Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 121 of 150
Found at i:37208492 original size:47 final size:48
Alignment explanation
Indices: 37208439--37208529 Score: 123
Period size: 47 Copynumber: 1.9 Consensus size: 48
37208429 TAAAAATTAG
* *
37208439 AAAAATTATTAAATTTTAATAAAAAT-ATGAAAAAATTAA-AATTTATT
1 AAAAATTA-GAAATTTTAATAAAAATCATAAAAAAATTAACAATTTATT
* *
37208486 AAAAATTAGAATTTTTTATAAAAATCATAAAAAAATTAACAATT
1 AAAAATTAGAAATTTTAATAAAAATCATAAAAAAATTAACAATT
37208530 GTAAAATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
46 14 0.37
47 20 0.53
48 4 0.11
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (48 bp):
AAAAATTAGAAATTTTAATAAAAATCATAAAAAAATTAACAATTTATT
Found at i:37208756 original size:9 final size:9
Alignment explanation
Indices: 37208742--37208856 Score: 52
Period size: 9 Copynumber: 12.3 Consensus size: 9
37208732 TTTATAAAAA
37208742 TTTATATTT
1 TTTATATTT
37208751 TTTATA-TT
1 TTTATATTT
** *
37208759 TCCATATAT
1 TTTATATTT
37208768 TTTATATTT
1 TTTATATTT
* *
37208777 TTTTTACGATT
1 TTTATA--TTT
**
37208788 TTTATAAAAT
1 TTTAT-ATTT
*
37208798 TTTACAATTTT
1 TTTA-TA-TTT
37208809 TTTATATTT
1 TTTATATTT
***
37208818 TTTACGGTT
1 TTTATATTT
37208827 TTTATATTT
1 TTTATATTT
***
37208836 TTTACGGTT
1 TTTATATTT
37208845 TTTATATTT
1 TTTATATTT
37208854 TTT
1 TTT
37208857 TCTAATTTTT
Statistics
Matches: 74, Mismatches: 26, Indels: 12
0.66 0.23 0.11
Matches are distributed among these distances:
8 6 0.08
9 48 0.65
10 8 0.11
11 11 0.15
12 1 0.01
ACGTcount: A:0.23, C:0.05, G:0.04, T:0.67
Consensus pattern (9 bp):
TTTATATTT
Found at i:37208792 original size:20 final size:20
Alignment explanation
Indices: 37208767--37208857 Score: 91
Period size: 19 Copynumber: 4.8 Consensus size: 20
37208757 TTTCCATATA
*
37208767 TTTTATATTTTTTTTACGAT
1 TTTTATATATTTTTTACGAT
** *
37208787 TTTTATA-AAATTTTACAAT
1 TTTTATATATTTTTTACGAT
* *
37208806 TTTTTTATATTTTTTACG-G
1 TTTTATATATTTTTTACGAT
*
37208825 TTTT-TATATTTTTTACGGT
1 TTTTATATATTTTTTACGAT
37208844 TTTTATAT-TTTTTT
1 TTTTATATATTTTTT
37208858 CTAATTTTTA
Statistics
Matches: 58, Mismatches: 10, Indels: 7
0.77 0.13 0.09
Matches are distributed among these distances:
18 13 0.22
19 28 0.48
20 17 0.29
ACGTcount: A:0.22, C:0.04, G:0.05, T:0.68
Consensus pattern (20 bp):
TTTTATATATTTTTTACGAT
Found at i:37208828 original size:18 final size:18
Alignment explanation
Indices: 37208807--37208856 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
37208797 TTTTACAATT
37208807 TTTTTATATTTTTTACGG
1 TTTTTATATTTTTTACGG
37208825 TTTTTATATTTTTTACGG
1 TTTTTATATTTTTTACGG
37208843 TTTTTATATTTTTT
1 TTTTTATATTTTTT
37208857 TCTAATTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.16, C:0.04, G:0.08, T:0.72
Consensus pattern (18 bp):
TTTTTATATTTTTTACGG
Found at i:37209051 original size:90 final size:90
Alignment explanation
Indices: 37208951--37209154 Score: 243
Period size: 90 Copynumber: 2.3 Consensus size: 90
37208941 AATTTTTAAT
* * * *
37208951 AAAAGCAGGGGTTTAATTGCTTTTTTTGAAAAAGCTTGA-GAGTTTTTTTGATGCATTTT-AAAA
1 AAAAGCAGGGGCTTAATTGCTTTTTCTGAAAAAGCTTGACG-GTCTTTTTGATACATTTTGAAAA
* * *
37209014 GTTCAAGTACCCGATTGGGTGCAAAAA
65 -TTCAAGTACCCAAATGAGTGCAAAAA
* * *
37209041 AAAAGTAGGGGCTTAATTGCTTTTTCTGAAAATGTTTGACGGTCTTTTTGATACATTTTGAAAAT
1 AAAAGCAGGGGCTTAATTGCTTTTTCTGAAAAAGCTTGACGGTCTTTTTGATACATTTTGAAAAT
*
37209106 TCAAGTACCTAAATGAGTGC-AAAA
66 TCAAGTACCCAAATGAGTGCAAAAA
* * *
37209130 AAAATCAAGGGCTTAATTGGTTTTT
1 AAAAGCAGGGGCTTAATTGCTTTTT
37209155 TTTTTTTAAA
Statistics
Matches: 97, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
89 25 0.26
90 67 0.69
91 5 0.05
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (90 bp):
AAAAGCAGGGGCTTAATTGCTTTTTCTGAAAAAGCTTGACGGTCTTTTTGATACATTTTGAAAAT
TCAAGTACCCAAATGAGTGCAAAAA
Found at i:37209481 original size:22 final size:23
Alignment explanation
Indices: 37209429--37209482 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
37209419 GCCCGAATAT
*
37209429 AATAAATTTTTTATTTTAATTTA
1 AATAAATTTTTAATTTTAATTTA
*
37209452 AAT-TATTTTTAATTTT-ATTTA
1 AATAAATTTTTAATTTTAATTTA
37209473 AATAAATTTT
1 AATAAATTTT
37209483 GGTGTTATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 8 0.30
22 16 0.59
23 3 0.11
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
AATAAATTTTTAATTTTAATTTA
Found at i:37209482 original size:21 final size:22
Alignment explanation
Indices: 37209429--37209482 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
37209419 GCCCGAATAT
*
37209429 AATAAATTTTTTATTTTAATTTA
1 AATAAA-TTTTAATTTTAATTTA
* *
37209452 AATTATTTTTAATTTT-ATTTA
1 AATAAATTTTAATTTTAATTTA
37209473 AATAAATTTT
1 AATAAATTTT
37209483 GGTGTTATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 13 0.50
22 9 0.35
23 4 0.15
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
AATAAATTTTAATTTTAATTTA
Found at i:37210646 original size:125 final size:124
Alignment explanation
Indices: 37210414--37210679 Score: 372
Period size: 125 Copynumber: 2.1 Consensus size: 124
37210404 GTATCTGGTT
** ** * * *
37210414 AAATAGTAGGAAATCGCTTCTACCAAGATGCTATTTAAGAAGAAATTGTGAAATAGTGGCCTCGT
1 AAATAGTATAAAATCGCTGATACCAAGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGT
*
37210479 GGACGTGATTTCGCTACAGTGGTCATGTAAGAAATAATTTTTTTTTGACGTTTCCTGAGC
66 GGACGCGATTTCGCTACAGTGGTCATGTAAGAAATAATTTTTTTTTGACGTTT-CTGAGC
* * *
37210539 AAATAGTATAAAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGTGAAATCGCGCCCTCGT
1 AAATAGTATAAAATCGCTGATACCAAGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGT
* *
37210604 GGACGCGATTTCGCTATAGTTGGTCATGTAGGAAATAA-TTTTTTTTGACGTTTCTGAGC
66 GGACGCGATTTCGCTACAG-TGGTCATGTAAGAAATAATTTTTTTTTGACGTTTCTGAGC
* *
37210663 AAATAGTGTCAAATCGC
1 AAATAGTATAAAATCGC
37210680 ACCCTCGTGG
Statistics
Matches: 125, Mismatches: 15, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
124 21 0.17
125 87 0.70
126 17 0.14
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.32
Consensus pattern (124 bp):
AAATAGTATAAAATCGCTGATACCAAGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGT
GGACGCGATTTCGCTACAGTGGTCATGTAAGAAATAATTTTTTTTTGACGTTTCTGAGC
Found at i:37212860 original size:14 final size:15
Alignment explanation
Indices: 37212843--37212876 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
37212833 AATAAATATC
37212843 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
37212857 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
37212872 TAAAA
1 TAAAA
37212877 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:37213000 original size:20 final size:21
Alignment explanation
Indices: 37212975--37213020 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
37212965 TGAAAATATT
37212975 AAAAATTTTAAAATTAT-TTA
1 AAAAATTTTAAAATTATCTTA
*
37212995 AAAAATTTTAAAATTTTCTTA
1 AAAAATTTTAAAATTATCTTA
37213016 AAAAA
1 AAAAA
37213021 ATGAAATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
AAAAATTTTAAAATTATCTTA
Found at i:37213089 original size:22 final size:22
Alignment explanation
Indices: 37213064--37213105 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
37213054 ATTTGGAGAT
*
37213064 TTTTTAAAGGAAATTGAGAGGA
1 TTTTGAAAGGAAATTGAGAGGA
* *
37213086 TTTTGGAAGGAATTTGAGAG
1 TTTTGAAAGGAAATTGAGAG
37213106 TTTGAGAGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.31, T:0.33
Consensus pattern (22 bp):
TTTTGAAAGGAAATTGAGAGGA
Found at i:37213112 original size:30 final size:30
Alignment explanation
Indices: 37213077--37213135 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
37213067 TTAAAGGAAA
* *
37213077 TTGAGAGGATTTTGGAAGGAATTTGAGAGT
1 TTGAGAGAATTTTGGAAGGAAATTGAGAGT
37213107 TTGAGAGAATTTTGGAAGGAAATTGAGAG
1 TTGAGAGAATTTTGGAAGGAAATTGAGAG
37213136 AAATTTTGAA
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:0.34, C:0.00, G:0.36, T:0.31
Consensus pattern (30 bp):
TTGAGAGAATTTTGGAAGGAAATTGAGAGT
Found at i:37213132 original size:22 final size:22
Alignment explanation
Indices: 37213107--37213198 Score: 132
Period size: 22 Copynumber: 4.2 Consensus size: 22
37213097 ATTTGAGAGT
*
37213107 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTTGAAGGAAA
* *
37213129 TTGAGAGAAATTTTGAAGGGAA
1 TTGAGAGAATTTTTGAAGGAAA
*
37213151 TTGAGAGAATTTTTTAAAGG-AA
1 TTGAGAGAA-TTTTTGAAGGAAA
37213173 TTGAGAGAATTTTTGAAGGAAA
1 TTGAGAGAATTTTTGAAGGAAA
37213195 TTGA
1 TTGA
37213199 TATTGAATTT
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
21 9 0.15
22 45 0.73
23 8 0.13
ACGTcount: A:0.40, C:0.00, G:0.28, T:0.32
Consensus pattern (22 bp):
TTGAGAGAATTTTTGAAGGAAA
Found at i:37213876 original size:18 final size:17
Alignment explanation
Indices: 37213848--37213913 Score: 71
Period size: 18 Copynumber: 3.8 Consensus size: 17
37213838 ATAAAATTAT
37213848 ATTTTTATAATTTTAAC
1 ATTTTTATAATTTTAAC
*
37213865 ATTTTCTATAATTTTAAT
1 ATTTT-TATAATTTTAAC
* *
37213883 ATTTTTTATAA-TTGAAA
1 A-TTTTTATAATTTTAAC
*
37213900 AATTTTATAATTTT
1 ATTTTTATAATTTT
37213914 TTTGATTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
16 8 0.20
17 12 0.29
18 17 0.41
19 4 0.10
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (17 bp):
ATTTTTATAATTTTAAC
Found at i:37213950 original size:2 final size:2
Alignment explanation
Indices: 37213945--37213993 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
37213935 ACACACACCC
37213945 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37213987 AT AT AT A
1 AT AT AT A
37213994 CATGTTTGAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:37215056 original size:12 final size:12
Alignment explanation
Indices: 37215041--37215070 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
37215031 AACCATAATT
37215041 AATAAATTACTA
1 AATAAATTACTA
*
37215053 AATAAATTATTA
1 AATAAATTACTA
37215065 AATAAA
1 AATAAA
37215071 ATATAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (12 bp):
AATAAATTACTA
Found at i:37215668 original size:43 final size:43
Alignment explanation
Indices: 37215606--37215752 Score: 258
Period size: 43 Copynumber: 3.4 Consensus size: 43
37215596 CCTTGGATAA
*
37215606 GAGTTGTTCCCAAATAATGGTTATTTTGACTTACTCTAAACGT
1 GAGTTGTTCCCAAATAATGGTTATTTTGACTTATTCTAAACGT
*
37215649 AAGTTGTTCCCAAATAATGGTTATTTTGACTTATTCTAAACGT
1 GAGTTGTTCCCAAATAATGGTTATTTTGACTTATTCTAAACGT
37215692 GAGTTGTTCCCAAATAATGGTTATTTTGACTTATTCTAAACGT
1 GAGTTGTTCCCAAATAATGGTTATTTTGACTTATTCTAAACGT
*
37215735 GAGTTGTTCTCAATATAA
1 GAGTTGTTCCCAA-ATAA
37215753 AGGTCGAACA
Statistics
Matches: 99, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
43 95 0.96
44 4 0.04
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (43 bp):
GAGTTGTTCCCAAATAATGGTTATTTTGACTTATTCTAAACGT
Found at i:37217195 original size:16 final size:16
Alignment explanation
Indices: 37217141--37217201 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
37217131 AACTAAAACT
37217141 CTATTCTGAAC-ATAG
1 CTATTCTGAACAATAG
*
37217156 CTATTCTCGAACAACAG
1 CTATTCT-GAACAATAG
* * *
37217173 TTGTTCTGAACAATAA
1 CTATTCTGAACAATAG
*
37217189 CTATTCTAAACAA
1 CTATTCTGAACAA
37217202 GAGTTATTAC
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
15 7 0.19
16 21 0.58
17 8 0.22
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (16 bp):
CTATTCTGAACAATAG
Found at i:37217201 original size:32 final size:32
Alignment explanation
Indices: 37217144--37217206 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
37217134 TAAAACTCTA
* *
37217144 TTCTGAACATAGCTATTCTCGAACAACAGTTG
1 TTCTGAACATAACTATTCTCAAACAACAGTTG
*
37217176 TTCTGAACAATAACTATTCT-AAACAAGAGTT
1 TTCTGAAC-ATAACTATTCTCAAACAACAGTT
37217207 ATTACTCCGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 17 0.63
33 10 0.37
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.32
Consensus pattern (32 bp):
TTCTGAACATAACTATTCTCAAACAACAGTTG
Found at i:37219076 original size:20 final size:20
Alignment explanation
Indices: 37219040--37219078 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
37219030 AAAAGATCTT
**
37219040 TTGACCATTAACTTTAACAG
1 TTGACCATTAAAATTAACAG
37219060 TTGACCATTAAAATTAACA
1 TTGACCATTAAAATTAACA
37219079 ACTCTTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (20 bp):
TTGACCATTAAAATTAACAG
Found at i:37219201 original size:20 final size:21
Alignment explanation
Indices: 37219159--37219213 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 21
37219149 TAAAAGTTAT
** *
37219159 AAAAATATTAAATTTTAATAA
1 AAAAATAAAAAATTTGAATAA
*
37219180 AAAAATTAAAAATTTGAA-AA
1 AAAAATAAAAAATTTGAATAA
*
37219200 AAATATAAAAAATT
1 AAAAATAAAAAATT
37219214 GTAAAATAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (21 bp):
AAAAATAAAAAATTTGAATAA
Found at i:37219219 original size:19 final size:18
Alignment explanation
Indices: 37219178--37219225 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
37219168 AAATTTTAAT
*
37219178 AAAAAAATTAAAAATTTG
1 AAAAAAATTAAAAAATTG
37219196 AAAAAAATATAAAAAATTG
1 AAAAAAAT-TAAAAAATTG
*
37219215 TAAAATAATTA
1 -AAAAAAATTA
37219226 TATTTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 8 0.31
19 11 0.42
20 7 0.27
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (18 bp):
AAAAAAATTAAAAAATTG
Found at i:37219295 original size:11 final size:11
Alignment explanation
Indices: 37219279--37219311 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
37219269 ATATTAAAAA
37219279 TTTATAATTTT
1 TTTATAATTTT
37219290 TTTATAA-TTT
1 TTTATAATTTT
37219300 TTTATAATTTT
1 TTTATAATTTT
37219311 T
1 T
37219312 ATTGGTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTATAATTTT
Found at i:37219302 original size:10 final size:10
Alignment explanation
Indices: 37219279--37219339 Score: 65
Period size: 10 Copynumber: 6.3 Consensus size: 10
37219269 ATATTAAAAA
37219279 TTTATAATTTT
1 TTTATAA-TTT
37219290 TTTATAATTT
1 TTTATAATTT
37219300 TTTATAA-TT
1 TTTATAATTT
***
37219309 TTTATTGGTT
1 TTTATAATTT
37219319 TTTAT--TTT
1 TTTATAATTT
37219327 TTTATAATTT
1 TTTATAATTT
37219337 TTT
1 TTT
37219340 GCCACATGTC
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
8 7 0.16
9 7 0.16
10 23 0.52
11 7 0.16
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (10 bp):
TTTATAATTT
Found at i:37219632 original size:86 final size:86
Alignment explanation
Indices: 37219471--37219664 Score: 232
Period size: 86 Copynumber: 2.2 Consensus size: 86
37219461 AGTTCAAGTG
* * * * *
37219471 CCCAATTGAGTGCAAAAAAAATGACTTAATTGCTTTTTTTGAAAAAAAGTTTGAGAGTCTTTTTT
1 CCCAATTGAGTGCAAAAAAAATGACTTAATGGCTTTATTTG-AAAAAAGTTTAAGAGCCTTTTTG
* *
37219536 ATGCATTTTGAAAGTTCAAGCA
65 ATACATTTTGAAAATTCAAGCA
* *
37219558 CCTAATTGAGTG-AAAAAAAATGGGCTTAATGGCTCTTATTTG-AAAAAGTTTTAAG-GCCTTTT
1 CCCAATTGAGTGCAAAAAAAAT-GACTTAATGGCT-TTATTTGAAAAAAG-TTTAAGAGCCTTTT
* *
37219620 TGATATATTTTGAAAATTCAAGTA
63 TGATACATTTTGAAAATTCAAGCA
37219644 CCCAATTGAGTGCAAAAAAAA
1 CCCAATTGAGTGCAAAAAAAA
37219665 CTTAATTGCT
Statistics
Matches: 91, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
86 51 0.56
87 34 0.37
88 6 0.07
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (86 bp):
CCCAATTGAGTGCAAAAAAAATGACTTAATGGCTTTATTTGAAAAAAGTTTAAGAGCCTTTTTGA
TACATTTTGAAAATTCAAGCA
Found at i:37220069 original size:86 final size:87
Alignment explanation
Indices: 37219864--37220070 Score: 206
Period size: 86 Copynumber: 2.4 Consensus size: 87
37219854 TCAAACTTTT
** * * * ***
37219864 TTAAAAAAGTAATTAAGCTTTTGTTTTTATTTTTTTCACTTAATTGGGTACTTGAACTTTCAAAA
1 TTAAAAAAAAAATTAAGC-CTTGTTTTT-TTTTTTGCACTTAATTGAGTACTTGAACCGCCAAAA
** *
37219929 TACATCAAAAAGGCCCTCAAGATT
64 TACATCAAAAAAACCCTCAAGATC
* *
37219953 TTAAAAAAACCAATTAAGCC-T-TCTTTTTTTTTGCACTTAATTGAGTACTTGAACCGCCAAAAT
1 TTAAAAAAA-AAATTAAGCCTTGTTTTTTTTTTTGCACTTAATTGAGTACTTGAACCGCCAAAAT
* * *
37220016 GCATCAAAAAAACCTTGAA-A-C
65 ACATCAAAAAAACCCTCAAGATC
37220037 TTAAAAAAAAAATTAAGCCATTGTTTTTTTTTTT
1 TTAAAAAAAAAATTAAGCC-TTGTTTTTTTTTTT
37220071 TTTTCACTCA
Statistics
Matches: 97, Mismatches: 17, Indels: 11
0.78 0.14 0.09
Matches are distributed among these distances:
83 9 0.09
84 9 0.09
85 2 0.02
86 56 0.58
87 4 0.04
88 1 0.01
89 8 0.08
90 8 0.08
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (87 bp):
TTAAAAAAAAAATTAAGCCTTGTTTTTTTTTTTGCACTTAATTGAGTACTTGAACCGCCAAAATA
CATCAAAAAAACCCTCAAGATC
Found at i:37220302 original size:29 final size:29
Alignment explanation
Indices: 37220270--37220357 Score: 101
Period size: 29 Copynumber: 3.1 Consensus size: 29
37220260 AACAATATTT
37220270 AAATTTTATTAAAAAT-TAAAAAAATATAA
1 AAATTTTA-TAAAAATATAAAAAAATATAA
* * *
37220299 AAATTGTA-AAAAATATAAAAAAGTGT-A
1 AAATTTTATAAAAATATAAAAAAATATAA
*
37220326 AAATGTTATAAAAATTATAAAAAAATATAA
1 AAATTTTATAAAAA-TATAAAAAAATATAA
37220356 AA
1 AA
37220358 TGCATCAAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
27 13 0.27
28 14 0.29
29 18 0.38
30 3 0.06
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.30
Consensus pattern (29 bp):
AAATTTTATAAAAATATAAAAAAATATAA
Found at i:37220310 original size:19 final size:19
Alignment explanation
Indices: 37220286--37220357 Score: 83
Period size: 19 Copynumber: 3.8 Consensus size: 19
37220276 TATTAAAAAT
37220286 TAAAAAAATATAAAAATTG
1 TAAAAAAATATAAAAATTG
*
37220305 T-AAAAAATATAAAAAAGTG
1 TAAAAAAATAT-AAAAATTG
*** *
37220324 TAAAATGTTATAAAAATTA
1 TAAAAAAATATAAAAATTG
37220343 TAAAAAAATATAAAA
1 TAAAAAAATATAAAA
37220358 TGCATCAAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
18 9 0.21
19 27 0.64
20 6 0.14
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (19 bp):
TAAAAAAATATAAAAATTG
Found at i:37220349 original size:10 final size:10
Alignment explanation
Indices: 37220232--37220357 Score: 72
Period size: 10 Copynumber: 13.3 Consensus size: 10
37220222 AAACATCAAT
37220232 AAAAATTAT-
1 AAAAATTATA
*
37220241 TAAAATT-TA
1 AAAAATTATA
37220250 ATAAAATTATA
1 A-AAAATTATA
*
37220261 ACAATATT-T-
1 A-AAAATTATA
** *
37220270 AAATTTTATT
1 AAAAATTATA
37220280 AAAAATTA-A
1 AAAAATTATA
37220289 AAAAA-TAT-
1 AAAAATTATA
*
37220297 AAAAATTGTA
1 AAAAATTATA
37220307 AAAAA-TATA
1 AAAAATTATA
* *
37220316 AAAAAGTGTA
1 AAAAATTATA
**
37220326 AAATGTTAT-
1 AAAAATTATA
37220335 AAAAATTATA
1 AAAAATTATA
*
37220345 AAAAAATATA
1 AAAAATTATA
37220355 AAA
1 AAA
37220358 TGCATCAAAA
Statistics
Matches: 89, Mismatches: 18, Indels: 19
0.71 0.14 0.15
Matches are distributed among these distances:
8 13 0.15
9 30 0.34
10 38 0.43
11 8 0.09
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (10 bp):
AAAAATTATA
Found at i:37220357 original size:8 final size:9
Alignment explanation
Indices: 37220230--37220348 Score: 73
Period size: 9 Copynumber: 12.8 Consensus size: 9
37220220 ATAAACATCA
37220230 ATAAAAATT
1 ATAAAAATT
*
37220239 ATTAAAATT
1 ATAAAAATT
37220248 -TAATAAAATT
1 AT-A-AAAATT
37220258 ATAACAATATT
1 ATAA-AA-ATT
**
37220269 -TAAATTTT
1 ATAAAAATT
37220277 ATTAAAAATT
1 A-TAAAAATT
*
37220287 A-AAAAAAT
1 ATAAAAATT
37220295 ATAAAAATT
1 ATAAAAATT
* *
37220304 GTAAAAAAT
1 ATAAAAATT
*
37220313 ATAAAAAAGT
1 AT-AAAAATT
* *
37220323 GTAAAATGTT
1 ATAAAA-ATT
37220333 ATAAAAATT
1 ATAAAAATT
37220342 ATAAAAA
1 ATAAAAA
37220349 AATATAAAAT
Statistics
Matches: 83, Mismatches: 17, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
8 10 0.12
9 37 0.45
10 32 0.39
11 4 0.05
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (9 bp):
ATAAAAATT
Found at i:37220357 original size:9 final size:9
Alignment explanation
Indices: 37220279--37220357 Score: 61
Period size: 9 Copynumber: 8.6 Consensus size: 9
37220269 TAAATTTTAT
*
37220279 TAAAAATTA
1 TAAAAAATA
37220288 -AAAAAATA
1 TAAAAAATA
* *
37220296 TAAAAATTG
1 TAAAAAATA
37220305 TAAAAAATA
1 TAAAAAATA
*
37220314 TAAAAAAGTG
1 TAAAAAA-TA
**
37220324 TAAAATGTTA
1 TAAAA-AATA
*
37220334 TAAAAATTA
1 TAAAAAATA
37220343 TAAAAAAATA
1 T-AAAAAATA
37220353 TAAAA
1 TAAAA
37220358 TGCATCAAAA
Statistics
Matches: 55, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
8 7 0.13
9 28 0.51
10 20 0.36
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (9 bp):
TAAAAAATA
Found at i:37220358 original size:29 final size:29
Alignment explanation
Indices: 37220252--37220359 Score: 98
Period size: 29 Copynumber: 3.8 Consensus size: 29
37220242 AAAATTTAAT
* * * *
37220252 AAAATTATAACAATAT-TTAAATTTTATTA
1 AAAATTATAAAAAAATATAAAATGTTA-TA
* *
37220281 AAAA-T-TAAAAAAATATAAAA-ATTGTA
1 AAAATTATAAAAAAATATAAAATGTTATA
* * *
37220307 AAAAATATAAAAAAGTGTAAAATGTTATA
1 AAAATTATAAAAAAATATAAAATGTTATA
37220336 AAAATTATAAAAAAATATAAAATG
1 AAAATTATAAAAAAATATAAAATG
37220360 CATCAAAAAG
Statistics
Matches: 63, Mismatches: 12, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
26 6 0.10
27 10 0.16
28 18 0.29
29 29 0.46
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (29 bp):
AAAATTATAAAAAAATATAAAATGTTATA
Found at i:37220367 original size:29 final size:27
Alignment explanation
Indices: 37220280--37220368 Score: 83
Period size: 29 Copynumber: 3.2 Consensus size: 27
37220270 AAATTTTATT
37220280 AAAAAT-TAAAAAAATATAAAAATTG-TA
1 AAAAATATAAAAAAATAT-AAAA-TGATA
* *
37220307 AAAAATATAAAAAAGTGTAAAATGTTATA
1 AAAAATATAAAAAAATATAAAATG--ATA
* *
37220336 AAAATTATAAAAAAATATAAAATGCATC
1 AAAAATATAAAAAAATATAAAATG-ATA
37220364 AAAAA
1 AAAAA
37220369 GGTCATTTAA
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
26 2 0.04
27 10 0.20
28 15 0.30
29 23 0.46
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (27 bp):
AAAAATATAAAAAAATATAAAATGATA
Found at i:37220552 original size:20 final size:19
Alignment explanation
Indices: 37220527--37220583 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
37220517 GCACGATAAT
37220527 TTTTATAGTTTTTTTATGAA
1 TTTTATA-TTTTTTTATGAA
* *
37220547 TTTTATATTTCTTTAT-AT
1 TTTTATATTTTTTTATGAA
*
37220565 TTTTATAATTTTCTTATGA
1 TTTTAT-ATTTTTTTATGA
37220584 CTTTATAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
18 7 0.23
19 16 0.52
20 8 0.26
ACGTcount: A:0.25, C:0.04, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTTATATTTTTTTATGAA
Found at i:37220581 original size:29 final size:29
Alignment explanation
Indices: 37220548--37220635 Score: 88
Period size: 29 Copynumber: 2.9 Consensus size: 29
37220538 TTTTATGAAT
*
37220548 TTTATATTTCTTTATATTTTTATAATTTTC
1 TTTATATTT-TATATATTTTTATAATTTTC
* * *
37220578 -TTATGACTTTATAAAATTTTATAATTTTC
1 TTTAT-ATTTTATATATTTTTATAATTTTC
*
37220607 TTTCTATATTTATATATATTTTATAATTT
1 TTTATAT-TTTATATAT-TTTTATAATTT
37220636 ATAATTTTTA
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
29 22 0.48
30 13 0.28
31 11 0.24
ACGTcount: A:0.30, C:0.06, G:0.01, T:0.64
Consensus pattern (29 bp):
TTTATATTTTATATATTTTTATAATTTTC
Found at i:37220605 original size:38 final size:37
Alignment explanation
Indices: 37220522--37220605 Score: 89
Period size: 38 Copynumber: 2.2 Consensus size: 37
37220512 TTTTGGCACG
* * *
37220522 ATAATTTTTATAGTTTTTTTATGAATTTTATATTTCT
1 ATAATTTTTATAATTTTCTTATGAATTTTAAATTTCT
* *
37220559 TTATATTTTTATAATTTTCTTATGACTTTATAAAATTT-T
1 ATA-ATTTTTATAATTTTCTTATGAATTT-T-AAATTTCT
37220598 ATAATTTT
1 ATAATTTT
37220606 CTTTCTATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.05
38 27 0.71
39 4 0.11
40 5 0.13
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.63
Consensus pattern (37 bp):
ATAATTTTTATAATTTTCTTATGAATTTTAAATTTCT
Found at i:37220638 original size:24 final size:24
Alignment explanation
Indices: 37220611--37220717 Score: 78
Period size: 24 Copynumber: 4.3 Consensus size: 24
37220601 ATTTTCTTTC
37220611 TATATTTATATATATTTTATAATT
1 TATATTTATATATATTTTATAATT
*
37220635 TATAATTT-T-TACTATTTTATAAAAAAT
1 TAT-ATTTATATA-TATTTTAT---AATT
*
37220662 TATAATTATATATATTTTA-AATT
1 TATATTTATATATATTTTATAATT
*
37220685 TAATATTTTTATA-ACTTTTATTAATT
1 T-ATATTTATATATA-TTTTA-TAATT
*
37220711 TTTATTT
1 TATATTT
37220718 TTTTATCATT
Statistics
Matches: 66, Mismatches: 6, Indels: 21
0.71 0.06 0.23
Matches are distributed among these distances:
23 7 0.11
24 26 0.39
25 9 0.14
26 8 0.12
27 14 0.21
28 2 0.03
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (24 bp):
TATATTTATATATATTTTATAATT
Found at i:37228521 original size:16 final size:18
Alignment explanation
Indices: 37228480--37228514 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
37228470 AATGGTACAA
37228480 AATAACTTTTATTATTTTG
1 AATAA-TTTTATTATTTTG
37228499 AATAATTTTATT-TTTT
1 AATAATTTTATTATTTT
37228515 ATTAATTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 7 0.44
19 5 0.31
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (18 bp):
AATAATTTTATTATTTTG
Found at i:37228982 original size:22 final size:23
Alignment explanation
Indices: 37228948--37228995 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
37228938 GTTTATTAAT
*
37228948 ATTTAATTTAAAATTTAAAATTA
1 ATTTAATTCAAAATTTAAAATTA
*
37228971 ATTTAA-TCAAAATTTATAATTA
1 ATTTAATTCAAAATTTAAAATTA
37228993 ATT
1 ATT
37228996 AACAATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
ATTTAATTCAAAATTTAAAATTA
Found at i:37233546 original size:25 final size:26
Alignment explanation
Indices: 37233475--37233551 Score: 75
Period size: 26 Copynumber: 3.0 Consensus size: 26
37233465 AACTGATATG
* * **
37233475 AAATGACTGTTATGCCCTCACGTGGTA
1 AAATGACTGTTATG-CCTTATGTTATA
*
37233502 AAATGCCTGTTATGCCTTATGTTATA
1 AAATGACTGTTATGCCTTATGTTATA
**
37233528 AAATGACTG-TATGTTTTATGTTAT
1 AAATGACTGTTATGCCTTATGTTAT
37233552 GTATGATTGT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
25 13 0.31
26 16 0.38
27 13 0.31
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.40
Consensus pattern (26 bp):
AAATGACTGTTATGCCTTATGTTATA
Found at i:37233779 original size:23 final size:22
Alignment explanation
Indices: 37233738--37233780 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
37233728 TATCCCCACA
*
37233738 TGGAGTGCTGGGCTAGATGGAG
1 TGGAGTGCAGGGCTAGATGGAG
*
37233760 TGGAGTGCAGAGGCTGGATGG
1 TGGAGTGCAG-GGCTAGATGG
37233781 GTAAGATTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.19, C:0.09, G:0.51, T:0.21
Consensus pattern (22 bp):
TGGAGTGCAGGGCTAGATGGAG
Found at i:37235092 original size:25 final size:25
Alignment explanation
Indices: 37235046--37235098 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
37235036 TGATTAATGA
** * *
37235046 TTTAATTTTGTTTTAAATTTTTTAT
1 TTTAATTTCATTTTAAAGTTTTAAT
*
37235071 TTTAATTTCATTTTAACGTTTTAAT
1 TTTAATTTCATTTTAAAGTTTTAAT
37235096 TTT
1 TTT
37235099 TTTTTAATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.68
Consensus pattern (25 bp):
TTTAATTTCATTTTAAAGTTTTAAT
Found at i:37235112 original size:32 final size:33
Alignment explanation
Indices: 37235055--37235118 Score: 89
Period size: 32 Copynumber: 2.0 Consensus size: 33
37235045 ATTTAATTTT
37235055 GTTTTAAATTTTTTATTTTAATTTCATTTTAAC
1 GTTTTAAATTTTTTATTTTAATTTCATTTTAAC
37235088 GTTTT-AA-TTTTT-TTTTAATTTTTCATTTTAA
1 GTTTTAAATTTTTTATTTTAA--TTTCATTTTAA
37235119 ATCAAGCCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
30 6 0.21
31 5 0.17
32 13 0.45
33 5 0.17
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.67
Consensus pattern (33 bp):
GTTTTAAATTTTTTATTTTAATTTCATTTTAAC
Found at i:37236200 original size:3 final size:3
Alignment explanation
Indices: 37236174--37236227 Score: 58
Period size: 3 Copynumber: 18.3 Consensus size: 3
37236164 CCCGGTGAGT
* *
37236174 GAA GGA GAA GAA -AGA GAA GGA GAA GAA -AA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GA-A GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
37236218 GAA GGA GAA G
1 GAA GAA GAA G
37236228 GGAAAAAGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
2 3 0.07
3 38 0.90
4 1 0.02
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:37242248 original size:51 final size:50
Alignment explanation
Indices: 37242193--37242642 Score: 422
Period size: 51 Copynumber: 8.9 Consensus size: 50
37242183 GTGAAAGTGT
*
37242193 TGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAAT-A
* * * * * * * * *
37242244 TGGTCACATGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTT
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAA-ATA
* *
37242295 TGGTCACGTGTGTAGTATTGTGTGAAGGCTACTACGTGAATCGATAAATAA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAAT-A
* * * ** * * * * *
37242346 TGGTCACATGTGTAGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCTT
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAA-ATA
* *
37242397 TGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATGA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAAT-A
* * * * * *
37242448 TGGTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAAGCTT
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAA--TA
* * *
37242499 TAGTCACATATGTAGTACTATGTGAAGGCTACTACGTGAATCG-TAAAGCT-
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAA--TA
* * * * *
37242549 TGATCACGTGTATAGTACTATGTGAAGGCTATTACGTGAACCG-TAAAAA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATA
* *
37242598 TTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 -TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
37242643 ATGATAATAG
Statistics
Matches: 318, Mismatches: 71, Indels: 20
0.78 0.17 0.05
Matches are distributed among these distances:
50 84 0.26
51 231 0.73
52 3 0.01
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (50 bp):
TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATA
Found at i:37242368 original size:102 final size:102
Alignment explanation
Indices: 37242192--37242642 Score: 638
Period size: 102 Copynumber: 4.4 Consensus size: 102
37242182 AGTGAAAGTG
37242192 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
37242257 AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT
66 AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT
*
37242294 TTGGTCACGTGTGTAGTATTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
*
37242359 AGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT
66 AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT
* *
37242396 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATGATGGTCACATGTGT
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
* *
37242461 AGTACTAAGTGAAGGCTACTATGTGTACCGAAAAGCT
66 AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT
* * * * *** * * *
37242498 TTAGTCACATATGTAGTACTATGTGAAGGCTACTACGTGAATCG-TAAAGCTTGATCACGTGTAT
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
* ** * * **
37242562 AGTACTATGTGAAGGCTATTACGTGAACCGTA-AA-AA
66 AGTACTAAGTGAAGGCTACAATGTGTACCG-AGAAGCT
* * *
37242598 TTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGA
37242643 ATGATAATAG
Statistics
Matches: 317, Mismatches: 30, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
100 39 0.12
101 42 0.13
102 236 0.74
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (102 bp):
TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT
Found at i:37245634 original size:27 final size:27
Alignment explanation
Indices: 37245592--37245670 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
37245582 TATACTAGGT
*
37245592 GTGCCACCTATTAGATAGGCACCACCA
1 GTGCCACCTATCAGATAGGCACCACCA
*** *
37245619 GTGCCACCTATCAGATAGGGGTCACTA
1 GTGCCACCTATCAGATAGGCACCACCA
*
37245646 GTGCCGCCTATCAGATAGGCACCAC
1 GTGCCACCTATCAGATAGGCACCAC
37245671 AACTAAATTA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.27, C:0.32, G:0.23, T:0.19
Consensus pattern (27 bp):
GTGCCACCTATCAGATAGGCACCACCA
Found at i:37257572 original size:16 final size:16
Alignment explanation
Indices: 37257551--37257581 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37257541 TTCACTATTA
*
37257551 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
37257567 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
37257582 GCATGCATAG
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:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:37258702 original size:14 final size:15
Alignment explanation
Indices: 37258683--37258711 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
37258673 GAATTTTCTT
37258683 GAAAAATT-ATTTTG
1 GAAAAATTAATTTTG
37258697 GAAAAATTAATTTTG
1 GAAAAATTAATTTTG
37258712 ATGAAGTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (15 bp):
GAAAAATTAATTTTG
Found at i:37259236 original size:32 final size:33
Alignment explanation
Indices: 37259169--37259240 Score: 78
Period size: 32 Copynumber: 2.2 Consensus size: 33
37259159 TTAATAGTTT
***
37259169 AATATTAAATTTAATTTAATATTTATCTTGATA
1 AATATTAAATTTAATTTAATATTTAAAGTGATA
*
37259202 AATATTATA-TTAATTTAATA-TTAAAGTGATTA
1 AATATTAAATTTAATTTAATATTTAAAGTGA-TA
37259234 AAT-TTAA
1 AATATTAA
37259241 TCATAGTTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
31 9 0.27
32 16 0.48
33 8 0.24
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (33 bp):
AATATTAAATTTAATTTAATATTTAAAGTGATA
Found at i:37261368 original size:29 final size:27
Alignment explanation
Indices: 37261323--37261389 Score: 64
Period size: 29 Copynumber: 2.3 Consensus size: 27
37261313 TCAATTAAGT
*
37261323 AATCTTACATTTCATCAATAAAAT-AACAA
1 AATCTTA-ATTCCATC-ATAAAATCAA-AA
*
37261352 AATCTTAATTCCAATCATCAAATCAAAA
1 AATCTTAATTCC-ATCATAAAATCAAAA
37261380 AGATCTTAAT
1 A-ATCTTAAT
37261390 ACGGAACGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
28 13 0.39
29 20 0.61
ACGTcount: A:0.49, C:0.18, G:0.01, T:0.31
Consensus pattern (27 bp):
AATCTTAATTCCATCATAAAATCAAAA
Found at i:37262170 original size:42 final size:42
Alignment explanation
Indices: 37261884--37262148 Score: 273
Period size: 42 Copynumber: 6.3 Consensus size: 42
37261874 AGCTGAATCA
* * *
37261884 TAGGACCGGTCACGCCTTCTATAGTATCGATCATCAGGTGAG
1 TAGGAACGGTCCCGCCTTCTGTAGTATCGATCATCAGGTGAG
*
37261926 TAGGAACGGTCCCGCCTTCTGTAGTATCGATCGTCAGGTGAG
1 TAGGAACGGTCCCGCCTTCTGTAGTATCGATCATCAGGTGAG
* * *
37261968 TAGGAACGATCCCACCTTCTGTAGTACCGATCATCAGGTGCA-
1 TAGGAACGGTCCCGCCTTCTGTAGTATCGATCATCAGGTG-AG
* ** *
37262010 TAAGAACGGTCCCGCCTTCTACAGTATCCATCATCAGGTGAG
1 TAGGAACGGTCCCGCCTTCTGTAGTATCGATCATCAGGTGAG
* * * * * * * *
37262052 TAGGAACGGTTCCGCCTGCGGTAGTAAC-AGTCCTCGGGAGTG
1 TAGGAACGGTCCCGCCTTCTGTAGTATCGA-TCATCAGGTGAG
* * ** * *
37262094 TAAGATCTATCACGCCTTCTGTAGTATCGATCATCAGGAGAG
1 TAGGAACGGTCCCGCCTTCTGTAGTATCGATCATCAGGTGAG
37262136 TAGGAACGGTCCC
1 TAGGAACGGTCCC
37262149 ATCTTCTATA
Statistics
Matches: 176, Mismatches: 43, Indels: 8
0.78 0.19 0.04
Matches are distributed among these distances:
41 2 0.01
42 172 0.98
43 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (42 bp):
TAGGAACGGTCCCGCCTTCTGTAGTATCGATCATCAGGTGAG
Found at i:37262170 original size:126 final size:126
Alignment explanation
Indices: 37261898--37262170 Score: 316
Period size: 126 Copynumber: 2.2 Consensus size: 126
37261888 ACCGGTCACG
* * * *
37261898 CCTTCTATAGTATCGATCATCAGGTGAGTAGGAACGGTCCCGCCTTCTGTAGTATCGATCGTCAG
1 CCTTCTATAGTATCGATCATCAGGTGAGTAGGAACGGTCCCGCCTGCGGTAGTAACGATCCTCAG
* * * * *
37261963 GTGAGTAGGAACGATCCCACCTTCTGTAGTACCGATCATCAGGTGCATAAGAACGGTCCCG
66 GAGAGTAAGAACGATCACACCTTCTGTAGTACCGATCATCAGGAGCATAAGAACGGTCCCA
* * * *
37262024 CCTTCTACAGTATCCATCATCAGGTGAGTAGGAACGGTTCCGCCTGCGGTAGTAAC-AGTCCTCG
1 CCTTCTATAGTATCGATCATCAGGTGAGTAGGAACGGTCCCGCCTGCGGTAGTAACGA-TCCTCA
* * * * * *
37262088 GGAGTGTAAGATCTATCACGCCTTCTGTAGTATCGATCATCAGGAG-AGTAGGAACGGTCCCA
65 GGAGAGTAAGAACGATCACACCTTCTGTAGTACCGATCATCAGGAGCA-TAAGAACGGTCCCA
* * *
37262150 TCTTCTATAGTAGCGGTCATC
1 CCTTCTATAGTATCGATCATC
37262171 TGACGATCCG
Statistics
Matches: 121, Mismatches: 24, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
125 2 0.02
126 119 0.98
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.26
Consensus pattern (126 bp):
CCTTCTATAGTATCGATCATCAGGTGAGTAGGAACGGTCCCGCCTGCGGTAGTAACGATCCTCAG
GAGAGTAAGAACGATCACACCTTCTGTAGTACCGATCATCAGGAGCATAAGAACGGTCCCA
Found at i:37267333 original size:42 final size:42
Alignment explanation
Indices: 37267244--37267369 Score: 225
Period size: 42 Copynumber: 3.0 Consensus size: 42
37267234 AAACAAAAAC
37267244 GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTACAAAT
1 GCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTTTTTACAAAT
*
37267287 GCCGCTAAAGAACATGTTCTGTAGCGGCGTTTTTTTACAAAT
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTACAAAT
*
37267329 GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTATACAAA
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTACAAA
37267370 AAAAGCCACT
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
42 52 0.65
43 28 0.35
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (42 bp):
GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTACAAAT
Found at i:37267737 original size:21 final size:21
Alignment explanation
Indices: 37267673--37267739 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
37267663 GCTCTGCTCC
* * * *
37267673 GCTTCTCTCGCTGCAGCCTCC
1 GCTTCCCTCGCTTCCGCCTCT
* *
37267694 GCTTCCCTC-ATTGCCGCCGCT
1 GCTTCCCTCGCTT-CCGCCTCT
37267715 GCTTCCCTCGCTTCCGCCTCT
1 GCTTCCCTCGCTTCCGCCTCT
37267736 GCTT
1 GCTT
37267740 TAAGTTGTAG
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
20 1 0.03
21 33 0.92
22 2 0.06
ACGTcount: A:0.03, C:0.48, G:0.18, T:0.31
Consensus pattern (21 bp):
GCTTCCCTCGCTTCCGCCTCT
Found at i:37278608 original size:73 final size:70
Alignment explanation
Indices: 37278510--37278689 Score: 195
Period size: 72 Copynumber: 2.5 Consensus size: 70
37278500 AATAGCTCGG
* * * *
37278510 GAAACGGCGTTGTTACGCTTAGTTTTTTTGCGGCGCTT-TTATACAAACGCCGCTAAATCCCCAA
1 GAAACGGCGTCGTTGCGC-TAGGTTTTTTGCGGCGCTTATTA-A-AAACGCCGCTAAATCACC-A
37278574 AAT-CTC-A
62 AATGCTCTA
* * *
37278581 GAAACGGTGTCGTTGGGCTTAGGGTTTTTAGCGGCGCTTACTTAAAAACGCCGCTAAATCACCAA
1 GAAACGGCGTCGTTGCGC-TA-GGTTTTTTGCGGCGCTTA-TTAAAAACGCCGCTAAATCACCAA
*
37278646 ATGCTCTT
63 ATGCTCTA
*
37278654 GAAACGGCGTCGTTGCGCTAGGTTTTTTGTGGCGCT
1 GAAACGGCGTCGTTGCGCTAGGTTTTTTGCGGCGCT
37278690 GTACCTAAAA
Statistics
Matches: 92, Mismatches: 12, Indels: 10
0.81 0.11 0.09
Matches are distributed among these distances:
71 35 0.38
72 37 0.40
73 17 0.18
74 3 0.03
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.31
Consensus pattern (70 bp):
GAAACGGCGTCGTTGCGCTAGGTTTTTTGCGGCGCTTATTAAAAACGCCGCTAAATCACCAAATG
CTCTA
Found at i:37278630 original size:72 final size:71
Alignment explanation
Indices: 37278510--37278704 Score: 202
Period size: 71 Copynumber: 2.7 Consensus size: 71
37278500 AATAGCTCGG
* * * *
37278510 GAAACGGCGTTGTTACGCTTAGTTTTTTTGCGGCGCTT--TTATACAAACGCCGCTAAATCCCCA
1 GAAACGGCGTCGTTGCGC-TAGGTTTTTTGCGGCGCTTACTTA-A-AAACGCCGCTAAATCACC-
37278573 AAAT-CTC-A
62 AAATGCTCTA
* * *
37278581 GAAACGGTGTCGTTGGGCTTAGGGTTTTTAGCGGCGCTTACTTAAAAACGCCGCTAAATCACCAA
1 GAAACGGCGTCGTTGCGC-TA-GGTTTTTTGCGGCGCTTACTTAAAAACGCCGCTAAATCACCAA
*
37278646 ATGCTCTT
64 ATGCTCTA
* *
37278654 GAAACGGCGTCGTTGCGCTAGGTTTTTTGTGGCGCTGTACCT-AAAACGCCG
1 GAAACGGCGTCGTTGCGCTAGGTTTTTTGCGGCGCT-TACTTAAAAACGCCG
37278705 GTAATGTTTA
Statistics
Matches: 105, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
71 44 0.42
72 41 0.39
73 17 0.16
74 3 0.03
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (71 bp):
GAAACGGCGTCGTTGCGCTAGGTTTTTTGCGGCGCTTACTTAAAAACGCCGCTAAATCACCAAAT
GCTCTA
Found at i:37285582 original size:24 final size:23
Alignment explanation
Indices: 37285542--37285591 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
37285532 ATCAATCTAG
37285542 TTCATTGTCATTCATTTAGAATCA
1 TTCATTGTCATTCATTTA-AATCA
* *
37285566 TTCATTGT-ATCTTATTTATATCA
1 TTCATTGTCAT-TCATTTAAATCA
37285589 TTC
1 TTC
37285592 CAACAACATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.26, C:0.16, G:0.06, T:0.52
Consensus pattern (23 bp):
TTCATTGTCATTCATTTAAATCA
Found at i:37285780 original size:20 final size:20
Alignment explanation
Indices: 37285736--37285809 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 20
37285726 TGTAGTGCTA
*
37285736 GCACCGAAGTGCAAATAGAG
1 GCACCGAAGTGCAAATAGGG
* * *
37285756 ACACCAAAGTGTAAATAGGG
1 GCACCGAAGTGCAAATAGGG
* *
37285776 GCACCGAAGTACAAACAGGG
1 GCACCGAAGTGCAAATAGGG
37285796 GCACCGAAGTGCAA
1 GCACCGAAGTGCAA
37285810 TCTCCTACGA
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.41, C:0.22, G:0.28, T:0.09
Consensus pattern (20 bp):
GCACCGAAGTGCAAATAGGG
Found at i:37287434 original size:70 final size:67
Alignment explanation
Indices: 37287319--37287451 Score: 194
Period size: 70 Copynumber: 1.9 Consensus size: 67
37287309 ATAAACAATA
* * * *
37287319 TAATGGTTTTGCCTTTTAACTTAATAGGTAAACATTTATCAAAACGATGTAGTTTTGCCTTTTAA
1 TAATGATTTTGACTTTTAACTTAAAAGGTAAACATTTATCAAAACGACGTAGTTTTGCCTTTTAA
37287384 CT
66 CT
*
37287386 TAATGATTTTGACTTTTAACTTTAGAAAAGGTAAATATTTATCAAAACGACGTAGTTTTGCCTTT
1 TAATGATTTTGACTTTTAAC-TT--AAAAGGTAAACATTTATCAAAACGACGTAGTTTTGCCTTT
37287451 T
63 T
37287452 CTTATTTAGA
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
67 18 0.31
68 2 0.03
70 38 0.66
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.43
Consensus pattern (67 bp):
TAATGATTTTGACTTTTAACTTAAAAGGTAAACATTTATCAAAACGACGTAGTTTTGCCTTTTAA
CT
Found at i:37307660 original size:24 final size:26
Alignment explanation
Indices: 37307592--37307663 Score: 112
Period size: 26 Copynumber: 2.8 Consensus size: 26
37307582 CCCAATATAT
37307592 GGCTCTTCGTGAGCTTCCCGATTAAA
1 GGCTCTTCGTGAGCTTCCCGATTAAA
*
37307618 GGCTCTTTGTGAGCTTCCCG-TTAAA
1 GGCTCTTCGTGAGCTTCCCGATTAAA
*
37307643 GGCTCTCCG-GAGCTTCCCGAT
1 GGCTCTTCGTGAGCTTCCCGAT
37307664 ATGACTCACT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
24 10 0.24
25 13 0.31
26 19 0.45
ACGTcount: A:0.15, C:0.29, G:0.25, T:0.31
Consensus pattern (26 bp):
GGCTCTTCGTGAGCTTCCCGATTAAA
Found at i:37313934 original size:41 final size:41
Alignment explanation
Indices: 37313889--37313971 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
37313879 TATGATTTCG
37313889 TGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTCA
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTCA
37313930 TGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTCA
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTCA
37313971 T
1 T
37313972 CGTATTTGAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (41 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTCA
Found at i:37313974 original size:14 final size:14
Alignment explanation
Indices: 37313955--37313985 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
37313945 GGGACATTGG
37313955 CATCGTATTTGATT
1 CATCGTATTTGATT
37313969 CATCGTATTTGATT
1 CATCGTATTTGATT
37313983 CAT
1 CAT
37313986 GTAAGACCCT
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:0.23, C:0.16, G:0.13, T:0.48
Consensus pattern (14 bp):
CATCGTATTTGATT
Found at i:37313999 original size:55 final size:54
Alignment explanation
Indices: 37313914--37314021 Score: 171
Period size: 55 Copynumber: 2.0 Consensus size: 54
37313904 GGGACATTGG
*
37313914 CATCGTATTTGATTCATGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATT
1 CATCGTATTTGATTCATGTAAGACCATGTCTGGGACA-TGGCATCGTATGTGATT
* * *
37313969 CATCGTATTTGATTCATGTAAGACCCTGTCTGGGATATGGCATTGTATGTGAT
1 CATCGTATTTGATTCATGTAAGACCATGTCTGGGACATGGCATCGTATGTGAT
37314022 ATATGTGTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
54 14 0.29
55 35 0.71
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.38
Consensus pattern (54 bp):
CATCGTATTTGATTCATGTAAGACCATGTCTGGGACATGGCATCGTATGTGATT
Found at i:37319976 original size:22 final size:22
Alignment explanation
Indices: 37319948--37319995 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
37319938 AAAATTCTTA
37319948 TGGTTTTGATTTAATCTCAATT
1 TGGTTTTGATTTAATCTCAATT
*
37319970 TGGTTTTGATTTAATCTCGATT
1 TGGTTTTGATTTAATCTCAATT
37319992 TGGT
1 TGGT
37319996 CCCGATGTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.19, C:0.08, G:0.19, T:0.54
Consensus pattern (22 bp):
TGGTTTTGATTTAATCTCAATT
Found at i:37320778 original size:25 final size:26
Alignment explanation
Indices: 37320723--37320780 Score: 100
Period size: 26 Copynumber: 2.3 Consensus size: 26
37320713 CCCGATATAT
37320723 GGCTCTTTGTGAGCTTCCCGATTAAA
1 GGCTCTTTGTGAGCTTCCCGATTAAA
*
37320749 GGCTCTTTGTGAGCTTCTCG-TTAAA
1 GGCTCTTTGTGAGCTTCCCGATTAAA
37320774 GGCTCTT
1 GGCTCTT
37320781 CGAAGCTTCC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 12 0.39
26 19 0.61
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (26 bp):
GGCTCTTTGTGAGCTTCCCGATTAAA
Found at i:37320859 original size:24 final size:24
Alignment explanation
Indices: 37320712--37320872 Score: 96
Period size: 24 Copynumber: 6.6 Consensus size: 24
37320702 CTTATGAGTG
*
37320712 TCCCGATATATGGCTCTTTGTGAGCT
1 TCCCGTTA-ATGGCTCTTTG-GAGCT
*
37320738 TCCCGATTAAAGGCTCTTTGTGAGCT
1 TCCCG-TTAATGGCTCTTTG-GAGCT
* * * *
37320764 TCTCGTTAAAGGCTCTTCGAAGCT
1 TCCCGTTAATGGCTCTTTGGAGCT
* * * *
37320788 TCCTGAT-ATGGCTCGCTT-GAACT
1 TCCCGTTAATGGCTC-TTTGGAGCT
* * **
37320811 TCCCGAT-A-GAGCTATTCAGAGCT
1 TCCCGTTAATG-GCTCTTTGGAGCT
37320834 TCCCGTTAATGGCTCTTTGGAGCT
1 TCCCGTTAATGGCTCTTTGGAGCT
* *
37320858 TCCCATTATTGGCTC
1 TCCCGTTAATGGCTC
37320873 GCATGAGCTT
Statistics
Matches: 105, Mismatches: 24, Indels: 14
0.73 0.17 0.10
Matches are distributed among these distances:
22 2 0.02
23 29 0.28
24 33 0.31
25 14 0.13
26 25 0.24
27 2 0.02
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (24 bp):
TCCCGTTAATGGCTCTTTGGAGCT
Found at i:37320860 original size:47 final size:47
Alignment explanation
Indices: 37320733--37320861 Score: 111
Period size: 47 Copynumber: 2.7 Consensus size: 47
37320723 GGCTCTTTGT
* * * *
37320733 GAGCTTCCCGATTAAAGGCTCTTTGTGAGCTTCTCGTTAAAGGCTCTTC
1 GAGCTTCCCG-TTAATGGCTCTTTG-GAGCTTCCCGATAAAGGCTATTC
* * * * *
37320782 GAAGCTTCCTGAT-ATGGCTCGCTT-GAACTTCCCGATAGA-GCTATTC
1 G-AGCTTCCCGTTAATGGCTC-TTTGGAGCTTCCCGATAAAGGCTATTC
37320828 AGAGCTTCCCGTTAATGGCTCTTTGGAGCTTCCC
1 -GAGCTTCCCGTTAATGGCTCTTTGGAGCTTCCC
37320862 ATTATTGGCT
Statistics
Matches: 62, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
46 17 0.27
47 27 0.44
48 6 0.10
49 4 0.06
50 8 0.13
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (47 bp):
GAGCTTCCCGTTAATGGCTCTTTGGAGCTTCCCGATAAAGGCTATTC
Found at i:37324684 original size:18 final size:18
Alignment explanation
Indices: 37324657--37324779 Score: 60
Period size: 18 Copynumber: 6.7 Consensus size: 18
37324647 CATATTATAT
*
37324657 ATAGTATATAATATATTA
1 ATAGTTTATAATATATTA
*
37324675 ATAGTTTATATATATATCA
1 ATAGTTTATA-ATATATTA
*
37324694 AT-GATTA-AATAT-TCTA
1 ATAGTTTATAATATAT-TA
*
37324710 ATA-TTATGTAATATATATTA
1 ATAGTT-TAT-A-ATATATTA
* *
37324730 TTATACTTTATAATATAATA
1 --ATAGTTTATAATATATTA
*
37324750 ATAG-TTATATATGTATTA
1 ATAGTTTATA-ATATATTA
*
37324768 ATA-TTTTTAATA
1 ATAGTTTATAATA
37324780 ATAGTTATAT
Statistics
Matches: 79, Mismatches: 13, Indels: 27
0.66 0.11 0.23
Matches are distributed among these distances:
15 1 0.01
16 8 0.10
17 9 0.11
18 29 0.37
19 10 0.13
20 13 0.16
21 2 0.03
22 5 0.06
23 2 0.03
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (18 bp):
ATAGTTTATAATATATTA
Found at i:37324779 original size:30 final size:31
Alignment explanation
Indices: 37324745--37324805 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
37324735 CTTTATAATA
*
37324745 TAATAATAGTTATATA-TGTATTAATATTTT
1 TAATAATAGTTATATATTATATTAATATTTT
*
37324775 TAATAATAGTTATATATTATATTATTATTTT
1 TAATAATAGTTATATATTATATTAATATTTT
37324806 ATGTATTAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 16 0.57
31 12 0.43
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (31 bp):
TAATAATAGTTATATATTATATTAATATTTT
Found at i:37324829 original size:29 final size:29
Alignment explanation
Indices: 37324786--37324879 Score: 93
Period size: 29 Copynumber: 3.2 Consensus size: 29
37324776 AATAATAGTT
37324786 ATATATTATATTATTATTTTATGTATTAGCA
1 ATATATTAT-TTATTATTTTAT-TATTAGCA
* *
37324817 ATAT-TTATTTATTATATTATTACTAGC-
1 ATATATTATTTATTATTTTATTATTAGCA
** *
37324844 ATATATTACACTATTATTTTATTTATTAGTA
1 ATATATTA-TTTATTATTTTA-TTATTAGCA
37324875 ATATA
1 ATATA
37324880 CAAATTTAGT
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
27 4 0.08
28 9 0.17
29 20 0.38
30 10 0.19
31 9 0.17
ACGTcount: A:0.36, C:0.05, G:0.04, T:0.54
Consensus pattern (29 bp):
ATATATTATTTATTATTTTATTATTAGCA
Found at i:37328243 original size:15 final size:16
Alignment explanation
Indices: 37328223--37328268 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
37328213 AAAAATATTG
37328223 GAAGGATGAAAAATT-
1 GAAGGATGAAAAATTA
37328238 GAAGGAAT-AGAAAATTA
1 GAAGG-ATGA-AAAATTA
*
37328255 AAAGGATGAAAAAT
1 GAAGGATGAAAAAT
37328269 ATAGTTTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
15 6 0.23
16 15 0.58
17 5 0.19
ACGTcount: A:0.59, C:0.00, G:0.24, T:0.17
Consensus pattern (16 bp):
GAAGGATGAAAAATTA
Found at i:37330114 original size:11 final size:11
Alignment explanation
Indices: 37330093--37330149 Score: 69
Period size: 11 Copynumber: 5.0 Consensus size: 11
37330083 AACTAATCCT
37330093 CTCTCAAATTTC
1 CTCT-AAATTTC
37330105 CTCTAAATTTC
1 CTCTAAATTTC
* *
37330116 CTCTCAATTTG
1 CTCTAAATTTC
*
37330127 CTCTCAATTTC
1 CTCTAAATTTC
37330138 CTCTTAAATTTC
1 CTC-TAAATTTC
37330150 TCTTAAGTCC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
11 29 0.73
12 11 0.28
ACGTcount: A:0.23, C:0.30, G:0.02, T:0.46
Consensus pattern (11 bp):
CTCTAAATTTC
Found at i:37330124 original size:22 final size:23
Alignment explanation
Indices: 37330093--37330149 Score: 80
Period size: 22 Copynumber: 2.5 Consensus size: 23
37330083 AACTAATCCT
37330093 CTCTCAAATTTCCTCTAAATTTC
1 CTCTCAAATTTCCTCTAAATTTC
* *
37330116 CTCTC-AATTTGCTCTCAATTTC
1 CTCTCAAATTTCCTCTAAATTTC
*
37330138 CTCTTAAATTTC
1 CTCTCAAATTTC
37330150 TCTTAAGTCC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 19 0.66
23 10 0.34
ACGTcount: A:0.23, C:0.30, G:0.02, T:0.46
Consensus pattern (23 bp):
CTCTCAAATTTCCTCTAAATTTC
Found at i:37331324 original size:7 final size:7
Alignment explanation
Indices: 37331312--37331343 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
37331302 AGTCGATTGA
37331312 TATTTAG
1 TATTTAG
37331319 TATTTAG
1 TATTTAG
37331326 TATTTAG
1 TATTTAG
37331333 TATTTAG
1 TATTTAG
37331340 TATT
1 TATT
37331344 ATGTATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.59
Consensus pattern (7 bp):
TATTTAG
Found at i:37334892 original size:127 final size:126
Alignment explanation
Indices: 37334599--37335042 Score: 628
Period size: 127 Copynumber: 3.5 Consensus size: 126
37334589 CCCAAACATG
* * * *
37334599 CTACTGTAGCAAAAGCGCGTCTACGAGGGTGCAATTTCACAAGTTTTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
37334664 TAGAAGC-GTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTA-TTTTTCCAGGAC
66 TTGAAGCTTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCCAGGAC
* *
37334723 CTACTGTAGCAAAAGTGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
37334788 TTGAAGCTTTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCCAAGAC
66 TTGAAGC-TTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCCAGGAC
* * *
37334850 CTACTGTAGCAAAAGCGCATCCATGAGGGTGCGATTTGACAAATTCTTCTCATAA-AGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTCTCA-AATAGCATCCTG
37334914 CTTGAAGCGTTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTT-CAGGAC
65 CTTGAAGC-TTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCCAGGAC
* * * * * * * *
37334976 CTACTGTAGCAAAAGCGCGTACACGTGGGCGCGACTTCAGAAATCCTTTTGATAA-AGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTCTCA-AATAGCATCCTG
37335040 CTT
65 CTT
37335043 TGATTTTATC
Statistics
Matches: 287, Mismatches: 29, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
124 65 0.23
126 99 0.34
127 121 0.42
128 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (126 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TTGAAGCTTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCCAGGAC
Found at i:37335892 original size:2 final size:2
Alignment explanation
Indices: 37335885--37335924 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
37335875 CTCGTACTTT
37335885 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
37335925 CACTATAGAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:37342285 original size:13 final size:14
Alignment explanation
Indices: 37342268--37342300 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
37342258 CTGTATTAAT
*
37342268 TTTTTATATTATTA
1 TTTTTATATAATTA
37342282 TTTTTATATAATT-
1 TTTTTATATAATTA
37342295 TTTTTA
1 TTTTTA
37342301 AAAATATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTTATATAATTA
Found at i:37344269 original size:5 final size:5
Alignment explanation
Indices: 37344259--37344291 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
37344249 GAAAAGTTTA
37344259 AATAT AATAT AATAT AATAT AATAT AATAT AAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AAT
37344292 TCTATTCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
AATAT
Found at i:37350606 original size:13 final size:13
Alignment explanation
Indices: 37350580--37350618 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
37350570 ACCTAAGTTC
*
37350580 ATAACAGAAGCAG
1 ATAACAGAATCAG
*
37350593 ATATCAGAATCAG
1 ATAACAGAATCAG
37350606 ATAACAG-ATCAG
1 ATAACAGAATCAG
37350618 A
1 A
37350619 CGTATATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 6 0.26
13 17 0.74
ACGTcount: A:0.51, C:0.15, G:0.18, T:0.15
Consensus pattern (13 bp):
ATAACAGAATCAG
Found at i:37351767 original size:16 final size:16
Alignment explanation
Indices: 37351727--37351768 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
37351717 AAGAAAGAAA
*
37351727 AAACAAAAACAAAAAT
1 AAACAAAAATAAAAAT
37351743 AAA-ATAAAATAAAAAT
1 AAACA-AAAATAAAAAT
*
37351759 AAACCAAAAT
1 AAACAAAAAT
37351769 CCGTTAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 1 0.05
16 21 0.95
ACGTcount: A:0.79, C:0.10, G:0.00, T:0.12
Consensus pattern (16 bp):
AAACAAAAATAAAAAT
Found at i:37355810 original size:42 final size:42
Alignment explanation
Indices: 37355688--37355977 Score: 393
Period size: 43 Copynumber: 6.8 Consensus size: 42
37355678 ATGTTGCTAA
* * *
37355688 CTTTTGCGGCGCTTAAAGAAAAAAACGCCGCTAAAGAACATGTT
1 CTTTAGCGGCGCTT--AGGAAAAAACGCCGCTAAAGATCATGTT
* * * * *
37355732 CTTTAGCGGCGCTAAGAAAATAAACGCCACTAAAGATAATATT
1 CTTTAGCGGCGCTTAGGAAA-AAACGCCGCTAAAGATCATGTT
37355775 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
* *
37355817 CTTTAGCGGCGCTTGGGAGAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
*
37355859 CTTTAGCGGCGCTTAGGAGGAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGA-AAAAACGCCGCTAAAGATCATGTT
37355902 CTTTAGCGGCGCTTAGGAAGAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAA-AAAACGCCGCTAAAGATCATGTT
* * *
37355945 CTTTAGCGGAGCGT-GGTCAAAAACGCCGCTAAA
1 CTTTAGCGGCGCTTAGG-AAAAAACGCCGCTAAA
37355978 AGTAGTGTTC
Statistics
Matches: 224, Mismatches: 18, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
42 98 0.44
43 114 0.51
44 12 0.05
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
Found at i:37355999 original size:85 final size:85
Alignment explanation
Indices: 37355688--37355977 Score: 397
Period size: 85 Copynumber: 3.4 Consensus size: 85
37355678 ATGTTGCTAA
* * * * *
37355688 CTTTTGCGGCGCTTAAAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGC-TAAGAAAA
1 CTTTAGCGGCGCTT--AGGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAGA
* * *
37355752 TAAACGCCACTAAAGATAATATT
64 -AAACGCCGCTAAAGATCATGTT
*
37355775 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT-GGGAGAAA
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAGAAA
37355839 ACGCCGCTAAAGATCATGTT
66 ACGCCGCTAAAGATCATGTT
*
37355859 CTTTAGCGGCGCTTAGGAGGAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAGAA
1 CTTTAGCGGCGCTTAGGA-AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAGAA
37355924 AACGCCGCTAAAGATCATGTT
65 AACGCCGCTAAAGATCATGTT
* * *
37355945 CTTTAGCGGAGCGT-GGTCAAAAACGCCGCTAAA
1 CTTTAGCGGCGCTTAGG-AAAAAACGCCGCTAAA
37355978 AGTAGTGTTC
Statistics
Matches: 184, Mismatches: 15, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
84 37 0.20
85 94 0.51
86 40 0.22
87 13 0.07
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (85 bp):
CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAGAAA
ACGCCGCTAAAGATCATGTT
Found at i:37356043 original size:128 final size:127
Alignment explanation
Indices: 37355709--37355977 Score: 380
Period size: 127 Copynumber: 2.1 Consensus size: 127
37355699 CTTAAAGAAA
* * ** * *
37355709 AAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGC-TAAGAAAATAAACGCCACTAAAGATAATA
1 AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAGCA-AAACGCCACTAAAGATCATG
* * * *
37355773 TTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGGGAG
65 CTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGAGCGTGGCAG
* * *
37355836 AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAGGAAAACGCCGCTAAAGATCATGT
1 AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAGCAAAACGCCACTAAAGATCATGC
37355901 TCTTTAGCGGCGCTTAGGAAGAAAACGCCGCTAAAGATCATGTTCTTTAGCGGAGCGTGGTCA-
66 TCTTTAGCGGCGCTTAGGAA-AAAACGCCGCTAAAGATCATGTTCTTTAGCGGAGCGTGG-CAG
37355964 AAAACGCCGCTAAA
1 AAAACGCCGCTAAA
37355978 AGTAGTGTTC
Statistics
Matches: 129, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
127 72 0.56
128 56 0.43
129 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.22
Consensus pattern (127 bp):
AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAGCAAAACGCCACTAAAGATCATGC
TCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGAGCGTGGCAG
Found at i:37356492 original size:21 final size:21
Alignment explanation
Indices: 37356446--37356516 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
37356436 CTGCTTCTAT
**
37356446 CTCTGCTTCTTTCGCTGC-GAC
1 CTCTGCTTCCCTCGCTGCAG-C
* * * *
37356467 TTCTGCTTCTCTCGTTGTAGC
1 CTCTGCTTCCCTCGCTGCAGC
*
37356488 CTCTGCTTCCCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
37356509 CTCTGCTT
1 CTCTGCTT
37356517 TAAGTTGTTG
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
21 39 0.98
22 1 0.03
ACGTcount: A:0.03, C:0.39, G:0.18, T:0.39
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:37362001 original size:9 final size:9
Alignment explanation
Indices: 37361984--37362414 Score: 150
Period size: 9 Copynumber: 49.3 Consensus size: 9
37361974 TAAGTATAAT
*
37361984 TAAGCTATG
1 TAAGTTATG
37361993 TAAGTTATG
1 TAAGTTATG
37362002 T-A-TTATG
1 TAAGTTATG
37362009 TAAGTTAT-
1 TAAGTTATG
*
37362017 TTA-TTATG
1 TAAGTTATG
* *
37362025 AAAATTATG
1 TAAGTTATG
*
37362034 TAAGTTGTG
1 TAAGTTATG
37362043 T-A-TTATG
1 TAAGTTATG
*
37362050 -AA--AAT-
1 TAAGTTATG
* *
37362055 TATGCTATG
1 TAAGTTATG
37362064 TAAGTTATG
1 TAAGTTATG
* *
37362073 TAAGTCATA
1 TAAGTTATG
37362082 TAAGTTATG
1 TAAGTTATG
37362091 T-A-TTATG
1 TAAGTTATG
37362098 TAAGTTATG
1 TAAGTTATG
37362107 TAAGTTAT-
1 TAAGTTATG
*
37362115 TTA-TTATG
1 TAAGTTATG
* * *
37362123 AAAATTAAG
1 TAAGTTATG
37362132 TAAGTTATG
1 TAAGTTATG
*
37362141 TAA-TT-TA
1 TAAGTTATG
* *
37362148 TAAATAAT-
1 TAAGTTATG
***
37362156 TAAAAAAATG
1 T-AAGTTATG
37362166 TAAGTTATG
1 TAAGTTATG
*
37362175 TAAGTTGTG
1 TAAGTTATG
37362184 TAAGTTAT-
1 TAAGTTATG
**
37362192 TAA-TTAAC
1 TAAGTTATG
37362200 TAAGTTATG
1 TAAGTTATG
*
37362209 TAATTTATG
1 TAAGTTATG
*
37362218 TATAATATTAATG
1 --TAA-GTT-ATG
37362231 TAAGTTATG
1 TAAGTTATG
*
37362240 TAATTTATG
1 TAAGTTATG
37362249 TATA-TTAAT-
1 TA-AGTT-ATG
37362258 TAA-TTATG
1 TAAGTTATG
*
37362266 TAATTTATG
1 TAAGTTATG
* *
37362275 TATAATATTAAAG
1 --TAA-GTT-ATG
37362288 TAAGTTATG
1 TAAGTTATG
*
37362297 TAATTTATG
1 TAAGTTATG
*
37362306 -AA-TAAT-
1 TAAGTTATG
***
37362312 TAAAAAAATG
1 T-AAGTTATG
37362322 TAAGTTATG
1 TAAGTTATG
37362331 TAAG-T-TG
1 TAAGTTATG
37362338 TAAGTTATG
1 TAAGTTATG
37362347 TAAGTTATG
1 TAAGTTATG
*
37362356 TATA-ATAT-
1 TA-AGTTATG
37362364 TAA-TTAAT-
1 TAAGTT-ATG
37362372 TAAGTTATG
1 TAAGTTATG
*
37362381 TAATTTATG
1 TAAGTTATG
*
37362390 TATAATATTAATG
1 --TAA-GTT-ATG
37362403 TAAGTTATG
1 TAAGTTATG
37362412 TAA
1 TAA
37362415 TTTGTGTATA
Statistics
Matches: 323, Mismatches: 54, Indels: 90
0.69 0.12 0.19
Matches are distributed among these distances:
6 3 0.01
7 45 0.14
8 44 0.14
9 187 0.58
10 12 0.04
11 18 0.06
12 6 0.02
13 8 0.02
ACGTcount: A:0.40, C:0.01, G:0.14, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:37362010 original size:16 final size:16
Alignment explanation
Indices: 37361989--37362108 Score: 96
Period size: 16 Copynumber: 7.9 Consensus size: 16
37361979 ATAATTAAGC
37361989 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
37362005 TATGTAAGTTATTTAT
1 TATGTAAGTTATGTAT
37362021 TATG-AA---A---AT
1 TATGTAAGTTATGTAT
*
37362030 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
* * *
37362046 TATGAAAATTATG--C
1 TATGTAAGTTATGTAT
37362060 TATGTAAGTTATGTAAGT
1 TATGTAAGTTATGT-A-T
* *
37362078 CATATAAGTTATGTAT
1 TATGTAAGTTATGTAT
37362094 TATGTAAGTTATGTA
1 TATGTAAGTTATGTA
37362109 AGTTATTTAT
Statistics
Matches: 80, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
9 6 0.08
10 2 0.03
12 1 0.01
14 11 0.14
15 2 0.03
16 45 0.56
17 1 0.01
18 12 0.15
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.46
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:37362031 original size:25 final size:25
Alignment explanation
Indices: 37362003--37362142 Score: 142
Period size: 25 Copynumber: 5.7 Consensus size: 25
37361993 TAAGTTATGT
*
37362003 ATTATGTAAGTTATTTATTATGAAA
1 ATTATGTAAGTTATGTATTATGAAA
*
37362028 ATTATGTAAGTTGTGTATTATGAAA
1 ATTATGTAAGTTATGTATTATGAAA
* * *
37362053 ATTATGCTATG-TAAG--TTATGTAA
1 ATTATG-TAAGTTATGTATTATGAAA
* * * *
37362076 GTCATATAAGTTATGTATTATGTAA
1 ATTATGTAAGTTATGTATTATGAAA
* *
37362101 GTTATGTAAGTTATTTATTATGAAA
1 ATTATGTAAGTTATGTATTATGAAA
*
37362126 ATTAAGTAAGTTATGTA
1 ATTATGTAAGTTATGTA
37362143 ATTTATAAAT
Statistics
Matches: 93, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
22 3 0.03
23 13 0.14
25 74 0.80
26 3 0.03
ACGTcount: A:0.37, C:0.01, G:0.16, T:0.45
Consensus pattern (25 bp):
ATTATGTAAGTTATGTATTATGAAA
Found at i:37362152 original size:25 final size:25
Alignment explanation
Indices: 37362082--37362304 Score: 61
Period size: 25 Copynumber: 8.7 Consensus size: 25
37362072 GTAAGTCATA
* * *
37362082 TAAGTTATGT-ATTATGTAAGTTATG
1 TAAGTTATGTAATT-TATAAATTAAG
*
37362107 TAAGTTAT-TTA-TTATGAAAATTAAG
1 TAAGTTATGTAATTTAT--AAATTAAG
*
37362132 TAAGTTATGTAATTTATAAA-TAAT
1 TAAGTTATGTAATTTATAAATTAAG
*** * * **
37362156 TAAAAAAATGTAAGTTATGTAAGTTGTG
1 T-AAGTTATGTAA-TT-TATAAATTAAG
* * *
37362184 TAAGTTAT-TAATTAACTAAGTTATG
1 TAAGTTATGTAATTTA-TAAATTAAG
* *
37362209 TAATTTATGT-A--TA-ATATTAATG
1 TAAGTTATGTAATTTATAAATTAA-G
* *
37362231 TAAGTTATGTAATTTATGTATATTAAT
1 TAAGTTATGTAATTTA--TAAATTAAG
37362258 TAA-TTATGTAATTTATGTATAATATTAAAG
1 TAAGTTATGTAA--T-T-TATAA-ATT-AAG
37362288 TAAGTTATGTAATTTAT
1 TAAGTTATGTAATTTAT
37362305 GAATAATTAA
Statistics
Matches: 145, Mismatches: 28, Indels: 48
0.66 0.13 0.22
Matches are distributed among these distances:
21 4 0.03
22 10 0.07
23 4 0.03
24 6 0.04
25 54 0.37
26 16 0.11
27 18 0.12
28 13 0.09
29 5 0.03
30 7 0.05
31 8 0.06
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.46
Consensus pattern (25 bp):
TAAGTTATGTAATTTATAAATTAAG
Found at i:37362223 original size:68 final size:64
Alignment explanation
Indices: 37362095--37362299 Score: 178
Period size: 68 Copynumber: 3.2 Consensus size: 64
37362085 GTTATGTATT
* * * **
37362095 ATGTAAGTTATGTAAGTTATTTA-TTATGAAAATTAAGTAAGTTATGTAATTTATAAATAATTAA
1 ATGTAAGTTATGTAAGTT-TTAAGTTAT--TAATTAACTAAGTTATGTAATTTATGTATAATT--
37362159 AAAA
61 AAAA
**
37362163 ATGTAAGTTATGTAAGTTGTGTAAGTTATTAATTAACTAAGTTATGTAATTTATGTATAA-TATT
1 ATGTAAGTTATGTAAGTT-T-TAAGTTATTAATTAACTAAGTTATGTAATTTATGTATAATTAAA
37362227 A
64 A
* * *
37362228 ATGTAAGTTATGTAA--TTTATG-TA-T-ATTAATTAA-TTATGTAATTTATGTATAA-TATTAA
1 ATGTAAGTTATGTAAGTTTTAAGTTATTAATTAACTAAGTTATGTAATTTATGTATAATTA-AAA
37362286 A-GTAAGTTATGTAA
1 ATGTAAGTTATGTAA
37362300 TTTATGAATA
Statistics
Matches: 123, Mismatches: 11, Indels: 17
0.81 0.07 0.11
Matches are distributed among these distances:
57 34 0.28
58 11 0.09
59 1 0.01
60 2 0.02
61 3 0.02
62 1 0.01
63 1 0.01
65 17 0.14
67 1 0.01
68 46 0.37
69 2 0.02
70 4 0.03
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.45
Consensus pattern (64 bp):
ATGTAAGTTATGTAAGTTTTAAGTTATTAATTAACTAAGTTATGTAATTTATGTATAATTAAAA
Found at i:37362238 original size:31 final size:31
Alignment explanation
Indices: 37362200--37362656 Score: 415
Period size: 31 Copynumber: 15.0 Consensus size: 31
37362190 ATTAATTAAC
37362200 TAAGTTATGTAATTTATGTATAATATTAATG
1 TAAGTTATGTAATTTATGTATAATATTAATG
37362231 TAAGTTATGTAATTTATG--T-ATATTAAT-
1 TAAGTTATGTAATTTATGTATAATATTAATG
*
37362258 TAA-TTATGTAATTTATGTATAATATTAAAG
1 TAAGTTATGTAATTTATGTATAATATTAATG
* **
37362288 TAAGTTATGTAATTTATGAATAATTAAAAAAATG
1 TAAGTTATGTAATTTATGTATAA-T--ATTAATG
* *
37362322 TAAGTTATGTAA-GT-TG--TAA-GTT-ATG
1 TAAGTTATGTAATTTATGTATAATATTAATG
* *
37362347 TAAGTTATGT-A--TA-ATATTA-ATTAAT-
1 TAAGTTATGTAATTTATGTATAATATTAATG
37362372 TAAGTTATGTAATTTATGTATAATATTAATG
1 TAAGTTATGTAATTTATGTATAATATTAATG
* *
37362403 TAAGTTATGTAATTTGTGTATAATATTAAAG
1 TAAGTTATGTAATTTATGTATAATATTAATG
* * **
37362434 TAAGTTATGT-ATAATATGAATAATTAAAAAAATG
1 TAAGTTATGTAAT-TTATGTATAA-T--ATTAATG
*
37362468 TAAGTTATGTAAGTTGTAAGTTATGTATAATATTAATTAAT
1 TAAGTTATGTAA----T---TTATGTATAATATTAA-T--G
37362509 TAAGTTATGTAATTTATGTATAATATTAATG
1 TAAGTTATGTAATTTATGTATAATATTAATG
*
37362540 TAAGTTATGTAATTTATGTATATTAATTAAT-
1 TAAGTTATGTAATTTATGTATAAT-ATTAATG
37362571 TAAGTTATGTAATTTATGTATAATATTAATG
1 TAAGTTATGTAATTTATGTATAATATTAATG
* *
37362602 TAAGTTATGT-A--TA-ATATTA-ATTAAT-
1 TAAGTTATGTAATTTATGTATAATATTAATG
37362627 TAAGTTATGTAATTTATGTATAATATTAAT
1 TAAGTTATGTAATTTATGTATAATATTAAT
37362657 TAATTAATTA
Statistics
Matches: 352, Mismatches: 35, Indels: 79
0.76 0.08 0.17
Matches are distributed among these distances:
23 1 0.00
24 1 0.00
25 37 0.11
26 24 0.07
27 7 0.02
28 15 0.04
29 16 0.05
30 27 0.08
31 138 0.39
32 10 0.03
33 2 0.01
34 46 0.13
35 1 0.00
37 1 0.00
38 3 0.01
39 2 0.01
40 1 0.00
41 20 0.06
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.46
Consensus pattern (31 bp):
TAAGTTATGTAATTTATGTATAATATTAATG
Found at i:37362341 original size:16 final size:16
Alignment explanation
Indices: 37362320--37362352 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
37362310 ATTAAAAAAA
37362320 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
37362336 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
37362352 T
1 T
37362353 ATGTATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:37362341 original size:50 final size:50
Alignment explanation
Indices: 37362287--37362383 Score: 133
Period size: 50 Copynumber: 1.9 Consensus size: 50
37362277 TAATATTAAA
*
37362287 GTAAGTTATGTAATTTATGAATAAT-TAAAAAAATGTAAGTTATGTAAGTT
1 GTAAGTTATGTAAGTTATGAATAATATAAAAAAAT-TAAGTTATGTAAGTT
* * **
37362337 GTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAA
1 GTAAGTTATGTAAGTTATGAATAATATAAAAAAATTAAGTTATGTAA
37362384 TTTATGTATA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
50 35 0.85
51 6 0.15
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (50 bp):
GTAAGTTATGTAAGTTATGAATAATATAAAAAAATTAAGTTATGTAAGTT
Found at i:37362357 original size:34 final size:33
Alignment explanation
Indices: 37362004--37362612 Score: 126
Period size: 34 Copynumber: 18.2 Consensus size: 33
37361994 AAGTTATGTA
* *
37362004 TTATGTAAGTTAT-TTATTATGAAAATTATGTAAG
1 TTATGTAAGTTATGTAATTATG-TAATT-TGTAAG
* *
37362038 TTGTGT-A-TTATGAAAATTATGCT-A--TGTAAG
1 TTATGTAAGTTATG-TAATTATG-TAATTTGTAAG
* *
37362068 TTATGTAAGTCATATAAGTTATGT-ATTATGTAAG
1 TTATGTAAGTTATGTAA-TTATGTAATT-TGTAAG
* * *
37362102 TTATGTAAGTTAT-TTATTATGAAAATTAAGTAAG
1 TTATGTAAGTTATGTAATTATG-TAATT-TGTAAG
* * ** **
37362136 TTATGTAATTTATAAATAATTA-AAAAAATGTAAG
1 TTATGTAAGTTAT--GTAATTATGTAATTTGTAAG
* **
37362170 TTATGTAAGTTGTGTAAGTTAT-TAATTAACTAAG
1 TTATGTAAGTTATGTAA-TTATGTAATT-TGTAAG
* *
37362204 TTATGTAATTTATGTATAATAT-TAA--TGTAAG
1 TTATGTAAGTTATGTA-ATTATGTAATTTGTAAG
* *
37362235 TTATGTAATTTATGTATATTAAT-TAATTATGTAAT
1 TTATGTAAGTTATGTA-ATT-ATGTAATT-TGTAAG
* * *
37362270 TTATGTATAATATTAAAGTAAGTTATGTAATTTATGAA-
1 TTATG--TAA-GTT-ATGTAA-TTATGTAATTTGT-AAG
* *** *
37362308 TAAT-TAAAAAAATGTAAGTTATGTAAGTTGTAAG
1 TTATGT-AAGTTATGTAA-TTATGTAATTTGTAAG
*
37362342 TTATGTAAGTTATGTATAATAT-TAATTAAT-TAAG
1 TTATGTAAGTTATGTA-ATTATGTAATT--TGTAAG
* *
37362376 TTATGTAATTTATGTATAATAT-TAA--TGTAAG
1 TTATGTAAGTTATGTA-ATTATGTAATTTGTAAG
* * * *
37362407 TTATGTAATTTGTGTATAATAT-TAA--AGTAAG
1 TTATGTAAGTTATGTA-ATTATGTAATTTGTAAG
*
37362438 TTATGTATA-ATATGAATAATTAAAAAAATGTAAGTTATGTAAG
1 TTATGTA-AGTTATG--TAATT------ATGTAA-TT-TGTAAG
*
37362481 -T-TGTAAGTTATGTATAATAT-TAATTAAT-TAAG
1 TTATGTAAGTTATGTA-ATTATGTAATT--TGTAAG
* *
37362513 TTATGTAATTTATGTATAATAT-TAA--TGTAAG
1 TTATGTAAGTTATGTA-ATTATGTAATTTGTAAG
*
37362544 TTATGTAATTTATGT-A-TAT-TAATTAAT-TAAG
1 TTATGTAAGTTATGTAATTATGTAATT--TGTAAG
* *
37362575 TTATGTAATTTATGTATAATAT-TAA--TGTAAG
1 TTATGTAAGTTATGTA-ATTATGTAATTTGTAAG
37362606 TTATGTA
1 TTATGTA
37362613 TAATATTAAT
Statistics
Matches: 453, Mismatches: 59, Indels: 129
0.71 0.09 0.20
Matches are distributed among these distances:
28 6 0.01
29 1 0.00
30 14 0.03
31 120 0.26
32 35 0.08
33 24 0.05
34 177 0.39
35 19 0.04
36 2 0.00
37 8 0.02
38 12 0.03
39 18 0.04
40 3 0.01
41 8 0.02
42 1 0.00
43 5 0.01
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.45
Consensus pattern (33 bp):
TTATGTAAGTTATGTAATTATGTAATTTGTAAG
Found at i:37362479 original size:9 final size:9
Alignment explanation
Indices: 37362465--37362646 Score: 63
Period size: 9 Copynumber: 20.6 Consensus size: 9
37362455 AATTAAAAAA
37362465 ATGTAAGTT
1 ATGTAAGTT
37362474 ATGTAAG-T
1 ATGTAAGTT
37362482 -TGTAAGTT
1 ATGTAAGTT
*
37362490 ATGTATA-AT
1 ATGTA-AGTT
37362499 AT-TAA-TT
1 ATGTAAGTT
37362506 AAT-TAAGTT
1 -ATGTAAGTT
*
37362515 ATGTAATTT
1 ATGTAAGTT
*
37362524 ATGTATAATATT
1 ATG--TAA-GTT
37362536 AATGTAAGTT
1 -ATGTAAGTT
*
37362546 ATGTAATTT
1 ATGTAAGTT
37362555 ATGT-A--T
1 ATGTAAGTT
37362561 AT-TAA-TT
1 ATGTAAGTT
37362568 AAT-TAAGTT
1 -ATGTAAGTT
*
37362577 ATGTAATTT
1 ATGTAAGTT
*
37362586 ATGTATAATATT
1 ATG--TAA-GTT
37362598 AATGTAAGTT
1 -ATGTAAGTT
*
37362608 ATGTATA-AT
1 ATGTA-AGTT
37362617 AT-TAA-TT
1 ATGTAAGTT
37362624 AAT-TAAGTT
1 -ATGTAAGTT
*
37362633 ATGTAATTT
1 ATGTAAGTT
37362642 ATGTA
1 ATGTA
37362647 TAATATTAAT
Statistics
Matches: 138, Mismatches: 12, Indels: 46
0.70 0.06 0.23
Matches are distributed among these distances:
5 1 0.01
6 4 0.03
7 11 0.08
8 28 0.20
9 66 0.48
10 6 0.04
11 12 0.09
12 4 0.03
13 6 0.04
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:37362547 original size:22 final size:22
Alignment explanation
Indices: 37362515--37362622 Score: 97
Period size: 22 Copynumber: 5.1 Consensus size: 22
37362505 TAATTAAGTT
*
37362515 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
37362537 ATGTAAGTTATG--TAAT-TT-
1 ATGTAAGTTATGTATAATATTA
*
37362555 ATGTATA-TTAAT-TAATTAA-GTT-
1 ATGTA-AGTT-ATGT-A-TAATATTA
*
37362577 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
37362599 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
37362621 AT
1 AT
37362623 TAATTAAGTT
Statistics
Matches: 72, Mismatches: 3, Indels: 22
0.74 0.03 0.23
Matches are distributed among these distances:
18 7 0.10
19 5 0.07
20 7 0.10
21 6 0.08
22 47 0.65
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:37362594 original size:137 final size:137
Alignment explanation
Indices: 37362328--37362581 Score: 433
Period size: 137 Copynumber: 1.9 Consensus size: 137
37362318 AATGTAAGTT
37362328 ATGTAAGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTAT
1 ATGTAAGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTAT
*
37362393 AATATTAATGTAAGTTATGTAATTTGTGTATAATATTAAAGTAAGTTATGTATAATATGAATAAT
66 AATATTAATGTAAGTTATGTAATTTATGTATAATATTAAAGTAAGTTATGTATAATATGAATAAT
37362458 TAAAAAA
131 TAAAAAA
37362465 ATGTAAGTTATGTAAG-T-TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGT
1 ATGTAAG-T-TGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGT
* *
37362528 ATAATATTAATGTAAGTTATGTAATTTATGTATATTAATT-AATTAAGTTATGTA
64 ATAATATTAATGTAAGTTATGTAATTTATGTATAAT-ATTAAAGTAAGTTATGTA
37362582 ATTTATGTAT
Statistics
Matches: 111, Mismatches: 3, Indels: 6
0.93 0.03 0.05
Matches are distributed among these distances:
137 100 0.90
138 5 0.05
139 6 0.05
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.46
Consensus pattern (137 bp):
ATGTAAGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTAT
AATATTAATGTAAGTTATGTAATTTATGTATAATATTAAAGTAAGTTATGTATAATATGAATAAT
TAAAAAA
Found at i:37362626 original size:4 final size:4
Alignment explanation
Indices: 37362617--37362675 Score: 50
Period size: 4 Copynumber: 14.2 Consensus size: 4
37362607 TATGTATAAT
* *
37362617 ATTA ATTA ATTA AGTT- ATGTA ATTT ATGTA TAATA -TTA ATTA ATTA
1 ATTA ATTA ATTA A-TTA AT-TA ATTA AT-TA -ATTA ATTA ATTA ATTA
37362663 ATTA ATTA ATTA A
1 ATTA ATTA ATTA A
37362676 GTTATGTAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
3 3 0.07
4 34 0.76
5 7 0.16
6 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (4 bp):
ATTA
Found at i:37362644 original size:34 final size:34
Alignment explanation
Indices: 37362599--37362663 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
37362589 TATAATATTA
37362599 ATGTAAGTTATGTATAATATTAATTAATTAAGTT
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTT
*
37362633 ATGTAATTTATGTATAATATTAATTAATTAA
1 ATGTAAGTTATGTATAATATTAATTAATTAA
37362664 TTAATTAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (34 bp):
ATGTAAGTTATGTATAATATTAATTAATTAAGTT
Found at i:37362977 original size:18 final size:18
Alignment explanation
Indices: 37362955--37362997 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
37362945 AAAAATCAGA
37362955 AAAAATAACAAAAAATTT
1 AAAAATAACAAAAAATTT
* ** *
37362973 TAAAATTTCAACAAATTT
1 AAAAATAACAAAAAATTT
37362991 AAAAATA
1 AAAAATA
37362998 TTCATAAAAA
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (18 bp):
AAAAATAACAAAAAATTT
Found at i:37363310 original size:18 final size:18
Alignment explanation
Indices: 37363287--37363375 Score: 110
Period size: 18 Copynumber: 4.8 Consensus size: 18
37363277 ATATATAAAT
37363287 TTTAAGTAATGTAATATA
1 TTTAAGTAATGTAATATA
37363305 TTTAAGTAATGTAAGTTATAAA
1 TTTAAGTAATGTAA--TAT--A
*
37363327 TTTTAGTAA-GTAATATA
1 TTTAAGTAATGTAATATA
37363344 TTTAAGTAATGTAATATA
1 TTTAAGTAATGTAATATA
*
37363362 TTTTAGTAA-GTAAT
1 TTTAAGTAATGTAAT
37363376 GTAAGTAATG
Statistics
Matches: 63, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
17 14 0.22
18 30 0.48
19 3 0.05
20 3 0.05
21 4 0.06
22 9 0.14
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (18 bp):
TTTAAGTAATGTAATATA
Found at i:37363351 original size:39 final size:38
Alignment explanation
Indices: 37363260--37363375 Score: 157
Period size: 39 Copynumber: 3.0 Consensus size: 38
37363250 AGCTAATTTT
37363260 TATTTAAGTAATGTAATATATATAAATTTTAAGTAATGTAATA
1 TATTTAAGTAATGT-A-AT-TATAAATTTT-AGTAA-GTAATA
37363303 TATTTAAGTAATGTAAGTTATAAATTTTAGTAAGTAATA
1 TATTTAAGTAATGTAA-TTATAAATTTTAGTAAGTAATA
37363342 TATTTAAGTAATGTAA-TAT--ATTTTAGTAAGTAAT
1 TATTTAAGTAATGTAATTATAAATTTTAGTAAGTAAT
37363376 GTAAGTAATG
Statistics
Matches: 72, Mismatches: 0, Indels: 10
0.88 0.00 0.12
Matches are distributed among these distances:
35 15 0.21
37 3 0.04
39 22 0.31
40 5 0.07
41 11 0.15
42 2 0.03
43 14 0.19
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.45
Consensus pattern (38 bp):
TATTTAAGTAATGTAATTATAAATTTTAGTAAGTAATA
Found at i:37363409 original size:57 final size:55
Alignment explanation
Indices: 37363264--37363422 Score: 137
Period size: 57 Copynumber: 2.8 Consensus size: 55
37363254 AATTTTTATT
*
37363264 TAAGTAATGTAATATATATAAATTTTAAGTAATGTAATATATTTAAGTAATGTAAG
1 TAAGTAATGTAATATATATTAATTTT-AGTAATGTAATATATTTAAGTAATGTAAG
* * * * * *
37363320 TTA-TAAATTTTAGTA-AGTAATATATTTAAGTAATGTAATATATTTTAGTAA-GTAATG
1 TAAGT-AA-TGTAATATA-TATTA-ATTTTAGTAATGTAATATATTTAAGTAATGTAA-G
* *
37363377 TAAGTAATGTAATATATACTGTAATTTTAGTAA-GTCATGTATTTAA
1 TAAGTAATGTAATATATA-T-TAATTTTAGTAATGTAATATATTTAA
37363423 CATTCTGTTA
Statistics
Matches: 79, Mismatches: 15, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
55 1 0.01
56 26 0.33
57 45 0.57
58 7 0.09
ACGTcount: A:0.43, C:0.01, G:0.13, T:0.43
Consensus pattern (55 bp):
TAAGTAATGTAATATATATTAATTTTAGTAATGTAATATATTTAAGTAATGTAAG
Found at i:37366510 original size:114 final size:114
Alignment explanation
Indices: 37366364--37366918 Score: 776
Period size: 114 Copynumber: 4.9 Consensus size: 114
37366354 TAAATTATTT
* * * * *
37366364 TAAATCCTTGAGCATTAGCGGCGCTTTCCTAAAAACGCCGCTAAATCCCCGACAGCTCAGAAAAC
1 TAAATCCCTGAGCATTAGCGGCGCTTTACTAGAAATGCCACTAAATCCCCGACAGCTCAGAAAAC
**
37366429 GGCGTCGTTGGTCTTAGGTATTTTTGCGACGCTTTCCCAAAAACGCCGC
66 GGCGTCGTTGGTCTTAGGTATTTTTGCGGTGCTTTCCCAAAAACGCCGC
* * * * *
37366478 TAAATCCCTGAGCATTAGCGGCGCTTTTCTAAAAATGCCGCTAAAACCCCGACAGCTCAAAAAAC
1 TAAATCCCTGAGCATTAGCGGCGCTTTACTAGAAATGCCACTAAATCCCCGACAGCTCAGAAAAC
*
37366543 GGCGTCGTTGGTCTTAGGTATTTTTGCGGTGCTTTCCCAGAAACGCCGC
66 GGCGTCGTTGGTCTTAGGTATTTTTGCGGTGCTTTCCCAAAAACGCCGC
* * * ** **
37366592 TAAAGCTCTAAGCATTAGCGGCGC-TTACATAGAAGCGCCACTAAATCCCTAACAGCTCAGAAAA
1 TAAATCCCTGAGCATTAGCGGCGCTTTAC-TAGAAATGCCACTAAATCCCCGACAGCTCAGAAAA
37366656 CGGCGTCGTTGGTCTTAGGTATTTTTGCGGTGCTTTCCCAAAAACGCCGC
65 CGGCGTCGTTGGTCTTAGGTATTTTTGCGGTGCTTTCCCAAAAACGCCGC
37366706 TAAATCCCTGAGCATTAGCGGCGC-TTACCTAGAAATGCCACTAAATCCCCGACAGCTCAGAAAA
1 TAAATCCCTGAGCATTAGCGGCGCTTTA-CTAGAAATGCCACTAAATCCCCGACAGCTCAGAAAA
* * * *
37366770 CAGCGTCGTTGGCCTTAGGTATTTTTGTGGTGCTTTCCCAAAAATGCCGC
65 CGGCGTCGTTGGTCTTAGGTATTTTTGCGGTGCTTTCCCAAAAACGCCGC
* *
37366820 TAAATCCCTGAGCATTAGCGGCGC-TTACTTAGAAATGCCACTAAATCCCCGAAAGCTCCGAAAA
1 TAAATCCCTGAGCATTAGCGGCGCTTTAC-TAGAAATGCCACTAAATCCCCGACAGCTCAGAAAA
* * * * *
37366884 TGGCGTCCTTGGGCTTAGGT-TTTTTGTGGCGCTTT
65 CGGCGTCGTTGGTCTTAGGTATTTTTGCGGTGCTTT
37366919 TCTGGAAACG
Statistics
Matches: 399, Mismatches: 39, Indels: 7
0.90 0.09 0.02
Matches are distributed among these distances:
113 18 0.05
114 380 0.95
115 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (114 bp):
TAAATCCCTGAGCATTAGCGGCGCTTTACTAGAAATGCCACTAAATCCCCGACAGCTCAGAAAAC
GGCGTCGTTGGTCTTAGGTATTTTTGCGGTGCTTTCCCAAAAACGCCGC
Found at i:37370193 original size:26 final size:26
Alignment explanation
Indices: 37370164--37370217 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
37370154 CTCAGTACAA
* * *
37370164 TTTCAGAAAGAAGTAACTATAGTTTT
1 TTTCAAAAAGAACTAACTATAGTGTT
**
37370190 TTTCAAAAAGTTCTAACTATAGTGTT
1 TTTCAAAAAGAACTAACTATAGTGTT
37370216 TT
1 TT
37370218 CTAAATTCAG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.35, C:0.09, G:0.13, T:0.43
Consensus pattern (26 bp):
TTTCAAAAAGAACTAACTATAGTGTT
Found at i:37374630 original size:26 final size:26
Alignment explanation
Indices: 37374565--37374641 Score: 93
Period size: 26 Copynumber: 3.0 Consensus size: 26
37374555 AGGGTTACCG
** *
37374565 ATTTTAGCTCTTATGAGCTTACCATT
1 ATTTTAGCTCAGAGGAGCTTACCATT
* *
37374591 A-TTTAGGTCAGAGGAGCTTACCGTT
1 ATTTTAGCTCAGAGGAGCTTACCATT
*
37374616 ATTTTAGCTCGGAGGAGCTTACCATT
1 ATTTTAGCTCAGAGGAGCTTACCATT
37374642 TACAGCTCGT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
25 20 0.48
26 22 0.52
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTTAGCTCAGAGGAGCTTACCATT
Found at i:37375238 original size:56 final size:56
Alignment explanation
Indices: 37375171--37375359 Score: 141
Period size: 56 Copynumber: 3.2 Consensus size: 56
37375161 TGATTTGGCT
*
37375171 TGTGTTTTGGTATATTTTGCTATGTAGATATATAAATGGTCTTATCATGTTTGATG
1 TGTGGTTTGGTATATTTTGCTATGTAGATATATAAATGGTCTTATCATGTTTGATG
* * * * * * * * * *
37375227 TGTGGTTTGGTATGGTTAATGATA-GCCTACATGTTTTATTAT-GTTTTAGCCATTTGATTTGGC
1 TGTGGTTTGGTAT-ATT-TTGCTATG--TAGAT-ATATA-AATGGTCTTA-TCA--TG-TTT-GA
37375290 T-
55 TG
* *
37375291 TGTGTTTTGGTATATTTTGCTATGTAGATATATAAATGGCCTTATCATGTTTGATG
1 TGTGGTTTGGTATATTTTGCTATGTAGATATATAAATGGTCTTATCATGTTTGATG
37375347 TGTGGTTTGGTAT
1 TGTGGTTTGGTAT
37375360 GGTTAACATG
Statistics
Matches: 95, Mismatches: 24, Indels: 28
0.65 0.16 0.19
Matches are distributed among these distances:
55 2 0.02
56 27 0.28
57 5 0.05
58 4 0.04
59 8 0.08
60 15 0.16
61 8 0.08
62 4 0.04
63 5 0.05
64 15 0.16
65 2 0.02
ACGTcount: A:0.21, C:0.07, G:0.23, T:0.49
Consensus pattern (56 bp):
TGTGGTTTGGTATATTTTGCTATGTAGATATATAAATGGTCTTATCATGTTTGATG
Found at i:37375278 original size:120 final size:120
Alignment explanation
Indices: 37375119--37375365 Score: 485
Period size: 120 Copynumber: 2.1 Consensus size: 120
37375109 ATAGTTATTT
37375119 TGGTTAATGATAGCCTACATGTTTTATTATGTTTTAGCCATTTGATTTGGCTTGTGTTTTGGTAT
1 TGGTTAATGATAGCCTACATGTTTTATTATGTTTTAGCCATTTGATTTGGCTTGTGTTTTGGTAT
*
37375184 ATTTTGCTATGTAGATATATAAATGGTCTTATCATGTTTGATGTGTGGTTTGGTA
66 ATTTTGCTATGTAGATATATAAATGGCCTTATCATGTTTGATGTGTGGTTTGGTA
37375239 TGGTTAATGATAGCCTACATGTTTTATTATGTTTTAGCCATTTGATTTGGCTTGTGTTTTGGTAT
1 TGGTTAATGATAGCCTACATGTTTTATTATGTTTTAGCCATTTGATTTGGCTTGTGTTTTGGTAT
37375304 ATTTTGCTATGTAGATATATAAATGGCCTTATCATGTTTGATGTGTGGTTTGGTA
66 ATTTTGCTATGTAGATATATAAATGGCCTTATCATGTTTGATGTGTGGTTTGGTA
37375359 TGGTTAA
1 TGGTTAA
37375366 CATGTAAATT
Statistics
Matches: 126, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 126 1.00
ACGTcount: A:0.21, C:0.08, G:0.23, T:0.49
Consensus pattern (120 bp):
TGGTTAATGATAGCCTACATGTTTTATTATGTTTTAGCCATTTGATTTGGCTTGTGTTTTGGTAT
ATTTTGCTATGTAGATATATAAATGGCCTTATCATGTTTGATGTGTGGTTTGGTA
Found at i:37377826 original size:19 final size:20
Alignment explanation
Indices: 37377802--37377840 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
37377792 CGTATGTATT
*
37377802 TTTTGC-ACATTTGAAATTC
1 TTTTGCTACATTTAAAATTC
37377821 TTTTGCTTACATTTAAAATT
1 TTTTGC-TACATTTAAAATT
37377841 TGATTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
21 11 0.65
ACGTcount: A:0.28, C:0.13, G:0.08, T:0.51
Consensus pattern (20 bp):
TTTTGCTACATTTAAAATTC
Found at i:37378286 original size:30 final size:31
Alignment explanation
Indices: 37378228--37378290 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
37378218 CTTAACAAGA
*
37378228 AAATGCCTCTAAAATAATAACAAAAATTAAC
1 AAATGACTCTAAAATAATAACAAAAATTAAC
*
37378259 AAATGACTTTAAAATAATAAC-AAAATTAAC
1 AAATGACTCTAAAATAATAACAAAAATTAAC
37378289 AA
1 AA
37378291 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 11 0.37
31 19 0.63
ACGTcount: A:0.60, C:0.13, G:0.03, T:0.24
Consensus pattern (31 bp):
AAATGACTCTAAAATAATAACAAAAATTAAC
Found at i:37378364 original size:11 final size:11
Alignment explanation
Indices: 37378326--37378365 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
37378316 AACAATAAAA
37378326 AAAATAGTAGC
1 AAAATAGTAGC
* * *
37378337 AACATAATAGT
1 AAAATAGTAGC
37378348 AAAATAGTAGC
1 AAAATAGTAGC
37378359 AAAATAG
1 AAAATAG
37378366 GGAGAAAGCA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.57, C:0.07, G:0.15, T:0.20
Consensus pattern (11 bp):
AAAATAGTAGC
Found at i:37379884 original size:17 final size:19
Alignment explanation
Indices: 37379857--37379891 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
37379847 CAAATTGAAA
37379857 ATACATTAAAA-AATATTT
1 ATACATTAAAACAATATTT
37379875 ATAC-TTAAAACAATATT
1 ATACATTAAAACAATATT
37379892 AAGGATGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (19 bp):
ATACATTAAAACAATATTT
Found at i:37380521 original size:3 final size:3
Alignment explanation
Indices: 37380513--37380537 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
37380503 TGAAATCCAC
37380513 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
37380538 TTTTCTACCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:37381106 original size:16 final size:17
Alignment explanation
Indices: 37381032--37381108 Score: 59
Period size: 16 Copynumber: 4.3 Consensus size: 17
37381022 TAAGATAACA
37381032 TTTAAATAAATATAT-GT
1 TTTAAA-AAATATATAGT
* *
37381049 TTTAAAAATTATTTAGT
1 TTTAAAAAATATATAGT
*
37381066 TTTAAAACAAAGAAATATCAGT
1 TTT--AA-AAA-ATATAT-AGT
37381088 TTTAAAAAATATATA-T
1 TTTAAAAAATATATAGT
37381104 TTTAA
1 TTTAA
37381109 GAATATTAGT
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
16 12 0.25
17 12 0.25
18 5 0.10
19 5 0.10
20 5 0.10
21 3 0.06
22 6 0.12
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (17 bp):
TTTAAAAAATATATAGT
Found at i:37382418 original size:22 final size:22
Alignment explanation
Indices: 37382392--37382491 Score: 82
Period size: 22 Copynumber: 4.5 Consensus size: 22
37382382 TCAAGATAAA
37382392 TATTAAATTAAATATTAAATCT
1 TATTAAATTAAATATTAAATCT
*
37382414 TATTAAATT-AATA--AAATATT
1 TATTAAATTAAATATTAAAT-CT
* * *
37382434 TATTTACAAGATAAACAATAAAT-T
1 TA-TTA-AA-TTAAATATTAAATCT
*
37382458 AAATTAAATTAAATATTAAATCT
1 -TATTAAATTAAATATTAAATCT
37382481 TATTAAATTAA
1 TATTAAATTAA
37382492 TAAAATATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 18
0.70 0.09 0.21
Matches are distributed among these distances:
19 4 0.07
20 3 0.05
21 7 0.11
22 31 0.51
23 4 0.07
24 7 0.11
25 1 0.02
26 4 0.07
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (22 bp):
TATTAAATTAAATATTAAATCT
Found at i:37382458 original size:35 final size:35
Alignment explanation
Indices: 37382415--37382526 Score: 108
Period size: 35 Copynumber: 3.3 Consensus size: 35
37382405 ATTAAATCTT
37382415 ATTAAATTAATAAAATATTTATTTACAAGATAAAC
1 ATTAAATTAATAAAATATTTATTTACAAGATAAAC
* * ** ***
37382450 AATAAATTAAATTAAAT-TAAATATT--AA-AT-CTT
1 ATTAAATT-AATAAAATATTTAT-TTACAAGATAAAC
37382482 ATTAAATTAATAAAATATTTATTTACAAGATAAAC
1 ATTAAATTAATAAAATATTTATTTACAAGATAAAC
37382517 ATTAAATTAA
1 ATTAAATTAA
37382527 ATTTAATATT
Statistics
Matches: 56, Mismatches: 14, Indels: 14
0.67 0.17 0.17
Matches are distributed among these distances:
31 9 0.16
32 10 0.18
33 4 0.07
34 4 0.07
35 20 0.36
36 9 0.16
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.38
Consensus pattern (35 bp):
ATTAAATTAATAAAATATTTATTTACAAGATAAAC
Found at i:37382472 original size:67 final size:67
Alignment explanation
Indices: 37382393--37382538 Score: 265
Period size: 67 Copynumber: 2.1 Consensus size: 67
37382383 CAAGATAAAT
37382393 ATTAAATTAAATATTAAATCTTATTAAATTAATAAAATATTTATTTACAAGATAAACAATAAATT
1 ATTAAATTAAATATTAAATCTTATTAAATTAATAAAATATTTATTTACAAGATAAACAATAAATT
37382458 AA
66 AA
*
37382460 ATTAAATTAAATATTAAATCTTATTAAATTAATAAAATATTTATTTACAAGATAAACATTAAATT
1 ATTAAATTAAATATTAAATCTTATTAAATTAATAAAATATTTATTTACAAGATAAACAATAAATT
37382525 AA
66 AA
37382527 ATTTAATATTAA
1 A-TTAA-ATTAA
37382539 GATAATTACT
Statistics
Matches: 76, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
67 67 0.88
68 4 0.05
69 5 0.07
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.40
Consensus pattern (67 bp):
ATTAAATTAAATATTAAATCTTATTAAATTAATAAAATATTTATTTACAAGATAAACAATAAATT
AA
Found at i:37383004 original size:19 final size:19
Alignment explanation
Indices: 37382980--37383016 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
37382970 AAAATATCAT
37382980 ATTAATTTTAA-TTAATTTG
1 ATTAA-TTTAATTTAATTTG
37382999 ATTAATTTAATTTAATTT
1 ATTAATTTAATTTAATTT
37383017 AATTTTATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (19 bp):
ATTAATTTAATTTAATTTG
Found at i:37383010 original size:5 final size:5
Alignment explanation
Indices: 37382981--37383021 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
37382971 AAATATCATA
*
37382981 TTAATT TTAA- TTAAT TTGA- TTAAT TTAAT TTAAT TTAAT TT
1 TTAA-T TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TT
37383022 TATCAAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
4 7 0.23
5 20 0.65
6 4 0.13
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (5 bp):
TTAAT
Found at i:37383021 original size:10 final size:9
Alignment explanation
Indices: 37382980--37383020 Score: 55
Period size: 9 Copynumber: 4.3 Consensus size: 9
37382970 AAAATATCAT
37382980 ATTAATTTTA
1 ATTAA-TTTA
*
37382990 ATTAATTTG
1 ATTAATTTA
37382999 ATTAATTTA
1 ATTAATTTA
37383008 ATTTAATTTA
1 A-TTAATTTA
37383018 ATT
1 ATT
37383021 TTATCAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 14 0.50
10 14 0.50
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (9 bp):
ATTAATTTA
Done.