCCAACCTGTTCTCTTGCTACCTCAGACAAATAAGGTCAATAGCTA
129 AATCGCCAACCTGTTCTCTTGCTACCTCAGACAAATAAGGTCAATAGCTA
* * *
69733844 AAATCTGCTCCATCGCCAATACATGGAGATAAGATTCGCCATCCTCGATCTGTTCCGTTACTGCT
1 AAATCTGCTCCATAGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTGTTCCGTTACTGCT
*
69733909 TAGGGAGATAAGATATTCAATCTTCAGTCTGCTTCCTTACTACCTCAGGAAGATAAGACTATC-A
66 TAGGGAGATAAGATATTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTATCAA
** * * *
69733973 TCTTCAACCTGTTCTCTTGCTACCTCAGAGAGATAAGGTCAATGGCTA
131 TCGCCAACCTGTTCTCTTGCTACCTCAGACAAATAAGGTCAATAGCTA
* * * *
69734021 AAATCTGCTCCATTGTCGATACATGGAGATAAGATTCGCCATCTTCGATTTGTTCCGCTACTGCT
1 AAATCTGCTCCATAGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTGTTCCGTTACTGCT
* * * *
69734086 TAGGGAGATAAGATCTTTCAATCTTCAGTCTGCTTTCTTGCTACTTCAGAAAGATAAGACTAT
66 TAGGGAGATAAGAT-ATTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTAT
69734149 ACCTTGAACC
Statistics
Matches: 271, Mismatches: 30, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
176 2 0.01
177 223 0.82
178 46 0.17
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (178 bp):
AAATCTGCTCCATAGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTGTTCCGTTACTGCT
TAGGGAGATAAGATATTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTATCAA
TCGCCAACCTGTTCTCTTGCTACCTCAGACAAATAAGGTCAATAGCTA
Found at i:69734180 original size:177 final size:175
Alignment explanation
Indices: 69733662--69734292 Score: 662
Period size: 177 Copynumber: 3.6 Consensus size: 175
69733652 TAAATCTTGG
* * * * **
69733662 GGCTTAAATCTACTCCATAGCCGATACACGGAGATAAGATTCGCC-TCTTTCGATCTAATCCGCT
1 GGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATC-TTCGATCTGTTCCGCT
* * * * *
69733726 TCTGTTTAGGGAAATAAGATCTTCAATCTTTAGTCTGCTTCCTTGCTACCTT-AGGAAGATAATA
65 ACTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTA-CTTCAGGAAGATAAGA
* * * * *
69733790 CTACAATCGCCAACCTGTTCTCTTGCTACCTCAGACAAATAAGGTCAAT
129 CTATACTTG--AACCTGTTCTCTTGCTACCTCAGAGAGATAAGGTCAAT
* * * * *
69733839 AGCTAAAATCTGCTCCATCGCCAATACATGGAGATAAGATTCGCCATCCTCGATCTGTTCCGTTA
1 GGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTGTTCCGCTA
* * *
69733904 CTGCTTAGGGAGATAAGATATTCAATCTTCAGTCTGCTTCCTTACTACCTCAGGAAGATAAGACT
66 CTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACTTCAGGAAGATAAGACT
*
69733969 ATCATCTTCAACCTGTTCTCTTGCTACCTCAGAGAGATAAGGTCAAT
131 AT-A-CTTGAACCTGTTCTCTTGCTACCTCAGAGAGATAAGGTCAAT
* *
69734016 GGCTAAAATCTGCTCCATTGTCGATACATGGAGATAAGATTCGCCATCTTCGATTTGTTCCGCTA
1 GGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTGTTCCGCTA
* *
69734081 CTGCTTAGGGAGATAAGATCTTTCAATCTTCAGTCTGCTTTCTTGCTACTTCAGAAAGATAAGAC
66 CTGCTTAGGGAGATAAGATC-TTCAATCTTCAGTCTGCTTCCTTGCTACTTCAGGAAGATAAGAC
* * * **
69734146 TATACCTTGAACCTGCTC-CACTG-TAACTTCAGAGAGATAAGG-CTGGT
130 TATA-CTTGAACCTGTTCTC-TTGCT-ACCTCAGAGAGATAAGGTC-AAT
* * * * *** * * * *
69734193 GACTTAAATCCGCTCCATTGCCTG-TATATGGAGATAAGATTCGTTGTCTTTGGTCTGTTTCACT
1 GGCTAAAATCTGCTCCATTGCC-GATACATGGAGATAAGATTCGCCATCTTCGATCTGTTCCGCT
* * * * *
69734257 ATTGCTTAGGGAAATAAGACCTGCAATCCTCAGTCT
65 ACTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCT
69734293 ACCCCACTGC
Statistics
Matches: 384, Mismatches: 61, Indels: 19
0.83 0.13 0.04
Matches are distributed among these distances:
176 18 0.05
177 318 0.83
178 47 0.12
179 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (175 bp):
GGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTGTTCCGCTA
CTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACTTCAGGAAGATAAGACT
ATACTTGAACCTGTTCTCTTGCTACCTCAGAGAGATAAGGTCAAT
Found at i:69734581 original size:64 final size:63
Alignment explanation
Indices: 69734480--69734667 Score: 295
Period size: 64 Copynumber: 2.9 Consensus size: 63
69734470 TGTATCATGA
* *
69734480 TTATGCCAAATAATTAGGATGTTATGATCAAAATGAACGAAATGCTCCTAACTAGATGTGATGC
1 TTATGTCAAATAATTAGGATGCTATGATCAAAATGAAC-AAATGCTCCTAACTAGATGTGATGC
*
69734544 TTATGTCAAATAATTAGGATGCTATGATCAAAATGAACCAAATACTCCTAACTAGATGTGATGC
1 TTATGTCAAATAATTAGGATGCTATGATCAAAATGAA-CAAATGCTCCTAACTAGATGTGATGC
* **
69734608 TGATGTCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAGATGTG
1 TTATGTCAAATAATTAGGATGCTATGATCAAAATGAA-CAAATGCTCCTAACTAGATGTG
69734668 TTATGAATGA
Statistics
Matches: 115, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
64 114 0.99
65 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (63 bp):
TTATGTCAAATAATTAGGATGCTATGATCAAAATGAACAAATGCTCCTAACTAGATGTGATGC
Found at i:69734733 original size:6 final size:6
Alignment explanation
Indices: 69734719--69734748 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
69734709 TTAAATGATC
69734719 TTTTCT TTTT-T TTTTCT TTTTCT TTTTCT T
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT T
69734749 GGTAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (6 bp):
TTTTCT
Found at i:69734735 original size:11 final size:12
Alignment explanation
Indices: 69734719--69734748 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
69734709 TTAAATGATC
69734719 TTTTCTTTTT-T
1 TTTTCTTTTTCT
69734730 TTTTCTTTTTCT
1 TTTTCTTTTTCT
69734742 TTTTCTT
1 TTTTCTT
69734749 GGTAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (12 bp):
TTTTCTTTTTCT
Found at i:69740069 original size:14 final size:14
Alignment explanation
Indices: 69740046--69740075 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
69740036 TTGAAAATAT
69740046 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
69740060 GTTGATTTGGATTG
1 GTTGAATTGGATTG
69740074 GT
1 GT
69740076 CTCGATATAA
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:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:69744310 original size:115 final size:115
Alignment explanation
Indices: 69744103--69744311 Score: 296
Period size: 115 Copynumber: 1.8 Consensus size: 115
69744093 GTTCAAAAAA
* * * *
69744103 AAGTTTGTATTAAATGTATGATTAATTTGTTTTATTAATGTTTTTGTGGTATCTTATATTAGATT
1 AAGTTTGTATTAAAGGTATGATTAATTTGTTTGATTAATGTTTTTGTAGTATCTTATATCAGATT
* *
69744168 TTCGTATTTAAGGGAAATGTTATTTTTTGTTGTTGTGTTTTATTAGGTTT
66 TTCGTATTTAAGGCAAATGATATTTTTTGTTGTTGTGTTTTATTAGGTTT
* *
69744218 AAGTTTGTATTAAAGGTATGATTAATTTGTTTGATTAATGTTTTT-TAAGTATCTTATATCGGTT
1 AAGTTTGTATTAAAGGTATGATTAATTTGTTTGATTAATGTTTTTGT-AGTATCTTATATCAGAT
*
69744282 TTTTGTATTTAAGGCATAA-GCATATTTTTT
65 TTTCGTATTTAAGGCA-AATG-ATATTTTTT
69744312 ATAAGTTATT
Statistics
Matches: 82, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
114 1 0.01
115 71 0.87
116 10 0.12
ACGTcount: A:0.25, C:0.03, G:0.17, T:0.55
Consensus pattern (115 bp):
AAGTTTGTATTAAAGGTATGATTAATTTGTTTGATTAATGTTTTTGTAGTATCTTATATCAGATT
TTCGTATTTAAGGCAAATGATATTTTTTGTTGTTGTGTTTTATTAGGTTT
Found at i:69744578 original size:18 final size:19
Alignment explanation
Indices: 69744550--69744585 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
69744540 AAATTCACGG
*
69744550 AATTATTTTTTAGTTGATC
1 AATTATTTTTTAATTGATC
69744569 AATT-TTTTTTAATTGAT
1 AATTATTTTTTAATTGAT
69744586 AGGATGAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.28, C:0.03, G:0.08, T:0.61
Consensus pattern (19 bp):
AATTATTTTTTAATTGATC
Found at i:69748494 original size:20 final size:22
Alignment explanation
Indices: 69748443--69748498 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
69748433 AAAAATCACT
69748443 TTTTC-TCTTAAAAACGTTTTG
1 TTTTCATCTTAAAAACGTTTTG
*
69748464 TTTTCATCTTAAAAGCGTTTT-
1 TTTTCATCTTAAAAACGTTTTG
*
69748485 TTTTGA-CTTAAAAA
1 TTTTCATCTTAAAAA
69748499 TAATTTTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.23
21 10 0.32
22 14 0.45
ACGTcount: A:0.29, C:0.12, G:0.09, T:0.50
Consensus pattern (22 bp):
TTTTCATCTTAAAAACGTTTTG
Found at i:69749922 original size:96 final size:98
Alignment explanation
Indices: 69749755--69749947 Score: 304
Period size: 96 Copynumber: 2.0 Consensus size: 98
69749745 CGAGCCTGTT
* *
69749755 CCATTTTCACTCTCTCCGAAGTAAATTTTCTTTTCCTCTTTTCTGTTCACGTTCAAGATTGTTCA
1 CCATTTTCACTCTCTCCAAAGTAAATTATCTTTTCCTCTTTTCTGTTCACGTTCAAGATTGTTCA
*
69749820 GTGATTAATTTGCACGCCAAGTAATT-TTTTTC
66 GCGATTAATTTGCACGCCAAGTAATTCTTTTTC
69749852 CCATTTTCACTCTCTCCAAAGT-AATCTAT-TTTTCCTCTTTTCTGTTCAAC-TTCAAGATTGTT
1 CCATTTTCACTCTCTCCAAAGTAAAT-TATCTTTTCCTCTTTTCTGTTC-ACGTTCAAGATTGTT
*
69749914 CAGCGATTAATTTTCACGCCAAGTAATTCTTTTT
64 CAGCGATTAATTTGCACGCCAAGTAATTCTTTTT
69749948 TTCCGTAATG
Statistics
Matches: 89, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
96 59 0.66
97 30 0.34
ACGTcount: A:0.22, C:0.23, G:0.10, T:0.45
Consensus pattern (98 bp):
CCATTTTCACTCTCTCCAAAGTAAATTATCTTTTCCTCTTTTCTGTTCACGTTCAAGATTGTTCA
GCGATTAATTTGCACGCCAAGTAATTCTTTTTC
Found at i:69753774 original size:12 final size:12
Alignment explanation
Indices: 69753757--69753781 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
69753747 ATTTTAAATG
69753757 AATGACAAATTT
1 AATGACAAATTT
69753769 AATGACAAATTT
1 AATGACAAATTT
69753781 A
1 A
69753782 CCTTTTATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (12 bp):
AATGACAAATTT
Found at i:69754557 original size:94 final size:94
Alignment explanation
Indices: 69754438--69754608 Score: 299
Period size: 94 Copynumber: 1.8 Consensus size: 94
69754428 TAAGACCATT
* *
69754438 AATTAAGTCATTAATTATGAAGTCAATTTGTTCAT-TCAAAGTTCATATTGTGTCCAACAACATG
1 AATTAAGTCATTAATTATCAAGTCAATTTGTTC-TCTCAAAGTTCACATTGTGTCCAACAACATG
69754502 TATTACATGGTCACCCTTGAAATAACTACC
65 TATTACATGGTCACCCTTGAAATAACTACC
*
69754532 AATTAAGTCATTAATTATCAAGTCAATTTGTTCTCTCAAAGTTCACGTTGTGTCCAACAACATGT
1 AATTAAGTCATTAATTATCAAGTCAATTTGTTCTCTCAAAGTTCACATTGTGTCCAACAACATGT
69754597 ATTACATGGTCA
66 ATTACATGGTCA
69754609 AGCAATACTA
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
93 1 0.01
94 72 0.99
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (94 bp):
AATTAAGTCATTAATTATCAAGTCAATTTGTTCTCTCAAAGTTCACATTGTGTCCAACAACATGT
ATTACATGGTCACCCTTGAAATAACTACC
Found at i:69754980 original size:21 final size:21
Alignment explanation
Indices: 69754941--69754980 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
69754931 AAACGTGACA
*
69754941 AGTTAACTGACCGCATCAGTT
1 AGTTAACTGACCACATCAGTT
* *
69754962 AGTTAACTGGCCACGTCAG
1 AGTTAACTGACCACATCAG
69754981 CGGTCCCATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (21 bp):
AGTTAACTGACCACATCAGTT
Found at i:69760137 original size:29 final size:29
Alignment explanation
Indices: 69760092--69760147 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
69760082 TTGCAACTGA
*
69760092 GTAGTCTTCTCCGCTATCCTCAAGCTCGC
1 GTAGTCTTCTCCACTATCCTCAAGCTCGC
69760121 GTAGTCTTCTCCACTATCCTCAAGCTC
1 GTAGTCTTCTCCACTATCCTCAAGCTC
69760148 ACATCTATCG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.16, C:0.38, G:0.14, T:0.32
Consensus pattern (29 bp):
GTAGTCTTCTCCACTATCCTCAAGCTCGC
Found at i:69761761 original size:41 final size:41
Alignment explanation
Indices: 69761704--69761789 Score: 154
Period size: 41 Copynumber: 2.1 Consensus size: 41
69761694 GCAAAAATTG
* *
69761704 TAAAGACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCTGC
1 TAAAGACCAGAGCATTACCGGCGCTTTTGGTAAAACGCCGC
69761745 TAAAGACCAGAGCATTACCGGCGCTTTTGGTAAAACGCCGC
1 TAAAGACCAGAGCATTACCGGCGCTTTTGGTAAAACGCCGC
69761786 TAAA
1 TAAA
69761790 AGTCATATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.21
Consensus pattern (41 bp):
TAAAGACCAGAGCATTACCGGCGCTTTTGGTAAAACGCCGC
Found at i:69761994 original size:15 final size:15
Alignment explanation
Indices: 69761952--69761994 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
69761942 TATCATTATA
69761952 GTTCAAGGTTTAT-G
1 GTTCAAGGTTTATGG
* * *
69761966 GTTTAAGATATATGG
1 GTTCAAGGTTTATGG
69761981 GTTCAAGGTTTATG
1 GTTCAAGGTTTATG
69761995 AGTTAACTAT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.26, C:0.05, G:0.28, T:0.42
Consensus pattern (15 bp):
GTTCAAGGTTTATGG
Found at i:69763068 original size:78 final size:79
Alignment explanation
Indices: 69762930--69763082 Score: 265
Period size: 78 Copynumber: 1.9 Consensus size: 79
69762920 GATTAGTGGC
*
69762930 GTTTATTTAAAAAACGCCGCAAAAAACATAGCAGTTTAACGAAAACGGCGTCGTTTTAATTGGAT
1 GTTTATTTAAAAAACGCCGCAAAAAACATACCAGTTTAACGAAAACGGCGTCGTTTTAATTGGAT
69762995 ATTTAGGGGAGGGT
66 ATTTAGGGGAGGGT
69763009 GTTT-TTTGAAAAAACGCCGC-AAAAACATACCAGTTTAACGAAAACGGCGTCGTTTTAATTGGA
1 GTTTATTT-AAAAAACGCCGCAAAAAACATACCAGTTTAACGAAAACGGCGTCGTTTTAATTGGA
*
69763072 TTTTTAGGGGA
65 TATTTAGGGGA
69763083 ATGCCGGCGT
Statistics
Matches: 71, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
78 55 0.77
79 16 0.23
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.29
Consensus pattern (79 bp):
GTTTATTTAAAAAACGCCGCAAAAAACATACCAGTTTAACGAAAACGGCGTCGTTTTAATTGGAT
ATTTAGGGGAGGGT
Found at i:69765675 original size:46 final size:46
Alignment explanation
Indices: 69765608--69765782 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
69765598 TGTAACCCGC
69765608 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
69765654 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * ** *
69765704 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
69765747 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
69765783 ATGCTCAACC
Statistics
Matches: 109, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 63 0.58
47 26 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:69765728 original size:93 final size:93
Alignment explanation
Indices: 69765616--69765786 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
69765606 GCCCATAAGT
** *
69765616 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
69765681 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
*
69765709 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
69765774 CGAGTTCGGATGC
66 CGAGCTCGGATGC
69765787 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:69769094 original size:148 final size:148
Alignment explanation
Indices: 69768816--69769112 Score: 558
Period size: 148 Copynumber: 2.0 Consensus size: 148
69768806 CTCGGAAATG
69768816 TTATGCAATAAATTGTAAAAAGGAGATTTATATGCACTCAAGGGTAAAATATTAGTATCTAATTG
1 TTATGCAATAAATTGTAAAAAGGAGATTTATATGCACTCAAGGGTAAAATATTAGTATCTAATTG
*
69768881 CAGCTTTTTGGCATATCCTTTTAAGTCGATAATAGCTAGTTACTGCTATGTTTGGAATAAACTAC
66 CAGCTTTTTGGCATATCCTTTTAAGTCGATAACAGCTAGTTACTGCTATGTTTGGAATAAACTAC
69768946 TTTAAACTTCCACAAGCT
131 TTTAAACTTCCACAAGCT
69768964 TTATGCAATAAATTGTAAAAAGGAGATTTATATGCACTCAAGGGTAAAATATTAGTATCTAATTG
1 TTATGCAATAAATTGTAAAAAGGAGATTTATATGCACTCAAGGGTAAAATATTAGTATCTAATTG
* * *
69769029 CAGCTTTTTGGCATATCCTTTTAAGTCGATAACAGCTAGTTGCTGCTATGTTTGGCATAAGCTAC
66 CAGCTTTTTGGCATATCCTTTTAAGTCGATAACAGCTAGTTACTGCTATGTTTGGAATAAACTAC
69769094 TTTAAACTTCCACAAGCT
131 TTTAAACTTCCACAAGCT
69769112 T
1 T
69769113 ATGATTAAGG
Statistics
Matches: 145, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
148 145 1.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (148 bp):
TTATGCAATAAATTGTAAAAAGGAGATTTATATGCACTCAAGGGTAAAATATTAGTATCTAATTG
CAGCTTTTTGGCATATCCTTTTAAGTCGATAACAGCTAGTTACTGCTATGTTTGGAATAAACTAC
TTTAAACTTCCACAAGCT
Found at i:69770434 original size:183 final size:183
Alignment explanation
Indices: 69770119--69770450 Score: 637
Period size: 183 Copynumber: 1.8 Consensus size: 183
69770109 AGATTCAGCA
69770119 TCAGTTACTGCTTCCTGCTCCTCCTACAACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGA
1 TCAGTTACTGCTTCCTGCTCCTCCTACAACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGA
*
69770184 ATTAATATTTGGTACTGATATAGATAAAGTTTTTATATTTGTTTAAACTGAAATATATTTGGTGC
66 ATTAATATTTGGTACTGATATAGATAAAGTTTTTATATTTGCTTAAACTGAAATATATTTGGTGC
69770249 TACTCTTATAATCTTACATGTGTCTGTATTAGTGAATTAATGTTGTATGTATT
131 TACTCTTATAATCTTACATGTGTCTGTATTAGTGAATTAATGTTGTATGTATT
* *
69770302 TCAGTTGCTGCTTCCTGCTCCTCCTGCAACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGA
1 TCAGTTACTGCTTCCTGCTCCTCCTACAACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGA
69770367 ATTAATATTTGGTACTGATATAGATAAAGTTTTTATATTTGCTTAAACTGAAATATATTTGGTGC
66 ATTAATATTTGGTACTGATATAGATAAAGTTTTTATATTTGCTTAAACTGAAATATATTTGGTGC
69770432 TACTCTTATAATCTTACAT
131 TACTCTTATAATCTTACAT
69770451 CTGTTCTAGG
Statistics
Matches: 146, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
183 146 1.00
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.42
Consensus pattern (183 bp):
TCAGTTACTGCTTCCTGCTCCTCCTACAACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGA
ATTAATATTTGGTACTGATATAGATAAAGTTTTTATATTTGCTTAAACTGAAATATATTTGGTGC
TACTCTTATAATCTTACATGTGTCTGTATTAGTGAATTAATGTTGTATGTATT
Found at i:69771362 original size:9 final size:9
Alignment explanation
Indices: 69771339--69771466 Score: 130
Period size: 9 Copynumber: 13.6 Consensus size: 9
69771329 ATTGATCATT
*
69771339 ACTTAAATA
1 ACTTACATA
*
69771348 AATTACATA
1 ACTTACATA
69771357 ACTTACATA
1 ACTTACATA
* *
69771366 ACTCATATA
1 ACTTACATA
69771375 ACTTACATA
1 ACTTACATA
*
69771384 ATTTACATAACA
1 ACTTACAT---A
69771396 ACTTACATA
1 ACTTACATA
69771405 ACTTACATA
1 ACTTACATA
69771414 ACTTACATA
1 ACTTACATA
*
69771423 ATTTACATA
1 ACTTACATA
*
69771432 ACTCACATA
1 ACTTACATA
*
69771441 ACGTACATAACA
1 ACTTACAT---A
69771453 ACTTACATA
1 ACTTACATA
69771462 ACTTA
1 ACTTA
69771467 ACTAATACAT
Statistics
Matches: 98, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
9 82 0.84
12 16 0.16
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (9 bp):
ACTTACATA
Found at i:69771413 original size:57 final size:57
Alignment explanation
Indices: 69771339--69771466 Score: 184
Period size: 57 Copynumber: 2.2 Consensus size: 57
69771329 ATTGATCATT
* * * * **
69771339 ACTTAAATAAATTACATAACTTACATAACTCATATAACTTACATAATTTACATAACA
1 ACTTACATAACTTACATAACTTACATAACTCACATAACTCACATAACGTACATAACA
* *
69771396 ACTTACATAACTTACATAACTTACATAATTTACATAACTCACATAACGTACATAACA
1 ACTTACATAACTTACATAACTTACATAACTCACATAACTCACATAACGTACATAACA
69771453 ACTTACATAACTTA
1 ACTTACATAACTTA
69771467 ACTAATACAT
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 63 1.00
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (57 bp):
ACTTACATAACTTACATAACTTACATAACTCACATAACTCACATAACGTACATAACA
Found at i:69771415 original size:39 final size:39
Alignment explanation
Indices: 69771356--69771433 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
69771346 TAAATTACAT
*
69771356 AACTTACATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
*
69771395 AACTTACATAACTTACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
69771434 TCACATAACG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:69771429 original size:48 final size:49
Alignment explanation
Indices: 69771350--69771466 Score: 148
Period size: 48 Copynumber: 2.4 Consensus size: 49
69771340 CTTAAATAAA
* * * *
69771350 TTACATAACTTACATAACTCATATAACTTACATAATTTACATAAC-AAC
1 TTACATAACTTACATAACTTACATAACTTACATAACTCACATAACGAAC
* *
69771398 TTACATAACTTACATAACTTACATAATTTACATAACTCACATAACGTAC
1 TTACATAACTTACATAACTTACATAACTTACATAACTCACATAACGAAC
* *
69771447 ATA-ACAACTTACATAACTTA
1 TTACATAACTTACATAACTTA
69771467 ACTAATACAT
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
48 56 0.93
49 4 0.07
ACGTcount: A:0.45, C:0.21, G:0.01, T:0.32
Consensus pattern (49 bp):
TTACATAACTTACATAACTTACATAACTTACATAACTCACATAACGAAC
Found at i:69771756 original size:41 final size:41
Alignment explanation
Indices: 69771681--69771938 Score: 414
Period size: 41 Copynumber: 6.3 Consensus size: 41
69771671 CGTTCTAAAA
*
69771681 AAAACGCCGCTAAAAACC-GAGCATTAGCGGCGCTTTCGGT
1 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTCGGT
* * *
69771721 AAAACGCCGCTAAAAACTAGAGCATTAGCGGCGCTTTCGAT
1 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTCGGT
69771762 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTTC-GT
1 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGC-TTTCGGT
*
69771803 AAAACGCCGCTAAAAGCCATAGCATTAGCGGCGCTTTTC-GT
1 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGC-TTTCGGT
*
69771844 AAAACGCCGCTAAAAGCCATAGCATTAGCGGCGCTTTCGGT
1 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTCGGT
69771885 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTCGGT
1 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTCGGT
*
69771926 AAAACGCCACTAA
1 AAAACGCCGCTAA
69771939 GAATCTCATA
Statistics
Matches: 207, Mismatches: 8, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
40 21 0.10
41 182 0.88
42 4 0.02
ACGTcount: A:0.31, C:0.27, G:0.23, T:0.19
Consensus pattern (41 bp):
AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTCGGT
Found at i:69773016 original size:17 final size:17
Alignment explanation
Indices: 69772994--69773026 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
69772984 TTTAATTTAG
*
69772994 AAGATAAATGTATATAT
1 AAGATAAATATATATAT
69773011 AAGATAAATATATATA
1 AAGATAAATATATATA
69773027 AAATATTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (17 bp):
AAGATAAATATATATAT
Found at i:69773066 original size:24 final size:24
Alignment explanation
Indices: 69773004--69773066 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
69772994 AAGATAAATG
* *
69773004 TATATATAAGATAAATATATATAAA
1 TATATATATGA-AAAAATATATAAA
* *
69773029 -ATATTATTTTAAAAAATATATAAA
1 TATA-TATATGAAAAAATATATAAA
69773053 TATATATATGAAAA
1 TATATATATGAAAA
69773067 GTGGTTTAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
24 23 0.77
25 7 0.23
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (24 bp):
TATATATATGAAAAAATATATAAA
Found at i:69775080 original size:60 final size:60
Alignment explanation
Indices: 69775007--69775129 Score: 246
Period size: 60 Copynumber: 2.0 Consensus size: 60
69774997 TTCTGTAGCC
69775007 TATCATGATAGTTATTCATTTCATATCCTCTACACATGCATACATACATACACGTGTGTG
1 TATCATGATAGTTATTCATTTCATATCCTCTACACATGCATACATACATACACGTGTGTG
69775067 TATCATGATAGTTATTCATTTCATATCCTCTACACATGCATACATACATACACGTGTGTG
1 TATCATGATAGTTATTCATTTCATATCCTCTACACATGCATACATACATACACGTGTGTG
69775127 TAT
1 TAT
69775130 ATCATGGGAG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 63 1.00
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.37
Consensus pattern (60 bp):
TATCATGATAGTTATTCATTTCATATCCTCTACACATGCATACATACATACACGTGTGTG
Found at i:69777342 original size:21 final size:21
Alignment explanation
Indices: 69777313--69777352 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
69777303 GTTTTTATAT
*
69777313 TTTGGTTCAACTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
69777334 TTTGATTCAACTTAAGTAT
1 TTTGATTCAACTTAAGTAT
69777353 GAATTAATTT
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:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Found at i:69777786 original size:502 final size:501
Alignment explanation
Indices: 69776844--69778205 Score: 2475
Period size: 502 Copynumber: 2.8 Consensus size: 501
69776834 GAAGTATGAA
69776844 TAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGTCCATTATAATTACAACAATAGC
1 TAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGTCCATTATAATTACAACAATAGC
69776909 TGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGA
66 TGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGA
69776974 CGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTAT
131 CGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTAT
69777039 GATGAATCTTAAAAAATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAAC
196 GATGAATCTTAAAAAATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAAC
69777104 CTTAATTTATTTCCAATTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTC
261 CTTAATTTATTTCCAATTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTC
69777169 AAATTACTATTTTGTTATATTAAACATGTTTGATTTTAATATTTAATATTTTTAAATGTCTTTAA
326 AAATTACTATTTTGTTATATTAAACATGTTTGATTTTAATATTTAATATTTTTAAATGTCTTTAA
69777234 AAGTTATAACTAATTTTTATCAAAATAGTATTATTAATTAGTATTTGAAGTATGAATAAGTATGA
391 AAGTTATAACTAATTTTTATCAAAATAGTATTATTAATTAGTATTTGAAGTATGAATAAGTATGA
69777299 ATAAGTTTTTATATTTTGGTTCAACTTAAGTATTATTTGATTCAACT
456 ATAAG-TTTTATATTTTGGTTCAACTTAAGTATTATTTGATTCAACT
69777346 TAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGTCCATTATAATTACAACAATAGC
1 TAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGTCCATTATAATTACAACAATAGC
69777411 TGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGA
66 TGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGA
69777476 CGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTAT
131 CGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTAT
69777541 GATGAATCTTAAAAAATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAAC
196 GATGAATCTTAAAAAATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAAC
69777606 CTTAATTTATTTCCAATTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTC
261 CTTAATTTATTTCCAATTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTC
69777671 AAATTACTATTTTGTTATATTAAACATGTTTGATTTTAATATTTAATATTTTTAAATGTCTTTAA
326 AAATTACTATTTTGTTATATTAAACATGTTTGATTTTAATATTTAATATTTTTAAATGTCTTTAA
69777736 AAGTTATAACTAATTTTTATCAAAATAGTATTATTAATTAGTATTTGAAGTATGAATAAGTATGA
391 AAGTTATAACTAATTTTTATCAAAATAGTATTATTAATTAGTATTTGAAGTATGAATAAGTATGA
69777801 ATAAGTTTTATATTTTGGTTCAACTTAAGTATTATTTGATTCAACT
456 ATAAGTTTTATATTTTGGTTCAACTTAAGTATTATTTGATTCAACT
69777847 TAAGTATGAATTAA-TTTATTACCATATATGTAGCTTGCTTG-----------T----C-----C
1 TAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGTCCATTATAATTACAACAATAGC
*
69777891 --A-----T-T----CCTTATTTTAAATATTTTAAAGATTCAAAGTACATAGGCTGGAAACCTGA
66 TGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGA
69777944 CGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTAT
131 CGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTAT
69778009 GATGAATCTTAAAAAATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAAC
196 GATGAATCTTAAAAAATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAAC
69778074 CTTAATTTATTTCCAATTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTC
261 CTTAATTTATTTCCAATTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTC
69778139 AAATTACTATTTTGTTATATTAAACATGTTTGATTTTAATATTTAATATTTTTAAATGTCTTTAA
326 AAATTACTATTTTGTTATATTAAACATGTTTGATTTTAATATTTAATATTTTTAAATGTCTTTAA
69778204 AA
391 AA
69778206 TTTTGTTATA
Statistics
Matches: 859, Mismatches: 1, Indels: 34
0.96 0.00 0.04
Matches are distributed among these distances:
468 311 0.36
472 1 0.00
473 1 0.00
478 1 0.00
480 1 0.00
485 1 0.00
489 1 0.00
500 27 0.03
501 55 0.06
502 460 0.54
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (501 bp):
TAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGTCCATTATAATTACAACAATAGC
TGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGA
CGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTAT
GATGAATCTTAAAAAATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAAC
CTTAATTTATTTCCAATTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTC
AAATTACTATTTTGTTATATTAAACATGTTTGATTTTAATATTTAATATTTTTAAATGTCTTTAA
AAGTTATAACTAATTTTTATCAAAATAGTATTATTAATTAGTATTTGAAGTATGAATAAGTATGA
ATAAGTTTTATATTTTGGTTCAACTTAAGTATTATTTGATTCAACT
Found at i:69777843 original size:21 final size:21
Alignment explanation
Indices: 69777814--69777853 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
69777804 AGTTTTATAT
*
69777814 TTTGGTTCAACTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
69777835 TTTGATTCAACTTAAGTAT
1 TTTGATTCAACTTAAGTAT
69777854 GAATTAATTT
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:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Found at i:69780022 original size:13 final size:14
Alignment explanation
Indices: 69780004--69780033 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
69779994 CATTATAAAT
69780004 ATTATAATA-TTTA
1 ATTATAATATTTTA
69780017 ATTATAATATTTTA
1 ATTATAATATTTTA
69780031 ATT
1 ATT
69780034 CTTCGTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTATAATATTTTA
Found at i:69780434 original size:21 final size:21
Alignment explanation
Indices: 69780408--69780448 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
69780398 ACTTAGAGCG
69780408 GAGGCAGCAGCGAGGGAGGCA
1 GAGGCAGCAGCGAGGGAGGCA
69780429 GAGGCAGCAGCGAGGGAGGC
1 GAGGCAGCAGCGAGGGAGGC
69780449 GGAGCAGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.20, G:0.54, T:0.00
Consensus pattern (21 bp):
GAGGCAGCAGCGAGGGAGGCA
Found at i:69780793 original size:43 final size:42
Alignment explanation
Indices: 69780737--69781005 Score: 270
Period size: 42 Copynumber: 6.4 Consensus size: 42
69780727 ACTGGACAAA
* *
69780737 TTAGCGACGTTTTTTAAAAAGCGCCGCTAAAAGTACAGGTCT
1 TTAGCGGCGTTTTTTTAAAAGCGCCGCTAAAAGTACAGGTCT
* * * *
69780779 ATAGCGGCATTTTTTATAAAAGCGCCACTAAAAGTACAGGTAT
1 TTAGCGGCGTTTTTT-TAAAAGCGCCGCTAAAAGTACAGGTCT
* * * *
69780822 ATAGCGGCGTTTTTTAAAAAAGCGCCGCAAAAAGTACAGGTAT
1 TTAGCGGCGTTTTTT-TAAAAGCGCCGCTAAAAGTACAGGTCT
* * * *
69780865 TTAGCGGCGTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCT
1 TTAGCGGCGTTTTTTTAAAAGCGCCGCTAAAAGTACAGGTCT
* * * * * * *
69780907 TTGGCGGCGTTTTTATAAGAGCGTCGCTAAATGTCCTGGTCT
1 TTAGCGGCGTTTTTTTAAAAGCGCCGCTAAAAGTACAGGTCT
* * * * *
69780949 TTGGCGGCGTTTTTATAAGAGCGCCGCTAAAGGT-CTTGGTCT
1 TTAGCGGCGTTTTTTTAAAAGCGCCGCTAAAAGTAC-AGGTCT
69780991 TTAGCGGCGTTTTTT
1 TTAGCGGCGTTTTTT
69781006 GTGGCGCTGC
Statistics
Matches: 199, Mismatches: 26, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
41 1 0.01
42 122 0.61
43 76 0.38
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (42 bp):
TTAGCGGCGTTTTTTTAAAAGCGCCGCTAAAAGTACAGGTCT
Found at i:69786548 original size:21 final size:21
Alignment explanation
Indices: 69786518--69786561 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
69786508 TCAACTTAAA
*
69786518 GCGGAAGCAGCAGCGCGGGAG
1 GCGGAAGCAGCAGCGAGGGAG
*
69786539 GCGGAGGCAGCAGCGAGGGAG
1 GCGGAAGCAGCAGCGAGGGAG
69786560 GC
1 GC
69786562 AGAGCAGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.23, G:0.55, T:0.00
Consensus pattern (21 bp):
GCGGAAGCAGCAGCGAGGGAG
Found at i:69787276 original size:19 final size:19
Alignment explanation
Indices: 69787245--69787294 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
69787235 AATCTGTTTG
69787245 TAAAATCTA-ATTTAAATA-
1 TAAAATC-ACATTTAAATAC
69787263 TATAAATCACATTTTAAATAC
1 TA-AAATCACA-TTTAAATAC
69787284 TAAAATCACAT
1 TAAAATCACAT
69787295 ATAAGCATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
18 3 0.11
19 7 0.25
20 16 0.57
21 2 0.07
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (19 bp):
TAAAATCACATTTAAATAC
Found at i:69787278 original size:20 final size:20
Alignment explanation
Indices: 69787255--69787294 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
69787245 TAAAATCTAA
69787255 TTTAAATA-TATAAATCACAT
1 TTTAAATACTA-AAATCACAT
69787275 TTTAAATACTAAAATCACAT
1 TTTAAATACTAAAATCACAT
69787295 ATAAGCATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (20 bp):
TTTAAATACTAAAATCACAT
Found at i:69790988 original size:23 final size:23
Alignment explanation
Indices: 69790942--69790984 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
69790932 ATCATAATTT
*
69790942 AAAATATATATTATAAATAAATA
1 AAAATATATATTAAAAATAAATA
*
69790965 AAAATAT-TTTTAAAAATAAA
1 AAAATATATATTAAAAATAAA
69790985 ATAATTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
AAAATATATATTAAAAATAAATA
Found at i:69791002 original size:17 final size:17
Alignment explanation
Indices: 69790958--69791003 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
69790948 TATATTATAA
*
69790958 ATAAAT-AAAAATATTT
1 ATAAATAAAAAATAATT
*
69790974 TTAAA-AATAAAATAATT
1 ATAAATAA-AAAATAATT
69790991 ATAAATAAAAAAT
1 ATAAATAAAAAAT
69791004 GTTAAAAGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
16 5 0.21
17 17 0.71
18 2 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATAAATAAAAAATAATT
Found at i:69791020 original size:31 final size:33
Alignment explanation
Indices: 69790949--69791023 Score: 86
Period size: 31 Copynumber: 2.4 Consensus size: 33
69790939 TTTAAAATAT
*
69790949 ATATTATAA--ATAAATAAAAATATTTTTAAAA
1 ATATTATAATTATAAATAAAAATATTGTTAAAA
**
69790980 ATAAAATAATTATAAATAAAAA-A-TGTTAAAA
1 ATATTATAATTATAAATAAAAATATTGTTAAAA
*
69791011 GTATTATAATTAT
1 ATATTATAATTAT
69791024 TTAAAAATCT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
31 24 0.67
32 1 0.03
33 11 0.31
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (33 bp):
ATATTATAATTATAAATAAAAATATTGTTAAAA
Found at i:69797033 original size:3 final size:3
Alignment explanation
Indices: 69797025--69797052 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
69797015 TTGAAAGTTA
69797025 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
69797053 GGAATTACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:69806028 original size:121 final size:120
Alignment explanation
Indices: 69805890--69806133 Score: 443
Period size: 121 Copynumber: 2.0 Consensus size: 120
69805880 GCACCAATGT
69805890 CTTCAAACTATGACTCGGATTCTAAATCGATCCCTAAACTTTATAATGTTCTAATTAAGTCTTCA
1 CTTCAAACTATGACTCGGATTCTAAATCGATCCCTAAACTTTATAATGTTCTAATTAAGTCTTCA
* *
69805955 AAGAATCAAATATTCTATAAACCAAATCCTTCCATTAGCTTAACATCAACTTTGAC
66 AAGAATC-AATATTCTATAAACCAAATCCTTCCATTAGCCTAACATCAACTCTGAC
69806011 CTTCAAACTATGACTCGGATTCTAAATCGATCCCTAAACTTTATAATGTTCTAATTAAGTCTTCA
1 CTTCAAACTATGACTCGGATTCTAAATCGATCCCTAAACTTTATAATGTTCTAATTAAGTCTTCA
* *
69806076 AAGTATCAATATTTTATAAACCAAATCCTTCCATTAGCCTAACATCAACTCTGAC
66 AAGAATCAATATTCTATAAACCAAATCCTTCCATTAGCCTAACATCAACTCTGAC
69806131 CTT
1 CTT
69806134 AAATGCTTAG
Statistics
Matches: 119, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
120 48 0.40
121 71 0.60
ACGTcount: A:0.35, C:0.23, G:0.07, T:0.34
Consensus pattern (120 bp):
CTTCAAACTATGACTCGGATTCTAAATCGATCCCTAAACTTTATAATGTTCTAATTAAGTCTTCA
AAGAATCAATATTCTATAAACCAAATCCTTCCATTAGCCTAACATCAACTCTGAC
Found at i:69812819 original size:21 final size:22
Alignment explanation
Indices: 69812794--69812834 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
69812784 TTTTAATATA
*
69812794 TTTTA-CATTATAAAATTAAAT
1 TTTTATCATTAAAAAATTAAAT
*
69812815 TTTTATCCTTAAAAAATTAA
1 TTTTATCATTAAAAAATTAA
69812835 CTATTAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (22 bp):
TTTTATCATTAAAAAATTAAAT
Found at i:69813985 original size:16 final size:16
Alignment explanation
Indices: 69813964--69814007 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
69813954 TCAAAAAAAG
*
69813964 ATATTTTTAATACAAC
1 ATATTTTTAATACAAA
*
69813980 ATATTTTTTATACAAA
1 ATATTTTTAATACAAA
69813996 AT-TTGTTTAATA
1 ATATT-TTTAATA
69814008 TCAATTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 2 0.08
16 22 0.92
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (16 bp):
ATATTTTTAATACAAA
Found at i:69819310 original size:2 final size:2
Alignment explanation
Indices: 69819303--69819333 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
69819293 GGTGAAATCT
69819303 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
69819334 TGAGCTTTCG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:69824436 original size:8 final size:8
Alignment explanation
Indices: 69824425--69824458 Score: 54
Period size: 7 Copynumber: 4.5 Consensus size: 8
69824415 TTGTAATTTT
69824425 TTTATAAA
1 TTTATAAA
69824433 TTTATAAA
1 TTTATAAA
69824441 -TTATAAA
1 TTTATAAA
69824448 -TTATAAA
1 TTTATAAA
69824455 TTTA
1 TTTA
69824459 ATATATATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 14 0.56
8 11 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
TTTATAAA
Found at i:69829482 original size:15 final size:15
Alignment explanation
Indices: 69829462--69829492 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
69829452 ACCACTGCAA
69829462 TAGGTGTAGGTCTGG
1 TAGGTGTAGGTCTGG
69829477 TAGGTGTAGGTCTGG
1 TAGGTGTAGGTCTGG
69829492 T
1 T
69829493 TTAAGGGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.06, G:0.45, T:0.35
Consensus pattern (15 bp):
TAGGTGTAGGTCTGG
Found at i:69839927 original size:106 final size:106
Alignment explanation
Indices: 69839742--69839938 Score: 367
Period size: 106 Copynumber: 1.9 Consensus size: 106
69839732 AAGCTTTAAG
*
69839742 AGGATATTTGGCTGTTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
69839807 TTTTCCAAACGCGAAATATTGCCTTATTCAAAAGTTTGAAA
66 TTTTCCAAACGCGAAATATTGCCTTATTCAAAAGTTTGAAA
* *
69839848 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
69839913 TTTTCCAAACGCGAAATATTGCCTTA
66 TTTTCCAAACGCGAAATATTGCCTTA
69839939 CTTAGAAAAA
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
106 88 1.00
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.28
Consensus pattern (106 bp):
AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
TTTTCCAAACGCGAAATATTGCCTTATTCAAAAGTTTGAAA
Found at i:69842841 original size:132 final size:132
Alignment explanation
Indices: 69842632--69843486 Score: 1338
Period size: 132 Copynumber: 6.5 Consensus size: 132
69842622 CCAGTATGAA
* * * * * *
69842632 AAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAGTATGGGAAGACAAAATCTGCATCGTC
1 AAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTC
* *
69842695 GGTCCACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACA
66 GATCCACTTCCTACCAATATAGGAAGATAGGACCTGATATCTTCGATCTACTTCACGCCAATACA
69842760 TG
131 TG
69842762 AAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTC
1 AAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTC
* * *
69842827 GATCCTCTTCCTACCAATATAGGAAGATAGGATCTGATATCTTTGATCTACTTCACGCCAATACA
66 GATCCACTTCCTACCAATATAGGAAGATAGGACCTGATATCTTCGATCTACTTCACGCCAATACA
69842892 TG
131 TG
* * *
69842894 AAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGAGAAGACAAGATCTGCGTCGTC
1 AAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTC
* * * * *
69842959 GATCCACTTCCAATCATTATAGGAAGATAGGACCTGTTATCTTTGATCTACTTCACGCCAATACA
66 GATCCACTTCCTACCAATATAGGAAGATAGGACCTGATATCTTCGATCTACTTCACGCCAATACA
69843024 TG
131 TG
* * *
69843026 AAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCGTCGTC
1 AAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTC
* * * * *
69843091 GATCCACTTCCAATCATTATAGGAAGATAGGACCTGTTATCTTTGATCTACTTCACGCCAATACA
66 GATCCACTTCCTACCAATATAGGAAGATAGGACCTGATATCTTCGATCTACTTCACGCCAATACA
69843156 TG
131 TG
* * *
69843158 AAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACTAATATGGGAAGACAAGATCTGTATCTTG
1 AAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTC
*
69843223 GATCCACTTCCTA-CAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACA
66 GATCCACTTCCTACCAATATAGGAAGATAGGACCTGATATCTTCGATCTACTTCACGCCAATACA
69843287 TG
131 TG
* * *
69843289 AAGACAAGACCTACTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTC
1 AAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTC
* * *
69843354 GATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACA
66 GATCCACTTCCTACCAATATAGGAAGATAGGACCTGATATCTTCGATCTACTTCACGCCAATACA
69843419 TG
131 TG
*
69843421 AAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCAATCTT
1 AAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTT
69843486 C
65 C
69843487 AATCTATTCC
Statistics
Matches: 681, Mismatches: 40, Indels: 5
0.94 0.06 0.01
Matches are distributed among these distances:
130 14 0.02
131 136 0.20
132 525 0.77
133 6 0.01
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (132 bp):
AAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTC
GATCCACTTCCTACCAATATAGGAAGATAGGACCTGATATCTTCGATCTACTTCACGCCAATACA
TG
Found at i:69843589 original size:95 final size:95
Alignment explanation
Indices: 69843481--69843769 Score: 476
Period size: 95 Copynumber: 3.0 Consensus size: 95
69843471 AAGATCTGCA
*
69843481 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCAGCTTCAATGTACTCCCATG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCCATG
69843546 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
* * *
69843576 ATCTTCAATCTATTCCACTGCCAAATGCAGAGAGATAGAGTTATCGGCTTTAATGTACT-CCACT
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCCA-T
*
69843640 GTAGTCAAGGAGGTAAAATCTGCCATCTTTG
65 GTAGTCAGGGAGGTAAAATCTGCCATCTTTG
69843671 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTA
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCC-C-A
*
69843736 TG--GTCAGGGAGGTAAAATCTGCCATCTTCG
64 TGTAGTCAGGGAGGTAAAATCTGCCATCTTTG
69843766 ATCT
1 ATCT
69843770 GCTTCGCTGC
Statistics
Matches: 180, Mismatches: 10, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
94 3 0.02
95 172 0.96
96 1 0.01
97 3 0.02
98 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCCATG
TAGTCAGGGAGGTAAAATCTGCCATCTTTG
Found at i:69843836 original size:134 final size:134
Alignment explanation
Indices: 69843671--69844350 Score: 1191
Period size: 134 Copynumber: 5.1 Consensus size: 134
69843661 GCCATCTTTG
*
69843671 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTA
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
69843736 TGGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
66 TAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
69843801 TGCA
131 TGCA
69843805 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
* *
69843870 TGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
66 TAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
69843935 TGCA
131 TGCA
*
69843939 ATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
* *
69844004 TAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCTAATATAGGAAGGCAAGATC
66 TAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
69844069 TGCA
131 TGCA
**
69844073 ATCTTCAATCTATTCCACTGCCCGATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
69844138 TAGTCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGA
66 TAGT--CAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGA
69844203 TCTGCA
129 TCTGCA
* *
69844209 ATCTTCAATCTATTCCACTGCCAAATACAGGAAGATAGAATTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
* * * *
69844274 TTGTTAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGAAAAGCAAGATC
66 TAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
69844339 TG-A
131 TGCA
69844342 TATCTTCAA
1 -ATCTTCAA
69844351 CCAGCTCTGC
Statistics
Matches: 525, Mismatches: 18, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
133 1 0.00
134 397 0.76
136 127 0.24
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (134 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
TGCA
Found at i:69844242 original size:46 final size:46
Alignment explanation
Indices: 69843740--69844239 Score: 244
Period size: 46 Copynumber: 11.1 Consensus size: 46
69843730 CCACTATGGT
* * * * *
69843740 CAGGGAGGTAAAATCTGCCATCTTCGATCTGCTT-CGCTGCCAAATA
1 CAGGGAGGTAAGATCTGCAATCTTCAATCT-ATTCCACTGCCAAATA
* *
69843786 CAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATA
1 CAGGGAGGTAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATA
* * * ** * * ***
69843832 CAGGGAGATAGAGTTAT-C-GGCTTCAATGTACTCCACTG--TGGT-
1 CAGGGAGGTA-AGATCTGCAATCTTCAATCTATTCCACTGCCAAATA
* * ** * *
69843874 CAGGGAGGTAAAATCTGCCATCTTTGATCTGCTT-CGCTGCCAAATA
1 CAGGGAGGTAAGATCTGCAATCTTCAATCT-ATTCCACTGCCAAATA
* * *
69843920 CAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAGATA
1 CAGGGAGGTAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATA
* * * ** * * * *
69843966 CAGGGAGATAGAGTTAT-C-GGCTTCAATGTACTCCACTG--TAGT-
1 CAGGGAGGTA-AGATCTGCAATCTTCAATCTATTCCACTGCCAAATA
* * * * * *
69844008 CAGGGAGGTAAAATCTGCCATCTTCGATCTGCTT-CGCTGCCTAATA
1 CAGGGAGGTAAGATCTGCAATCTTCAATCT-ATTCCACTGCCAAATA
* * * **
69844054 TAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCCGATA
1 CAGGGAGGTAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATA
* * * ** * * * *
69844100 CAGGGAGATAGAGTTAT-C-GGCTTCAATGTACTCCACTG--TAGTCA
1 CAGGGAGGTA-AGATCTGCAATCTTCAATCTATTCCACTGCCAAAT-A
* * * * *
69844144 CAGGGAGGTAAAATCTGCCATCTTCGATCTGCTT-CGCTGCCAAATA
1 CAGGGAGGTAAGATCTGCAATCTTCAATCT-ATTCCACTGCCAAATA
* *
69844190 CAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATA
1 CAGGGAGGTAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATA
69844236 CAGG
1 CAGG
69844240 AAGATAGAAT
Statistics
Matches: 319, Mismatches: 110, Indels: 50
0.67 0.23 0.10
Matches are distributed among these distances:
41 6 0.02
42 20 0.06
43 27 0.08
44 13 0.04
45 71 0.22
46 168 0.53
47 14 0.04
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.26
Consensus pattern (46 bp):
CAGGGAGGTAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATA
Found at i:69844436 original size:86 final size:86
Alignment explanation
Indices: 69844298--69844647 Score: 547
Period size: 86 Copynumber: 4.1 Consensus size: 86
69844288 AAATCTGCCA
* * * * *
69844298 TCTTCGATCTGCTTCGCTGCCAAATACAGAAAAGCAAGATCTGATATCTTCAACCAGCTCTGCTA
1 TCTTCGATCTGCTTCGCTGTC-AATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTA
69844363 CAAACGAGAGAGGCAAGGTTTG
65 CAAACGAGAGAGGCAAGGTTTG
* *
69844385 TCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
*
69844450 AAACGAGAGTGGCAAGGTTTG
66 AAACGAGAGAGGCAAGGTTTG
* *
69844471 TCTTCGATCTGCTTTGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
*
69844536 AAACGAGAGTGGCAAGGTTTG
66 AAACGAGAGAGGCAAGGTTTG
* *
69844557 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATAACTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
* * *
69844622 GACCGAGAGAGGCAAGGTTTA
66 AAACGAGAGAGGCAAGGTTTG
69844643 TCTTC
1 TCTTC
69844648 AATTTTTACT
Statistics
Matches: 245, Mismatches: 18, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
86 225 0.92
87 20 0.08
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (86 bp):
TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
AAACGAGAGAGGCAAGGTTTG
Found at i:69844507 original size:42 final size:42
Alignment explanation
Indices: 69844373--69844593 Score: 103
Period size: 42 Copynumber: 5.2 Consensus size: 42
69844363 CAAACGAGAG
* *
69844373 AGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGA
1 AGGCAAGGTTTGTCTTCGATCTGCTTTGCTGTCAATGCAGGA
* * * * * * * * *
69844415 AGGCAAGATCTGCTATCTTCAACCAGCTCTACT-ACAA-AC-GAGA
1 AGGCAAGGT-T--TGTCTTCGATCTGCTTTGCTGTCAATGCAG-GA
*
69844458 GTGGCAAGGTTTGTCTTCGATCTGCTTTGCTGTCAATGCAGGA
1 -AGGCAAGGTTTGTCTTCGATCTGCTTTGCTGTCAATGCAGGA
* * * * * * * * *
69844501 AGGCAAGATCTGCTATCTTCAACCAGCTCTACT-ACAA-AC-GAGA
1 AGGCAAGGT-T--TGTCTTCGATCTGCTTTGCTGTCAATGCAG-GA
* *
69844544 GTGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
1 -AGGCAAGGTTTGTCTTCGATCTGCTTTGCTGTCAATGCAGGA
69844587 AGGCAAG
1 AGGCAAG
69844594 ATCTGATAAC
Statistics
Matches: 120, Mismatches: 43, Indels: 32
0.62 0.22 0.16
Matches are distributed among these distances:
41 27 0.22
42 29 0.24
43 16 0.13
44 21 0.17
45 27 0.22
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.27
Consensus pattern (42 bp):
AGGCAAGGTTTGTCTTCGATCTGCTTTGCTGTCAATGCAGGA
Found at i:69850488 original size:106 final size:106
Alignment explanation
Indices: 69850303--69850499 Score: 367
Period size: 106 Copynumber: 1.9 Consensus size: 106
69850293 AAGCTTTAAG
*
69850303 AGGATATTTGGCTGTTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
69850368 TTTTCCAAACGCGAAATATTGCCTTATTCAAAAGTTTGAAA
66 TTTTCCAAACGCGAAATATTGCCTTATTCAAAAGTTTGAAA
* *
69850409 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
69850474 TTTTCCAAACGCGAAATATTGCCTTA
66 TTTTCCAAACGCGAAATATTGCCTTA
69850500 CTTAGAAAAA
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
106 88 1.00
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.28
Consensus pattern (106 bp):
AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
TTTTCCAAACGCGAAATATTGCCTTATTCAAAAGTTTGAAA
Found at i:69856849 original size:28 final size:27
Alignment explanation
Indices: 69856811--69856886 Score: 73
Period size: 28 Copynumber: 2.7 Consensus size: 27
69856801 CTTTCTTCCT
69856811 AAATTCTTAATCTTCAATTTTCAAT-CCC
1 AAATT-TTAAT-TTCAATTTTCAATACCC
* * *
69856839 CAATTTCTAATTTTATATTTTCAATATCC
1 AAATTT-TAATTTCA-ATTTTCAATACCC
69856868 AAATTTTAATTTTCAATTT
1 AAATTTTAA-TTTCAATTT
69856887 CAAACTTTCA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
27 4 0.10
28 24 0.62
29 11 0.28
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (27 bp):
AAATTTTAATTTCAATTTTCAATACCC
Found at i:69856863 original size:21 final size:20
Alignment explanation
Indices: 69856839--69856890 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
69856829 TTTCAATCCC
*
69856839 CAATTTCTAATTTTATATTTT
1 CAATTTCAAATTTTA-ATTTT
*
69856860 CAATATCCAAATTTTAATTTT
1 CAAT-TTCAAATTTTAATTTT
69856881 CAATTTCAAA
1 CAATTTCAAA
69856891 CTTTCAATCC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.19
21 13 0.48
22 9 0.33
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (20 bp):
CAATTTCAAATTTTAATTTT
Found at i:69856950 original size:15 final size:16
Alignment explanation
Indices: 69856925--69856954 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
69856915 AAATATTTTT
69856925 TTTGAATTTTATTCTC
1 TTTGAATTTTATTCTC
69856941 TTTG-ATTTTATTCT
1 TTTGAATTTTATTCT
69856955 TTTCTTATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.17, C:0.10, G:0.07, T:0.67
Consensus pattern (16 bp):
TTTGAATTTTATTCTC
Found at i:69858716 original size:7 final size:7
Alignment explanation
Indices: 69858704--69858730 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
69858694 GGCGTCATCA
69858704 CCTTATC
1 CCTTATC
69858711 CCTTATC
1 CCTTATC
69858718 CCTTATC
1 CCTTATC
69858725 CCTTAT
1 CCTTAT
69858731 AGGGAACATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.41, G:0.00, T:0.44
Consensus pattern (7 bp):
CCTTATC
Found at i:69859034 original size:361 final size:361
Alignment explanation
Indices: 69858364--69859070 Score: 1281
Period size: 361 Copynumber: 2.0 Consensus size: 361
69858354 AGGAAAACAC
* *
69858364 CCCTTACAGGGAACATTTCCTTTCTAGCCATTTCAACCACCTTGATTTGATTGCTTCTGAGCCTG
1 CCCTTACAGGGAACATTTCCTTTCTAGCCATTCCAACCACCTTGATTTGATTGCTTCTGAGCCTA
* * *
69858429 CAATCGGGATTCCCAGAATAATTTTTTTTGCCTTTATATCCCACCTTATCCCTTATATAAACACC
66 CAATCGGGATTCCCAAAATAAATTTTTTTGCCTTTATACCCCACCTTATCCCTTATATAAACACC
*
69858494 CTTCTTCTTCCCCCTACTCACCACATCTCAATCTCCTCTAAATTAATTTTTTCTTCATTTTGTGT
131 CTTCTTCTTCCCCCTACTCACCACATCTCAATCTCCTCTAAATTAATTTTTTCTTCATTTTGCGT
* *
69858559 GTTGAAATTTTAGGGTTTAAAAATTTATTTCTCTCTCGCTTTGAGGGAGACGTAGTCATAGTTTT
196 GTTGAAATTTTAAGGTTTAAAAATTTATTTCTATCTCGCTTTGAGGGAGACGTAGTCATAGTTTT
69858624 AAGTTGTGATTGAATTCACAGTGATGTCATGGAGCTCAATAACCTACAAATTT-ATCTGCCATGT
261 AAGTTGTGATTGAATTCACAGTGATGTCATGGAGCTCAATAACCTACAAATTTCATCTGCCATGT
*
69858688 GAATATGGCGTCATCACCTTATCCCTTATCCCTTAT
326 GAATATGGCATCATCACCTTATCCCTTATCCCTTAT
*
69858724 CCCTTATAGGGAACATTTCCTTTCTAGCCATTCCAACCACCTTGATTTGATTGCTTCTGAGCCTT
1 CCCTTACAGGGAACATTTCCTTTCTAGCCATTCCAACCACCTTGATTTGATTGCTTCTGAGCC-T
69858789 ACAATCGGGATTCCCAAAATAAATTTTTTTGCCTTTATACCCCACCTTATCCCTTATATAAACAC
65 ACAATCGGGATTCCCAAAATAAATTTTTTTGCCTTTATACCCCACCTTATCCCTTATATAAACAC
*
69858854 CCTTCTTCTTCCCCCTACTCACCACATCTCAATCTCCTCTAAATTAATTTTTTCTTCTTTTTGCG
130 CCTTCTTCTTCCCCCTACTCACCACATCTCAATCTCCTCTAAATTAATTTTTTCTTCATTTTGCG
*
69858919 TGTTGAAATTTTAAGGTTTAAAGATTTATTTCTATCTCGCTTTGAGGGAGACGTAGTCATAGTTT
195 TGTTGAAATTTTAAGGTTTAAAAATTTATTTCTATCTCGCTTTGAGGGAGACGTAGTCATAGTTT
*
69858984 TAAGTTGTGATTGAATTCATAGTGATGTCATGGAGCTCAATAACCTACAAATTTCATCTGCCATG
260 TAAGTTGTGATTGAATTCACAGTGATGTCATGGAGCTCAATAACCTACAAATTTCATCTGCCATG
69859049 TGAATATGGCATCATCACCTTA
325 TGAATATGGCATCATCACCTTA
69859071 GAAACCAAGA
Statistics
Matches: 332, Mismatches: 13, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
360 61 0.18
361 240 0.72
362 31 0.09
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.38
Consensus pattern (361 bp):
CCCTTACAGGGAACATTTCCTTTCTAGCCATTCCAACCACCTTGATTTGATTGCTTCTGAGCCTA
CAATCGGGATTCCCAAAATAAATTTTTTTGCCTTTATACCCCACCTTATCCCTTATATAAACACC
CTTCTTCTTCCCCCTACTCACCACATCTCAATCTCCTCTAAATTAATTTTTTCTTCATTTTGCGT
GTTGAAATTTTAAGGTTTAAAAATTTATTTCTATCTCGCTTTGAGGGAGACGTAGTCATAGTTTT
AAGTTGTGATTGAATTCACAGTGATGTCATGGAGCTCAATAACCTACAAATTTCATCTGCCATGT
GAATATGGCATCATCACCTTATCCCTTATCCCTTAT
Found at i:69859153 original size:20 final size:20
Alignment explanation
Indices: 69859116--69859231 Score: 92
Period size: 20 Copynumber: 5.8 Consensus size: 20
69859106 TATATAACAG
69859116 TTTACCAAAACTTT-TAAGGA
1 TTTACCAAAA-TTTCTAAGGA
* * *
69859136 TTTATCAAAATATCTAAGAA
1 TTTACCAAAATTTCTAAGGA
** *
69859156 TTTACCAAAATTTCTATTGT
1 TTTACCAAAATTTCTAAGGA
* * *
69859176 TTTACCAATATATCTAA-TA
1 TTTACCAAAATTTCTAAGGA
* * *
69859195 GTTTATCAAATTTTCTAAAGA
1 -TTTACCAAAATTTCTAAGGA
69859216 TTTACCAAAATTTCTA
1 TTTACCAAAATTTCTA
69859232 TCCTTTTGCC
Statistics
Matches: 72, Mismatches: 21, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
19 2 0.03
20 69 0.96
21 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.41
Consensus pattern (20 bp):
TTTACCAAAATTTCTAAGGA
Found at i:69859189 original size:40 final size:40
Alignment explanation
Indices: 69859136--69859231 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 40
69859126 CTTTTAAGGA
*
69859136 TTTATCAAAATATCTAAGAATTTACCAAAATTTCTATTGT
1 TTTACCAAAATATCTAAGAATTTACCAAAATTTCTATTGT
* * * * * ** *
69859176 TTTACCAATATATCTAATAGTTTATCAAATTTTCTAAAGA
1 TTTACCAAAATATCTAAGAATTTACCAAAATTTCTATTGT
*
69859216 TTTACCAAAATTTCTA
1 TTTACCAAAATATCTA
69859232 TCCTTTTGCC
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.40, C:0.14, G:0.04, T:0.43
Consensus pattern (40 bp):
TTTACCAAAATATCTAAGAATTTACCAAAATTTCTATTGT
Found at i:69859265 original size:60 final size:60
Alignment explanation
Indices: 69859155--69859273 Score: 150
Period size: 60 Copynumber: 2.0 Consensus size: 60
69859145 ATATCTAAGA
** * * *
69859155 ATTTACCAAAATTTCTATTGTTTTACCAATATATCTAATAGTTTATCAAATTTTCTAAAG
1 ATTTACCAAAATTTCTATCCTTTTACCAATATATCTAAGACTTTACCAAATTTTCTAAAG
* * *
69859215 ATTTACCAAAATTTCTATCCTTTTGCCAATACT-TTTGAGACTTTACCAAATTTTCTAAA
1 ATTTACCAAAATTTCTATCCTTTTACCAATA-TATCTAAGACTTTACCAAATTTTCTAAA
69859274 TCTTATACCA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
60 49 0.98
61 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.05, T:0.44
Consensus pattern (60 bp):
ATTTACCAAAATTTCTATCCTTTTACCAATATATCTAAGACTTTACCAAATTTTCTAAAG
Found at i:69859337 original size:20 final size:20
Alignment explanation
Indices: 69859314--69859351 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
69859304 TTTCTATAAT
69859314 TTTACCAAAATATCTAACAA
1 TTTACCAAAATATCTAACAA
* *
69859334 TTTACCAATATATTTAAC
1 TTTACCAAAATATCTAAC
69859352 GATTCTAAGA
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:0.45, C:0.18, G:0.00, T:0.37
Consensus pattern (20 bp):
TTTACCAAAATATCTAACAA
Found at i:69859513 original size:20 final size:20
Alignment explanation
Indices: 69859464--69859676 Score: 78
Period size: 20 Copynumber: 10.8 Consensus size: 20
69859454 AGACCAAGTC
69859464 CTAACAA-TTACCAAAAT-T
1 CTAACAATTTACCAAAATAT
** *
69859482 CCTATGAGTTTACCAAAATAT
1 -CTAACAATTTACCAAAATAT
* *
69859503 CTAACAATTTACCAAATTTT
1 CTAACAATTTACCAAAATAT
* * * *
69859523 CTATCAATTTTATCAATATTT
1 CTAACAA-TTTACCAAAATAT
* * * * ** *
69859544 ATGAGACTTTACCACTATTT
1 CTAACAATTTACCAAAATAT
69859564 CTAA-AGATTTACCAAAATAT
1 CTAACA-ATTTACCAAAATAT
* ***
69859584 CTAACGATTTACCGGTATAT
1 CTAACAATTTACCAAAATAT
* * * ** *
69859604 TTAATAAATTA-CAATTTTT
1 CTAACAATTTACCAAAATAT
* * *
69859623 TTAA-AGTTTTACCAAAACAT
1 CTAACA-ATTTACCAAAATAT
69859643 CTAACAATTTACCAAAATAT
1 CTAACAATTTACCAAAATAT
*
69859663 CTAAC-GTTTACCAA
1 CTAACAATTTACCAA
69859677 TATTTATGAG
Statistics
Matches: 139, Mismatches: 47, Indels: 16
0.69 0.23 0.08
Matches are distributed among these distances:
18 1 0.01
19 24 0.17
20 100 0.72
21 14 0.10
ACGTcount: A:0.40, C:0.18, G:0.05, T:0.37
Consensus pattern (20 bp):
CTAACAATTTACCAAAATAT
Found at i:69859847 original size:20 final size:20
Alignment explanation
Indices: 69859753--69859847 Score: 68
Period size: 20 Copynumber: 4.8 Consensus size: 20
69859743 GTTTTAATCA
* *
69859753 TTACCAAAATTTCTATAA-AT
1 TTACCAATATATCTA-AAGAT
* **
69859773 TTACCAAAATATCTATGGATT
1 TTACCAATATATCTAAAGA-T
* **
69859794 TTA-CAATATATCGAACTAT
1 TTACCAATATATCTAAAGAT
* *
69859813 TTCCCAATATTTCTAAAGAT
1 TTACCAATATATCTAAAGAT
69859833 TTACCAATATATCTA
1 TTACCAATATATCTA
69859848 GCGACCAAAA
Statistics
Matches: 57, Mismatches: 15, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
19 3 0.05
20 50 0.88
21 4 0.07
ACGTcount: A:0.40, C:0.17, G:0.04, T:0.39
Consensus pattern (20 bp):
TTACCAATATATCTAAAGAT
Found at i:69860000 original size:20 final size:20
Alignment explanation
Indices: 69859975--69860162 Score: 166
Period size: 20 Copynumber: 9.3 Consensus size: 20
69859965 TTTCTGACTG
**
69859975 TACCAAAATTTCTAACAATT
1 TACCAAAATTTCTATGAATT
* *
69859995 TACCAAAACTTCTATGAGTT
1 TACCAAAATTTCTATGAATT
*
69860015 TACCAATATTTCTAAT-AACTT
1 TACCAAAATTTCT-ATGAA-TT
* *
69860036 TACCAAAATTTATGTGAATT
1 TACCAAAATTTCTATGAATT
* *
69860056 TACCAATATTTCTATCAATT
1 TACCAAAATTTCTATGAATT
* *
69860076 TACCAAAACTTCTATGAGTT
1 TACCAAAATTTCTATGAATT
*
69860096 TACCAATATTTCTAAT-AACTT
1 TACCAAAATTTCT-ATGAA-TT
**
69860117 TACCAAAA-TTAAAGTGAATT
1 TACCAAAATTTCTA-TGAATT
* *
69860137 TACCAATATTTCTATCAATT
1 TACCAAAATTTCTATGAATT
69860157 TACCAA
1 TACCAA
69860163 TTTTTATATG
Statistics
Matches: 132, Mismatches: 28, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
19 1 0.01
20 98 0.74
21 33 0.25
ACGTcount: A:0.39, C:0.18, G:0.04, T:0.38
Consensus pattern (20 bp):
TACCAAAATTTCTATGAATT
Found at i:69860045 original size:61 final size:58
Alignment explanation
Indices: 69859975--69860162 Score: 178
Period size: 61 Copynumber: 3.1 Consensus size: 58
69859965 TTTCTGACTG
*
69859975 TACCAAAATTTCTAACAATTTACCAAAACTTCTATGAGTTTACCAATATTTCTAATAACTT
1 TACCAAAATTTCTAACAATTTACCAAAA-TTCTATGAATTTACCAATATTTCT-ATAA-TT
* *** * * * * *
69860036 TACCAAAATTTATGTGAATTTACCAATATTTCTATCAATTTACCAAAACTTCTATGAGTT
1 TACCAAAATTTCTAACAATTTACCAA-AATTCTATGAATTTACCAATATTTCTAT-AATT
* * **
69860096 TACCAATATTTCTAATAACTTTACCAAAATTAAAGTGAATTTACCAATATTTCTATCAATT
1 TACCAAAATTTCTAACAA-TTTACCAAAATTCTA-TGAATTTACCAATATTTCTAT-AATT
69860157 TACCAA
1 TACCAA
69860163 TTTTTATATG
Statistics
Matches: 100, Mismatches: 23, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
60 21 0.21
61 78 0.78
62 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.04, T:0.38
Consensus pattern (58 bp):
TACCAAAATTTCTAACAATTTACCAAAATTCTATGAATTTACCAATATTTCTATAATT
Found at i:69860075 original size:81 final size:81
Alignment explanation
Indices: 69859975--69860162 Score: 340
Period size: 81 Copynumber: 2.3 Consensus size: 81
69859965 TTTCTGACTG
* *
69859975 TACCAAAATTTCTAACAATTTACCAAAACTTCTATGAGTTTACCAATATTTCTAATAACTTTACC
1 TACCAATATTTCTATCAATTTACCAAAACTTCTATGAGTTTACCAATATTTCTAATAACTTTACC
* *
69860040 AAAATTTATGTGAATT
66 AAAATTAAAGTGAATT
69860056 TACCAATATTTCTATCAATTTACCAAAACTTCTATGAGTTTACCAATATTTCTAATAACTTTACC
1 TACCAATATTTCTATCAATTTACCAAAACTTCTATGAGTTTACCAATATTTCTAATAACTTTACC
69860121 AAAATTAAAGTGAATT
66 AAAATTAAAGTGAATT
69860137 TACCAATATTTCTATCAATTTACCAA
1 TACCAATATTTCTATCAATTTACCAA
69860163 TTTTTATATG
Statistics
Matches: 103, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 103 1.00
ACGTcount: A:0.39, C:0.18, G:0.04, T:0.38
Consensus pattern (81 bp):
TACCAATATTTCTATCAATTTACCAAAACTTCTATGAGTTTACCAATATTTCTAATAACTTTACC
AAAATTAAAGTGAATT
Found at i:69873597 original size:25 final size:20
Alignment explanation
Indices: 69873550--69873590 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
69873540 AACGCTCTTA
69873550 AAATAATATAATTTACCTAC
1 AAATAATATAATTTACCTAC
69873570 AAATAATATAATTTACCTAC
1 AAATAATATAATTTACCTAC
69873590 A
1 A
69873591 TTCCAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (20 bp):
AAATAATATAATTTACCTAC
Found at i:69882670 original size:25 final size:27
Alignment explanation
Indices: 69882632--69882685 Score: 69
Period size: 25 Copynumber: 2.1 Consensus size: 27
69882622 TATGAGATTT
*
69882632 TTTTAATATATAAAATGAA-AAATTAAA
1 TTTTAATATAT-AAATAAATAAATTAAA
69882659 TTTT-ATA-ATAAATAAATAAATTAAA
1 TTTTAATATATAAATAAATAAATTAAA
69882684 TT
1 TT
69882686 ATTTAGTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 6 0.24
25 12 0.48
26 3 0.12
27 4 0.16
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (27 bp):
TTTTAATATATAAATAAATAAATTAAA
Found at i:69891655 original size:18 final size:18
Alignment explanation
Indices: 69891632--69891671 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
69891622 TATAAATTTA
*
69891632 AAAAATA-TATAATACATC
1 AAAAATACTA-AAAACATC
69891650 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
69891668 AAAA
1 AAAA
69891672 TAAATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Found at i:69891791 original size:30 final size:30
Alignment explanation
Indices: 69891755--69891815 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
69891745 CTTAACAAGC
69891755 AATGTCTCTAAAATAATAACAAAATTAACA
1 AATGTCTCTAAAATAATAACAAAATTAACA
*
69891785 AATGTCTTTAAAATAATAACAAAATTAACA
1 AATGTCTCTAAAATAATAACAAAATTAACA
69891815 A
1 A
69891816 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.28
Consensus pattern (30 bp):
AATGTCTCTAAAATAATAACAAAATTAACA
Found at i:69893595 original size:25 final size:25
Alignment explanation
Indices: 69893570--69893618 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
69893560 AAACCAATTA
*
69893570 AAAT-TTTTTTAGTTTTTAAGTTTT
1 AAATCTTTTTTAGATTTTAAGTTTT
* *
69893594 AAATCTTTTTTGGATTTTAATTTTT
1 AAATCTTTTTTAGATTTTAAGTTTT
69893619 TTTTAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.24, C:0.02, G:0.08, T:0.65
Consensus pattern (25 bp):
AAATCTTTTTTAGATTTTAAGTTTT
Found at i:69893627 original size:17 final size:18
Alignment explanation
Indices: 69893582--69893628 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
69893572 ATTTTTTTAG
69893582 TTTTTAAGTTTTAAATCTT
1 TTTTTAA-TTTTAAATCTT
** *
69893601 TTTTGGATTTT-AATTTT
1 TTTTTAATTTTAAATCTT
69893618 TTTTTAATTTT
1 TTTTTAATTTT
69893629 TATACGAACT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 14 0.61
18 4 0.17
19 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.06, T:0.70
Consensus pattern (18 bp):
TTTTTAATTTTAAATCTT
Found at i:69894198 original size:30 final size:32
Alignment explanation
Indices: 69894162--69894229 Score: 88
Period size: 30 Copynumber: 2.2 Consensus size: 32
69894152 GGTTTCATTT
* *
69894162 CAGTCACCTAAC-TTTTGAAAAA-TAACAAAA
1 CAGTCACCTAACGTTATAAAAAAGTAACAAAA
*
69894192 CAGTCA-CTAACGTTATAAAAAAGTGACAAAA
1 CAGTCACCTAACGTTATAAAAAAGTAACAAAA
69894223 CAGTCAC
1 CAGTCAC
69894230 TGACTAATAG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 5 0.16
30 14 0.44
31 13 0.41
ACGTcount: A:0.49, C:0.21, G:0.10, T:0.21
Consensus pattern (32 bp):
CAGTCACCTAACGTTATAAAAAAGTAACAAAA
Found at i:69894211 original size:29 final size:30
Alignment explanation
Indices: 69894162--69894230 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 30
69894152 GGTTTCATTT
* *
69894162 CAGTCACCTAACTTTTGAAAAA-TAACAAAA
1 CAGTCA-CTAACTTATAAAAAAGTAACAAAA
*
69894192 CAGTCACTAACGTTATAAAAAAGTGACAAAA
1 CAGTCACTAAC-TTATAAAAAAGTAACAAAA
69894223 CAGTCACT
1 CAGTCACT
69894231 GACTAATAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 5 0.15
30 14 0.41
31 15 0.44
ACGTcount: A:0.48, C:0.20, G:0.10, T:0.22
Consensus pattern (30 bp):
CAGTCACTAACTTATAAAAAAGTAACAAAA
Found at i:69897599 original size:46 final size:46
Alignment explanation
Indices: 69897527--69897827 Score: 395
Period size: 46 Copynumber: 6.7 Consensus size: 46
69897517 TGGCAACCTG
*
69897527 TGTGTAAGACCATGGTTGAAAGATACCATGGTAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
*
69897573 TGTGTAAGACCATGGTTGAAAAATACCATGGCAACC-----TG---
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
69897611 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* *
69897657 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACTTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* *
69897703 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* ** * *
69897749 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAA
* * * *
69897795 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
69897828 TCACGTCAAA
Statistics
Matches: 229, Mismatches: 17, Indels: 18
0.87 0.06 0.07
Matches are distributed among these distances:
38 35 0.15
41 2 0.01
43 2 0.01
45 1 0.00
46 189 0.83
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
Found at i:69897613 original size:84 final size:84
Alignment explanation
Indices: 69897478--69897783 Score: 468
Period size: 84 Copynumber: 3.5 Consensus size: 84
69897468 AGTATGCTCT
69897478 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
*
69897543 TGAAAGATACCATGGTAAC
66 TGAAAGATACCATGGCAAC
*
69897562 CTGATATGAAATGTGTAAGACCATGGTTGAAAAATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
69897627 TGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAAC
*
69897646 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACTTGATATGAGATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC-----CT--G-TGTGTAAG
69897711 ACCATGGTTGAAAGATACCATGGCAAC
58 ACCATGGTTGAAAGATACCATGGCAAC
* * * **
69897738 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
69897784 ATGACAGAAA
Statistics
Matches: 205, Mismatches: 9, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
84 127 0.62
89 1 0.00
91 1 0.00
92 76 0.37
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.24
Consensus pattern (84 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
TGAAAGATACCATGGCAAC
Found at i:69898133 original size:23 final size:25
Alignment explanation
Indices: 69898088--69898134 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
69898078 AATAAATATA
*
69898088 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
69898113 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
69898135 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:69898976 original size:31 final size:31
Alignment explanation
Indices: 69898941--69899017 Score: 136
Period size: 31 Copynumber: 2.5 Consensus size: 31
69898931 CATAAAGGGA
*
69898941 CACACGCCTGTGTATGTGGGCCGTGTGGACT
1 CACACGCCCGTGTATGTGGGCCGTGTGGACT
*
69898972 CACACGCCCGTGTAGGTGGGCCGTGTGGACT
1 CACACGCCCGTGTATGTGGGCCGTGTGGACT
69899003 CACACGCCCGTGTAT
1 CACACGCCCGTGTAT
69899018 CTTGGGGCAC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.14, C:0.30, G:0.34, T:0.22
Consensus pattern (31 bp):
CACACGCCCGTGTATGTGGGCCGTGTGGACT
Found at i:69899687 original size:9 final size:10
Alignment explanation
Indices: 69899665--69899692 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
69899655 ACGTATAACC
69899665 AAAATACTCA
1 AAAATACTCA
69899675 AAAATACTCA
1 AAAATACTCA
69899685 AAAATACT
1 AAAATACT
69899693 ATACATGCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.61, C:0.18, G:0.00, T:0.21
Consensus pattern (10 bp):
AAAATACTCA
Found at i:69902067 original size:30 final size:31
Alignment explanation
Indices: 69902001--69902069 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
69901991 ACCGTTAGTC
* * *
69902001 AGTGACTGTTTTGTCACTTTTTTATAACGTT
1 AGTGACTGTTTTGTCACTTTTTCATAAAGCT
*
69902032 AGTGACTGTTTTGTTA-TTTTTCA-AAAGCT
1 AGTGACTGTTTTGTCACTTTTTCATAAAGCT
69902061 AGGTGACTG
1 A-GTGACTG
69902070 AAATGAAATC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 5 0.15
30 13 0.39
31 15 0.45
ACGTcount: A:0.22, C:0.12, G:0.20, T:0.46
Consensus pattern (31 bp):
AGTGACTGTTTTGTCACTTTTTCATAAAGCT
Found at i:69906334 original size:13 final size:13
Alignment explanation
Indices: 69906318--69906345 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
69906308 TGTCACTGCC
69906318 ATGTCAGCAATTA
1 ATGTCAGCAATTA
69906331 ATGTCAGCAATTA
1 ATGTCAGCAATTA
69906344 AT
1 AT
69906346 ACATGTGGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (13 bp):
ATGTCAGCAATTA
Found at i:69907404 original size:14 final size:14
Alignment explanation
Indices: 69907385--69907424 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
69907375 TTGATTGCCA
69907385 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
69907399 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
69907413 GGAAAATGTTTT
1 GTAAAATGTTTT
69907425 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:69907433 original size:20 final size:20
Alignment explanation
Indices: 69907408--69907447 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
69907398 CGTAAAATGA
*
69907408 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
69907428 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
69907448 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:69907437 original size:34 final size:35
Alignment explanation
Indices: 69907393--69907459 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
69907383 CAGTAAAATG
*
69907393 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
69907427 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
69907460 TTAGTGTTTG
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:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:69908093 original size:18 final size:18
Alignment explanation
Indices: 69908072--69908110 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
69908062 GTTGTATCTT
69908072 TAATTAAATTATTATCCA
1 TAATTAAATTATTATCCA
69908090 TAATTAAATTATTATCCA
1 TAATTAAATTATTATCCA
69908108 TAA
1 TAA
69908111 AGTTGGTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (18 bp):
TAATTAAATTATTATCCA
Found at i:69909809 original size:19 final size:19
Alignment explanation
Indices: 69909785--69909824 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
69909775 AAACCAAATC
69909785 AAGGGAGAACGAAAGGGAG
1 AAGGGAGAACGAAAGGGAG
*
69909804 AAGGGAGAACGAACGGGAG
1 AAGGGAGAACGAAAGGGAG
69909823 AA
1 AA
69909825 CGAAACCAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.47, C:0.07, G:0.45, T:0.00
Consensus pattern (19 bp):
AAGGGAGAACGAAAGGGAG
Found at i:69912809 original size:8 final size:8
Alignment explanation
Indices: 69912796--69912824 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
69912786 TTATGTTTAG
69912796 TATATTAT
1 TATATTAT
69912804 TATATTAT
1 TATATTAT
69912812 TATATTAT
1 TATATTAT
69912820 TATAT
1 TATAT
69912825 AATAAAGATA
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:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:69914163 original size:15 final size:15
Alignment explanation
Indices: 69914143--69914199 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
69914133 CGATGAATTT
69914143 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
69914158 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
69914173 ATTGAATTTATATTG
1 ATTGAATTTATATTG
69914188 ATTGAA-TTATAT
1 ATTGAATTTATAT
69914200 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:69915900 original size:50 final size:50
Alignment explanation
Indices: 69915776--69916024 Score: 275
Period size: 50 Copynumber: 4.8 Consensus size: 50
69915766 GATAATAACA
* * ** * *
69915776 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
69915827 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
69915877 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
69915927 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* * *
69915982 ATGCCAATTCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
69916025 TTACCCAAAT
Statistics
Matches: 169, Mismatches: 22, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.20
53 2 0.01
54 1 0.01
55 2 0.01
56 38 0.22
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:69915954 original size:100 final size:104
Alignment explanation
Indices: 69915775--69916024 Score: 348
Period size: 100 Copynumber: 2.4 Consensus size: 104
69915765 TGATAATAAC
**
69915775 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
69915840 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
69915877 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
69915940 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
** *
69915982 ATGCCAATTCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
69916025 TTACCCAAAT
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 39 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:69916140 original size:13 final size:13
Alignment explanation
Indices: 69916119--69916150 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
69916109 GCTTGGAACA
*
69916119 TCATCAAATAAAT
1 TCATAAAATAAAT
69916132 TCATAAAATAAAT
1 TCATAAAATAAAT
69916145 TCATAA
1 TCATAA
69916151 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:69916396 original size:30 final size:30
Alignment explanation
Indices: 69916362--69916419 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
69916352 TCTCGACTCT
*
69916362 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
69916392 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
69916420 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:69917391 original size:21 final size:21
Alignment explanation
Indices: 69917343--69917451 Score: 119
Period size: 21 Copynumber: 5.1 Consensus size: 21
69917333 GGCTTTATCG
* * *
69917343 ATCAGGCACTTTATGTGTCCT
1 ATCAGGCACCTCATGTGTCGT
*
69917364 ATTTCAGGCACCTCGTGTGTCGT
1 A--TCAGGCACCTCATGTGTCGT
69917387 ATCAGGCACCTCATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
*
69917408 ATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
* * * *
69917429 TTTAGGCACTTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
69917450 AT
1 AT
69917452 ACTGATCAGG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
21 57 0.77
23 17 0.23
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.36
Consensus pattern (21 bp):
ATCAGGCACCTCATGTGTCGT
Found at i:69917424 original size:42 final size:42
Alignment explanation
Indices: 69917343--69917451 Score: 155
Period size: 42 Copynumber: 2.5 Consensus size: 42
69917333 GGCTTTATCG
*
69917343 ATCAGGCACTTTATGTGTCCTATTTCAGGCACCTCGTGTGTCGT
1 ATCAGGCACTTTATGTGTCGTA--TCAGGCACCTCGTGTGTCGT
* *
69917387 ATCAGGCACCTCATGTGTCGTATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACTTTATGTGTCGTATCAGGCACCTCGTGTGTCGT
* *
69917429 TTTAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
69917452 ACTGATCAGG
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 39 0.67
44 19 0.33
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.36
Consensus pattern (42 bp):
ATCAGGCACTTTATGTGTCGTATCAGGCACCTCGTGTGTCGT
Found at i:69919340 original size:26 final size:26
Alignment explanation
Indices: 69919311--69919370 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
69919301 TCCCTTTGAA
* * *
69919311 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
69919337 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
*
69919365 CCATTC
1 TCATTC
69919371 TCAATACTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:69919396 original size:28 final size:28
Alignment explanation
Indices: 69919325--69919396 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 28
69919315 TCGATATTTT
**
69919325 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTACCATTCTCAATATCTC
*
69919353 GCACACTAAGTGCCATTCTCAATA-CTTC
1 GCACACTAAGTACCATTCTCAATATC-TC
* *
69919381 GTACACTGAGTACCAT
1 GCACACTAAGTACCAT
69919397 ATTTGATTGC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 1 0.03
28 38 0.97
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.29
Consensus pattern (28 bp):
GCACACTAAGTACCATTCTCAATATCTC
Found at i:69919920 original size:17 final size:18
Alignment explanation
Indices: 69919891--69919925 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
69919881 AGGTTATAGA
69919891 ACACAACTTTTGTACTTT
1 ACACAACTTTTGTACTTT
*
69919909 ACACAA-TTTTGTCCTTT
1 ACACAACTTTTGTACTTT
69919926 TTGTTTAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.26, C:0.23, G:0.06, T:0.46
Consensus pattern (18 bp):
ACACAACTTTTGTACTTT
Found at i:69922286 original size:130 final size:130
Alignment explanation
Indices: 69922152--69922415 Score: 300
Period size: 130 Copynumber: 2.0 Consensus size: 130
69922142 CTTTATATTC
** *
69922152 TCACTCATGTTTAAAAAAATAC-TTAAAAACGAAGACGATATTCAATGTTTAGCGATTTGAGAAT
1 TCACTCACATTTAAAAAAAT-CTTTAAAAACGAAGACGACATTCAATGTTTAGCGATTTGAGAAT
* * * * * *
69922216 CGTGTCCTATCTTGCTGGGTTGCGTTTTTTCA-TTGATTCGAAACAATTGAAGATC-CCTTCGGA
65 CGAGCCCTATCGTGCTGGGTTGCGCTTTTTCATTTG-TCCAAAACAATTGAAGATCTCC-TCGGA
69922279 ATT
128 ATT
*** * * * * * *
69922282 TCACTCACATTTTCTAAAATCTTTCAAAATGAAGGCGACGTTCGATGTTTGGCGATTTGAGAATC
1 TCACTCACATTTAAAAAAATCTTTAAAAACGAAGACGACATTCAATGTTTAGCGATTTGAGAATC
* *
69922347 GAGCCCTATCGTGCTGGGTTGCGCTTTTTCATTTGTCCAAAATAATTGAATATCTCCTCGGAATT
66 GAGCCCTATCGTGCTGGGTTGCGCTTTTTCATTTGTCCAAAACAATTGAAGATCTCCTCGGAATT
69922412 TCAC
1 TCAC
69922416 ACGTGTTTTA
Statistics
Matches: 111, Mismatches: 20, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
129 1 0.01
130 105 0.95
131 5 0.05
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (130 bp):
TCACTCACATTTAAAAAAATCTTTAAAAACGAAGACGACATTCAATGTTTAGCGATTTGAGAATC
GAGCCCTATCGTGCTGGGTTGCGCTTTTTCATTTGTCCAAAACAATTGAAGATCTCCTCGGAATT
Found at i:69933361 original size:24 final size:24
Alignment explanation
Indices: 69933328--69933408 Score: 85
Period size: 24 Copynumber: 3.4 Consensus size: 24
69933318 ATGCTGAAGA
*
69933328 TGCTCATCTACCTTGGTTGGAAAC
1 TGCTCCTCTACCTTGGTTGGAAAC
* *
69933352 TGCTCCTCTACTTTGGTAGGAAGA-
1 TGCTCCTCTACCTTGGTTGGAA-AC
* *
69933376 TCCT-CTGCTACCTTGGTTGGAACC
1 TGCTCCT-CTACCTTGGTTGGAAAC
69933400 TGCTCCTCT
1 TGCTCCTCT
69933409 TTCTTAGTTG
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
23 2 0.04
24 40 0.89
25 3 0.07
ACGTcount: A:0.16, C:0.28, G:0.21, T:0.35
Consensus pattern (24 bp):
TGCTCCTCTACCTTGGTTGGAAAC
Found at i:69937860 original size:69 final size:69
Alignment explanation
Indices: 69937747--69937885 Score: 251
Period size: 69 Copynumber: 2.0 Consensus size: 69
69937737 GATAGGAAAA
* *
69937747 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTCCAGCAGGTTTTGTAGTTGTGGTAGG
1 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTCCAGCAGGTTTTGTAGTGGTGATAGG
69937812 GCTG
66 GCTG
*
69937816 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGATAGG
1 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTCCAGCAGGTTTTGTAGTGGTGATAGG
69937881 GCTG
66 GCTG
69937885 A
1 A
69937886 TAGAGTCTTG
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.27
Consensus pattern (69 bp):
ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTCCAGCAGGTTTTGTAGTGGTGATAGG
GCTG
Found at i:69944301 original size:6 final size:6
Alignment explanation
Indices: 69944290--69944314 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
69944280 TTTTTTATTC
69944290 TTTTTA TTTTTA TTTTTA TTTTTA T
1 TTTTTA TTTTTA TTTTTA TTTTTA T
69944315 AAAATATGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:69957662 original size:16 final size:15
Alignment explanation
Indices: 69957635--69957668 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
69957625 ATAAGAGATA
69957635 AATAATAAATAAATG
1 AATAATAAATAAATG
69957650 AATAATCAAATAAATG
1 AATAAT-AAATAAATG
69957666 AAT
1 AAT
69957669 TAAATTCTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (15 bp):
AATAATAAATAAATG
Found at i:69958688 original size:25 final size:25
Alignment explanation
Indices: 69958619--69958688 Score: 86
Period size: 26 Copynumber: 2.8 Consensus size: 25
69958609 TTACTAAAAT
* *
69958619 TAGATTTGATAACATTTTTTTAAGG
1 TAGATTTGATAATACTTTTTTAAGG
* *
69958644 TAGTTTTGGTAATACATTTTTTAAGG
1 TAGATTTGATAATAC-TTTTTTAAGG
*
69958670 TAGAGTTGATAATACTTTT
1 TAGATTTGATAATACTTTT
69958689 AATTATATAT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
25 15 0.41
26 22 0.59
ACGTcount: A:0.30, C:0.04, G:0.17, T:0.49
Consensus pattern (25 bp):
TAGATTTGATAATACTTTTTTAAGG
Found at i:69959410 original size:30 final size:32
Alignment explanation
Indices: 69959356--69959422 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 32
69959346 TTTTTTAGCT
*
69959356 AAATTTGACACTCAACATTTTGAAAAAG-GTC
1 AAATTTGACACTCAACACTTTGAAAAAGAGTC
*
69959387 GAATTTGAC-CATCAAC-CTTTGAAAAAGAGTC
1 AAATTTGACAC-TCAACACTTTGAAAAAGAGTC
69959418 AAATT
1 AAATT
69959423 GATTTTTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
30 11 0.35
31 20 0.65
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.28
Consensus pattern (32 bp):
AAATTTGACACTCAACACTTTGAAAAAGAGTC
Found at i:69959977 original size:45 final size:45
Alignment explanation
Indices: 69959928--69960013 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
69959918 AGTCAAAACC
**
69959928 TAAATATTAGAAAAAAA-TATAATTAATAAATTTTATGTATACATT
1 TAAAT-TTAGAAAAAAATTATAATTAATAAAACTTATGTATACATT
69959973 TAAATTTAGAAAAAAATTATAATTAATAAAACTTATGTATA
1 TAAATTTAGAAAAAAATTATAATTAATAAAACTTATGTATA
69960014 TCTTTTCTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 11 0.29
45 27 0.71
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (45 bp):
TAAATTTAGAAAAAAATTATAATTAATAAAACTTATGTATACATT
Found at i:69960428 original size:26 final size:24
Alignment explanation
Indices: 69960398--69960447 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
69960388 ATAGAAAAAA
*
69960398 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAAT-AAATAT
69960424 ATTTAAAAACATAAAAATAAATAT
1 ATTTAAAAACATAAAAATAAATAT
69960448 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.26
25 4 0.17
26 13 0.57
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (24 bp):
ATTTAAAAACATAAAAATAAATAT
Found at i:69960459 original size:22 final size:20
Alignment explanation
Indices: 69960418--69960464 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 20
69960408 ATAATAAATC
* *
69960418 AAATATATTTAAAAACATAA
1 AAATAAATTTAAAAAAATAA
69960438 AAATAAATATTAAAACAAATAA
1 AAATAAAT-TTAAAA-AAATAA
69960460 AAATA
1 AAATA
69960465 TACTAAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 7 0.30
21 6 0.26
22 10 0.43
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (20 bp):
AAATAAATTTAAAAAAATAA
Found at i:69960471 original size:20 final size:21
Alignment explanation
Indices: 69960434--69960475 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
69960424 ATTTAAAAAC
*
69960434 ATAAAAATAAATATTAAAACAA
1 ATAAAAAT-AATACTAAAACAA
69960456 ATAAAAAT-ATACTAAAACAA
1 ATAAAAATAATACTAAAACAA
69960476 TTCTTAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
22 8 0.42
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (21 bp):
ATAAAAATAATACTAAAACAA
Found at i:69962322 original size:31 final size:32
Alignment explanation
Indices: 69962268--69962333 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 32
69962258 ATAGTCTATA
*
69962268 TTTTTATAATTTTTAAAGAGTTAAATTA-AAT
1 TTTTTATAATTTTTAAAGAGTTAAAATATAAT
* *
69962299 TTTTTATCATTTTT-TAGAGGTTAAAATATAAT
1 TTTTTATAATTTTTAAAGA-GTTAAAATATAAT
69962331 TTT
1 TTT
69962334 ATCATTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
30 3 0.10
31 21 0.70
32 6 0.20
ACGTcount: A:0.36, C:0.02, G:0.08, T:0.55
Consensus pattern (32 bp):
TTTTTATAATTTTTAAAGAGTTAAAATATAAT
Found at i:69962844 original size:31 final size:34
Alignment explanation
Indices: 69962809--69962880 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 34
69962799 CATTTTCAAG
*
69962809 TCAAACTT-AGC-TTTATTTATTTATTT-CTTTT
1 TCAAACTTGAGCTTTTATTTATTTATTTCCATTT
*
69962840 TCAAACTTGGCGCTTTTTATTTATTTATTTCCATTT
1 TCAAACTT-GAGC-TTTTATTTATTTATTTCCATTT
69962876 TCAAA
1 TCAAA
69962881 TCAAATTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
31 8 0.24
33 2 0.06
35 15 0.44
36 9 0.26
ACGTcount: A:0.24, C:0.15, G:0.06, T:0.56
Consensus pattern (34 bp):
TCAAACTTGAGCTTTTATTTATTTATTTCCATTT
Found at i:69963293 original size:30 final size:30
Alignment explanation
Indices: 69963259--69963321 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
69963249 ACTTAACAAG
*
69963259 CAAATGCCTCTAAAATAATAACGAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
69963289 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
69963319 CAA
1 CAA
69963322 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.56, C:0.14, G:0.05, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:69977296 original size:26 final size:26
Alignment explanation
Indices: 69977261--69977311 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
69977251 AATGTGAAAG
*
69977261 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
69977287 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
69977312 TTCATTGGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:69977394 original size:101 final size:102
Alignment explanation
Indices: 69977185--69977546 Score: 594
Period size: 101 Copynumber: 3.6 Consensus size: 102
69977175 TGTATATAAA
** *
69977185 AGGGGTTGCTGTGTGCTGATTCCCCGATT-A-TGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
69977247 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
65 TTGAAA--TGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
69977286 AGGGGTTGCTAAGTGCTGATTCCCCG-TTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
69977350 TGAAATGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
69977387 AGGGGTTGCTAAGTGCTGATTCCCCG-TTCATTGGTGGTGCTAAGTGCGATATCCACC-TATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
69977450 TGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATG-AAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
69977488 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
69977547 ATAACGGTTA
Statistics
Matches: 249, Mismatches: 5, Indels: 12
0.94 0.02 0.05
Matches are distributed among these distances:
100 41 0.16
101 143 0.57
102 64 0.26
103 1 0.00
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.30
Consensus pattern (102 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:69984870 original size:26 final size:26
Alignment explanation
Indices: 69984835--69984885 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
69984825 AATGTGAAAG
*
69984835 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
69984861 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
69984886 TTCATTGGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:69985009 original size:103 final size:104
Alignment explanation
Indices: 69984758--69985123 Score: 618
Period size: 102 Copynumber: 3.6 Consensus size: 104
69984748 TGTATATAAA
** *
69984758 AGGGGTTGCTGTGTGCTGATTCCCCGATTCA-TGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
69984821 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
69984860 AGGGGTTGCTAAGTGCTGATTCCCCG-TTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
69984924 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
69984963 AGGGGTTGCTAAGTGCTGATTCCCCG-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
*
69985027 TGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
69985065 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
69985124 ATAACGGTTA
Statistics
Matches: 252, Mismatches: 8, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
101 4 0.02
102 143 0.57
103 105 0.42
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.30
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:69987121 original size:21 final size:21
Alignment explanation
Indices: 69987092--69987132 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
69987082 TGCTGGACAG
69987092 GAGCCGGAATGAGAGTGTTTA
1 GAGCCGGAATGAGAGTGTTTA
*
69987113 GAGCTGGAATGAGAGTGTTT
1 GAGCCGGAATGAGAGTGTTT
69987133 TGTTGCTGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.07, G:0.39, T:0.27
Consensus pattern (21 bp):
GAGCCGGAATGAGAGTGTTTA
Done.