Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 260 of 320
Found at i:84770685 original size:40 final size:40
Alignment explanation
Indices: 84770482--84770685 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
84770472 CGGAATTTAA
** *
84770482 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
84770522 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
84770562 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
84770601 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
84770641 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
84770681 CCGGA
1 CCGGA
84770686 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:84778762 original size:40 final size:40
Alignment explanation
Indices: 84778560--84778762 Score: 220
Period size: 39 Copynumber: 5.1 Consensus size: 40
84778550 CGGAATTTAA
** *
84778560 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
84778600 CCGGTTATAGTAACTCGCACAAATGCC-TCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
84778639 CCAGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
84778678 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
84778718 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
84778758 CCGGA
1 CCGGA
84778763 CATCATTCGA
Statistics
Matches: 137, Mismatches: 18, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
38 2 0.01
39 65 0.47
40 58 0.42
41 12 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:84786830 original size:79 final size:81
Alignment explanation
Indices: 84786662--84786846 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
84786652 GCTACTCGTT
* *
84786662 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTCCGGGACTTAACCCA
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTCCGGGACTTAACCCA
* *
84786726 GATTTAGTAACTCGCAC
65 GATATAGTAACTAGCAC
* * ** *
84786743 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTCCGGGA-CTTAACCCA
* *
84786805 GATATGGTCACTTAGCA-
65 GATATAGTAAC-TAGCAC
84786822 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
84786847 CATCATTCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 57 0.65
80 25 0.28
81 3 0.03
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTCCGGGACTTAACCCAG
ATATAGTAACTAGCAC
Found at i:84786846 original size:40 final size:40
Alignment explanation
Indices: 84786643--84786846 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
84786633 CGGAATTTAA
** *
84786643 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
84786683 CCGGTTATAGTAACTCGCACAAATGCCTCCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
84786723 CCAGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
84786762 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
84786802 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
84786842 CCGGA
1 CCGGA
84786847 CATCATTCGA
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 91 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:84794881 original size:39 final size:40
Alignment explanation
Indices: 84794767--84794948 Score: 210
Period size: 40 Copynumber: 4.6 Consensus size: 40
84794757 GCTACTCGTT
**
84794767 CAAATGCCTTCGGGACAAAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
84794807 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
84794847 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
84794886 CAAATGCCTTC-AGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
84794927 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
84794949 AGACATCATT
Statistics
Matches: 121, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 1 0.01
39 33 0.27
40 75 0.62
41 12 0.10
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:84794911 original size:79 final size:80
Alignment explanation
Indices: 84794769--84794948 Score: 206
Period size: 79 Copynumber: 2.3 Consensus size: 80
84794759 TACTCGTTCA
** * *
84794769 AATGCCTTCGGGACAAAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGAT
* *
84794834 TTAGTAAC-TCGCACC
66 ATAGTAACTTAGCA-C
**
84794849 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTC-AGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGAGA-CTTAACCCGG
* *
84794911 ATATGGTCACTTAGCAC
64 ATATAGTAACTTAGCAC
*
84794928 AAAGCCTTCGGGACTTAGCCC
1 AATGCCTTCGGGACTTAGCCC
84794949 AGACATCATT
Statistics
Matches: 85, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
78 3 0.04
79 58 0.68
80 24 0.28
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:84797721 original size:20 final size:21
Alignment explanation
Indices: 84797682--84797721 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
84797672 CAGGCTTGAA
*
84797682 CCCAAGACTTCTTAAACACTT
1 CCCAAGACTACTTAAACACTT
*
84797703 CCCAAGAC-ACTTAACCACT
1 CCCAAGACTACTTAAACACT
84797722 GAAGTAGACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.35, C:0.38, G:0.05, T:0.23
Consensus pattern (21 bp):
CCCAAGACTACTTAAACACTT
Found at i:84799210 original size:6 final size:6
Alignment explanation
Indices: 84799199--84799227 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
84799189 AGTCCATTTG
84799199 TTTTAA TTTTAA TTTTAA TTTTAA TTTTA
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTA
84799228 TATGTTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTTAA
Found at i:84800393 original size:14 final size:14
Alignment explanation
Indices: 84800376--84800406 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
84800366 AGTAAAATAT
84800376 TTTCTGAAAAATGA
1 TTTCTGAAAAATGA
*
84800390 TTTCTGGAAAATGA
1 TTTCTGAAAAATGA
84800404 TTT
1 TTT
84800407 ACTTTTCTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.35, C:0.06, G:0.16, T:0.42
Consensus pattern (14 bp):
TTTCTGAAAAATGA
Found at i:84800422 original size:19 final size:20
Alignment explanation
Indices: 84800390--84800435 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
84800380 TGAAAAATGA
84800390 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
84800410 TTTCTGG-AAATGATTTACT
1 TTTCTGGAAAATGATTTACT
84800429 TTTCTGG
1 TTTCTGG
84800436 TGTTTGGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.48
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:84803283 original size:31 final size:30
Alignment explanation
Indices: 84803247--84803308 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 30
84803237 CGAGATGGAA
*
84803247 AAAGTTGAAGAATGGAAGAAAAAGAAAGCTT
1 AAAGTTGAAGAACGGAAGAAAAA-AAAGCTT
*
84803278 AAAGTTGAAGAACGGAAGAAAAAAAGGCTT
1 AAAGTTGAAGAACGGAAGAAAAAAAAGCTT
84803308 A
1 A
84803309 CCTGGATGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 7 0.24
31 22 0.76
ACGTcount: A:0.55, C:0.05, G:0.26, T:0.15
Consensus pattern (30 bp):
AAAGTTGAAGAACGGAAGAAAAAAAAGCTT
Found at i:84806003 original size:42 final size:42
Alignment explanation
Indices: 84805944--84806141 Score: 227
Period size: 42 Copynumber: 4.7 Consensus size: 42
84805934 TTAAGATTTA
* * *
84805944 CATGTAAGACCATATCTGGGATATGGAATTGATAGGAAACAT
1 CATGTAAGACCATATCTGGGATATGGCATCGATATGAAACAT
*
84805986 CATGTAAGACCATATCTGGGATATGGCATCGATATGAAACTT
1 CATGTAAGACCATATCTGGGATATGGCATCGATATGAAACAT
* * * * *
84806028 CGTGTAAGATCATATCTGGGATATGGCATCTATATTAAACTT
1 CATGTAAGACCATATCTGGGATATGGCATCGATATGAAACAT
* * * * *
84806070 CGTGTAAGACCATAGCTGGGCTATTGGCATCGATACGAGATCA-
1 CATGTAAGACCATATCTGGGATA-TGGCATCGATATGA-AACAT
* *
84806113 CATGTAAGACCATATTTGGGATATAGCAT
1 CATGTAAGACCATATCTGGGATATGGCAT
84806142 TGGTACGATA
Statistics
Matches: 133, Mismatches: 21, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
42 101 0.76
43 30 0.23
44 2 0.02
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.29
Consensus pattern (42 bp):
CATGTAAGACCATATCTGGGATATGGCATCGATATGAAACAT
Found at i:84810412 original size:13 final size:13
Alignment explanation
Indices: 84810394--84810426 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
84810384 TCATGCACGA
*
84810394 GCGTGTGCTCTGG
1 GCGTGTGCCCTGG
84810407 GCGTGTGCCCTGG
1 GCGTGTGCCCTGG
84810420 GCGTGTG
1 GCGTGTG
84810427 AAGTCTGCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.00, C:0.24, G:0.48, T:0.27
Consensus pattern (13 bp):
GCGTGTGCCCTGG
Found at i:84814131 original size:43 final size:43
Alignment explanation
Indices: 84814031--84814144 Score: 135
Period size: 42 Copynumber: 2.7 Consensus size: 43
84814021 CATCAACTTA
**
84814031 TGATTTACGTGTAAGACCACGTCTAGGACGTTGGCATCGTATT
1 TGATTTACGTGTAAGACCACGTCTAGGACAATGGCATCGTATT
* *
84814074 TGATTT-TGTGTAAGACC-CTGTCTGGGACAATGGCATCGATATT
1 TGATTTACGTGTAAGACCAC-GTCTAGGACAATGGCATCG-TATT
* *
84814117 TG-TTTACATGTAAGACCACATCTAGGAC
1 TGATTTACGTGTAAGACCACGTCTAGGAC
84814145 GTTGGCATTG
Statistics
Matches: 59, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
41 1 0.02
42 29 0.49
43 28 0.47
44 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (43 bp):
TGATTTACGTGTAAGACCACGTCTAGGACAATGGCATCGTATT
Found at i:84814151 original size:43 final size:44
Alignment explanation
Indices: 84813982--84814152 Score: 169
Period size: 43 Copynumber: 4.0 Consensus size: 44
84813972 ACATAGGATC
* * * *
84813982 CGATA-TTG-TTTTCGTGTGAGACCACGTCTGGGATGTTGGCAT
1 CGATATTTGATTTACGTGTAAGACCACGTCTAGGACGTTGGCAT
84814024 C-A-ACTTATGATTTACGTGTAAGACCACGTCTAGGACGTTGGCAT
1 CGATA-TT-TGATTTACGTGTAAGACCACGTCTAGGACGTTGGCAT
* * **
84814068 CG-TATTTGATTT-TGTGTAAGACC-CTGTCTGGGACAATGGCAT
1 CGATATTTGATTTACGTGTAAGACCAC-GTCTAGGACGTTGGCAT
* *
84814110 CGATATTTG-TTTACATGTAAGACCACATCTAGGACGTTGGCAT
1 CGATATTTGATTTACGTGTAAGACCACGTCTAGGACGTTGGCAT
84814153 TGTACGAGCT
Statistics
Matches: 105, Mismatches: 14, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
40 1 0.01
41 2 0.02
42 31 0.30
43 36 0.34
44 34 0.32
45 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (44 bp):
CGATATTTGATTTACGTGTAAGACCACGTCTAGGACGTTGGCAT
Found at i:84821752 original size:43 final size:41
Alignment explanation
Indices: 84821643--84821761 Score: 114
Period size: 43 Copynumber: 2.8 Consensus size: 41
84821633 CAACTTATGA
*
84821643 TTTACATGTAAGACCACGCCTGGGATGTTGGAATCATATTT
1 TTTACATGTAAGACCACGTCTGGGATGTTGGAATCATATTT
* * ** * * *
84821684 TATTTCGTGTAAGACCTTGTTTGGGATAG-TGGCATTGATATTT
1 T-TTACATGTAAGACCACGTCTGGGAT-GTTGG-AATCATATTT
*
84821727 GTTTACATGTAAGACCACGTCTGGGACGTTGGAAT
1 -TTTACATGTAAGACCACGTCTGGGATGTTGGAAT
84821762 TGTACGAGCT
Statistics
Matches: 58, Mismatches: 15, Indels: 9
0.71 0.18 0.11
Matches are distributed among these distances:
41 1 0.02
42 25 0.43
43 31 0.53
44 1 0.02
ACGTcount: A:0.24, C:0.14, G:0.25, T:0.36
Consensus pattern (41 bp):
TTTACATGTAAGACCACGTCTGGGATGTTGGAATCATATTT
Found at i:84821959 original size:20 final size:19
Alignment explanation
Indices: 84821934--84821980 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
84821924 AAAATATGCT
84821934 ATATGTGTAAATGAATAGGA
1 ATATGTG-AAATGAATAGGA
* *
84821954 ATATGTGAAATGTATATGA
1 ATATGTGAAATGAATAGGA
84821973 ACTATGTG
1 A-TATGTG
84821981 GTTTGAGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.40, C:0.02, G:0.23, T:0.34
Consensus pattern (19 bp):
ATATGTGAAATGAATAGGA
Found at i:84827069 original size:42 final size:42
Alignment explanation
Indices: 84827022--84827167 Score: 211
Period size: 42 Copynumber: 3.5 Consensus size: 42
84827012 TTGAGATTTA
* * * *
84827022 CGTGTAAGACCATATCTAGGATATGACATCGACAGGAAACTT
1 CGTGTAAGACCATATCTGGGATATGACATCAATATGAAACTT
*
84827064 CGTGTAAGACCATATCTGGGATATGGCATCAATATGAAACTT
1 CGTGTAAGACCATATCTGGGATATGACATCAATATGAAACTT
* * *
84827106 CATGTAAGACCATATTTGGGATATGACATCTATATGAAACTT
1 CGTGTAAGACCATATCTGGGATATGACATCAATATGAAACTT
*
84827148 CGTGTAAGACCATAGCTGGG
1 CGTGTAAGACCATATCTGGG
84827168 CTATTAGCAT
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 92 1.00
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (42 bp):
CGTGTAAGACCATATCTGGGATATGACATCAATATGAAACTT
Found at i:84827167 original size:84 final size:85
Alignment explanation
Indices: 84827024--84827215 Score: 244
Period size: 84 Copynumber: 2.3 Consensus size: 85
84827014 GAGATTTACG
* * *
84827024 TGTAAGACCATATCTAGGATATGACATCGACAGGAAACTTCGTGTAAGACCATATCTGGGATA-T
1 TGTAAGACCATATTTGGGATATGACATCGACAGGAAACTTCGTGTAAGACCATAGCTGGGATATT
* * *
84827088 GGCATCAATATGAAA-CTTCA
66 AGCATCAATACGAAATC-ACA
* * * *
84827108 TGTAAGACCATATTTGGGATATGACATCTATATGAAACTTCGTGTAAGACCATAGCTGGGCTATT
1 TGTAAGACCATATTTGGGATATGACATCGACAGGAAACTTCGTGTAAGACCATAGCTGGGATATT
* *
84827173 AGCATCGATACGAGATCACA
66 AGCATCAATACGAAATCACA
*
84827193 TGTAAGAACATATTTGGGATATG
1 TGTAAGACCATATTTGGGATATG
84827216 GCATTGGTAC
Statistics
Matches: 93, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
84 56 0.60
85 36 0.39
86 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.28
Consensus pattern (85 bp):
TGTAAGACCATATTTGGGATATGACATCGACAGGAAACTTCGTGTAAGACCATAGCTGGGATATT
AGCATCAATACGAAATCACA
Found at i:84829076 original size:27 final size:27
Alignment explanation
Indices: 84829047--84829241 Score: 237
Period size: 27 Copynumber: 7.2 Consensus size: 27
84829037 GGGCAAAATG
* * * *
84829047 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
*
84829074 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
84829101 GTATTTCTACCATACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* * *
84829128 GTCATTCTACCCTATAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
84829155 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* * *
84829182 GTAACTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
84829209 GTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCA
84829236 GTAATT
1 GTAATT
84829242 TTACAAACCA
Statistics
Matches: 146, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 146 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:84829253 original size:27 final size:27
Alignment explanation
Indices: 84829196--84829403 Score: 179
Period size: 27 Copynumber: 7.7 Consensus size: 27
84829186 CTCTACCCTA
* * **
84829196 CAGGGGTATTTTAGTAATTCTACCCTA-
1 CAGGGGTATTTTGGTAATTTTA-CAAAC
*
84829223 CAGGGGTATTTTAGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
84829250 CAGGGGTATTTTGGTAATTTTGA-TAAC
1 CAGGGGTATTTTGGTAATTTT-ACAAAC
** **
84829277 CAATGGTATTTTGGTAATTTTACAAGT
1 CAGGGGTATTTTGGTAATTTTACAAAC
** * *
84829304 C-GAGGGTATTTTAATAATTTCACAAAT
1 CAG-GGGTATTTTGGTAATTTTACAAAC
* *
84829331 TAAGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
* * **
84829358 TAAGGGTATTTTGGTAATTTTGTAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
84829385 CAAGGGTATTTTGGTAATT
1 CAGGGGTATTTTGGTAATT
84829404 CTACCCTACA
Statistics
Matches: 151, Mismatches: 25, Indels: 10
0.81 0.13 0.05
Matches are distributed among these distances:
26 3 0.02
27 147 0.97
28 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAAAC
Found at i:84829257 original size:81 final size:81
Alignment explanation
Indices: 84829047--84829266 Score: 210
Period size: 81 Copynumber: 2.7 Consensus size: 81
84829037 GGGCAAAATG
* * * * * ** * **
84829047 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACC
1 GTAATTCTACCCTACAAGGGTATTTCAGTATTTCTACCAAACAGGGGTATTTCGGTAACTCTACC
84829112 ATACAAGGGTATTTCA
66 ATACAAGGGTATTTCA
* * * ** *
84829128 GTCATTCTACCCTATAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAACTCTACC
1 GTAATTCTACCCTACAAGGGTATTTCAGTATTTCTACCAAACAGGGGTATTTCGGTAACTCTACC
* * *
84829193 CTACAGGGGTATTTTA
66 ATACAAGGGTATTTCA
* * *
84829209 GTAATTCTACCCTACAGGGGTATTTTAGTAATTT-TA-CAAACCAGGGGTATTTTGGTAA
1 GTAATTCTACCCTACAAGGGTATTTCAGT-ATTTCTACCAAA-CAGGGGTATTTCGGTAA
84829267 TTTTGATAAC
Statistics
Matches: 115, Mismatches: 22, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
80 2 0.02
81 109 0.95
82 4 0.03
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (81 bp):
GTAATTCTACCCTACAAGGGTATTTCAGTATTTCTACCAAACAGGGGTATTTCGGTAACTCTACC
ATACAAGGGTATTTCA
Found at i:84829366 original size:81 final size:81
Alignment explanation
Indices: 84829226--84829378 Score: 218
Period size: 81 Copynumber: 1.9 Consensus size: 81
84829216 TACCCTACAG
* * * * *
84829226 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGATAACCAATGGTATTTTGG
1 GGGTATTTTAATAATTTCACAAACCAAGGGTATTTTGGTAATTTTGAAAACCAAGGGTATTTTGG
84829291 TAATTTTACAAGTCGA
66 TAATTTTACAAGTCGA
** *
84829307 GGGTATTTTAATAATTTCACAAATTAAGGGTATTTTGGTAATTTT-ACAAACTAAGGGTATTTTG
1 GGGTATTTTAATAATTTCACAAACCAAGGGTATTTTGGTAATTTTGA-AAACCAAGGGTATTTTG
84829371 GTAATTTT
65 GTAATTTT
84829379 GTAAACCAAG
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
80 1 0.02
81 62 0.98
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (81 bp):
GGGTATTTTAATAATTTCACAAACCAAGGGTATTTTGGTAATTTTGAAAACCAAGGGTATTTTGG
TAATTTTACAAGTCGA
Found at i:84829403 original size:81 final size:81
Alignment explanation
Indices: 84829226--84829403 Score: 214
Period size: 81 Copynumber: 2.2 Consensus size: 81
84829216 TACCCTACAG
* * * *
84829226 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGATAACCAATGGTATTTTGG
1 GGGTATTTTAGTAATTTCACAAACCAAGGGTATTTTGGTAATTTTGAAAACCAAGGGTATTTTGG
** *
84829291 TAATTTTACAAGTCGA
66 TAATTTTACAAACCAA
* ** *
84829307 GGGTATTTTAATAATTTCACAAATTAAGGGTATTTTGGTAATTTT-ACAAACTAAGGGTATTTTG
1 GGGTATTTTAGTAATTTCACAAACCAAGGGTATTTTGGTAATTTTGA-AAACCAAGGGTATTTTG
**
84829371 GTAATTTTGTAAACCAA
65 GTAATTTTACAAACCAA
*
84829388 GGGTATTTTGGTAATT
1 GGGTATTTTAGTAATT
84829404 CTACCCTACA
Statistics
Matches: 81, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
80 1 0.01
81 80 0.99
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (81 bp):
GGGTATTTTAGTAATTTCACAAACCAAGGGTATTTTGGTAATTTTGAAAACCAAGGGTATTTTGG
TAATTTTACAAACCAA
Found at i:84829419 original size:54 final size:54
Alignment explanation
Indices: 84829061--84829438 Score: 201
Period size: 54 Copynumber: 7.0 Consensus size: 54
84829051 TTTTACCCCA
* * *
84829061 CAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGT-A-TTTCTACCATA-
1 CAAGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTTAGTAATTTTCTA--A-AC
** * * * ** **
84829115 CAAGGGTATTTCAGTCATTCTACCCTATAAGGGTATTTCGGT-A-TTTCTACCC
1 CAAGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTTAGTAATTTTCTAAAC
* * *
84829167 TACAAGGGTATTTCGGTAACTCTACCCTACAGGGGTATTTTAGTAA--TTCT-ACC
1 --CAAGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTTAGTAATTTTCTAAAC
* * ** * *
84829220 CTACAGGGGTATTTTAGTAATTTTA-CAAACCAGGGGTATTTTGGTAATTTT-GATAAC
1 C-A-A-GGGTATTTTGGTAATTCTACCCTA-CAGGGGTATTTTAGTAATTTTCTA-AAC
* * ** * * *
84829277 CAATGGTATTTTGGTAATTTTACAAGT-C-GAGGGTATTTTAATAA-TTTCACAAAT
1 CAAGGGTATTTTGGTAATTCTAC-CCTACAG-GGGTATTTTAGTAATTTTC-TAAAC
* * * * *
84829331 TAAGGGTATTTTGGTAATTTTACAAACTA-A-GGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTCTAC--CCTACAGGGGTATTTTAGTAATTTTCTAAAC
* *
84829385 CAAGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTTAGTAATTTTCTAAAC
84829439 TAAAGTATTC
Statistics
Matches: 254, Mismatches: 47, Indels: 46
0.73 0.14 0.13
Matches are distributed among these distances:
51 1 0.00
52 4 0.02
53 10 0.04
54 224 0.88
55 9 0.04
56 3 0.01
57 3 0.01
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTTAGTAATTTTCTAAAC
Found at i:84839573 original size:30 final size:30
Alignment explanation
Indices: 84839539--84839598 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
84839529 ATTTGCAGTG
84839539 TTTATAATGTGGCTTACCTCAATCCTGAGT
1 TTTATAATGTGGCTTACCTCAATCCTGAGT
*
84839569 TTTATAATGTGGCTTACTTCAATCCTGAGT
1 TTTATAATGTGGCTTACCTCAATCCTGAGT
84839599 AAGTGATGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.42
Consensus pattern (30 bp):
TTTATAATGTGGCTTACCTCAATCCTGAGT
Found at i:84845884 original size:23 final size:23
Alignment explanation
Indices: 84845858--84845920 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
84845848 ATACATGCCA
84845858 TTATAACAAAATAAGTTTACTAT
1 TTATAACAAAATAAGTTTACTAT
*
84845881 TTATAGCAAAATAAGTTTACTAT
1 TTATAACAAAATAAGTTTACTAT
* *
84845904 TTATACCAAAATGAGTT
1 TTATAACAAAATAAGTT
84845921 GGTAAATAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (23 bp):
TTATAACAAAATAAGTTTACTAT
Found at i:84852235 original size:22 final size:25
Alignment explanation
Indices: 84852208--84852252 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
84852198 GTGAATTGAA
84852208 AATTG-ATTGAAAA-GTG-GAAAAT
1 AATTGAATTGAAAATGTGAGAAAAT
84852230 AATTGAATTGAAAATGTGAGAAA
1 AATTGAATTGAAAATGTGAGAAA
84852253 TTGCGGCTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.25
23 8 0.40
24 3 0.15
25 4 0.20
ACGTcount: A:0.51, C:0.00, G:0.22, T:0.27
Consensus pattern (25 bp):
AATTGAATTGAAAATGTGAGAAAAT
Found at i:84858718 original size:9 final size:10
Alignment explanation
Indices: 84858706--84858745 Score: 50
Period size: 9 Copynumber: 4.2 Consensus size: 10
84858696 TTTTTGATTG
84858706 TTTTAAAT-T
1 TTTTAAATAT
84858715 TTTT-AATAT
1 TTTTAAATAT
84858724 TTTT-AATAT
1 TTTTAAATAT
84858733 TTTTAAATTAT
1 TTTTAAA-TAT
84858744 TT
1 TT
84858746 ATTTACGTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 3 0.11
9 18 0.64
10 2 0.07
11 5 0.18
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTTAAATAT
Found at i:84858948 original size:6 final size:6
Alignment explanation
Indices: 84858939--84858969 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
84858929 TTTAATATTT
*
84858939 TAAATA TAAATG TAAATG TAAATG TAAATG T
1 TAAATG TAAATG TAAATG TAAATG TAAATG T
84858970 TAATTGCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.52, C:0.00, G:0.13, T:0.35
Consensus pattern (6 bp):
TAAATG
Found at i:84865054 original size:42 final size:42
Alignment explanation
Indices: 84865007--84865197 Score: 170
Period size: 42 Copynumber: 4.5 Consensus size: 42
84864997 TAAAAAAAGT
* *
84865007 CGCTAAAGAACATGATTTTTAGCGGCGCTTTTCCATAAATGC
1 CGCTAAAGAACATGATCTTTAGCGGCGCTTTTCCATAAACGC
* * ** *
84865049 CGCTAAAGATCATGATCTTTAGCGGCACTTTTCCCGCAAACAC
1 CGCTAAAGAACATGATCTTTAGCGGCGCTTTT-CCATAAACGC
* * * * * * *
84865092 CGTTAAAAAACATAACCTTTAGCGTCGCTTTTCCCTCAAGCGC
1 CGCTAAAGAACATGATCTTTAGCGGCGCTTTTCCAT-AAACGC
* * *
84865135 CACTATA-AA-ATAGATCTTTAGCGGTGCTTTTCTCATAAACGC
1 CGCTAAAGAACAT-GATCTTTAGCGGCGCTTTTC-CATAAACGC
*
84865177 CGCTAAAGAACATGACCTTTA
1 CGCTAAAGAACATGATCTTTA
84865198 AAAATATATA
Statistics
Matches: 113, Mismatches: 30, Indels: 11
0.73 0.19 0.07
Matches are distributed among these distances:
41 2 0.02
42 59 0.52
43 50 0.44
44 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (42 bp):
CGCTAAAGAACATGATCTTTAGCGGCGCTTTTCCATAAACGC
Found at i:84865423 original size:13 final size:14
Alignment explanation
Indices: 84865400--84865428 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
84865390 TACCAAGCCC
84865400 AACTTACAAACCCA
1 AACTTACAAACCCA
84865414 AACTTA-AAACCCA
1 AACTTACAAACCCA
84865427 AA
1 AA
84865429 ATAAAAACCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.55, C:0.31, G:0.00, T:0.14
Consensus pattern (14 bp):
AACTTACAAACCCA
Found at i:84865700 original size:20 final size:20
Alignment explanation
Indices: 84865642--84865692 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
84865632 CTATAACCTA
*
84865642 CAAACAAGACAAAAACAAAG
1 CAAACAAGACAAAAACGAAG
* *
84865662 CAAGCAGGACAAAAACGAAG
1 CAAACAAGACAAAAACGAAG
84865682 CAAACAAGACA
1 CAAACAAGACA
84865693 GTAACGAAAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.63, C:0.22, G:0.16, T:0.00
Consensus pattern (20 bp):
CAAACAAGACAAAAACGAAG
Found at i:84867005 original size:23 final size:22
Alignment explanation
Indices: 84866956--84867017 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 22
84866946 ATTTTTCTAA
84866956 TATTCTTTTATTATTATTACTCAT
1 TATT-TTTTATT-TTATTACTCAT
* *
84866980 TATTTTTTATTTTATTGCTTATT
1 TATTTTTTATTTTATTACTCA-T
84867003 TATTTATTT-TTTTAT
1 TATTT-TTTATTTTAT
84867018 ACATACATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
22 8 0.24
23 19 0.56
24 7 0.21
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.71
Consensus pattern (22 bp):
TATTTTTTATTTTATTACTCAT
Found at i:84867054 original size:3 final size:3
Alignment explanation
Indices: 84867046--84867077 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
84867036 TTCTAAGTTC
84867046 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
84867078 AGTTTTGTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:84867364 original size:21 final size:21
Alignment explanation
Indices: 84867339--84867383 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
84867329 CTTTTAAACA
* *
84867339 TTTTATGTTATGTATGTTTAT
1 TTTTACGTCATGTATGTTTAT
* *
84867360 TTTTACGTCATGTATTTTTGT
1 TTTTACGTCATGTATGTTTAT
84867381 TTT
1 TTT
84867384 ATTGCTTTAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.04, G:0.13, T:0.67
Consensus pattern (21 bp):
TTTTACGTCATGTATGTTTAT
Found at i:84868191 original size:7 final size:7
Alignment explanation
Indices: 84868179--84868215 Score: 74
Period size: 7 Copynumber: 5.3 Consensus size: 7
84868169 TGTATTTTCG
84868179 TTGAAAA
1 TTGAAAA
84868186 TTGAAAA
1 TTGAAAA
84868193 TTGAAAA
1 TTGAAAA
84868200 TTGAAAA
1 TTGAAAA
84868207 TTGAAAA
1 TTGAAAA
84868214 TT
1 TT
84868216 TATGTCATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.54, C:0.00, G:0.14, T:0.32
Consensus pattern (7 bp):
TTGAAAA
Found at i:84873869 original size:12 final size:12
Alignment explanation
Indices: 84873848--84873890 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
84873838 AAGGAGAGGT
84873848 AAGAACAGATAC
1 AAGAACAGATAC
* *
84873860 AAGAATAGATGC
1 AAGAACAGATAC
* *
84873872 AAGCACAAATAC
1 AAGAACAGATAC
84873884 AAGAACA
1 AAGAACA
84873891 ATTGGCTAAA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.58, C:0.16, G:0.16, T:0.09
Consensus pattern (12 bp):
AAGAACAGATAC
Found at i:84880617 original size:45 final size:45
Alignment explanation
Indices: 84880466--84880625 Score: 164
Period size: 45 Copynumber: 3.6 Consensus size: 45
84880456 TTATGGTGAG
* *
84880466 TCTTATCTTCCTGAAGTCGCAGTGGAGCAGATTGAAGCTACTAG-
1 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGATACTAGA
* * * *
84880510 CCTTATCTTCCTGAAGTTGCAGCGGAGCAGATTGAATATAGC-AAA
1 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CTAGA
* ** * * *
84880555 TCTCATCACCCTAAAGTTGCAGTGGAGCAGATTGAAGATATTGGA
1 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGATACTAGA
*
84880600 TCTTAT-TTCCCTGAAGTTGCAATGGA
1 TCTTATCTT-CCTGAAGTTGCAGTGGA
84880626 ACAAATCAAA
Statistics
Matches: 91, Mismatches: 21, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
44 36 0.40
45 55 0.60
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.29
Consensus pattern (45 bp):
TCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGATACTAGA
Found at i:84880789 original size:51 final size:51
Alignment explanation
Indices: 84880708--84880808 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 51
84880698 CGCAATAGAG
* * * * *
84880708 TAGATTGAAGTTACAAGTTGCGAGTCTTATCTCCCTAAAGTTGCAGTGGAA
1 TAGATTAAAGCTACAAGTTACAAGTATTATCTCCCTAAAGTTGCAGTGGAA
* * *
84880759 TAGATTAAAGCTACAAGTTACAAGTATTATCTTCCTGAAGTTGTAGTGGA
1 TAGATTAAAGCTACAAGTTACAAGTATTATCTCCCTAAAGTTGCAGTGGA
84880809 GCAGATTGAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.33
Consensus pattern (51 bp):
TAGATTAAAGCTACAAGTTACAAGTATTATCTCCCTAAAGTTGCAGTGGAA
Found at i:84881543 original size:20 final size:20
Alignment explanation
Indices: 84881492--84881543 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
84881482 CCTATAACCT
*
84881492 GCAAACAAGACAGAAACGAA
1 GCAAACAAGACAAAAACGAA
* * *
84881512 GCAAGCAGGACAAAAATGAA
1 GCAAACAAGACAAAAACGAA
84881532 GCAAACAAGACA
1 GCAAACAAGACA
84881544 GTAACAAAAC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.58, C:0.19, G:0.21, T:0.02
Consensus pattern (20 bp):
GCAAACAAGACAAAAACGAA
Found at i:84882915 original size:3 final size:3
Alignment explanation
Indices: 84882907--84882982 Score: 116
Period size: 3 Copynumber: 25.3 Consensus size: 3
84882897 GAAGTTCATT
84882907 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
84882955 CTA CTA TTA TCA TTA TTA TTA TTG TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
84882983 ATTTTTTTCT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:84883268 original size:21 final size:21
Alignment explanation
Indices: 84883243--84883287 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
84883233 CTTTTAAACA
* *
84883243 TTTTATGTTATGTATGTTTAT
1 TTTTACGTCATGTATGTTTAT
* *
84883264 TTTTACGTCATGTATTTTTGT
1 TTTTACGTCATGTATGTTTAT
84883285 TTT
1 TTT
84883288 ATTGCTTTAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.04, G:0.13, T:0.67
Consensus pattern (21 bp):
TTTTACGTCATGTATGTTTAT
Found at i:84887610 original size:16 final size:16
Alignment explanation
Indices: 84887589--84887640 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
84887579 TTTGGTTCGC
84887589 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
84887605 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* * *
84887621 TGTAATGGAATAGATG
1 TGTATTGGATTAGAGG
84887637 TGTA
1 TGTA
84887641 ATAGCAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:84887687 original size:45 final size:44
Alignment explanation
Indices: 84887621--84887715 Score: 118
Period size: 45 Copynumber: 2.1 Consensus size: 44
84887611 GGATTAGAGG
* * * *
84887621 TGTAATGGAATAGATGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTAAA
* **
84887666 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTAAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTAAA
84887710 TGTAAT
1 TGTAAT
84887716 AGAGGTGTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 17 0.40
45 26 0.60
ACGTcount: A:0.36, C:0.05, G:0.25, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTAAA
Found at i:84887898 original size:18 final size:17
Alignment explanation
Indices: 84887877--84887911 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
84887867 TTATTATTTA
*
84887877 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
84887895 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
84887912 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:84888045 original size:18 final size:17
Alignment explanation
Indices: 84888024--84888058 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
84888014 TTATTATTAA
*
84888024 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
84888042 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
84888059 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:84888070 original size:147 final size:149
Alignment explanation
Indices: 84887796--84888070 Score: 500
Period size: 147 Copynumber: 1.9 Consensus size: 149
84887786 ATGATTATTG
*
84887796 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATCTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATCTAA
*
84887861 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
84887926 AGAAATTTGTTTTGATAAA
131 AGAAATTTGTTTTGATAAA
* *
84887945 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATCTAA
84888008 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
84888071 ATATTCTTAT
Statistics
Matches: 122, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
147 94 0.77
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.47
Consensus pattern (149 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATCTAA
ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
AGAAATTTGTTTTGATAAA
Found at i:84891815 original size:15 final size:15
Alignment explanation
Indices: 84891790--84891834 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
84891780 ATATGGACTA
*
84891790 AAATATTAATTTTTT
1 AAATTTTAATTTTTT
* *
84891805 AATTTTTAATTTTTA
1 AAATTTTAATTTTTT
*
84891820 AAATTTAAATTTTTT
1 AAATTTTAATTTTTT
84891835 TGAAGATTTT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
AAATTTTAATTTTTT
Found at i:84892887 original size:7 final size:7
Alignment explanation
Indices: 84892877--84892952 Score: 53
Period size: 7 Copynumber: 10.7 Consensus size: 7
84892867 CTTATCCCTA
84892877 TAAACCC
1 TAAACCC
* *
84892884 TAAATCA
1 TAAACCC
* *
84892891 TAAAACA
1 TAAACCC
84892898 TAAACCC
1 TAAACCC
84892905 TAAACCCC
1 TAAA-CCC
*
84892913 TAACCCC
1 TAAACCC
* *
84892920 TAAATCT
1 TAAACCC
*
84892927 TAAACCA
1 TAAACCC
*
84892934 TAAACCA
1 TAAACCC
*
84892941 TAATCCC
1 TAAACCC
84892948 TAAAC
1 TAAAC
84892953 ATATAATCTA
Statistics
Matches: 54, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
7 48 0.89
8 6 0.11
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (7 bp):
TAAACCC
Found at i:84892893 original size:14 final size:14
Alignment explanation
Indices: 84892876--84893036 Score: 58
Period size: 14 Copynumber: 11.3 Consensus size: 14
84892866 CCTTATCCCT
*
84892876 ATAAACCCTAAATC
1 ATAAACCCTAAACC
* *
84892890 ATAAAACATAAACC
1 ATAAACCCTAAACC
* *
84892904 CTAAACCCCTAACCC
1 ATAAA-CCCTAAACC
* * *
84892919 CTAAATCTTAAACC
1 ATAAACCCTAAACC
* *
84892933 ATAAACCATAATCC
1 ATAAACCCTAAACC
* * *
84892947 CTAAA-CATATAATCT
1 ATAAACCCTA-AA-CC
*
84892962 ATAAACCTTAAA--
1 ATAAACCCTAAACC
*
84892974 ATAGTAACTCCTAAAGC
1 ATA--AAC-CCTAAACC
* *
84892991 TTAAACCCTAAATC
1 ATAAACCCTAAACC
* *
84893005 ATATACCCTAAATC
1 ATAAACCCTAAACC
* *
84893019 ACAAACCCTAAACT
1 ATAAACCCTAAACC
84893033 ATAA
1 ATAA
84893037 TAATAATTTA
Statistics
Matches: 109, Mismatches: 29, Indels: 18
0.70 0.19 0.12
Matches are distributed among these distances:
12 3 0.03
13 4 0.04
14 71 0.65
15 26 0.24
16 3 0.03
17 2 0.02
ACGTcount: A:0.48, C:0.28, G:0.01, T:0.23
Consensus pattern (14 bp):
ATAAACCCTAAACC
Found at i:84892972 original size:43 final size:43
Alignment explanation
Indices: 84892873--84892973 Score: 103
Period size: 43 Copynumber: 2.3 Consensus size: 43
84892863 ATCCCTTATC
* * * *
84892873 CCTATAAACCCTAAATCATAAAACATAAACCCTAAACCCCTAA
1 CCTATAAACCTTAAACCATAAAACATAAACCCTAAACACATAA
** * * * *
84892916 CCCCTAAATCTTAAACCATAAACCATAATCCCTAAACATATAA
1 CCTATAAACCTTAAACCATAAAACATAAACCCTAAACACATAA
*
84892959 TCTATAAACCTTAAA
1 CCTATAAACCTTAAA
84892974 ATAGTAACTC
Statistics
Matches: 44, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.23
Consensus pattern (43 bp):
CCTATAAACCTTAAACCATAAAACATAAACCCTAAACACATAA
Found at i:84893536 original size:41 final size:40
Alignment explanation
Indices: 84893455--84893562 Score: 101
Period size: 41 Copynumber: 2.7 Consensus size: 40
84893445 ATTTTTTTGT
* * *
84893455 GGCGTTTTTCAAAAAGCGCCGCTAATGGTTGACCTCTAGC
1 GGCGTTTTTCAAAAAGCACCGCTAATGGTTAACCTATAGC
* *
84893495 GGCGTTTTTTTAAAAAGCACCGCTAAT-GTTCAATCTATAGC
1 GGCG-TTTTTCAAAAAGCACCGCTAATGGTT-AACCTATAGC
* * * * *
84893536 GCCATTTGTCAAAAAGCGCCACTAATG
1 GGCGTTTTTCAAAAAGCACCGCTAATG
84893563 CCACTAAAGC
Statistics
Matches: 54, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
40 25 0.46
41 29 0.54
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (40 bp):
GGCGTTTTTCAAAAAGCACCGCTAATGGTTAACCTATAGC
Found at i:84893686 original size:39 final size:39
Alignment explanation
Indices: 84893613--84893702 Score: 99
Period size: 39 Copynumber: 2.3 Consensus size: 39
84893603 TTTTTGCAGT
*
84893613 GTTTTTCAAAAAGCGCCGCTAATATTCGACCTATAACGAC
1 GTTTTTC-AAAAGCGCCGCTAATACTCGACCTATAACGAC
* * * * ** *
84893653 GTTTTTCAAAGGGGCCGCTAATGCTCGATCTATAGTGGC
1 GTTTTTCAAAAGCGCCGCTAATACTCGACCTATAACGAC
84893692 GTTTTTCAAAA
1 GTTTTTCAAAA
84893703 AGTGCCACTA
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
39 34 0.83
40 7 0.17
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (39 bp):
GTTTTTCAAAAGCGCCGCTAATACTCGACCTATAACGAC
Found at i:84895510 original size:29 final size:29
Alignment explanation
Indices: 84895474--84895608 Score: 92
Period size: 29 Copynumber: 4.4 Consensus size: 29
84895464 TAAAATATGT
84895474 AATGTGGTACTTGTACTTTGAAAATGTCC
1 AATGTGGTACTTGTACTTTGAAAATGTCC
* * * * **
84895503 AATTTGGTACTTG-AATTATCAATATGTGTTTTT
1 AATGTGGTACTTGTACTT-TGAA-A-ATG--TCC
* * * *
84895536 ATTATGGTACTTGTACTTTCATAAAATGTCT
1 AATGTGGTACTTGTACTTT--GAAAATGTCC
* *
84895567 AATGTGGTACTTGCACATTGAAAATGTCC
1 AATGTGGTACTTGTACTTTGAAAATGTCC
84895596 AATGTGGTACTTG
1 AATGTGGTACTTG
84895609 AACTATCAAT
Statistics
Matches: 80, Mismatches: 18, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
28 3 0.04
29 36 0.45
30 1 0.01
31 19 0.24
33 15 0.19
34 4 0.05
35 2 0.03
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (29 bp):
AATGTGGTACTTGTACTTTGAAAATGTCC
Found at i:84895513 original size:92 final size:91
Alignment explanation
Indices: 84895368--84895654 Score: 423
Period size: 93 Copynumber: 3.1 Consensus size: 91
84895358 GTATGTATAT
* * *
84895368 TTTCATAAAATTCTAATGTGGTATTTGTATTTTGAAAATGTCCAATGTAGTACTTGAACTATCAA
1 TTTCATAAAATTCTAATGTGGTACTTGTACTTTGAAAATGTCCAATGTGGTACTTGAACTATCAA
84895433 TTTGTATTTTATTATGGTACATGTAC
66 TTTGTATTTTATTATGGTACATGTAC
* * * *
84895459 TATCATAAAATATGTAATGTGGTACTTGTACTTTGAAAATGTCCAATTTGGTACTTGAATTATCA
1 TTTCATAAAAT-TCTAATGTGGTACTTGTACTTTGAAAATGTCCAATGTGGTACTTGAACTATCA
*
84895524 ATATGTGT-TTTTATTATGGTACTTGTAC
65 AT-T-TGTATTTTATTATGGTACATGTAC
* *
84895552 TTTCATAAAATGTCTAATGTGGTACTTGCACATTGAAAATGTCCAATGTGGTACTTGAACTATCA
1 TTTCATAAAAT-TCTAATGTGGTACTTGTACTTTGAAAATGTCCAATGTGGTACTTGAACTATCA
* *
84895617 ATATGTATTTTATTATGTTACATGTAC
65 ATTTGTATTTTATTATGGTACATGTAC
84895644 TTTCATAAAAT
1 TTTCATAAAAT
84895655 GTCCAATGCG
Statistics
Matches: 174, Mismatches: 18, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
91 13 0.07
92 78 0.45
93 80 0.46
94 3 0.02
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.43
Consensus pattern (91 bp):
TTTCATAAAATTCTAATGTGGTACTTGTACTTTGAAAATGTCCAATGTGGTACTTGAACTATCAA
TTTGTATTTTATTATGGTACATGTAC
Found at i:84895574 original size:93 final size:93
Alignment explanation
Indices: 84895368--84895662 Score: 427
Period size: 92 Copynumber: 3.2 Consensus size: 93
84895358 GTATGTATAT
* * *
84895368 TTTCATAAAAT-TCTAATGTGGTATTTGTATTTTGAAAATGTCCAATGTAGTACTTGAACTATCA
1 TTTCATAAAATGTCTAATGTGGTACTTGTACTTTGAAAATGTCCAATGTGGTACTTGAACTATCA
84895432 AT-T-TGTATTTTATTATGGTACATGTAC
66 ATATGTGT-TTTTATTATGGTACATGTAC
* * * * *
84895459 TATCATAAAATATGTAATGTGGTACTTGTACTTTGAAAATGTCCAATTTGGTACTTGAATTATCA
1 TTTCATAAAATGTCTAATGTGGTACTTGTACTTTGAAAATGTCCAATGTGGTACTTGAACTATCA
*
84895524 ATATGTGTTTTTATTATGGTACTTGTAC
66 ATATGTGTTTTTATTATGGTACATGTAC
* *
84895552 TTTCATAAAATGTCTAATGTGGTACTTGCACATTGAAAATGTCCAATGTGGTACTTGAACTATCA
1 TTTCATAAAATGTCTAATGTGGTACTTGTACTTTGAAAATGTCCAATGTGGTACTTGAACTATCA
* *
84895617 ATATGT-ATTTTATTATGTTACATGTAC
66 ATATGTGTTTTTATTATGGTACATGTAC
*
84895644 TTTCATAAAATGTCCAATG
1 TTTCATAAAATGTCTAATG
84895663 CGGTGCCTAA
Statistics
Matches: 182, Mismatches: 19, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
91 10 0.05
92 85 0.47
93 84 0.46
94 3 0.02
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.43
Consensus pattern (93 bp):
TTTCATAAAATGTCTAATGTGGTACTTGTACTTTGAAAATGTCCAATGTGGTACTTGAACTATCA
ATATGTGTTTTTATTATGGTACATGTAC
Found at i:84895849 original size:22 final size:22
Alignment explanation
Indices: 84895809--84895856 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
84895799 ATTATGTGAA
*
84895809 AAATTAAATTAAACAAAAAATT
1 AAATTAAATTAAACAAAAAAAT
***
84895831 AAATTAAATTAAGTTAAAAAAT
1 AAATTAAATTAAACAAAAAAAT
84895853 AAAT
1 AAAT
84895857 AACTAATATG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (22 bp):
AAATTAAATTAAACAAAAAAAT
Found at i:84901041 original size:114 final size:114
Alignment explanation
Indices: 84900666--84901101 Score: 383
Period size: 114 Copynumber: 3.8 Consensus size: 114
84900656 CCAACTCTAT
* * * * * * *
84900666 GAATCCTGTAACTAATCCTATGGCTATAGTTGCATCCCCGGAGCATG-GTGCTACTACCATTCCA
1 GAATCCTGTAACTTATCCCATGGCTAAAGTTGAATCCACAGAG-ACGAGTG-T--TACCATTCCA
* * * * * * * ** *
84900730 GTGGAGACCAACTTAGACCGTGTAAAAGATGAAGATTTGTCCTACAACCCCAA
62 GTAGATACGAATTTAGACCATGTAAAAGATAAAGGTTTACCCAACAACCCCAA
* * * * * * * * * *
84900783 GAATCTTGTAACTTATCCCAAGGCTGATGTAGCATCCTCAGAGACAAGTGTTACCATTCCGGTAA
1 GAATCCTGTAACTTATCCCATGGCTAAAGTTGAATCCACAGAGACGAGTGTTACCATTCCAGTAG
** * *
84900848 ATACGAATTTAGAATATGTAAAAGGTAAAGGTTTATCCAACAACCCCAA
66 ATACGAATTTAGACCATGTAAAAGATAAAGGTTTACCCAACAACCCCAA
* * * *
84900897 GAATCCTGTAAGTTATCCCATGGCTAAAGTTGAATCCGCAGAGACGAGTGTTACAACTCCAGTAG
1 GAATCCTGTAACTTATCCCATGGCTAAAGTTGAATCCACAGAGACGAGTGTTACCATTCCAGTAG
* * * * *
84900962 ATACGAATTTAGACCATGTAACAGATAACGGTTTGCCCAATAGCCCCAA
66 ATACGAATTTAGACCATGTAAAAGATAAAGGTTTACCCAACAACCCCAA
* * **
84901011 GAATCCTGTAACTTCTCCTATGGCTAAAGTT-ACATCCACAGAGACGAGCATTACCATTCCAGTA
1 GAATCCTGTAACTTATCCCATGGCTAAAGTTGA-ATCCACAGAGACGAGTGTTACCATTCCAGTA
* *
84901075 GATATGAACTTT-GACCATGTAGAAGAT
65 GATACGAA-TTTAGACCATGTAAAAGAT
84901102 TCCCATGCCA
Statistics
Matches: 257, Mismatches: 59, Indels: 9
0.79 0.18 0.03
Matches are distributed among these distances:
113 1 0.00
114 215 0.84
115 3 0.01
116 2 0.01
117 36 0.14
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (114 bp):
GAATCCTGTAACTTATCCCATGGCTAAAGTTGAATCCACAGAGACGAGTGTTACCATTCCAGTAG
ATACGAATTTAGACCATGTAAAAGATAAAGGTTTACCCAACAACCCCAA
Found at i:84904546 original size:25 final size:24
Alignment explanation
Indices: 84904502--84904550 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
84904492 ATTTTTGAAT
*
84904502 ATCTTTATTTGTTTCTTTTATTTA
1 ATCTTTATTTGTTTCATTTATTTA
84904526 ATCTTTATGTTGTTAT-ATTTATTTA
1 ATCTTTAT-TTGTT-TCATTTATTTA
84904551 TTATTATTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 8 0.36
25 13 0.59
26 1 0.05
ACGTcount: A:0.20, C:0.06, G:0.06, T:0.67
Consensus pattern (24 bp):
ATCTTTATTTGTTTCATTTATTTA
Found at i:84906798 original size:21 final size:22
Alignment explanation
Indices: 84906769--84906815 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
84906759 CAGAAGGAGT
*
84906769 GAGTAGTACTTCACAGCAGGTG
1 GAGTAGTACTCCACAGCAGGTG
*
84906791 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCACAGCAGGTG
84906812 GAGT
1 GAGT
84906816 TTGAGCAGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.23, C:0.19, G:0.36, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCACAGCAGGTG
Found at i:84909833 original size:15 final size:15
Alignment explanation
Indices: 84909813--84909869 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
84909803 AACTCAACTC
84909813 ATTTTATAATATAAT
1 ATTTTATAATATAAT
* **
84909828 ATTTTATATTATGTT
1 ATTTTATAATATAAT
84909843 ATTTTAT-ATATTAAGT
1 ATTTTATAATA-TAA-T
*
84909859 AATTTATAATA
1 ATTTTATAATA
84909870 CATAAAAATT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
14 2 0.06
15 20 0.62
16 7 0.22
17 3 0.09
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (15 bp):
ATTTTATAATATAAT
Found at i:84909915 original size:24 final size:24
Alignment explanation
Indices: 84909879--84909950 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
84909869 ACATAAAAAT
84909879 TAAAT-TTATAATAAAATATAA-TAC
1 TAAATATTA-AAT-AAATATAATTAC
* *
84909903 TAAATATTAAATATATATAATTAT
1 TAAATATTAAATAAATATAATTAC
*
84909927 TAAATATTAAAATAAGTATAATTA
1 TAAATATT-AAATAAATATAATTA
84909951 TTATTTAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
23 7 0.17
24 18 0.44
25 16 0.39
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (24 bp):
TAAATATTAAATAAATATAATTAC
Found at i:84909927 original size:17 final size:19
Alignment explanation
Indices: 84909892--84909933 Score: 61
Period size: 17 Copynumber: 2.3 Consensus size: 19
84909882 ATTTATAATA
84909892 AAATATAATACTAAATATT
1 AAATATAATACTAAATATT
*
84909911 AAATAT-ATA-TAATTATT
1 AAATATAATACTAAATATT
84909928 AAATAT
1 AAATAT
84909934 TAAAATAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 13 0.59
18 3 0.14
19 6 0.27
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
AAATATAATACTAAATATT
Found at i:84909946 original size:25 final size:24
Alignment explanation
Indices: 84909893--84909953 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 24
84909883 TTTATAATAA
*
84909893 AATATAA-TACTAAATATT-AAAT
1 AATATAATTATTAAATATTAAAAT
84909915 ATATATAATTATTAAATATTAAAAT
1 A-ATATAATTATTAAATATTAAAAT
84909940 AAGTATAATTATTA
1 AA-TATAATTATTA
84909954 TTTAAAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
22 1 0.03
23 6 0.18
24 11 0.32
25 16 0.47
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (24 bp):
AATATAATTATTAAATATTAAAAT
Found at i:84910699 original size:17 final size:17
Alignment explanation
Indices: 84910643--84910699 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
84910633 ATTCTGATTT
84910643 TTTTTTTACTTTTTTTAAA
1 TTTTTTT-C-TTTTTTAAA
* * *
84910662 CTTTTGTCTTTTTTAAT
1 TTTTTTTCTTTTTTAAA
*
84910679 TTTTTTTCTTTTTTAAG
1 TTTTTTTCTTTTTTAAA
84910696 TTTT
1 TTTT
84910700 ATATTTTTTC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
17 26 0.81
18 1 0.03
19 5 0.16
ACGTcount: A:0.14, C:0.07, G:0.04, T:0.75
Consensus pattern (17 bp):
TTTTTTTCTTTTTTAAA
Found at i:84910716 original size:17 final size:16
Alignment explanation
Indices: 84910696--84910756 Score: 56
Period size: 17 Copynumber: 3.7 Consensus size: 16
84910686 CTTTTTTAAG
84910696 TTTTATATTTTTTCTTA
1 TTTTATATTTTTT-TTA
84910713 TTTTAT-TTGTTTATTTA
1 TTTTATATT-TTT-TTTA
84910730 TTTTAT-TTATTTTTTA
1 TTTTATATT-TTTTTTA
84910746 TTATTA-ATTTT
1 TT-TTATATTTT
84910757 AAAAAAATTG
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
16 10 0.26
17 28 0.72
18 1 0.03
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.77
Consensus pattern (16 bp):
TTTTATATTTTTTTTA
Found at i:84910798 original size:23 final size:21
Alignment explanation
Indices: 84910767--84910823 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 21
84910757 AAAAAAATTG
* *
84910767 AAATGTATATTTGAAATGTTTT
1 AAATATATATTTGAAA-ATTTT
*
84910789 ATAATATATATTTTTAAAATTTT
1 A-AATATATA-TTTGAAAATTTT
84910812 AAATATATATTT
1 AAATATATATTT
84910824 CTGAAATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 3 0.10
22 9 0.30
23 12 0.40
24 6 0.20
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (21 bp):
AAATATATATTTGAAAATTTT
Found at i:84910830 original size:22 final size:23
Alignment explanation
Indices: 84910785--84910831 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
84910775 ATTTGAAATG
*
84910785 TTTTATAATATATATTTTTAAAA
1 TTTTATAATATATATTTCTAAAA
*
84910808 TTTTA-AATATATATTTCTGAAA
1 TTTTATAATATATATTTCTAAAA
84910830 TT
1 TT
84910832 AATTTTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (23 bp):
TTTTATAATATATATTTCTAAAA
Found at i:84910881 original size:20 final size:21
Alignment explanation
Indices: 84910835--84910883 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
84910825 TGAAATTAAT
**
84910835 TTTTTTAAATTTTAAATATTA
1 TTTTTTAAAAATTAAATATTA
84910856 TTTTTTAAAAATTAAATA-TA
1 TTTTTTAAAAATTAAATATTA
84910876 TTTTTTAA
1 TTTTTTAA
84910884 TAATATGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 10 0.38
21 16 0.62
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTTTTAAAAATTAAATATTA
Found at i:84910963 original size:17 final size:17
Alignment explanation
Indices: 84910943--84911000 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 17
84910933 ATTTGTTTTT
84910943 ATTTTTAATAATATAAA
1 ATTTTTAATAATATAAA
*
84910960 ATTTTTAA-ACATTTAAA
1 ATTTTTAATA-ATATAAA
84910977 A-TTTT--TAA-ATAAA
1 ATTTTTAATAATATAAA
84910990 ATTTTTAATAA
1 ATTTTTAATAA
84911001 AAAATTTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 11
0.72 0.04 0.23
Matches are distributed among these distances:
13 5 0.15
14 5 0.15
15 1 0.03
16 8 0.24
17 15 0.44
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (17 bp):
ATTTTTAATAATATAAA
Found at i:84910999 original size:12 final size:13
Alignment explanation
Indices: 84910973--84911013 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
84910963 TTTAAACATT
84910973 TAAAATTTTTAAA
1 TAAAATTTTTAAA
84910986 TAAAATTTTTAATA
1 TAAAATTTTTAA-A
* *
84911000 AAAAATTTTAAAA
1 TAAAATTTTTAAA
84911013 T
1 T
84911014 GGTTAAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TAAAATTTTTAAA
Found at i:84911133 original size:12 final size:12
Alignment explanation
Indices: 84911102--84911175 Score: 51
Period size: 12 Copynumber: 5.8 Consensus size: 12
84911092 TTTAAACCTT
84911102 TTTAAAATTTT-
1 TTTAAAATTTTA
84911113 TTATAAAAATTTTA
1 TT-T-AAAATTTTA
84911127 TTTAAAAGTTTTAA
1 TTTAAAA-TTTT-A
* *
84911141 TGTTTAAATATTA
1 T-TTAAAATTTTA
* *
84911154 TTTAAAAATATA
1 TTTAAAATTTTA
*
84911166 TTTAATATTT
1 TTTAAAATTT
84911176 AAAAAATAAT
Statistics
Matches: 48, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
11 2 0.04
12 19 0.40
13 15 0.31
14 7 0.15
15 5 0.10
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (12 bp):
TTTAAAATTTTA
Found at i:84911169 original size:23 final size:21
Alignment explanation
Indices: 84911143--84911196 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
84911133 AGTTTTAATG
84911143 TTTAAATATTATTTAAAAATATA
1 TTTAAA-ATT-TTTAAAAATATA
* *
84911166 TTTAATA-TTTAAAAAATAATA
1 TTTAAAATTTTTAAAAAT-ATA
84911187 TTTAAAATTT
1 TTTAAAATTT
84911197 AGAGAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 8 0.31
21 10 0.38
22 3 0.12
23 5 0.19
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TTTAAAATTTTTAAAAATATA
Found at i:84911210 original size:21 final size:20
Alignment explanation
Indices: 84911153--84911298 Score: 89
Period size: 21 Copynumber: 6.8 Consensus size: 20
84911143 TTTAAATATT
*
84911153 ATTT-AAAAATATATTTAAT
1 ATTTAAAAAATATATTTAAA
84911172 ATTTAAAAAATAATATTTAAA
1 ATTTAAAAAAT-ATATTTAAA
84911193 ATTTAGAGAAAATA-ATTTCAAAA
1 ATTTA-A-AAAATATATTT--AAA
* * ***
84911216 ATATAATATTCAAAATTTAAAAAATA
1 AT-T--TA--AAAAATATATTTAA-A
*
84911242 ATTTCAAAAATATATTTAAA
1 ATTTAAAAAATATATTTAAA
*
84911262 ATTTTAAAAATAATATTTAAA
1 ATTTAAAAAAT-ATATTTAAA
84911283 ATTTTAAAAAATATAT
1 A-TTTAAAAAATATAT
84911299 ATTATAACAT
Statistics
Matches: 98, Mismatches: 15, Indels: 26
0.71 0.11 0.19
Matches are distributed among these distances:
19 4 0.04
20 17 0.17
21 40 0.41
22 11 0.11
23 11 0.11
24 1 0.01
25 3 0.03
26 10 0.10
27 1 0.01
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.39
Consensus pattern (20 bp):
ATTTAAAAAATATATTTAAA
Found at i:84911232 original size:23 final size:20
Alignment explanation
Indices: 84911153--84911250 Score: 75
Period size: 20 Copynumber: 5.0 Consensus size: 20
84911143 TTTAAATATT
*
84911153 ATTT-AAAAATATATTT-AAT
1 ATTTAAAAAATA-ATTTCAAA
*
84911172 ATTTAAAAAATAATATTTAAA
1 ATTTAAAAAATAAT-TTCAAA
84911193 ATTTAGAGAAAATAATTTCAAA
1 ATTTA-A-AAAATAATTTCAAA
* *
84911215 A---ATATAAT-A-TTCAAA
1 ATTTAAAAAATAATTTCAAA
84911230 ATTTAAAAAATAATTTCAAA
1 ATTTAAAAAATAATTTCAAA
84911250 A
1 A
84911251 ATATATTTAA
Statistics
Matches: 63, Mismatches: 6, Indels: 19
0.72 0.07 0.22
Matches are distributed among these distances:
15 7 0.11
16 1 0.02
17 4 0.06
18 5 0.08
19 8 0.13
20 16 0.25
21 7 0.11
22 7 0.11
23 8 0.13
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (20 bp):
ATTTAAAAAATAATTTCAAA
Found at i:84911240 original size:35 final size:34
Alignment explanation
Indices: 84911172--84911275 Score: 135
Period size: 35 Copynumber: 3.1 Consensus size: 34
84911162 TATATTTAAT
84911172 ATTT-AAAAA-ATAATATTTAAAATTTAGAGAAAATA
1 ATTTCAAAAATATAATA-TTAAAATTTA-A-AAAATA
84911207 ATTTCAAAAATATAATATTCAAAATTTAAAAAATA
1 ATTTCAAAAATATAATATT-AAAATTTAAAAAATA
*
84911242 ATTTCAAAAATAT-AT-TTAAAATTTTAAAAATA
1 ATTTCAAAAATATAATATTAAAATTTAAAAAATA
84911274 AT
1 AT
84911276 ATTTAAAATT
Statistics
Matches: 65, Mismatches: 1, Indels: 9
0.87 0.01 0.12
Matches are distributed among these distances:
32 16 0.25
33 2 0.03
34 2 0.03
35 23 0.35
36 8 0.12
37 14 0.22
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.37
Consensus pattern (34 bp):
ATTTCAAAAATATAATATTAAAATTTAAAAAATA
Found at i:84911300 original size:23 final size:22
Alignment explanation
Indices: 84911247--84911310 Score: 87
Period size: 21 Copynumber: 2.9 Consensus size: 22
84911237 AAATAATTTC
84911247 AAAA-ATATATTTAAAATTTTA
1 AAAATATATATTTAAAATTTTA
84911268 AAAATA-ATATTTAAAATTTTAA
1 AAAATATATATTTAAAATTTT-A
*
84911290 AAAATATATATTATAACATTT
1 AAAATATATATT-TAAAATTT
84911311 CAAATTTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
21 18 0.47
22 8 0.21
23 5 0.13
24 7 0.18
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
AAAATATATATTTAAAATTTTA
Found at i:84923689 original size:15 final size:15
Alignment explanation
Indices: 84923664--84923708 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
84923654 ATATGGACTA
*
84923664 AAATATTAATTTTTT
1 AAATTTTAATTTTTT
* *
84923679 AATTTTTAATTTTTA
1 AAATTTTAATTTTTT
*
84923694 AAATTTAAATTTTTT
1 AAATTTTAATTTTTT
84923709 TTGAATTTTT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
AAATTTTAATTTTTT
Found at i:84923717 original size:26 final size:26
Alignment explanation
Indices: 84923681--84923731 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
84923671 AATTTTTTAA
84923681 TTTTTAATTTTTA-AAATTTAAATTT
1 TTTTTAATTTTTATAAATTTAAATTT
*
84923706 TTTTTGAATTTTTATAATTTTAAATT
1 TTTTT-AATTTTTATAAATTTAAATT
84923732 AATATATGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 5 0.22
26 8 0.35
27 10 0.43
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (26 bp):
TTTTTAATTTTTATAAATTTAAATTT
Found at i:84924671 original size:33 final size:33
Alignment explanation
Indices: 84924636--84924701 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
84924626 TCCCTATAAA
*
84924636 CCCTAAATCATAAA-CATAAACCCTAACCCCTAAC
1 CCCT-AATCATAAACCAT-AACCATAACCCCTAAC
* *
84924670 CCCTAATCTTAAACCATAACCATAATCCCTAA
1 CCCTAATCATAAACCATAACCATAACCCCTAA
84924702 ACTATATCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 21 0.75
34 7 0.25
ACGTcount: A:0.42, C:0.36, G:0.00, T:0.21
Consensus pattern (33 bp):
CCCTAATCATAAACCATAACCATAACCCCTAAC
Found at i:84924702 original size:20 final size:20
Alignment explanation
Indices: 84924631--84924703 Score: 58
Period size: 20 Copynumber: 3.6 Consensus size: 20
84924621 CCTTATCCCT
* *
84924631 ATAAACCCTAAATCATAAAC
1 ATAAACCCTAAACCATAACC
* *
84924651 ATAAACCCTAACCCCTAACCC
1 ATAAACCCTAAACCATAA-CC
* * *
84924672 CT-AATCTTAAACCATAACC
1 ATAAACCCTAAACCATAACC
*
84924691 ATAATCCCTAAAC
1 ATAAACCCTAAAC
84924704 TATATCTTAA
Statistics
Matches: 38, Mismatches: 13, Indels: 4
0.69 0.24 0.07
Matches are distributed among these distances:
19 3 0.08
20 33 0.87
21 2 0.05
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (20 bp):
ATAAACCCTAAACCATAACC
Found at i:84924768 original size:12 final size:13
Alignment explanation
Indices: 84924734--84924771 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
84924724 ACTCTAAAGC
84924734 TAAACCCTAAATCA
1 TAAACCCTAAA-CA
*
84924748 TATACCCTAAACA
1 TAAACCCTAAACA
84924761 -AAACCCTAAAC
1 TAAACCCTAAAC
84924772 TATATAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 10 0.45
13 2 0.09
14 10 0.45
ACGTcount: A:0.50, C:0.32, G:0.00, T:0.18
Consensus pattern (13 bp):
TAAACCCTAAACA
Found at i:84927225 original size:29 final size:29
Alignment explanation
Indices: 84927189--84927323 Score: 92
Period size: 29 Copynumber: 4.4 Consensus size: 29
84927179 TAAAATATGT
84927189 AATGTGGTACTTGTACTTTGAAAATGTCC
1 AATGTGGTACTTGTACTTTGAAAATGTCC
* * * * **
84927218 AATTTGGTACTTG-AATTATCAATATGTGTTTTT
1 AATGTGGTACTTGTACTT-TGAA-A-ATG--TCC
* * * *
84927251 ATTATGGTACTTGTACTTTCATAAAATGTCT
1 AATGTGGTACTTGTACTTT--GAAAATGTCC
* *
84927282 AATGTGGTACTTGCACATTGAAAATGTCC
1 AATGTGGTACTTGTACTTTGAAAATGTCC
84927311 AATGTGGTACTTG
1 AATGTGGTACTTG
84927324 AACTATCAAT
Statistics
Matches: 80, Mismatches: 18, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
28 3 0.04
29 36 0.45
30 1 0.01
31 19 0.24
33 15 0.19
34 4 0.05
35 2 0.03
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (29 bp):
AATGTGGTACTTGTACTTTGAAAATGTCC
Found at i:84927229 original size:91 final size:91
Alignment explanation
Indices: 84927085--84927367 Score: 401
Period size: 93 Copynumber: 3.1 Consensus size: 91
84927075 GTATGTATAT
* * *
84927085 TTTCATAAAATTCTAATGTGGTATTTGTATTTTG-AAATGTCCAATGTAGTACTTGAACTATC-A
1 TTTCATAAAATTCTAATGTGGTACTTGTACTTTGAAAATGTCCAATGTGGTACTTGAACTATCAA
84927148 TTTGTATTTTATTATGGTACATGTAC
66 TTTGTATTTTATTATGGTACATGTAC
* * * *
84927174 TATCATAAAATATGTAATGTGGTACTTGTACTTTGAAAATGTCCAATTTGGTACTTGAATTATCA
1 TTTCATAAAAT-TCTAATGTGGTACTTGTACTTTGAAAATGTCCAATGTGGTACTTGAACTATCA
*
84927239 ATATGTGT-TTTTATTATGGTACTTGTAC
65 AT-T-TGTATTTTATTATGGTACATGTAC
* *
84927267 TTTCATAAAATGTCTAATGTGGTACTTGCACATTGAAAATGTCCAATGTGGTACTTGAACTATCA
1 TTTCATAAAAT-TCTAATGTGGTACTTGTACTTTGAAAATGTCCAATGTGGTACTTGAACTATCA
* *
84927332 ATATGTATTTTATTATGTTACATGTAC
65 ATTTGTATTTTATTATGGTACATGTAC
84927359 TTTCATAAA
1 TTTCATAAA
84927368 TGTCCAATGC
Statistics
Matches: 170, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
89 10 0.06
90 20 0.12
91 28 0.16
92 29 0.17
93 80 0.47
94 3 0.02
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.43
Consensus pattern (91 bp):
TTTCATAAAATTCTAATGTGGTACTTGTACTTTGAAAATGTCCAATGTGGTACTTGAACTATCAA
TTTGTATTTTATTATGGTACATGTAC
Found at i:84927293 original size:31 final size:31
Alignment explanation
Indices: 84927085--84927323 Score: 95
Period size: 31 Copynumber: 7.9 Consensus size: 31
84927075 GTATGTATAT
*
84927085 TTTCATAAAAT-TCTAATGTGGTATTTGTA-
1 TTTCATAAAATGTCTAATGTGGTACTTGTAC
* * * *
84927114 TTT--TGAAATGTCCAATGTAGTACTTGAAC
1 TTTCATAAAATGTCTAATGTGGTACTTGTAC
* *** * * * *
84927143 TATCATTTGTAT-TTTATTATGGTACATGTAC
1 TTTCA-TAAAATGTCTAATGTGGTACTTGTAC
* * *
84927174 TATCATAAAATATGTAATGTGGTACTTGTAC
1 TTTCATAAAATGTCTAATGTGGTACTTGTAC
* * * *
84927205 TTT--GAAAATGTCCAATTTGGTACTTG-AA
1 TTTCATAAAATGTCTAATGTGGTACTTGTAC
** * * *
84927233 TTATCA-ATATGTGTTTTTATTATGGTACTTGTAC
1 TT-TCATA-AAATG--TCTAATGTGGTACTTGTAC
*
84927267 TTTCATAAAATGTCTAATGTGGTACTTGCAC
1 TTTCATAAAATGTCTAATGTGGTACTTGTAC
* * *
84927298 ATT--GAAAATGTCCAATGTGGTACTTG
1 TTTCATAAAATGTCTAATGTGGTACTTG
84927324 AACTATCAAT
Statistics
Matches: 150, Mismatches: 46, Indels: 28
0.67 0.21 0.12
Matches are distributed among these distances:
27 5 0.03
28 17 0.11
29 45 0.30
30 4 0.03
31 54 0.36
32 3 0.02
33 18 0.12
34 4 0.03
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.43
Consensus pattern (31 bp):
TTTCATAAAATGTCTAATGTGGTACTTGTAC
Found at i:84932755 original size:114 final size:114
Alignment explanation
Indices: 84932380--84932815 Score: 383
Period size: 114 Copynumber: 3.8 Consensus size: 114
84932370 CCAACTCTAT
* * * * * * *
84932380 GAATCCTGTAACTAATCCTATGGCTATAGTTGCATCCCCGGAGCATG-GTGCTACTACCATTCCA
1 GAATCCTGTAACTTATCCCATGGCTAAAGTTGAATCCACAGAG-ACGAGTG-T--TACCATTCCA
* * * * * * * ** *
84932444 GTGGAGACCAACTTAGACCGTGTAAAAGATGAAGATTTGTCCTACAACCCCAA
62 GTAGATACGAATTTAGACCATGTAAAAGATAAAGGTTTACCCAACAACCCCAA
* * * * * * * * * *
84932497 GAATCTTGTAACTTATCCCAAGGCTGATGTAGCATCCTCAGAGACAAGTGTTACCATTCCGGTAA
1 GAATCCTGTAACTTATCCCATGGCTAAAGTTGAATCCACAGAGACGAGTGTTACCATTCCAGTAG
** * *
84932562 ATACGAATTTAGAATATGTAAAAGGTAAAGGTTTATCCAACAACCCCAA
66 ATACGAATTTAGACCATGTAAAAGATAAAGGTTTACCCAACAACCCCAA
* * * *
84932611 GAATCCTGTAAGTTATCCCATGGCTAAAGTTGAATCCGCAGAGACGAGTGTTACAACTCCAGTAG
1 GAATCCTGTAACTTATCCCATGGCTAAAGTTGAATCCACAGAGACGAGTGTTACCATTCCAGTAG
* * * * *
84932676 ATACGAATTTAGACCATGTAACAGATAACGGTTTGCCCAATAGCCCCAA
66 ATACGAATTTAGACCATGTAAAAGATAAAGGTTTACCCAACAACCCCAA
* * **
84932725 GAATCCTGTAACTTCTCCTATGGCTAAAGTT-ACATCCACAGAGACGAGCATTACCATTCCAGTA
1 GAATCCTGTAACTTATCCCATGGCTAAAGTTGA-ATCCACAGAGACGAGTGTTACCATTCCAGTA
* *
84932789 GATATGAACTTT-GACCATGTAGAAGAT
65 GATACGAA-TTTAGACCATGTAAAAGAT
84932816 TCCCATGCCA
Statistics
Matches: 257, Mismatches: 59, Indels: 9
0.79 0.18 0.03
Matches are distributed among these distances:
113 1 0.00
114 215 0.84
115 3 0.01
116 2 0.01
117 36 0.14
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (114 bp):
GAATCCTGTAACTTATCCCATGGCTAAAGTTGAATCCACAGAGACGAGTGTTACCATTCCAGTAG
ATACGAATTTAGACCATGTAAAAGATAAAGGTTTACCCAACAACCCCAA
Found at i:84938997 original size:21 final size:22
Alignment explanation
Indices: 84938968--84939014 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
84938958 CAGAAGGAGT
*
84938968 GAGTAGTACTTCACAGCAGGTG
1 GAGTAGTACTCCACAGCAGGTG
*
84938990 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCACAGCAGGTG
84939011 GAGT
1 GAGT
84939015 TTGAGCAGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.23, C:0.19, G:0.36, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCACAGCAGGTG
Found at i:84942037 original size:15 final size:15
Alignment explanation
Indices: 84942017--84942073 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
84942007 AACTCAACTC
84942017 ATTTTATAATATAAT
1 ATTTTATAATATAAT
* **
84942032 ATTTTATATTATGTT
1 ATTTTATAATATAAT
84942047 ATTTTAT-ATATTAAGT
1 ATTTTATAATA-TAA-T
*
84942063 AATTTATAATA
1 ATTTTATAATA
84942074 CATAAAAATT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
14 2 0.06
15 20 0.62
16 7 0.22
17 3 0.09
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (15 bp):
ATTTTATAATATAAT
Found at i:84942119 original size:24 final size:24
Alignment explanation
Indices: 84942083--84942154 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
84942073 ACATAAAAAT
84942083 TAAAT-TTATAATAAAATATAA-TAC
1 TAAATATTA-AAT-AAATATAATTAC
* *
84942107 TAAATATTAAATATATATAATTAT
1 TAAATATTAAATAAATATAATTAC
*
84942131 TAAATATTAAAATAAGTATAATTA
1 TAAATATT-AAATAAATATAATTA
84942155 TTTATTTTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
23 7 0.17
24 18 0.44
25 16 0.39
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (24 bp):
TAAATATTAAATAAATATAATTAC
Found at i:84942131 original size:17 final size:19
Alignment explanation
Indices: 84942096--84942137 Score: 61
Period size: 17 Copynumber: 2.3 Consensus size: 19
84942086 ATTTATAATA
84942096 AAATATAATACTAAATATT
1 AAATATAATACTAAATATT
*
84942115 AAATAT-ATA-TAATTATT
1 AAATATAATACTAAATATT
84942132 AAATAT
1 AAATAT
84942138 TAAAATAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 13 0.59
18 3 0.14
19 6 0.27
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
AAATATAATACTAAATATT
Found at i:84942150 original size:25 final size:24
Alignment explanation
Indices: 84942097--84942156 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 24
84942087 TTTATAATAA
*
84942097 AATATAA-TACTAAATATT-AAAT
1 AATATAATTATTAAATATTAAAAT
84942119 ATATATAATTATTAAATATTAAAAT
1 A-ATATAATTATTAAATATTAAAAT
84942144 AAGTATAATTATT
1 AA-TATAATTATT
84942157 TATTTTAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
22 1 0.03
23 6 0.18
24 11 0.33
25 15 0.45
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (24 bp):
AATATAATTATTAAATATTAAAAT
Found at i:84942911 original size:17 final size:17
Alignment explanation
Indices: 84942865--84942911 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
84942855 TTTTTTACTT
*
84942865 TTTTTTAAACTTTTGTC
1 TTTTTTAAATTTTTGTC
* *
84942882 TTTTTTAATTTTTTTTC
1 TTTTTTAAATTTTTGTC
*
84942899 TTTTTTAAGTTTT
1 TTTTTTAAATTTT
84942912 ATATTTTTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.15, C:0.06, G:0.04, T:0.74
Consensus pattern (17 bp):
TTTTTTAAATTTTTGTC
Found at i:84942942 original size:13 final size:13
Alignment explanation
Indices: 84942926--84942970 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
84942916 TTTTTCTTAT
*
84942926 TTTATTTTGTTTA
1 TTTATTTTATTTA
84942939 TTTATTTTATTTA
1 TTTATTTTATTTA
84942952 -TT-TTTTA-TTA
1 TTTATTTTATTTA
*
84942962 TTAATTTTA
1 TTTATTTTA
84942971 AAAAAATTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
10 3 0.11
11 6 0.21
12 7 0.25
13 12 0.43
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:84942968 original size:18 final size:17
Alignment explanation
Indices: 84942908--84942968 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
84942898 CTTTTTTAAG
*
84942908 TTTTATATTT-TTTCTTA
1 TTTTA-ATTTATTTTTTA
* *
84942925 TTTTATTTTGTTTATTTA
1 TTTTAATTTATTT-TTTA
84942943 TTTT-ATTTATTTTTTA
1 TTTTAATTTATTTTTTA
84942959 TTATTAATTT
1 TT-TTAATTT
84942969 TAAAAAAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
16 9 0.25
17 16 0.44
18 11 0.31
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.77
Consensus pattern (17 bp):
TTTTAATTTATTTTTTA
Found at i:84943033 original size:21 final size:20
Alignment explanation
Indices: 84943007--84943097 Score: 84
Period size: 21 Copynumber: 4.7 Consensus size: 20
84942997 GTTTTATAAT
84943007 ATATATTTTTTAAAATTTTAA
1 ATATATTTTTTAAAA-TTTAA
* *
84943028 ATATATATTTCTGAAA-TT--
1 ATATAT-TTTTTAAAATTTAA
*
84943046 A-AT-TTTTTTAAATTTTAA
1 ATATATTTTTTAAAATTTAA
*
84943064 ATATTATTTTTTAAAAATTAA
1 ATA-TATTTTTTAAAATTTAA
84943085 ATATATTTTTTAA
1 ATATATTTTTTAA
84943098 TAATATGAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 15
0.72 0.09 0.19
Matches are distributed among these distances:
15 6 0.11
16 3 0.05
17 2 0.04
18 2 0.04
19 1 0.02
20 13 0.23
21 22 0.39
22 7 0.12
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (20 bp):
ATATATTTTTTAAAATTTAA
Found at i:84943179 original size:17 final size:17
Alignment explanation
Indices: 84943159--84943215 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
84943149 TTGTTTTTAT
84943159 TTTTTAATAATATAAAA
1 TTTTTAATAATATAAAA
*
84943176 TTTTTAA-ACATTTAAAA
1 TTTTTAATA-ATATAAAA
84943193 -TTTT--TAA-ATAAAA
1 TTTTTAATAATATAAAA
84943206 TTTTTAATAA
1 TTTTTAATAA
84943216 AAAATTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 11
0.72 0.04 0.24
Matches are distributed among these distances:
13 5 0.15
14 5 0.15
15 1 0.03
16 8 0.24
17 14 0.42
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (17 bp):
TTTTTAATAATATAAAA
Found at i:84943214 original size:12 final size:13
Alignment explanation
Indices: 84943188--84943228 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
84943178 TTTAAACATT
84943188 TAAAATTTTTAAA
1 TAAAATTTTTAAA
84943201 TAAAATTTTTAATA
1 TAAAATTTTTAA-A
* *
84943215 AAAAATTTTAAAA
1 TAAAATTTTTAAA
84943228 T
1 T
84943229 GGTTAAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TAAAATTTTTAAA
Found at i:84943348 original size:12 final size:12
Alignment explanation
Indices: 84943317--84943390 Score: 51
Period size: 12 Copynumber: 5.8 Consensus size: 12
84943307 TTTAAACCTT
84943317 TTTAAAATTTT-
1 TTTAAAATTTTA
84943328 TTATAAAAATTTTA
1 TT-T-AAAATTTTA
84943342 TTTAAAAGTTTTAA
1 TTTAAAA-TTTT-A
* *
84943356 TGTTTAAATATTA
1 T-TTAAAATTTTA
* *
84943369 TTTAAAAATATA
1 TTTAAAATTTTA
*
84943381 TTTAATATTT
1 TTTAAAATTT
84943391 AAAAAATAAT
Statistics
Matches: 48, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
11 2 0.04
12 19 0.40
13 15 0.31
14 7 0.15
15 5 0.10
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (12 bp):
TTTAAAATTTTA
Found at i:84943425 original size:21 final size:20
Alignment explanation
Indices: 84943368--84943515 Score: 95
Period size: 21 Copynumber: 7.8 Consensus size: 20
84943358 TTTAAATATT
*
84943368 ATTT-AAAAATATATTTAAT
1 ATTTAAAAAATATATTTAAA
84943387 ATTTAAAAAATAATATTTAAA
1 ATTTAAAAAAT-ATATTTAAA
*
84943408 ATTTAGAGAAAATA-ATTTCAA
1 ATTTA-A-AAAATATATTTAAA
* * *
84943429 A---AATATA-ATATTCAAA
1 ATTTAAAAAATATATTTAAA
*
84943445 ATTTAAAAAATA-ATTT--C
1 ATTTAAAAAATATATTTAAA
*
84943462 A---AAAATATATATTTAAA
1 ATTTAAAAAATATATTTAAA
*
84943479 ATTTTAAAAATAATATTTAAA
1 ATTTAAAAAAT-ATATTTAAA
84943500 ATTTTAAAAAATATAT
1 A-TTTAAAAAATATAT
84943516 ATTATAAAAC
Statistics
Matches: 97, Mismatches: 15, Indels: 32
0.67 0.10 0.22
Matches are distributed among these distances:
14 7 0.07
15 5 0.05
16 8 0.08
17 3 0.03
18 1 0.01
19 11 0.11
20 12 0.12
21 34 0.35
22 11 0.11
23 5 0.05
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.39
Consensus pattern (20 bp):
ATTTAAAAAATATATTTAAA
Found at i:84943455 original size:35 final size:35
Alignment explanation
Indices: 84943387--84943492 Score: 155
Period size: 35 Copynumber: 3.1 Consensus size: 35
84943377 TATATTTAAT
84943387 ATTT-AAAAA-ATAATATTTAAAATTTAGAGAAAATA
1 ATTTCAAAAATATAATATTTAAAATTTA-A-AAAATA
*
84943422 ATTTCAAAAATATAATATTCAAAATTTAAAAAATA
1 ATTTCAAAAATATAATATTTAAAATTTAAAAAATA
*
84943457 ATTTCAAAAATAT-ATATTTAAAATTTTAAAAATA
1 ATTTCAAAAATATAATATTTAAAATTTAAAAAATA
84943491 AT
1 AT
84943493 ATTTAAAATT
Statistics
Matches: 66, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
34 21 0.32
35 23 0.35
36 6 0.09
37 16 0.24
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (35 bp):
ATTTCAAAAATATAATATTTAAAATTTAAAAAATA
Found at i:84943482 original size:22 final size:22
Alignment explanation
Indices: 84943456--84943533 Score: 95
Period size: 22 Copynumber: 3.4 Consensus size: 22
84943446 TTTAAAAAAT
84943456 AATTTCAAAAATATATATTTAA
1 AATTTCAAAAATATATATTTAA
*
84943478 AATTTTAAAAATA-ATATTTAA
1 AATTTCAAAAATATATATTTAA
*
84943499 AATTTTAAAAAATATATATTATAAA
1 AA-TTTCAAAAATATATATT-T-AA
84943524 ACATTTCAAA
1 A-ATTTCAAA
84943534 TTTTTTAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
21 10 0.21
22 22 0.46
23 5 0.10
24 1 0.02
25 9 0.19
26 1 0.02
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (22 bp):
AATTTCAAAAATATATATTTAA
Found at i:84943565 original size:23 final size:24
Alignment explanation
Indices: 84943539--84943597 Score: 70
Period size: 23 Copynumber: 2.5 Consensus size: 24
84943529 TCAAATTTTT
84943539 TAAAATTAATAACAA-AAAAT-AAA
1 TAAAATTAA-AACAACAAAATAAAA
*
84943562 TAAAA-TAAAAGAACAAAATAAAA
1 TAAAATTAAAACAACAAAATAAAA
84943585 TAAAATATAAAAC
1 TAAAAT-TAAAAC
84943598 TTTAAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
21 4 0.13
22 8 0.27
23 13 0.43
25 5 0.17
ACGTcount: A:0.75, C:0.05, G:0.02, T:0.19
Consensus pattern (24 bp):
TAAAATTAAAACAACAAAATAAAA
Found at i:84943662 original size:10 final size:11
Alignment explanation
Indices: 84943632--84943668 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
84943622 AGAAAAAGAC
84943632 AAAAGTTAAAA
1 AAAAGTTAAAA
*
84943643 AGAAGTTAAAA
1 AAAAGTTAAAA
84943654 AAAAG-TAAAA
1 AAAAGTTAAAA
84943664 AAAAG
1 AAAAG
84943669 GTCTAGAGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.14
Consensus pattern (11 bp):
AAAAGTTAAAA
Found at i:84945161 original size:30 final size:30
Alignment explanation
Indices: 84945127--84945188 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
84945117 ACTTGACAGT
84945127 AGCTCAGATCTAATGATCGGGTCGAGCGAA
1 AGCTCAGATCTAATGATCGGGTCGAGCGAA
84945157 AGCTCAGATCTAATGATCGGGTCGAGCGAA
1 AGCTCAGATCTAATGATCGGGTCGAGCGAA
84945187 AG
1 AG
84945189 GTGTTACAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.31, C:0.19, G:0.31, T:0.19
Consensus pattern (30 bp):
AGCTCAGATCTAATGATCGGGTCGAGCGAA
Found at i:84945341 original size:24 final size:25
Alignment explanation
Indices: 84945314--84945361 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
84945304 TCATTTCAAT
*
84945314 TTGGTTTTTAAA-TTTTAATGGGTA
1 TTGGGTTTTAAAGTTTTAATGGGTA
84945338 TTGGGTTTTAAAGTTTTAATGGGT
1 TTGGGTTTTAAAGTTTTAATGGGT
84945362 TTTGACTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.52
Consensus pattern (25 bp):
TTGGGTTTTAAAGTTTTAATGGGTA
Found at i:84945371 original size:25 final size:24
Alignment explanation
Indices: 84945319--84945374 Score: 76
Period size: 25 Copynumber: 2.3 Consensus size: 24
84945309 TCAATTTGGT
**
84945319 TTTTAAATTTTAATGGGTATTGGG
1 TTTTAAATTTTAATGGGTATTGAC
*
84945343 TTTTAAAGTTTTAATGGGTTTTGAC
1 TTTTAAA-TTTTAATGGGTATTGAC
84945368 TTTTAAA
1 TTTTAAA
84945375 AGTATTGAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 7 0.25
25 21 0.75
ACGTcount: A:0.27, C:0.02, G:0.20, T:0.52
Consensus pattern (24 bp):
TTTTAAATTTTAATGGGTATTGAC
Found at i:84947571 original size:15 final size:15
Alignment explanation
Indices: 84947553--84947613 Score: 52
Period size: 15 Copynumber: 4.0 Consensus size: 15
84947543 ATTATTAGCT
84947553 TATAAAAAAAAATTA
1 TATAAAAAAAAATTA
*
84947568 TATAAACATAAAA-TA
1 TATAAA-AAAAAATTA
* * *
84947583 TCTTAAATAAAATTA
1 TATAAAAAAAAATTA
*
84947598 TAATACAAAAAAATTA
1 T-ATAAAAAAAAATTA
84947614 CACAAATATG
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
14 6 0.17
15 15 0.42
16 15 0.42
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.30
Consensus pattern (15 bp):
TATAAAAAAAAATTA
Found at i:84954244 original size:40 final size:40
Alignment explanation
Indices: 84954189--84954325 Score: 215
Period size: 40 Copynumber: 3.5 Consensus size: 40
84954179 CGGATGATAA
84954189 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
84954229 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * *
84954269 CCGAGCTAGGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
*
84954309 -CTGGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
84954326 ATACTTGGGT
Statistics
Matches: 90, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
38 1 0.01
39 12 0.13
40 77 0.86
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:84962354 original size:40 final size:40
Alignment explanation
Indices: 84962299--84962435 Score: 233
Period size: 40 Copynumber: 3.5 Consensus size: 40
84962289 CGGATGATAA
84962299 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
84962339 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* *
84962379 CCGGGCTAGGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
84962419 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
84962436 ATACTTGGGT
Statistics
Matches: 93, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
38 1 0.01
39 12 0.13
40 80 0.86
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:84964531 original size:127 final size:130
Alignment explanation
Indices: 84964240--84964546 Score: 307
Period size: 130 Copynumber: 2.4 Consensus size: 130
84964230 AAACAAAGAA
* * * * * * * *
84964240 AATGTTCGATATTTGGCAATTTGGGGAAACGTGCCCTATCATGCTGGGTTGCAATTTCTGTTTGT
1 AATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTGCAATTTCCGTTTGT
* * * * * * *
84964305 TCAAAACAATCAAATATTCCTTTGGAATTTCACTTATGTCTTTAAAAATTCTTCAAAATGAAGGT
66 TCAAAACAATCAAACATTCATTTGAAATTTCACTCATGTCTTTAAAAATTCGTCAAAACGAAGGC
* * * *
84964370 AATGTTCGATGTTTGGCAATTCGGGGAATTGTGCCCTATCGTGCTGGGTTGCAATTTCCCGTTTG
1 AATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTGCAATTT-CCGTTTG
* * * * ** * *
84964435 TTTAAAATAATCGAACATTCATTTGAAATTTCACTCGTGT-TTTCTAAA-TGGT-AAAGCG-AGG
65 TTCAAAACAATCAAACATTCATTTGAAATTTCACTCATGTCTTTAAAAATTCGTCAAAACGAAGG
84964496 C
130 C
* * *
84964497 AATGTTTAATGTTTGGAAATTCGAGGAATCGTGCCCTACCGTGCTAGGTT
1 AATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTT
84964547 TCGGTTTTTC
Statistics
Matches: 148, Mismatches: 28, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
127 46 0.31
128 4 0.03
129 2 0.01
130 58 0.39
131 38 0.26
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.36
Consensus pattern (130 bp):
AATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTGCAATTTCCGTTTGT
TCAAAACAATCAAACATTCATTTGAAATTTCACTCATGTCTTTAAAAATTCGTCAAAACGAAGGC
Found at i:84968124 original size:14 final size:14
Alignment explanation
Indices: 84968105--84968150 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
84968095 TAATAATAAT
*
84968105 AAACCAAAAAACCA
1 AAACCAAAAAAACA
84968119 AAACCAAAAAAACA
1 AAACCAAAAAAACA
**
84968133 AAAAAAACAAAAACA
1 AAACCAA-AAAAACA
84968148 AAA
1 AAA
84968151 AAAATAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 18 0.64
15 10 0.36
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (14 bp):
AAACCAAAAAAACA
Found at i:84968136 original size:9 final size:9
Alignment explanation
Indices: 84968118--84968164 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
84968108 CCAAAAAACC
*
84968118 AAAACCAAA
1 AAAACAAAA
84968127 AAAACAAAA
1 AAAACAAAA
84968136 AAAACAAAA
1 AAAACAAAA
84968145 ACAAA-AAAA
1 A-AAACAAAA
* *
84968154 ATAATAAAA
1 AAAACAAAA
84968163 AA
1 AA
84968165 TCGTGGAAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
8 2 0.06
9 28 0.85
10 3 0.09
ACGTcount: A:0.85, C:0.11, G:0.00, T:0.04
Consensus pattern (9 bp):
AAAACAAAA
Found at i:84968136 original size:23 final size:23
Alignment explanation
Indices: 84968105--84968153 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
84968095 TAATAATAAT
* * *
84968105 AAACCAAAAAACCAAAACCAAAA
1 AAACAAAAAAAACAAAAACAAAA
84968128 AAACAAAAAAAACAAAAACAAAA
1 AAACAAAAAAAACAAAAACAAAA
84968151 AAA
1 AAA
84968154 ATAATAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (23 bp):
AAACAAAAAAAACAAAAACAAAA
Found at i:84968145 original size:24 final size:25
Alignment explanation
Indices: 84968110--84968164 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
84968100 ATAATAAACC
* *
84968110 AAAAAACCAAAACCAAAAAAACAA-
1 AAAAAACAAAAACAAAAAAAACAAT
*
84968134 AAAAAACAAAAACAAAAAAAATAAT
1 AAAAAACAAAAACAAAAAAAACAAT
84968159 AAAAAA
1 AAAAAA
84968165 TCGTGGAAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 21 0.78
25 6 0.22
ACGTcount: A:0.84, C:0.13, G:0.00, T:0.04
Consensus pattern (25 bp):
AAAAAACAAAAACAAAAAAAACAAT
Found at i:84968152 original size:15 final size:15
Alignment explanation
Indices: 84968126--84968154 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
84968116 CCAAAACCAA
84968126 AAAAACAAAAAAAAC
1 AAAAACAAAAAAAAC
84968141 AAAAACAAAAAAAA
1 AAAAACAAAAAAAA
84968155 TAATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAACAAAAAAAAC
Found at i:84970292 original size:89 final size:87
Alignment explanation
Indices: 84970038--84970780 Score: 846
Period size: 88 Copynumber: 8.4 Consensus size: 87
84970028 GAATTACAAG
* *
84970038 TCTTGTCTCCCTAAA-TAGTAGTGGAACAGATCGAAGAAAGCAAGCCTTAACCCCCTAAGTGGTA
1 TCTTGTCTCCCTAAACT-GTAGTGGAACAAATCAAAG-AAGCAAGCCTTAACCCCCTAAGTGGTA
* *
84970102 GGGTAACAGGCTGAAAATTGTAGA
64 GGGTAACAGGCTGAAGATTGCAGA
* * * * *
84970126 TCTTGTCTCCCTAAA-TAGTATTGGAGCAAAATCGAAGAAGCAAGCTTTAACTCCCTAAGTGGTA
1 TCTTGTCTCCCTAAACT-GTAGTGGAAC-AAATCAAAGAAGCAAGCCTTAACCCCCTAAGTGGTA
84970190 GGGTAACAGGCTGAAGATTGCAGA
64 GGGTAACAGGCTGAAGATTGCAGA
* * ** *
84970214 TCTTGTCTCCCTAAAGCTGCAGTGGAACAAATCAAAGACGGTGACCCTTAACCCCCTAAGTGGTA
1 TCTTGTCTCCCTAAA-CTGTAGTGGAACAAATCAAAGA-AGCAAGCCTTAACCCCCTAAGTGGTA
* *
84970279 AGGTAACAGGCTGAAGATTGTAGA
64 GGGTAACAGGCTGAAGATTGCAGA
* * * * * *
84970303 TCTTATCTCCCTAAACAGTAGTGGAGCAAAATCGAAGAAGCAAGCTTTAACTCCCTAAGTGGTAG
1 TCTTGTCTCCCTAAACTGTAGTGGAAC-AAATCAAAGAAGCAAGCCTTAACCCCCTAAGTGGTAG
84970368 GGTAACAGGCTGAAGATTGCAGA
65 GGTAACAGGCTGAAGATTGCAGA
* * * **
84970391 TCTTGTCTCCCTGAAGCTGTAGTGGAACAGATCAAAGACGGTGAGCCTTAACCCCCTAAGTGGTA
1 TCTTGTCTCCCT-AAACTGTAGTGGAACAAATCAAAGA-AGCAAGCCTTAACCCCCTAAGTGGTA
*
84970456 GGGTAACAGGCTGAAGATTGTAGA
64 GGGTAACAGGCTGAAGATTGCAGA
* **
84970480 TCTTGTCTCCCTAAACAGTAGTGGAACAAATCGAAA-AAGCAAGCCTTAACCCTTTAAGTGGTAG
1 TCTTGTCTCCCTAAACTGTAGTGGAACAAATC-AAAGAAGCAAGCCTTAACCCCCTAAGTGGTAG
* *
84970544 GGTAATAGGCTGACGATTGCAGA
65 GGTAACAGGCTGAAGATTGCAGA
* * * * * * * ** *
84970567 TCTTGTGTCCTTGAAGCTGCAGTGGAATAGATCAAAGACAGCGAGCCTTAACCCTTTAAGTAGTA
1 TCTTGTCTCCCT-AAACTGTAGTGGAACAAATCAAAGA-AGCAAGCCTTAACCCCCTAAGTGGTA
* *
84970632 GGGTAATAGGCTGAAGATTGTAGA
64 GGGTAACAGGCTGAAGATTGCAGA
* * * * *
84970656 TCTTGTCTTCCTAAACAGTAGTGGAGCAAATCGAAGAAGCAAGCCTTAACCCCCTAAGTAGTAGG
1 TCTTGTCTCCCTAAACTGTAGTGGAACAAATCAAAGAAGCAAGCCTTAACCCCCTAAGTGGTAGG
*
84970721 GTAACGGGCTGAAGATTGCAGA
66 GTAACAGGCTGAAGATTGCAGA
* * *
84970743 TCTTGTTTCCC-AGAAGTTGTAGTGGAACAGATCAAAGA
1 TCTTGTCTCCCTA-AA-CTGTAGTGGAACAAATCAAAGA
84970781 CGGTGAGCCT
Statistics
Matches: 553, Mismatches: 89, Indels: 26
0.83 0.13 0.04
Matches are distributed among these distances:
86 1 0.00
87 110 0.20
88 235 0.42
89 206 0.37
90 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (87 bp):
TCTTGTCTCCCTAAACTGTAGTGGAACAAATCAAAGAAGCAAGCCTTAACCCCCTAAGTGGTAGG
GTAACAGGCTGAAGATTGCAGA
Found at i:84970615 original size:176 final size:177
Alignment explanation
Indices: 84970057--84970820 Score: 1104
Period size: 177 Copynumber: 4.3 Consensus size: 177
84970047 CCTAAATAGT
* ** ** *
84970057 AGTGGAACAGATCGAAGAAAGCAAGCCTTAACCCCCTAAGTGGTAGGGTAACAGGCTGAAAATTG
1 AGTGGAACAGATCAAAGACGGTGAGCCTTAACCCCCTAAGTGGTAGGGTAACAGGCTGAAGATTG
* * *
84970122 TAGATCTTGTCTCCCTAAATAGTATTGGAGCAAAATCGAAGAAGCAAGCTTTAACTCCCTAAGTG
66 TAGATCTTGTCTCCCTAAACAGTAGTGGAGCAAAATCGAAGAAGCAAGCCTTAACTCCCTAAGTG
*
84970187 GTAGGGTAACAGGCTGAAGATTGCAGATCTTGTCTCCCTAAAGCTGC
131 GTAGGGTAACAGGCTGAAGATTGCAGATCTTGTCTCCCTGAAGCTGC
* * *
84970234 AGTGGAACAAATCAAAGACGGTGACCCTTAACCCCCTAAGTGGTAAGGTAACAGGCTGAAGATTG
1 AGTGGAACAGATCAAAGACGGTGAGCCTTAACCCCCTAAGTGGTAGGGTAACAGGCTGAAGATTG
* *
84970299 TAGATCTTATCTCCCTAAACAGTAGTGGAGCAAAATCGAAGAAGCAAGCTTTAACTCCCTAAGTG
66 TAGATCTTGTCTCCCTAAACAGTAGTGGAGCAAAATCGAAGAAGCAAGCCTTAACTCCCTAAGTG
*
84970364 GTAGGGTAACAGGCTGAAGATTGCAGATCTTGTCTCCCTGAAGCTGT
131 GTAGGGTAACAGGCTGAAGATTGCAGATCTTGTCTCCCTGAAGCTGC
84970411 AGTGGAACAGATCAAAGACGGTGAGCCTTAACCCCCTAAGTGGTAGGGTAACAGGCTGAAGATTG
1 AGTGGAACAGATCAAAGACGGTGAGCCTTAACCCCCTAAGTGGTAGGGTAACAGGCTGAAGATTG
* * *
84970476 TAGATCTTGTCTCCCTAAACAGTAGTGGAAC-AAATCGAAAAAGCAAGCCTTAAC-CCTTTAAGT
66 TAGATCTTGTCTCCCTAAACAGTAGTGGAGCAAAATCGAAGAAGCAAGCCTTAACTCC-CTAAGT
* * * *
84970539 GGTAGGGTAATAGGCTGACGATTGCAGATCTTGTGTCCTTGAAGCTGC
130 GGTAGGGTAACAGGCTGAAGATTGCAGATCTTGTCTCCCTGAAGCTGC
* * * ** * *
84970587 AGTGGAATAGATCAAAGACAGCGAGCCTTAACCCTTTAAGTAGTAGGGTAATAGGCTGAAGATTG
1 AGTGGAACAGATCAAAGACGGTGAGCCTTAACCCCCTAAGTGGTAGGGTAACAGGCTGAAGATTG
* * *
84970652 TAGATCTTGTCTTCCTAAACAGTAGTGGAGC-AAATCGAAGAAGCAAGCCTTAACCCCCTAAGTA
66 TAGATCTTGTCTCCCTAAACAGTAGTGGAGCAAAATCGAAGAAGCAAGCCTTAACTCCCTAAGTG
* * * * *
84970716 GTAGGGTAACGGGCTGAAGATTGCAGATCTTGTTTCCCAGAAGTTGT
131 GTAGGGTAACAGGCTGAAGATTGCAGATCTTGTCTCCCTGAAGCTGC
* **
84970763 AGTGGAACAGATCAAAGACGGTGAGCCTTGACCCCTCTAAGCAAG-AGGGTAACAGGCT
1 AGTGGAACAGATCAAAGACGGTGAGCCTTAACCCC-CTAAG-TGGTAGGGTAACAGGCT
84970821 AAACTATAGA
Statistics
Matches: 528, Mismatches: 55, Indels: 8
0.89 0.09 0.01
Matches are distributed among these distances:
175 2 0.00
176 252 0.48
177 272 0.52
178 2 0.00
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (177 bp):
AGTGGAACAGATCAAAGACGGTGAGCCTTAACCCCCTAAGTGGTAGGGTAACAGGCTGAAGATTG
TAGATCTTGTCTCCCTAAACAGTAGTGGAGCAAAATCGAAGAAGCAAGCCTTAACTCCCTAAGTG
GTAGGGTAACAGGCTGAAGATTGCAGATCTTGTCTCCCTGAAGCTGC
Found at i:84970844 original size:41 final size:41
Alignment explanation
Indices: 84970793--84970892 Score: 130
Period size: 41 Copynumber: 2.4 Consensus size: 41
84970783 GTGAGCCTTG
* *
84970793 ACCCCTCTAAGCAAG-AGGGTAACAGGCTAAACTATAGATCTT
1 ACCCC-CTAAGC-AGTAGGGTAACAGGATAAACTACAGATCTT
*
84970835 ACCCCCTAAGCAGTAGGGTAACAGGATGAACTACAGATCTT
1 ACCCCCTAAGCAGTAGGGTAACAGGATAAACTACAGATCTT
*
84970876 ACCTCCCTAAGTAGTAG
1 ACC-CCCTAAGCAGTAG
84970893 TTGGGCGGAT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
40 2 0.04
41 33 0.63
42 17 0.33
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (41 bp):
ACCCCCTAAGCAGTAGGGTAACAGGATAAACTACAGATCTT
Found at i:84974003 original size:127 final size:130
Alignment explanation
Indices: 84973692--84974009 Score: 392
Period size: 130 Copynumber: 2.5 Consensus size: 130
84973682 GAAGATCTTT
** * * * *
84973692 AAAACGAAGAAAATATTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCATGCTGGGTTGCAA
1 AAAACGAAGGCAATGTTCAATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCAA
* * * *
84973757 TTTCCGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCACTTATGTCTTCAAAAATTCTTC
66 TTTCCGTTTGTTCAAAACAATCGAACATTCCTTTGAAATTTCACTCATGTCTTCAAAAATGCTTC
* * * *
84973822 AAAATGAAGGTAATGTTCGATGTTTAGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCAA
1 AAAACGAAGGCAATGTTCAATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCAA
* * * * *
84973887 TTTCCCGTTTGTTGAAAATAATCGAACATTCCTTTGAAATTTCACTCGTGTTTTC-TAAATGC-T
66 TTT-CCGTTTGTTCAAAACAATCGAACATTCCTTTGAAATTTCACTCATGTCTTCAAAAATGCTT
84973950 -
130 C
* * * *
84973950 AAAGCG-AGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCGTACCGTGCTGGGTT
1 AAAACGAAGGCAATGTTCAATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTT
84974010 TCGGTTTTTC
Statistics
Matches: 163, Mismatches: 24, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
127 48 0.29
128 4 0.02
129 1 0.01
130 66 0.40
131 44 0.27
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (130 bp):
AAAACGAAGGCAATGTTCAATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCAA
TTTCCGTTTGTTCAAAACAATCGAACATTCCTTTGAAATTTCACTCATGTCTTCAAAAATGCTTC
Done.