Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 186 of 235
Found at i:63338910 original size:15 final size:16
Alignment explanation
Indices: 63338890--63338928 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
63338880 TCAAACACGT
63338890 ATGTATGTAAAA-ATA
1 ATGTATGTAAAATATA
*
63338905 ATGTATTTAAAATATA
1 ATGTATGTAAAATATA
63338921 ATGT-TGTA
1 ATGTATGTA
63338929 TCCTAGATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.41
Consensus pattern (16 bp):
ATGTATGTAAAATATA
Found at i:63339589 original size:30 final size:30
Alignment explanation
Indices: 63339551--63339636 Score: 154
Period size: 30 Copynumber: 2.9 Consensus size: 30
63339541 ATTTAATGGT
*
63339551 GTAGGTGCAAGTGGGAGACAAGGTGGTGGA
1 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
*
63339581 GTATGTGCAAGTGGGAGGCAAGGTGGTGGA
1 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
63339611 GTAGGTGCAAGTGGGAGGCAAGGTGG
1 GTAGGTGCAAGTGGGAGGCAAGGTGG
63339637 CTAGGATTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.24, C:0.07, G:0.51, T:0.17
Consensus pattern (30 bp):
GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
Found at i:63339634 original size:18 final size:18
Alignment explanation
Indices: 63339585--63339635 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 18
63339575 GGTGGAGTAT
63339585 GTGCAAGTGGGAGGCAAG
1 GTGCAAGTGGGAGGCAAG
*
63339603 GTG---GT-GGA-G-TAG
1 GTGCAAGTGGGAGGCAAG
63339615 GTGCAAGTGGGAGGCAAG
1 GTGCAAGTGGGAGGCAAG
63339633 GTG
1 GTG
63339636 GCTAGGATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 12
0.64 0.05 0.31
Matches are distributed among these distances:
12 5 0.20
13 1 0.04
14 3 0.12
15 4 0.16
16 3 0.12
17 1 0.04
18 8 0.32
ACGTcount: A:0.24, C:0.08, G:0.53, T:0.16
Consensus pattern (18 bp):
GTGCAAGTGGGAGGCAAG
Found at i:63340268 original size:87 final size:86
Alignment explanation
Indices: 63340163--63340871 Score: 739
Period size: 86 Copynumber: 8.3 Consensus size: 86
63340153 TTCAGCTTGG
* * * * *
63340163 TACCCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTATTTCCCTACTGTTTAGGGTGTT
1 TACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
*
63340228 AAGATTTGTAAATTTAGCCTGT
66 AAGATCTG-AAATTTAGCCTGT
* * * * **
63340250 TACCCCACTGTTTAGGGG-TTAAG-GCTTGTCACCTTCGATCTGTTTCCCTACTG-TTCA---GG
1 TACCCTACTGCTTAGGGGTTTAAGACCCT-TCGTCTTCGATCTGTTTCCCTACTGCTT-AGGGGG
*
63340309 ----G-TCTGTAAATTTAACCTGT
64 TTAAGATCTG-AAATTTAGCCTGT
* * * * *
63340328 TACCCTACTACTTAGGGGTTTAAG-GCTTATCGTCTTTGATCTGTTTCCCCACTGCTTAGGGGGT
1 TACCCTACTGCTTAGGGGTTTAAGACCCT-TCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
63340392 TAAGATCTGTAAATTTAGCCTGT
65 TAAGATCTG-AAATTTAGCCTGT
* * * * * *
63340415 TACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTG-CTCCACTACTGCTTAGGGAGA
1 TACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCC-CTACTGCTTAGGGGGT
* * *
63340479 TAAGATCTGCAATTTGGTCTGT
65 TAAGATCTGAAATTTAGCCTGT
63340501 TACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTG-TATAGGGGGT
1 TACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCT-TAGGGGGT
* * *
63340565 TAAGATCTGGAATTTGGTCTGT
65 TAAGATCTGAAATTTAGCCTGT
* * * * *
63340587 TACCTTACTACTTAGGGGTTTAAGACCCTTCGTCTTCGATCTG-CTCCACTACTGCTTAGGGTGA
1 TACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCC-CTACTGCTTAGGGGGT
* ** *
63340651 TAAGATCTGCAATTCGGTCTGT
65 TAAGATCTGAAATTTAGCCTGT
* * * *
63340673 TACCCTACTACTTATGGGGTTTAAGACCCTTCGTTTTCGATCTG-CTCCACTACTGCTTAGGGAG
1 TACCCTACTGCTTA-GGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCC-CTACTGCTTAGGGGG
* * ** *
63340737 ATAAGATCTGCAATTCGGTCTGT
64 TTAAGATCTGAAATTTAGCCTGT
* *
63340760 TACCCTACTACTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTTGGGGGTT
1 TACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
*
63340825 AAGATCTGGAAATTCAGCCTGT
66 AAGATCT-GAAATTTAGCCTGT
63340847 TACCCTACTGCTTAGGGGTTTAAGA
1 TACCCTACTGCTTAGGGGTTTAAGA
63340872 TCTGTAAATT
Statistics
Matches: 542, Mismatches: 59, Indels: 42
0.84 0.09 0.07
Matches are distributed among these distances:
78 31 0.06
79 32 0.06
80 2 0.00
82 2 0.00
83 1 0.00
85 7 0.01
86 250 0.46
87 216 0.40
88 1 0.00
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (86 bp):
TACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
AAGATCTGAAATTTAGCCTGT
Found at i:63340329 original size:78 final size:79
Alignment explanation
Indices: 63340234--63340457 Score: 218
Period size: 87 Copynumber: 2.7 Consensus size: 79
63340224 TGTTAAGATT
* ** *
63340234 TGTAAATTTAGCCTGTTACCCCACTGTTTAGGGG-TTAAGGCTTGTCACCTTCGATCTGTTTCCC
1 TGTAAATTTAACCTGTTACCCCACTACTTAGGGGTTTAAGGCTTATCACCTTCGATCTGTTTCCC
*
63340298 TACTGTTCAGGGTC
66 CACTGTTCAGGGTC
* ** *
63340312 TGTAAATTTAACCTGTTACCCTACTACTTAGGGGTTTAAGGCTTATCGTCTTTGATCTGTTTCCC
1 TGTAAATTTAACCTGTTACCCCACTACTTAGGGGTTTAAGGCTTATCACCTTCGATCTGTTTCCC
63340377 CACTGCTT-AGGGGGTTAAGATC
66 CACTG-TTCA---GG----G-TC
* * * ** *
63340399 TGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTG
1 TGTAAATTTAACCTGTTACCCCACTACTTAGGGGTTTAAGGCTTATCACCTTCGATCTG
63340458 CTCCACTACT
Statistics
Matches: 121, Mismatches: 15, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
78 30 0.25
79 31 0.26
80 2 0.02
82 2 0.02
86 1 0.01
87 55 0.45
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (79 bp):
TGTAAATTTAACCTGTTACCCCACTACTTAGGGGTTTAAGGCTTATCACCTTCGATCTGTTTCCC
CACTGTTCAGGGTC
Found at i:63340475 original size:44 final size:43
Alignment explanation
Indices: 63340324--63340871 Score: 272
Period size: 44 Copynumber: 12.7 Consensus size: 43
63340314 TAAATTTAAC
* * * * *
63340324 CTGTTACCCTACTACTTAGGGGTTTAAG-GCTTATCGTCTTTGAT
1 CTGTT-CCCTACTGCTTAGGGGTTTAAGACCCT-TCATCTTCGAT
* * * * * *
63340368 CTGTTTCCCCACTGCTTAGGGGGTTAAGA-TCTGTAAAT-TTAG-C
1 CTG-TTCCCTACTGCTTAGGGGTTTAAGACCCT-T-CATCTTCGAT
* *
63340411 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGAT
1 CTGTT-CCCTACTGCTTAGGGGTTTAAGACCCTTCATCTTCGAT
* * * * *
63340455 CTGCTCCACTACTGCTTAGGGAG-ATAAGA-TCTGCAAT-TT-GGT
1 CTGTTCC-CTACTGCTTAGGG-GTTTAAGACCCTTC-ATCTTCGAT
*
63340497 CTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGAT
1 CTGTT-CCCTACTGCTTAGGGGTTTAAGACCCTTCATCTTCGAT
* * ** *
63340541 CTGTTTCCCTACTG-TATAGGGGGTTAAGA-TCTGGAAT-TT-GGT
1 CTG-TTCCCTACTGCT-TAGGGGTTTAAGACCCT-TCATCTTCGAT
* * *
63340583 CTGTTACCTTACTACTTAGGGGTTTAAGACCCTTCGTCTTCGAT
1 CTGTT-CCCTACTGCTTAGGGGTTTAAGACCCTTCATCTTCGAT
* * * * * *
63340627 CTGCTCCACTACTGCTTA-GGGTGATAAGA-TCTGCA-ATTCGGT
1 CTGTTCC-CTACTGCTTAGGGGT-TTAAGACCCTTCATCTTCGAT
* * *
63340669 CTGTTACCCTACTACTTATGGGGTTTAAGACCCTTCGTTTTCGAT
1 CTGTT-CCCTACTGCTTA-GGGGTTTAAGACCCTTCATCTTCGAT
* * * * * *
63340714 CTGCTCCACTACTGCTTAGGGAG-ATAAGA-TCTGCA-ATTCGGT
1 CTGTTCC-CTACTGCTTAGGG-GTTTAAGACCCTTCATCTTCGAT
* *
63340756 CTGTTACCCTACTACTTAGGGGTTTAAGACCCTTCGTCTTCGAT
1 CTGTT-CCCTACTGCTTAGGGGTTTAAGACCCTTCATCTTCGAT
* * * ** ** *
63340800 CTGTTTCCCTACTGCTTTGGGGGTTAAGA-TCTGGAAATTC-AGC
1 CTG-TTCCCTACTGCTTAGGGGTTTAAGACCCTTCATCTTCGA-T
63340843 CTGTTACCCTACTGCTTAGGGGTTTAAGA
1 CTGTT-CCCTACTGCTTAGGGGTTTAAGA
63340872 TCTGTAAATT
Statistics
Matches: 375, Mismatches: 90, Indels: 79
0.69 0.17 0.15
Matches are distributed among these distances:
41 4 0.01
42 100 0.27
43 103 0.27
44 141 0.38
45 27 0.07
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (43 bp):
CTGTTCCCTACTGCTTAGGGGTTTAAGACCCTTCATCTTCGAT
Found at i:63340696 original size:259 final size:261
Alignment explanation
Indices: 63340323--63340871 Score: 813
Period size: 259 Copynumber: 2.1 Consensus size: 261
63340313 GTAAATTTAA
* * * *
63340323 CCTGTTACCCTACTACTTAGGGGTTTAAG-GCTTATCGTCTTTGATCTGTTTCCCCACTGCTTAG
1 CCTGTTACCCTACTACTTAGGGGTTTAAGACCCTATCGTCTTCGATCTGTCTCCCCACTGCTTAG
* * * *
63340387 GGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTC
66 GGGGATAAGATCTGTAAATTCAGCCTGTTACCCTACTACTTAGGGGTTTAAGACCCATCATCTTC
* *
63340452 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTACCCTACTGCTTAGG
131 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTCGGTCTGTTACCCTACTACTTAGG
*
63340517 GGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTG-TATAGGGGGTTAAGATCTGG-AATTT
196 GGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCT-TAGGGGGTTAAGATCTGGAAATTC
*
63340580 GG
260 AG
* * *
63340582 TCTGTTACCTTACTACTTAGGGGTTTAAGACCCT-TCGTCTTCGATCTG-CTCCACTACTGCTTA
1 CCTGTTACCCTACTACTTAGGGGTTTAAGACCCTATCGTCTTCGATCTGTCTCC-CCACTGCTTA
* * * * * * *
63340645 GGGTGATAAGATCTG-CAATTCGGTCTGTTACCCTACTACTTATGGGGTTTAAGACCCTTCGTTT
65 GGGGGATAAGATCTGTAAATTCAGCCTGTTACCCTACTACTTA-GGGGTTTAAGACCCATCATCT
63340709 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTCGGTCTGTTACCCTACTACTTA
129 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTCGGTCTGTTACCCTACTACTTA
*
63340774 GGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTTGGGGGTTAAGATCTGGAAATT
194 GGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGGAAATT
63340839 CAG
259 CAG
*
63340842 CCTGTTACCCTACTGCTTAGGGGTTTAAGA
1 CCTGTTACCCTACTACTTAGGGGTTTAAGA
63340872 TCTGTAAATT
Statistics
Matches: 259, Mismatches: 26, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
258 25 0.10
259 199 0.77
260 35 0.14
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.35
Consensus pattern (261 bp):
CCTGTTACCCTACTACTTAGGGGTTTAAGACCCTATCGTCTTCGATCTGTCTCCCCACTGCTTAG
GGGGATAAGATCTGTAAATTCAGCCTGTTACCCTACTACTTAGGGGTTTAAGACCCATCATCTTC
GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTCGGTCTGTTACCCTACTACTTAGG
GGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGGAAATTCA
G
Found at i:63341070 original size:64 final size:64
Alignment explanation
Indices: 63340990--63341113 Score: 185
Period size: 64 Copynumber: 1.9 Consensus size: 64
63340980 GTATCTATGC
** * *
63340990 TTATGCCAAATAATTAGGACGTTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTGATGT
1 TTATGCCAAATAATTAGGACACTATCATCGAAATGAATCAAATGCTCCTAACTAAATGTGATGT
* * *
63341054 TTATGTCAAATAATTAGGATACTATCATCGAAATGAATCAAATGCTCCTAACTAGATGTG
1 TTATGCCAAATAATTAGGACACTATCATCGAAATGAATCAAATGCTCCTAACTAAATGTG
63341114 TTATTATATG
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (64 bp):
TTATGCCAAATAATTAGGACACTATCATCGAAATGAATCAAATGCTCCTAACTAAATGTGATGT
Found at i:63341886 original size:52 final size:53
Alignment explanation
Indices: 63341778--63341891 Score: 167
Period size: 52 Copynumber: 2.2 Consensus size: 53
63341768 GCATAGCTCG
* * *
63341778 AAATGAATAAATTAATCAAAGATTGCAAATGCCATAAGAAATAAATTAACTCA
1 AAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAAGAAATTAACTCA
* * *
63341831 AAATGAATAAGTTAATCAAAGATAGC-GATGCAATAAGAAGGAAATTAACTCA
1 AAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAAGAAATTAACTCA
63341883 AAATGAATA
1 AAATGAATA
63341892 TAGCAAATTC
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
52 31 0.56
53 24 0.44
ACGTcount: A:0.54, C:0.10, G:0.13, T:0.23
Consensus pattern (53 bp):
AAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAAGAAATTAACTCA
Found at i:63342348 original size:197 final size:197
Alignment explanation
Indices: 63342013--63342397 Score: 689
Period size: 197 Copynumber: 2.0 Consensus size: 197
63342003 GATCCGAAGC
63342013 ACTTTGTTGATGCCCCAAGACATAGCATACTTCTTCATTGTTAATTCAGGTATAGCAAGACTGTT
1 ACTTTGTTGATGCCCCAAGACATAGCATACTTCTTCATTGTTAATTCAGGTATAGCAAGACTGTT
*
63342078 GTATGCCCCACTTGGATCCAAAGTTGAGCCGCCCTTTCCGGGTTTTCAACTCAAATCCCCTTTGG
66 GTATGCCCCACTTGGATCCAAAGTTGAGCCGCCATTTCCGGGTTTTCAACTCAAATCCCCTTTGG
* *
63342143 TCTCAAAGCGTCCTTTACGGGTTTTCGCTTTGGCCTCTCCTTTTTCTTCTCTTTCTTTTTTTTTT
131 TCTCAAAGCGCCCTTTACGGGTTTTCGCTCTGGCCTCTCCTTTTTCTTCTCTTTCTTTTTTTTTT
63342208 TT
196 TT
* * *
63342210 ACTTTGTTGATGCCCCAAGACGTAGCATATTTCTTCATTGTTAATTTAGGTATAGCAAGACTGTT
1 ACTTTGTTGATGCCCCAAGACATAGCATACTTCTTCATTGTTAATTCAGGTATAGCAAGACTGTT
* *
63342275 GTATGCCCTACTTGGATCCAAATTTGAGCCGCCATTTCCGGGTTTTCAACTCAAATCCCCTTTGG
66 GTATGCCCCACTTGGATCCAAAGTTGAGCCGCCATTTCCGGGTTTTCAACTCAAATCCCCTTTGG
*
63342340 TCTCAAAGCGCCCTTTGCGGGTTTTCGCTCTGGCCTCTCCTTTTTCTTCTCTTTCTTT
131 TCTCAAAGCGCCCTTTACGGGTTTTCGCTCTGGCCTCTCCTTTTTCTTCTCTTTCTTT
63342398 CTTTCTTTCT
Statistics
Matches: 179, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
197 179 1.00
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (197 bp):
ACTTTGTTGATGCCCCAAGACATAGCATACTTCTTCATTGTTAATTCAGGTATAGCAAGACTGTT
GTATGCCCCACTTGGATCCAAAGTTGAGCCGCCATTTCCGGGTTTTCAACTCAAATCCCCTTTGG
TCTCAAAGCGCCCTTTACGGGTTTTCGCTCTGGCCTCTCCTTTTTCTTCTCTTTCTTTTTTTTTT
TT
Found at i:63345580 original size:9 final size:10
Alignment explanation
Indices: 63345567--63345612 Score: 53
Period size: 9 Copynumber: 4.8 Consensus size: 10
63345557 GGGAAAGTCT
63345567 AATGCAAAT-
1 AATGCAAATG
63345576 AATGC-AATG
1 AATGCAAATG
63345585 CAATGCAAATG
1 -AATGCAAATG
*
63345596 TATG-AAATG
1 AATGCAAATG
63345605 AATGCAAA
1 AATGCAAA
63345613 AGAAAGGAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
8 3 0.10
9 13 0.42
10 11 0.35
11 4 0.13
ACGTcount: A:0.50, C:0.11, G:0.17, T:0.22
Consensus pattern (10 bp):
AATGCAAATG
Found at i:63345591 original size:19 final size:19
Alignment explanation
Indices: 63345567--63345612 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
63345557 GGGAAAGTCT
*
63345567 AATGCAAAT-AATGCAATG
1 AATGCAAATGAATGAAATG
*
63345585 CAATGCAAATGTATGAAATG
1 -AATGCAAATGAATGAAATG
63345605 AATGCAAA
1 AATGCAAA
63345613 AGAAAGGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.50, C:0.11, G:0.17, T:0.22
Consensus pattern (19 bp):
AATGCAAATGAATGAAATG
Found at i:63347787 original size:15 final size:16
Alignment explanation
Indices: 63347767--63347805 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
63347757 TCAAACACGT
63347767 ATGTATGTAAAA-ATA
1 ATGTATGTAAAATATA
*
63347782 ATGTATTTAAAATATA
1 ATGTATGTAAAATATA
63347798 ATGT-TGTA
1 ATGTATGTA
63347806 TCCTAGATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.41
Consensus pattern (16 bp):
ATGTATGTAAAATATA
Found at i:63352794 original size:9 final size:10
Alignment explanation
Indices: 63352781--63352826 Score: 53
Period size: 9 Copynumber: 4.8 Consensus size: 10
63352771 GGGAAAGTCT
63352781 AATGCAAAT-
1 AATGCAAATG
63352790 AATGC-AATG
1 AATGCAAATG
63352799 CAATGCAAATG
1 -AATGCAAATG
*
63352810 TATG-AAATG
1 AATGCAAATG
63352819 AATGCAAA
1 AATGCAAA
63352827 AGAAAGGAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
8 3 0.10
9 13 0.42
10 11 0.35
11 4 0.13
ACGTcount: A:0.50, C:0.11, G:0.17, T:0.22
Consensus pattern (10 bp):
AATGCAAATG
Found at i:63352805 original size:19 final size:19
Alignment explanation
Indices: 63352781--63352826 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
63352771 GGGAAAGTCT
*
63352781 AATGCAAAT-AATGCAATG
1 AATGCAAATGAATGAAATG
*
63352799 CAATGCAAATGTATGAAATG
1 -AATGCAAATGAATGAAATG
63352819 AATGCAAA
1 AATGCAAA
63352827 AGAAAGGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.50, C:0.11, G:0.17, T:0.22
Consensus pattern (19 bp):
AATGCAAATGAATGAAATG
Found at i:63355027 original size:30 final size:30
Alignment explanation
Indices: 63354988--63355073 Score: 154
Period size: 30 Copynumber: 2.9 Consensus size: 30
63354978 ATTTGATGGT
*
63354988 GTAGATGCAAGTGGGAGACAAGGTGGTGGA
1 GTAGGTGCAAGTGGGAGACAAGGTGGTGGA
*
63355018 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
1 GTAGGTGCAAGTGGGAGACAAGGTGGTGGA
63355048 GTAGGTGCAAGTGGGAGACAAGGTGG
1 GTAGGTGCAAGTGGGAGACAAGGTGG
63355074 CTAGGATTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.27, C:0.07, G:0.50, T:0.16
Consensus pattern (30 bp):
GTAGGTGCAAGTGGGAGACAAGGTGGTGGA
Found at i:63356061 original size:15 final size:16
Alignment explanation
Indices: 63356041--63356079 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
63356031 TCAAACACGT
63356041 ATGTATGTAAAA-ATA
1 ATGTATGTAAAATATA
*
63356056 ATGTATTTAAAATATA
1 ATGTATGTAAAATATA
63356072 ATGT-TGTA
1 ATGTATGTA
63356080 TCCTAGATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.41
Consensus pattern (16 bp):
ATGTATGTAAAATATA
Found at i:63362509 original size:44 final size:43
Alignment explanation
Indices: 63362438--63362596 Score: 153
Period size: 43 Copynumber: 3.7 Consensus size: 43
63362428 TATGTGTTTT
* * * *
63362438 CGTGTAAGACCACGTCTAGGACGTTGGCATCAACTTATAATTTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCAACTT-TGATTTA
*
63362482 CGTGTAAGACCATGTCTGGGACATTGGCATC-GCATTTGATTT-
1 CGTGTAAGACCATGTCTGGGACATTGGCATCAAC-TTTGATTTA
* * * *
63362524 CGTGTAAGACCCTGTCTGGGATAGTGGCATCAATATTTGA-TTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCAA-CTTTGATTTA
* * * *
63362567 CATGCAAGACTATGTCTGGGACGTTGGCAT
1 CGTGTAAGACCATGTCTGGGACATTGGCAT
63362597 TGTACAAGCT
Statistics
Matches: 94, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
42 30 0.32
43 34 0.36
44 30 0.32
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACATTGGCATCAACTTTGATTTA
Found at i:63362555 original size:86 final size:85
Alignment explanation
Indices: 63362435--63362596 Score: 195
Period size: 86 Copynumber: 1.9 Consensus size: 85
63362425 CAATATGTGT
* * *
63362435 TTTCGTGTAAGACCACGTCTAGGACGTTGGCATCAACT-TATAATTTACGTGTAAGACCATGTCT
1 TTTCGTGTAAGACCACGTCTAGGAAGTTGGCATCAA-TATATAA-TTACATGCAAGACCATGTCT
63362499 GGGACATTGGCATCGCATTTGA
64 GGGACATTGGCATCGCATTTGA
* * * *
63362521 TTTCGTGTAAGACC-CTGTCTGGGATAG-TGGCATCAATATTTGATTACATGCAAGACTATGTCT
1 TTTCGTGTAAGACCAC-GTCTAGGA-AGTTGGCATCAATATATAATTACATGCAAGACCATGTCT
*
63362584 GGGACGTTGGCAT
64 GGGACATTGGCAT
63362597 TGTACAAGCT
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
85 31 0.48
86 33 0.51
87 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (85 bp):
TTTCGTGTAAGACCACGTCTAGGAAGTTGGCATCAATATATAATTACATGCAAGACCATGTCTGG
GACATTGGCATCGCATTTGA
Found at i:63370143 original size:42 final size:43
Alignment explanation
Indices: 63370041--63370199 Score: 162
Period size: 43 Copynumber: 3.7 Consensus size: 43
63370031 TATGTGTTTT
* * * *
63370041 CGTGTAAGACAACGTCTAGGACGTTGGCATC-A-ACTTATGATTTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATA-TT-TGA-TTA
*
63370085 CGTGTAAGACCATGTCTGGGACATTGGCATCG-TATTTGATTT
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATTA
* * * *
63370127 TGTGTAAGACCCTGTCTGGGATAGTGGCATCGATATTTGATTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATTA
* * *
63370170 CATGTAAGACTATGTCTGGGACGTTGGCAT
1 CGTGTAAGACCATGTCTGGGACATTGGCAT
63370200 TGTACAAGCT
Statistics
Matches: 95, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
42 30 0.32
43 35 0.37
44 29 0.31
45 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATTA
Found at i:63371271 original size:65 final size:67
Alignment explanation
Indices: 63371201--63371326 Score: 168
Period size: 67 Copynumber: 1.9 Consensus size: 67
63371191 TGTGCTAGGC
* * * *
63371201 CGTGTGGCCAAGTCAGTA-GCCT-CCCTAATTTTCACACGGCCT-GGCACACTGGTGTGTCTTGT
1 CGTGTGGACAAGTCAGTATGCATGCCCT-ATTTTCACACGGCCTAGACACACGGGTGTGTCTTGT
63371263 GGT
65 GGT
* *
63371266 CGTGTGGACAAGTCAGTATGTATGCCCTATTTTGACACGGCCTAGACACACGGGTGTGTCT
1 CGTGTGGACAAGTCAGTATGCATGCCCTATTTTCACACGGCCTAGACACACGGGTGTGTCT
63371327 AAAGCCGTGT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
65 17 0.33
66 16 0.31
67 19 0.37
ACGTcount: A:0.18, C:0.25, G:0.28, T:0.29
Consensus pattern (67 bp):
CGTGTGGACAAGTCAGTATGCATGCCCTATTTTCACACGGCCTAGACACACGGGTGTGTCTTGTG
GT
Found at i:63371336 original size:66 final size:63
Alignment explanation
Indices: 63371180--63371337 Score: 156
Period size: 66 Copynumber: 2.4 Consensus size: 63
63371170 ACACGGTCGC
* * *
63371180 ACACACGGGCGTGTGCTAGGCCGTGTGGCCAAGTCAGTAGCCTCCCTAATTTTCACACGGCCTG
1 ACACACGGGTGTGT-CTAGGCCGTGTGGACAAGTCAGTAGCATCCCTAATTTTCACACGGCCTG
* * * * * *
63371244 GCACACTGGTGTGTCTTGTGGTCGTGTGGACAAGTCAGTATGTATGCCCT-ATTTTGACACGGCC
1 ACACACGGGTGTGTC-T-AGGCCGTGTGGACAAGTCAGTA-GCAT-CCCTAATTTTCACACGGCC
63371308 TAG
62 T-G
*
63371311 ACACACGGGTGTGTCTAAAGCCGTGTG
1 ACACACGGGTGTGTCT-AGGCCGTGTG
63371338 AGGCATACAG
Statistics
Matches: 74, Mismatches: 15, Indels: 8
0.76 0.15 0.08
Matches are distributed among these distances:
63 1 0.01
64 12 0.16
65 19 0.26
66 24 0.32
67 18 0.24
ACGTcount: A:0.19, C:0.25, G:0.30, T:0.26
Consensus pattern (63 bp):
ACACACGGGTGTGTCTAGGCCGTGTGGACAAGTCAGTAGCATCCCTAATTTTCACACGGCCTG
Found at i:63374344 original size:18 final size:18
Alignment explanation
Indices: 63374321--63374355 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
63374311 TTTTCAGAAT
63374321 ACCCTAAACCCTAAAAAA
1 ACCCTAAACCCTAAAAAA
*
63374339 ACCCTAAGCCCTAAAAA
1 ACCCTAAACCCTAAAAA
63374356 CCTTAACATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.34, G:0.03, T:0.11
Consensus pattern (18 bp):
ACCCTAAACCCTAAAAAA
Found at i:63377948 original size:30 final size:30
Alignment explanation
Indices: 63377912--63377970 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
63377902 GAAACAAAGA
*
63377912 TGTTTGTATAACTCACGCTTAGAAAATTTG
1 TGTTTGTATAACTCACGCATAGAAAATTTG
*
63377942 TGTTTGTATGACTCACGCATAGAAAATTT
1 TGTTTGTATAACTCACGCATAGAAAATTT
63377971 CTCGGCAGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.39
Consensus pattern (30 bp):
TGTTTGTATAACTCACGCATAGAAAATTTG
Found at i:63381635 original size:44 final size:44
Alignment explanation
Indices: 63381491--63381647 Score: 135
Period size: 42 Copynumber: 3.6 Consensus size: 44
63381481 TGCTCGTACA
* * * * *
63381491 ATGCCAATATCCTAGACGTGGTCTTACATGT--ATTCAAATATCG
1 ATGCTAATGTCCTAGACATGGTCTTACACGTAAATTTAAA-ATCG
* * * * * *
63381534 ATGCCATTGTCCCAGACAGGGTCTTACACG-AAA--TCAAATACA
1 ATGCTAATGTCCTAGACATGGTCTTACACGTAAATTTAAAAT-CG
*
63381576 ATGCTGATGTCCTAGACATGGTCTTACACGTAAATTTAAAATCG
1 ATGCTAATGTCCTAGACATGGTCTTACACGTAAATTTAAAATCG
* *
63381620 ATGCTAACGTCCTAGACGTGGTCTTACA
1 ATGCTAATGTCCTAGACATGGTCTTACA
63381648 TGAAATCACA
Statistics
Matches: 89, Mismatches: 19, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
41 2 0.02
42 28 0.31
43 27 0.30
44 27 0.30
45 5 0.06
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (44 bp):
ATGCTAATGTCCTAGACATGGTCTTACACGTAAATTTAAAATCG
Found at i:63384475 original size:27 final size:27
Alignment explanation
Indices: 63384445--63384534 Score: 101
Period size: 27 Copynumber: 3.3 Consensus size: 27
63384435 CAACCAATAG
63384445 AGTCTGTCGAGACACTAAACATGGGGT
1 AGTCTGTCGAGACACTAAACATGGGGT
** * *
63384472 AGTCCATCGGGACACTAAACATAGGGT
1 AGTCTGTCGAGACACTAAACATGGGGT
* * *
63384499 AGTCTG-CTAGGACACTAAACATGAGAT
1 AGTCTGTCGA-GACACTAAACATGGGGT
63384526 AGTCTGTCG
1 AGTCTGTCG
63384535 TAATAGTAAA
Statistics
Matches: 49, Mismatches: 12, Indels: 3
0.77 0.19 0.05
Matches are distributed among these distances:
26 1 0.02
27 47 0.96
28 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (27 bp):
AGTCTGTCGAGACACTAAACATGGGGT
Found at i:63384642 original size:69 final size:69
Alignment explanation
Indices: 63384539--63384694 Score: 197
Period size: 69 Copynumber: 2.3 Consensus size: 69
63384529 CTGTCGTAAT
* * *
63384539 AGTAAACACGAGGATTACGAGGTGAAAGAACATAGCTCGACTATGGCAACCAATAGAGTCTATTA
1 AGTAAACACGAGGATTACGAGGTGAAAGAACATAGCTCAACAATAGCAACCAATAGAGTCTATTA
*
63384604 GGAC
66 GGAA
** * ** * *
63384608 AGTAAACACGAGGATTGTGAGGTGTAAGTCCATAGCTCAACAATAGCAACCAATGGAGTCTGTTA
1 AGTAAACACGAGGATTACGAGGTGAAAGAACATAGCTCAACAATAGCAACCAATAGAGTCTATTA
63384673 GGAA
66 GGAA
63384677 AGTAAACAC-AGGGATTAC
1 AGTAAACACGA-GGATTAC
63384695 TATATAGCCC
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
68 1 0.01
69 72 0.99
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (69 bp):
AGTAAACACGAGGATTACGAGGTGAAAGAACATAGCTCAACAATAGCAACCAATAGAGTCTATTA
GGAA
Found at i:63388356 original size:201 final size:201
Alignment explanation
Indices: 63388011--63388412 Score: 671
Period size: 201 Copynumber: 2.0 Consensus size: 201
63388001 CTGCTAGGGG
* *
63388011 TATAATAGTAATTCGAATAGGCTTGGGTTGTGATGAAACTGAATGAATTTTATTTTACGAGCCTA
1 TATAATAGGAATTCGAATAGGCTTGGGTTGTGATGAAACTGAATGAATTTTATTTTACAAGCCTA
* *
63388076 GGGACTAAATTATAAAAGTGGTGAAACATTAGGGGTAAATGTGTAAAAAAGCTTAAAAGTGTGTT
66 GGGACTAAATTATAAAAGTGGTGAAACATTAGGGGCAAATCTGTAAAAAAGCTTAAAAGTGTGTT
*
63388141 TTGGACTAAATTGAATAGAGAGATAATTAAATAAGCTGATTTTGATTACATATAGATTAAGAAAA
131 TTGGACTAAATTGAATAGAGAGACAATTAAATAAGCTGATTTTGATTACATATAGATTAAGAAAA
*
63388206 GTGAAA
196 GCGAAA
** * *
63388212 TATAATAGGAATTCGGCTAGGTTTGGGTTGTGATGAAATTGAATGAATTTTATTTTACAAGCCTA
1 TATAATAGGAATTCGAATAGGCTTGGGTTGTGATGAAACTGAATGAATTTTATTTTACAAGCCTA
** *
63388277 GGGACTAAATTGA-AAAAGTGGTGAAATGTTAGGGGCAAATCTGTAAAAGAGCTTAAAAGTGTGT
66 GGGACTAAATT-ATAAAAGTGGTGAAACATTAGGGGCAAATCTGTAAAAAAGCTTAAAAGTGTGT
63388341 TTTGGACTAAATTGAATAGAGAGACAATTAAATAAGCTGATTTTGATTACATATAGATTAAGAAA
130 TTTGGACTAAATTGAATAGAGAGACAATTAAATAAGCTGATTTTGATTACATATAGATTAAGAAA
63388406 AGCGAAA
195 AGCGAAA
63388413 CCCAGACTTA
Statistics
Matches: 187, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
201 186 0.99
202 1 0.01
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.31
Consensus pattern (201 bp):
TATAATAGGAATTCGAATAGGCTTGGGTTGTGATGAAACTGAATGAATTTTATTTTACAAGCCTA
GGGACTAAATTATAAAAGTGGTGAAACATTAGGGGCAAATCTGTAAAAAAGCTTAAAAGTGTGTT
TTGGACTAAATTGAATAGAGAGACAATTAAATAAGCTGATTTTGATTACATATAGATTAAGAAAA
GCGAAA
Found at i:63388673 original size:41 final size:41
Alignment explanation
Indices: 63388597--63388676 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 41
63388587 AATTATGGGC
*
63388597 ACTTAGTGTGCAAAATTGAGATAGCTTCGATTATATATTGG
1 ACTTAGTGTGCAAAATTGAGATAGCTTCGACTATATATTGG
* * * *
63388638 ACTTAGTGTGCGAGATTGAGATAGCTTTGGCTATATATT
1 ACTTAGTGTGCAAAATTGAGATAGCTTCGACTATATATT
63388677 CACATTAGCA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.38
Consensus pattern (41 bp):
ACTTAGTGTGCAAAATTGAGATAGCTTCGACTATATATTGG
Found at i:63390153 original size:8 final size:8
Alignment explanation
Indices: 63390142--63390166 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
63390132 TTTAATAAGA
63390142 TATTTTAT
1 TATTTTAT
63390150 TATTTTAT
1 TATTTTAT
63390158 TATTTTAT
1 TATTTTAT
63390166 T
1 T
63390167 TAGTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:63392681 original size:10 final size:10
Alignment explanation
Indices: 63392666--63392692 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
63392656 ACACACAAAG
63392666 TAAGCTTTCA
1 TAAGCTTTCA
63392676 TAAGCTTTCA
1 TAAGCTTTCA
63392686 TAAGCTT
1 TAAGCTT
63392693 AGTAAGCTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.41
Consensus pattern (10 bp):
TAAGCTTTCA
Found at i:63393032 original size:44 final size:42
Alignment explanation
Indices: 63392984--63393099 Score: 125
Period size: 44 Copynumber: 2.7 Consensus size: 42
63392974 AAGATTAGCT
63392984 GAAGCTATAATAATTCTGCACACTTAGTGCCATCTCA-ATTAACC
1 GAAGCTATAATAATTC-GCACACTTAGTGCCA-CTCATA-TAACC
*
63393028 GAAGCTAT-TTCAATATCGCACACTTAGTG-C-CTCATATAACC
1 GAAGCTATAAT-AAT-TCGCACACTTAGTGCCACTCATATAACC
*
63393069 GAAGCTA-AATTAACTCGCACACTTAGTGCCA
1 GAAGCTATAA-TAATTCGCACACTTAGTGCCA
63393100 AATACTATTG
Statistics
Matches: 62, Mismatches: 3, Indels: 16
0.77 0.04 0.20
Matches are distributed among these distances:
40 14 0.23
41 19 0.31
42 2 0.03
43 2 0.03
44 23 0.37
45 2 0.03
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.28
Consensus pattern (42 bp):
GAAGCTATAATAATTCGCACACTTAGTGCCACTCATATAACC
Found at i:63402640 original size:43 final size:41
Alignment explanation
Indices: 63402582--63402730 Score: 122
Period size: 43 Copynumber: 3.5 Consensus size: 41
63402572 CAATGCCAAC
* *
63402582 GTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCATT
1 GTCCCAGAAG-GGTCTTACACGTAATCAAATATCGATGCCA-T
* * *
63402625 GTCCCAGATAGGGTCTTACACGAAATCAAATA-CAATACCGAT
1 GTCCCAGA-AGGGTCTTACACGTAATCAAATATCGATGCC-AT
* * *
63402667 GTCCCAGACATGGTCTTACACGTAAATCATAA-GTCGATGCCAAC
1 GTCCCAGA-AGGGTCTTACACGT-AATCA-AATATCGATGCC-AT
*
63402711 GTCCCAGACGTGGTCTTACA
1 GTCCCAGAAG-GGTCTTACA
63402731 TGAAAACACA
Statistics
Matches: 85, Mismatches: 15, Indels: 11
0.77 0.14 0.10
Matches are distributed among these distances:
42 26 0.31
43 33 0.39
44 26 0.31
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (41 bp):
GTCCCAGAAGGGTCTTACACGTAATCAAATATCGATGCCAT
Found at i:63405676 original size:37 final size:37
Alignment explanation
Indices: 63405626--63405704 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
63405616 TTATTACGAA
* *
63405626 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
63405663 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
63405700 GTCTT
1 GTCTT
63405705 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:63405948 original size:49 final size:49
Alignment explanation
Indices: 63405823--63406361 Score: 960
Period size: 49 Copynumber: 11.1 Consensus size: 49
63405813 CCCTTCGGGA
* * * * * *
63405823 CTTATCACAT-T-TATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
***
63405870 CCCGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
63405917 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
63405966 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
63406015 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
63406064 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
63406113 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
63406162 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
63406211 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
63406260 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
63406309 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
63406358 CTTA
1 CTTA
63406362 CTATCATTTC
Statistics
Matches: 475, Mismatches: 13, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
46 1 0.00
47 40 0.08
49 434 0.91
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:63420000 original size:6 final size:6
Alignment explanation
Indices: 63419955--63420026 Score: 58
Period size: 6 Copynumber: 11.7 Consensus size: 6
63419945 ACAATTTGTT
* * * *
63419955 GAAAAA GCAAAA GAATAA GAATAA GAAAAA -AAGAAT GAAAAA GAAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAA-AAA GAAAAA GAAAAA
63420003 G-AAAA GAAAATCAA GAAAAA GAAA
1 GAAAAA G-AAA--AA GAAAAA GAAA
63420027 GAAAAAAGTG
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
5 7 0.13
6 37 0.69
7 4 0.07
8 3 0.06
9 3 0.06
ACGTcount: A:0.75, C:0.03, G:0.17, T:0.06
Consensus pattern (6 bp):
GAAAAA
Found at i:63420003 original size:36 final size:36
Alignment explanation
Indices: 63419954--63420032 Score: 99
Period size: 36 Copynumber: 2.2 Consensus size: 36
63419944 AACAATTTGT
* *
63419954 TGAAAAAGCAAAAGAATAAGAATAA-GAA-AAAAAGAA
1 TGAAAAAGAAAAAGAA-AAGAA-AATCAAGAAAAAGAA
63419990 TGAAAAAGAAAAAGAAAAGAAAATCAAGAAAAAGAA
1 TGAAAAAGAAAAAGAAAAGAAAATCAAGAAAAAGAA
*
63420026 AGAAAAA
1 TGAAAAA
63420033 AGTGAGAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
34 2 0.05
35 7 0.18
36 29 0.76
ACGTcount: A:0.75, C:0.03, G:0.16, T:0.06
Consensus pattern (36 bp):
TGAAAAAGAAAAAGAAAAGAAAATCAAGAAAAAGAA
Found at i:63420019 original size:30 final size:29
Alignment explanation
Indices: 63419963--63420032 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 29
63419953 TTGAAAAAGC
* *
63419963 AAAAGAATAAGAATAAGAAAAAAAGAATGA
1 AAAAGAAAAAGAATAAGAAAAAAAGAA-AA
*
63419993 AAAAGAAAAAGAA-AAGAAAATCAAGAAAA
1 AAAAGAAAAAGAATAAGAAAA-AAAGAAAA
63420022 AGAAAGAAAAA
1 A-AAAGAAAAA
63420033 AGTGAGAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 9 0.26
30 26 0.74
ACGTcount: A:0.77, C:0.01, G:0.16, T:0.06
Consensus pattern (29 bp):
AAAAGAAAAAGAATAAGAAAAAAAGAAAA
Found at i:63423137 original size:19 final size:19
Alignment explanation
Indices: 63423098--63423134 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
63423088 TAGTACAACC
63423098 ATTTAATTTGTCTTGAGTT
1 ATTTAATTTGTCTTGAGTT
63423117 ATTTAATTTGTCTT-AGTT
1 ATTTAATTTGTCTTGAGTT
63423135 TATACAGGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.22, C:0.05, G:0.14, T:0.59
Consensus pattern (19 bp):
ATTTAATTTGTCTTGAGTT
Found at i:63440058 original size:22 final size:22
Alignment explanation
Indices: 63440033--63440076 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
63440023 AGTTCAAGAG
63440033 ATCAAGTTATAACCATTTTAGT
1 ATCAAGTTATAACCATTTTAGT
63440055 ATCAAGTTATAACCATTTTAGT
1 ATCAAGTTATAACCATTTTAGT
63440077 TAAGACTGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (22 bp):
ATCAAGTTATAACCATTTTAGT
Found at i:63440577 original size:82 final size:83
Alignment explanation
Indices: 63440477--63440642 Score: 316
Period size: 83 Copynumber: 2.0 Consensus size: 83
63440467 ACTCTGGGAG
*
63440477 TTTATTTCTTGATGCAAGA-TTTTTTTCTTATGATTTTTAGAAGTAGTTTTCTTATCGATGTTCT
1 TTTATTTCTTGATGCAAGATTTTTTTTCTCATGATTTTTAGAAGTAGTTTTCTTATCGATGTTCT
63440541 TCTAGGAGTCATGGGAAT
66 TCTAGGAGTCATGGGAAT
63440559 TTTATTTCTTGATGCAAGATTTTTTTTCTCATGATTTTTAGAAGTAGTTTTCTTATCGATGTTCT
1 TTTATTTCTTGATGCAAGATTTTTTTTCTCATGATTTTTAGAAGTAGTTTTCTTATCGATGTTCT
63440624 TCTAGGAGTCATGGGAAT
66 TCTAGGAGTCATGGGAAT
63440642 T
1 T
63440643 CATTCTTCAC
Statistics
Matches: 82, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
82 19 0.23
83 63 0.77
ACGTcount: A:0.22, C:0.10, G:0.18, T:0.50
Consensus pattern (83 bp):
TTTATTTCTTGATGCAAGATTTTTTTTCTCATGATTTTTAGAAGTAGTTTTCTTATCGATGTTCT
TCTAGGAGTCATGGGAAT
Found at i:63440862 original size:19 final size:20
Alignment explanation
Indices: 63440822--63440862 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
63440812 TAGTTATTTA
63440822 TTATTTTGAATATTTATTAT
1 TTATTTTGAATATTTATTAT
* *
63440842 TTATTTTTAA-ATTTCTTAT
1 TTATTTTGAATATTTATTAT
63440861 TT
1 TT
63440863 TCTTTATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (20 bp):
TTATTTTGAATATTTATTAT
Found at i:63443031 original size:52 final size:53
Alignment explanation
Indices: 63442974--63443088 Score: 171
Period size: 52 Copynumber: 2.2 Consensus size: 53
63442964 GGGAAATTTC
* *
63442974 TCACTTAGCACCA-TGCCATGGACTTATTTCACTTAAATGCCGTAGTCTTTTT
1 TCACTTAGCACCATTGCCATGGACTTATTTCACTTAAATGCCATAGTCTTATT
* *
63443026 TCACTTAGCA-CATTGCCATGGACTTATTTCACTTAGATGCCATGGTCTTATT
1 TCACTTAGCACCATTGCCATGGACTTATTTCACTTAAATGCCATAGTCTTATT
*
63443078 TCCCTTAGCAC
1 TCACTTAGCAC
63443089 AATGTCATAT
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
51 2 0.04
52 54 0.96
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.37
Consensus pattern (53 bp):
TCACTTAGCACCATTGCCATGGACTTATTTCACTTAAATGCCATAGTCTTATT
Found at i:63443056 original size:28 final size:27
Alignment explanation
Indices: 63442974--63443089 Score: 118
Period size: 24 Copynumber: 4.4 Consensus size: 27
63442964 GGGAAATTTC
63442974 TCACTTAGCACCATGCCATGGACTTATT
1 TCACTTAGCA-CATGCCATGGACTTATT
* * * *
63443002 TCACTTA--A-ATGCCGTAGTCTTTTT
1 TCACTTAGCACATGCCATGGACTTATT
63443026 TCACTTAGCACATTGCCATGGACTTATT
1 TCACTTAGCACA-TGCCATGGACTTATT
*
63443054 TCACTTAG---ATGCCATGGTCTTATT
1 TCACTTAGCACATGCCATGGACTTATT
*
63443078 TCCCTTAGCACA
1 TCACTTAGCACA
63443090 ATGTCATATC
Statistics
Matches: 71, Mismatches: 10, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
24 40 0.56
25 1 0.01
26 2 0.03
27 2 0.03
28 26 0.37
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.37
Consensus pattern (27 bp):
TCACTTAGCACATGCCATGGACTTATT
Found at i:63448842 original size:36 final size:37
Alignment explanation
Indices: 63448774--63448859 Score: 106
Period size: 36 Copynumber: 2.4 Consensus size: 37
63448764 GTTCTGGCTC
*
63448774 ATCTTCTTTTCTTTCTTCAATCTCTTTCTCTTTTTCA
1 ATCTTCTTTTCTTTCATCAATCTCTTTCTCTTTTTCA
* * * *
63448811 ATCTTCTTTTC-TTGATCAATTTCTTTTTCTTTTTCG
1 ATCTTCTTTTCTTTCATCAATCTCTTTCTCTTTTTCA
63448847 AT-TTCTTTT-TTTC
1 ATCTTCTTTTCTTTC
63448860 TTTTTCTCAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
35 9 0.21
36 22 0.52
37 11 0.26
ACGTcount: A:0.10, C:0.22, G:0.02, T:0.65
Consensus pattern (37 bp):
ATCTTCTTTTCTTTCATCAATCTCTTTCTCTTTTTCA
Found at i:63448856 original size:18 final size:18
Alignment explanation
Indices: 63448780--63448856 Score: 84
Period size: 18 Copynumber: 4.2 Consensus size: 18
63448770 GCTCATCTTC
*
63448780 TTTTCTTTCTTCAATCTCT
1 TTTTCTTT-TTCAATTTCT
*
63448799 TTCTCTTTTTCAATCTTC-
1 TTTTCTTTTTCAAT-TTCT
**
63448817 TTTTCTTGATCAATTTCT
1 TTTTCTTTTTCAATTTCT
*
63448835 TTTTCTTTTTCGATTTCT
1 TTTTCTTTTTCAATTTCT
63448853 TTTT
1 TTTT
63448857 TTCTTTTTCT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
17 3 0.06
18 36 0.75
19 9 0.19
ACGTcount: A:0.10, C:0.21, G:0.03, T:0.66
Consensus pattern (18 bp):
TTTTCTTTTTCAATTTCT
Found at i:63448872 original size:20 final size:21
Alignment explanation
Indices: 63448834--63448883 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
63448824 GATCAATTTC
*
63448834 TTTTTCTTTTTCGATTTCT-T
1 TTTTTCTTTTTCCATTTCTCT
63448854 TTTTTCTTTTTCTCA-TTCTCT
1 TTTTTCTTTTTC-CATTTCTCT
*
63448875 TTTTGCTTT
1 TTTTTCTTT
63448884 CTTTCACACT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.04, C:0.18, G:0.04, T:0.74
Consensus pattern (21 bp):
TTTTTCTTTTTCCATTTCTCT
Found at i:63448921 original size:21 final size:20
Alignment explanation
Indices: 63448849--63448921 Score: 55
Period size: 21 Copynumber: 3.8 Consensus size: 20
63448839 CTTTTTCGAT
63448849 TTCTTTTTTTCTTT-TTCTCA
1 TTCTTTTTTTCTTTCTT-TCA
*
63448869 TTCTCTTTTTGCTTTCTTTCA
1 TTCT-TTTTTTCTTTCTTTCA
** * *
63448890 CACTCTTTTTCTTTC-AT--
1 TTCTTTTTTTCTTTCTTTCA
63448907 TTCTTTTTTTCTTTC
1 TTCTTTTTTTCTTTC
63448922 AAATTTTTTA
Statistics
Matches: 42, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
17 12 0.29
19 1 0.02
20 13 0.31
21 14 0.33
22 2 0.05
ACGTcount: A:0.05, C:0.23, G:0.01, T:0.70
Consensus pattern (20 bp):
TTCTTTTTTTCTTTCTTTCA
Found at i:63450056 original size:12 final size:11
Alignment explanation
Indices: 63450035--63450066 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
63450025 TTTCTTTTCA
63450035 CAAATTTTTTT
1 CAAATTTTTTT
63450046 CAAATTTTTTT
1 CAAATTTTTTT
*
63450057 CGAATTTTTT
1 CAAATTTTTT
63450067 GCTAAAATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.25, C:0.09, G:0.03, T:0.62
Consensus pattern (11 bp):
CAAATTTTTTT
Found at i:63456039 original size:55 final size:54
Alignment explanation
Indices: 63455913--63456110 Score: 247
Period size: 54 Copynumber: 3.7 Consensus size: 54
63455903 TTTGGTAAAA
* *
63455913 CAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGG
1 CAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGG
* * * *
63455967 CAAGGAAATCATGTAAGACTATGTCAAGACATGGCATTGATGAGTTACTATAAGG
1 CAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGG
* * * *
63456022 CAAAGG-TCCCATGTAAGACCATGCCAAGGCATGACATTGGTGAGTTC-ATAAGG
1 C-AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGG
* **
63456075 CAAGGATACCACGTAAGACCATGTTAAGACATGGCA
1 CAAGGATACCATGTAAGACCATGCCAAGACATGGCA
63456111 ATGGTAAGTT
Statistics
Matches: 121, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
52 4 0.03
53 31 0.26
54 41 0.34
55 41 0.34
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (54 bp):
CAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGG
Found at i:63493492 original size:27 final size:27
Alignment explanation
Indices: 63493462--63493639 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
63493452 ATATTGAGTC
* * * *
63493462 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
63493489 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
63493516 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
63493544 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
63493571 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
63493598 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
63493625 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
63493640 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:63493601 original size:82 final size:81
Alignment explanation
Indices: 63493483--63493638 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
63493473 TGCTATATAA
* *
63493483 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
63493548 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
63493565 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
63493629 CACTTAGTGC
65 CACTTAGTGC
63493639 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:63494142 original size:12 final size:12
Alignment explanation
Indices: 63494125--63494150 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
63494115 ATGGCATACT
63494125 TATGTATATATA
1 TATGTATATATA
63494137 TATGTATATATA
1 TATGTATATATA
63494149 TA
1 TA
63494151 CTTCGGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:63501523 original size:27 final size:27
Alignment explanation
Indices: 63501493--63501670 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
63501483 ATATTGAGTC
* * * *
63501493 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
63501520 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
63501547 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
63501575 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
63501602 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
63501629 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
63501656 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
63501671 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:63501632 original size:82 final size:81
Alignment explanation
Indices: 63501514--63501669 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
63501504 TGCTATATAA
* *
63501514 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
63501579 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
63501596 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
63501660 CACTTAGTGC
65 CACTTAGTGC
63501670 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:63503647 original size:14 final size:14
Alignment explanation
Indices: 63503628--63503658 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
63503618 GAATTACATG
63503628 TTAGAATAGTATCA
1 TTAGAATAGTATCA
63503642 TTAGAATAGTATCA
1 TTAGAATAGTATCA
63503656 TTA
1 TTA
63503659 AAAAATGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.13, T:0.39
Consensus pattern (14 bp):
TTAGAATAGTATCA
Found at i:63508338 original size:30 final size:30
Alignment explanation
Indices: 63508302--63508362 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
63508292 CAATGCCATG
63508302 ATAAACAATTGGAGTGTATTCAATATTCTT
1 ATAAACAATTGGAGTGTATTCAATATTCTT
63508332 ATAAACAATTGGAGTGTATTCAATATTCTT
1 ATAAACAATTGGAGTGTATTCAATATTCTT
63508362 A
1 A
63508363 ATATGATGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.39
Consensus pattern (30 bp):
ATAAACAATTGGAGTGTATTCAATATTCTT
Found at i:63509316 original size:14 final size:15
Alignment explanation
Indices: 63509297--63509330 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
63509287 AAATCTAATT
63509297 TTTTTATAAT-TTTA
1 TTTTTATAATATTTA
63509311 TTTTTATAATATTTA
1 TTTTTATAATATTTA
63509326 TTTTT
1 TTTTT
63509331 TATTCTTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTTATAATATTTA
Found at i:63509332 original size:16 final size:15
Alignment explanation
Indices: 63509296--63509333 Score: 60
Period size: 14 Copynumber: 2.5 Consensus size: 15
63509286 AAAATCTAAT
63509296 TTTTTTATAATTTTA
1 TTTTTTATAATTTTA
63509311 -TTTTTATAATATTTA
1 TTTTTTATAAT-TTTA
63509326 TTTTTTAT
1 TTTTTTAT
63509334 TCTTCATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 10 0.48
15 4 0.19
16 7 0.33
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTTTATAATTTTA
Found at i:63514101 original size:18 final size:18
Alignment explanation
Indices: 63514080--63514125 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
63514070 AGGTGCAGAT
63514080 GAGGAAGAAGATACGATC
1 GAGGAAGAAGATACGATC
* *
63514098 GAGGAAAAAGATGCGATC
1 GAGGAAGAAGATACGATC
* *
63514116 AATGAAGAAG
1 GAGGAAGAAG
63514126 GGTGGCTGTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.48, C:0.09, G:0.33, T:0.11
Consensus pattern (18 bp):
GAGGAAGAAGATACGATC
Found at i:63516884 original size:16 final size:16
Alignment explanation
Indices: 63516863--63516893 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
63516853 GATATTTTAA
63516863 TATATTATATTAATAT
1 TATATTATATTAATAT
*
63516879 TATATTATGTTAATA
1 TATATTATATTAATA
63516894 AAATAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:63516990 original size:12 final size:12
Alignment explanation
Indices: 63516973--63517003 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
63516963 GAAGCAGGGG
63516973 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
63516985 AGAAAAAGGGAA
1 AGAAAAAGAGAA
63516997 AGAAAAA
1 AGAAAAA
63517004 TAAAAGAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:63531686 original size:73 final size:73
Alignment explanation
Indices: 63531567--63531791 Score: 441
Period size: 73 Copynumber: 3.1 Consensus size: 73
63531557 TTTTAGGGCA
*
63531567 TTGAGTAAGATTAAATTTGTCTCCTTTAGCAACAGGGGTGTTACTTGGTCTACAACCTAGCATGC
1 TTGAGTAAGATTAAATTTGTCTCCTCTAGCAACAGGGGTGTTACTTGGTCTACAACCTAGCATGC
63531632 CAAGCCTT
66 CAAGCCTT
63531640 TTGAGTAAGATTAAATTTGTCTCCTCTAGCAACAGGGGTGTTACTTGGTCTACAACCTAGCATGC
1 TTGAGTAAGATTAAATTTGTCTCCTCTAGCAACAGGGGTGTTACTTGGTCTACAACCTAGCATGC
63531705 CAAGCCTT
66 CAAGCCTT
63531713 TTGAGTAAGATTAAATTTGTCTCCTCTAGCAACAGGGGTGTTACTTGGTCTACAACCTAGCATGC
1 TTGAGTAAGATTAAATTTGTCTCCTCTAGCAACAGGGGTGTTACTTGGTCTACAACCTAGCATGC
63531778 CAAGCCTT
66 CAAGCCTT
63531786 TTGAGT
1 TTGAGT
63531792 GTTTTATTCA
Statistics
Matches: 151, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 151 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (73 bp):
TTGAGTAAGATTAAATTTGTCTCCTCTAGCAACAGGGGTGTTACTTGGTCTACAACCTAGCATGC
CAAGCCTT
Found at i:63532914 original size:24 final size:24
Alignment explanation
Indices: 63532887--63532984 Score: 142
Period size: 24 Copynumber: 4.0 Consensus size: 24
63532877 AAGGCTGTCA
63532887 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
63532911 GGAGAGGATTTAGAAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* * *
63532935 GGAGAGGATTTAAGAGCTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
63532959 GGAGAAGATTTAGGAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
63532984 G
1 G
63532985 AGCAGGAGTT
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
24 62 0.95
25 3 0.05
ACGTcount: A:0.38, C:0.05, G:0.37, T:0.20
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:63533832 original size:16 final size:18
Alignment explanation
Indices: 63533803--63533842 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 18
63533793 AGTTCGTTTC
63533803 GGTAGTAGATTAA-TGT-
1 GGTAGTAGATTAATTGTA
63533819 GGTAGTA-ATATAATTGTA
1 GGTAGTAGAT-TAATTGTA
63533837 GGTAGT
1 GGTAGT
63533843 TCATGTGTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 2 0.10
16 10 0.48
17 3 0.14
18 6 0.29
ACGTcount: A:0.33, C:0.00, G:0.30, T:0.38
Consensus pattern (18 bp):
GGTAGTAGATTAATTGTA
Found at i:63534616 original size:33 final size:34
Alignment explanation
Indices: 63534539--63534619 Score: 94
Period size: 33 Copynumber: 2.4 Consensus size: 34
63534529 TATGGGTCGT
*
63534539 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTT
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
* * **
63534573 AATGTAATCTGAA-AA-GGGCTCTGGCCCAGTATC
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGT-TC
63534606 ACTGTTATCTGAAT
1 ACTGTTATCTGAAT
63534620 GGGCTTAGGC
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
32 13 0.34
33 14 0.37
34 11 0.29
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (34 bp):
ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
Found at i:63534624 original size:32 final size:31
Alignment explanation
Indices: 63534539--63534631 Score: 78
Period size: 32 Copynumber: 2.8 Consensus size: 31
63534529 TATGGGTCGT
*
63534539 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTT
1 ACTGTTATCTGAAT---GGGCTAAGGCCCAGTTC
* * * **
63534573 AATGTAATCTGAAAAGGGCTCTGGCCCAGTATC
1 ACTGTTATCTG-AATGGGCTAAGGCCCAGT-TC
*
63534606 ACTGTTATCTGAATGGGCTTAGGCCC
1 ACTGTTATCTGAATGGGCTAAGGCCC
63534632 GATGGGCTTG
Statistics
Matches: 46, Mismatches: 11, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
32 25 0.54
33 10 0.22
34 9 0.20
35 2 0.04
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (31 bp):
ACTGTTATCTGAATGGGCTAAGGCCCAGTTC
Found at i:63537420 original size:40 final size:40
Alignment explanation
Indices: 63537366--63537950 Score: 920
Period size: 40 Copynumber: 14.6 Consensus size: 40
63537356 CATTTGAATG
63537366 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
63537406 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
63537446 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
63537486 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
63537526 ATATCCGGGATAAGACCCGAAGGCATTTGTACGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
63537566 ATATCCGGGCTAAGACCAGATGGCGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
63537606 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
63537646 ATATCCGGGATAAGACCCGAAGGCATTTGTACGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
63537686 ATATCCGGGCTAAGACCAGATGGCGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
63537726 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
63537766 ATATCCGGGATAAGACCCGAAGGCATTTGTACGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
63537806 ATATCCGGGCTAAGACCAGATGGCGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
63537846 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGAT
* * *
63537886 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
63537926 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
63537951 ATTGAGCTTG
Statistics
Matches: 496, Mismatches: 47, Indels: 4
0.91 0.09 0.01
Matches are distributed among these distances:
39 2 0.00
40 493 0.99
41 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:63544828 original size:24 final size:24
Alignment explanation
Indices: 63544801--63544874 Score: 121
Period size: 24 Copynumber: 3.0 Consensus size: 24
63544791 AAGGCTATCA
63544801 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
63544825 GGAGAGGATTTAGGAGCTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
63544849 GGAGAAGATTTAGGAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
63544874 G
1 G
63544875 AGCAGGAGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
24 42 0.93
25 3 0.07
ACGTcount: A:0.36, C:0.05, G:0.38, T:0.20
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:63546545 original size:83 final size:83
Alignment explanation
Indices: 63546406--63546570 Score: 321
Period size: 83 Copynumber: 2.0 Consensus size: 83
63546396 TGGAGTGTAG
63546406 CGATTGGTGGGTTGAGTAGTCTCCCCAGATGGGCTTGCATATGTTTATTGATGTTGCACGTATTT
1 CGATTGGTGGGTTGAGTAGTCTCCCCAGATGGGCTTGCATATGTTTATTGATGTTGCACGTATTT
63546471 TGAAATGGGCCTATGGGC
66 TGAAATGGGCCTATGGGC
*
63546489 CGATTGGTGGGTTGAGTAGTCTCCCCAGATGGGCTTGCATATGTTTATTGATGTTGCATGTATTT
1 CGATTGGTGGGTTGAGTAGTCTCCCCAGATGGGCTTGCATATGTTTATTGATGTTGCACGTATTT
63546554 TGAAATGGGCCTATGGG
66 TGAAATGGGCCTATGGG
63546571 TCGTACTGTT
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 81 1.00
ACGTcount: A:0.18, C:0.15, G:0.32, T:0.36
Consensus pattern (83 bp):
CGATTGGTGGGTTGAGTAGTCTCCCCAGATGGGCTTGCATATGTTTATTGATGTTGCACGTATTT
TGAAATGGGCCTATGGGC
Found at i:63546652 original size:33 final size:34
Alignment explanation
Indices: 63546575--63546655 Score: 94
Period size: 33 Copynumber: 2.4 Consensus size: 34
63546565 TATGGGTCGT
*
63546575 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTT
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
* * **
63546609 AATGTAATCTGAA-AA-GGGCTCTGGCCCAGTATC
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGT-TC
63546642 ACTGTTATCTGAAT
1 ACTGTTATCTGAAT
63546656 GGGGTTGGGC
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
32 13 0.34
33 14 0.37
34 11 0.29
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (34 bp):
ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
Found at i:63556713 original size:43 final size:43
Alignment explanation
Indices: 63556654--63556803 Score: 146
Period size: 43 Copynumber: 3.5 Consensus size: 43
63556644 CAATGCCGAC
* * * *
63556654 GTCCTAGACGTGGTCTTACATGTAATTCAATATCGATGCCTCT
1 GTCCCAGACATGGTCTTACACGTAATTCAATATCGATGCCTAT
* * *
63556697 GTCCCAGACAGGGTCTTACACG-AAATCAGATA-CGATGCCGAT
1 GTCCCAGACATGGTCTTACACGTAATTCA-ATATCGATGCCTAT
* * *
63556739 GTCCCAGACATGGTCTTAGACGTAAATCTC-A-ATCGAGGCCTGT
1 GTCCCAGACATGGTCTTACACGT-AAT-TCAATATCGATGCCTAT
*
63556782 GTCCCAGACATGGTCTCACACG
1 GTCCCAGACATGGTCTTACACG
63556804 ATGTCTCAGA
Statistics
Matches: 87, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
42 34 0.39
43 49 0.56
44 2 0.02
45 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGTAATTCAATATCGATGCCTAT
Found at i:63556789 original size:85 final size:85
Alignment explanation
Indices: 63556646--63556804 Score: 205
Period size: 85 Copynumber: 1.9 Consensus size: 85
63556636 AACAAGTACA
* * * *
63556646 ATGCCGACGTCCTAGACGTGGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAGACAGGGT
1 ATGCCGACGTCCCAGACATGGTCTTACACGTAATTCAATATCGAGGCCTCTGTCCCAGACAGGGT
*
63556711 CTTACACGAAATCAGATACG
66 CTCACACGAAATCAGATACG
* * * *
63556731 ATGCCGATGTCCCAGACATGGTCTTAGACGTAAATCTC-A-ATCGAGGCCTGTGTCCCAGACATG
1 ATGCCGACGTCCCAGACATGGTCTTACACGT-AAT-TCAATATCGAGGCCTCTGTCCCAGACAGG
63556794 GTCTCACACGA
64 GTCTCACACGA
63556805 TGTCTCAGAC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
85 57 0.90
86 4 0.06
87 2 0.03
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (85 bp):
ATGCCGACGTCCCAGACATGGTCTTACACGTAATTCAATATCGAGGCCTCTGTCCCAGACAGGGT
CTCACACGAAATCAGATACG
Found at i:63558909 original size:21 final size:21
Alignment explanation
Indices: 63558862--63558910 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
63558852 AGAGGGGAGT
* * *
63558862 CCACAACGAGGTTGTTCACAT
1 CCACAACGAGCTCGTTCACAA
* *
63558883 CTACAACGAGCTCGTTTACAA
1 CCACAACGAGCTCGTTCACAA
63558904 CCACAAC
1 CCACAAC
63558911 AAGGATGTTT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.33, G:0.14, T:0.20
Consensus pattern (21 bp):
CCACAACGAGCTCGTTCACAA
Found at i:63560047 original size:34 final size:34
Alignment explanation
Indices: 63560001--63560074 Score: 130
Period size: 34 Copynumber: 2.1 Consensus size: 34
63559991 CTTCTTGTGG
*
63560001 TAACAAGGAGTTTGAAAATTCATGTCTCGGAAGA
1 TAACAAGAAGTTTGAAAATTCATGTCTCGGAAGA
63560035 TAACAAGAAGTTTGAAAATTCATGTCTCGGAAGA
1 TAACAAGAAGTTTGAAAATTCATGTCTCGGAAGA
63560069 TGAACA
1 T-AACA
63560075 GCAACGGGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
34 34 0.89
35 4 0.11
ACGTcount: A:0.41, C:0.12, G:0.22, T:0.26
Consensus pattern (34 bp):
TAACAAGAAGTTTGAAAATTCATGTCTCGGAAGA
Found at i:63571338 original size:40 final size:40
Alignment explanation
Indices: 63571281--63571458 Score: 236
Period size: 40 Copynumber: 4.5 Consensus size: 40
63571271 CGGATGATAA
* *
63571281 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
63571321 CTGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
63571361 CCGGGCTAGGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
63571401 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
63571441 CC-GGCTAAATCCCAAAGG
1 CCGGGCTAAGTCCCGAAGG
63571459 TACTTGGTTT
Statistics
Matches: 123, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
39 16 0.13
40 106 0.86
41 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:63573493 original size:43 final size:43
Alignment explanation
Indices: 63573430--63573648 Score: 366
Period size: 43 Copynumber: 5.1 Consensus size: 43
63573420 ACATATCATT
* *
63573430 TCACCGGCATTACGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
63573473 TTACCGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
63573516 TCACCGGCATGAAGCCTGCTAAGCACGAAGGCCCAAATACACA
1 TCACCGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
63573559 TCACTGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
63573602 TCACCGGCATGAAGCCTGCTAAGCACGAAGGCCCAAATACACA
1 TCACCGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
63573645 TCAC
1 TCAC
63573649 TTTGCCATTA
Statistics
Matches: 164, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 164 1.00
ACGTcount: A:0.32, C:0.32, G:0.23, T:0.13
Consensus pattern (43 bp):
TCACCGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
Found at i:63573822 original size:43 final size:43
Alignment explanation
Indices: 63573770--63573881 Score: 188
Period size: 43 Copynumber: 2.6 Consensus size: 43
63573760 CCGGCATTAC
*
63573770 GCCTGCTAGGCACGAAGGCCCGAATACACATCATCGGCACAAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAAA
* **
63573813 GCCTGCTAGGCATGAAGGCCCGAATACACATCACCGGCATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAAA
63573856 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
63573882 TAATACCAGC
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 64 1.00
ACGTcount: A:0.30, C:0.31, G:0.26, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAAA
Found at i:63573922 original size:38 final size:38
Alignment explanation
Indices: 63573874--63573997 Score: 122
Period size: 38 Copynumber: 3.2 Consensus size: 38
63573864 GGCACGAAGG
* * * *
63573874 CCCGAATATAATACCAGCACTAGGCCTGCGAGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGAGATTTAA
* *
63573912 CCCGGATATAATTCCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGAGATTTAA
** * * * *
63573950 CCCGGATATTTTGCCAGCACGAAGCTTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGAG-ATTTAA
63573989 GCCCGGATA
1 -CCCGGATA
63573998 CACATCAAAT
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
38 60 0.82
39 5 0.07
40 8 0.11
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGAGATTTAA
Found at i:63575977 original size:42 final size:41
Alignment explanation
Indices: 63575890--63576038 Score: 126
Period size: 41 Copynumber: 3.6 Consensus size: 41
63575880 AGCTTGGTCT
* *
63575890 CGAAGGGCTTTTGAGCCAGTGCTAATAATCGAACTTAGTTT
1 CGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTC
* * *
63575931 CGAAGGGCTTTTTAGAGCTAGTG-TCATAACCGGACTTAGTTC
1 CGAAGGGC-TTTT-GAGCCAGTGCTAATAACCGAACTTAGTTC
* * * *
63575973 CGAAGGGCCTTCGAGCCAGTAGTCTAAT--CCGAGCTT-GGTC
1 CGAAGGGCTTTTGAGCCAGT-G-CTAATAACCGAACTTAGTTC
**
63576013 TCGAAGGGCTTTTGAGCTGGTGCTAA
1 -CGAAGGGCTTTTGAGCCAGTGCTAA
63576039 GAGTCGGACT
Statistics
Matches: 86, Mismatches: 16, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
39 4 0.05
40 11 0.13
41 33 0.38
42 27 0.31
43 11 0.13
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (41 bp):
CGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTC
Found at i:63576021 original size:41 final size:40
Alignment explanation
Indices: 63575869--63576029 Score: 123
Period size: 41 Copynumber: 3.9 Consensus size: 40
63575859 GCTAATCGGG
* *
63575869 GTCTAAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGT
1 GTCT-AATCCGAGCTTAGTCTCGAAGGGCTTTAGAGCCAGT
* * * *
63575910 G-CTAATAATCGAACTTAGTTTCGAAGGGCTTTTTAGAGCTAGT
1 GTCTAAT--CCGAGCTTAGTCTCGAAGGGC--TTTAGAGCCAGT
* *
63575953 GTCATAA-CCG-GACTTAGT-TCCGAAGGGCCTTCGAGCCAGT
1 GTC-TAATCCGAG-CTTAGTCT-CGAAGGGCTTTAGAGCCAGT
* *
63575993 AGTCTAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGC
1 -GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTAGAGC
63576030 TGGTGCTAAG
Statistics
Matches: 94, Mismatches: 14, Indels: 24
0.71 0.11 0.18
Matches are distributed among these distances:
39 3 0.03
40 14 0.15
41 44 0.47
42 18 0.19
43 11 0.12
44 1 0.01
45 3 0.03
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.29
Consensus pattern (40 bp):
GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTAGAGCCAGT
Found at i:63582917 original size:43 final size:43
Alignment explanation
Indices: 63582870--63582980 Score: 111
Period size: 41 Copynumber: 2.6 Consensus size: 43
63582860 TCCCTGACGT
63582870 GGTCTTACATGTAATCACATATCGATGCC-ACTATCCCAAACAA
1 GGTCTTACATGTAATCACATATCGATGCCGA-TATCCCAAACAA
* * * * * *
63582913 GGTCTTACGTG-AATCAAATA-CGATGCCGATGTTCCAGACAT
1 GGTCTTACATGTAATCACATATCGATGCCGATATCCCAAACAA
* *
63582954 GGTCTTACACGTAAATCACAAATCGAT
1 GGTCTTACATGT-AATCACATATCGAT
63582981 ACCAACGTCG
Statistics
Matches: 54, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
41 24 0.44
42 9 0.17
43 17 0.31
44 4 0.07
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.26
Consensus pattern (43 bp):
GGTCTTACATGTAATCACATATCGATGCCGATATCCCAAACAA
Found at i:63586780 original size:46 final size:46
Alignment explanation
Indices: 63586679--63586766 Score: 140
Period size: 46 Copynumber: 1.9 Consensus size: 46
63586669 TGTAACCCGC
* * *
63586679 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCCCAT
*
63586725 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTC
63586767 AACCATCCTA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCCCAT
Found at i:63588069 original size:41 final size:41
Alignment explanation
Indices: 63588011--63588092 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
63588001 TGTGGTCACG
*
63588011 AAACCACTATTCTGATTAGGCCCTAATTCGGGATATTACAA
1 AAACCACTATTCCGATTAGGCCCTAATTCGGGATATTACAA
63588052 AAACCACTATTCCGATTAGGCCCTAATTCGGGATATTACAA
1 AAACCACTATTCCGATTAGGCCCTAATTCGGGATATTACAA
63588093 CTCTCCCCCC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (41 bp):
AAACCACTATTCCGATTAGGCCCTAATTCGGGATATTACAA
Found at i:63596032 original size:27 final size:27
Alignment explanation
Indices: 63596002--63596065 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 27
63595992 ATGTTTTATT
*
63596002 TTAATGCAT-GCATTTAATATGTCTTAG
1 TTAATACATAGCA-TTAATATGTCTTAG
* *
63596029 TTAATACATATCATTAATTTGTCTTAG
1 TTAATACATAGCATTAATATGTCTTAG
*
63596056 CTTATTACAT
1 -TTAATACAT
63596066 GATTTTAACG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 21 0.68
28 10 0.32
ACGTcount: A:0.31, C:0.12, G:0.09, T:0.47
Consensus pattern (27 bp):
TTAATACATAGCATTAATATGTCTTAG
Found at i:63596073 original size:28 final size:27
Alignment explanation
Indices: 63596014--63596073 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
63596004 AATGCATGCA
63596014 TTTAATATGTCTTAGTTAATACATATC
1 TTTAATATGTCTTAGTTAATACATATC
* * *
63596041 ATTAATTTGTCTTAGCTTATTACATGAT-
1 TTTAATATGTCTTAG-TTAATACAT-ATC
63596069 TTTAA
1 TTTAA
63596074 CGTGTTTTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
27 13 0.48
28 12 0.44
29 2 0.07
ACGTcount: A:0.32, C:0.10, G:0.08, T:0.50
Consensus pattern (27 bp):
TTTAATATGTCTTAGTTAATACATATC
Found at i:63599351 original size:25 final size:24
Alignment explanation
Indices: 63599323--63599382 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 24
63599313 TCTGTGGAAC
63599323 AAATGAGAGAAAAAGAAAAGA-GTAA
1 AAATGAGAGAAAAAG-AAAGATG-AA
* *
63599348 AAATGTGAAGGAAAAGAAAGATGAA
1 AAATGAG-AGAAAAAGAAAGATGAA
63599373 AAATCGAGAG
1 AAAT-GAGAG
63599383 GGAAGATCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
25 19 0.66
26 10 0.34
ACGTcount: A:0.62, C:0.02, G:0.27, T:0.10
Consensus pattern (24 bp):
AAATGAGAGAAAAAGAAAGATGAA
Found at i:63601057 original size:28 final size:28
Alignment explanation
Indices: 63600997--63601069 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
63600987 TAATGCATGC
63600997 ATTTAATATGTCTTAG-TTAATACATAT
1 ATTTAATATGTCTTAGCTTAATACATAT
* * *
63601024 AATTAATTTGTCTTAGCTTATTACATA-
1 ATTTAATATGTCTTAGCTTAATACATAT
* *
63601051 ATTTTAATGTGTTTTAGCT
1 A-TTTAATATGTCTTAGCT
63601070 CCAACCGAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
27 15 0.39
28 23 0.61
ACGTcount: A:0.32, C:0.08, G:0.10, T:0.51
Consensus pattern (28 bp):
ATTTAATATGTCTTAGCTTAATACATAT
Found at i:63603688 original size:80 final size:79
Alignment explanation
Indices: 63603604--63603772 Score: 187
Period size: 79 Copynumber: 2.1 Consensus size: 79
63603594 CTAAGATCCG
* *
63603604 AAGGCTTTTGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 AAGGCATTTGTGCGAGATGACAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* *
63603668 TCCGGGTTAAGTCCCA
64 ACCGGGCTAAGTCCCA
* * ** * * * *
63603684 AAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAAC
1 AAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAAAC
* *
63603749 CGGGCTATGTCCCG
66 CGGGCTAAGTCCCA
63603763 AAGGCATTTG
1 AAGGCATTTG
63603773 AACGAGGAGC
Statistics
Matches: 73, Mismatches: 15, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
79 37 0.51
80 33 0.45
81 3 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (79 bp):
AAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAAAC
CGGGCTAAGTCCCA
Found at i:63603752 original size:39 final size:39
Alignment explanation
Indices: 63603548--63603770 Score: 189
Period size: 40 Copynumber: 5.6 Consensus size: 39
63603538 TTGAATGCTG
* * * * * *
63603548 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
63603588 TCCGGACTAAGAT-CCGAAGGCTTTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGC-ATTGTGCGAGTTACTAAA
* * *
63603627 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
* **
63603668 TCCGGGTTAAGTCCCAAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* *
63603708 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
63603747 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
63603771 TGAACGAGGA
Statistics
Matches: 154, Mismatches: 22, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
39 39 0.25
40 103 0.67
41 12 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:63603790 original size:79 final size:80
Alignment explanation
Indices: 63603628--63603805 Score: 189
Period size: 79 Copynumber: 2.2 Consensus size: 80
63603618 AGATACAAAT
* * * *
63603628 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCAAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCAAAGGCATTC
** ** *
63603693 GTGCGAGTTGTTAAA
66 GAACGAGGAGCTAAA
* * * * * *
63603708 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCAAAGGCATTC
*
63603772 GAACGAGGAGCTATA
66 GAACGAGGAGCTAAA
*
63603787 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
63603806 TACGTGATTT
Statistics
Matches: 80, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
78 14 0.17
79 48 0.60
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCAAAGGCATTC
GAACGAGGAGCTAAA
Found at i:63605949 original size:20 final size:21
Alignment explanation
Indices: 63605911--63605949 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
63605901 TTTAAAGCAC
63605911 ATTTATTCATAAAAATTCAAA
1 ATTTATTCATAAAAATTCAAA
* *
63605932 ATTT-TTCATCAAATTTCA
1 ATTTATTCATAAAAATTCA
63605950 CAACTTTACA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.44
Consensus pattern (21 bp):
ATTTATTCATAAAAATTCAAA
Found at i:63613836 original size:27 final size:26
Alignment explanation
Indices: 63613780--63613836 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
63613770 CAACCTTAAC
* *
63613780 CCTAGGGGTATATCAGTAATTTTGCT
1 CCTAGGGGTAAATCAGTAATTTTGCA
* *
63613806 CCTAGGGGTAAATCTGTAAATTTTTCA
1 CCTAGGGGTAAATCAGT-AATTTTGCA
63613833 CCTA
1 CCTA
63613837 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTGCA
Found at i:63615094 original size:15 final size:16
Alignment explanation
Indices: 63615053--63615101 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
63615043 GGCTATGGGG
63615053 GAAAAGAAGAAGAGAAA
1 GAAAAGAAGAAGA-AAA
* *
63615070 GTAGATGAAG-AGAAAA
1 G-AAAAGAAGAAGAAAA
63615086 GAAAAGAAGAAGAAAA
1 GAAAAGAAGAAGAAAA
63615102 AACTAAATCC
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
15 6 0.23
16 10 0.38
17 4 0.15
18 6 0.23
ACGTcount: A:0.67, C:0.00, G:0.29, T:0.04
Consensus pattern (16 bp):
GAAAAGAAGAAGAAAA
Found at i:63616061 original size:27 final size:25
Alignment explanation
Indices: 63616031--63616096 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
63616021 ATTATTTTCC
*
63616031 TATCTAATAATAATAATTTTATAAATA
1 TATCTAATAATAA-AAATTTA-AAATA
*
63616058 TATCTAATCATAAAAATTTAAAATA
1 TATCTAATAATAAAAATTTAAAATA
*
63616083 T-CCGTAATAATAAA
1 TATC-TAATAATAAA
63616097 TACAGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
24 1 0.03
25 15 0.44
26 6 0.18
27 12 0.35
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.38
Consensus pattern (25 bp):
TATCTAATAATAAAAATTTAAAATA
Found at i:63631341 original size:15 final size:16
Alignment explanation
Indices: 63631323--63631354 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
63631313 AGATGAAGAG
63631323 AAAAGAA-AAGAAAAA
1 AAAAGAAGAAGAAAAA
63631338 AAAAGAAGAAGAAAAA
1 AAAAGAAGAAGAAAAA
63631354 A
1 A
63631355 CTGAATCCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAAGAAGAAGAAAAA
Found at i:63631346 original size:13 final size:14
Alignment explanation
Indices: 63631295--63631354 Score: 52
Period size: 15 Copynumber: 4.2 Consensus size: 14
63631285 GCTATGGGGG
63631295 AAAAGAAGAAGAGAA
1 AAAAGAAGAAGA-AA
** *
63631310 AGTAGATGAAGAGAA
1 AAAAGAAGAAGA-AA
63631325 AAGAA-AAGAA-AAA
1 AA-AAGAAGAAGAAA
63631338 AAAAGAAGAAGAAA
1 AAAAGAAGAAGAAA
63631352 AAA
1 AAA
63631355 CTGAATCCTA
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
12 2 0.06
13 9 0.25
14 7 0.19
15 17 0.47
16 1 0.03
ACGTcount: A:0.73, C:0.00, G:0.23, T:0.03
Consensus pattern (14 bp):
AAAAGAAGAAGAAA
Found at i:63636055 original size:40 final size:40
Alignment explanation
Indices: 63636009--63636175 Score: 246
Period size: 40 Copynumber: 4.2 Consensus size: 40
63635999 CCCGGATGTC
*
63636009 ATTCCAGCACAAAGCCTGCGGGTCTTTAAGCCAGGATACA
1 ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCAGGATACA
*
63636049 ATTCCAGTACGAAGCCTGCGGGTCTTTAAGCCCA-GATACA
1 ATTCCAGCACGAAGCCTGCGGGTCTTTAAG-CCAGGATACA
* * * *
63636089 ATTTCCAGCATGAAGCCTGTGGGTCTTTAAGCCCGGATACG
1 A-TTCCAGCACGAAGCCTGCGGGTCTTTAAGCCAGGATACA
*
63636130 ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACA
1 ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCAGGATACA
63636170 ATTCCA
1 ATTCCA
63636176 CATCAAATAA
Statistics
Matches: 114, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
40 79 0.69
41 35 0.31
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCAGGATACA
Found at i:63636145 original size:81 final size:81
Alignment explanation
Indices: 63636010--63636172 Score: 263
Period size: 81 Copynumber: 2.0 Consensus size: 81
63636000 CCGGATGTCA
*
63636010 TTCCAGCACAAAGCCTGCGGGTCTTTAAGCCAGGATACAATTCCAGTACGAAGCCTGCGGGTCTT
1 TTCCAGCACAAAGCCTGCGGGTCTTTAAGCCAGGATACAATTCCAGCACGAAGCCTGCGGGTCTT
63636075 TAAGCCCAGATACAAT
66 TAAGCCCAGATACAAT
** * * *
63636091 TTCCAGCATGAAGCCTGTGGGTCTTTAAGCCCGGATACGATTCCAGCACGAAGCCTGCGGGTCTT
1 TTCCAGCACAAAGCCTGCGGGTCTTTAAGCCAGGATACAATTCCAGCACGAAGCCTGCGGGTCTT
*
63636156 TAAGCCCGGATACAAT
66 TAAGCCCAGATACAAT
63636172 T
1 T
63636173 CCACATCAAA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 75 1.00
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.23
Consensus pattern (81 bp):
TTCCAGCACAAAGCCTGCGGGTCTTTAAGCCAGGATACAATTCCAGCACGAAGCCTGCGGGTCTT
TAAGCCCAGATACAAT
Found at i:63646701 original size:40 final size:40
Alignment explanation
Indices: 63646669--63646898 Score: 336
Period size: 40 Copynumber: 5.8 Consensus size: 40
63646659 GGATATAGCT
* *
63646669 ACTCGCTCAAATGCCTTCTGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
**
63646709 GTTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
63646749 ACTCGCACAAATGCCTTTGGGACTTAGCCCAGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* * *
63646789 ACTCACACAAATGCCTTCAGGACTTAGCCTGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
63646829 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
63646869 ACTAGCACAGATGCCTTCGGGACTTAGCCC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCC
63646899 CGTTATCATC
Statistics
Matches: 170, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 168 0.99
41 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:63654624 original size:40 final size:40
Alignment explanation
Indices: 63654595--63654897 Score: 455
Period size: 40 Copynumber: 7.6 Consensus size: 40
63654585 GCTACTCTCT
**
63654595 CAAATGCCTTCGGGACTTAGCCCGG-ATATAGTAGTTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
63654635 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
63654675 CAAATGCCTTTGGGACTTAGCCCGGAATTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
63654715 CAAATGCCTTTGGGACTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
63654755 CAAATGCCTTCGGGACTTAGCCCGAAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
63654795 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * * *
63654835 CAGATGCCTTCGAGACTTAGCCCAGAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
63654875 CAGATGTCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
63654898 CGTTATCATC
Statistics
Matches: 247, Mismatches: 15, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
40 245 0.99
41 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:63658210 original size:46 final size:46
Alignment explanation
Indices: 63658157--63658292 Score: 184
Period size: 46 Copynumber: 3.0 Consensus size: 46
63658147 ATATATACAA
* * * *
63658157 ATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATCC
1 ATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATCC
* * * *
63658203 ATCTCATACACGTTTCGCATTAGCCATTCGGCTTTATCTCATATCT
1 ATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATCC
63658249 ATCTCATACACATTTCGCATTAGCCATTCGGCCTTT-CCACATAT
1 ATCTCATACACATTTCGCATTAGCCATTCGG-CTTTACCACATAT
63658293 ATACATGTTC
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
46 74 0.95
47 4 0.05
ACGTcount: A:0.25, C:0.30, G:0.09, T:0.36
Consensus pattern (46 bp):
ATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATCC
Found at i:63658327 original size:47 final size:47
Alignment explanation
Indices: 63658266--63658457 Score: 278
Period size: 47 Copynumber: 4.1 Consensus size: 47
63658256 ACACATTTCG
* *
63658266 CATTAGCCATTCGGCCTT-TCCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTAT-CACATATATGCATGTTCACATTCATCA
* * *
63658313 CATCGGCCCTTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
63658360 CATTGGCCATTCGGCCTTATCGCACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
63658407 CATTGGCCATTCGGCCTTATCACACATACGCATATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
63658454 CATT
1 CATT
63658458 AAAATCCTAA
Statistics
Matches: 132, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
47 131 0.99
48 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.11, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:63658429 original size:22 final size:22
Alignment explanation
Indices: 63658356--63658430 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
63658346 GTTCACATTC
63658356 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
63658378 ATCGCACATAT-G-CATGTTC-ACATT
1 AT--CACAT-TGGCCA--TTCGGCCTT
63658402 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
63658425 ATCACA
1 ATCACA
63658431 CATACGCATA
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 12 0.30
23 11 0.28
24 11 0.28
25 6 0.15
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.31
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:63669747 original size:25 final size:26
Alignment explanation
Indices: 63669704--63669757 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
63669694 CAAGGCATAT
* *
63669704 AATTCATGATAGCAATTAAGCATTTA
1 AATTCATGATAACAATTAAGCATTAA
*
63669730 AATTCAT-ATAACATTTAAGCATTAA
1 AATTCATGATAACAATTAAGCATTAA
63669755 AAT
1 AAT
63669758 ATGTAACACA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 18 0.72
26 7 0.28
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.35
Consensus pattern (26 bp):
AATTCATGATAACAATTAAGCATTAA
Found at i:63671614 original size:27 final size:27
Alignment explanation
Indices: 63671584--63671639 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
63671574 AGTTTCGCAA
*
63671584 AGAAAACCTCGCTTTAACATTTAATAT
1 AGAAAACCTCACTTTAACATTTAATAT
63671611 AGAAAACCTCACTTTAACATTTAATAT
1 AGAAAACCTCACTTTAACATTTAATAT
63671638 AG
1 AG
63671640 CTATAACTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (27 bp):
AGAAAACCTCACTTTAACATTTAATAT
Found at i:63676398 original size:24 final size:26
Alignment explanation
Indices: 63676348--63676401 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
63676338 CAAGGCATAT
*
63676348 AATTCATGATAGCAATTAAGCATTTA
1 AATTCATGATAACAATTAAGCATTTA
*
63676374 AATTCAT-ATAAC-ATTAAAGCATTAA
1 AATTCATGATAACAATT-AAGCATTTA
63676399 AAT
1 AAT
63676402 ATGTAACACA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 3 0.12
25 15 0.60
26 7 0.28
ACGTcount: A:0.48, C:0.11, G:0.07, T:0.33
Consensus pattern (26 bp):
AATTCATGATAACAATTAAGCATTTA
Found at i:63677581 original size:65 final size:65
Alignment explanation
Indices: 63677457--63677586 Score: 172
Period size: 65 Copynumber: 2.0 Consensus size: 65
63677447 AAAAGTGAAT
** * *
63677457 TTTATTACGTCGGATTTGTGGTCTCGAAACTACTATTTCAACTAGGCCCAAAATCGGGATGTTAC
1 TTTATTACGTCAAATTTGTGGTCTCGAAACCACTATTTCAACTAGACCCAAAATCGGGATGTTAC
* * * *
63677522 TTTATTACGTCAAATTTGTGGTCTCGAAACCACT-GTTCTAGCTAGACCCTAAATTGGGATGTTA
1 TTTATTACGTCAAATTTGTGGTCTCGAAACCACTATTTC-AACTAGACCCAAAATCGGGATGTTA
63677586 C
65 C
63677587 ATTTTGGGAC
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
64 3 0.05
65 53 0.95
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (65 bp):
TTTATTACGTCAAATTTGTGGTCTCGAAACCACTATTTCAACTAGACCCAAAATCGGGATGTTAC
Found at i:63700608 original size:29 final size:29
Alignment explanation
Indices: 63700569--63700647 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
63700559 CTTAATAATC
*
63700569 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
63700599 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
63700628 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
63700648 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:63708215 original size:25 final size:25
Alignment explanation
Indices: 63708187--63708235 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
63708177 TCTATTCATG
63708187 GTAACTTGGCATGTGAAATGGGTAA
1 GTAACTTGGCATGTGAAATGGGTAA
63708212 GTAACTTGGCATGTGAAATGGGTA
1 GTAACTTGGCATGTGAAATGGGTA
63708236 TACTTTAGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.31, C:0.08, G:0.33, T:0.29
Consensus pattern (25 bp):
GTAACTTGGCATGTGAAATGGGTAA
Found at i:63709062 original size:48 final size:48
Alignment explanation
Indices: 63708991--63709111 Score: 156
Period size: 48 Copynumber: 2.5 Consensus size: 48
63708981 GATTAATAAG
* **
63708991 AGCCAATGTAAGACCATGTCTGGGACATGGCATCAGTGTTGATA-TGAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGATACTG-T
*
63709039 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATACGTGT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGATAC-TGT
* *
63709088 -GCAAGTGTAAGACCATATCTGGGA
1 AGCCAGTGTAAGACCATGTCTGGGA
63709112 TATAGCGTCG
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
48 62 0.95
49 1 0.02
50 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (48 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGATACTGT
Found at i:63709193 original size:42 final size:42
Alignment explanation
Indices: 63709129--63709253 Score: 142
Period size: 42 Copynumber: 3.0 Consensus size: 42
63709119 TCGGCCTCGG
* * * * *
63709129 TATGTGATTTCATGCAAGACCATATCTGGGATACGACATTGA
1 TATGAGATTTCATGTAAGACCATGTCTGGGACACGACATCGA
* *
63709171 TATGAGATTTCATGTAAGACCATGTCTGGGACATGGCATCGA
1 TATGAGATTTCATGTAAGACCATGTCTGGGACACGACATCGA
* * ** *
63709213 TGTGAGGTCCCATGTAAGACCATGTCTGGGACATGACATCG
1 TATGAGATTTCATGTAAGACCATGTCTGGGACACGACATCG
63709254 GCACCGACGT
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (42 bp):
TATGAGATTTCATGTAAGACCATGTCTGGGACACGACATCGA
Found at i:63709267 original size:90 final size:90
Alignment explanation
Indices: 63709173--63709337 Score: 215
Period size: 90 Copynumber: 1.8 Consensus size: 90
63709163 GACATTGATA
* * * * * **
63709173 TGAGATTTCATGTAAGACCATGTCTGGGACATGGCATCGATGTG-AGGTCCCATGTAAGACCATG
1 TGAGATTTCATATAAGACCATATCTAGGACATGGCATCAATATGTA-AACCCATGTAAGACCATG
63709237 TCTGGGACATGACATCGGCACCGACG
65 TCTGGGACATGACATCGGCACCGACG
* * *
63709263 TGAGATTTCGTATAAGACCGTATCTAGGATATGGCATCAATATGTAAACCCATGTAAGACCATGT
1 TGAGATTTCATATAAGACCATATCTAGGACATGGCATCAATATGTAAACCCATGTAAGACCATGT
*
63709328 TTGGGACATG
66 CTGGGACATG
63709338 GCTTTGAAAT
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
90 62 0.98
91 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (90 bp):
TGAGATTTCATATAAGACCATATCTAGGACATGGCATCAATATGTAAACCCATGTAAGACCATGT
CTGGGACATGACATCGGCACCGACG
Found at i:63712827 original size:33 final size:33
Alignment explanation
Indices: 63712780--63712847 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
63712770 ATGGACAATA
* **
63712780 ATAAGGCTATTTACCAAGCCATCTGCCACCCTT
1 ATAAGGCTACTTACCAAGCCATCCACCACCCTT
63712813 ATAAGGCTACTTACCAAGCCATCCACCACCCTT
1 ATAAGGCTACTTACCAAGCCATCCACCACCCTT
63712846 AT
1 AT
63712848 TCACACATAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.29, C:0.35, G:0.10, T:0.25
Consensus pattern (33 bp):
ATAAGGCTACTTACCAAGCCATCCACCACCCTT
Found at i:63723097 original size:16 final size:17
Alignment explanation
Indices: 63723055--63723100 Score: 64
Period size: 16 Copynumber: 2.9 Consensus size: 17
63723045 AATATTATTT
63723055 ATTAAATTAA-TTTC-A
1 ATTAAATTAATTTTCTA
63723070 A-TAAATTAATTTTCTA
1 ATTAAATTAATTTTCTA
63723086 ATTAAA-TAATTTTCT
1 ATTAAATTAATTTTCT
63723101 CAACCCAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
14 8 0.29
15 5 0.18
16 11 0.39
17 4 0.14
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTAAATTAATTTTCTA
Found at i:63724166 original size:184 final size:184
Alignment explanation
Indices: 63723857--63724225 Score: 720
Period size: 184 Copynumber: 2.0 Consensus size: 184
63723847 AACTAGGGTT
63723857 TCAGTTCCTCCCCTATAAATAGATGACACCGATGGGGCTAAAAATACAACAAGTTATATACAACT
1 TCAGTTCCTCCCCTATAAATAGATGACACCGATGGGGCTAAAAATACAACAAGTTATATACAACT
63723922 TTGAGATATTATTATTTTGCCCGAAAATAGTGATAATTTATTTCTAAGTATAAATTTTATTTTCT
66 TTGAGATATTATTATTTTGCCCGAAAATAGTGATAATTTATTTCTAAGTATAAATTTTATTTTCT
*
63723987 AGGAATATTAATTCTATCAGTTTCTATAAGAGAGAGATTTACTTTCCTACAAAG
131 AGGAATATTAATTCTATCAGTTTCTATAAAAGAGAGATTTACTTTCCTACAAAG
*
63724041 TCAGTTCCTCCCCTATAAATAGATGACACCGGTGGGGCTAAAAATACAACAAGTTATATACAACT
1 TCAGTTCCTCCCCTATAAATAGATGACACCGATGGGGCTAAAAATACAACAAGTTATATACAACT
63724106 TTGAGATATTATTATTTTGCCCGAAAATAGTGATAATTTATTTCTAAGTATAAATTTTATTTTCT
66 TTGAGATATTATTATTTTGCCCGAAAATAGTGATAATTTATTTCTAAGTATAAATTTTATTTTCT
63724171 AGGAATATTAATTCTATCAGTTTCTATAAAAGAGAGATTTACTTTCCTACAAAG
131 AGGAATATTAATTCTATCAGTTTCTATAAAAGAGAGATTTACTTTCCTACAAAG
63724225 T
1 T
63724226 AAGAATTTTA
Statistics
Matches: 183, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
184 183 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.37
Consensus pattern (184 bp):
TCAGTTCCTCCCCTATAAATAGATGACACCGATGGGGCTAAAAATACAACAAGTTATATACAACT
TTGAGATATTATTATTTTGCCCGAAAATAGTGATAATTTATTTCTAAGTATAAATTTTATTTTCT
AGGAATATTAATTCTATCAGTTTCTATAAAAGAGAGATTTACTTTCCTACAAAG
Found at i:63731493 original size:21 final size:22
Alignment explanation
Indices: 63731468--63731522 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
63731458 AATTTGGTAG
63731468 CTTTTGATATAATTTTAATAA-
1 CTTTTGATATAATTTTAATAAC
* * *
63731489 CTTTTAATATGATTTTTATAAC
1 CTTTTGATATAATTTTAATAAC
*
63731511 CCTTTGATATAA
1 CTTTTGATATAA
63731523 AGTGTGTCGA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 18 0.67
22 9 0.33
ACGTcount: A:0.35, C:0.09, G:0.05, T:0.51
Consensus pattern (22 bp):
CTTTTGATATAATTTTAATAAC
Found at i:63732256 original size:21 final size:21
Alignment explanation
Indices: 63732226--63732277 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
63732216 AATAGTAATT
* *
63732226 AATAGAAATAATTAATAAAAC
1 AATAGTAATAATAAATAAAAC
* *
63732247 AATAGTAATAATAAATACAAT
1 AATAGTAATAATAAATAAAAC
63732268 AAT-GTAATAA
1 AATAGTAATAA
63732278 ACATTGTGCT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 7 0.26
21 20 0.74
ACGTcount: A:0.63, C:0.04, G:0.06, T:0.27
Consensus pattern (21 bp):
AATAGTAATAATAAATAAAAC
Found at i:63733082 original size:37 final size:37
Alignment explanation
Indices: 63733029--63733103 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
63733019 GATGGAGGTA
63733029 GTGGGGGCGATAGAGGTAGTGGATGGTTTAGTAGGGT
1 GTGGGGGCGATAGAGGTAGTGGATGGTTTAGTAGGGT
* *
63733066 GTGGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
1 GTGGGGGCGATAGAGGTAGTGGATGGTTTAGTAGGGT
63733103 G
1 G
63733104 ATGGAGTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.17, C:0.01, G:0.53, T:0.28
Consensus pattern (37 bp):
GTGGGGGCGATAGAGGTAGTGGATGGTTTAGTAGGGT
Found at i:63733103 original size:29 final size:29
Alignment explanation
Indices: 63733070--63733132 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
63733060 TAGGGTGTGG
*
63733070 GGGTGATGGAGGTAGTGGAT-GGTTTAGTA
1 GGGTGATGGAGGTAATGG-TCGGTTTAGTA
* *
63733099 GGGTGATGGAGTTAATGGTCGGTTTAGTG
1 GGGTGATGGAGGTAATGGTCGGTTTAGTA
63733128 GGGTG
1 GGGTG
63733133 TTTAATTTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 1 0.03
29 29 0.97
ACGTcount: A:0.17, C:0.02, G:0.49, T:0.32
Consensus pattern (29 bp):
GGGTGATGGAGGTAATGGTCGGTTTAGTA
Done.