Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 16 of 163
Found at i:5437541 original size:216 final size:215
Alignment explanation
Indices: 5437167--5437788 Score: 987
Period size: 216 Copynumber: 2.9 Consensus size: 215
5437157 TCTTTGGAGG
5437167 AGTTGTCATCTTTGGAGGAGTTTGTTGCTTCAGAAAATCAATTAAACGGCCAAATTCCCTTGTCT
1 AGTTGTCATCTTTGGAGGAGTTTGTTGCTTCAGAAAATCAATTAAACGGCCAAATTCCCTTGTCT
5437232 ATAGGGCAGTTGTCATCTTTGGAGGAGTTTGATGTTTCAGAAAATCAGTTAAATGGTCAAATCCC
66 ATAGGGCAGTTGTCATCTTTGGAGGAGTTTGATGTTTCAGAAAATCAGTTAAATGGTCAAATCCC
* *
5437297 ATTGTCTATAGGGGAGTTATCGTCTTTGAAGTTGTTTGTTGTTTCAAACAATCAATTAAACGGCC
131 ATTGTCTATAGGGGAGTTATCATCTTTGAAGTTGTTTGATGTTTCAAA-AATCAATTAAACGGCC
5437362 AAATTCCCTTGTCTATAGGGC
195 AAATTCCCTTGTCTATAGGGC
*
5437383 AGTTGTCATCTTTGGAGAAGTTTGTTGCTTCAGAAAATCAATTAAACGGCCAAATTCCCTTGTCT
1 AGTTGTCATCTTTGGAGGAGTTTGTTGCTTCAGAAAATCAATTAAACGGCCAAATTCCCTTGTCT
*
5437448 ATAGGGCAGTTGTCATCTTTGGAGGAGTTTGATGTTTCAGAAAATCAATTAAATGGTCAAATCCC
66 ATAGGGCAGTTGTCATCTTTGGAGGAGTTTGATGTTTCAGAAAATCAGTTAAATGGTCAAATCCC
*
5437513 ATTGTCTATAGGGGAGTTATCATCTTTGAAGTTGTTTGATGTTTCAAAAAATCAGTTAAACGGCC
131 ATTGTCTATAGGGGAGTTATCATCTTTGAAGTTGTTTGATGTTTC-AAAAATCAATTAAACGGCC
5437578 AAATTCCCTTGTCTATAGGGC
195 AAATTCCCTTGTCTATAGGGC
** * * *
5437599 AGTTGTCATCTTTGGAGGAGTTTAATGTTTCAGAAAATCAATTAAATGGTCAAA-TCCCATTGTC
1 AGTTGTCATCTTTGGAGGAGTTTGTTGCTTCAGAAAATCAATTAAACGGCCAAATTCCC-TTGTC
* * * ** * * *
5437663 TATAGGGGAGTTATCATCTTTGAAGTTGTTTGATGTTTCAAAAAATCAGTTAAACGGCCAAATTC
65 TATAGGGCAGTTGTCATCTTTGGAGGAGTTTGATGTTTCAGAAAATCAGTTAAATGGTCAAA-TC
* * * *
5437728 CC-TTGTCTATAGGGCAGTTATCATCTTTGGAGGTATTTGATGTTTCAGAAAATCAATTAAA
129 CCATTGTCTATAGGGGAGTTATCATCTTTGAAGTTGTTTGATGTTTCA-AAAATCAATTAAA
5437789 TGGTACTTTT
Statistics
Matches: 377, Mismatches: 25, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
215 5 0.01
216 365 0.97
217 7 0.02
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (215 bp):
AGTTGTCATCTTTGGAGGAGTTTGTTGCTTCAGAAAATCAATTAAACGGCCAAATTCCCTTGTCT
ATAGGGCAGTTGTCATCTTTGGAGGAGTTTGATGTTTCAGAAAATCAGTTAAATGGTCAAATCCC
ATTGTCTATAGGGGAGTTATCATCTTTGAAGTTGTTTGATGTTTCAAAAATCAATTAAACGGCCA
AATTCCCTTGTCTATAGGGC
Found at i:5441109 original size:31 final size:32
Alignment explanation
Indices: 5441074--5441133 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
5441064 ATTTTAAAAG
*
5441074 TTCAAAGAAATAT-ATAAAAAATATAAATATT
1 TTCAAAAAAATATAATAAAAAATATAAATATT
* *
5441105 TTCAAAAAAATATAATAATAAATTTAAAT
1 TTCAAAAAAATATAATAAAAAATATAAAT
5441134 TTTATATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 12 0.48
32 13 0.52
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (32 bp):
TTCAAAAAAATATAATAAAAAATATAAATATT
Found at i:5442179 original size:34 final size:34
Alignment explanation
Indices: 5442141--5442207 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
5442131 TAAGACTACG
* *
5442141 AAATTGATTTTGCAAATGCAAATGAATGGTGATA
1 AAATTAATTTCGCAAATGCAAATGAATGGTGATA
* *
5442175 AAATTAATTTCGTAAATGTAAATGAATGGTGAT
1 AAATTAATTTCGCAAATGCAAATGAATGGTGAT
5442208 TCCAATATAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.42, C:0.04, G:0.19, T:0.34
Consensus pattern (34 bp):
AAATTAATTTCGCAAATGCAAATGAATGGTGATA
Found at i:5442572 original size:46 final size:46
Alignment explanation
Indices: 5442454--5442573 Score: 125
Period size: 46 Copynumber: 2.6 Consensus size: 46
5442444 AGCCAACTAA
* * *
5442454 AGGTTATGA-CTTTTCTAAAACAACACTTAATGTTACAACCATTCTG
1 AGGTTATAACCTTTT-TAAAACAACACTTAATATCACAACCATTCTG
* ** ** * *
5442500 AGGTTATAACATTTTTAAAATGACACTTAATATCATGACCTTTTTG
1 AGGTTATAACCTTTTTAAAACAACACTTAATATCACAACCATTCTG
*
5442546 AGGTTATAACCTTTTTGAAACAACACTT
1 AGGTTATAACCTTTTTAAAACAACACTT
5442574 TATGACCTTT
Statistics
Matches: 59, Mismatches: 14, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
46 55 0.93
47 4 0.07
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.38
Consensus pattern (46 bp):
AGGTTATAACCTTTTTAAAACAACACTTAATATCACAACCATTCTG
Found at i:5445943 original size:3 final size:3
Alignment explanation
Indices: 5445935--5445983 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
5445925 GAAAGAGCGA
5445935 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
5445983 A
1 A
5445984 TTTTAAGATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:5449121 original size:75 final size:75
Alignment explanation
Indices: 5449023--5449175 Score: 288
Period size: 75 Copynumber: 2.0 Consensus size: 75
5449013 ATCTCAAATA
5449023 AAAAAGTCTTCAATGGGTTTCTGGACTTTCTTCCTTGCAGTACCTTGATTTGAGTTCTGCGGATC
1 AAAAAGTCTTCAATGGGTTTCTGGACTTTCTTCCTTGCAGTACCTTGATTTGAGTTCTGCGGATC
* *
5449088 TTTCTGAAGC
66 TTTATAAAGC
5449098 AAAAAGTCTTCAATGGGTTTCTGGACTTTCTTCCTTGCAGTACCTTGATTTGAGTTCTGCGGATC
1 AAAAAGTCTTCAATGGGTTTCTGGACTTTCTTCCTTGCAGTACCTTGATTTGAGTTCTGCGGATC
5449163 TTTATAAAGC
66 TTTATAAAGC
5449173 AAA
1 AAA
5449176 TGATTGGGTA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (75 bp):
AAAAAGTCTTCAATGGGTTTCTGGACTTTCTTCCTTGCAGTACCTTGATTTGAGTTCTGCGGATC
TTTATAAAGC
Found at i:5456671 original size:23 final size:24
Alignment explanation
Indices: 5456640--5456687 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
5456630 ATATAATGAT
*
5456640 TAATGACATTTAAATAATTTCATA
1 TAATGACATGTAAATAATTTCATA
* *
5456664 TAAT-ACATGTGAATAATTTGATA
1 TAATGACATGTAAATAATTTCATA
5456687 T
1 T
5456688 TTTATACGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (24 bp):
TAATGACATGTAAATAATTTCATA
Found at i:5456851 original size:24 final size:24
Alignment explanation
Indices: 5456819--5456864 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
5456809 GCGTGGGAGT
5456819 GGGACTTACTCCATACACTTGCGG
1 GGGACTTACTCCATACACTTGCGG
*
5456843 GGGACTTACTCCATAGACTTGC
1 GGGACTTACTCCATACACTTGC
5456865 TTCTCAACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (24 bp):
GGGACTTACTCCATACACTTGCGG
Found at i:5459635 original size:4 final size:4
Alignment explanation
Indices: 5459626--5459667 Score: 75
Period size: 4 Copynumber: 10.5 Consensus size: 4
5459616 ATTTTACACG
*
5459626 ATTT ATTT ATTT ATCT ATTT ATTT ATTT ATTT ATTT ATTT AT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT
5459668 AGGATAAACT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (4 bp):
ATTT
Found at i:5461237 original size:72 final size:72
Alignment explanation
Indices: 5461120--5461432 Score: 475
Period size: 72 Copynumber: 4.3 Consensus size: 72
5461110 GTTACTCAGC
* *
5461120 TTGATCTTTCATCCAATCAATTAAACGGCCAAATTCCCTTGTCTATAGGGCAGTTGTCATCTTTG
1 TTGATGTTTCATACAATCAATTAAACGGCCAAATTCCCTTGTCTATAGGGCAGTTGTCATCTTTG
5461185 GAGGAGT
66 GAGGAGT
* *
5461192 TTGATGTTTCATACAATCAGTTAAACGGCCAAATTCCCTTGTCTATAGGGCAGTTGTCATCTCTG
1 TTGATGTTTCATACAATCAATTAAACGGCCAAATTCCCTTGTCTATAGGGCAGTTGTCATCTTTG
* *
5461257 AAGAAGT
66 GAGGAGT
5461264 TTGATGTTTCATACAATCAATTAAACGGCCAAATTCCCTTGTCTATAGGGCAGTTGTCATCTTTG
1 TTGATGTTTCATACAATCAATTAAACGGCCAAATTCCCTTGTCTATAGGGCAGTTGTCATCTTTG
5461329 GAGGAGT
66 GAGGAGT
* * * * * * *
5461336 TTGATGTTTCAGAAAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTTTG
1 TTGATGTTTCATACAATCAATTAAACGGCCAAATTCCCTTGTCTATAGGGCAGTTGTCATCTTTG
5461401 GAGGTA-T
66 GAGG-AGT
* *
5461408 TTGATGTTTCAAAAAATCAATTAAA
1 TTGATGTTTCATACAATCAATTAAA
5461433 TGGTACTTTT
Statistics
Matches: 222, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
72 221 1.00
73 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (72 bp):
TTGATGTTTCATACAATCAATTAAACGGCCAAATTCCCTTGTCTATAGGGCAGTTGTCATCTTTG
GAGGAGT
Found at i:5468596 original size:15 final size:16
Alignment explanation
Indices: 5468568--5468600 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
5468558 GGATATGTTA
5468568 TTATTTTGTTATTATT
1 TTATTTTGTTATTATT
5468584 TTATTTT-TTATTATT
1 TTATTTTGTTATTATT
5468599 TT
1 TT
5468601 TTCTCTCTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (16 bp):
TTATTTTGTTATTATT
Found at i:5471650 original size:27 final size:27
Alignment explanation
Indices: 5471592--5471650 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 27
5471582 TTTCCATTTT
* *
5471592 CTTTTCCTTCTCTTTTTTCTCCTTTAG
1 CTTTTACTTCTCTTTTTTCTCCATTAG
5471619 C-TTTACTT-TCTTTTTTCCTCCATTAG
1 CTTTTACTTCTCTTTTTT-CTCCATTAG
5471645 CTTTTA
1 CTTTTA
5471651 AGACCTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 8 0.29
26 15 0.54
27 5 0.18
ACGTcount: A:0.08, C:0.27, G:0.03, T:0.61
Consensus pattern (27 bp):
CTTTTACTTCTCTTTTTTCTCCATTAG
Found at i:5473140 original size:144 final size:144
Alignment explanation
Indices: 5472880--5473264 Score: 671
Period size: 144 Copynumber: 2.7 Consensus size: 144
5472870 GTTACTCAGC
* * * * *
5472880 TTGATCTTTCAGTAAATCAATTAAATGGTCAAATTCCATTGTCTACATGGGAGTTATCATCTCTG
1 TTGATGTTTCAGAAAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTTTG
* * *
5472945 AAGTTGTTTGATGTTTCAAAAAATCAATTAAACGGCCAAATTCCCTTGTCTATAGGGCAGTTGTC
66 AAGTTGTTTGATGTTTCAGAAAATCAATTAAACGGCCAAATTCCCTCGTCTATAGGGCAGTTATC
5473010 ATCTTTGGAGGAGT
131 ATCTTTGGAGGAGT
*
5473024 TTGATGTTTCAGAAAATCAATTAAATGGTCCAATTCCATTGTCTATAGGGGAGTTATCATCTTTG
1 TTGATGTTTCAGAAAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTTTG
* *
5473089 AAGTTGTTTGATGTCTCAGAAAATCAGTTAAACGGCCAAATTCCCTCGTCTATAGGGCAGTTATC
66 AAGTTGTTTGATGTTTCAGAAAATCAATTAAACGGCCAAATTCCCTCGTCTATAGGGCAGTTATC
5473154 ATCTTTGGAGGAGT
131 ATCTTTGGAGGAGT
5473168 TTGATGTTTCAGAAAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTTTG
1 TTGATGTTTCAGAAAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTTTG
5473233 AAGTTGTTTGATGTTTCAGAAAATCAATTAAA
66 AAGTTGTTTGATGTTTCAGAAAATCAATTAAA
5473265 TGGTACTTTT
Statistics
Matches: 227, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
144 227 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (144 bp):
TTGATGTTTCAGAAAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTTTG
AAGTTGTTTGATGTTTCAGAAAATCAATTAAACGGCCAAATTCCCTCGTCTATAGGGCAGTTATC
ATCTTTGGAGGAGT
Found at i:5473268 original size:72 final size:72
Alignment explanation
Indices: 5472880--5473268 Score: 553
Period size: 72 Copynumber: 5.4 Consensus size: 72
5472870 GTTACTCAGC
* * * * *
5472880 TTGATCTTTCAGTAAATCAATTAAATGGTCAAATTCCATTGTCTACATGGGAGTTATCATCTCTG
1 TTGATGTTTCAGAAAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTTTG
5472945 AAGTTGT
66 AAGTTGT
* * * * * *
5472952 TTGATGTTTCAAAAAATCAATTAAACGGCCAAATTCCCTTGTCTATAGGGCAGTTGTCATCTTTG
1 TTGATGTTTCAGAAAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTTTG
* **
5473017 GAGGAGT
66 AAGTTGT
*
5473024 TTGATGTTTCAGAAAATCAATTAAATGGTCCAATTCCATTGTCTATAGGGGAGTTATCATCTTTG
1 TTGATGTTTCAGAAAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTTTG
5473089 AAGTTGT
66 AAGTTGT
* * * * * * *
5473096 TTGATGTCTCAGAAAATCAGTTAAACGGCCAAATTCCCTCGTCTATAGGGCAGTTATCATCTTTG
1 TTGATGTTTCAGAAAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTTTG
* **
5473161 GAGGAGT
66 AAGTTGT
5473168 TTGATGTTTCAGAAAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTTTG
1 TTGATGTTTCAGAAAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTTTG
5473233 AAGTTGT
66 AAGTTGT
5473240 TTGATGTTTCAGAAAATCAATTAAATGGT
1 TTGATGTTTCAGAAAATCAATTAAATGGT
5473269 ACTTTTCCTC
Statistics
Matches: 272, Mismatches: 45, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
72 272 1.00
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (72 bp):
TTGATGTTTCAGAAAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTTTG
AAGTTGT
Found at i:5476212 original size:120 final size:121
Alignment explanation
Indices: 5476064--5476280 Score: 328
Period size: 120 Copynumber: 1.8 Consensus size: 121
5476054 TCAAATAATT
* * *
5476064 AAAAAATAATTATTAATCTCCATTCACGAAAATGGAATACATTTTATTGTCAATCATTTATCTTT
1 AAAAAATAATTATTAATCTCCACTCACGAAAATGGAACACATTTTATTGTCAATCATTTAACTTT
* * *
5476129 TCGGAAAGCATCCACAGTTAGAAGATTAATCACTATTACCGATGATGGATACCCGA
66 TCAGAAAACATCCACAGTTAGAAAATTAATCACTATTACCGATGATGGATACCCGA
* * *
5476185 AAAAAATAATTTTTAATC-CCGCTCACGAAAATGGAACACATTTTATTGTCACTCATTTAACTTT
1 AAAAAATAATTATTAATCTCCACTCACGAAAATGGAACACATTTTATTGTCAATCATTTAACTTT
* *
5476249 TCAGAAAATATCCACGGTTAGAAAATTAATCA
66 TCAGAAAACATCCACAGTTAGAAAATTAATCA
5476281 GTGATATCAA
Statistics
Matches: 85, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
120 68 0.80
121 17 0.20
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (121 bp):
AAAAAATAATTATTAATCTCCACTCACGAAAATGGAACACATTTTATTGTCAATCATTTAACTTT
TCAGAAAACATCCACAGTTAGAAAATTAATCACTATTACCGATGATGGATACCCGA
Found at i:5478792 original size:21 final size:21
Alignment explanation
Indices: 5478768--5478807 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
5478758 TTTTTTTTTT
5478768 AAATAATGACATTTATGAATA
1 AAATAATGACATTTATGAATA
*
5478789 AAATAATGACGTTTATGAA
1 AAATAATGACATTTATGAA
5478808 AGGTGTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.05, G:0.12, T:0.33
Consensus pattern (21 bp):
AAATAATGACATTTATGAATA
Found at i:5480689 original size:144 final size:143
Alignment explanation
Indices: 5480421--5480703 Score: 433
Period size: 144 Copynumber: 2.0 Consensus size: 143
5480411 GTGGGCGCAA
*
5480421 TTTCACAAATTCGTCTCATAAAGCATCCTGCTAGAAGCGATTTTATACTATTTGCTCAGAAACGT
1 TTTCAAAAATTCGTCTCATAAAGCATCCTGCTAGAAGCGATTTTATACTATTTGCTCAGAAACGT
* * *
5480486 CAAGTTGAAATTATTTTTCCAGGACCTACTGTAGCAAAAGCGCGTCCACGAGGGAGCGATTTCAC
66 CAACTCGAAATTATTTTTCCAGGACCTACTGTAGCAAAAGCCCGTCCACGAGGGAGCGATTTCAC
5480551 AAATTCTTCGCGT
131 AAATTCTTCGCGT
* * * * *
5480564 TTTCAAAAATTCTTCTCA-AATAGCATCCTGCTTGCAGCGTTTTTTATACTATTTGCTCAGAAAT
1 TTTCAAAAATTCGTCTCATAA-AGCATCCTGCTAGAAGCG-ATTTTATACTATTTGCTCAGAAAC
* * *
5480628 GTCAACTCGAAATTATTTTTTCAGGACCTACTGTAGCAAAAGCCCGTCCACGTGGGCGCGATTTC
64 GTCAACTCGAAATTATTTTTCCAGGACCTACTGTAGCAAAAGCCCGTCCACGAGGGAGCGATTTC
5480693 ACAAATTCTTC
129 ACAAATTCTTC
5480704 TCATAAAGCA
Statistics
Matches: 126, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
142 2 0.02
143 32 0.25
144 92 0.73
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (143 bp):
TTTCAAAAATTCGTCTCATAAAGCATCCTGCTAGAAGCGATTTTATACTATTTGCTCAGAAACGT
CAACTCGAAATTATTTTTCCAGGACCTACTGTAGCAAAAGCCCGTCCACGAGGGAGCGATTTCAC
AAATTCTTCGCGT
Found at i:5480814 original size:127 final size:126
Alignment explanation
Indices: 5480559--5480972 Score: 557
Period size: 125 Copynumber: 3.3 Consensus size: 126
5480549 ACAAATTCTT
* * *
5480559 CGCGTTTTCAAAAATTCTTCTCA-AATAGCATCCTGCTTGCAGCGTTTTTTAT-ACTATTTGCTC
1 CGCGATTTCAAAAATTCTTCTCATAA-AGCATCCTGCTTGAAGCGTTTTTTTTAACTATTTGCTC
* *
5480622 AGAAATGTCAACTCGAAATTATTTTTTCAGGACCTACTGTAGCAAAAGCCCGTCCACGTGGG
65 AGAAACGTCAACTCGAAATTATTTTTTCAGGACCTACTGTAGCAAAAGCGCGTCCACGTGGG
* *
5480684 CGCGATTTCACAAATTCTTCTCATAAAGCATCCTACTTGAAGCGTTTTTTTTAACTATTTGCTCA
1 CGCGATTTCAAAAATTCTTCTCATAAAGCATCCTGCTTGAAGCGTTTTTTTTAACTATTTGCTCA
* * * * * *
5480749 GAAACGTCAACTCAAAATTATTTCTTTTAGGACCAACTGTAGCAAAAGTGCTTCCACGAGGG
66 GAAACGTCAACTCGAAATTATTT-TTTCAGGACCTACTGTAGCAAAAGCGCGTCCACGTGGG
* * * *
5480811 CGCGATTTCACAAATTCTTCTCATAAAACATCCTGCTTGAAGCG--TTTTTAAATTATTTGCTCA
1 CGCGATTTCAAAAATTCTTCTCATAAAGCATCCTGCTTGAAGCGTTTTTTTTAACTATTTGCTCA
* * *
5480874 GAAACGTCAACTCGAAATTATTTTTCCAGGACCTACTATAGCAAAAGCGCGTACACGTGGG
66 GAAACGTCAACTCGAAATTATTTTTTCAGGACCTACTGTAGCAAAAGCGCGTCCACGTGGG
* * * * *
5480935 CGCGACTTCAAAAATCCTTTTGATAAATCATCCTGCTT
1 CGCGATTTCAAAAATTCTTCTCATAAAGCATCCTGCTT
5480973 TGATTTTATC
Statistics
Matches: 254, Mismatches: 32, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
124 62 0.24
125 83 0.33
126 35 0.14
127 74 0.29
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (126 bp):
CGCGATTTCAAAAATTCTTCTCATAAAGCATCCTGCTTGAAGCGTTTTTTTTAACTATTTGCTCA
GAAACGTCAACTCGAAATTATTTTTTCAGGACCTACTGTAGCAAAAGCGCGTCCACGTGGG
Found at i:5488171 original size:700 final size:700
Alignment explanation
Indices: 5487145--5488512 Score: 2664
Period size: 700 Copynumber: 2.0 Consensus size: 700
5487135 TCGAAAATGA
* *
5487145 TTTACAAAAACAAAGGTTTTTCTGTAAATACGAACTGGGTTTCCAAAATATAACGATTTTTAAGA
1 TTTACAAAAACAAAGGTTTTTCTGTAAATACGAACTAGATTTCCAAAATATAACGATTTTTAAGA
5487210 TTTTCGCTGCAAATTATGTTTTGGCAAATGAATAAACTAACGACAGTTTCGATAATGAATAAGTA
66 TTTTCGCTGCAAATTATGTTTTGGCAAATGAATAAACTAACGACAGTTTCGATAATGAATAAGTA
5487275 AATGAATATGTTTTGCAAAATTTGGACACTCTATATCAAGTAACTTCACAAGGTTTTTGTCAAAG
131 AATGAATATGTTTTGCAAAATTTGGACACTCTATATCAAGTAACTTCACAAGGTTTTTGTCAAAG
5487340 TAAAAACAGTTTCAAAACCCTTCTTCGTAACACTCTCCGATTCGACCATAACGTCTAGGCTAGGT
196 TAAAAACAGTTTCAAAACCCTTCTTCGTAACACTCTCCGATTCGACCATAACGTCTAGGCTAGGT
5487405 TTGGGGTGTTACAATTGTGGTGCTGATGACAAGTTAGCATCTAGCATCCTACATTAGTGGCACAA
261 TTGGGGTGTTACAATTGTGGTGCTGATGACAAGTTAGCATCTAGCATCCTACATTAGTGGCACAA
5487470 GGATATGTTTGGGTAAAGAATTTATAGGAGAGATTTCATTTGTGTAATTTTAAAAATGAATTTAT
326 GGATATGTTTGGGTAAAGAATTTATAGGAGAGATTTCATTTGTGTAATTTTAAAAATGAATTTAT
5487535 TTGTATAAATATTTTGAAGAAATTCAAATTTTTTAGATAATTCCAAGAGGGAATTTTAGTAGTTC
391 TTGTATAAATATTTTGAAGAAATTCAAATTTTTTAGATAATTCCAAGAGGGAATTTTAGTAGTTC
5487600 GAGTTTCACTTATGAAGGTGGTTTTTCAAAATTCCTCCAAATTTTTTATTTGATTTAATACACAT
456 GAGTTTCACTTATGAAGGTGGTTTTTCAAAATTCCTCCAAATTTTTTATTTGATTTAATACACAT
5487665 TGTCTAATGATGTCTATATTGAATATTTTTATATTATTTATTTTAATATAATTAATCTTCTTTTA
521 TGTCTAATGATGTCTATATTGAATATTTTTATATTATTTATTTTAATATAATTAATCTTCTTTTA
5487730 TAATTATTTTTTAATTTTTAAAATTCTATTAACTTAATTTTTTTCTAAATTATTTATTTTTTCAA
586 TAATTATTTTTTAATTTTTAAAATTCTATTAACTTAATTTTTTTCTAAATTATTTATTTTTTCAA
5487795 ACAAAGCAATGTTTAAATCCTAACAATCCTGTGATGATTGTGAGAAACAG
651 ACAAAGCAATGTTTAAATCCTAACAATCCTGTGATGATTGTGAGAAACAG
* * * ** *
5487845 TTTACGAAAATAAAGGTTTTTCTGTAAATATGAGTTAGATTTCTAAAATATAACGATTTTTAAGA
1 TTTACAAAAACAAAGGTTTTTCTGTAAATACGAACTAGATTTCCAAAATATAACGATTTTTAAGA
5487910 TTTTCGCTGCAAATTATGTTTTGGCAAATGAATAAACTAACGACAGTTTCGATAATGAATAAGTA
66 TTTTCGCTGCAAATTATGTTTTGGCAAATGAATAAACTAACGACAGTTTCGATAATGAATAAGTA
5487975 AATGAATATGTTTTGCAAAATTTGGACACTCTATATCAAGTAACTTCACAAGGTTTTTGTCAAAG
131 AATGAATATGTTTTGCAAAATTTGGACACTCTATATCAAGTAACTTCACAAGGTTTTTGTCAAAG
5488040 TAAAAACAGTTTCAAAACCCTTCTTCGTAACACTCTCCGATTCGACCATAACGTCTAGGCTAGGT
196 TAAAAACAGTTTCAAAACCCTTCTTCGTAACACTCTCCGATTCGACCATAACGTCTAGGCTAGGT
5488105 TTGGGGTGTTACAATTGTGGTGCTGATGACAAGTTAGCATCTAGCATCCTACATTAGTGGCACAA
261 TTGGGGTGTTACAATTGTGGTGCTGATGACAAGTTAGCATCTAGCATCCTACATTAGTGGCACAA
5488170 GGATATGTTTGGGTAAAGAATTTATAGGAGAGATTTCATTTGTGTAATTTTAAAAATGAATTTAT
326 GGATATGTTTGGGTAAAGAATTTATAGGAGAGATTTCATTTGTGTAATTTTAAAAATGAATTTAT
5488235 TTGTATAAATATTTTGAAGAAATTCAAATTTTTTAGATAATTCCAAGAGGGAATTTTAGTAGTTC
391 TTGTATAAATATTTTGAAGAAATTCAAATTTTTTAGATAATTCCAAGAGGGAATTTTAGTAGTTC
5488300 GAGTTTCACTTATGAAGGTGGTTTTTCAAAATTCCTCCAAATTTTTTATTTGATTTAATACACAT
456 GAGTTTCACTTATGAAGGTGGTTTTTCAAAATTCCTCCAAATTTTTTATTTGATTTAATACACAT
5488365 TGTCTAATGATGTCTATATTGAATATTTTTATATTATTTATTTTAATATAATTAATCTTCTTTTA
521 TGTCTAATGATGTCTATATTGAATATTTTTATATTATTTATTTTAATATAATTAATCTTCTTTTA
5488430 TAATTATTTTTTAATTTTTAAAATTCTATTAACTTAATTTTTTTCTAAATTATTTATTTTTTCAA
586 TAATTATTTTTTAATTTTTAAAATTCTATTAACTTAATTTTTTTCTAAATTATTTATTTTTTCAA
5488495 ACAAAGCAATGTTTAAAT
651 ACAAAGCAATGTTTAAAT
5488513 ACCAACATTT
Statistics
Matches: 660, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
700 660 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (700 bp):
TTTACAAAAACAAAGGTTTTTCTGTAAATACGAACTAGATTTCCAAAATATAACGATTTTTAAGA
TTTTCGCTGCAAATTATGTTTTGGCAAATGAATAAACTAACGACAGTTTCGATAATGAATAAGTA
AATGAATATGTTTTGCAAAATTTGGACACTCTATATCAAGTAACTTCACAAGGTTTTTGTCAAAG
TAAAAACAGTTTCAAAACCCTTCTTCGTAACACTCTCCGATTCGACCATAACGTCTAGGCTAGGT
TTGGGGTGTTACAATTGTGGTGCTGATGACAAGTTAGCATCTAGCATCCTACATTAGTGGCACAA
GGATATGTTTGGGTAAAGAATTTATAGGAGAGATTTCATTTGTGTAATTTTAAAAATGAATTTAT
TTGTATAAATATTTTGAAGAAATTCAAATTTTTTAGATAATTCCAAGAGGGAATTTTAGTAGTTC
GAGTTTCACTTATGAAGGTGGTTTTTCAAAATTCCTCCAAATTTTTTATTTGATTTAATACACAT
TGTCTAATGATGTCTATATTGAATATTTTTATATTATTTATTTTAATATAATTAATCTTCTTTTA
TAATTATTTTTTAATTTTTAAAATTCTATTAACTTAATTTTTTTCTAAATTATTTATTTTTTCAA
ACAAAGCAATGTTTAAATCCTAACAATCCTGTGATGATTGTGAGAAACAG
Found at i:5502448 original size:29 final size:29
Alignment explanation
Indices: 5502416--5502503 Score: 79
Period size: 31 Copynumber: 2.9 Consensus size: 29
5502406 TGATTTAATG
5502416 TGCAATTATATACATGAACTTTAATTTGA
1 TGCAATTATATACATGAACTTTAATTTGA
* * *
5502445 TGCAATTATACT-CGTGAAATTCTAATTGTGG
1 TGCAATTATA-TACATGAACTT-TAATT-TGA
* * *
5502476 TTCAAATATATACTTGAAACTTTAATTT
1 TGCAATTATATACATG-AACTTTAATTT
5502504 TGATTTAACC
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
29 17 0.36
30 8 0.17
31 18 0.38
32 4 0.09
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.42
Consensus pattern (29 bp):
TGCAATTATATACATGAACTTTAATTTGA
Found at i:5509899 original size:22 final size:23
Alignment explanation
Indices: 5509874--5509916 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
5509864 CATTACCATA
5509874 AAAAAT-AAATTAAAGGTTACTT
1 AAAAATAAAATTAAAGGTTACTT
*
5509896 AAAAATAAAATTAATGGTTAC
1 AAAAATAAAATTAAAGGTTAC
5509917 AAAAGAAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.56, C:0.05, G:0.09, T:0.30
Consensus pattern (23 bp):
AAAAATAAAATTAAAGGTTACTT
Found at i:5513057 original size:17 final size:18
Alignment explanation
Indices: 5513037--5513081 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 18
5513027 TAAACAACAA
5513037 AAATATATAAAAATA-AT
1 AAATATATAAAAATATAT
5513054 AAAT-T-TAAAAATATAT
1 AAATATATAAAAATATAT
5513070 AAA-ATA-AAAAAT
1 AAATATATAAAAAT
5513082 TATTGCTGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
15 8 0.32
16 13 0.52
17 4 0.16
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATATATAAAAATATAT
Found at i:5513063 original size:25 final size:24
Alignment explanation
Indices: 5513035--5513082 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
5513025 TCTAAACAAC
*
5513035 AAAAATATATAAAAATAATAAATTT
1 AAAAATATAT-AAAATAAAAAATTT
5513060 AAAAATATATAAAATAAAAAATT
1 AAAAATATATAAAATAAAAAATT
5513083 ATTGCTGACA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (24 bp):
AAAAATATATAAAATAAAAAATTT
Found at i:5513077 original size:15 final size:15
Alignment explanation
Indices: 5513041--5513079 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
5513031 CAACAAAAAT
5513041 ATATAAAAATAATAA
1 ATATAAAAATAATAA
*
5513056 ATTTAAAAATATATAA
1 ATATAAAAATA-ATAA
5513072 A-ATAAAAA
1 ATATAAAAA
5513080 ATTATTGCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
ATATAAAAATAATAA
Found at i:5517971 original size:14 final size:15
Alignment explanation
Indices: 5517947--5517981 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
5517937 TTTGTGTCTT
5517947 TATTATTATTATTA-C
1 TATT-TTATTATTATC
5517962 TATTTTATTATTATC
1 TATTTTATTATTATC
5517977 TATTT
1 TATTT
5517982 ATCTATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.66
Consensus pattern (15 bp):
TATTTTATTATTATC
Found at i:5517982 original size:14 final size:14
Alignment explanation
Indices: 5517952--5517998 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
5517942 GTCTTTATTA
5517952 TTATTATTA-CTATT
1 TTATTATTATCTA-T
5517966 TTATTATTATCTAT
1 TTATTATTATCTAT
*
5517980 TTATCTATTTATTTAT
1 TTAT-TA-TTATCTAT
5517996 TTA
1 TTA
5517999 CCTCTTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 14 0.48
15 5 0.17
16 10 0.34
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (14 bp):
TTATTATTATCTAT
Found at i:5517995 original size:23 final size:22
Alignment explanation
Indices: 5517948--5517989 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
5517938 TTGTGTCTTT
5517948 ATTATTAT-TA-TTACTATTTT
1 ATTATTATCTATTTACTATTTT
5517968 ATTATTATCTATTTATCTATTT
1 ATTATTATCTATTTA-CTATTT
5517990 ATTTATTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.42
21 2 0.11
22 3 0.16
23 6 0.32
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (22 bp):
ATTATTATCTATTTACTATTTT
Found at i:5518259 original size:23 final size:23
Alignment explanation
Indices: 5518216--5518259 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
5518206 TTTATTTATA
*
5518216 ATTACTATAATATGCTTATTAAT
1 ATTACTATAATATGCTCATTAAT
*
5518239 ATTATTATAATTATG-TCATTA
1 ATTACTATAA-TATGCTCATTA
5518260 TTATAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 14 0.78
24 4 0.22
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.50
Consensus pattern (23 bp):
ATTACTATAATATGCTCATTAAT
Found at i:5525408 original size:24 final size:24
Alignment explanation
Indices: 5525381--5525426 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
5525371 GATGTTTAGT
* *
5525381 ATTTATTAGTATAATATATTTTAC
1 ATTTATTAGCATAAAATATTTTAC
5525405 ATTTATTAGCATAAAATATTTT
1 ATTTATTAGCATAAAATATTTT
5525427 TTATTTCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.52
Consensus pattern (24 bp):
ATTTATTAGCATAAAATATTTTAC
Found at i:5525429 original size:26 final size:24
Alignment explanation
Indices: 5525381--5525429 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
5525371 GATGTTTAGT
*
5525381 ATTTATTAGTATAATATATTTTAC
1 ATTTATTAGTAAAATATATTTTAC
*
5525405 ATTTATTAGCATAAAATATTTTTTA
1 ATTTATTAG--TAAAATATATTTTA
5525430 TTTCTTTCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 9 0.43
26 12 0.57
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (24 bp):
ATTTATTAGTAAAATATATTTTAC
Found at i:5525432 original size:24 final size:24
Alignment explanation
Indices: 5525375--5525432 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
5525365 TTTTAGGATG
* *
5525375 TTTAGTATTTATTAGTATAATATAT
1 TTTA-TATTTATTAGCATAAAATAT
*
5525400 TTTACATTTATTAGCATAAAATAT
1 TTTATATTTATTAGCATAAAATAT
*
5525424 TTTTTATTT
1 TTTATATTT
5525433 CTTTCCATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.57
Consensus pattern (24 bp):
TTTATATTTATTAGCATAAAATAT
Found at i:5529302 original size:28 final size:28
Alignment explanation
Indices: 5529270--5529324 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
5529260 TTCTAAGACA
5529270 TTACTTACAAGTCAAGTTAAACAAAATC
1 TTACTTACAAGTCAAGTTAAACAAAATC
*
5529298 TTACTTGCAAGTCAAGTTAAACAAAAT
1 TTACTTACAAGTCAAGTTAAACAAAAT
5529325 ATATTTTCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.29
Consensus pattern (28 bp):
TTACTTACAAGTCAAGTTAAACAAAATC
Found at i:5529910 original size:6 final size:7
Alignment explanation
Indices: 5529895--5529919 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
5529885 ATTACGTAAA
5529895 TTTTCTT
1 TTTTCTT
5529902 TTTTCTT
1 TTTTCTT
5529909 TTTTCTT
1 TTTTCTT
5529916 TTTT
1 TTTT
5529920 GACATCTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTCTT
Found at i:5531682 original size:16 final size:15
Alignment explanation
Indices: 5531661--5531690 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
5531651 AGAGTATATA
5531661 AATTTAGAATATTTTT
1 AATTTAGAA-ATTTTT
5531677 AATTTAGAAATTTT
1 AATTTAGAAATTTT
5531691 AATATTATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (15 bp):
AATTTAGAAATTTTT
Found at i:5547153 original size:4 final size:4
Alignment explanation
Indices: 5547144--5547174 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
5547134 ATAAAATCTT
5547144 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
5547175 CTTTTCTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:5557536 original size:10 final size:10
Alignment explanation
Indices: 5557523--5557547 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
5557513 TTTTTCATAA
5557523 CGTTTTAGAT
1 CGTTTTAGAT
5557533 CGTTTTAGAT
1 CGTTTTAGAT
5557543 CGTTT
1 CGTTT
5557548 CTATTTTGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.12, G:0.20, T:0.52
Consensus pattern (10 bp):
CGTTTTAGAT
Found at i:5565370 original size:31 final size:31
Alignment explanation
Indices: 5565312--5565370 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
5565302 GAAAAATGAG
* * **
5565312 TTATTTTAACAAGATTAACTACTTTGAACAA
1 TTATTTTAACAACAATAACTAAATTGAACAA
5565343 TTATTTTAACAACAATAACTAAATTGAA
1 TTATTTTAACAACAATAACTAAATTGAA
5565371 ATACAAAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.46, C:0.12, G:0.05, T:0.37
Consensus pattern (31 bp):
TTATTTTAACAACAATAACTAAATTGAACAA
Found at i:5568865 original size:36 final size:36
Alignment explanation
Indices: 5568824--5568897 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
5568814 TGACAAAAAC
* *
5568824 TTAGGGACCTTTCTATGATTAATCCTAAACATTTTT
1 TTAGGGACCTCTCTATGATTAATCCAAAACATTTTT
5568860 TTAGGGACCTCTCTATGATTAATCCAAAACATTTTT
1 TTAGGGACCTCTCTATGATTAATCCAAAACATTTTT
5568896 TT
1 TT
5568898 TTTGCTTTGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.28, C:0.18, G:0.11, T:0.43
Consensus pattern (36 bp):
TTAGGGACCTCTCTATGATTAATCCAAAACATTTTT
Found at i:5572882 original size:16 final size:15
Alignment explanation
Indices: 5572861--5572890 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
5572851 TTAAAAGGTA
5572861 ATTTTTTGATTTTTTT
1 ATTTTTT-ATTTTTTT
5572877 ATTTTTTATTTTTT
1 ATTTTTTATTTTTT
5572891 CGTAATAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.83
Consensus pattern (15 bp):
ATTTTTTATTTTTTT
Found at i:5573498 original size:5 final size:5
Alignment explanation
Indices: 5573478--5573535 Score: 50
Period size: 5 Copynumber: 11.4 Consensus size: 5
5573468 TAGTCATATC
*
5573478 TTATT TT-TT ATT-TT TTATT TT-TT TTATTT TTCACT TTATT TTATT
1 TTATT TTATT -TTATT TTATT TTATT TTA-TT TT-ATT TTATT TTATT
5573523 TTATT TTCATT TT
1 TTATT TT-ATT TT
5573536 GGTCCTTAGA
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
4 8 0.18
5 24 0.53
6 12 0.27
7 1 0.02
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:5573502 original size:16 final size:17
Alignment explanation
Indices: 5573481--5573524 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
5573471 TCATATCTTA
*
5573481 TTTTTTATTTTTTA-TT
1 TTTTTTATTTTTCACTT
5573497 TTTTTTATTTTTCACTT
1 TTTTTTATTTTTCACTT
*
5573514 TATTTTATTTT
1 TTTTTTATTTT
5573525 ATTTTCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 13 0.52
17 12 0.48
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTATTTTTCACTT
Found at i:5573519 original size:17 final size:16
Alignment explanation
Indices: 5573483--5573524 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
5573473 ATATCTTATT
* *
5573483 TTTTATTTTTTATTTT
1 TTTTATTTTTCATTTA
5573499 TTTTATTTTTCACTTTA
1 TTTTATTTTTCA-TTTA
5573516 TTTTATTTT
1 TTTTATTTT
5573525 ATTTTCATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTATTTTTCATTTA
Found at i:5573534 original size:16 final size:16
Alignment explanation
Indices: 5573483--5573535 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
5573473 ATATCTTATT
5573483 TTTTATTTTTTATTTT-
1 TTTTA-TTTTTATTTTA
*
5573499 TTTTATTTTTCACTTTA
1 TTTTATTTTT-ATTTTA
5573516 TTTTA-TTTTATTTTCA
1 TTTTATTTTTATTTT-A
5573532 TTTT
1 TTTT
5573536 GGTCCTTAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
15 9 0.28
16 18 0.56
17 5 0.16
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTATTTTTATTTTA
Found at i:5574222 original size:14 final size:15
Alignment explanation
Indices: 5574198--5574232 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
5574188 TTTGTGTCTT
5574198 TATTATTATTATTA-C
1 TATT-TTATTATTATC
5574213 TATTTTATTATTATC
1 TATTTTATTATTATC
5574228 TATTT
1 TATTT
5574233 ATCTATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.66
Consensus pattern (15 bp):
TATTTTATTATTATC
Found at i:5574499 original size:23 final size:23
Alignment explanation
Indices: 5574467--5574518 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
5574457 ATTTATTTAT
* *
5574467 TATTACTATAA-TATGATTATTAA
1 TATTATTATAATTATG-TCATTAA
*
5574490 TATTATTATAATTATGTCATTAT
1 TATTATTATAATTATGTCATTAA
5574513 TATTAT
1 TATTAT
5574519 ATTCCTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 21 0.84
24 4 0.16
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (23 bp):
TATTATTATAATTATGTCATTAA
Found at i:5581164 original size:24 final size:24
Alignment explanation
Indices: 5581131--5581188 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
5581121 TTTTAGGATG
* *
5581131 TTTAGTATTTATTAGTATAATATAT
1 TTTA-TATTTATTAGCATAAAATAT
5581156 TTTATATTTATTAGCATAAAATAT
1 TTTATATTTATTAGCATAAAATAT
*
5581180 TTTTTATTT
1 TTTATATTT
5581189 CTTTCCATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 26 0.87
25 4 0.13
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (24 bp):
TTTATATTTATTAGCATAAAATAT
Found at i:5581197 original size:24 final size:24
Alignment explanation
Indices: 5581131--5581197 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 24
5581121 TTTTAGGATG
** *
5581131 TTTAGTATTTATTAGTATAATATAT
1 TTTA-TATTTATTACCATAAAATAT
*
5581156 TTTATATTTATTAGCATAAAATAT
1 TTTATATTTATTACCATAAAATAT
* * *
5581180 TTTTTATTTCTTTCCATA
1 TTTATATTTATTACCATA
5581198 TGTAGGAGTT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
24 32 0.89
25 4 0.11
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (24 bp):
TTTATATTTATTACCATAAAATAT
Found at i:5589269 original size:22 final size:21
Alignment explanation
Indices: 5589244--5589304 Score: 52
Period size: 23 Copynumber: 2.7 Consensus size: 21
5589234 AGAAATATAT
*
5589244 AAAAATACATAA-ATATTTTCAA
1 AAAAATA-ATAATAAATTTT-AA
5589266 AAAATATAATAATAAATTTTAA
1 AAAA-ATAATAATAAATTTTAA
*
5589288 AATAATATAAAAATAAA
1 AA-AA-ATAATAATAAA
5589305 AAATGATAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
22 12 0.35
23 22 0.65
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAAATAATAATAAATTTTAA
Found at i:5589294 original size:23 final size:23
Alignment explanation
Indices: 5589258--5589304 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
5589248 ATACATAAAT
*
5589258 ATTTTCAAAAAATATAATAATAA
1 ATTTTCAAAAAATATAAAAATAA
5589281 ATTTT-AAAATAATATAAAAATAA
1 ATTTTCAAAA-AATATAAAAATAA
5589304 A
1 A
5589305 AAATGATAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (23 bp):
ATTTTCAAAAAATATAAAAATAA
Found at i:5592405 original size:3 final size:3
Alignment explanation
Indices: 5592397--5592494 Score: 85
Period size: 3 Copynumber: 33.0 Consensus size: 3
5592387 AATAACATTC
* ** * *
5592397 AAT AAT AAT -TT ATAT AAT AAT GTT AAT AGT AAT AA- AAT AAC AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
** *
5592441 AA- AACT AAT AAT AAT AAT AAT GCT AAT AAT AAT AGT AAT AAT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
5592486 AAT AAT AAT
1 AAT AAT AAT
5592495 CTAAGTTTTG
Statistics
Matches: 74, Mismatches: 16, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
2 5 0.07
3 65 0.88
4 4 0.05
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:5594347 original size:72 final size:72
Alignment explanation
Indices: 5594243--5594546 Score: 414
Period size: 72 Copynumber: 4.2 Consensus size: 72
5594233 ATCTTTCGGT
* *
5594243 AAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTCTGAAGTTGTTTGATG
1 AAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGCAGTTATCATCTCTGAAGGTGTTTGATG
5594308 TTTCAGA
66 TTTCAGA
* * * * *
5594315 AAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGCAGTTGTCATCTTTGGAGGAGTTTGAGG
1 AAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGCAGTTATCATCTCTGAAGGTGTTTGATG
*
5594380 TCTCAGA
66 TTTCAGA
*
5594387 AAATCAATTAAATGGGT-AAATTCCATTGTCTATAGGGGAGTTATCATCTCTGAA-GTGGTTTGA
1 AAATCAATTAAAT-GGTCAAATTCCATTGTCTATAGGGCAGTTATCATCTCTGAAGGT-GTTTGA
*
5594450 TGTTTCAAA
64 TGTTTCAGA
* * * * * * *
5594459 AAATCAATTAAACGGCCAAATTCCCTTGTCTATAGGGCAGTTGTCATCTTTGGAGGTATTTGATG
1 AAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGCAGTTATCATCTCTGAAGGTGTTTGATG
5594524 TTTCAGA
66 TTTCAGA
*
5594531 AAATCAATTTAATGGT
1 AAATCAATTAAATGGT
5594547 ACATTTCCTC
Statistics
Matches: 200, Mismatches: 28, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
71 3 0.01
72 192 0.96
73 5 0.03
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.36
Consensus pattern (72 bp):
AAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGCAGTTATCATCTCTGAAGGTGTTTGATG
TTTCAGA
Found at i:5594503 original size:144 final size:145
Alignment explanation
Indices: 5594243--5594545 Score: 504
Period size: 144 Copynumber: 2.1 Consensus size: 145
5594233 ATCTTTCGGT
*
5594243 AAATCAATTAAAT-GGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTCTGAAGTTGTTTGAT
1 AAATCAATTAAATGGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTCTGAAGTGGTTTGAT
* * *
5594307 GTTTCAGAAAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGCAGTTGTCATCTTTGGAGG-
66 GTTTCAAAAAATCAATTAAACGGCCAAATTCCATTGTCTATAGGGCAGTTGTCATCTTTGGAGGT
5594371 AGTTTGAGGTCTCAGA
131 A-TTTGAGGTCTCAGA
5594387 AAATCAATTAAATGGGT-AAATTCCATTGTCTATAGGGGAGTTATCATCTCTGAAGTGGTTTGAT
1 AAATCAATTAAATGGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTCTGAAGTGGTTTGAT
*
5594451 GTTTCAAAAAATCAATTAAACGGCCAAATTCCCTTGTCTATAGGGCAGTTGTCATCTTTGGAGGT
66 GTTTCAAAAAATCAATTAAACGGCCAAATTCCATTGTCTATAGGGCAGTTGTCATCTTTGGAGGT
* *
5594516 ATTTGATGTTTCAGA
131 ATTTGAGGTCTCAGA
*
5594531 AAATCAATTTAATGG
1 AAATCAATTAAATGG
5594546 TACATTTCCT
Statistics
Matches: 149, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
144 145 0.97
145 4 0.03
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (145 bp):
AAATCAATTAAATGGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTCTGAAGTGGTTTGAT
GTTTCAAAAAATCAATTAAACGGCCAAATTCCATTGTCTATAGGGCAGTTGTCATCTTTGGAGGT
ATTTGAGGTCTCAGA
Found at i:5600304 original size:29 final size:28
Alignment explanation
Indices: 5600260--5600314 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
5600250 AATTTTAAAA
* *
5600260 GTATAAAAACTAAAATTGATCAAATTAGT
1 GTATAAAAAATAAAATTG-TAAAATTAGT
*
5600289 GTATAAAAAATTAAATTGTAAAATTA
1 GTATAAAAAATAAAATTGTAAAATTA
5600315 ATGAATATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 7 0.30
29 16 0.70
ACGTcount: A:0.55, C:0.04, G:0.09, T:0.33
Consensus pattern (28 bp):
GTATAAAAAATAAAATTGTAAAATTAGT
Found at i:5600848 original size:9 final size:9
Alignment explanation
Indices: 5600809--5600888 Score: 56
Period size: 9 Copynumber: 8.9 Consensus size: 9
5600799 AATTTGCTAA
5600809 AAAAATTTT
1 AAAAATTTT
*
5600818 AAAAAATTT
1 AAAAATTTT
*
5600827 AAAAA--TC
1 AAAAATTTT
5600834 AGAAAATTTT
1 A-AAAATTTT
5600844 AAAAATTTT
1 AAAAATTTT
* *
5600853 AAGAGATATT
1 AA-AAATTTT
* *
5600863 ATAAATTAT
1 AAAAATTTT
**
5600872 AAAAATTCA
1 AAAAATTTT
5600881 AAAAATTT
1 AAAAATTT
5600889 AATATATATA
Statistics
Matches: 54, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
7 2 0.04
8 4 0.07
9 40 0.74
10 8 0.15
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.35
Consensus pattern (9 bp):
AAAAATTTT
Found at i:5607670 original size:33 final size:30
Alignment explanation
Indices: 5607610--5607670 Score: 70
Period size: 30 Copynumber: 1.9 Consensus size: 30
5607600 TATCTGATTT
*
5607610 TTTTTTAAAAAAAAGAATAATTTATTTTGA
1 TTTTTTAAAAAAAAGAATAATTAATTTTGA
5607640 TTTTTTAATAAAATAA-AATCAACTTAATTTT
1 TTTTTTAA-AAAA-AAGAAT-AA-TTAATTTT
5607671 TTCTACATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
30 8 0.31
31 7 0.27
32 4 0.15
33 7 0.27
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (30 bp):
TTTTTTAAAAAAAAGAATAATTAATTTTGA
Found at i:5613262 original size:3 final size:3
Alignment explanation
Indices: 5613254--5613301 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
5613244 GTCTTTCATC
5613254 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
5613302 AGTGGGTCAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:5615406 original size:31 final size:31
Alignment explanation
Indices: 5615371--5615431 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
5615361 AATTTTAAAT
*
5615371 ATAATGATAAATGACATTTAAATAATTTAAC
1 ATAATAATAAATGACATTTAAATAATTTAAC
* *
5615402 ATAATAATATATGATATTTAAATAATTTAA
1 ATAATAATAAATGACATTTAAATAATTTAA
5615432 TAGAACACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.39
Consensus pattern (31 bp):
ATAATAATAAATGACATTTAAATAATTTAAC
Found at i:5617662 original size:24 final size:23
Alignment explanation
Indices: 5617635--5617685 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 23
5617625 TTTTGAGCAA
5617635 TTTAATCTTT-TTCTTTTATGTTAT
1 TTTAA-CTTTCTT-TTTTATGTTAT
*
5617659 TTTAACTTTCCTTTTTTATTTTAT
1 TTTAACTTT-CTTTTTTATGTTAT
5617683 TTT
1 TTT
5617686 TCATTCTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 4 0.17
24 18 0.75
25 2 0.08
ACGTcount: A:0.16, C:0.10, G:0.02, T:0.73
Consensus pattern (23 bp):
TTTAACTTTCTTTTTTATGTTAT
Found at i:5624237 original size:15 final size:15
Alignment explanation
Indices: 5624217--5624262 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
5624207 AATTTTCTAA
5624217 TATAAATTTAACACT
1 TATAAATTTAACACT
5624232 TATAAAATTTAACA--
1 TAT-AAATTTAACACT
* *
5624246 TAAAAATTCAACACT
1 TATAAATTTAACACT
5624261 TA
1 TA
5624263 AATTTTTAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 9 0.35
14 2 0.08
15 5 0.19
16 10 0.38
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (15 bp):
TATAAATTTAACACT
Found at i:5624241 original size:16 final size:15
Alignment explanation
Indices: 5624220--5624264 Score: 58
Period size: 13 Copynumber: 3.1 Consensus size: 15
5624210 TTTCTAATAT
5624220 AAATTTAACACTTATA
1 AAATTTAACACTTA-A
5624236 AAATTTAACA--TAA
1 AAATTTAACACTTAA
*
5624249 AAATTCAACACTTAA
1 AAATTTAACACTTAA
5624264 A
1 A
5624265 TTTTTAGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 10 0.38
14 2 0.08
15 4 0.15
16 10 0.38
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATTTAACACTTAA
Found at i:5624750 original size:7 final size:7
Alignment explanation
Indices: 5624738--5624762 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
5624728 ATAATTAATT
5624738 TTTCATC
1 TTTCATC
5624745 TTTCATC
1 TTTCATC
5624752 TTTCATC
1 TTTCATC
5624759 TTTC
1 TTTC
5624763 TTAATTCTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (7 bp):
TTTCATC
Found at i:5624934 original size:39 final size:39
Alignment explanation
Indices: 5624880--5624959 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
5624870 ATGATGAAAA
5624880 ATAATAGAATGCCGTAGAAATTTCCTTATTCTCAAATCT
1 ATAATAGAATGCCGTAGAAATTTCCTTATTCTCAAATCT
5624919 ATAATAGAATGCCGTAGAAATTTCCTTATTCTCAAATCT
1 ATAATAGAATGCCGTAGAAATTTCCTTATTCTCAAATCT
5624958 AT
1 AT
5624960 CTTTTATCTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.36
Consensus pattern (39 bp):
ATAATAGAATGCCGTAGAAATTTCCTTATTCTCAAATCT
Found at i:5634596 original size:30 final size:30
Alignment explanation
Indices: 5634562--5634621 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
5634552 TATTTTATTA
*
5634562 TTAATTTTGTTATTTTTTTAAAGACATTTG
1 TTAATTTTGTTATTATTTTAAAGACATTTG
*
5634592 TTAATTTTGTTATTATTTTAGAGACATTTG
1 TTAATTTTGTTATTATTTTAAAGACATTTG
5634622 CTTCTTAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.27, C:0.03, G:0.12, T:0.58
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGACATTTG
Found at i:5634973 original size:34 final size:34
Alignment explanation
Indices: 5634925--5635011 Score: 129
Period size: 34 Copynumber: 2.6 Consensus size: 34
5634915 GCCACACACG
* ** *
5634925 TTGACTTTAGTTTGATTTTAATAATGTGTTGTCC
1 TTGACTTTAATTTGATTTTAATAATGAATTCTCC
5634959 TTGACTTTAATTTGATTTTAATAATGAATTCTCC
1 TTGACTTTAATTTGATTTTAATAATGAATTCTCC
*
5634993 TTGACTTCAATTTGATTTT
1 TTGACTTTAATTTGATTTT
5635012 TTAAAAGTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.24, C:0.10, G:0.13, T:0.53
Consensus pattern (34 bp):
TTGACTTTAATTTGATTTTAATAATGAATTCTCC
Found at i:5635047 original size:20 final size:21
Alignment explanation
Indices: 5635008--5635049 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
5634998 TTCAATTTGA
5635008 TTTTTTAAAAGTAATATTTTAAG
1 TTTTTTAAAAG--ATATTTTAAG
5635031 TTTTTTAAAAG-TATTTTAA
1 TTTTTTAAAAGATATTTTAA
5635050 TCATATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.42
23 11 0.58
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (21 bp):
TTTTTTAAAAGATATTTTAAG
Found at i:5639983 original size:14 final size:15
Alignment explanation
Indices: 5639964--5639996 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
5639954 TAAAAATATT
5639964 TAAAAT-TATTAAAA
1 TAAAATATATTAAAA
*
5639978 TAAAATATATTATAA
1 TAAAATATATTAAAA
5639993 TAAA
1 TAAA
5639997 TGTTTTGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
TAAAATATATTAAAA
Found at i:5647456 original size:70 final size:70
Alignment explanation
Indices: 5647343--5647483 Score: 282
Period size: 70 Copynumber: 2.0 Consensus size: 70
5647333 GTGTAAGTTG
5647343 ACTTGTTATTGTTTTAATCTAATATCATAATATTTACTCGATAACTTAAAATGATTAAATGGTTT
1 ACTTGTTATTGTTTTAATCTAATATCATAATATTTACTCGATAACTTAAAATGATTAAATGGTTT
5647408 AAGTA
66 AAGTA
5647413 ACTTGTTATTGTTTTAATCTAATATCATAATATTTACTCGATAACTTAAAATGATTAAATGGTTT
1 ACTTGTTATTGTTTTAATCTAATATCATAATATTTACTCGATAACTTAAAATGATTAAATGGTTT
5647478 AAGTA
66 AAGTA
5647483 A
1 A
5647484 GAAAGTCAGT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.44
Consensus pattern (70 bp):
ACTTGTTATTGTTTTAATCTAATATCATAATATTTACTCGATAACTTAAAATGATTAAATGGTTT
AAGTA
Found at i:5650944 original size:45 final size:46
Alignment explanation
Indices: 5650750--5651080 Score: 175
Period size: 46 Copynumber: 7.4 Consensus size: 46
5650740 CATATTTGAT
* * * * *
5650750 CTTCAACCTATTCCACTGCTAAATACAGGGAGATAAAGT-TATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTCTATCAG
* * * * * * * *
5650795 CTTCAATGTACTCCACTG--TAGT-CAGGGAGGTAAAATCTACCAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTCTATCAG
* * * * * * *
5650838 CTTCGATCTACTTCGCTGCCAAATACAGGAAGGCA-AGA-TCTGTAAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGA-G-ATAGAGTCTATCAG
* *
5650884 CTTCAATCTATTCCACTACCAAATACAGGGAGATAGAGT-TATCAG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTCTATCAG
* * * * * * * *
5650929 CTTCAATGTACTCCACTG--TAGT-CAGGGAGGTAAAATCTACCAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTCTATCAG
* * * * * * *
5650972 CTTCGATCTACTTCGCTGCCAAATACAGGAAGGCA-AGA-TCTGTAAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGA-G-ATAGAGTCTATCAG
* *
5651018 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGT-TATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTCTATCAG
*
5651063 CTTCAATGTACTCCACTG
1 CTTCAATCTACTCCACTG
5651081 TAGTCAGGGA
Statistics
Matches: 206, Mismatches: 64, Indels: 32
0.68 0.21 0.11
Matches are distributed among these distances:
42 23 0.11
43 39 0.19
44 2 0.01
45 63 0.31
46 73 0.35
47 6 0.03
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (46 bp):
CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTCTATCAG
Found at i:5650988 original size:134 final size:134
Alignment explanation
Indices: 5650748--5651151 Score: 729
Period size: 134 Copynumber: 3.0 Consensus size: 134
5650738 GCCATATTTG
* * *
5650748 ATCTTCAACCTATTCCACTGCTAAATACAGGGAGATAAAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
5650813 TAGTCAGGGAGGTAAAATCTACCATCTTCGATCTACTTCGCTGCCAAATACAGGAAGGCAAGATC
66 TAGTCAGGGAGGTAAAATCTACCATCTTCGATCTACTTCGCTGCCAAATACAGGAAGGCAAGATC
5650878 TGTA
131 TGTA
* *
5650882 ATCTTCAATCTATTCCACTACCAAATACAGGGAGATAGAGTTATCAGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
5650947 TAGTCAGGGAGGTAAAATCTACCATCTTCGATCTACTTCGCTGCCAAATACAGGAAGGCAAGATC
66 TAGTCAGGGAGGTAAAATCTACCATCTTCGATCTACTTCGCTGCCAAATACAGGAAGGCAAGATC
5651012 TGTA
131 TGTA
5651016 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
* *
5651081 TAGTCAGGGAGGTAAAATCTGCCATTTTCGATCTACTTCGCTGCCAAATATC-GGAAGGCAAGAT
66 TAGTCAGGGAGGTAAAATCTACCATCTTCGATCTACTTCGCTGCCAAATA-CAGGAAGGCAAGAT
5651145 CTGTA
130 CTGTA
5651150 AT
1 AT
5651152 TTTTAATCAG
Statistics
Matches: 260, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
134 259 1.00
135 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (134 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTACCATCTTCGATCTACTTCGCTGCCAAATACAGGAAGGCAAGATC
TGTA
Found at i:5651313 original size:42 final size:42
Alignment explanation
Indices: 5651266--5651400 Score: 116
Period size: 42 Copynumber: 3.2 Consensus size: 42
5651256 CAAACGAGAG
5651266 AGGCAAGGTTTGTCTTTAATCTGCTTCGCTGTCAATGCAGGA
1 AGGCAAGGTTTGTCTTTAATCTGCTTCGCTGTCAATGCAGGA
* * * * * * *
5651308 AGGCAAGATCTGCTATCTTCAACCAGC-TCTGCT-ACAA-AC-GAGA
1 AGGCAAGGT-T--TGTCTTTAATCTGCTTC-GCTGTCAATGCAG-GA
*
5651351 GATGCAAGGTTTGTCTTTAATCTGCTTCGCTGTCAATGCAGGA
1 -AGGCAAGGTTTGTCTTTAATCTGCTTCGCTGTCAATGCAGGA
5651394 AGGCAAG
1 AGGCAAG
5651401 ATCTGATGTC
Statistics
Matches: 67, Mismatches: 16, Indels: 20
0.65 0.16 0.19
Matches are distributed among these distances:
41 13 0.19
42 20 0.30
43 8 0.12
44 13 0.19
45 13 0.19
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.28
Consensus pattern (42 bp):
AGGCAAGGTTTGTCTTTAATCTGCTTCGCTGTCAATGCAGGA
Found at i:5651439 original size:44 final size:43
Alignment explanation
Indices: 5651390--5651531 Score: 125
Period size: 44 Copynumber: 3.2 Consensus size: 43
5651380 CTGTCAATGC
5651390 AGGAAGGCAAGATCTGATGTCTTCAACCAGCTCCATCACCACCG
1 AGGAAGGCAAGAT-TGATGTCTTCAACCAGCTCCATCACCACCG
** * *
5651434 AGGAAGGCAACG-TT-AGTGTCTTTGACCTA-CTTCGCTGTCA--A-TG
1 AGGAAGGCAA-GATTGA-TGTCTTCAACC-AGC-TC-C-ATCACCACCG
5651477 CAGGAAGGCAAGATATGATGTCTTCAACCAGCTCCATCACCACCG
1 -AGGAAGGCAAGAT-TGATGTCTTCAACCAGCTCCATCACCACCG
5651522 AGGAAGGCAA
1 AGGAAGGCAA
5651532 CGTTAGTGTC
Statistics
Matches: 76, Mismatches: 8, Indels: 28
0.68 0.07 0.25
Matches are distributed among these distances:
42 4 0.05
43 14 0.18
44 40 0.53
45 14 0.18
46 4 0.05
ACGTcount: A:0.30, C:0.27, G:0.23, T:0.20
Consensus pattern (43 bp):
AGGAAGGCAAGATTGATGTCTTCAACCAGCTCCATCACCACCG
Found at i:5651496 original size:88 final size:86
Alignment explanation
Indices: 5651133--5651795 Score: 755
Period size: 86 Copynumber: 7.7 Consensus size: 86
5651123 GCCAAATATC
* * * *
5651133 GGAAGGCAAGATCTGTAAT-T-TTTAATCAGCTCTGCTACAAACGAGAGATGCAAGGTTTGTCTT
1 GGAAGGCAAGATCTG--ATGTCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGGTTTGTCTT
*
5651196 CGATCTGCTTCGCTGTCAATGCA
64 TGATCTGCTTCGCTGTCAATGCA
* * * * *
5651219 GGAAGGCAGGATCTGCTATCTTCAACCAGCTCTGCTACAAACGAGAGAGGCAAGGTTTGTCTTTA
1 GGAAGGCAAGATCTGATGTCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGGTTTGTCTTTG
5651284 ATCTGCTTCGCTGTCAATGCA
66 ATCTGCTTCGCTGTCAATGCA
* * * * *
5651305 GGAAGGCAAGATCTGCTATCTTCAACCAGCTCTGCTACAAACGAGAGATGCAAGGTTTGTCTTTA
1 GGAAGGCAAGATCTGATGTCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGGTTTGTCTTTG
5651370 ATCTGCTTCGCTGTCAATGCA
66 ATCTGCTTCGCTGTCAATGCA
* *
5651391 GGAAGGCAAGATCTGATGTCTTCAACCAGCTC--CATCACCACCGAG-GAAGGCAACGTTAGTGT
1 GGAAGGCAAGATCTGATGTCTTCAACCAGCTCTGC-T-ACAACCGAGAG-AGGCAAGGTT--TGT
* *
5651453 CTTTGACCTACTTCGCTGTCAATGCA
61 CTTTGATCTGCTTCGCTGTCAATGCA
* * *
5651479 GGAAGGCAAGATATGATGTCTTCAACCAGCTC--CATCACCACCGAG-GAAGGCAACGTTAGTGT
1 GGAAGGCAAGATCTGATGTCTTCAACCAGCTCTGC-T-ACAACCGAGAG-AGGCAAGGTT--TGT
* *
5651541 CTTTGACCTACTTCGCTGTCAATGCA
61 CTTTGATCTGCTTCGCTGTCAATGCA
* *
5651567 GGAAGGCAAGATATGATGTCTTCAACCA-----GCT-C--CCGAGAGAGGCAAGGTTTGTCTTCG
1 GGAAGGCAAGATCTGATGTCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGGTTTGTCTTTG
5651624 ATCTGCTTCGCTGTCAATGCA
66 ATCTGCTTCGCTGTCAATGCA
* * *
5651645 GGAGGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTACAACCAAGAGAGGCAAGGTTTGTGTCTT
1 GGAAGGCAAGATCTGATGTCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGG-TT-TGTCTT
* *
5651710 CGATCTGCTTCGCCGTCAATGCA
64 TGATCTGCTTCGCTGTCAATGCA
* * * ** *
5651733 GGAAGGAAAGATCTGTTGTCTTCAACCAGCTCTGCTACAACCAAGAGAAACAATGTTTGTCTT
1 GGAAGGCAAGATCTGATGTCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGGTTTGTCTT
5651796 CGATTTTTAC
Statistics
Matches: 525, Mismatches: 33, Indels: 38
0.88 0.06 0.06
Matches are distributed among these distances:
78 51 0.10
80 14 0.03
81 1 0.00
82 1 0.00
83 3 0.01
84 4 0.01
85 4 0.01
86 224 0.43
87 4 0.01
88 219 0.42
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (86 bp):
GGAAGGCAAGATCTGATGTCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGGTTTGTCTTTG
ATCTGCTTCGCTGTCAATGCA
Found at i:5651570 original size:44 final size:44
Alignment explanation
Indices: 5651434--5651575 Score: 143
Period size: 44 Copynumber: 3.2 Consensus size: 44
5651424 ATCACCACCG
5651434 AGGAAGGCAACGTTAGTGTCTTTGACCTACTTCGCTGTCAATGC
1 AGGAAGGCAACGTTAGTGTCTTTGACCTACTTCGCTGTCAATGC
* ** * *
5651478 AGGAAGGCAA-GATATGATGTCTTCAACC-AGC-TC-C-ATCACCA-CC
1 AGGAAGGCAACGTTA-G-TGTCTTTGACCTA-CTTCGCTGTCA--ATGC
5651521 GAGGAAGGCAACGTTAGTGTCTTTGACCTACTTCGCTGTCAATGC
1 -AGGAAGGCAACGTTAGTGTCTTTGACCTACTTCGCTGTCAATGC
5651566 AGGAAGGCAA
1 AGGAAGGCAA
5651576 GATATGATGT
Statistics
Matches: 76, Mismatches: 10, Indels: 24
0.69 0.09 0.22
Matches are distributed among these distances:
42 3 0.04
43 15 0.20
44 40 0.53
45 15 0.20
46 3 0.04
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (44 bp):
AGGAAGGCAACGTTAGTGTCTTTGACCTACTTCGCTGTCAATGC
Found at i:5651653 original size:78 final size:81
Alignment explanation
Indices: 5651526--5651764 Score: 295
Period size: 88 Copynumber: 2.9 Consensus size: 81
5651516 CCACCGAGGA
* * * * * * *
5651526 AGGCAACGTTAGTGTCTTTGACCTACTTCGCTGTCAATGCAGGAAGGCAAGATATGATGTCTTCA
1 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCA
*
5651591 ACCAGCTC-CCGAGAG
66 ACCAGCTCACCAAGAG
*
5651606 AGGCAAGG-TT-TGTCTTCGATCTGCTTCGCTGTCAATGCAGGAGGGCAAGATCTGTTGTCTTCA
1 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCA
5651669 ACCAGCTCTGCTACAACCAAGAG
66 ACCA-----GCT-C-ACCAAGAG
* *
5651692 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCCGTCAATGCAGGAAGGAAAGATCTGTTGTCTTCA
1 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCA
5651757 ACCAGCTC
66 ACCAGCTC
5651765 TGCTACAACC
Statistics
Matches: 137, Mismatches: 12, Indels: 18
0.82 0.07 0.11
Matches are distributed among these distances:
78 51 0.37
79 1 0.01
80 7 0.05
82 1 0.01
83 6 0.04
84 1 0.01
86 14 0.10
87 2 0.01
88 54 0.39
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.27
Consensus pattern (81 bp):
AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCA
ACCAGCTCACCAAGAG
Found at i:5651658 original size:254 final size:257
Alignment explanation
Indices: 5651133--5651795 Score: 728
Period size: 254 Copynumber: 2.6 Consensus size: 257
5651123 GCCAAATATC
* * * * * *
5651133 GGAAGGCAAGATCTGTAAT-T-TTTAATCAGCTCTGCTACAAACGAGAGATGCAAGGTT--TGTC
1 GGAAGGCAAGATCTG--ATGTCTTCAACCAGCTCTGCTACAACCAAGAGAGGCAACGTTAGTGTC
* * * * *
5651194 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAGGATCTGCTATCTTCAACCAGCT-CTGCTACA
64 TTCGACCTACTTCGCTGTCAATGCAGGAAGGCAAGATCTGATGTCTTCAACCAGCTCCTGCTACA
* * * * *
5651258 AACGAGAGAGGCAAGGTTTGTCTTTAATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTA
129 AACGAGAGAGGCAACGTTTGTCTTTAACCTACTTCGCTGTCAATGCAGGAAGGCAAGATATGATA
* *
5651323 TCTTCAACCAGCTCTGCTACAAACGAGAGATGCAAGGTTTGTCTTTAATCTGCTTCGCTGTCAAT
194 TCTTCAACCAGC-CTGC-AC--ACGAGAGAGGCAAGGTTTGTCTTCAATCTGCTTCGCTGTCAAT
5651388 GCA
255 GCA
* *
5651391 GGAAGGCAAGATCTGATGTCTTCAACCAGCTC--CATCACCACCGAG-GAAGGCAACGTTAGTGT
1 GGAAGGCAAGATCTGATGTCTTCAACCAGCTCTGC-T-ACAACCAAGAG-AGGCAACGTTAGTGT
* *
5651453 CTTTGACCTACTTCGCTGTCAATGCAGGAAGGCAAGATATGATGTCTTCAACCAGCTCCAT-C-A
63 CTTCGACCTACTTCGCTGTCAATGCAGGAAGGCAAGATCTGATGTCTTCAACCAGCTCC-TGCTA
* * *
5651516 CCACCGAG-GAAGGCAACGTTAGTGTCTTTGACCTACTTCGCTGTCAATGCAGGAAGGCAAGATA
127 CAAACGAGAG-AGGCAACGTT--TGTCTTTAACCTACTTCGCTGTCAATGCAGGAAGGCAAGATA
* *
5651580 TGATGTCTTCAACCAG-CT-C-C-CGAGAGAGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAA
189 TGATATCTTCAACCAGCCTGCACACGAGAGAGGCAAGGTTTGTCTTCAATCTGCTTCGCTGTCAA
5651641 TGCA
254 TGCA
* * * *
5651645 GGAGGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTACAACCAAGAGAGGCAAGGTTTGTGTCTT
1 GGAAGGCAAGATCTGATGTCTTCAACCAGCTCTGCTACAACCAAGAGAGGCAACGTTAGTGTCTT
* * * * * *
5651710 CGATCTGCTTCGCCGTCAATGCAGGAAGGAAAGATCTGTTGTCTTCAACCAGCT-CTGCTACAAC
66 CGACCTACTTCGCTGTCAATGCAGGAAGGCAAGATCTGATGTCTTCAACCAGCTCCTGCTACAAA
* ** *
5651774 CAAGAGAAACAATGTTTGTCTT
131 CGAGAGAGGCAACGTTTGTCTT
5651796 CGATTTTTAC
Statistics
Matches: 344, Mismatches: 43, Indels: 42
0.80 0.10 0.10
Matches are distributed among these distances:
252 7 0.02
253 2 0.01
254 156 0.45
255 3 0.01
256 4 0.01
257 4 0.01
258 40 0.12
259 2 0.01
260 71 0.21
261 2 0.01
262 53 0.15
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (257 bp):
GGAAGGCAAGATCTGATGTCTTCAACCAGCTCTGCTACAACCAAGAGAGGCAACGTTAGTGTCTT
CGACCTACTTCGCTGTCAATGCAGGAAGGCAAGATCTGATGTCTTCAACCAGCTCCTGCTACAAA
CGAGAGAGGCAACGTTTGTCTTTAACCTACTTCGCTGTCAATGCAGGAAGGCAAGATATGATATC
TTCAACCAGCCTGCACACGAGAGAGGCAAGGTTTGTCTTCAATCTGCTTCGCTGTCAATGCA
Found at i:5652427 original size:108 final size:108
Alignment explanation
Indices: 5652237--5652432 Score: 304
Period size: 108 Copynumber: 1.8 Consensus size: 108
5652227 GAAAAATGCT
5652237 TGAAAAAGATTATCAAAATGGACAAAATGAAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
1 TGAAAAAGATTATCAAAATGGACAAAATGAAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
5652302 CAATCAAGACAGAAAATTTTGCTGAGATACGATATGTATAAGA
66 CAATCAAGACAGAAAATTTTGCTGAGATACGATATGTATAAGA
* * * **
5652345 TGAAAAAGATTATCACAATGGATAAGATGGAAA-TTTGTTGAGAGCAAAGCTCTAAATGAACAAA
1 TGAAAAAGATTATCAAAATGGACAAAAT-GAAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAA
* * *
5652409 TTAATCAAGATAGCAAATTTTGCT
65 TCAATCAAGACAGAAAATTTTGCT
5652433 AGAATACAAA
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
108 75 0.95
109 4 0.05
ACGTcount: A:0.46, C:0.11, G:0.17, T:0.26
Consensus pattern (108 bp):
TGAAAAAGATTATCAAAATGGACAAAATGAAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
CAATCAAGACAGAAAATTTTGCTGAGATACGATATGTATAAGA
Found at i:5652819 original size:19 final size:19
Alignment explanation
Indices: 5652771--5652818 Score: 80
Period size: 18 Copynumber: 2.6 Consensus size: 19
5652761 GGCCTCTCCT
5652771 TTTTCTTTTTTCGTTCTTC
1 TTTTCTTTTTTCGTTCTTC
*
5652790 TTTTCTTTTTTC-TTTTTC
1 TTTTCTTTTTTCGTTCTTC
5652808 TTTTCTTTTTT
1 TTTTCTTTTTT
5652819 TTCAAATGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 16 0.57
19 12 0.43
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (19 bp):
TTTTCTTTTTTCGTTCTTC
Found at i:5653266 original size:12 final size:11
Alignment explanation
Indices: 5653250--5653305 Score: 58
Period size: 11 Copynumber: 4.9 Consensus size: 11
5653240 CCGGTAGAGG
*
5653250 TTTTTTTTCTTG
1 TTTTTTTT-TTC
*
5653262 TTTTTTATTTTA
1 TTTTTT-TTTTC
*
5653274 TTTTTTTGTTC
1 TTTTTTTTTTC
*
5653285 TTTTTTTTTGC
1 TTTTTTTTTTC
5653296 TTTTTTTTTT
1 TTTTTTTTTT
5653306 TGCCTCCACT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
11 21 0.57
12 14 0.38
13 2 0.05
ACGTcount: A:0.04, C:0.05, G:0.05, T:0.86
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:5653285 original size:26 final size:26
Alignment explanation
Indices: 5653250--5653307 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
5653240 CCGGTAGAGG
5653250 TTTTTT-TTCTTGTTTTTT-ATTTTAT
1 TTTTTTGTTCTTGTTTTTTGATTTT-T
* *
5653275 TTTTTTGTTCTTTTTTTTTGCTTTTT
1 TTTTTTGTTCTTGTTTTTTGATTTTT
5653301 TTTTTTG
1 TTTTTTG
5653308 CCTCCACTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 6 0.21
26 19 0.66
27 4 0.14
ACGTcount: A:0.03, C:0.05, G:0.07, T:0.84
Consensus pattern (26 bp):
TTTTTTGTTCTTGTTTTTTGATTTTT
Found at i:5653307 original size:13 final size:13
Alignment explanation
Indices: 5653269--5653308 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
5653259 TTGTTTTTTA
5653269 TTTTATTTTTTTG-
1 TTTT-TTTTTTTGC
5653282 TTCTTTTTTTTTGC
1 TT-TTTTTTTTTGC
5653296 TTTTTTTTTTTGC
1 TTTTTTTTTTTGC
5653309 CTCCACTGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 21 0.84
14 4 0.16
ACGTcount: A:0.03, C:0.07, G:0.07, T:0.82
Consensus pattern (13 bp):
TTTTTTTTTTTGC
Found at i:5654665 original size:14 final size:14
Alignment explanation
Indices: 5654648--5654683 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
5654638 CATGCAATGT
*
5654648 AATGCAGATGCATG
1 AATGCAAATGCATG
5654662 AATGCAAATGCATG
1 AATGCAAATGCATG
5654676 AATGCAAA
1 AATGCAAA
5654684 AAGAGACGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.44, C:0.14, G:0.22, T:0.19
Consensus pattern (14 bp):
AATGCAAATGCATG
Found at i:5654671 original size:20 final size:20
Alignment explanation
Indices: 5654633--5654673 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
5654623 ATGAATAAAA
*
5654633 AGATGCATGCAATGTAATGC
1 AGATGCATGCAATGAAATGC
5654653 AGATGCATG-AATGCAAATGC
1 AGATGCATGCAATG-AAATGC
5654673 A
1 A
5654674 TGAATGCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (20 bp):
AGATGCATGCAATGAAATGC
Found at i:5671930 original size:72 final size:71
Alignment explanation
Indices: 5671842--5672125 Score: 388
Period size: 72 Copynumber: 3.9 Consensus size: 71
5671832 ATTAAGTGGT
* * *
5671842 CAAATTCCATTGTCTATAGGGGAGTTATCATCTCTGAAGTTGTTTGATGTTTCAAATAATCAATT
1 CAAATTCCATTGTCTATAGGGCAGTTATCATCTTTGAAGGTGTTTGATGTTTCAAA-AATCAATT
5671907 AAACGGC
65 AAACGGC
* * * *
5671914 CAAATTCCCTTGTCTATAGGGCAGTTGTCATCTTTGGAGGAGTTTGATGTTTCAGAAAATCAATT
1 CAAATTCCATTGTCTATAGGGCAGTTATCATCTTTGAAGGTGTTTGATGTTTCA-AAAATCAATT
* *
5671979 AAATGGT
65 AAACGGC
* *
5671986 CAAATTCCATTGTCTATAGGGGAGTTATCATCTTTGAAGTTGTTTGATGTTTCAAAAAATCAATT
1 CAAATTCCATTGTCTATAGGGCAGTTATCATCTTTGAAGGTGTTTGATGTTTC-AAAAATCAATT
5672051 AAACGGC
65 AAACGGC
* * * * *
5672058 CAAATTCCCTTGTCTTTTGGGCAGTTATCATCTTTGGAGGTATTTGATGTTTCAGAAAATCAATT
1 CAAATTCCATTGTCTATAGGGCAGTTATCATCTTTGAAGGTGTTTGATGTTTCA-AAAATCAATT
5672123 AAA
65 AAA
5672126 TGGTACTTTT
Statistics
Matches: 185, Mismatches: 24, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
71 1 0.01
72 181 0.98
73 3 0.02
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (71 bp):
CAAATTCCATTGTCTATAGGGCAGTTATCATCTTTGAAGGTGTTTGATGTTTCAAAAATCAATTA
AACGGC
Found at i:5672080 original size:144 final size:144
Alignment explanation
Indices: 5671813--5672129 Score: 537
Period size: 144 Copynumber: 2.2 Consensus size: 144
5671803 GTTACTCACC
* * * *
5671813 TTGATCTTTCAGATAGTCAATTAAGTGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTCTG
1 TTGATGTTTCAGAAAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTCTG
* *
5671878 AAGTTGTTTGATGTTTCAAATAATCAATTAAACGGCCAAATTCCCTTGTCTATAGGGCAGTTGTC
66 AAGTTGTTTGATGTTTCAAAAAATCAATTAAACGGCCAAATTCCCTTGTCTATAGGGCAGTTATC
5671943 ATCTTTGGAGG-AGT
131 ATCTTTGGAGGTA-T
*
5671957 TTGATGTTTCAGAAAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTTTG
1 TTGATGTTTCAGAAAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTCTG
* *
5672022 AAGTTGTTTGATGTTTCAAAAAATCAATTAAACGGCCAAATTCCCTTGTCTTTTGGGCAGTTATC
66 AAGTTGTTTGATGTTTCAAAAAATCAATTAAACGGCCAAATTCCCTTGTCTATAGGGCAGTTATC
5672087 ATCTTTGGAGGTAT
131 ATCTTTGGAGGTAT
5672101 TTGATGTTTCAGAAAATCAATTAAATGGT
1 TTGATGTTTCAGAAAATCAATTAAATGGT
5672130 ACTTTTCCTC
Statistics
Matches: 163, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
144 162 0.99
145 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.38
Consensus pattern (144 bp):
TTGATGTTTCAGAAAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTCTG
AAGTTGTTTGATGTTTCAAAAAATCAATTAAACGGCCAAATTCCCTTGTCTATAGGGCAGTTATC
ATCTTTGGAGGTAT
Found at i:5672146 original size:72 final size:71
Alignment explanation
Indices: 5671813--5672149 Score: 268
Period size: 72 Copynumber: 4.7 Consensus size: 71
5671803 GTTACTCACC
* * * * * * * * *
5671813 TTGATCTTTCAGATAGTCAATTAAGTGGT-CAAATTCCATTGTCTATAGGGGAGTTATCATCTCT
1 TTGATGTTTCAGAAAATCAATTAAATGGTAC-ATTTCC-TTGTCTTTTGGGCAGTTATCATCTTT
* * *
5671877 GAAGTTGT
64 GGAGGTAT
* * * * * * *
5671885 TTGATGTTTCA-AATAATCAATTAAACGGCCAAATTCCCTTGTCTATAGGGCAGTTGTCATCTTT
1 TTGATGTTTCAGAA-AATCAATTAAATGG-TACATTTCCTTGTCTTTTGGGCAGTTATCATCTTT
5671949 GGAGG-AGT
64 GGAGGTA-T
* * * *
5671957 TTGATGTTTCAGAAAATCAATTAAATGGT-CAAATTCCATTGTCTATAGGGGAGTTATCATCTTT
1 TTGATGTTTCAGAAAATCAATTAAATGGTAC-ATTTCC-TTGTCTTTTGGGCAGTTATCATCTTT
* * *
5672021 GAAGTTGT
64 GGAGGTAT
* * * * *
5672029 TTGATGTTTCAAAAAATCAATTAAACGGCCAAATTCCCTTGTCTTTTGGGCAGTTATCATCTTTG
1 TTGATGTTTCAGAAAATCAATTAAATGG-TACATTTCCTTGTCTTTTGGGCAGTTATCATCTTTG
5672094 GAGGTAT
65 GAGGTAT
* *
5672101 TTGATGTTTCAGAAAATCAATTAAATGGTACTTTTCCTCTATCTTTTGG
1 TTGATGTTTCAGAAAATCAATTAAATGGTACATTTCCT-TGTCTTTTGG
5672150 ACGACTAGAA
Statistics
Matches: 210, Mismatches: 44, Indels: 22
0.76 0.16 0.08
Matches are distributed among these distances:
71 11 0.05
72 189 0.90
73 10 0.05
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.39
Consensus pattern (71 bp):
TTGATGTTTCAGAAAATCAATTAAATGGTACATTTCCTTGTCTTTTGGGCAGTTATCATCTTTGG
AGGTAT
Found at i:5679261 original size:118 final size:119
Alignment explanation
Indices: 5679101--5679315 Score: 333
Period size: 118 Copynumber: 1.8 Consensus size: 119
5679091 TCAAATAATT
* *
5679101 AAAAAATAATTTTTAATCTCCACTCACAAAAATGGAATACATTTTATTGTCAATCATTTATCTTT
1 AAAAAATAATTTTTAATCTCCACTCACAAAAATGGAACACATTTTATTGTCAATCATTTAACTTT
* *
5679166 TCGGAAAGCATCCACAGTTAGAAGATTAATCACTATTACTGATGATGGATACCA
66 TCAGAAAGCATCCACAGTTAGAAAATTAATCACTATTACTGATGATGGATACCA
* * *
5679220 AAAAAATAATTTTTAATC-CCGCTCACGAAAATGGAACACATTTTATTGTCACTCATTTAACTTT
1 AAAAAATAATTTTTAATCTCCACTCACAAAAATGGAACACATTTTATTGTCAATCATTTAACTTT
* **
5679284 TCAGAAAGTATCCAGGGTTAGAAAATTAATCA
66 TCAGAAAGCATCCACAGTTAGAAAATTAATCA
5679316 GTGCTATCAA
Statistics
Matches: 86, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
118 68 0.79
119 18 0.21
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (119 bp):
AAAAAATAATTTTTAATCTCCACTCACAAAAATGGAACACATTTTATTGTCAATCATTTAACTTT
TCAGAAAGCATCCACAGTTAGAAAATTAATCACTATTACTGATGATGGATACCA
Found at i:5682924 original size:73 final size:73
Alignment explanation
Indices: 5682805--5682951 Score: 276
Period size: 73 Copynumber: 2.0 Consensus size: 73
5682795 CAAAACGACG
*
5682805 TCGTTTTGGCCTCTGACCTGTGACCCGACCCTTTTGCCTAGAGGATCCGCGTGTCTTCTAGAGCA
1 TCGTTTTGGCCTCTGACCTGTGACCCGACCCATTTGCCTAGAGGATCCGCGTGTCTTCTAGAGCA
5682870 TGGGTTAT
66 TGGGTTAT
*
5682878 TCGTTTTGGCCTCTGACCTGTGACCCGACCCATTTGCCTAGAGGATCCGCGTGTTTTCTAGAGCA
1 TCGTTTTGGCCTCTGACCTGTGACCCGACCCATTTGCCTAGAGGATCCGCGTGTCTTCTAGAGCA
5682943 TGGGTTAT
66 TGGGTTAT
5682951 T
1 T
5682952 TTCGCGTGCG
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.14, C:0.27, G:0.26, T:0.33
Consensus pattern (73 bp):
TCGTTTTGGCCTCTGACCTGTGACCCGACCCATTTGCCTAGAGGATCCGCGTGTCTTCTAGAGCA
TGGGTTAT
Found at i:5683444 original size:15 final size:15
Alignment explanation
Indices: 5683424--5683510 Score: 70
Period size: 15 Copynumber: 5.6 Consensus size: 15
5683414 CAAAACTTAG
5683424 ATTATTATTATCATT
1 ATTATTATTATCATT
5683439 ATTATTATTATCATCAT
1 ATTATTATTATCAT--T
* *
5683456 CATTGTTATTATCGTT
1 -ATTATTATTATCATT
*
5683472 ATTGTTATTTAT-ATT
1 ATTATTA-TTATCATT
**
5683487 ATCGTT-TTCATCATT
1 ATTATTATT-ATCATT
5683502 ATTATTATT
1 ATTATTATT
5683511 GTTTATGCAT
Statistics
Matches: 59, Mismatches: 6, Indels: 13
0.76 0.08 0.17
Matches are distributed among these distances:
13 2 0.03
14 2 0.03
15 35 0.59
16 7 0.12
17 1 0.02
18 12 0.20
ACGTcount: A:0.28, C:0.09, G:0.05, T:0.59
Consensus pattern (15 bp):
ATTATTATTATCATT
Found at i:5683468 original size:18 final size:18
Alignment explanation
Indices: 5683424--5683468 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
5683414 CAAAACTTAG
* *
5683424 ATTATTATTATCATTATT
1 ATTATTATCATCATCATT
5683442 ATTATTATCATCATCATT
1 ATTATTATCATCATCATT
*
5683460 GTTATTATC
1 ATTATTATC
5683469 GTTATTGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.31, C:0.11, G:0.02, T:0.56
Consensus pattern (18 bp):
ATTATTATCATCATCATT
Found at i:5683507 original size:21 final size:21
Alignment explanation
Indices: 5683433--5683514 Score: 60
Period size: 21 Copynumber: 3.9 Consensus size: 21
5683423 GATTATTATT
** **
5683433 ATCATTATTATTATTATCATC
1 ATCATTATTATTATCGTTTTC
*
5683454 ATCATTGTTATTATCGTTATT-
1 ATCATTATTATTATCGTT-TTC
* *
5683475 GTTATT-TATATTATCGTTTTC
1 ATCATTAT-TATTATCGTTTTC
*
5683496 ATCATTATTATTATTGTTT
1 ATCATTATTATTATCGTTT
5683515 ATGCATATTA
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
20 3 0.06
21 42 0.89
22 2 0.04
ACGTcount: A:0.26, C:0.10, G:0.06, T:0.59
Consensus pattern (21 bp):
ATCATTATTATTATCGTTTTC
Found at i:5692907 original size:72 final size:72
Alignment explanation
Indices: 5692803--5693102 Score: 422
Period size: 72 Copynumber: 4.2 Consensus size: 72
5692793 ATCTTTCAGT
* ** * *
5692803 AAATCAATTAAATGATCAAATTCCATTGTCTATAGGGGAGTTATCGTCTTTGAAGTTGTTTGATG
1 AAATCAATTAAACGGCCAAATTCCATTGTCTATAGGGCAGTTATCATCTTTGAAGTTGTTTGATG
5692868 TTTCAAA
66 TTTCAAA
* * **
5692875 AAATCAATTAAACGGCCAAATTCCCTTGTCTATAGGGCAGTTGA-CATCTTTGGAGAAGTTTGAT
1 AAATCAATTAAACGGCCAAATTCCATTGTCTATAGGGCAGTT-ATCATCTTTGAAGTTGTTTGAT
*
5692939 GTTTCAGA
65 GTTTCAAA
* * *
5692947 AAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTTTGAAGTTGTTTGATG
1 AAATCAATTAAACGGCCAAATTCCATTGTCTATAGGGCAGTTATCATCTTTGAAGTTGTTTGATG
5693012 TTTCAAA
66 TTTCAAA
* * * *
5693019 AAATTAGTTAAACGGCCAAATTCCCTGGTCTATAGGGCAGTTATCATCTTTGAAGTTGTTTGATG
1 AAATCAATTAAACGGCCAAATTCCATTGTCTATAGGGCAGTTATCATCTTTGAAGTTGTTTGATG
*
5693084 TTTCAGA
66 TTTCAAA
5693091 AAATCAATTAAA
1 AAATCAATTAAA
5693103 TGGTACTTTT
Statistics
Matches: 198, Mismatches: 28, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
71 1 0.01
72 196 0.99
73 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (72 bp):
AAATCAATTAAACGGCCAAATTCCATTGTCTATAGGGCAGTTATCATCTTTGAAGTTGTTTGATG
TTTCAAA
Found at i:5693050 original size:144 final size:144
Alignment explanation
Indices: 5692790--5693106 Score: 528
Period size: 144 Copynumber: 2.2 Consensus size: 144
5692780 GTTACTCAGC
* * * *
5692790 TTGATCTTTCAGTAAATCAATTAAATGATCAAATTCCATTGTCTATAGGGGAGTTATCGTCTTTG
1 TTGATGTTTCAGAAAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTTTG
*
5692855 AAGTTGTTTGATGTTTCAAAAAATCAATTAAACGGCCAAATTCCCTTGTCTATAGGGCAGTTGA-
66 AAGTTGTTTGATGTTTCAAAAAATCAATTAAACGGCCAAATTCCCTGGTCTATAGGGCAGTT-AT
*
5692919 CATCTTTGGAGAAGT
130 CATCTTTGAAGAAGT
5692934 TTGATGTTTCAGAAAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTTTG
1 TTGATGTTTCAGAAAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTTTG
* *
5692999 AAGTTGTTTGATGTTTCAAAAAATTAGTTAAACGGCCAAATTCCCTGGTCTATAGGGCAGTTATC
66 AAGTTGTTTGATGTTTCAAAAAATCAATTAAACGGCCAAATTCCCTGGTCTATAGGGCAGTTATC
**
5693064 ATCTTTGAAGTTGT
131 ATCTTTGAAGAAGT
5693078 TTGATGTTTCAGAAAATCAATTAAATGGT
1 TTGATGTTTCAGAAAATCAATTAAATGGT
5693107 ACTTTTCCTC
Statistics
Matches: 162, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
143 1 0.01
144 161 0.99
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (144 bp):
TTGATGTTTCAGAAAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTTTG
AAGTTGTTTGATGTTTCAAAAAATCAATTAAACGGCCAAATTCCCTGGTCTATAGGGCAGTTATC
ATCTTTGAAGAAGT
Found at i:5698594 original size:119 final size:120
Alignment explanation
Indices: 5698431--5698648 Score: 312
Period size: 119 Copynumber: 1.8 Consensus size: 120
5698421 TTAAATAATT
* **
5698431 AAAAAATAATTTTTAATCTCCACTCACGAAAATGGAATACATTTTATTGTCAATCATTTATCTTT
1 AAAAAATAATTTTTAATCTCCACTCACGAAAATGGAACACATTTTATTGTCAATCATTTAAATTT
* * *
5698496 TCGGAAAGCATCCACAGTTAGAAGATTAATCACTAATACCGATGATGGATACCGA
66 TCAGAAAGCATACACAGTTAGAAAATTAATCACTAATACCGATGATGGATACCGA
** * * *
5698551 AAAAAATAATTTTTAATC-CTGCTCACGGAAATGGAACATATTTTATTGTCACTCATTTAAATTT
1 AAAAAATAATTTTTAATCTCCACTCACGAAAATGGAACACATTTTATTGTCAATCATTTAAATTT
* *
5698615 TCAGAAAGTATACACGGTTAGAAAATTAATCACT
66 TCAGAAAGCATACACAGTTAGAAAATTAATCACT
5698649 GCTATCAATG
Statistics
Matches: 85, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
119 67 0.79
120 18 0.21
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (120 bp):
AAAAAATAATTTTTAATCTCCACTCACGAAAATGGAACACATTTTATTGTCAATCATTTAAATTT
TCAGAAAGCATACACAGTTAGAAAATTAATCACTAATACCGATGATGGATACCGA
Found at i:5701268 original size:17 final size:16
Alignment explanation
Indices: 5701248--5701284 Score: 58
Period size: 15 Copynumber: 2.3 Consensus size: 16
5701238 GAGGTTTATT
5701248 GAAATTTAGCCTAACTC
1 GAAA-TTAGCCTAACTC
5701265 GAAA-TAGCCTAACTC
1 GAAATTAGCCTAACTC
5701280 GAAAT
1 GAAAT
5701285 ATGAACTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 15 0.79
17 4 0.21
ACGTcount: A:0.41, C:0.22, G:0.14, T:0.24
Consensus pattern (16 bp):
GAAATTAGCCTAACTC
Found at i:5701274 original size:15 final size:15
Alignment explanation
Indices: 5701254--5701285 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
5701244 TATTGAAATT
5701254 TAGCCTAACTCGAAA
1 TAGCCTAACTCGAAA
5701269 TAGCCTAACTCGAAA
1 TAGCCTAACTCGAAA
5701284 TA
1 TA
5701286 TGAACTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.25, G:0.12, T:0.22
Consensus pattern (15 bp):
TAGCCTAACTCGAAA
Found at i:5701649 original size:11 final size:11
Alignment explanation
Indices: 5701633--5701658 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
5701623 TATTTATACG
5701633 CAAATTTCAAA
1 CAAATTTCAAA
5701644 CAAATTTCAAA
1 CAAATTTCAAA
5701655 CAAA
1 CAAA
5701659 CCTTCAAGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.58, C:0.19, G:0.00, T:0.23
Consensus pattern (11 bp):
CAAATTTCAAA
Found at i:5708992 original size:15 final size:16
Alignment explanation
Indices: 5708964--5708996 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
5708954 GCAAATAATT
*
5708964 TAAAAATATTAAAAAA
1 TAAAAATATCAAAAAA
5708980 TAAAAAT-TCAAAAAA
1 TAAAAATATCAAAAAA
5708995 TA
1 TA
5708997 GCATGAAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (16 bp):
TAAAAATATCAAAAAA
Found at i:5710728 original size:3 final size:3
Alignment explanation
Indices: 5710670--5710709 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
5710660 ACTTAACTAT
*
5710670 ATA ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
5710710 ATTGATCTCC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:5730430 original size:13 final size:13
Alignment explanation
Indices: 5730412--5730438 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
5730402 TATTTCATGA
5730412 ATTTAATCCTTTT
1 ATTTAATCCTTTT
5730425 ATTTAATCCTTTT
1 ATTTAATCCTTTT
5730438 A
1 A
5730439 CTTTTCAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.59
Consensus pattern (13 bp):
ATTTAATCCTTTT
Found at i:5730543 original size:21 final size:20
Alignment explanation
Indices: 5730506--5730544 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
5730496 TAATTTTTTT
*
5730506 AATTATATTTCTATTAAATA
1 AATTATATTTATATTAAATA
*
5730526 AATTATTATTTATTTTAAA
1 AATTA-TATTTATATTAAA
5730545 ACCTCGCAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (20 bp):
AATTATATTTATATTAAATA
Found at i:5730973 original size:7 final size:7
Alignment explanation
Indices: 5730948--5730988 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
5730938 AAAATACAAT
*
5730948 TTTATCA
1 TTTATAA
5730955 TTTATTAA
1 TTTA-TAA
*
5730963 TTTATAT
1 TTTATAA
5730970 TTTATAA
1 TTTATAA
5730977 TTTATAA
1 TTTATAA
5730984 TTTAT
1 TTTAT
5730989 GAATGGACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
7 24 0.80
8 6 0.20
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (7 bp):
TTTATAA
Found at i:5730973 original size:22 final size:21
Alignment explanation
Indices: 5730946--5730988 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
5730936 TCAAAATACA
*
5730946 ATTTTATCATTTATTAATTTAT
1 ATTTTATAATTTA-TAATTTAT
5730968 ATTTTATAATTTATAATTTAT
1 ATTTTATAATTTATAATTTAT
5730989 GAATGGACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (21 bp):
ATTTTATAATTTATAATTTAT
Found at i:5731760 original size:15 final size:16
Alignment explanation
Indices: 5731740--5731778 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
5731730 TTTTCTTTAT
*
5731740 TTTTTTATT-TTTCAC
1 TTTTTTATTATTTAAC
5731755 TTTTTTATTATTTAAC
1 TTTTTTATTATTTAAC
5731771 TTTTTTAT
1 TTTTTTAT
5731779 AAAAAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTTTATTATTTAAC
Found at i:5731760 original size:16 final size:17
Alignment explanation
Indices: 5731739--5731776 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
5731729 TTTTTCTTTA
*
5731739 TTTTTTTATT-TTTCAC
1 TTTTTTTATTATTTAAC
5731755 -TTTTTTATTATTTAAC
1 TTTTTTTATTATTTAAC
5731771 TTTTTT
1 TTTTTT
5731777 ATAAAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 9 0.47
16 5 0.26
17 5 0.26
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTTTATTATTTAAC
Found at i:5734592 original size:23 final size:23
Alignment explanation
Indices: 5734566--5734681 Score: 71
Period size: 23 Copynumber: 5.0 Consensus size: 23
5734556 TTATAAGAAG
5734566 TTAAAATATAATTTTATTATTTA
1 TTAAAATATAATTTTATTATTTA
* * * *
5734589 TTAATATATAATTTCATCA-TAA
1 TTAAAATATAATTTTATTATTTA
*
5734611 TTAAAATGAT--TTTTTTTATTT-
1 TTAAAAT-ATAATTTTATTATTTA
* *
5734632 TGGGTCAAAGTATAATTTTATCATTTA
1 T---T-AAAATATAATTTTATTATTTA
**
5734659 TTAATTTATAA-TTTATTATTTA
1 TTAAAATATAATTTTATTATTTA
5734681 T
1 T
5734682 CAATGGACTA
Statistics
Matches: 69, Mismatches: 15, Indels: 19
0.67 0.15 0.18
Matches are distributed among these distances:
21 6 0.09
22 20 0.29
23 25 0.36
24 4 0.06
25 4 0.06
26 9 0.13
27 1 0.01
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.55
Consensus pattern (23 bp):
TTAAAATATAATTTTATTATTTA
Found at i:5734672 original size:15 final size:14
Alignment explanation
Indices: 5734648--5734681 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
5734638 AAAGTATAAT
*
5734648 TTTATCATTTATTAA
1 TTTATAATTTATT-A
5734663 TTTATAATTTATTA
1 TTTATAATTTATTA
5734677 TTTAT
1 TTTAT
5734682 CAATGGACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTATAATTTATTA
Found at i:5735637 original size:18 final size:18
Alignment explanation
Indices: 5735593--5735647 Score: 76
Period size: 18 Copynumber: 3.1 Consensus size: 18
5735583 AAATTATCAA
*
5735593 AAAATTCAAAATATTTTTT
1 AAAATTCAAAATA-TTTAT
5735612 AAAATTCAAAATATTTAT
1 AAAATTCAAAATATTTAT
*
5735630 AAATTTCAAAAT-TTTAT
1 AAAATTCAAAATATTTAT
5735647 A
1 A
5735648 TTTTTGAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.18
18 15 0.44
19 13 0.38
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (18 bp):
AAAATTCAAAATATTTAT
Found at i:5738300 original size:1 final size:1
Alignment explanation
Indices: 5738294--5738384 Score: 74
Period size: 1 Copynumber: 91.0 Consensus size: 1
5738284 TTGTTTCTCC
* ** ** ** * *
5738294 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTATTCATGCTTTTTCATTTTTTTCTTTTTTTGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* **
5738359 TTTTCTCCTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
5738385 CTCTTTTCTA
Statistics
Matches: 71, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 71 1.00
ACGTcount: A:0.03, C:0.08, G:0.02, T:0.87
Consensus pattern (1 bp):
T
Found at i:5738375 original size:38 final size:38
Alignment explanation
Indices: 5738263--5738391 Score: 120
Period size: 38 Copynumber: 3.5 Consensus size: 38
5738253 TTCATGCTTG
* * * *
5738263 TTCATTATTCTCTTTATTTGTTTGTTTCTCCTTTTTTT
1 TTCATTTTTTTCTTTTTTTGTTTTTTTCTCCTTTTTTT
* * * * **
5738301 TT--TTTTTTT-TTTTTTTTTTTTTTTATTCATGCTTT
1 TTCATTTTTTTCTTTTTTTGTTTTTTTCTCCTTTTTTT
5738336 TTCATTTTTTTCTTTTTTTGTTTTTTTCTCCTTTTTTT
1 TTCATTTTTTTCTTTTTTTGTTTTTTTCTCCTTTTTTT
** *
5738374 TTTTTTTTTTTCTCTTTT
1 TTCATTTTTTTCTTTTTT
5738392 CTAATTTATA
Statistics
Matches: 69, Mismatches: 19, Indels: 6
0.73 0.20 0.06
Matches are distributed among these distances:
35 20 0.29
36 5 0.07
37 7 0.10
38 37 0.54
ACGTcount: A:0.05, C:0.12, G:0.03, T:0.81
Consensus pattern (38 bp):
TTCATTTTTTTCTTTTTTTGTTTTTTTCTCCTTTTTTT
Found at i:5743916 original size:18 final size:17
Alignment explanation
Indices: 5743889--5743928 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
5743879 TTAAAAGTCC
5743889 AAAAAATATATATTTAAT
1 AAAAAATATAT-TTTAAT
* *
5743907 AAAAAGTATATTTTATT
1 AAAAAATATATTTTAAT
5743924 AAAAA
1 AAAAA
5743929 TAAAAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
AAAAAATATATTTTAAT
Found at i:5746572 original size:42 final size:41
Alignment explanation
Indices: 5746516--5746600 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 41
5746506 TAGGTAAATA
**
5746516 AACATATAAAATAAT-ACAAATAATAATACTAATAGTTATAGT
1 AACATATAAAATAATAAC-AATAATAATAAAAATAGTTA-AGT
5746558 AACAT-TAATAATAATAACAATAATAATAAAAATAGTTAAGT
1 AACATATAA-AATAATAACAATAATAATAAAAATAGTTAAGT
5746599 AA
1 AA
5746601 TTAAAAAACG
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
41 8 0.21
42 29 0.74
43 2 0.05
ACGTcount: A:0.60, C:0.06, G:0.05, T:0.29
Consensus pattern (41 bp):
AACATATAAAATAATAACAATAATAATAAAAATAGTTAAGT
Found at i:5749916 original size:72 final size:72
Alignment explanation
Indices: 5749822--5750138 Score: 429
Period size: 72 Copynumber: 4.4 Consensus size: 72
5749812 GAGGAAAAGT
* * *
5749822 ACCATTTAATTGATTTTCTGAAACATCAAATACCTCCAAAGATGATAACTGCCCTATAGACAAGG
1 ACCATTTAATTGATTTTCTGAAACATCAAACAACTCCAAAGATGATAACTCCCCTATAGACAAGG
5749887 GAATTTG
66 GAATTTG
* * * * * * *
5749894 GCCGTTTAACTGATTTTTTGAAACAGCAAACAACTTCAAAGATGATAACTCCCCTATAGACAATG
1 ACCATTTAATTGATTTTCTGAAACATCAAACAACTCCAAAGATGATAACTCCCCTATAGACAAGG
*
5749959 GAACTTG
66 GAATTTG
* ** * *
5749966 ACCATTTAATTGATTTTCTGAAACATGAAACTCCTCCAAAGATGACAACTGCCCTATAGACAAGG
1 ACCATTTAATTGATTTTCTGAAACATCAAACAACTCCAAAGATGATAACTCCCCTATAGACAAGG
5750031 GAATTTG
66 GAATTTG
* * * *
5750038 GCCATTTAATTGA-TTTCTTGAAACATCAAACAACTTCAGAGATGATAACTCCCCTATAGACAAT
1 ACCATTTAATTGATTTTC-TGAAACATCAAACAACTCCAAAGATGATAACTCCCCTATAGACAAG
5750102 GGAATTTG
65 GGAATTTG
*
5750110 ACCATTTAATTGATTTTCTGAAAGATCAA
1 ACCATTTAATTGATTTTCTGAAACATCAA
5750139 GCTGAGTAAG
Statistics
Matches: 208, Mismatches: 35, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
71 4 0.02
72 200 0.96
73 4 0.02
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.30
Consensus pattern (72 bp):
ACCATTTAATTGATTTTCTGAAACATCAAACAACTCCAAAGATGATAACTCCCCTATAGACAAGG
GAATTTG
Found at i:5750082 original size:144 final size:144
Alignment explanation
Indices: 5749822--5750138 Score: 537
Period size: 144 Copynumber: 2.2 Consensus size: 144
5749812 GAGGAAAAGT
*
5749822 ACCATTTAATTGATTTTCTGAAACATCAAATACCTCCAAAGATGATAACTGCCCTATAGACAAGG
1 ACCATTTAATTGATTTTCTGAAACATCAAATACCTCCAAAGATGACAACTGCCCTATAGACAAGG
* *
5749887 GAATTTGGCCGTTTAACTGATTTTTTGAAACAGCAAACAACTTCAAAGATGATAACTCCCCTATA
66 GAATTTGGCCATTTAACTGATTTCTTGAAACAGCAAACAACTTCAAAGATGATAACTCCCCTATA
5749952 GACAATGGAACTTG
131 GACAATGGAACTTG
*
5749966 ACCATTTAATTGATTTTCTGAAACATGAAACT-CCTCCAAAGATGACAACTGCCCTATAGACAAG
1 ACCATTTAATTGATTTTCTGAAACATCAAA-TACCTCCAAAGATGACAACTGCCCTATAGACAAG
* * *
5750030 GGAATTTGGCCATTTAATTGATTTCTTGAAACATCAAACAACTTCAGAGATGATAACTCCCCTAT
65 GGAATTTGGCCATTTAACTGATTTCTTGAAACAGCAAACAACTTCAAAGATGATAACTCCCCTAT
*
5750095 AGACAATGGAATTTG
130 AGACAATGGAACTTG
*
5750110 ACCATTTAATTGATTTTCTGAAAGATCAA
1 ACCATTTAATTGATTTTCTGAAACATCAA
5750139 GCTGAGTAAG
Statistics
Matches: 162, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
144 161 0.99
145 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.30
Consensus pattern (144 bp):
ACCATTTAATTGATTTTCTGAAACATCAAATACCTCCAAAGATGACAACTGCCCTATAGACAAGG
GAATTTGGCCATTTAACTGATTTCTTGAAACAGCAAACAACTTCAAAGATGATAACTCCCCTATA
GACAATGGAACTTG
Found at i:5752733 original size:17 final size:18
Alignment explanation
Indices: 5752711--5752748 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
5752701 GTAATGAACC
5752711 ACAAATAA-TCAATA-AAT
1 ACAAATAAGT-AATACAAT
5752728 ACAAATAAGTAATACAAT
1 ACAAATAAGTAATACAAT
5752746 ACA
1 ACA
5752749 CAAGAGCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.63, C:0.13, G:0.03, T:0.21
Consensus pattern (18 bp):
ACAAATAAGTAATACAAT
Found at i:5753308 original size:24 final size:23
Alignment explanation
Indices: 5753259--5753390 Score: 124
Period size: 23 Copynumber: 5.7 Consensus size: 23
5753249 GAATGCATAA
* *
5753259 AATAATACATGATAAATTTAAAT
1 AATAATAGATGATAAATTAAAAT
* *
5753282 AATCATAGATGATAAGTTCAAAAT
1 AATAATAGATGATAAATT-AAAAT
* *
5753306 AATAATACATGATAAAATTAAAAA
1 AATAATAGATGAT-AAATTAAAAT
**
5753330 AATGTTA-ATGATAAATTTAAAAT
1 AATAATAGATGATAAA-TTAAAAT
* *
5753353 AATAATATATTATAAATTAAAAT
1 AATAATAGATGATAAATTAAAAT
*
5753376 AAT-ATTGATGATAAA
1 AATAATAGATGATAAA
5753391 AAATATATTA
Statistics
Matches: 88, Mismatches: 17, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
22 12 0.14
23 41 0.47
24 31 0.35
25 4 0.05
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (23 bp):
AATAATAGATGATAAATTAAAAT
Found at i:5753314 original size:47 final size:46
Alignment explanation
Indices: 5753259--5753390 Score: 158
Period size: 47 Copynumber: 2.8 Consensus size: 46
5753249 GAATGCATAA
* *
5753259 AATAATACATGATAAATTTAAATAATCATAGATGATAAGTTCAAAAT
1 AATAATACATGATAAATTAAAATAAT-ATAGATGATAAATTCAAAAT
* * *
5753306 AATAATACATGATAAAATTAAAAAAATGTTA-ATGATAAATTTAAAAT
1 AATAATACATGAT-AAATTAAAATAAT-ATAGATGATAAATTCAAAAT
* * *
5753353 AATAATATATTATAAATTAAAATAATATTGATGATAAA
1 AATAATACATGATAAATTAAAATAATATAGATGATAAA
5753391 AAATATATTA
Statistics
Matches: 72, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
45 1 0.01
46 20 0.28
47 38 0.53
48 13 0.18
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (46 bp):
AATAATACATGATAAATTAAAATAATATAGATGATAAATTCAAAAT
Found at i:5754296 original size:6 final size:7
Alignment explanation
Indices: 5754279--5754305 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
5754269 CCCAAATCTA
5754279 AAAAAAG
1 AAAAAAG
5754286 AAAAAAG
1 AAAAAAG
5754293 AAAAAAG
1 AAAAAAG
5754300 AAAAAA
1 AAAAAA
5754306 CCTAGCAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:5755252 original size:14 final size:14
Alignment explanation
Indices: 5755233--5755276 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 14
5755223 TTTTGCATTC
5755233 TTTTTATTTTATTT
1 TTTTTATTTTATTT
5755247 TTTTTATTTTTACTTT
1 TTTTTA-TTTTA-TTT
5755263 TTTATTATATTTAT
1 TTT-TTAT-TTTAT
5755277 CTATTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.23
15 5 0.19
16 8 0.31
17 7 0.27
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTTATTTTATTT
Found at i:5755270 original size:17 final size:15
Alignment explanation
Indices: 5755233--5755276 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 15
5755223 TTTTGCATTC
5755233 TTTTTA-TTTTATTT
1 TTTTTATTTTTATTT
5755247 TTTTTATTTTTACTTT
1 TTTTTATTTTTA-TTT
*
5755263 TTTATTATATTTAT
1 TTT-TTATTTTTAT
5755277 CTATTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 6 0.23
15 5 0.19
16 7 0.27
17 8 0.31
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTATTTTTATTT
Found at i:5756581 original size:23 final size:22
Alignment explanation
Indices: 5756555--5756624 Score: 61
Period size: 23 Copynumber: 3.0 Consensus size: 22
5756545 TTACATAATT
5756555 TGTATATATATGCATTTTTTTCA
1 TGTATATATATGCATTTTTTT-A
* *
5756578 TGTAGTACATACGCATATTTTTATA
1 TGTA-TATATATGCAT-TTTTT-TA
* *
5756603 TG-AAATATATACATTTTTTTA
1 TGTATATATATGCATTTTTTTA
5756624 T
1 T
5756625 ATGTATTTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
21 3 0.08
22 5 0.13
23 11 0.29
24 10 0.26
25 8 0.21
26 1 0.03
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.51
Consensus pattern (22 bp):
TGTATATATATGCATTTTTTTA
Done.