Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 309 of 438
Found at i:96447404 original size:55 final size:53
Alignment explanation
Indices: 96447285--96447470 Score: 227
Period size: 55 Copynumber: 3.5 Consensus size: 53
96447275 ATAAGGATAT
* *
96447285 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAAT-
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAGG--ATC
*
96447339 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTTCTATAAGGCAAAGG-TC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAG-TTCTATAAGGC-AAGGATC
*
96447393 GCATGTAAGACCATGCCAAGGCATGGCATT-AGTGAGTTC-ATAAGGCAAGGATAC
1 -CATGTAAGACCATGCCAAGACATGGCATTGA-TGAGTTCTATAAGGCAAGGAT-C
* *
96447447 CACGTAAGACCATGTCAAGACATG
1 CATGTAAGACCATGCCAAGACATG
96447471 ACAATGGTAA
Statistics
Matches: 117, Mismatches: 8, Indels: 15
0.84 0.06 0.11
Matches are distributed among these distances:
52 4 0.03
53 30 0.26
54 37 0.32
55 42 0.36
56 4 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (53 bp):
CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAGGATC
Found at i:96450090 original size:51 final size:50
Alignment explanation
Indices: 96449972--96450162 Score: 159
Period size: 51 Copynumber: 3.8 Consensus size: 50
96449962 GGTTTTAGGC
* * ** * * *
96449972 CACGTGTGTAGTACTAAGTTCAGGCGACTATGTGTACCAGATAGTTCGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGAAACTTCGAT
** * *
96450022 TGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGACAACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGA-AACTTCGAT
* ** * * *** *
96450073 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTCCCGGATTGTT-GGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGAAACTTCGAT
* * *
96450122 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGA
96450163 TAGCTTCGGT
Statistics
Matches: 111, Mismatches: 29, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
49 37 0.33
50 35 0.32
51 39 0.35
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (50 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGAAACTTCGAT
Found at i:96450146 original size:100 final size:101
Alignment explanation
Indices: 96449972--96450159 Score: 297
Period size: 101 Copynumber: 1.9 Consensus size: 101
96449962 GGTTTTAGGC
* * *
96449972 CACGTGTGTAGTACTAAGTTCAGGCGACTATGTGTACCAGATAGTTCGGTTGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCGACTACGTGTACCAGATAGTTCGGTCGCATGTGTAGTACT
96450037 AAGTGCAGGCTACTATGCATACCCGACAACTTCGAT
66 AAGTGCAGGCTACTATGCATACCCGACAACTTCGAT
* * * *
96450073 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTCCCGGATTGTT-GGTCGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCGACTACGTGTACCAGATAGTTCGGTCGCATGTGTAGTACT
*
96450137 AAGTGCAGGCTACTATGCGTACC
66 AAGTGCAGGCTACTATGCATACC
96450160 AGATAGCTTC
Statistics
Matches: 79, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
100 39 0.49
101 40 0.51
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (101 bp):
CACGTGTGTAGTACTAAGTGCAGGCGACTACGTGTACCAGATAGTTCGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCATACCCGACAACTTCGAT
Found at i:96450170 original size:100 final size:101
Alignment explanation
Indices: 96449972--96450162 Score: 294
Period size: 100 Copynumber: 1.9 Consensus size: 101
96449962 GGTTTTAGGC
* * *
96449972 CACGTGTGTAGTACTAAGTTCAGGCGACTATGTGTACCAGATAGTTCGGTTGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCGACTACGTGTACCAGATAGTTCGGTCGCATGTGTAGTACT
*
96450037 AAGTGCAGGCTACTATGCATACCCGACAACTTCGAT
66 AAGTGCAGGCTACTATGCATACCAGACAACTTCGAT
* * * *
96450073 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTCCCGGATTGTT-GGTCGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCGACTACGTGTACCAGATAGTTCGGTCGCATGTGTAGTACT
*
96450137 AAGTGCAGGCTACTATGCGTACCAGA
66 AAGTGCAGGCTACTATGCATACCAGA
96450163 TAGCTTCGGT
Statistics
Matches: 81, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
100 41 0.51
101 40 0.49
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (101 bp):
CACGTGTGTAGTACTAAGTGCAGGCGACTACGTGTACCAGATAGTTCGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCATACCAGACAACTTCGAT
Found at i:96450383 original size:16 final size:15
Alignment explanation
Indices: 96450362--96450391 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
96450352 GAATGGAGTA
96450362 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
96450378 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
96450392 TAAAACAGTT
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:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:96451050 original size:27 final size:27
Alignment explanation
Indices: 96451020--96451075 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
96451010 GCTTATTATT
96451020 TTCATATGGACTTACTAAGCTTTAAGC
1 TTCATATGGACTTACTAAGCTTTAAGC
96451047 TTCATATGGACTTACTAAGCTTTAAGC
1 TTCATATGGACTTACTAAGCTTTAAGC
96451074 TT
1 TT
96451076 ACTCCCCCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (27 bp):
TTCATATGGACTTACTAAGCTTTAAGC
Found at i:96453907 original size:15 final size:15
Alignment explanation
Indices: 96453887--96453946 Score: 75
Period size: 15 Copynumber: 4.0 Consensus size: 15
96453877 TATGATATTG
96453887 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
*
96453902 TATCTTGGATTTCTC
1 TATCTTGGATTTCTT
*
96453917 TATCTTGGACTTCTT
1 TATCTTGGATTTCTT
* * *
96453932 AATCCTGGTTTTCTT
1 TATCTTGGATTTCTT
96453947 GTTATCTATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.13, C:0.18, G:0.13, T:0.55
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:96456204 original size:46 final size:44
Alignment explanation
Indices: 96456040--96456207 Score: 140
Period size: 46 Copynumber: 3.7 Consensus size: 44
96456030 TGTGAGCTAG
* * * * * * *
96456040 TGTAAGACATGTCTAGGATATGGCATCGACATTGAGACGAATGCTAG
1 TGTAAGACATGTCTGGGACAT-GCATCGGC-TTGAGATGTA-GCCAA
* * * *
96456087 TGTATGACATGTCTGAGACATGCATCGGCCTTGAGATTTAAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGG-CTTGAGATGT-AGCCAA
* *
96456133 TGTAAGACATGTCTGGGATATGCATCGGCTATGAGATGT-GTCAA
1 TGTAAGACATGTCTGGGACATGCATCGGCT-TGAGATGTAGCCAA
96456177 TGTAAGACCATGTCTGGGACATGGCATCGGC
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGC
96456208 ACAGATATGC
Statistics
Matches: 100, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
44 10 0.10
45 15 0.15
46 56 0.56
47 19 0.19
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (44 bp):
TGTAAGACATGTCTGGGACATGCATCGGCTTGAGATGTAGCCAA
Found at i:96457255 original size:13 final size:13
Alignment explanation
Indices: 96457237--96457261 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
96457227 TGGCCGTGTG
96457237 AAGGACACGAGCC
1 AAGGACACGAGCC
96457250 AAGGACACGAGC
1 AAGGACACGAGC
96457262 GTGTGCCAGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.28, G:0.32, T:0.00
Consensus pattern (13 bp):
AAGGACACGAGCC
Found at i:96457352 original size:20 final size:21
Alignment explanation
Indices: 96457313--96457352 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
96457303 GAGTTAATGG
96457313 CTACACGAGCGTGTTGCCCTT
1 CTACACGAGCGTGTTGCCCTT
*
96457334 CTACACGGGCGTG-TGCCCT
1 CTACACGAGCGTGTTGCCCT
96457353 GTTCCAGAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.35, G:0.28, T:0.25
Consensus pattern (21 bp):
CTACACGAGCGTGTTGCCCTT
Found at i:96463677 original size:46 final size:44
Alignment explanation
Indices: 96463535--96463763 Score: 180
Period size: 46 Copynumber: 5.0 Consensus size: 44
96463525 GTTTGGGTCA
* *
96463535 CTTGAG-TTAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCC
1 CTTGAGATGAGCTAGTGTAAGACATGTCTGGGACATGCATCGG-C
* * *
96463579 ACATT-ATGA-GAGCCAGTGTAAGACCATGTCTGGGATATGGCATCGAC
1 -C-TTGA-GATGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
* * * *
96463626 ATTGAGACGAATGCTAGTGTATGACATGTCTGAGACATGCATCGGC
1 CTTGAGATG-A-GCTAGTGTAAGACATGTCTGGGACATGCATCGGC
* * *
96463672 CTTGAGATTTAAGCCAGTGTAAGACATGTCTGGGATATGCATCGG-
1 CTTGAGA--TGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGC
*
96463717 CTATGAGATGTG-TCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 CT-TGAGATGAGCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
96463764 ACCTGCACCC
Statistics
Matches: 146, Mismatches: 22, Indels: 30
0.74 0.11 0.15
Matches are distributed among these distances:
44 11 0.08
45 21 0.14
46 71 0.49
47 27 0.18
48 16 0.11
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (44 bp):
CTTGAGATGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGC
Found at i:96467037 original size:50 final size:50
Alignment explanation
Indices: 96466973--96467222 Score: 252
Period size: 50 Copynumber: 5.0 Consensus size: 50
96466963 TAAGATGGTT
* * *
96466973 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTAGTACGTGTACCAGCTAG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
** * * * * *
96467023 TTAGGTTGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGACAAC
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAG
* * * * *
96467074 TTCA-ATCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGG
1 TT-AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
* * * * *
96467124 TTAGGTCACTTGTGTAGTACTAAGTGCAGGCTACTACCTGTATCGGATTG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
* * * *
96467174 TT-GGTCGCATGTGTAGTACTAAGTGCATGCTACTATGCGTACCAGATAG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
96467223 CTTCAGTTAC
Statistics
Matches: 161, Mismatches: 36, Indels: 7
0.79 0.18 0.03
Matches are distributed among these distances:
49 39 0.24
50 84 0.52
51 37 0.23
52 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (50 bp):
TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
Found at i:96467127 original size:101 final size:101
Alignment explanation
Indices: 96466978--96467159 Score: 292
Period size: 101 Copynumber: 1.8 Consensus size: 101
96466968 TGGTTTTAGG
* * * **
96466978 TCACGTGTGTAGTACTAAGTGCAGGCTAGTACGTGTACCAGCTAGTTAGGTTGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAGTTAGGTCACATGTGTAGTAC
96467043 TAAGTGCAGGCTACTATGCGTACCCGACAACTTCAA
66 TAAGTGCAGGCTACTATGCGTACCCGACAACTTCAA
* * *
96467079 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAGGTCACTTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAGTTAGGTCACATGTGTAGTAC
96467144 TAAGTGCAGGCTACTA
66 TAAGTGCAGGCTACTA
96467160 CCTGTATCGG
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
101 73 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAGTTAGGTCACATGTGTAGTAC
TAAGTGCAGGCTACTATGCGTACCCGACAACTTCAA
Found at i:96467206 original size:49 final size:50
Alignment explanation
Indices: 96466944--96467208 Score: 228
Period size: 50 Copynumber: 5.3 Consensus size: 50
96466934 ACATGAGTAT
** * * *
96466944 GTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGTCACGTGTGTAGTACTAA
1 GTGCAGGCTACTACATGTATCAGATGG--TTAGGTCACATGTGTAGTACTAA
* * * * * **
96466996 GTGCAGGCTAGTACGTGTACCAGCTAGTTAGGTTGCATGTGTAGTACTAA
1 GTGCAGGCTACTACATGTATCAGATGGTTAGGTCACATGTGTAGTACTAA
*** * * *** * *
96467046 GTGCAGGCTACTATGCGTACCCGACAACTTCA-ATCACGTGTGTAGTACTAA
1 GTGCAGGCTACTACATGTATCAGA-TGGTT-AGGTCACATGTGTAGTACTAA
*
96467097 GTGCAGGCTACTACATGTATCAGATGGTTAGGTCACTTGTGTAGTACTAA
1 GTGCAGGCTACTACATGTATCAGATGGTTAGGTCACATGTGTAGTACTAA
* * * *
96467147 GTGCAGGCTACTACCTGTATCGGATTGTT-GGTCGCATGTGTAGTACTAA
1 GTGCAGGCTACTACATGTATCAGATGGTTAGGTCACATGTGTAGTACTAA
*
96467196 GTGCATGCTACTA
1 GTGCAGGCTACTA
96467209 TGCGTACCAG
Statistics
Matches: 173, Mismatches: 37, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
49 31 0.18
50 84 0.49
51 37 0.21
52 21 0.12
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (50 bp):
GTGCAGGCTACTACATGTATCAGATGGTTAGGTCACATGTGTAGTACTAA
Found at i:96467227 original size:150 final size:152
Alignment explanation
Indices: 96466944--96467219 Score: 403
Period size: 151 Copynumber: 1.8 Consensus size: 152
96466934 ACATGAGTAT
** * *
96466944 GTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTAGTA
1 GTGCAGGCTACTACATGTATAAGATGG-TTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
* * * *
96467009 CGTGTACCAGCTAGTTAGGTTGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGACAAC
65 CCTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACAAC
96467074 TTCAATCACGTGTGTAGTACTAA
130 TTCAATCACGTGTGTAGTACTAA
* *
96467097 GTGCAGGCTACTACATGTATCAGATGG-TTAGGTCACTTGTGTAGTACTAAGTGCAGGCTACTAC
1 GTGCAGGCTACTACATGTATAAGATGGTTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAC
* * * *
96467161 CTGTATCGGATTGTT-GGTCGCATGTGTAGTACTAAGTGCATGCTACTATGCGTACCAGA
66 CTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
96467220 TAGCTTCAGT
Statistics
Matches: 109, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
150 41 0.38
151 45 0.41
153 23 0.21
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (152 bp):
GTGCAGGCTACTACATGTATAAGATGGTTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAC
CTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACAACT
TCAATCACGTGTGTAGTACTAA
Found at i:96467251 original size:150 final size:152
Alignment explanation
Indices: 96466941--96467254 Score: 398
Period size: 150 Copynumber: 2.1 Consensus size: 152
96466931 AACACATGAG
** *
96466941 TATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTA
1 TATGTGCAGGCTACTACATGTATAAGATGG-TTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTA
* * * * *
96467006 GTACGTGTACCAGCTAGTTAGGTTGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAC
65 CTACCTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAC
* * *
96467071 AACTTCAATCACGTGTGTAGTAC
130 AACTTCAATCACATGGGTAGTAA
* * *
96467094 TAAGTGCAGGCTACTACATGTATCAGATGG-TTAGGTCACTTGTGTAGTACTAAGTGCAGGCTAC
1 TATGTGCAGGCTACTACATGTATAAGATGGTTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTAC
* * * * *
96467158 TACCTGTATCGGATTGTT-GGTCGCATGTGTAGTACTAAGTGCATGCTACTATGCGTACCAGATA
66 TACCTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACA
* * * *
96467222 GCTTCAGTTACATGGGTGGTAA
131 ACTTCAATCACATGGGTAGTAA
96467244 TATGTGCAGGC
1 TATGTGCAGGC
96467255 AATCTTGTAT
Statistics
Matches: 137, Mismatches: 24, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
150 67 0.49
151 45 0.33
153 25 0.18
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (152 bp):
TATGTGCAGGCTACTACATGTATAAGATGGTTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTAC
TACCTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACA
ACTTCAATCACATGGGTAGTAA
Found at i:96467441 original size:16 final size:15
Alignment explanation
Indices: 96467420--96467449 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
96467410 GAATGGAGTA
96467420 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
96467436 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
96467450 TAAAACAGTT
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:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:96470715 original size:48 final size:48
Alignment explanation
Indices: 96470658--96470767 Score: 166
Period size: 48 Copynumber: 2.3 Consensus size: 48
96470648 TGGCTTGAAG
*
96470658 CCAACTCAATGTATCTCGTACCCAAAGTGCCAATATCATGGCCCAAAA
1 CCAACTCAATGTATCTCGCACCCAAAGTGCCAATATCATGGCCCAAAA
* * * * *
96470706 CCAAATCAATGTAACTCGCACCCGAAGTGCCAATATCATGGCCCGAAG
1 CCAACTCAATGTATCTCGCACCCAAAGTGCCAATATCATGGCCCAAAA
96470754 CCAACTCAATGTAT
1 CCAACTCAATGTAT
96470768 TCCCTAATGA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.35, C:0.31, G:0.15, T:0.20
Consensus pattern (48 bp):
CCAACTCAATGTATCTCGCACCCAAAGTGCCAATATCATGGCCCAAAA
Found at i:96474904 original size:40 final size:40
Alignment explanation
Indices: 96474804--96474994 Score: 229
Period size: 40 Copynumber: 4.8 Consensus size: 40
96474794 CGAATGGTAT
* * * * * * *
96474804 CCGGGCTAAGTCCCGAATGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACCAAAA
* * *
96474845 CCGGGTCAACTCCCAAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
96474885 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * *
96474925 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * *
96474965 CCGGGCTAATTCCCGAAGGCAATTGTGCGA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGA
96474995 ATCACTATAA
Statistics
Matches: 130, Mismatches: 20, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
40 108 0.83
41 22 0.17
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
Found at i:96475007 original size:80 final size:79
Alignment explanation
Indices: 96474802--96475036 Score: 245
Period size: 80 Copynumber: 2.9 Consensus size: 79
96474792 TTCGAATGGT
* * * * * *
96474802 ATCCGGGCTAAGTCCCGAATGCTTTTGTGCTAAGTGACTAAATCCGGGTCAACTCCCAAAGGCAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAA-TCACTAAA-CCGGGTTAAGTCCCAAAGGCAT
*
96474867 TTGTGCGAGTTACCAA
64 TCGTGCGAGTTACCAA
* * * * * *
96474883 AACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATCA-CTAAACCGGGTTAAGTCCCAAAGGCATT
*
96474948 CGTGCGAGTTACTAA
65 CGTGCGAGTTACCAA
* * * * * *
96474963 ATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATGTCCCAAAGACAAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATCACTA-AACCGGGTTAAGTCCCAAAGGCATT
*
96475028 CGAGCGAGT
65 CGTGCGAGT
96475037 CGCTACATTC
Statistics
Matches: 126, Mismatches: 26, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
79 2 0.02
80 93 0.74
81 31 0.25
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.23
Consensus pattern (79 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATCACTAAACCGGGTTAAGTCCCAAAGGCATTC
GTGCGAGTTACCAA
Found at i:96475009 original size:40 final size:40
Alignment explanation
Indices: 96474804--96475036 Score: 200
Period size: 40 Copynumber: 5.8 Consensus size: 40
96474794 CGAATGGTAT
* ** * * * *
96474804 CCGGGCTAAGTCCCGAATGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGC-GAGTTACCAAAA
* * *
96474845 CCGGG-TCAACTCCCAAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCAATTGTGCGAGTTACCAAAA
* *
96474885 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCAAAA
* * *
96474925 CCGGGTTAAGTCCCGAAGGC-ATTCGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCAATT-GTGCGAGTTACCAAAA
* * * * *
96474965 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCAAAA
* * * * *
96475005 CCGGGCTATGTCCCAAAGACAATCGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGT
96475037 CGCTACATTC
Statistics
Matches: 162, Mismatches: 26, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
39 2 0.01
40 134 0.83
41 26 0.16
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCAAAA
Found at i:96475035 original size:120 final size:121
Alignment explanation
Indices: 96474804--96475036 Score: 263
Period size: 120 Copynumber: 1.9 Consensus size: 121
96474794 CGAATGGTAT
* * * *
96474804 CCGGGCTAAGTCCCGAATGCTTTTGTGCTAAGTGACTAAATCCGGGTCAACTCCCAAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTCAACTCCCAAAGGCAATT
* * * * * * * *
96474869 GTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
66 GTGCGAATCACCAAAACCGGGCTAAGTCCCAAAGACAATCGAGCGAGTTACCAAAA
* * * * *
96474925 CCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTC-AACTCCCAAAGGCAAT
* * *
96474988 TGTGCGAATCACTATAACCGGGCTATGTCCCAAAGACAATCGAGCGAGT
65 TGTGCGAATCACCAAAACCGGGCTAAGTCCCAAAGACAATCGAGCGAGT
96475037 CGCTACATTC
Statistics
Matches: 91, Mismatches: 20, Indels: 3
0.80 0.18 0.03
Matches are distributed among these distances:
119 1 0.01
120 66 0.73
121 24 0.26
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.23
Consensus pattern (121 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTCAACTCCCAAAGGCAATT
GTGCGAATCACCAAAACCGGGCTAAGTCCCAAAGACAATCGAGCGAGTTACCAAAA
Found at i:96481569 original size:21 final size:19
Alignment explanation
Indices: 96481533--96481583 Score: 77
Period size: 21 Copynumber: 2.6 Consensus size: 19
96481523 TGTTGGAATA
96481533 AATAAAATAATGTATGGGT
1 AATAAAATAATGTATGGGT
96481552 AATAAAATAAGGTGTATGGGT
1 AATAAAATAA--TGTATGGGT
96481573 AATAAAA-AATG
1 AATAAAATAATG
96481584 AAAAAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
18 2 0.07
19 10 0.33
20 2 0.07
21 16 0.53
ACGTcount: A:0.51, C:0.00, G:0.22, T:0.27
Consensus pattern (19 bp):
AATAAAATAATGTATGGGT
Found at i:96482994 original size:40 final size:40
Alignment explanation
Indices: 96482894--96483084 Score: 229
Period size: 40 Copynumber: 4.8 Consensus size: 40
96482884 TGAATGGTAT
* * * * * *
96482894 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACCAAAA
* * *
96482935 CCGGGTCAACTCCCAAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
96482975 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * * *
96483015 CCAGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * *
96483055 CCGGGCTAATTCCCGAAGGCAATTGTGCGA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGA
96483085 ATCACTATAA
Statistics
Matches: 129, Mismatches: 21, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
40 106 0.82
41 23 0.18
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
Found at i:96483099 original size:40 final size:39
Alignment explanation
Indices: 96482894--96483108 Score: 216
Period size: 40 Copynumber: 5.4 Consensus size: 39
96482884 TGAATGGTAT
* * *
96482894 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
96482934 TCCGGG-TCAACTCCCAAAGGCATTTGTGCGAGTTACCAAAA
1 -CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAA
* *
96482975 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAA
* * *
96483015 CCAGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
96483054 TCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
96483095 CCGGGCTATGTCCC
1 CCGGGCTAAGTCCC
96483109 AAAGACAATC
Statistics
Matches: 149, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 4 0.03
40 115 0.77
41 30 0.20
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:96485522 original size:2 final size:2
Alignment explanation
Indices: 96485515--96485551 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
96485505 AAAGCTTAAC
96485515 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
96485552 AGTCGACATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:96489438 original size:17 final size:15
Alignment explanation
Indices: 96489400--96489455 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
96489390 AATAAAAAGG
*
96489400 TCCAAGATAGAGAAA
1 TCCAAGATAAAGAAA
96489415 TCCAAGATAAAGAAA
1 TCCAAGATAAAGAAA
**
96489430 CTCCCAAGATTCAGAAA
1 -T-CCAAGATAAAGAAA
96489447 TCCAAGATA
1 TCCAAGATA
96489456 CAATACTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
15 21 0.60
16 2 0.06
17 12 0.34
ACGTcount: A:0.50, C:0.20, G:0.14, T:0.16
Consensus pattern (15 bp):
TCCAAGATAAAGAAA
Found at i:96493509 original size:45 final size:45
Alignment explanation
Indices: 96493451--96493542 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 45
96493441 ATGGTCTTAC
96493451 ACTAGCTAACACATCAAAGTCAATGCCATGTTCCAGACAGGTCTT
1 ACTAGCTAACACATCAAAGTCAATGCCATGTTCCAGACAGGTCTT
*
96493496 ACTAGCTAACACATCAAAGTCGATGCCATGTTCCAGACAGGTCTT
1 ACTAGCTAACACATCAAAGTCAATGCCATGTTCCAGACAGGTCTT
96493541 AC
1 AC
96493543 ACTGACATTC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (45 bp):
ACTAGCTAACACATCAAAGTCAATGCCATGTTCCAGACAGGTCTT
Found at i:96493591 original size:49 final size:50
Alignment explanation
Indices: 96493516--96493647 Score: 162
Period size: 49 Copynumber: 2.7 Consensus size: 50
96493506 ACATCAAAGT
* *
96493516 CGATGCCATGTTCCAGACAGGTCTTACACTGACAT-TCATATATCGAGGC
1 CGATGCCATGTCCCAAACAGGTCTTACACTGACATCTCATATATCGAGGC
* * * ** *
96493565 CGATGCCGTGTCCCAAACAAGTCTTACACT-AGC-TCTCATCTATCGCTGT
1 CGATGCCATGTCCCAAACAGGTCTTACACTGA-CATCTCATATATCGAGGC
96493614 CGATGCCATGTCCCAAACAGGTCTTACACTGACA
1 CGATGCCATGTCCCAAACAGGTCTTACACTGACA
96493648 CACAACAAGC
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
48 2 0.03
49 66 0.96
50 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (50 bp):
CGATGCCATGTCCCAAACAGGTCTTACACTGACATCTCATATATCGAGGC
Found at i:96495727 original size:20 final size:20
Alignment explanation
Indices: 96495702--96495760 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
96495692 TAAATATGGT
96495702 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
96495722 ATGTATGCTATGCACATGAT
1 ATGTATGATATGCACATGAA
96495742 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
96495761 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:96495841 original size:23 final size:24
Alignment explanation
Indices: 96495811--96495905 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
96495801 GAGGAAGTGA
96495811 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
96495834 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
96495858 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATT
*
96495882 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
96495906 ATGATAAAGC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 23 0.36
24 30 0.47
25 11 0.17
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:96495879 original size:47 final size:49
Alignment explanation
Indices: 96495812--96495905 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
96495802 AGGAAGTGAA
*
96495812 AAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTATTG
1 AAAGGGCTTATGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTATTG
96495859 AAAGGGCTT-TGGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
1 AAAGGGCTTAT-GCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
96495906 ATGATAAAGC
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 1 0.02
47 19 0.45
48 11 0.26
49 11 0.26
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (49 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTATTG
Found at i:96496148 original size:38 final size:38
Alignment explanation
Indices: 96496097--96496328 Score: 294
Period size: 38 Copynumber: 6.4 Consensus size: 38
96496087 CGTTTACAGT
96496097 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
*
96496135 AAAGGCTTCGGCCCAG-----T--AATATGAAATATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
* *
96496166 AAAGGCTTCGGCACAGTATTATGAAATATGAAACATAA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
*
96496204 AAAGGCTTCGGCCCAG-----T--AATATGAAATATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
*
96496235 AAAGGCTTCCGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
*
96496273 AAAGGCTTCGGCCCAGTATTATGAAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
*
96496311 AAAGGGCTACGGCCCAGT
1 AAA-GGCTTCGGCCCAGT
96496329 GCATGATTGA
Statistics
Matches: 167, Mismatches: 12, Indels: 29
0.80 0.06 0.14
Matches are distributed among these distances:
31 55 0.33
33 2 0.01
36 2 0.01
38 95 0.57
39 13 0.08
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (38 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
Found at i:96496159 original size:31 final size:31
Alignment explanation
Indices: 96496121--96496305 Score: 181
Period size: 31 Copynumber: 5.5 Consensus size: 31
96496111 AGTATTATGA
96496121 AATATGAAACATGAAAAGGCTTCGGCCCAGT
1 AATATGAAACATGAAAAGGCTTCGGCCCAGT
* *
96496152 AATATGAAATATGAAAAGGCTTCGGCACAGTATTAT
1 AATATGAAACATGAAAAGGCTTCGGCCCAG-----T
*
96496188 GAAATATGAAACATAAAAAGGCTTCGGCCCAGT
1 --AATATGAAACATGAAAAGGCTTCGGCCCAGT
* *
96496221 AATATGAAATATGAAAAGGCTTCCGCCCAGTATTAT
1 AATATGAAACATGAAAAGGCTTCGGCCCAG-----T
96496257 GAAATATGAAACATGAAAAGGCTTCGGCCCAGT
1 --AATATGAAACATGAAAAGGCTTCGGCCCAGT
* *
96496290 ATTATGAAATATGAAA
1 AATATGAAACATGAAA
96496306 TATGAAAAGG
Statistics
Matches: 128, Mismatches: 12, Indels: 28
0.76 0.07 0.17
Matches are distributed among these distances:
31 69 0.54
33 2 0.02
36 2 0.02
38 55 0.43
ACGTcount: A:0.42, C:0.15, G:0.20, T:0.23
Consensus pattern (31 bp):
AATATGAAACATGAAAAGGCTTCGGCCCAGT
Found at i:96496173 original size:69 final size:69
Alignment explanation
Indices: 96496097--96496305 Score: 382
Period size: 69 Copynumber: 3.0 Consensus size: 69
96496087 CGTTTACAGT
96496097 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
96496162 ATGA
66 ATGA
* *
96496166 AAAGGCTTCGGCACAGTATTATGAAATATGAAACATAAAAAGGCTTCGGCCCAGTAATATGAAAT
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
96496231 ATGA
66 ATGA
* *
96496235 AAAGGCTTCCGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTATTATGAAAT
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
96496300 ATGA
66 ATGA
96496304 AA
1 AA
96496306 TATGAAAAGG
Statistics
Matches: 134, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 134 1.00
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (69 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
ATGA
Found at i:96499235 original size:40 final size:39
Alignment explanation
Indices: 96499190--96499387 Score: 155
Period size: 40 Copynumber: 5.2 Consensus size: 39
96499180 CGGAATATAA
*
96499190 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TGCACAAATGCCTTCGGGCCTTAGC
*
96499230 CCGG-----AT--C-GCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTGCACAAATGCCTTCGGGCCTTAGC
* * *
96499261 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACT-GCACAAATGCCTTCGGGCCTTAGC
** * * *
96499301 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACT-GCACAAATGCCTTCGGGCCTTAGC
* * * *
96499341 CCGGATATAATTTC-CAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAA--TCACTGCACAAATGCCTTCGGGCCTTAGC
96499380 CCGGATAT
1 CCGGATAT
96499388 CATTCAATTT
Statistics
Matches: 130, Mismatches: 17, Indels: 23
0.76 0.10 0.14
Matches are distributed among these distances:
31 26 0.20
33 1 0.01
35 2 0.02
36 2 0.02
38 1 0.01
39 13 0.10
40 83 0.64
41 1 0.01
42 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAATCACTGCACAAATGCCTTCGGGCCTTAGC
Found at i:96499249 original size:31 final size:31
Alignment explanation
Indices: 96499206--96499266 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
96499196 ATAATCACGT
*
96499206 GCACAAATGCCTTCGGGTCTTAGCCCGGATC
1 GCACAAATGCCTTCGGGCCTTAGCCCGGATC
*
96499237 GCACGAATGCCTTCGGGCCTTAGCCCGGAT
1 GCACAAATGCCTTCGGGCCTTAGCCCGGAT
96499267 AGAATAACTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.18, C:0.33, G:0.28, T:0.21
Consensus pattern (31 bp):
GCACAAATGCCTTCGGGCCTTAGCCCGGATC
Found at i:96500643 original size:56 final size:55
Alignment explanation
Indices: 96500580--96500690 Score: 136
Period size: 56 Copynumber: 2.0 Consensus size: 55
96500570 CCCCCTTTTC
96500580 CCTTAGTA-ATTTCGGCCAAGAAGAT-GAGAAAGGATGAACAAATTTTTCTTTTCTTT
1 CCTTAGTACA-TTCGGCCAAGAAGATGGAG-AAGGATGAAC-AATTTTTCTTTTCTTT
*** * *
96500636 CCTTAGTACATTCGGCCAAGCCTATGGAGAAGGATGAACATTTTTTTTTTTCTTT
1 CCTTAGTACATTCGGCCAAGAAGATGGAGAAGGATGAACAATTTTTCTTTTCTTT
96500691 TTTTTTTCAT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
55 14 0.29
56 30 0.62
57 4 0.08
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (55 bp):
CCTTAGTACATTCGGCCAAGAAGATGGAGAAGGATGAACAATTTTTCTTTTCTTT
Found at i:96513000 original size:25 final size:25
Alignment explanation
Indices: 96512971--96513018 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
96512961 TTATAATATG
* * *
96512971 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
96512996 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
96513019 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:96513087 original size:20 final size:20
Alignment explanation
Indices: 96513062--96513120 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
96513052 TAAATATGGT
96513062 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
96513082 ATGTATGCTATGCACATGAT
1 ATGTATGATATGCACATGAA
96513102 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
96513121 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:96513201 original size:23 final size:24
Alignment explanation
Indices: 96513171--96513265 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
96513161 GAGGAAGTGA
96513171 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
96513194 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
96513218 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATT
*
96513242 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
96513266 ATGATAAAGC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 23 0.36
24 30 0.47
25 11 0.17
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:96513239 original size:47 final size:49
Alignment explanation
Indices: 96513172--96513265 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
96513162 AGGAAGTGAA
*
96513172 AAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTATTG
1 AAAGGGCTTATGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTATTG
96513219 AAAGGGCTT-TGGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
1 AAAGGGCTTAT-GCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
96513266 ATGATAAAGC
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 1 0.02
47 19 0.45
48 11 0.26
49 11 0.26
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (49 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTATTG
Found at i:96513508 original size:38 final size:38
Alignment explanation
Indices: 96513457--96513675 Score: 304
Period size: 38 Copynumber: 6.1 Consensus size: 38
96513447 CGTTTACAGT
96513457 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
*
96513495 AAAGGCTTCGGCCCAG-----T--AATATGAAATATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
*
96513526 AAAGGCTTCCGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
*
96513564 AAAGGCTTCGGCCC---A--AT--AATATGAAATATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
96513595 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
*
96513633 AAAGGCTTCGGCCCAGTATTATGAAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
96513671 AAAGG
1 AAAGG
96513676 GCTACAGCCC
Statistics
Matches: 160, Mismatches: 7, Indels: 28
0.82 0.04 0.14
Matches are distributed among these distances:
31 55 0.34
33 3 0.02
34 1 0.01
35 1 0.01
36 3 0.02
38 97 0.61
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (38 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
Found at i:96513519 original size:31 final size:31
Alignment explanation
Indices: 96513481--96513665 Score: 190
Period size: 31 Copynumber: 5.5 Consensus size: 31
96513471 AGTATTATGA
96513481 AATATGAAACATGAAAAGGCTTCGGCCCAGT
1 AATATGAAACATGAAAAGGCTTCGGCCCAGT
* *
96513512 AATATGAAATATGAAAAGGCTTCCGCCCAGTATTAT
1 AATATGAAACATGAAAAGGCTTCGGCCCAG-----T
*
96513548 GAAATATGAAACATGAAAAGGCTTCGGCCCAAT
1 --AATATGAAACATGAAAAGGCTTCGGCCCAGT
*
96513581 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTAT
1 AATATGAAACATGAAAAGGCTTCGGCCCAG-----T
96513617 GAAATATGAAACATGAAAAGGCTTCGGCCCAGT
1 --AATATGAAACATGAAAAGGCTTCGGCCCAGT
* *
96513650 ATTATGAAATATGAAA
1 AATATGAAACATGAAA
96513666 TATGAAAAGG
Statistics
Matches: 130, Mismatches: 10, Indels: 28
0.77 0.06 0.17
Matches are distributed among these distances:
31 70 0.54
33 2 0.02
36 2 0.02
38 56 0.43
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.23
Consensus pattern (31 bp):
AATATGAAACATGAAAAGGCTTCGGCCCAGT
Found at i:96513533 original size:69 final size:69
Alignment explanation
Indices: 96513457--96513665 Score: 391
Period size: 69 Copynumber: 3.0 Consensus size: 69
96513447 CGTTTACAGT
96513457 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
96513522 ATGA
66 ATGA
* *
96513526 AAAGGCTTCCGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAATAATATGAAAT
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
96513591 ATGA
66 ATGA
*
96513595 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTATTATGAAAT
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
96513660 ATGA
66 ATGA
96513664 AA
1 AA
96513666 TATGAAAAGG
Statistics
Matches: 135, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 135 1.00
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (69 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
ATGA
Found at i:96521946 original size:46 final size:45
Alignment explanation
Indices: 96521884--96522059 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 45
96521874 AATATTTGGG
* *
96521884 CATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AA
* * * * *
96521930 CATCCGAACTCGTTGAGTTAAGTTCGAGTTCA-TGAGATGTAT-CTAGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGC-A-A
96521977 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA
* * *
96522022 -ATGCCCGAGCTCGTTGAGTTGAGTCCAAGTTCGCTTAT
1 CAT--CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT
96522060 AGGCGGGTTA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
44 2 0.02
45 1 0.01
46 67 0.63
47 36 0.34
48 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (45 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA
Found at i:96522053 original size:93 final size:93
Alignment explanation
Indices: 96521882--96522053 Score: 258
Period size: 93 Copynumber: 1.8 Consensus size: 93
96521872 CGAATATTTG
*
96521882 GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACATCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACATCCGAACTCGTTGAG
* *
96521947 TTAAGTTCGAGTTCATGAGATGTATCTA
66 TTAAGTCCAAGTTCATGAGATGTATCTA
* *
96521975 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AA-ATGCCCGAGCTCGTTG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACAT--CCGAACTCGTTG
*
96522038 AGTTGAGTCCAAGTTC
64 AGTTAAGTCCAAGTTC
96522054 GCTTATAGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
91 2 0.03
92 2 0.03
93 67 0.94
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACATCCGAACTCGTTGAG
TTAAGTCCAAGTTCATGAGATGTATCTA
Found at i:96523915 original size:27 final size:26
Alignment explanation
Indices: 96523859--96523915 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
96523849 CAACCTTAAC
* * *
96523859 CCTAGGGGTATATCAGTAATTTTACT
1 CCTAGGGGTAAATCAGTAATTGTACA
* *
96523885 CCTAGGGGTAAATCTGTAAATTGTCCA
1 CCTAGGGGTAAATCAGT-AATTGTACA
96523912 CCTA
1 CCTA
96523916 TAAAGTTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTGTACA
Found at i:96524187 original size:8 final size:8
Alignment explanation
Indices: 96524161--96524196 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
96524151 AAATATCGAT
96524161 TTTTCGGC
1 TTTTCGGC
96524169 ATTTT-GGC
1 -TTTTCGGC
96524177 TTTTCGGC
1 TTTTCGGC
96524185 TTTTCGGC
1 TTTTCGGC
96524193 TTTT
1 TTTT
96524197 GCCGATCTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 4 0.15
8 18 0.69
9 4 0.15
ACGTcount: A:0.03, C:0.19, G:0.22, T:0.56
Consensus pattern (8 bp):
TTTTCGGC
Found at i:96529780 original size:37 final size:37
Alignment explanation
Indices: 96529730--96529820 Score: 146
Period size: 37 Copynumber: 2.4 Consensus size: 37
96529720 TTATTACGAA
*
96529730 GTCTTACCCGGACATAATCTCCATACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
96529767 GTCTTACCCGGACATAATCTCTACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
96529804 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
96529821 TTTCCAAGTT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
37 45 0.90
38 5 0.10
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:96529915 original size:48 final size:48
Alignment explanation
Indices: 96529860--96530059 Score: 346
Period size: 48 Copynumber: 4.2 Consensus size: 48
96529850 TGTTACAACA
*
96529860 TTCACATTAGCCATTCGGCTTTACCACACATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
*
96529908 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
* *
96529956 TTCACATTGGCCCTTCGGCTTTACCACATATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
* *
96530004 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATGT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
96530052 TTCACATT
1 TTCACATT
96530060 CATCACATCA
Statistics
Matches: 143, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 143 1.00
ACGTcount: A:0.32, C:0.29, G:0.07, T:0.33
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
Found at i:96530107 original size:49 final size:49
Alignment explanation
Indices: 96530051--96530381 Score: 514
Period size: 49 Copynumber: 6.9 Consensus size: 49
96530041 CACACATATG
**
96530051 TTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
* * *
96530100 CTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
96530147 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATGTACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
96530196 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
* * *
96530245 CTTCACATTCATCACA-TCGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
* *
96530291 TTTCACATTCATCACATTGGCCATTAGGCCTTATTAC--ATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
96530338 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
96530382 CATCTCCTAA
Statistics
Matches: 262, Mismatches: 15, Indels: 10
0.91 0.05 0.03
Matches are distributed among these distances:
46 24 0.09
47 108 0.41
48 19 0.07
49 111 0.42
ACGTcount: A:0.29, C:0.28, G:0.08, T:0.34
Consensus pattern (49 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
Found at i:96530159 original size:47 final size:47
Alignment explanation
Indices: 96530051--96530383 Score: 515
Period size: 47 Copynumber: 7.0 Consensus size: 47
96530041 CACACATATG
**
96530051 TTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACAC
* * *
96530100 CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
96530147 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATGTACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATA--TACAC
96530196 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACAC
* * *
96530245 CTTCACATTCATCACA-TCGCCATTAGGCCTTATCACATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
* *
96530291 TTTCACATTCATCACATTGGCCATTAGGCCTTATTACATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
96530338 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACA
96530384 TCTCCTAAAT
Statistics
Matches: 265, Mismatches: 14, Indels: 12
0.91 0.05 0.04
Matches are distributed among these distances:
46 24 0.09
47 121 0.46
48 19 0.07
49 96 0.36
51 5 0.02
ACGTcount: A:0.29, C:0.28, G:0.08, T:0.34
Consensus pattern (47 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
Found at i:96534207 original size:37 final size:36
Alignment explanation
Indices: 96534157--96534243 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
96534147 TGCGAAGTCT
96534157 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
96534193 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
96534230 TCACCCGGAACATA
1 T-ACCCGG-ACATA
96534244 TTTCCAAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:96534377 original size:49 final size:49
Alignment explanation
Indices: 96534316--96534554 Score: 333
Period size: 49 Copynumber: 5.1 Consensus size: 49
96534306 CATTTCATAT
* *
96534316 ATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACAC
1 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
*
96534365 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
96534414 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
1 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
*
96534463 ATATACACACTTTCACATTCATCACAT----C----GGCC--A-CACAT
1 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
* *
96534501 ATACACAC--TTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
96534548 ATATACA
1 ATATACA
96534555 TCTCATACAT
Statistics
Matches: 172, Mismatches: 7, Indels: 24
0.85 0.03 0.12
Matches are distributed among these distances:
36 17 0.10
38 11 0.06
39 1 0.01
40 1 0.01
41 4 0.02
44 4 0.02
45 1 0.01
46 1 0.01
47 11 0.06
49 121 0.70
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.29
Consensus pattern (49 bp):
ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
Found at i:96534499 original size:36 final size:36
Alignment explanation
Indices: 96534458--96534531 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
96534448 TAGGCCTTAT
96534458 CACACATATACACACTTTCACATTCATCACATCGGC
1 CACACATATACACACTTTCACATTCATCACATCGGC
96534494 CACACATATACACACTTTCACATTCATCACATCGGC
1 CACACATATACACACTTTCACATTCATCACATCGGC
96534530 CA
1 CA
96534532 TTAGGCCTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.34, C:0.36, G:0.05, T:0.24
Consensus pattern (36 bp):
CACACATATACACACTTTCACATTCATCACATCGGC
Found at i:96538228 original size:40 final size:40
Alignment explanation
Indices: 96538166--96538397 Score: 410
Period size: 40 Copynumber: 5.8 Consensus size: 40
96538156 CCAGCGCGAT
* * * *
96538166 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
96538206 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
96538246 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
96538286 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
96538326 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
96538366 TGCTCTTCGGAACTTAGCCCGGATACATCACT
1 TGCTCCTCGGAACTTAGTCCGGATACATCACT
96538398 CTCAATTCTC
Statistics
Matches: 186, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 186 1.00
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (40 bp):
TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:96540333 original size:37 final size:36
Alignment explanation
Indices: 96540283--96540369 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
96540273 TGCGAAGTCT
96540283 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
96540319 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
96540356 TCACCCGGAACATA
1 T-ACCCGG-ACATA
96540370 TTTCCAAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:96540506 original size:18 final size:18
Alignment explanation
Indices: 96540483--96540542 Score: 79
Period size: 18 Copynumber: 3.3 Consensus size: 18
96540473 TTAGGCCTTA
96540483 TCACATATATACACACTT
1 TCACATATATACACACTT
96540501 TCACAT-TCAT-CACACTT
1 TCACATAT-ATACACACTT
*
96540518 ATCACACATATACACACTT
1 -TCACATATATACACACTT
96540537 TCACAT
1 TCACAT
96540543 TCATCACATC
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
17 8 0.22
18 20 0.56
19 8 0.22
ACGTcount: A:0.37, C:0.32, G:0.00, T:0.32
Consensus pattern (18 bp):
TCACATATATACACACTT
Found at i:96540529 original size:36 final size:36
Alignment explanation
Indices: 96540479--96540550 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
96540469 GCCATTAGGC
*
96540479 CTTATCACATATATACACACTTTCACATTCATCACA
1 CTTATCACACATATACACACTTTCACATTCATCACA
96540515 CTTATCACACATATACACACTTTCACATTCATCACA
1 CTTATCACACATATACACACTTTCACATTCATCACA
96540551 TCGGCCATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (36 bp):
CTTATCACACATATACACACTTTCACATTCATCACA
Found at i:96540540 original size:85 final size:85
Alignment explanation
Indices: 96540440--96540599 Score: 293
Period size: 85 Copynumber: 1.9 Consensus size: 85
96540430 TGCCACATAT
* * *
96540440 ATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATACACACTTTCAC
1 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACACTTTCAC
96540505 ATTCATCACACTTATCACAC
66 ATTCATCACACTTATCACAC
96540525 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACACTTTCAC
1 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACACTTTCAC
96540590 ATTCATCACA
66 ATTCATCACA
96540600 TCGGCCATTA
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 72 1.00
ACGTcount: A:0.33, C:0.31, G:0.06, T:0.31
Consensus pattern (85 bp):
ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACACTTTCAC
ATTCATCACACTTATCACAC
Found at i:96540571 original size:49 final size:49
Alignment explanation
Indices: 96540515--96540629 Score: 221
Period size: 49 Copynumber: 2.3 Consensus size: 49
96540505 ATTCATCACA
96540515 CTTATCACACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
96540564 CTTATCACACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
96540613 CTTATCACATATATACA
1 CTTATCACACATATACA
96540630 TCTCATACAT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 65 1.00
ACGTcount: A:0.32, C:0.31, G:0.07, T:0.30
Consensus pattern (49 bp):
CTTATCACACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:96544290 original size:40 final size:40
Alignment explanation
Indices: 96544241--96544508 Score: 445
Period size: 40 Copynumber: 6.8 Consensus size: 40
96544231 CCAGCGCGAT
* * * *
96544241 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
96544281 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
96544321 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
96544361 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
96544401 TGCTCCTC-GAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
96544440 TG---CTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
96544477 TGCTCTTCGGAACTTAGCCCGGATACATCACT
1 TGCTCCTCGGAACTTAGTCCGGATACATCACT
96544509 CTCAATTCTC
Statistics
Matches: 218, Mismatches: 6, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
36 3 0.01
37 33 0.15
39 33 0.15
40 149 0.68
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (40 bp):
TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:96546442 original size:37 final size:36
Alignment explanation
Indices: 96546392--96546478 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
96546382 TGCGAAGTCT
96546392 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
96546428 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
96546465 TCACCCGGAACATA
1 T-ACCCGG-ACATA
96546479 TTTCCAAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:96546608 original size:49 final size:49
Alignment explanation
Indices: 96546547--96546751 Score: 374
Period size: 49 Copynumber: 4.2 Consensus size: 49
96546537 TTTGCCACAT
* *
96546547 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
96546596 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
96546645 ACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
96546694 ACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
96546743 ATATATACA
1 ATATATACA
96546752 TCTCATACAT
Statistics
Matches: 152, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 152 1.00
ACGTcount: A:0.31, C:0.30, G:0.08, T:0.30
Consensus pattern (49 bp):
ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:96549566 original size:40 final size:41
Alignment explanation
Indices: 96549522--96549619 Score: 112
Period size: 41 Copynumber: 2.4 Consensus size: 41
96549512 TCGATTGTCC
* * **
96549522 TCGGGACATAGCCCGG-TTATAGTGA-TTCGCACAATTGCCT
1 TCGGGACATAGCCCGGATT-TAGTAACTTAGCACAAAAGCCT
96549562 TCGGGA-ATTAGCCCGGATTTAGTAACTTAGCACAAAAGCCT
1 TCGGGACA-TAGCCCGGATTTAGTAACTTAGCACAAAAGCCT
*
96549603 TCGGGACTTAGCCCGGA
1 TCGGGACATAGCCCGGA
96549620 CACCATTCGA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
39 1 0.02
40 19 0.39
41 29 0.59
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (41 bp):
TCGGGACATAGCCCGGATTTAGTAACTTAGCACAAAAGCCT
Found at i:96550463 original size:40 final size:40
Alignment explanation
Indices: 96550364--96550593 Score: 392
Period size: 40 Copynumber: 5.8 Consensus size: 40
96550354 CCAGCGCGAT
* * * *
96550364 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
96550404 TGCT-CTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
96550443 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
96550483 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
96550523 TGCT-CTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
96550562 TGCTCTTCGGAACTTAGCCCGGATACATCACT
1 TGCTCCTCGGAACTTAGTCCGGATACATCACT
96550594 CTCAATTCTC
Statistics
Matches: 182, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
39 74 0.41
40 108 0.59
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (40 bp):
TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:96550471 original size:79 final size:79
Alignment explanation
Indices: 96550364--96550593 Score: 390
Period size: 79 Copynumber: 2.9 Consensus size: 79
96550354 CCAGCGCGAT
* * * *
96550364 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAATGCTCTCGGAACTTAGTCCGGATAC
1 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTCGGAACTTAGTCCGGATAC
96550429 ATCACTAGCACGAA
66 ATCACTAGCACGAA
96550443 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCCTCGGAACTTAGTCCGGATA
1 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCT-CTCGGAACTTAGTCCGGATA
96550508 CATCACTAGCACGAA
65 CATCACTAGCACGAA
*
96550523 TGCT-CTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATA
1 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTC-TCGGAACTTAGTCCGGATA
96550587 CATCACT
65 CATCACT
96550594 CTCAATTCTC
Statistics
Matches: 144, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
78 1 0.01
79 104 0.72
80 39 0.27
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (79 bp):
TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTCGGAACTTAGTCCGGATAC
ATCACTAGCACGAA
Found at i:96550575 original size:119 final size:119
Alignment explanation
Indices: 96550364--96550593 Score: 406
Period size: 119 Copynumber: 1.9 Consensus size: 119
96550354 CCAGCGCGAT
* *
96550364 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAATGCTCTCGGAACTTAGTCCGGATAC
1 TGCTCCTCGGAACCTAGCCCGGATACATCACTAGCACGAATGCTCTCGGAACTTAGTCCGGATAC
*
96550429 ATCACTAGCACGAATGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
66 ATCACTAGCACGAATGCTCCTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* *
96550483 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTCGGAACTTAGTCCGGATAC
1 TGCTCCTCGGAACCTAGCCCGGATACATCACTAGCACGAATGCTCTCGGAACTTAGTCCGGATAC
*
96550548 ATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACT
66 ATCACTAGCACGAATGCTCCTCGGAACTTAGCCCGGATACATCACT
96550594 CTCAATTCTC
Statistics
Matches: 105, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
119 105 1.00
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (119 bp):
TGCTCCTCGGAACCTAGCCCGGATACATCACTAGCACGAATGCTCTCGGAACTTAGTCCGGATAC
ATCACTAGCACGAATGCTCCTCGGAACTTAGCCCGGATACATCACTAGCACGAA
Found at i:96552528 original size:37 final size:36
Alignment explanation
Indices: 96552478--96552564 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
96552468 TGCGAAGTCT
96552478 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
96552514 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
96552551 TCACCCGGAACATA
1 T-ACCCGG-ACATA
96552565 TTTCCAAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:96552694 original size:49 final size:49
Alignment explanation
Indices: 96552633--96552836 Score: 365
Period size: 49 Copynumber: 4.2 Consensus size: 49
96552623 TTTGCCACAT
* *
96552633 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
96552682 ATATATACACACTTTCACATTCATCACATCGG-CATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
96552730 ACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
96552779 ACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
96552828 ATATATACA
1 ATATATACA
96552837 TCTCATACAT
Statistics
Matches: 150, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
48 47 0.31
49 103 0.69
ACGTcount: A:0.31, C:0.30, G:0.08, T:0.30
Consensus pattern (49 bp):
ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:96552767 original size:97 final size:98
Alignment explanation
Indices: 96552635--96552836 Score: 361
Period size: 97 Copynumber: 2.1 Consensus size: 98
96552625 TGCCACATAT
* * *
96552635 ATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATACACACTTTCAC
1 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACACTTTCAC
96552700 ATTCATCACATCGG-CATTAGGCCTTATCACAC
66 ATTCATCACATCGGCCATTAGGCCTTATCACAC
96552732 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACACTTTCAC
1 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACACTTTCAC
*
96552797 ATTCATCACATCGGCCATTAGGCCTTATCACAT
66 ATTCATCACATCGGCCATTAGGCCTTATCACAC
96552830 ATATACA
1 ATATACA
96552837 TCTCATACAT
Statistics
Matches: 100, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
97 76 0.76
98 24 0.24
ACGTcount: A:0.31, C:0.30, G:0.08, T:0.30
Consensus pattern (98 bp):
ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACACTTTCAC
ATTCATCACATCGGCCATTAGGCCTTATCACAC
Found at i:96557878 original size:24 final size:21
Alignment explanation
Indices: 96557829--96557879 Score: 57
Period size: 24 Copynumber: 2.3 Consensus size: 21
96557819 AAAAAATATT
96557829 TCATGCTTAATTAATTAAAAA
1 TCATGCTTAATTAATTAAAAA
* *
96557850 CCATGTCTTAAATTAAGTTAAATA
1 TCATG-CTT-AATTAA-TTAAAAA
96557874 TCATGC
1 TCATGC
96557880 ATGCTAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
21 4 0.17
22 3 0.12
23 7 0.29
24 10 0.42
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.37
Consensus pattern (21 bp):
TCATGCTTAATTAATTAAAAA
Found at i:96559590 original size:43 final size:43
Alignment explanation
Indices: 96559527--96559743 Score: 301
Period size: 43 Copynumber: 5.0 Consensus size: 43
96559517 TATATGTGAT
96559527 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGC
1 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGC
* *
96559570 ATCGATGTGTGATTATGTGTAAGACCACGTCTGGGACGTTGGC
1 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGC
*
96559613 ATCGATACGTGATTACGTGTAAGACCACGTCTGGGACGTTGGC
1 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGC
* * * * * *
96559656 ATCAATATGTGTTTGCGAGTAAGACCCCGTCTGGGATAG-TGGC
1 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGA-CGTTGGC
* ** *
96559699 ATCGATATGCGGCTACATGTAAGACCACGTCTGGGACGTTGGC
1 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGC
96559742 AT
1 AT
96559744 TGTACGATAT
Statistics
Matches: 151, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
42 1 0.01
43 149 0.99
44 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.27
Consensus pattern (43 bp):
ATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGC
Found at i:96561033 original size:26 final size:26
Alignment explanation
Indices: 96561004--96561111 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
96560994 TGGTACAAAT
96561004 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
96561030 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
96561056 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
96561082 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
96561108 TGAT
1 TGAT
96561112 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:96562811 original size:27 final size:27
Alignment explanation
Indices: 96562710--96562816 Score: 119
Period size: 27 Copynumber: 3.9 Consensus size: 27
96562700 AGGAAGCGTC
* *
96562710 CTGGTGGCTATGCCACAAATATCTG-AT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
96562737 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACAT-TATCTGTAT
*
96562764 CTGGTGGCTTTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
* * *
96562792 CTAGTGACTCTGTCACATTATCTGT
1 CTGGTGGCTCTGCCACATTATCTGT
96562817 TTTGGCAGCC
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
26 1 0.01
27 53 0.77
28 15 0.22
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTATCTGTAT
Found at i:96562814 original size:54 final size:54
Alignment explanation
Indices: 96562710--96562817 Score: 146
Period size: 54 Copynumber: 2.0 Consensus size: 54
96562700 AGGAAGCGTC
* *
96562710 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATATCTGATCTAGTGACTCTGCCACATATATCTGTT
* * * *
96562764 CTGGTGGCTTTGCCACGATTATCTGTATCTAGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAAATATCTG-ATCTAGTGACTCTGCCACATATATCTGTT
96562818 TTGGCAGCCA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 30 0.64
55 17 0.36
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATATCTGATCTAGTGACTCTGCCACATATATCTGTT
Found at i:96565498 original size:86 final size:86
Alignment explanation
Indices: 96565268--96565538 Score: 283
Period size: 86 Copynumber: 3.1 Consensus size: 86
96565258 ACCACAGCTG
* * * *
96565268 GTTTGCAGTTACTGCCACTTGTTGTGGGTGCACAACATATTTGCAGATTAAACAAATTGCCACTT
1 GTTTGCAATTACTGCCACTTGTTGTGAGTGCACAAAATATTTGCAGATTAAACAAACTGCCACTT
* *
96565333 GGTTCATGAT-TGAACAACATAT
66 GGTTCATAATCT-AACCACAT-T
* ** ** * * * * * *
96565355 CTTTTTAGCTACTACCACTTGTTGTAAGTGCAGAAAATATTTACAGATTAAATAAACTGTCACTT
1 GTTTGCAATTACTGCCACTTGTTGTGAGTGCACAAAATATTTGCAGATTAAACAAACTGCCACTT
96565420 GGTTCATAATCTAACCACATT
66 GGTTCATAATCTAACCACATT
* * * * *
96565441 GTTTGCAATTACTGCCACTTGTTGTGAGTGCATAAAATATTTGTAAATTAGACAAACTACCACTT
1 GTTTGCAATTACTGCCACTTGTTGTGAGTGCACAAAATATTTGCAGATTAAACAAACTGCCACTT
* * *
96565506 GGTTAATAATCGAATCACATT
66 GGTTCATAATCTAACCACATT
96565527 GTTTGCAGATTA
1 GTTTGCA-ATTA
96565539 AACTGCCATT
Statistics
Matches: 149, Mismatches: 33, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
86 76 0.51
87 72 0.48
88 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (86 bp):
GTTTGCAATTACTGCCACTTGTTGTGAGTGCACAAAATATTTGCAGATTAAACAAACTGCCACTT
GGTTCATAATCTAACCACATT
Found at i:96569413 original size:26 final size:26
Alignment explanation
Indices: 96569375--96569458 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
96569365 CATGAAATTC
* *
96569375 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
*
96569401 TTATCATGGAACATTTACCTAACTTA
1 TTATCATGGAACATTTACCTAACCTA
96569427 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
96569453 TTATCA
1 TTATCA
96569459 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.36
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:96572445 original size:16 final size:16
Alignment explanation
Indices: 96572427--96572456 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
96572417 TTTTTTAAAA
96572427 AAAAT-TTTGTTTTTG
1 AAAATCTTTGTTTTTG
96572442 AAAATCTTTGTTTTT
1 AAAATCTTTGTTTTT
96572457 TTGTAAACCC
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:0.27, C:0.03, G:0.10, T:0.60
Consensus pattern (16 bp):
AAAATCTTTGTTTTTG
Found at i:96573659 original size:25 final size:26
Alignment explanation
Indices: 96573622--96573673 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
96573612 TCAAACATGC
96573622 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* * *
96573648 ATTTCGGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
96573673 A
1 A
96573674 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:96575204 original size:26 final size:26
Alignment explanation
Indices: 96575157--96575265 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
96575147 CATGAAATTC
96575157 TTATCATGAAA-ATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
96575182 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
96575208 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
96575234 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
96575260 TTATCA
1 TTATCA
96575266 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
25 11 0.14
26 70 0.86
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:96578213 original size:43 final size:41
Alignment explanation
Indices: 96578150--96578246 Score: 133
Period size: 43 Copynumber: 2.3 Consensus size: 41
96578140 ACTATTTAGG
*
96578150 GAGATAAGACCTTCAATCTTCAA-TCTGCTTTCTTGCTACCTCA
1 GAGATAAGA-C-TCAATCTTCAACT-TGCTCTCTTGCTACCTCA
96578193 GGAAGATAAGACTCAATCTTCAACTTGCTCTCTTGCTACCTCA
1 -G-AGATAAGACTCAATCTTCAACTTGCTCTCTTGCTACCTCA
96578236 GAGATAAGACT
1 GAGATAAGACT
96578247 TGGGGCTTTA
Statistics
Matches: 50, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
41 10 0.20
42 1 0.02
43 28 0.56
44 3 0.06
45 8 0.16
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (41 bp):
GAGATAAGACTCAATCTTCAACTTGCTCTCTTGCTACCTCA
Found at i:96578569 original size:176 final size:176
Alignment explanation
Indices: 96578076--96578826 Score: 1000
Period size: 176 Copynumber: 4.3 Consensus size: 176
96578066 CAGGGCTAGT
* * * * *
96578076 GGCTTAAATCTACTCCATTGCCAATACATGGAGATAAGATTCACCATCCTCGATCTGTTCCACTA
1 GGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCGCTA
* * *
96578141 CTATTTAGGGAGATAAGACCTTCAATCTTCAATCTGCTTTCTTGCTACCTCAGGAAGATAAGACT
66 CTATTTAGGGAGATAAGATCTTCAATCTTCAATCTGCTTCCTTGCTACCTCAAGAAGATAAGACT
* * *
96578206 CAATCTTCAACTTGCTCTCTTGCTACCTC--AGAGATAAGACTTGG
131 CAATTTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGG
* *
96578250 GGCTTTAAATCTACTCCATTGCCGATACATGGAGATAAGATTCACCATCTT-GCATCTACTCCGC
1 GGC-TTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCG-ATCTGCTCCGC
* ** * *
96578314 TACTGTTTA-GGAGATAAGATCTTCAAT-TTCGGTCTGCTTCCTTACTACCTCAGGAAGATAAGA
64 TACTATTTAGGGAGATAAGATCTTCAATCTTCAATCTGCTTCCTTGCTACCTCAAGAAGATAAGA
**
96578377 CTCAATCTTT-AACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAAG
129 CTCAAT-TTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGG
* * *
96578425 GGCTTAAATTTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCTGCTA
1 GGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCGCTA
* * *
96578490 CTATTTAGGGATATAAGATCTTCAATCTTTAGTCTGCTTCCTTGCTACCTCAAGAAGATAAGACT
66 CTATTTAGGGAGATAAGATCTTCAATCTTCAATCTGCTTCCTTGCTACCTCAAGAAGATAAGACT
*
96578555 CTATTTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGG
131 CAATTTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGG
** * *
96578601 GGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTTTCCATCTTCGATCTGCTCTGCTG
1 GGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCGCTA
* * * * * * *
96578666 CAACTTCAGAGAGATAAGATCTTCCATCTTTAATCTACTT-TTTGCTACCTC-AGAAAGATAAGA
66 CTA-TTTAGGGAGATAAGATCTTCAATCTTCAATCTGCTTCCTTGCTACCTCAAG-AAGATAAGA
96578729 CTC-ATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGC-TGG
129 CTCAATT-TTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGG
* * *
96578776 TGGCTTAAATCTGCTCCATTGCCAATATATGGAGATAAGATTCGCCATCTT
1 -GGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTT
96578827 TAATCTCCAT
Statistics
Matches: 518, Mismatches: 46, Indels: 24
0.88 0.08 0.04
Matches are distributed among these distances:
173 58 0.11
174 84 0.16
175 105 0.20
176 241 0.47
177 30 0.06
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (176 bp):
GGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCGCTA
CTATTTAGGGAGATAAGATCTTCAATCTTCAATCTGCTTCCTTGCTACCTCAAGAAGATAAGACT
CAATTTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGG
Found at i:96578815 original size:352 final size:349
Alignment explanation
Indices: 96578069--96578826 Score: 1074
Period size: 349 Copynumber: 2.2 Consensus size: 349
96578059 AGGGAAACAG
* * * *
96578069 GGCTAGTGGCTTAAATCTACTCCATTGCCAATACATGGAGATAAGATTCACCATCCTCGATCTGT
1 GGCTAGTGGCTTAAATCTGCTCCATTGCCAATACATGGAGATAAGATTCGCCATCTTCGATCTGC
* *
96578134 TCCACTACTATTTAGGGAGATAAGACCTTCAATCTTCAATCTGCTTTCTTGCTACCTCAGGAAGA
66 TCCACTACTATTTAGGGAGATAAGACCTTCAATCTTCAATCTGCTTCCTTGCTACCTCAAGAAGA
*
96578199 TAAGACTCAATCTTCAACTTGCTCTCTTGCTACCTCAGAGATAAGACTTGGGGCTTTAAATCTAC
131 TAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGATAAGACTTGGGGCTTTAAATCTAC
** *
96578264 TCCATTGCCGATACATGGAGATAAGATTCACCATCTTGCATCTACTCCGCTACTGTTTAGGAGAT
196 TCCATTGCCGATACATGGAGATAAGATTCACCATCTTGCATCTACTCCGCTACACTTCAGGAGAT
** * * *
96578329 AAGATCTTCAATTTCGGTCTGCTTCCTTACTACCTCAGGAAGATAAGACTCAATCTTTAACCTGC
261 AAGATCTTCAATTTCAATCTACTTCCTTACTACCTCAGAAAGATAAGACTCAATCTTCAACCTGC
96578394 TCTCTTGCTACCTCAGAGAGATAA
326 TCTCTTGCTACCTCAGAGAGATAA
* *
96578418 GGCTAAG-GGCTTAAATTTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTG
1 GGCT-AGTGGCTTAAATCTGCTCCATTGCCAATACATGGAGATAAGATTCGCCATCTTCGATCTG
** * * * *
96578482 CTCTGCTACTATTTAGGGATATAAGATCTTCAATCTTTAGTCTGCTTCCTTGCTACCTCAAGAAG
65 CTCCACTACTATTTAGGGAGATAAGACCTTCAATCTTCAATCTGCTTCCTTGCTACCTCAAGAAG
* * *
96578547 ATAAGACTCTATTTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGGGGC-TTAAATC
130 ATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTC--AGAGATAAGACTTGGGGCTTTAAATC
* ** * * *
96578611 TGCTCCATTGCCGATACATGGAGATAAGATTTTCCATCTT-CGATCTGCTCTGCTGCAACTTCAG
193 TACTCCATTGCCGATACATGGAGATAAGATTCACCATCTTGC-ATCTACTCCGCTAC-ACTTCAG
* * * * *
96578675 AGAGATAAGATCTTCCATCTTTAATCTACTT-TTTGCTACCTCAGAAAGATAAGACTCATTCTTC
256 -GAGATAAGATCTTCAAT-TTCAATCTACTTCCTTACTACCTCAGAAAGATAAGACTCAATCTTC
96578739 AACCTGCTCTCTTGCTACCTCAGAGAGATAA
319 AACCTGCTCTCTTGCTACCTCAGAGAGATAA
* *
96578770 GGCTGGTGGCTTAAATCTGCTCCATTGCCAATATATGGAGATAAGATTCGCCATCTT
1 GGCTAGTGGCTTAAATCTGCTCCATTGCCAATACATGGAGATAAGATTCGCCATCTT
96578827 TAATCTCCAT
Statistics
Matches: 360, Mismatches: 41, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
349 147 0.41
350 57 0.16
351 22 0.06
352 126 0.35
353 8 0.02
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (349 bp):
GGCTAGTGGCTTAAATCTGCTCCATTGCCAATACATGGAGATAAGATTCGCCATCTTCGATCTGC
TCCACTACTATTTAGGGAGATAAGACCTTCAATCTTCAATCTGCTTCCTTGCTACCTCAAGAAGA
TAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGATAAGACTTGGGGCTTTAAATCTAC
TCCATTGCCGATACATGGAGATAAGATTCACCATCTTGCATCTACTCCGCTACACTTCAGGAGAT
AAGATCTTCAATTTCAATCTACTTCCTTACTACCTCAGAAAGATAAGACTCAATCTTCAACCTGC
TCTCTTGCTACCTCAGAGAGATAA
Found at i:96583679 original size:23 final size:23
Alignment explanation
Indices: 96583636--96583681 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
96583626 ATTATTTAAA
*
96583636 TGAAAAAATAACACAATTGTTTG
1 TGAAAAAATAAAACAATTGTTTG
*
96583659 TGAAAAGAATAAAAGAA-TGTTTG
1 TGAAAA-AATAAAACAATTGTTTG
96583682 CTCAAAATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.50, C:0.04, G:0.17, T:0.28
Consensus pattern (23 bp):
TGAAAAAATAAAACAATTGTTTG
Found at i:96600254 original size:20 final size:21
Alignment explanation
Indices: 96600211--96600254 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
96600201 TATATTTGTT
**
96600211 TTAAATAATAAATAAATATTA
1 TTAAATAATAAATAAATAAAA
*
96600232 TTAAA-AATAAATAGATAAAA
1 TTAAATAATAAATAAATAAAA
96600252 TTA
1 TTA
96600255 TTTTCTTGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (21 bp):
TTAAATAATAAATAAATAAAA
Found at i:96600254 original size:23 final size:23
Alignment explanation
Indices: 96600213--96600256 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
96600203 TATTTGTTTT
96600213 AAATAATAAATAAATATTATTAA
1 AAATAATAAATAAATATTATTAA
*
96600236 AAATAAATAGATAAA-ATTATT
1 AAAT-AATAAATAAATATTATT
96600257 TTCTTGTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (23 bp):
AAATAATAAATAAATATTATTAA
Found at i:96601151 original size:36 final size:36
Alignment explanation
Indices: 96601104--96601173 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
96601094 TATTATTTGG
96601104 ATTCTAAACATTTCAATCAATCTCGTAATTTTATGA
1 ATTCTAAACATTTCAATCAATCTCGTAATTTTATGA
*
96601140 ATTCTAAACATTTCAATTAATCTCGTAATTTTAT
1 ATTCTAAACATTTCAATCAATCTCGTAATTTTAT
96601174 ATTCTCAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.36, C:0.16, G:0.04, T:0.44
Consensus pattern (36 bp):
ATTCTAAACATTTCAATCAATCTCGTAATTTTATGA
Found at i:96601192 original size:36 final size:35
Alignment explanation
Indices: 96601104--96601192 Score: 108
Period size: 36 Copynumber: 2.5 Consensus size: 35
96601094 TATTATTTGG
*
96601104 ATTCTAAACATTTCAATCAATCTCGTAATTTTATGA
1 ATTCTAAACATGTCAATCAATCTCGTAATTTTAT-A
* *
96601140 ATTCTAAACATTTCAATTAATCTCGTAATTTTAT-
1 ATTCTAAACATGTCAATCAATCTCGTAATTTTATA
*
96601174 ATTCTCAAATAGTGTCAAT
1 ATTCT-AAACA-TGTCAAT
96601193 ATGATATAAC
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
34 5 0.10
35 4 0.08
36 39 0.81
ACGTcount: A:0.36, C:0.16, G:0.06, T:0.43
Consensus pattern (35 bp):
ATTCTAAACATGTCAATCAATCTCGTAATTTTATA
Found at i:96601601 original size:37 final size:39
Alignment explanation
Indices: 96601528--96601601 Score: 91
Period size: 37 Copynumber: 1.9 Consensus size: 39
96601518 TTATTAATAT
*
96601528 ATAATTTGTAATAGAAAGTAAGAACTGAAATAATTTATC
1 ATAATTTGTAATAGAAAGTAAGAACTGAAAAAATTTATC
* *
96601567 ATAATTT-T-ATAGAAATTAAG-ATTGAAAAATATTTA
1 ATAATTTGTAATAGAAAGTAAGAACTGAAAAA-ATTTA
96601602 AGGAACTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
36 7 0.23
37 16 0.52
38 1 0.03
39 7 0.23
ACGTcount: A:0.50, C:0.03, G:0.11, T:0.36
Consensus pattern (39 bp):
ATAATTTGTAATAGAAAGTAAGAACTGAAAAAATTTATC
Found at i:96606359 original size:33 final size:32
Alignment explanation
Indices: 96606310--96606404 Score: 145
Period size: 33 Copynumber: 2.9 Consensus size: 32
96606300 CATATGCTCG
*
96606310 TGTGGCCCACACGCCCAACTTAGCCTAGCCCA
1 TGTGGCCCACACGCCCAACTTGGCCTAGCCCA
* *
96606342 TGTGGCCCCACATGCCCAACTTGGCCTAGCCCG
1 TGTGG-CCCACACGCCCAACTTGGCCTAGCCCA
*
96606375 TGTGGCCCACACGTCCAACTTGGCCTAGCC
1 TGTGGCCCACACGCCCAACTTGGCCTAGCC
96606405 TGTGTAGCCT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
32 28 0.49
33 29 0.51
ACGTcount: A:0.18, C:0.42, G:0.22, T:0.18
Consensus pattern (32 bp):
TGTGGCCCACACGCCCAACTTGGCCTAGCCCA
Found at i:96606419 original size:32 final size:32
Alignment explanation
Indices: 96606308--96606428 Score: 125
Period size: 32 Copynumber: 3.7 Consensus size: 32
96606298 TCCATATGCT
* * *
96606308 CGTGTGGCCCACACGCCCAACTTAGCCTAGCC
1 CGTGTAGCCCACACGGCCAACTTGGCCTAGCC
* * * *
96606340 CATGTGGCCCCACATGCCCAACTTGGCCTAGCC
1 CGTGTAG-CCCACACGGCCAACTTGGCCTAGCC
* *
96606373 CGTGTGGCCCACACGTCCAACTTGGCCTAGCC
1 CGTGTAGCCCACACGGCCAACTTGGCCTAGCC
* *
96606405 TGTGTAGCCTACACGGCCACACTT
1 CGTGTAGCCCACACGGCCA-ACTT
96606429 AAGCCACCAC
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
32 44 0.57
33 33 0.43
ACGTcount: A:0.18, C:0.40, G:0.22, T:0.19
Consensus pattern (32 bp):
CGTGTAGCCCACACGGCCAACTTGGCCTAGCC
Found at i:96606986 original size:17 final size:17
Alignment explanation
Indices: 96606965--96607006 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
96606955 AAATCCAGTT
96606965 GAAAAGAAAAAGGGAAGA
1 GAAAAGAAAAA-GGAAGA
* *
96606983 -AAAAGACAGAGGAAGA
1 GAAAAGAAAAAGGAAGA
96606999 GAAAAGAA
1 GAAAAGAA
96607007 CGTCAGTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.67, C:0.02, G:0.31, T:0.00
Consensus pattern (17 bp):
GAAAAGAAAAAGGAAGA
Found at i:96609526 original size:66 final size:66
Alignment explanation
Indices: 96609438--96609563 Score: 173
Period size: 66 Copynumber: 1.9 Consensus size: 66
96609428 CGTTTTCTTT
* * *
96609438 GTGCCATAGTCCAATTATGGTCTTAT-ACGTGAATTGCCATGGCCCTGCCATGGTCTTACACTCA
1 GTGCCATAATCCAATTATGGTCTTATCACGTGAA-TGCCATAGCCCAGCCATGGTCTTACACTCA
96609502 TA
65 TA
* ** *
96609504 GTGCCATAATCCAGTTATGGTCTTATCATTTGAATGCCATAGCCCAGCTATGGTCTTACA
1 GTGCCATAATCCAATTATGGTCTTATCACGTGAATGCCATAGCCCAGCCATGGTCTTACA
96609564 TACAAATACT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
66 47 0.90
67 5 0.10
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.33
Consensus pattern (66 bp):
GTGCCATAATCCAATTATGGTCTTATCACGTGAATGCCATAGCCCAGCCATGGTCTTACACTCAT
A
Found at i:96618613 original size:137 final size:137
Alignment explanation
Indices: 96618375--96618650 Score: 498
Period size: 137 Copynumber: 2.0 Consensus size: 137
96618365 AGCCCATTCA
*
96618375 GGTAACAGTGGTACTGGGCTAGAGCCCTTTTCAGATTACAATAAACTAGGCCTTAGCCCCTTATT
1 GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTAGGCCTTAGCCCCTTATT
96618440 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAAC
66 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAAC
96618505 CCATTTG
131 CCATTTG
*
96618512 GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
1 GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTAGGCCTTAGCCCCTTATT
* * * *
96618577 TAGATAACAGTATGGCCCATTGGCCCATTTCAAAATACATGCAACATCAGTTAACATATGCAAGC
66 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAAC
96618642 CCATTTG
131 CCATTTG
96618649 GG
1 GG
96618651 GAGACTACTC
Statistics
Matches: 133, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 133 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (137 bp):
GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTAGGCCTTAGCCCCTTATT
CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAAC
CCATTTG
Found at i:96620515 original size:26 final size:26
Alignment explanation
Indices: 96620435--96620518 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
96620425 CATGAAATTT
96620435 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
96620461 TCATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
96620487 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
96620513 TTATCA
1 TTATCA
96620519 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:96622626 original size:22 final size:22
Alignment explanation
Indices: 96622572--96622649 Score: 77
Period size: 23 Copynumber: 3.4 Consensus size: 22
96622562 GTTTGATTTA
96622572 TTTAT-TTATTTATTTTAAACT
1 TTTATATTATTTATTTTAAACT
* * **
96622593 ATTATTATTATTCATTTTAAGTT
1 TTTA-TATTATTTATTTTAAACT
96622616 TTTATATTATTTATTTTAAATCAT
1 TTTATATTATTTATTTTAAA-C-T
96622640 TTTATCATTA
1 TTTAT-ATTA
96622650 CTCTTTTTTA
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
21 3 0.07
22 15 0.34
23 16 0.36
24 6 0.14
25 4 0.09
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.63
Consensus pattern (22 bp):
TTTATATTATTTATTTTAAACT
Found at i:96622807 original size:26 final size:24
Alignment explanation
Indices: 96622743--96622936 Score: 85
Period size: 26 Copynumber: 7.8 Consensus size: 24
96622733 ACTTATTCTG
* *
96622743 AAATTATTTATATATCTTTTTATTTT
1 AAATT-TTT-TATATATTATTATTTT
* *
96622769 AAACTATTATATATATTATTCATTTT
1 AAA-TTTTTTATATATTATT-ATTTT
* *
96622795 AAATTTCTTTATATAGTATTAATTTC
1 AAATTT-TTTATATATTATT-ATTTT
* *
96622821 AAACTGTTTTA-ATACATATTATTTT
1 AAA-TTTTTTATATA-TTATTATTTT
*
96622846 GAATTATTTTATATATTAATTATTTT
1 AAATT-TTTTATATATT-ATTATTTT
* ** *
96622872 ACATTACTT-TAT-TTATTTAATTT
1 AAATTTTTTATATATTA-TTATTTT
* *
96622895 AAACTCTTTTCATATAATATT-TTTT
1 AAA-T-TTTTTATATATTATTATTTT
96622920 -AATTATTTTAT-TATTAT
1 AAATT-TTTTATATATTAT
96622937 AAATTTATAT
Statistics
Matches: 126, Mismatches: 28, Indels: 32
0.68 0.15 0.17
Matches are distributed among these distances:
22 7 0.06
23 16 0.13
24 7 0.06
25 33 0.26
26 58 0.46
27 5 0.04
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (24 bp):
AAATTTTTTATATATTATTATTTT
Found at i:96622843 original size:77 final size:75
Alignment explanation
Indices: 96622762--96622921 Score: 184
Period size: 77 Copynumber: 2.1 Consensus size: 75
96622752 ATATATCTTT
*
96622762 TTATTTTAAACTATTATATATATT-ATTCATTTTAAATTTCTTTATATAGTATTAATTTCAAACT
1 TTATTTTAAACTATTATATATATTAATT-ATTTTAAATTACTTTATATA-T-TTAATTT-AAACT
*
96622826 GTTTT-A-ATACATA
62 CTTTTCATATA-ATA
* * * * *
96622839 TTATTTTGAATTATTTTATATATTAATTATTTTACATTACTTTATTTATTTAATTTAAACTCTTT
1 TTATTTTAAACTATTATATATATTAATTATTTTAAATTACTTTATATATTTAATTTAAACTCTTT
96622904 TCATATAATA
66 TCATATAATA
96622914 TT-TTTTAA
1 TTATTTTAA
96622922 TTATTTTATT
Statistics
Matches: 72, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
74 14 0.19
75 13 0.18
76 4 0.06
77 38 0.53
78 3 0.04
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (75 bp):
TTATTTTAAACTATTATATATATTAATTATTTTAAATTACTTTATATATTTAATTTAAACTCTTT
TCATATAATA
Found at i:96623024 original size:28 final size:27
Alignment explanation
Indices: 96622940--96623129 Score: 79
Period size: 28 Copynumber: 6.7 Consensus size: 27
96622930 TTATTATAAA
* *
96622940 TTTATATACTATTTATTCTTAAACTT-CTT
1 TTTATATATTATTTA-T-TTAAA-TTATTT
**
96622969 TTTATATGGATTATTTATTTTCA--ATTT
1 TTTATAT--ATTATTTATTTAAATTATTT
*
96622996 TTTATATATTGTTTATCTTAAATTA--T
1 TTTATATATTATTTAT-TTAAATTATTT
* *
96623022 TTTATACATTATTTATTCTATATT-TTT
1 TTTATATATTATTTATT-TAAATTATTT
*
96623049 TTATATATATTATTTATATTAAACTGTTTTT
1 TT-TATATATTATTTAT-TTAAA-T-TATTT
96623080 ATTTCATGTATATTATTTATTTTAAATT-TCTT
1 -TTT-A--TATATTATTTA-TTTAAATTAT-TT
* * *
96623112 TTTACACATTATATATTT
1 TTTATATATTATTTATTT
96623130 TAGACTTTCT
Statistics
Matches: 126, Mismatches: 15, Indels: 42
0.69 0.08 0.23
Matches are distributed among these distances:
25 9 0.07
26 23 0.18
27 15 0.12
28 25 0.20
29 12 0.10
30 3 0.02
31 15 0.12
32 6 0.05
33 1 0.01
34 16 0.13
35 1 0.01
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.62
Consensus pattern (27 bp):
TTTATATATTATTTATTTAAATTATTT
Found at i:96623036 original size:26 final size:25
Alignment explanation
Indices: 96622978--96623081 Score: 82
Period size: 28 Copynumber: 3.9 Consensus size: 25
96622968 TTTTATATGG
* * *
96622978 ATTATTTATTTTCAATTTTTTATAT
1 ATTATTTATCTTAAATTTTTTATAC
*
96623003 ATTGTTTATCTTAAATTATTTTATAC
1 ATTATTTATCTTAAATT-TTTTATAC
** *
96623029 ATTATTTATTCTATATTTTTTTATATAT
1 ATTATTTA-TCT-TAAATTTTT-TATAC
*
96623057 ATTATTTATATTAAACTGTTTTTAT
1 ATTATTTATCTTAAA-T-TTTTTAT
96623082 TTCATGTATA
Statistics
Matches: 62, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
25 14 0.23
26 16 0.26
27 12 0.19
28 20 0.32
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (25 bp):
ATTATTTATCTTAAATTTTTTATAC
Found at i:96628402 original size:23 final size:23
Alignment explanation
Indices: 96628371--96628414 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
96628361 ATTCTGTACA
*
96628371 TGGGTTAGGATTATTGGGTTATT
1 TGGGCTAGGATTATTGGGTTATT
*
96628394 TGGGCTAGGTTTATTGGGTTA
1 TGGGCTAGGATTATTGGGTTA
96628415 AGGATTTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.16, C:0.02, G:0.36, T:0.45
Consensus pattern (23 bp):
TGGGCTAGGATTATTGGGTTATT
Found at i:96628935 original size:25 final size:25
Alignment explanation
Indices: 96628901--96628951 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 25
96628891 AAGTTATAAC
96628901 CATTTTTTATAATAAT-TAAATTAAG
1 CATTTTTTATAAT-ATGTAAATTAAG
96628926 CATTTTTTATAATATGTAAATTAAG
1 CATTTTTTATAATATGTAAATTAAG
96628951 C
1 C
96628952 CAAAAACAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 2 0.08
25 23 0.92
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (25 bp):
CATTTTTTATAATATGTAAATTAAG
Found at i:96631405 original size:3 final size:3
Alignment explanation
Indices: 96631399--96631612 Score: 130
Period size: 3 Copynumber: 70.7 Consensus size: 3
96631389 AATGAGAACG
* * *
96631399 ATA ATA ATA ATA ATA TTA ATA ATA ATA ATA GTA AAA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
** * * * * * * *
96631447 CCA ATG ATA GTA ATA ATA AGA ATA TTA ATA TTA GTA ATA ATA ATG ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
96631495 ATA GTA ATA GAAA ATA AAA ATA AAA ATA AT- ATA GTG ATA GTA ATA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
96631540 A-A AGTA A-A AGTA ATA GTA ATA ATA ATG GTA ATA ATAA ATA GTA ATA
1 ATA A-TA ATA A-TA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
*
96631586 ATA ACA ATA ATA CA-A ATA ATAA ATA AT
1 ATA ATA ATA ATA -ATA ATA AT-A ATA AT
96631613 CTAAAGTTGG
Statistics
Matches: 154, Mismatches: 47, Indels: 20
0.70 0.21 0.09
Matches are distributed among these distances:
2 7 0.05
3 134 0.87
4 13 0.08
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:96631496 original size:12 final size:12
Alignment explanation
Indices: 96631371--96631589 Score: 65
Period size: 12 Copynumber: 17.7 Consensus size: 12
96631361 AACATGACAA
*
96631371 AATAAAAATGA-
1 AATAATAATGAT
*
96631382 AGATAATAATGAG
1 A-ATAATAATGAT
** *
96631395 AACGATAATAAT
1 AATAATAATGAT
* *
96631407 AATAATATTAAT
1 AATAATAATGAT
96631419 AATAATAAT-AGT
1 AATAATAATGA-T
* *
96631431 AAAAATAATAAT
1 AATAATAATGAT
**
96631443 AATACCAATGAT
1 AATAATAATGAT
*
96631455 AGTAATAATAAGAAT
1 AATAATAAT--G-AT
* *
96631470 ATTAAT-ATTAGT
1 AATAATAATGA-T
96631482 AATAATAATGAT
1 AATAATAATGAT
* *
96631494 AATAGTAATAGAA
1 AATAATAAT-GAT
* * *
96631507 AATAAAAATAAA
1 AATAATAATGAT
96631519 AATAATATAGTGAT
1 AATAATA-A-TGAT
* *
96631533 AGTAATAA-AAGT
1 AATAATAATGA-T
96631545 AA-AAGTAAT-AGT
1 AATAA-TAATGA-T
*
96631557 AATAATAATGGT
1 AATAATAATGAT
96631569 AATAATAAAT-AGT
1 AATAAT-AATGA-T
96631582 AATAATAA
1 AATAATAA
96631590 CAATAATACA
Statistics
Matches: 155, Mismatches: 34, Indels: 37
0.69 0.15 0.16
Matches are distributed among these distances:
11 6 0.04
12 103 0.66
13 28 0.18
14 11 0.07
15 7 0.05
ACGTcount: A:0.60, C:0.01, G:0.10, T:0.29
Consensus pattern (12 bp):
AATAATAATGAT
Found at i:96631535 original size:78 final size:78
Alignment explanation
Indices: 96631400--96631595 Score: 204
Period size: 78 Copynumber: 2.5 Consensus size: 78
96631390 ATGAGAACGA
* * * * * * *
96631400 TAATAATAATAATATTAAT-AATAATAATAGTAAAAATAATAATAATACCAATGATAGTAATAAT
1 TAATAATAATGATAATAATAAATAGTAATAATAAAAATAAAAATAATA-TAGTGATAGTAATAA-
*
96631464 AAG-AATATTAATATTAG
64 AAGTAA-A--AATAATAG
*
96631481 TAATAATAATGATAATAGT-AATAG-AA-AATAAAAATAAAAATAATATAGTGATAGTAATAAAA
1 TAATAATAATGATAATAATAAATAGTAATAATAAAAATAAAAATAATATAGTGATAGTAATAAAA
*
96631543 GTAAAAGTAATAG
66 GTAAAAATAATAG
* *
96631556 TAATAATAATGGTAATAATAAATAGTAATAATAACAATAA
1 TAATAATAATGATAATAATAAATAGTAATAATAAAAATAA
96631596 TACAAATAAT
Statistics
Matches: 98, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
75 23 0.23
76 5 0.05
77 6 0.06
78 25 0.26
79 17 0.17
80 2 0.02
81 20 0.20
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.30
Consensus pattern (78 bp):
TAATAATAATGATAATAATAAATAGTAATAATAAAAATAAAAATAATATAGTGATAGTAATAAAA
GTAAAAATAATAG
Found at i:96631772 original size:3 final size:3
Alignment explanation
Indices: 96631764--96632106 Score: 130
Period size: 3 Copynumber: 114.0 Consensus size: 3
96631754 TAAATACAAA
*
96631764 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT ATT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
** * * * ** * * *
96631812 GGT AA- AAA AAT AGT AAC AAT AAT TTT AA- AAA AAT GAT AAT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
96631858 AA- AAT AA- GAT TAT AAT AAT AAT ATT AAT AAA AAT AAG AAT AAA AAG
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
96631904 GAT AGT AAT AAT AGT AAT AAT AAT AGT AAT AGT AA- AAT GAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
** * ** ** * *
96631949 AAT AGC AAT AAT AAG AGC GTT AAT GAT AGT AAT AAT -AT AAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
* * * *
96631994 AAT -AT ATAT GTAT GAAA AAT AAT AAT AGT AAA AAT AAT AAT AAT AAT
1 AAT AAT A-AT -AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
96632041 AAT AGA- AGT AGT ACT AAT TAT AATT AAT AGT AAT AAGT AAT GACAG
1 AAT A-AT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AA-T AAT -A-AT
*
96632087 AA- AAT AAT AAT AAA AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT
96632107 TAATTTGAAA
Statistics
Matches: 244, Mismatches: 76, Indels: 40
0.68 0.21 0.11
Matches are distributed among these distances:
2 17 0.07
3 204 0.84
4 22 0.09
5 1 0.00
ACGTcount: A:0.60, C:0.01, G:0.09, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:96633605 original size:45 final size:43
Alignment explanation
Indices: 96633530--96633655 Score: 110
Period size: 44 Copynumber: 2.9 Consensus size: 43
96633520 TATAGTTTCA
* * * * * *
96633530 ATCTGTTCCACTGCAACG-TCATGGAAATAAGATTTGCTATCTTT
1 ATCTGCTCCACTGCAA-GTTCAAGGAGATAAGACTTG-TAACTTC
*
96633574 AGTCTGCTCCACTGCAAGTTCAGGGAGATAAGACTTGTAACTTC
1 A-TCTGCTCCACTGCAAGTTCAAGGAGATAAGACTTGTAACTTC
* * * *
96633618 AACTTGCTCCATTGCAACTTCAAGGAGATAAGGCTTGT
1 ATC-TGCTCCACTGCAAGTTCAAGGAGATAAGACTTGT
96633656 GGCTTCAATC
Statistics
Matches: 68, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
43 1 0.01
44 38 0.56
45 29 0.43
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (43 bp):
ATCTGCTCCACTGCAAGTTCAAGGAGATAAGACTTGTAACTTC
Found at i:96633791 original size:88 final size:88
Alignment explanation
Indices: 96633624--96633910 Score: 362
Period size: 88 Copynumber: 3.3 Consensus size: 88
96633614 CTTCAACTTG
* * * ** * * * *
96633624 CTCCATTGCAACTTCAAGGAGATAAGGCTTGTGGCTTCAATCGCTCT--AATGCCATTGCAGGGA
1 CTCCACTGAAACTTCAAGGAGATACGAATTGTGGCTTCGAGC-CTCTCCAGTGCCATTTCAGGGA
*
96633687 GAAGAGATTTGTAGCTTTGATCTA
65 GAAGAGATTTGTAGCTTCGATCTA
* *
96633711 CTCTACTGAGACTTCAAGGAGATACGAATTGTGGCTTCGAGCCTCTCCAGTGCCATTTCAGGGAG
1 CTCCACTGAAACTTCAAGGAGATACGAATTGTGGCTTCGAGCCTCTCCAGTGCCATTTCAGGGAG
* * *
96633776 AAGATATTTCTAGCTTCAATCTA
66 AAGAGATTTGTAGCTTCGATCTA
* **
96633799 CTCCGCTGAAACTTCAAGGTTATACGAATTGTGGCTTCGAGCCTCTCCAGTGCCATTTCAGGGAG
1 CTCCACTGAAACTTCAAGGAGATACGAATTGTGGCTTCGAGCCTCTCCAGTGCCATTTCAGGGAG
96633864 AAGAGATTTGTAGCTTCGATCTA
66 AAGAGATTTGTAGCTTCGATCTA
* * *
96633887 CTCCATTGGAACTTCAAAGAGATA
1 CTCCACTGAAACTTCAAGGAGATA
96633911 GGGTTTGTTT
Statistics
Matches: 169, Mismatches: 29, Indels: 3
0.84 0.14 0.01
Matches are distributed among these distances:
86 4 0.02
87 33 0.20
88 132 0.78
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (88 bp):
CTCCACTGAAACTTCAAGGAGATACGAATTGTGGCTTCGAGCCTCTCCAGTGCCATTTCAGGGAG
AAGAGATTTGTAGCTTCGATCTA
Found at i:96633792 original size:44 final size:43
Alignment explanation
Indices: 96633673--96633882 Score: 115
Period size: 44 Copynumber: 4.8 Consensus size: 43
96633663 ATCGCTCTAA
* * * * *
96633673 TGCCATTGCAGGGAGAAGAGATTTGTAGCTTTGA-TCTACTCTAC
1 TGCCATTTCAGGGAGAAGA-ATTTGTAGCTTCGAGCCT-CTCCAG
** * * *
96633717 TGAGACTTCAAGGAGATACGAA-TTGTGGCTTCGAGCCTCTCCAG
1 TGCCATTTCAGGGAGA-A-GAATTTGTAGCTTCGAGCCTCTCCAG
* **
96633761 TGCCATTTCAGGGAGAAGATATTTCTAGCTTC-AATCTACTCC-G
1 TGCCATTTCAGGGAGAAGA-ATTTGTAGCTTCGAGCCT-CTCCAG
** * * * * *
96633804 CTGAAACTTCAAGGTTATACGAA-TTGTGGCTTCGAGCCTCTCCAG
1 -TGCCATTTC-AGG-GAGAAGAATTTGTAGCTTCGAGCCTCTCCAG
96633849 TGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGA
1 TGCCATTTCAGGGAGAAGA-ATTTGTAGCTTCGA
96633883 TCTACTCCAT
Statistics
Matches: 118, Mismatches: 35, Indels: 26
0.66 0.20 0.15
Matches are distributed among these distances:
42 6 0.05
43 10 0.08
44 84 0.71
45 12 0.10
46 6 0.05
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (43 bp):
TGCCATTTCAGGGAGAAGAATTTGTAGCTTCGAGCCTCTCCAG
Found at i:96634159 original size:45 final size:44
Alignment explanation
Indices: 96634110--96634213 Score: 118
Period size: 45 Copynumber: 2.3 Consensus size: 44
96634100 TTCAATTTGT
* * * * * *
96634110 TCCACTGCAACTTTAGGGAAATAAGATTTGCTATCTTCAGTCTGC
1 TCCACTGCAACTTCAGAGAAATAAGACTTG-TAACTTCAATCTAC
*
96634155 TCCACTGCAACTTCAGAGAGATAAGACTTGTAACTTCAATCTAC
1 TCCACTGCAACTTCAGAGAAATAAGACTTGTAACTTCAATCTAC
* *
96634199 TCCGCTGAAACTTCA
1 TCCACTGCAACTTCA
96634214 AGGAGATTTA
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 24 0.48
45 26 0.52
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (44 bp):
TCCACTGCAACTTCAGAGAAATAAGACTTGTAACTTCAATCTAC
Found at i:96634288 original size:47 final size:47
Alignment explanation
Indices: 96634224--96634320 Score: 160
Period size: 47 Copynumber: 2.1 Consensus size: 47
96634214 AGGAGATTTA
96634224 CTGTGGCTTCGAACCGCTCCAA-TGCCATTTCAGGGAGAAGAGATCTG
1 CTGTGGCTTCGAACCGCTCCAACT-CCATTTCAGGGAGAAGAGATCTG
* *
96634271 CTGTGGCTTCTAGCCGCTCCAACTCCATTTCAGGGAGAAGAGATCTG
1 CTGTGGCTTCGAACCGCTCCAACTCCATTTCAGGGAGAAGAGATCTG
96634318 CTG
1 CTG
96634321 AAACTTCAAG
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
47 46 0.98
48 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.25
Consensus pattern (47 bp):
CTGTGGCTTCGAACCGCTCCAACTCCATTTCAGGGAGAAGAGATCTG
Found at i:96634372 original size:68 final size:68
Alignment explanation
Indices: 96634263--96634518 Score: 368
Period size: 68 Copynumber: 3.8 Consensus size: 68
96634253 TCAGGGAGAA
*
96634263 GAGATCTGCTGTGGCTTCTAGCCGCTCCAACTCCATTTCAGGGAGAAGAGATCTGCTGAAACTTC
1 GAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGATCTGCTGAAACTTC
96634328 AAG
66 AAG
* * * * *
96634331 GAGATCTGCTGTGGCTTCGAGCCGCTCCAACACCATTTCAGGGAGAAAAGATCCGCTGAAAATTC
1 GAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGATCTGCTGAAACTTC
96634396 AAG
66 AAG
* * * * * *
96634399 GAGATCTGTTGTGGCTTCTAGCCGTTCCAAGGCTATTTCAGAGAGAAGAGATCTGTTGAAACTTC
1 GAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGATCTGCTGAAACTTC
*
96634464 AAA
66 AAG
* * *
96634467 GAGATCTGCTGTGGCTTCTAGCCACTCCAACGCCATTTTATGGAGAAGAGAT
1 GAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGAT
96634519 TTGTAATTCC
Statistics
Matches: 163, Mismatches: 25, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
68 163 1.00
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (68 bp):
GAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGATCTGCTGAAACTTC
AAG
Found at i:96634639 original size:86 final size:86
Alignment explanation
Indices: 96634531--96634953 Score: 560
Period size: 86 Copynumber: 4.9 Consensus size: 86
96634521 GTAATTCCCA
* * * * * * *
96634531 GCCTATTACCCTATTGCTTAGGGGGTTAAGGCTTACCATATTTGATCTGCTCCACTATTGCTTAG
1 GCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCACTACTGCTTAG
96634596 GGAGACAAGATCTGTAATTCG
66 GGAGACAAGATCTGTAATTCG
* * * *
96634617 GCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTTGATCTGCTCTACAACTACTTAG
1 GCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCACTACTGCTTAG
96634682 GGAGACAAGATCTGTAATTCG
66 GGAGACAAGATCTGTAATTCG
* * * * *
96634703 ACCTGTTACCCTACTGCTTAGAGGGTTAAGGCTCACTGTCTTCGATCTGCTTCACTACTACTTAG
1 GCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCACTACTGCTTAG
* *
96634768 GGAGATAAGATCTATAATTCG
66 GGAGACAAGATCTGTAATTCG
* * *
96634789 GCCTGTTACCCTACTGTTTAGGGGGTCAAGGCTCACCATCTTCGATCTGCTCCACTACTGCTTAG
1 GCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCACTACTGCTTAG
96634854 GGAGACAAGATCTGTAATTCG
66 GGAGACAAGATCTGTAATTCG
* * * * * * * *
96634875 GCTTGTTTCCCTACT-TTTAAAGGGGTTAAAGCTCACCGTATTCGGTCTGCTCCACTATTGCTTA
1 GCCTGTTACCCTACTGCTT-AGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCACTACTGCTTA
*
96634939 GGGAGTCAAGATCTG
65 GGGAGACAAGATCTG
96634954 CGAATTCACC
Statistics
Matches: 298, Mismatches: 38, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
85 3 0.01
86 295 0.99
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (86 bp):
GCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCACTACTGCTTAG
GGAGACAAGATCTGTAATTCG
Found at i:96641578 original size:19 final size:20
Alignment explanation
Indices: 96641554--96641599 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
96641544 GCAAATACAT
96641554 AAAAATATAAAACATGA-AA
1 AAAAATATAAAACATGATAA
96641573 AAAAATATAAAACATGATAA
1 AAAAATATAAAACATGATAA
*
96641593 AATAATA
1 AAAAATA
96641600 ATAATAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.72, C:0.04, G:0.04, T:0.20
Consensus pattern (20 bp):
AAAAATATAAAACATGATAA
Found at i:96642336 original size:3 final size:3
Alignment explanation
Indices: 96641589--96642281 Score: 210
Period size: 3 Copynumber: 230.0 Consensus size: 3
96641579 ATAAAACATG
96641589 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
96641636 ATA ATA ATA ATA GTA ATA ATA AGA ATA TTA ATA TTA GTA ATA ATA TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * *
96641684 ATG ATA ATT GTA ATA GAAA ATA AAA ATA AAA ATA AT- ATA GTG ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
96641729 GTA ATA A-A AGTA A-A AGTA ATA GTA ATA ATA ATG GTA ATA ATAA ATA
1 ATA ATA ATA A-TA ATA A-TA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
* * * * * **
96641775 GTA ATA ATA ACA ATA ATA CA-A ATA ATAA ATA AT- CTA A-A GTT GGA
1 ATA ATA ATA ATA ATA ATA -ATA ATA AT-A ATA ATA ATA ATA ATA ATA
* * * * * *
96641819 ATT AT- TTA CA-A AGA TATAA ATA A-A ATAA ATG ATG A-A ATT ATA ATA
1 ATA ATA ATA -ATA ATA -AT-A ATA ATA AT-A ATA ATA ATA ATA ATA ATA
* * * * * * *
96641864 ATA AGA GTA ATG ATA TATA A-A CAAA ATA AGT- GTG CTAA ATA TATA
1 ATA ATA ATA ATA ATA -ATA ATA -ATA ATA A-TA ATA AT-A ATA -ATA
* * * * * *
96641909 TATA TATA TATA TATT TTA A-A TTA GTTG AT- ATA AAA ATA ATA ACGT-
1 -ATA -ATA -ATA -ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA A--TA
96641955 ATA AGTAA ATA CA-A A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA A-T-A ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
96642001 ATA ATA ATA ATA ATA ATA GTA ATA AT- ACA ATA GTA ATA ATA ATA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * * *
96642048 AAA ATA GTA ATA ATA AT- TTA TTAA ATG GTA AAA AAA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA
* * * * * * * *
96642093 ACA ATA ATT TTA A-A AAA ATG ATA ATA GTA ATA A-A ATA A-G ATT ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * ** * *
96642138 ATA ATA ATA TTA ATA AAA ATA AGA ATA AAA AGG ATA GTA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * ** *
96642186 ATA ATA ATA GTA ATA GTA A-A AGGA ATA ATA ATA GCA ATA ATA AGA
1 ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA
*** * **
96642231 GCG TTA ACG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
96642279 ATA
1 ATA
96642282 GAAGTAGTAC
Statistics
Matches: 498, Mismatches: 146, Indels: 92
0.68 0.20 0.12
Matches are distributed among these distances:
2 34 0.07
3 407 0.82
4 53 0.11
5 4 0.01
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:96653176 original size:30 final size:30
Alignment explanation
Indices: 96653142--96653206 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
96653132 ACTTATTTTA
96653142 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
96653172 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
96653202 TTGTT
1 TTGTT
96653207 TGTTAAGTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.26, C:0.03, G:0.12, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:96655273 original size:2 final size:2
Alignment explanation
Indices: 96655266--96655304 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
96655256 GAATTATAAG
96655266 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
96655305 ATCATTCAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:96669409 original size:19 final size:20
Alignment explanation
Indices: 96669368--96669409 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
96669358 GATAGAACGA
96669368 TTTTTATGAAAACAACTATT
1 TTTTTATGAAAACAACTATT
* *
96669388 TTTTTCTGAAATCAACTATT
1 TTTTTATGAAAACAACTATT
96669408 TT
1 TT
96669410 CTAGAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.12, G:0.05, T:0.50
Consensus pattern (20 bp):
TTTTTATGAAAACAACTATT
Done.