Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 283 of 325
Found at i:92553339 original size:26 final size:27
Alignment explanation
Indices: 92553199--92553615 Score: 475
Period size: 27 Copynumber: 15.7 Consensus size: 27
92553189 TTACACTACA
92553199 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
92553226 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
92553253 AGGGTGTTTCGATAATTTCATAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
92553280 AGGGTATTT-TAGTAATTTTACAAATCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
*
92553307 AGAGTATTTCGATAATTTTAC-AATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
92553333 AGGGTATTT-TAGTAA-TTTACAAATTG
1 AGGGTATTTCGA-TAATTTTACAAATCG
* * *
92553359 AGGGTATTTCAATAATTTCAC-AATTG
1 AGGGTATTTCGATAATTTTACAAATCG
92553385 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
92553412 AGGGTATTTC-AGTAATTTCAC-AATTG
1 AGGGTATTTCGA-TAATTTTACAAATCG
*
92553438 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
92553465 AGGGTATTTTGATAATTTCAC-AATCG
1 AGGGTATTTCGATAATTTTACAAATCG
92553491 AAGGGTATTTCGATAATTTTACAAATCG
1 -AGGGTATTTCGATAATTTTACAAATCG
* * * *
92553519 AGGGTATTT-TAGTAACTTCAC-AATTG
1 AGGGTATTTCGA-TAATTTTACAAATCG
*
92553545 AGGGTATTTCCG-TAACTTTACAAATCG
1 AGGGTATTT-CGATAATTTTACAAATCG
92553572 -GGGTATTTC-AGTAATTTTACAAATCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
92553598 AGGGTATTTC-AGTAATTT
1 AGGGTATTTCGA-TAATTT
92553616 CTCTTTATTA
Statistics
Matches: 334, Mismatches: 37, Indels: 38
0.82 0.09 0.09
Matches are distributed among these distances:
25 7 0.02
26 129 0.39
27 192 0.57
28 6 0.02
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:92553428 original size:53 final size:54
Alignment explanation
Indices: 92553199--92553615 Score: 502
Period size: 53 Copynumber: 7.8 Consensus size: 54
92553189 TTACACTACA
* *
92553199 AGGGTATTTC-GATAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCAGATAATTTCAC-AATCGAGGGTATTTCGATAATTTTACAAATCG
* * *
92553253 AGGGTGTTTC-GATAATTTCATAAATCGAGGGTATTT-TAGTAATTTTACAAATCG
1 AGGGTATTTCAGATAATTTCA-CAATCGAGGGTATTTCGA-TAATTTTACAAATCG
* * * *
92553307 AGAGTATTTC-GATAATTTTACAATCGAGGGTATTT-TAGTAA-TTTACAAATTG
1 AGGGTATTTCAGATAATTTCACAATCGAGGGTATTTCGA-TAATTTTACAAATCG
*
92553359 AGGGTATTTCA-ATAATTTCACAATTGAGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCAGATAATTTCACAATCGAGGGTATTTCGATAATTTTACAAATCG
* *
92553412 AGGGTATTTCAG-TAATTTCACAATTGAGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCAGATAATTTCACAATCGAGGGTATTTCGATAATTTTACAAATCG
*
92553465 AGGGTATTT-TGATAATTTCACAATCGAAGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCAGATAATTTCACAATCG-AGGGTATTTCGATAATTTTACAAATCG
* * * *
92553519 AGGGTATTTTAG-TAACTTCACAATTGAGGGTATTTCCG-TAACTTTACAAATCG
1 AGGGTATTTCAGATAATTTCACAATCGAGGGTATTT-CGATAATTTTACAAATCG
*
92553572 -GGGTATTTCAG-TAATTTTACAAATCGAGGGTATTTC-AGTAATTT
1 AGGGTATTTCAGATAATTTCAC-AATCGAGGGTATTTCGA-TAATTT
92553616 CTCTTTATTA
Statistics
Matches: 322, Mismatches: 28, Indels: 27
0.85 0.07 0.07
Matches are distributed among these distances:
52 63 0.20
53 145 0.45
54 113 0.35
55 1 0.00
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (54 bp):
AGGGTATTTCAGATAATTTCACAATCGAGGGTATTTCGATAATTTTACAAATCG
Found at i:92566044 original size:25 final size:25
Alignment explanation
Indices: 92566014--92566142 Score: 63
Period size: 25 Copynumber: 5.2 Consensus size: 25
92566004 AATAACGAGT
92566014 AGCTCTTAAGAGCCATTAATCAGAA
1 AGCTCTTAAGAGCCATTAATCAGAA
* * *
92566039 AGCTCTAAATAGCC-TTATATCGGGAA
1 AGCTCTTAAGAGCCATTA-ATC-AGAA
* * *
92566065 A--T-TCAAGCAAGCCA-T-ATCGGGA
1 AGCTCTTAAG--AGCCATTAATCAGAA
**
92566087 AGCTCTGGAGAGCCATTAATCAGAA
1 AGCTCTTAAGAGCCATTAATCAGAA
* * * *
92566112 AGCTCATAATGAGCCTTTAGTCAGGA
1 AGCTCTTAA-GAGCCATTAATCAGAA
92566138 AGCTC
1 AGCTC
92566143 ACGAAGAGCC
Statistics
Matches: 77, Mismatches: 16, Indels: 21
0.68 0.14 0.18
Matches are distributed among these distances:
22 4 0.05
23 11 0.14
24 6 0.08
25 34 0.44
26 22 0.29
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (25 bp):
AGCTCTTAAGAGCCATTAATCAGAA
Found at i:92566151 original size:26 final size:25
Alignment explanation
Indices: 92566086--92566154 Score: 66
Period size: 26 Copynumber: 2.7 Consensus size: 25
92566076 CCATATCGGG
* *
92566086 AAGCTCTGGAGAGCCATTAATCAGA
1 AAGCTCAGAAGAGCCATTAATCAGA
* * * *
92566111 AAGCTCATAATGAGCCTTTAGTCAGG
1 AAGCTCAGAA-GAGCCATTAATCAGA
92566137 AAGCTCACGAAGAGCCAT
1 AAGCTCA-GAAGAGCCAT
92566155 ATATTGGGAC
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
25 7 0.21
26 25 0.74
27 2 0.06
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (25 bp):
AAGCTCAGAAGAGCCATTAATCAGA
Found at i:92566308 original size:25 final size:25
Alignment explanation
Indices: 92566258--92566322 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 25
92566248 TACAAGAACC
*
92566258 ATATAACGGGAAGCTCGAGAGGGCT
1 ATATAACGGGAAGCTCGAGAGAGCT
* *
92566283 ATATATCGGGATGCTC-ATGAGAGCT
1 ATATAACGGGAAGCTCGA-GAGAGCT
* *
92566308 A-ATAACAGGACGCTC
1 ATATAACGGGAAGCTC
92566323 TTTCGAGCTG
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
24 12 0.36
25 21 0.64
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.20
Consensus pattern (25 bp):
ATATAACGGGAAGCTCGAGAGAGCT
Found at i:92575027 original size:40 final size:40
Alignment explanation
Indices: 92574965--92575202 Score: 160
Period size: 40 Copynumber: 5.7 Consensus size: 40
92574955 CGGATGATAA
* *
92574965 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAG-TGGCTA-ATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGAGCGAGCT-ACTATA-T
* *
92575005 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGCTACTATAT
* * *
92575045 CCGGGCTAAGTCCCGAAGGCATTTGTGCGGGCATTTGTGCGAGTTATTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGC--G-A-----GCTA-CTA-TAT
* ** * *
92575095 ACCGGGCTATGTCCCGAAGGCATTTGTCCGAGTTATTATA-
1 -CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGCTACTATAT
* * * * *
92575135 CCGGGCTAAGTCCCGAAGGAATTTGTGCAAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGCTACTATAT
*
92575175 CCGGGCTAAGTCCCAAAGGCATTTGAGC
1 CCGGGCTAAGTCCCGAAGGCATTTGAGC
92575203 TAGTGGCTAT
Statistics
Matches: 164, Mismatches: 19, Indels: 30
0.77 0.09 0.14
Matches are distributed among these distances:
39 34 0.21
40 81 0.49
41 6 0.04
42 4 0.02
43 3 0.02
48 4 0.02
49 3 0.02
50 3 0.02
51 26 0.16
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGCTACTATAT
Found at i:92575102 original size:51 final size:52
Alignment explanation
Indices: 92575022--92575121 Score: 157
Period size: 51 Copynumber: 1.9 Consensus size: 52
92575012 AAGTCCCGAA
92575022 GGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCG
1 GGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCG
* * * *
92575074 GGCATTTGTGCGAGTTATTATA-CCGGGCTATGTCCCGAAGGCATTTGT
1 GGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
92575122 CCGAGTTATT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
51 25 0.57
52 19 0.43
ACGTcount: A:0.19, C:0.22, G:0.30, T:0.29
Consensus pattern (52 bp):
GGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCG
Found at i:92575128 original size:39 final size:39
Alignment explanation
Indices: 92575074--92575199 Score: 189
Period size: 39 Copynumber: 3.2 Consensus size: 39
92575064 CATTTGTGCG
*
92575074 GGCATTTGTGCGAGTTATTATACCGGGCTATGTCCCGAA
1 GGCATTTGTGCGAGTTATTATACCGGGCTAAGTCCCGAA
*
92575113 GGCATTTGTCCGAGTTATTATACCGGGCTAAGTCCCGAA
1 GGCATTTGTGCGAGTTATTATACCGGGCTAAGTCCCGAA
* * * *
92575152 GGAATTTGTGCAAGTTACTATAACCGGGCTAAGTCCCAAA
1 GGCATTTGTGCGAGTTATTAT-ACCGGGCTAAGTCCCGAA
92575192 GGCATTTG
1 GGCATTTG
92575200 AGCTAGTGGC
Statistics
Matches: 78, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 54 0.69
40 24 0.31
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.29
Consensus pattern (39 bp):
GGCATTTGTGCGAGTTATTATACCGGGCTAAGTCCCGAA
Found at i:92575213 original size:40 final size:40
Alignment explanation
Indices: 92575134--92575222 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 40
92575124 GAGTTATTAT
* * *
92575134 ACCGGGCTAAGTCCCGAAGGAATTTGTGCAAGTTACTATA
1 ACCGGGCTAAGTCCCAAAGGAATTTGAGCAAGTGACTATA
* * *
92575174 ACCGGGCTAAGTCCCAAAGGCATTTGAGCTAGTGGCTATA
1 ACCGGGCTAAGTCCCAAAGGAATTTGAGCAAGTGACTATA
*
92575214 TCC-GGCTAA
1 ACCGGGCTAA
92575223 ACTCCGAAGG
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 6 0.14
40 36 0.86
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (40 bp):
ACCGGGCTAAGTCCCAAAGGAATTTGAGCAAGTGACTATA
Found at i:92575221 original size:79 final size:78
Alignment explanation
Indices: 92575077--92575222 Score: 177
Period size: 79 Copynumber: 1.9 Consensus size: 78
92575067 TTGTGCGGGC
* * * * * * *
92575077 ATTTGTGCGAGTTATTATACCGGGCTATGTCCCGAAGGCATTTGTCCGAGTTATTATACCGGGCT
1 ATTTGTGCAAGTTACTATACCGGGCTAAGTCCCAAAGGCATTTGACCGAGTGACTATACCGGGCT
92575142 AAGTCCCGAAGGA
66 AAGTCCCGAAGGA
* * *
92575155 ATTTGTGCAAGTTACTATAACCGGGCTAAGTCCCAAAGGCATTTGAGCTAGTGGCTATATCC-GG
1 ATTTGTGCAAGTTACTAT-ACCGGGCTAAGTCCCAAAGGCATTTGACCGAGTGACTATA-CCGGG
92575219 CTAA
64 CTAA
92575223 ACTCCGAAGG
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
78 16 0.29
79 38 0.68
80 2 0.04
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (78 bp):
ATTTGTGCAAGTTACTATACCGGGCTAAGTCCCAAAGGCATTTGACCGAGTGACTATACCGGGCT
AAGTCCCGAAGGA
Found at i:92583187 original size:40 final size:40
Alignment explanation
Indices: 92583092--92583288 Score: 146
Period size: 40 Copynumber: 4.6 Consensus size: 40
92583082 CGGATGATAA
* * * *
92583092 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAG-TGGCTAATTT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGCT-ACT-ATAT
*
92583133 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
* * *
92583173 CCGGGCTAAGTCCCGAAGGCATTTGTGGGGGCATTTGTTCGAGTTATTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGT--GCG-A---G--CTA-CTA-TAT
* * * *
92583223 ACCGGGCTAAGTCCCGAAGGAATTTGTGCAAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
92583264 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
92583289 AGCTAGTGGC
Statistics
Matches: 126, Mismatches: 17, Indels: 27
0.74 0.10 0.16
Matches are distributed among these distances:
40 52 0.41
41 29 0.23
42 7 0.06
43 2 0.02
45 1 0.01
46 1 0.01
48 3 0.02
49 3 0.02
50 3 0.02
51 25 0.20
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
Found at i:92583233 original size:51 final size:52
Alignment explanation
Indices: 92583150--92583250 Score: 150
Period size: 51 Copynumber: 2.0 Consensus size: 52
92583140 AAGTCCCGAA
*
92583150 GGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGGG
1 GGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGAATTTGTGGG
* * * *
92583202 GGCATTTGTTCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGAATTTGTG
1 GGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGAATTTGTG
92583251 CAAGTTACTA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
51 26 0.59
52 18 0.41
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.29
Consensus pattern (52 bp):
GGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGAATTTGTGGG
Found at i:92583302 original size:40 final size:40
Alignment explanation
Indices: 92583223--92583308 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
92583213 GAGTTATTAT
* *
92583223 ACCGGGCTAAGTCCCGAAGGAATTTGTGCAAGTTACTATA
1 ACCGGGCTAAGTCCCGAAGGAATTTGAGCAAGTGACTATA
* * *
92583263 ACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATA
1 ACCGGGCTAAGTCCCGAAGGAATTTGAGCAAGTGACTATA
*
92583303 TCCGGG
1 ACCGGG
92583309 TAAACTCCGA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (40 bp):
ACCGGGCTAAGTCCCGAAGGAATTTGAGCAAGTGACTATA
Found at i:92583654 original size:18 final size:18
Alignment explanation
Indices: 92583610--92583646 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
92583600 TTCATGGCTC
92583610 AAACTTACTAAGCATTAA
1 AAACTTACTAAGCATTAA
92583628 AAACTTACTAAGCATTAA
1 AAACTTACTAAGCATTAA
92583646 A
1 A
92583647 TGCTTACTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.16, G:0.05, T:0.27
Consensus pattern (18 bp):
AAACTTACTAAGCATTAA
Found at i:92589390 original size:25 final size:25
Alignment explanation
Indices: 92589347--92589409 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 25
92589337 AAGCGATAAA
* * *
92589347 CGGTAAGCTCTTTTGAGCTAAATAT
1 CGGTAAGCTCATATAAGCTAAATAT
* *
92589372 CGGTAAGCTCATATAAGCTGAGTAT
1 CGGTAAGCTCATATAAGCTAAATAT
* *
92589397 CGATAAGGTCATA
1 CGGTAAGCTCATA
92589410 AGAGCTGGAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (25 bp):
CGGTAAGCTCATATAAGCTAAATAT
Found at i:92603329 original size:34 final size:34
Alignment explanation
Indices: 92603285--92603350 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
92603275 AGTGTCCATA
92603285 AATGTCCACTCACTATAAAAATGGTCTAATTACC
1 AATGTCCACTCACTATAAAAATGGTCTAATTACC
*
92603319 AATGTTCACTCACTATAAAAATGGTCTAATTA
1 AATGTCCACTCACTATAAAAATGGTCTAATTA
92603351 TCACATAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (34 bp):
AATGTCCACTCACTATAAAAATGGTCTAATTACC
Found at i:92603403 original size:17 final size:16
Alignment explanation
Indices: 92603381--92603412 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
92603371 TATGTTTCCA
92603381 TAGCTATTAGACACCTC
1 TAGCTATTAGA-ACCTC
92603398 TAGCTATTAGAACCT
1 TAGCTATTAGAACCT
92603413 TACTTTTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.31
Consensus pattern (16 bp):
TAGCTATTAGAACCTC
Found at i:92606907 original size:10 final size:10
Alignment explanation
Indices: 92606864--92606915 Score: 52
Period size: 10 Copynumber: 5.0 Consensus size: 10
92606854 ATTATAAACA
92606864 TGATTAATTT
1 TGATTAATTT
*
92606874 TAATTAATTT
1 TGATTAATTT
92606884 T-ATATCAAATTT
1 TGAT-T--AATTT
92606896 TGATTAATTT
1 TGATTAATTT
*
92606906 TGATTCATTT
1 TGATTAATTT
92606916 CAATAGATTC
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
9 2 0.06
10 25 0.69
12 7 0.19
13 2 0.06
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.58
Consensus pattern (10 bp):
TGATTAATTT
Found at i:92611187 original size:30 final size:30
Alignment explanation
Indices: 92611153--92611213 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
92611143 TCCTTAACTC
92611153 AAACTTTTGAAAAATTACAATTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
* * * *
92611183 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
92611213 A
1 A
92611214 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:92613395 original size:16 final size:16
Alignment explanation
Indices: 92613371--92613404 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
92613361 GAGTTTGTCA
92613371 AACCCTAGAGTTCGCC
1 AACCCTAGAGTTCGCC
* *
92613387 AACCTTAGAGTTCTCC
1 AACCCTAGAGTTCGCC
92613403 AA
1 AA
92613405 ATGACGAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.29, C:0.32, G:0.15, T:0.24
Consensus pattern (16 bp):
AACCCTAGAGTTCGCC
Found at i:92616875 original size:13 final size:13
Alignment explanation
Indices: 92616857--92616882 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
92616847 CACTCATAGA
92616857 ATCAAAAACTAAT
1 ATCAAAAACTAAT
92616870 ATCAAAAACTAAT
1 ATCAAAAACTAAT
92616883 GAATTCAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (13 bp):
ATCAAAAACTAAT
Found at i:92623728 original size:14 final size:16
Alignment explanation
Indices: 92623695--92623731 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
92623685 TTTTAATTAG
*
92623695 TATTATGAGATAAAAT
1 TATTATTAGATAAAAT
92623711 TATTATTAGA-AAAA-
1 TATTATTAGATAAAAT
92623725 TATTATT
1 TATTATT
92623732 GTATGTATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 4 0.20
16 9 0.45
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (16 bp):
TATTATTAGATAAAAT
Found at i:92625898 original size:11 final size:11
Alignment explanation
Indices: 92625872--92625920 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
92625862 ATTTTGATAT
*
92625872 ACATGATTTG-
1 ACATGATATGC
92625882 ACATGATATGC
1 ACATGATATGC
*
92625893 ACATGATATGT
1 ACATGATATGC
*
92625904 AC--GAAATGC
1 ACATGATATGC
92625913 ACATGATA
1 ACATGATA
92625921 AATTCATATA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
9 7 0.23
10 9 0.29
11 15 0.48
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (11 bp):
ACATGATATGC
Found at i:92626025 original size:24 final size:25
Alignment explanation
Indices: 92625968--92626025 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
92625958 GAGGAAGTGC
*
92625968 AAAAGGGCTTTGCCCCAGTTTATTG
1 AAAAGGGCTTTACCCCAGTTTATTG
92625993 AAAAGGGCTTTACCCCAG-TTATT-
1 AAAAGGGCTTTACCCCAGTTTATTG
92626016 AAAAGAGGCT
1 AAAAG-GGCT
92626026 AGGCCTCCAG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
23 5 0.16
24 9 0.29
25 17 0.55
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTTTACCCCAGTTTATTG
Found at i:92626270 original size:31 final size:31
Alignment explanation
Indices: 92626232--92626315 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
92626222 TTGTTACAGT
92626232 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
** *
92626263 AAAGGCTTCGGCTTAGTGATATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
92626294 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
92626316 CTGAGATTGA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 5 0.10
31 43 0.90
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.26
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:92629276 original size:29 final size:29
Alignment explanation
Indices: 92629234--92629299 Score: 123
Period size: 29 Copynumber: 2.3 Consensus size: 29
92629224 ATTTGCAGGG
*
92629234 TAAGTTATTTATGTGTAAATTATGGTAAA
1 TAAGTCATTTATGTGTAAATTATGGTAAA
92629263 TAAGTCATTTATGTGTAAATTATGGTAAA
1 TAAGTCATTTATGTGTAAATTATGGTAAA
92629292 TAAGTCAT
1 TAAGTCAT
92629300 ATTGTTTGAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.38, C:0.03, G:0.17, T:0.42
Consensus pattern (29 bp):
TAAGTCATTTATGTGTAAATTATGGTAAA
Found at i:92633528 original size:22 final size:22
Alignment explanation
Indices: 92633503--92633556 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
92633493 ACGGCTCAAC
* *
92633503 GCCGTAGACAGGATAGCAAATA
1 GCCGTAAACAGGACAGCAAATA
*
92633525 GCCGTAAACAGGACAGCACATA
1 GCCGTAAACAGGACAGCAAATA
92633547 GCCGTAAACA
1 GCCGTAAACA
92633557 TCACAACAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.41, C:0.24, G:0.24, T:0.11
Consensus pattern (22 bp):
GCCGTAAACAGGACAGCAAATA
Found at i:92633787 original size:22 final size:22
Alignment explanation
Indices: 92633759--92633822 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
92633749 GCAAATACGT
*
92633759 TTGGCACACAGCCATAATCAAG
1 TTGGCACAAAGCCATAATCAAG
* * *
92633781 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAAG
*
92633803 TTGGCGCAAAGCCATAATCA
1 TTGGCACAAAGCCATAATCA
92633823 GAATAATTGG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAAG
Found at i:92634033 original size:41 final size:41
Alignment explanation
Indices: 92633965--92634206 Score: 328
Period size: 41 Copynumber: 5.9 Consensus size: 41
92633955 TAAAAGCCAC
*
92633965 CGGTGGATCCACGAT-AGTCAAGCAACCATGTGATCCTTAAT
1 CGGTGGATCCACGATCA-TCAAGCAACCATGCGATCCTTAAT
* * * * *
92634006 CGATGGATCCACGGTCGTTAAGAAACCATGCGAT-CTTCAAT
1 CGGTGGATCCACGATCATCAAGCAACCATGCGATCCTT-AAT
*
92634047 CGGTGGATCCACGATCATCAAGCCACCATGCGATCCTTAAT
1 CGGTGGATCCACGATCATCAAGCAACCATGCGATCCTTAAT
*
92634088 CGGTGGATCCAC-AGTCATCAAGCAACCATGAGATCCTTAAT
1 CGGTGGATCCACGA-TCATCAAGCAACCATGCGATCCTTAAT
* * * *
92634129 CGGTGGATCCACAATCGTCAAGCAACCATGCGAACCTCAAT
1 CGGTGGATCCACGATCATCAAGCAACCATGCGATCCTTAAT
92634170 CGGTGGATCCACGATCATCAAGCAACCATGCGATCCT
1 CGGTGGATCCACGATCATCAAGCAACCATGCGATCCT
92634207 CAATTTCTTC
Statistics
Matches: 175, Mismatches: 21, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
40 4 0.02
41 167 0.95
42 4 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (41 bp):
CGGTGGATCCACGATCATCAAGCAACCATGCGATCCTTAAT
Found at i:92634184 original size:123 final size:123
Alignment explanation
Indices: 92633965--92634206 Score: 371
Period size: 123 Copynumber: 2.0 Consensus size: 123
92633955 TAAAAGCCAC
* ** *
92633965 CGGTGGATCCACGATAGTCAAGCAACCATGTGATCCTTAATCGATGGATCCACGGTCGTTAAGAA
1 CGGTGGATCCACGATAGTCAAGCAACCATGAGATCCTTAATCGATGGATCCACAATCGTCAAGAA
* * *
92634030 ACCATGCGATCTTCAATCGGTGGATCCACGATCATCAAGCCACCATGCGATCCTTAAT
66 ACCATGCGAACCTCAATCGGTGGATCCACGATCATCAAGCAACCATGCGATCCTTAAT
*
92634088 CGGTGGATCCAC-AGTCA-TCAAGCAACCATGAGATCCTTAATCGGTGGATCCACAATCGTCAAG
1 CGGTGGATCCACGA-T-AGTCAAGCAACCATGAGATCCTTAATCGATGGATCCACAATCGTCAAG
*
92634151 CAACCATGCGAACCTCAATCGGTGGATCCACGATCATCAAGCAACCATGCGATCCT
64 AAACCATGCGAACCTCAATCGGTGGATCCACGATCATCAAGCAACCATGCGATCCT
92634207 CAATTTCTTC
Statistics
Matches: 108, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
122 1 0.01
123 106 0.98
124 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (123 bp):
CGGTGGATCCACGATAGTCAAGCAACCATGAGATCCTTAATCGATGGATCCACAATCGTCAAGAA
ACCATGCGAACCTCAATCGGTGGATCCACGATCATCAAGCAACCATGCGATCCTTAAT
Found at i:92634510 original size:27 final size:27
Alignment explanation
Indices: 92634480--92634809 Score: 217
Period size: 27 Copynumber: 12.2 Consensus size: 27
92634470 AAACCAAAGT
* * *
92634480 TATTTCGATAATTTTGTAAACCAATGG
1 TATTTCGATAATTTTATAAATCAAGGG
* * **
92634507 TATTTCTATAATTTT-TGAAAGTTAACAG
1 TATTTCGATAATTTTAT-AAA-TCAAGGG
92634535 TATTTCTG-TAATTTTATAAATC-AGGG
1 TATTTC-GATAATTTTATAAATCAAGGG
* **
92634561 CTATTTCTATAATTTTCCAAATCAAGGG
1 -TATTTCGATAATTTTATAAATCAAGGG
**
92634589 TATTTCGATAATTTTCCAAATCAAGGG
1 TATTTCGATAATTTTATAAATCAAGGG
* * * *
92634616 TATTTTGGTAATTTTAAAAATCAAAGG
1 TATTTCGATAATTTTATAAATCAAGGG
* *
92634643 TATTTC-AGTATTTTTA-AAATTCGAGGG
1 TATTTCGA-TAATTTTATAAA-TCAAGGG
* * **
92634670 TATTTCGGTAATTTTACAGGTCAAGGG
1 TATTTCGATAATTTTATAAATCAAGGG
* * *
92634697 TATTTC-AGTAATTTCACAAATCAGGGG
1 TATTTCGA-TAATTTTATAAATCAAGGG
* * * *
92634724 TATTTTGGTAATTTTACAAACCAAGGG
1 TATTTCGATAATTTTATAAATCAAGGG
* * * *
92634751 TATTTTGGTAATTTTGTAAACCAAGGG
1 TATTTCGATAATTTTATAAATCAAGGG
* *
92634778 TA-TTC-AGTAATTTTGTAAACCAAGGG
1 TATTTCGA-TAATTTTATAAATCAAGGG
92634804 TATTTC
1 TATTTC
92634810 AGTAATTCTA
Statistics
Matches: 246, Mismatches: 42, Indels: 30
0.77 0.13 0.09
Matches are distributed among these distances:
26 29 0.12
27 192 0.78
28 24 0.10
29 1 0.00
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (27 bp):
TATTTCGATAATTTTATAAATCAAGGG
Found at i:92634670 original size:81 final size:81
Alignment explanation
Indices: 92634534--92634816 Score: 277
Period size: 81 Copynumber: 3.5 Consensus size: 81
92634524 AAAGTTAACA
* * * * *
92634534 GTATTTCTGTAATTTTATAAATC-AGGGCTATTTCTA-TAATTTTCCAAATCAAGGGTATTTCGA
1 GTATTTCAGTAATTTTAAAAATCAAGGG-TATTTC-AGTAATTTTACAAACCAAGGGTATTTCGG
*
92634597 TAATTTTCCAAATCAAGG
64 TAATTTTACAAATCAAGG
** * * * *
92634615 GTATTTTGGTAATTTTAAAAATCAAAGGTATTTCAGTATTTTTA-AAATTCGAGGGTATTTCGGT
1 GTATTTCAGTAATTTTAAAAATCAAGGGTATTTCAGTAATTTTACAAA-CCAAGGGTATTTCGGT
**
92634679 AATTTTACAGGTCAAGG
65 AATTTTACAAATCAAGG
* * * ** *
92634696 GTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTA
1 GTATTTCAGTAATTTTAAAAATCAAGGGTATTTCAGTAATTTTACAAACCAAGGGTATTTCGGTA
** *
92634761 ATTTTGTAAACCAAGG
66 ATTTTACAAATCAAGG
** *
92634777 GTA-TTCAGTAATTTTGTAAACCAAGGGTATTTCAGTAATT
1 GTATTTCAGTAATTTTAAAAATCAAGGGTATTTCAGTAATT
92634817 CTACCCTACA
Statistics
Matches: 163, Mismatches: 35, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
80 34 0.21
81 123 0.75
82 6 0.04
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.40
Consensus pattern (81 bp):
GTATTTCAGTAATTTTAAAAATCAAGGGTATTTCAGTAATTTTACAAACCAAGGGTATTTCGGTA
ATTTTACAAATCAAGG
Found at i:92634828 original size:27 final size:27
Alignment explanation
Indices: 92634798--92634853 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
92634788 TTTTGTAAAC
* *
92634798 CAAGGGTATTTCAGTAATTCTACCCTA
1 CAAGGGCATTTCAGTAATACTACCCTA
* *
92634825 CAAGGGCATTTTAGTAATACTAGCCTA
1 CAAGGGCATTTCAGTAATACTACCCTA
92634852 CA
1 CA
92634854 GATATGAGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.30
Consensus pattern (27 bp):
CAAGGGCATTTCAGTAATACTACCCTA
Found at i:92641885 original size:14 final size:14
Alignment explanation
Indices: 92641866--92641899 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
92641856 TCGTACTTTC
92641866 ACTTTAATATACAT
1 ACTTTAATATACAT
92641880 ACTTTAATATACAT
1 ACTTTAATATACAT
*
92641894 AGTTTA
1 ACTTTA
92641900 GTAATAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.41, C:0.12, G:0.03, T:0.44
Consensus pattern (14 bp):
ACTTTAATATACAT
Found at i:92647016 original size:13 final size:13
Alignment explanation
Indices: 92647000--92647054 Score: 67
Period size: 13 Copynumber: 4.2 Consensus size: 13
92646990 TCCCAATAGG
92647000 AGGGTACCATGGA
1 AGGGTACCATGGA
*
92647013 AGGGTATCATTGG-
1 AGGGTACCA-TGGA
*
92647026 AGGGTACTCATGGG
1 AGGGTAC-CATGGA
92647040 AGGGTACCATGGA
1 AGGGTACCATGGA
92647053 AG
1 AG
92647055 TAGTTTCGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
13 24 0.67
14 12 0.33
ACGTcount: A:0.27, C:0.13, G:0.40, T:0.20
Consensus pattern (13 bp):
AGGGTACCATGGA
Found at i:92647036 original size:14 final size:14
Alignment explanation
Indices: 92646998--92647046 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
92646988 GGTCCCAATA
92646998 GGAGGGTAC-CA-T
1 GGAGGGTACTCATT
92647010 GGAAGGGTA-TCATT
1 GG-AGGGTACTCATT
*
92647024 GGAGGGTACTCATG
1 GGAGGGTACTCATT
92647038 GGAGGGTAC
1 GGAGGGTAC
92647047 CATGGAAGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
12 2 0.06
13 14 0.44
14 16 0.50
ACGTcount: A:0.24, C:0.12, G:0.43, T:0.20
Consensus pattern (14 bp):
GGAGGGTACTCATT
Found at i:92647396 original size:35 final size:35
Alignment explanation
Indices: 92647304--92647401 Score: 92
Period size: 35 Copynumber: 2.8 Consensus size: 35
92647294 AAGGGGTCTC
* * * *
92647304 GCTCCCATACATGGAAGGAGGATTATAGGGGGTCTT
1 GCTCCCACACATGGAA-GAGGCTTATAGAGGCTCTT
* * *
92647340 GCTCCTACACTTAGGGA-AGGCTTACTAGAGGCTC-T
1 GCTCCCACACAT-GGAAGAGGCTTA-TAGAGGCTCTT
92647375 GCTCCCACACATGGAAGAGGCTTATAG
1 GCTCCCACACATGGAAGAGGCTTATAG
92647402 GAAGAATCAT
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
34 6 0.12
35 24 0.49
36 16 0.33
37 3 0.06
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (35 bp):
GCTCCCACACATGGAAGAGGCTTATAGAGGCTCTT
Found at i:92652588 original size:25 final size:26
Alignment explanation
Indices: 92652560--92652609 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 26
92652550 CAACAAAAAT
92652560 AAAATCTAATCTAAAAA-GAAAAGAC
1 AAAATCTAATCTAAAAATGAAAAGAC
92652585 AAAATCTAATCTAAAAATGAAAAGA
1 AAAATCTAATCTAAAAATGAAAAGA
92652610 AAAGAAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.64, C:0.10, G:0.08, T:0.18
Consensus pattern (26 bp):
AAAATCTAATCTAAAAATGAAAAGAC
Found at i:92652618 original size:11 final size:11
Alignment explanation
Indices: 92652604--92652628 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
92652594 TCTAAAAATG
92652604 AAAAGAAAAGA
1 AAAAGAAAAGA
92652615 AAAAGAAAAGA
1 AAAAGAAAAGA
92652626 AAA
1 AAA
92652629 CCTAACCCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAGA
Found at i:92652622 original size:16 final size:17
Alignment explanation
Indices: 92652597--92652628 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
92652587 AATCTAATCT
92652597 AAAAATGAAAAGAAAAG
1 AAAAATGAAAAGAAAAG
92652614 AAAAA-GAAAAGAAAA
1 AAAAATGAAAAGAAAA
92652629 CCTAACCCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (17 bp):
AAAAATGAAAAGAAAAG
Found at i:92658704 original size:28 final size:28
Alignment explanation
Indices: 92658629--92658711 Score: 121
Period size: 28 Copynumber: 3.0 Consensus size: 28
92658619 GCTATGTACA
*
92658629 GCACTTAGTGTGCGAGACATCGAGTATG
1 GCACTTAGTGTGCGAGATATCGAGTATG
*
92658657 GCACTTAATGTGCGAGATATCGAGTATG
1 GCACTTAGTGTGCGAGATATCGAGTATG
* * *
92658685 GCACTTAGTGTGCAAAATATTGAGTAT
1 GCACTTAGTGTGCGAGATATCGAGTAT
92658712 TCAACGGCAT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 49 1.00
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
GCACTTAGTGTGCGAGATATCGAGTATG
Found at i:92669532 original size:17 final size:16
Alignment explanation
Indices: 92669500--92669541 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
92669490 TTATAATTTA
92669500 TTAATAAAA-ATGATT
1 TTAATAAAATATGATT
*
92669515 TTAATTAAAATATTATT
1 TTAA-TAAAATATGATT
*
92669532 TCAATAAAAT
1 TTAATAAAAT
92669542 GTTTAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 4 0.17
16 11 0.48
17 8 0.35
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (16 bp):
TTAATAAAATATGATT
Found at i:92670658 original size:32 final size:33
Alignment explanation
Indices: 92670601--92670664 Score: 80
Period size: 32 Copynumber: 2.0 Consensus size: 33
92670591 TTTTAATTAT
92670601 TTTATTTTATTTTATTTTACATTATT-TTTCTC
1 TTTATTTTATTTTATTTTACATTATTCTTTCTC
*
92670633 TTTATTTT-TTTCTACTTTTTC-TTATTCTTTCT
1 TTTATTTTATTT-TA-TTTTACATTATTCTTTCT
92670665 TTCTTCTTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
31 3 0.11
32 15 0.54
33 10 0.36
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.73
Consensus pattern (33 bp):
TTTATTTTATTTTATTTTACATTATTCTTTCTC
Found at i:92675807 original size:27 final size:28
Alignment explanation
Indices: 92675760--92675814 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 28
92675750 CATTTTTTCA
92675760 TCAATTCATATACATGTATATAA-ATAT
1 TCAATTCATATACATGTATATAACATAT
92675787 TCAATATCATATA-AT-TCATATAACATAT
1 TCAAT-TCATATACATGT-ATATAACATAT
92675815 CATATATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
26 1 0.04
27 13 0.52
28 11 0.44
ACGTcount: A:0.45, C:0.13, G:0.02, T:0.40
Consensus pattern (28 bp):
TCAATTCATATACATGTATATAACATAT
Found at i:92675834 original size:21 final size:20
Alignment explanation
Indices: 92675776--92675834 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
92675766 CATATACATG
92675776 TATATAAATAT-TCAATATCA
1 TATATAAATATATC-ATATCA
** *
92675796 TATAATTCATATAACATATCA
1 TAT-ATAAATATATCATATCA
92675817 TATATAAATAATATCATA
1 TATATAAAT-ATATCATA
92675835 ATATTTTATA
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
20 7 0.23
21 22 0.73
22 1 0.03
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (20 bp):
TATATAAATATATCATATCA
Found at i:92679507 original size:16 final size:16
Alignment explanation
Indices: 92679466--92679518 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
92679456 TATTTATTTA
92679466 AATATTAA-ATT-ATT
1 AATATTAATATTAATT
*
92679480 ACTA-TAATTATTAATT
1 AATATTAA-TATTAATT
92679496 AATATTAATATTATATT
1 AATATTAATATTA-ATT
92679513 -ATATTA
1 AATATTA
92679519 TGAAATAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
13 3 0.09
14 3 0.09
15 3 0.09
16 17 0.53
17 6 0.19
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
AATATTAATATTAATT
Found at i:92681545 original size:47 final size:47
Alignment explanation
Indices: 92681486--92681581 Score: 140
Period size: 47 Copynumber: 2.0 Consensus size: 47
92681476 TTGTTACTGT
* * *
92681486 TACTGTTACTGTTCCGGATTTGTTC-CAATGAGGTACTTTGTGTACCG
1 TACTATTACTGTTCCGGATTTGTTCTCAA-GAGGTACTCTATGTACCG
*
92681533 TACTATTACTGTTCCGGATTTGTTCTGAAGAGGTACTCTATGTACCG
1 TACTATTACTGTTCCGGATTTGTTCTCAAGAGGTACTCTATGTACCG
92681580 TA
1 TA
92681582 TTGCTACTGT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
47 42 0.95
48 2 0.05
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.40
Consensus pattern (47 bp):
TACTATTACTGTTCCGGATTTGTTCTCAAGAGGTACTCTATGTACCG
Found at i:92681595 original size:53 final size:50
Alignment explanation
Indices: 92681486--92681598 Score: 135
Period size: 47 Copynumber: 2.3 Consensus size: 50
92681476 TTGTTACTGT
* *
92681486 TACTGTTACTGTTCCGGATTTGTTCCAATGAGGTACTTTGTGTACCGTAC
1 TACTGTTACTGTTCCGGATTTGTTCCAATGAGGTACTCTATGTACCGTAC
*
92681536 TA---TTACTGTTCCGGATTTGTTCTGAA-GAGGTACTCTATGTACCGTATTGC
1 TACTGTTACTGTTCCGGATTTGTTC-CAATGAGGTACTCTATGTACCGTA---C
92681586 TACTGTTACTGTT
1 TACTGTTACTGTT
92681599 ACTGTTTCGG
Statistics
Matches: 53, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
47 38 0.72
48 2 0.04
50 5 0.09
53 8 0.15
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.42
Consensus pattern (50 bp):
TACTGTTACTGTTCCGGATTTGTTCCAATGAGGTACTCTATGTACCGTAC
Found at i:92681768 original size:18 final size:18
Alignment explanation
Indices: 92681720--92681805 Score: 100
Period size: 18 Copynumber: 4.7 Consensus size: 18
92681710 AAAGATCGAC
* *
92681720 TGTTACTGAATAATTTAAT
1 TGTTACTGAATAA-CTGAT
92681739 TGTTACTGAATAACTGAT
1 TGTTACTGAATAACTGAT
* * *
92681757 TATTATTGAATAATTGAT
1 TGTTACTGAATAACTGAT
* *
92681775 TGTTACCGAATAACTGAC
1 TGTTACTGAATAACTGAT
92681793 TGTTACTGAATAA
1 TGTTACTGAATAA
92681806 ATAATCATTC
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
18 43 0.77
19 13 0.23
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (18 bp):
TGTTACTGAATAACTGAT
Found at i:92681786 original size:36 final size:37
Alignment explanation
Indices: 92681717--92681805 Score: 117
Period size: 36 Copynumber: 2.4 Consensus size: 37
92681707 TGGAAAGATC
* *
92681717 GACTGTTACTGAATAATTTAATTGTTACTGAATAACT
1 GACTATTACTGAATAATTTAATTGTTACCGAATAACT
* * *
92681754 GATTATTATTGAATAA-TTGATTGTTACCGAATAACT
1 GACTATTACTGAATAATTTAATTGTTACCGAATAACT
*
92681790 GACTGTTACTGAATAA
1 GACTATTACTGAATAA
92681806 ATAATCATTC
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
36 31 0.70
37 13 0.30
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (37 bp):
GACTATTACTGAATAATTTAATTGTTACCGAATAACT
Found at i:92683463 original size:27 final size:27
Alignment explanation
Indices: 92683425--92683478 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
92683415 AAACACAAAA
92683425 ATTCATATACTTTTTCATACCCATTTT
1 ATTCATATACTTTTTCATACCCATTTT
92683452 ATTCATATACTTTTTCATACCCATTTT
1 ATTCATATACTTTTTCATACCCATTTT
92683479 TACTTAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.22, G:0.00, T:0.52
Consensus pattern (27 bp):
ATTCATATACTTTTTCATACCCATTTT
Found at i:92686382 original size:26 final size:26
Alignment explanation
Indices: 92686347--92686402 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
92686337 TGAAATGCCC
92686347 ATCATAGAACATTTACCTAAACCATT
1 ATCATAGAACATTTACCTAAACCATT
* **
92686373 ATCATGGAACATTTACCTATCCCATT
1 ATCATAGAACATTTACCTAAACCATT
92686399 ATCA
1 ATCA
92686403 ATTTGTACCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.32
Consensus pattern (26 bp):
ATCATAGAACATTTACCTAAACCATT
Found at i:92691883 original size:25 final size:27
Alignment explanation
Indices: 92691846--92691898 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
92691836 TCAAACATGC
92691846 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
92691872 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
92691898 A
1 A
92691899 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:92693412 original size:26 final size:26
Alignment explanation
Indices: 92693383--92693487 Score: 158
Period size: 26 Copynumber: 4.0 Consensus size: 26
92693373 AATGCCCATG
92693383 ATGGAACATTTACCTAAACCATTATC
1 ATGGAACATTTACCTAAACCATTATC
92693409 ATGGAACATTTACCT-AACCTATTATC
1 ATGGAACATTTACCTAAACC-ATTATC
* * *
92693435 ATGGAATATTTACTTAATCCATTATC
1 ATGGAACATTTACCTAAACCATTATC
*
92693461 ATGGAACATTTACCTAACCCATTATC
1 ATGGAACATTTACCTAAACCATTATC
92693487 A
1 A
92693488 ATTTGTACCA
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
25 4 0.06
26 64 0.90
27 3 0.04
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.34
Consensus pattern (26 bp):
ATGGAACATTTACCTAAACCATTATC
Found at i:92693461 original size:52 final size:52
Alignment explanation
Indices: 92693383--92693487 Score: 174
Period size: 52 Copynumber: 2.0 Consensus size: 52
92693373 AATGCCCATG
*
92693383 ATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCTATTATC
1 ATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATTATC
* * *
92693435 ATGGAATATTTACTTAATCCATTATCATGGAACATTTACCTAACCCATTATC
1 ATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATTATC
92693487 A
1 A
92693488 ATTTGTACCA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.34
Consensus pattern (52 bp):
ATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATTATC
Found at i:92712432 original size:25 final size:25
Alignment explanation
Indices: 92712398--92712448 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
92712388 TATTAAGTTT
92712398 AGCTATGTGCATGTAAGTGAATTTG
1 AGCTATGTGCATGTAAGTGAATTTG
92712423 AGCTATGTGCATGTAAGTGAATTTG
1 AGCTATGTGCATGTAAGTGAATTTG
92712448 A
1 A
92712449 AACCCCTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.29, C:0.08, G:0.27, T:0.35
Consensus pattern (25 bp):
AGCTATGTGCATGTAAGTGAATTTG
Found at i:92716521 original size:16 final size:16
Alignment explanation
Indices: 92716500--92716532 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
92716490 AGAAATAGAA
92716500 ATAGAA-AAAGAGAAAG
1 ATAGAACAAA-AGAAAG
92716516 ATAGAACAAAAGAAAG
1 ATAGAACAAAAGAAAG
92716532 A
1 A
92716533 AGGAAAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.70, C:0.03, G:0.21, T:0.06
Consensus pattern (16 bp):
ATAGAACAAAAGAAAG
Found at i:92716533 original size:12 final size:11
Alignment explanation
Indices: 92716512--92716559 Score: 51
Period size: 12 Copynumber: 4.1 Consensus size: 11
92716502 AGAAAAAGAG
*
92716512 AAAGATAGAACA
1 AAAGAAAGAA-A
*
92716524 AAAGAAAGAAGG
1 AAAGAAAGAA-A
92716536 AAAGAAAGAAA
1 AAAGAAAGAAA
92716547 AAAGGAAAGAAA
1 AAA-GAAAGAAA
92716559 A
1 A
92716560 GGAAAAATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
11 3 0.10
12 28 0.90
ACGTcount: A:0.73, C:0.02, G:0.23, T:0.02
Consensus pattern (11 bp):
AAAGAAAGAAA
Found at i:92716565 original size:16 final size:16
Alignment explanation
Indices: 92716524--92716558 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
92716514 AGATAGAACA
*
92716524 AAAGAAAGAAGGAAAG
1 AAAGAAAAAAGGAAAG
92716540 AAAGAAAAAAGGAAAG
1 AAAGAAAAAAGGAAAG
92716556 AAA
1 AAA
92716559 AGGAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (16 bp):
AAAGAAAAAAGGAAAG
Found at i:92717527 original size:40 final size:41
Alignment explanation
Indices: 92717431--92717533 Score: 120
Period size: 41 Copynumber: 2.5 Consensus size: 41
92717421 GACTTCAAGT
* * *
92717431 CGATGAGACACTAGGTGTCAATTTACTACTTCAGATTAATT
1 CGATGAGACACTGGGTGTCAAATTACTACTTCAGATTAATC
* *
92717472 CGATGAAACACTGGGTGTCAAATTATTACTTC-GAATT-ATC
1 CGATGAGACACTGGGTGTCAAATTACTACTTCAG-ATTAATC
* *
92717512 CGATGAGGCACTGGGTGCCAAA
1 CGATGAGACACTGGGTGTCAAA
92717534 CTGGTGTGTT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
40 22 0.42
41 31 0.58
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (41 bp):
CGATGAGACACTGGGTGTCAAATTACTACTTCAGATTAATC
Found at i:92720223 original size:45 final size:45
Alignment explanation
Indices: 92720168--92720277 Score: 150
Period size: 45 Copynumber: 2.4 Consensus size: 45
92720158 ATGGTAGCAA
**
92720168 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGTTGAATAGG
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCAAATAGG
* * * *
92720213 TAACGGTAACAGTAATAGTATTCGACACACAAAGTGTCAAATCGG
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCAAATAGG
92720258 TAACAGTAAC-GATAACAGTA
1 TAACAGTAACAG-TAACAGTA
92720278 ATAGTAGTCG
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 1 0.02
45 55 0.98
ACGTcount: A:0.44, C:0.16, G:0.18, T:0.22
Consensus pattern (45 bp):
TAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCAAATAGG
Found at i:92721688 original size:21 final size:20
Alignment explanation
Indices: 92721656--92721701 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
92721646 TGTAAACAAA
*
92721656 ATATATAA-TAATATAAACC
1 ATATATAAGTAATATAAAAC
92721675 ATATGATAAGTAATA-AAAA-
1 ATAT-ATAAGTAATATAAAAC
92721694 ATATATAA
1 ATATATAA
92721702 TAAGAATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 4 0.17
19 8 0.33
20 7 0.29
21 5 0.21
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.30
Consensus pattern (20 bp):
ATATATAAGTAATATAAAAC
Found at i:92721715 original size:27 final size:27
Alignment explanation
Indices: 92721685--92721792 Score: 82
Period size: 29 Copynumber: 4.0 Consensus size: 27
92721675 ATATGATAAG
92721685 TAATAA-AAAATATATAATAAGAATATA
1 TAATAAGAAAATATATAATAA-AATATA
* *
92721712 TAAT---ATAATATATAATAAAAAATA
1 TAATAAGAAAATATATAATAAAATATA
**
92721736 CCATAAGGAATAATATATAATAAAATATGA
1 TAATAA-GAA-AATATATAATAAAATAT-A
* *
92721766 TATGTAATAAAATATA-AATAAAATATA
1 TA-ATAAGAAAATATATAATAAAATATA
92721793 ATGAAATAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
24 7 0.11
25 13 0.20
27 5 0.08
28 11 0.17
29 22 0.34
30 3 0.05
31 3 0.05
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.31
Consensus pattern (27 bp):
TAATAAGAAAATATATAATAAAATATA
Found at i:92721719 original size:15 final size:13
Alignment explanation
Indices: 92721693--92721729 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
92721683 AGTAATAAAA
92721693 AATATATAATAAG
1 AATATATAATAAG
*
92721706 AATATATAAT-AT
1 AATATATAATAAG
92721718 AATATATAATAA
1 AATATATAATAA
92721730 AAAATACCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (13 bp):
AATATATAATAAG
Found at i:92721768 original size:17 final size:17
Alignment explanation
Indices: 92721748--92721780 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
92721738 ATAAGGAATA
92721748 ATATATAATAAAATATG
1 ATATATAATAAAATATG
*
92721765 ATATGTAATAAAATAT
1 ATATATAATAAAATAT
92721781 AAATAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (17 bp):
ATATATAATAAAATATG
Found at i:92721929 original size:11 final size:12
Alignment explanation
Indices: 92721913--92721941 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
92721903 AAATAAAAAT
92721913 AATATAT-ATAA
1 AATATATAATAA
92721924 AATATATAATAA
1 AATATATAATAA
92721936 AATATA
1 AATATA
92721942 ATTTATAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
AATATATAATAA
Found at i:92721940 original size:21 final size:20
Alignment explanation
Indices: 92721902--92721941 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
92721892 TAATTTACAG
*
92721902 AAAATAAAAATAATATATAT
1 AAAATAAAAATAAAATATAT
*
92721922 AAAATATATAATAAAATATA
1 AAAATA-AAAATAAAATATA
92721942 ATTTATAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAATAAAAATAAAATATAT
Found at i:92721942 original size:19 final size:20
Alignment explanation
Indices: 92721918--92721968 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 20
92721908 AAAATAATAT
92721918 ATATAAAATATATAA-TAAA
1 ATATAAAATATATAAGTAAA
*
92721937 ATAT--AATTTATAAGTAAA
1 ATATAAAATATATAAGTAAA
92721955 ATATAAAATA-ATAA
1 ATATAAAATATATAA
92721969 AAATAATGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
17 8 0.30
18 8 0.30
19 8 0.30
20 3 0.11
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (20 bp):
ATATAAAATATATAAGTAAA
Found at i:92721957 original size:30 final size:27
Alignment explanation
Indices: 92721902--92721973 Score: 83
Period size: 30 Copynumber: 2.6 Consensus size: 27
92721892 TAATTTACAG
92721902 AAAATAAAAATAATATATATAAAATAT
1 AAAATAAAAATAATATATATAAAATAT
* *
92721929 ATAATAAAATATAATTTATAAGTAAAATAT
1 AAAATAAAA-ATAATATAT-A-TAAAATAT
92721959 AAAATAATAAA-AATA
1 AAAATAA-AAATAATA
92721974 ATGTAATGGA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
27 8 0.22
28 8 0.22
29 4 0.11
30 15 0.41
31 2 0.05
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (27 bp):
AAAATAAAAATAATATATATAAAATAT
Found at i:92721993 original size:37 final size:37
Alignment explanation
Indices: 92721918--92721995 Score: 90
Period size: 37 Copynumber: 2.2 Consensus size: 37
92721908 AAAATAATAT
* **
92721918 ATATAAAATATATAATAAAATATAATTTATAAGTAAA
1 ATATAAAATATATAAAAAAATATAATGGATAAGTAAA
*
92721955 ATATAAAATA-ATAAAAATAATGTAATGGATAA-TAAA
1 ATATAAAATATATAAAAA-AATATAATGGATAAGTAAA
92721991 A-ATAA
1 ATATAA
92721996 TATACATTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
35 4 0.11
36 11 0.31
37 21 0.58
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (37 bp):
ATATAAAATATATAAAAAAATATAATGGATAAGTAAA
Found at i:92726458 original size:3 final size:3
Alignment explanation
Indices: 92726452--92726482 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
92726442 AGAAGGAGGT
92726452 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
92726483 TGGTGAGGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:92734579 original size:39 final size:39
Alignment explanation
Indices: 92734518--92734631 Score: 167
Period size: 39 Copynumber: 2.9 Consensus size: 39
92734508 ATTTGATGTG
*
92734518 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGAGTCCGCAGGCTATGTGCTGGAATTA
**
92734557 TATCCGGACTTAGAGTTTGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGAGTCCGCAGGCTATGTGCTGGAATTA
* *
92734596 TATTCGGACTTA-AGGTCCGCAGGCTACGTGCTGGAA
1 TATCCGGACTTAGA-GTCCGCAGGCTATGTGCTGGAA
92734632 ATATGTCCTG
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
38 1 0.01
39 66 0.99
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (39 bp):
TATCCGGACTTAGAGTCCGCAGGCTATGTGCTGGAATTA
Found at i:92734668 original size:78 final size:78
Alignment explanation
Indices: 92734522--92734675 Score: 179
Period size: 78 Copynumber: 2.0 Consensus size: 78
92734512 GATGTGTATC
* * * * ** *
92734522 CGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGAGTTTGCAGGCTATGTG
1 CGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGCTATGAG
92734587 CTGGAATTATATT
66 CTGGAATTATATT
*
92734600 CGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATGTCCTGG-C-TAAAGTCCCGCAGGCT-TC
1 CGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCC-GGACTTAAAGT-CCGCAGGCTAT-
*
92734662 GAGCTGGTATTATA
63 GAGCTGGAATTATA
92734676 CCGGGTTTAA
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
77 6 0.09
78 56 0.88
79 2 0.03
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (78 bp):
CGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGCTATGAG
CTGGAATTATATT
Found at i:92741459 original size:39 final size:39
Alignment explanation
Indices: 92741346--92741452 Score: 187
Period size: 39 Copynumber: 2.7 Consensus size: 39
92741336 ATTTGATGTG
*
92741346 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCTGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
92741385 TATCTGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCTGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
* *
92741424 TATCTGGACTTAAGGTCCTCAGGCTATGT
1 TATCTGGACTTAGGGTCCGCAGGCTATGT
92741453 ATTGGAAATA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 65 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.31
Consensus pattern (39 bp):
TATCTGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:92745427 original size:15 final size:15
Alignment explanation
Indices: 92745407--92745438 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
92745397 TGCTGCTTTC
*
92745407 AATTGCTCACAACTT
1 AATTGCTCACAAATT
92745422 AATTGCTCACAAATT
1 AATTGCTCACAAATT
92745437 AA
1 AA
92745439 CTTCACTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.22, G:0.06, T:0.31
Consensus pattern (15 bp):
AATTGCTCACAAATT
Found at i:92748411 original size:21 final size:21
Alignment explanation
Indices: 92748385--92748444 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
92748375 CAGCTCTTAA
92748385 TTATGAG-TTTATGTTCAGCTC
1 TTATGAGCTTT-TGTTCAGCTC
92748406 TTATGAGCTTTTGTTCAGCTC
1 TTATGAGCTTTTGTTCAGCTC
*
92748427 TTACGAGC--TTGTTCAGCT
1 TTATGAGCTTTTGTTCAGCT
92748445 TTCGAGCTTC
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
19 10 0.27
21 24 0.65
22 3 0.08
ACGTcount: A:0.17, C:0.18, G:0.20, T:0.45
Consensus pattern (21 bp):
TTATGAGCTTTTGTTCAGCTC
Found at i:92748458 original size:19 final size:20
Alignment explanation
Indices: 92748396--92748458 Score: 78
Period size: 21 Copynumber: 3.2 Consensus size: 20
92748386 TATGAGTTTA
*
92748396 TGTTCAGCTCTTATGAGCTTT
1 TGTTCAGCTCTTACGAGC-TT
92748417 TGTTCAGCTCTTACGAGC-T
1 TGTTCAGCTCTTACGAGCTT
92748436 TGTTCAGCT-TT-CGAGCTT
1 TGTTCAGCTCTTACGAGCTT
92748454 CTGTT
1 -TGTT
92748459 GGCGTATTGG
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
17 5 0.13
18 3 0.08
19 14 0.36
21 17 0.44
ACGTcount: A:0.13, C:0.22, G:0.21, T:0.44
Consensus pattern (20 bp):
TGTTCAGCTCTTACGAGCTT
Found at i:92753550 original size:42 final size:42
Alignment explanation
Indices: 92753486--92753637 Score: 160
Period size: 42 Copynumber: 3.6 Consensus size: 42
92753476 CGTGTTTTAC
* * *
92753486 TTTTCGTTTAGTTCTTACGAGCTTCTATTTAACTAATATGAG
1 TTTTCGTTCAGCTCTTACGAGCTTCTATTTAACTCATATGAG
* * * * * * *
92753528 TTTTCATTCAACTCTTTCGAGCTTCTGTTCAATTCTTATGAG
1 TTTTCGTTCAGCTCTTACGAGCTTCTATTTAACTCATATGAG
** * * *
92753570 TTACCGTTTAGCTCTTATGTGCTTCTATTTAACTCATATGAG
1 TTTTCGTTCAGCTCTTACGAGCTTCTATTTAACTCATATGAG
*
92753612 TTTTTGTTCAGCTCTTACGAGCTTCT
1 TTTTCGTTCAGCTCTTACGAGCTTCT
92753638 GTTCAACCCT
Statistics
Matches: 82, Mismatches: 28, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
42 82 1.00
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.47
Consensus pattern (42 bp):
TTTTCGTTCAGCTCTTACGAGCTTCTATTTAACTCATATGAG
Found at i:92753633 original size:84 final size:84
Alignment explanation
Indices: 92753490--92753679 Score: 256
Period size: 84 Copynumber: 2.3 Consensus size: 84
92753480 TTTTACTTTT
* *
92753490 CGTTTAGTTCTTACGAGCTTCTATTTAACTAATATGAGTTTTCATTCAACTCTTTCGAGCTTCTG
1 CGTTTAGCTCTTACGAGCTTCTATTTAACTAATATGAGTTTTCATTCAACTCTTACGAGCTTCTG
**
92753555 TTCAATTCTTAT-GAGTTAC
66 TTCAACCCTTATAG-GTTAC
* * * ** *
92753574 CGTTTAGCTCTTATGTGCTTCTATTTAACTCATATGAGTTTTTGTTCAGCTCTTACGAGCTTCTG
1 CGTTTAGCTCTTACGAGCTTCTATTTAACTAATATGAGTTTTCATTCAACTCTTACGAGCTTCTG
92753639 TTCAACCCTTATAGGTTAC
66 TTCAACCCTTATAGGTTAC
**
92753658 TTTTTAGCTCTTACGAGCTTCT
1 CGTTTAGCTCTTACGAGCTTCT
92753680 GTTAAGCTTT
Statistics
Matches: 91, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
84 90 0.99
85 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.14, T:0.45
Consensus pattern (84 bp):
CGTTTAGCTCTTACGAGCTTCTATTTAACTAATATGAGTTTTCATTCAACTCTTACGAGCTTCTG
TTCAACCCTTATAGGTTAC
Found at i:92753649 original size:21 final size:21
Alignment explanation
Indices: 92753534--92753701 Score: 85
Period size: 21 Copynumber: 8.1 Consensus size: 21
92753524 TGAGTTTTCA
*
92753534 TTCAACTCTTTCGAGCTTCTG
1 TTCAACTCTTACGAGCTTCTG
* * *
92753555 TTCAATTCTTATGAG-TTACCG
1 TTCAACTCTTACGAGCTT-CTG
* * * * *
92753576 TTTAGCTCTTATGTGCTTCTA
1 TTCAACTCTTACGAGCTTCTG
* * * * *
92753597 TTTAACTCATATGAGTTTTTG
1 TTCAACTCTTACGAGCTTCTG
*
92753618 TTCAGCTCTTACGAGCTTCTG
1 TTCAACTCTTACGAGCTTCTG
* * * *
92753639 TTCAACCCTTA-TAGGTTACTT
1 TTCAACTCTTACGAGCTT-CTG
* *
92753660 TTTAGCTCTTACGAGCTTCTG
1 TTCAACTCTTACGAGCTTCTG
92753681 TT-AAGCT-TT-CGAGCTTCTG
1 TTCAA-CTCTTACGAGCTTCTG
92753700 TT
1 TT
92753702 AATGATATAC
Statistics
Matches: 108, Mismatches: 34, Indels: 12
0.70 0.22 0.08
Matches are distributed among these distances:
19 12 0.11
20 9 0.08
21 81 0.75
22 6 0.06
ACGTcount: A:0.18, C:0.21, G:0.15, T:0.45
Consensus pattern (21 bp):
TTCAACTCTTACGAGCTTCTG
Found at i:92753667 original size:42 final size:42
Alignment explanation
Indices: 92753539--92753682 Score: 150
Period size: 42 Copynumber: 3.4 Consensus size: 42
92753529 TTTCATTCAA
* * **
92753539 CTCTTTCGAGCTTCTGTTCAATTCTTATGAGTTACCGTTTAG
1 CTCTTACGAGCTTCTGTTCAACTCTTATGAGTTACTTTTTAG
* * * * *
92753581 CTCTTATGTGCTTCTATTTAACTCATATGAGTT--TTTGTTCAG
1 CTCTTACGAGCTTCTGTTCAACTCTTATGAGTTACTTT-TT-AG
*
92753623 CTCTTACGAGCTTCTGTTCAACCCTTAT-AGGTTACTTTTTAG
1 CTCTTACGAGCTTCTGTTCAACTCTTATGA-GTTACTTTTTAG
92753665 CTCTTACGAGCTTCTGTT
1 CTCTTACGAGCTTCTGTT
92753683 AAGCTTTCGA
Statistics
Matches: 82, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
40 1 0.01
41 3 0.04
42 73 0.89
43 2 0.02
44 3 0.04
ACGTcount: A:0.17, C:0.22, G:0.15, T:0.46
Consensus pattern (42 bp):
CTCTTACGAGCTTCTGTTCAACTCTTATGAGTTACTTTTTAG
Found at i:92754699 original size:23 final size:24
Alignment explanation
Indices: 92754655--92754699 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
92754645 CAACTTATTT
* *
92754655 TGGCTTGTTTTATATGCCTAATTA
1 TGGCTTGTTTGATATGCATAATTA
*
92754679 TGGCTTG-TTGATATGTATAAT
1 TGGCTTGTTTGATATGCATAAT
92754700 GTTGATTGTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 11 0.61
24 7 0.39
ACGTcount: A:0.22, C:0.09, G:0.20, T:0.49
Consensus pattern (24 bp):
TGGCTTGTTTGATATGCATAATTA
Found at i:92756043 original size:51 final size:51
Alignment explanation
Indices: 92755967--92756068 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
92755957 GTTCGGGATT
92755967 GATCTTGGGGTTCAAGATTTCAGATTTAGGGCTGATTTAAATGAAGATAAA
1 GATCTTGGGGTTCAAGATTTCAGATTTAGGGCTGATTTAAATGAAGATAAA
92756018 GATCTTGGGGTTCAAGATTTCAGATTTAGGGCTGATTTAAATGAAGATAAA
1 GATCTTGGGGTTCAAGATTTCAGATTTAGGGCTGATTTAAATGAAGATAAA
92756069 TGGCAGCAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.33, C:0.08, G:0.25, T:0.33
Consensus pattern (51 bp):
GATCTTGGGGTTCAAGATTTCAGATTTAGGGCTGATTTAAATGAAGATAAA
Found at i:92758497 original size:44 final size:44
Alignment explanation
Indices: 92758442--92758581 Score: 147
Period size: 44 Copynumber: 3.0 Consensus size: 44
92758432 TATGTATGAG
*
92758442 GCATCCAAGCTCGTTGAGTTGGTCTGAGTTCATTATGGATGTGA
1 GCATCCAAGCTCGTTGAGTTGGTCCGAGTTCATTATGGATGTGA
* *
92758486 GCATCCTAGCTCGTTGAGTTGGTCCGAGTTTATAATGTATGCGATACATGTGA
1 GCATCCAAGCTCGTTGAGTTGGTCCGAG--T-TCAT-TATG-G----ATGTGA
* *
92758539 -CATCCGAGCTCGTTAAGTTGGTCCGAGTTCATTATGGATGTGA
1 GCATCCAAGCTCGTTGAGTTGGTCCGAGTTCATTATGGATGTGA
92758582 TACATTTAAT
Statistics
Matches: 81, Mismatches: 6, Indels: 19
0.76 0.06 0.18
Matches are distributed among these distances:
43 6 0.07
44 26 0.32
46 1 0.01
47 4 0.05
48 8 0.10
49 4 0.05
50 1 0.01
52 25 0.31
53 6 0.07
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.34
Consensus pattern (44 bp):
GCATCCAAGCTCGTTGAGTTGGTCCGAGTTCATTATGGATGTGA
Found at i:92758549 original size:52 final size:53
Alignment explanation
Indices: 92758480--92758586 Score: 153
Period size: 52 Copynumber: 2.0 Consensus size: 53
92758470 TTCATTATGG
* * * *
92758480 ATGTGAGCATCCTAGCTCGTTGAGTTGGTCCGAGTTTATAATGTATGCGATAC
1 ATGTGAGCATCCGAGCTCGTTAAGTTGGTCCGAGTTCATAATGGATGCGATAC
* *
92758533 ATGTGA-CATCCGAGCTCGTTAAGTTGGTCCGAGTTCATTATGGATGTGATAC
1 ATGTGAGCATCCGAGCTCGTTAAGTTGGTCCGAGTTCATAATGGATGCGATAC
92758585 AT
1 AT
92758587 TTAATTGGGT
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
52 42 0.88
53 6 0.12
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (53 bp):
ATGTGAGCATCCGAGCTCGTTAAGTTGGTCCGAGTTCATAATGGATGCGATAC
Found at i:92766520 original size:23 final size:21
Alignment explanation
Indices: 92766470--92766521 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 21
92766460 AAATCTATTA
92766470 ACATATTGGAATCCTATGTTG
1 ACATATTGGAATCCTATGTTG
92766491 ACGCATATTGGAATCCTATGTCTTG
1 A--CATATTGGAATCCTATG--TTG
92766516 ACATAT
1 ACATAT
92766522 GTATCCTAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 1 0.04
23 22 0.81
25 4 0.15
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (21 bp):
ACATATTGGAATCCTATGTTG
Found at i:92767076 original size:637 final size:639
Alignment explanation
Indices: 92765855--92767109 Score: 2388
Period size: 637 Copynumber: 2.0 Consensus size: 639
92765845 CGCAAAATAA
92765855 CATATTGGAATCCTATGTCCTGACATATGTATCCTAACTATTCTTAAGGTTCGTACGGGGCTTTC
1 CATATTGGAATCCTATGTCCTGACATATGTATCCTAACTATTCTTAAGGTTCGTACGGGGCTTTC
*
92765920 GGACATCGTAAACCAAACAATTCCATCTCGTATATATTTCTCCCATGCTTATACAAATTCGGGTT
66 GGACATCGTAAACCAAACAATTCCATCTCGTATATATTTCTCCCATGCTTATACAAATTCAGGTT
*
92765985 GAATATATATATATACAAGTAATAATTCAATTCGGCACAAATAATATATATACAATCGAATTTAA
131 GAATATATATATATACAAGAAATAATTCAATTCGGCACAAATAATATATATACAATCGAATTTAA
*
92766050 CAACATTTATTTACTTATGAACTTACCTCGTACAGATTTGGACAGAAATAAACGGCTATTCAACG
196 CAACATTTATTTACTTATGAACTTACCTCGTACAGATTCGGACAGAAATAAACGGCTATTCAACG
92766115 ATTTTCAATTTCCCCCGATCTAATCCCGTTTTCTTCGGTTCTGGATCTAATCACATTTAAATTTG
261 ATTTTCAATTTCCCCCGATCTAATCCCGTTTTCTTCGGTTCTGGATCTAATCACATTTAAATTTG
92766180 ACTTATTAAATCTCAAATATATTCAAATTAATCCATAAACACAAATTTAGGGCATTTTACAATTT
326 ACTTATTAAATCTCAAATATATTCAAATTAATCCATAAACACAAATTTAGGGCATTTTACAATTT
92766245 AGCTCTCATATTTTCACATTTTGACATTTAAGTCACTAATTCACAAAATCACAAAATACACATAA
391 AGCTCTCATATTTTCACATTTTGACATTTAAGTCACTAATTCACAAAATCACAAAATACACATAA
*
92766310 TTTCACATTTTTCATGCTTAGCCGAATTTTCACGGAGTTCATATAAGCCTAAATCTTTCATTTAT
456 TTTCACATTTTTCATGCTTAGCCGAATTTTCACGGAGTTCATATAAGCCCAAATCTTTCATTTAT
92766375 TTCACATTTTGACCCCTCAATTTACAAAATTCACAATTTAAACCCAAATAGGCATTTGTACTAAA
521 TTCACATTTTGACCCCTCAATTTACAAAATTCACAATTTAAACCCAAATAGGCATTTGTACTAAA
*
92766440 AATCACTTAATTAATCATGAAAATCTATTAACATATTGGAATCCTATGTTGACG
586 AATCACTTAATTAAACATGAAAATCTATTAACATATTGGAATCCTATGTTGACG
*
92766494 CATATTGGAATCCTATGTCTTGACATATGTATCCTAACTATTCTTAAGGTTCGTACGGGGCTTTC
1 CATATTGGAATCCTATGTCCTGACATATGTATCCTAACTATTCTTAAGGTTCGTACGGGGCTTTC
92766559 GGACATCGTAAACCAAACAATTCCATCTCGTATATATTTCTCCCATGCTTATACAAATTCAGGTT
66 GGACATCGTAAACCAAACAATTCCATCTCGTATATATTTCTCCCATGCTTATACAAATTCAGGTT
92766624 G-A-ATATATATATACAAGAAATAATTCAATTCGGCACAAATAATATATATACAATCGAATTTAA
131 GAATATATATATATACAAGAAATAATTCAATTCGGCACAAATAATATATATACAATCGAATTTAA
92766687 CAACATTTATTTACTTATGAACTTACCTCGTACAGATTCGGACAGAAATAAACGGCTATTCAACG
196 CAACATTTATTTACTTATGAACTTACCTCGTACAGATTCGGACAGAAATAAACGGCTATTCAACG
*
92766752 ATTTTCAATTTCCCCCGATCTAATCCCGTTTTCTTCGGTTCTGGATCTAATCATATTTAAATTTG
261 ATTTTCAATTTCCCCCGATCTAATCCCGTTTTCTTCGGTTCTGGATCTAATCACATTTAAATTTG
* *
92766817 ACTTATTCAATCTCACATATATTCAAATTAATCCATAAACACAAATTTAGGGCATTTTACAATTT
326 ACTTATTAAATCTCAAATATATTCAAATTAATCCATAAACACAAATTTAGGGCATTTTACAATTT
92766882 AGCTCTCATATTTTCACATTTTGACATTTAAGTCACTAATTCACAAAATCACAAAATACACATAA
391 AGCTCTCATATTTTCACATTTTGACATTTAAGTCACTAATTCACAAAATCACAAAATACACATAA
*
92766947 TTTCACATTTTTCATGCTTAGCCGAATTTTCATGGAGTTCATATAAGCCCAAATCTTTCATTTAT
456 TTTCACATTTTTCATGCTTAGCCGAATTTTCACGGAGTTCATATAAGCCCAAATCTTTCATTTAT
* *
92767012 TTCACATTTTGACCCCTCAATTTACAAAATTCACAATTTAATCCCAAATAGGCATTTTTACTAAA
521 TTCACATTTTGACCCCTCAATTTACAAAATTCACAATTTAAACCCAAATAGGCATTTGTACTAAA
92767077 AATCACTTAATTAAACATGAAAATCTATTAACA
586 AATCACTTAATTAAACATGAAAATCTATTAACA
92767110 AATATTTATT
Statistics
Matches: 604, Mismatches: 12, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
637 474 0.78
638 1 0.00
639 129 0.21
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.36
Consensus pattern (639 bp):
CATATTGGAATCCTATGTCCTGACATATGTATCCTAACTATTCTTAAGGTTCGTACGGGGCTTTC
GGACATCGTAAACCAAACAATTCCATCTCGTATATATTTCTCCCATGCTTATACAAATTCAGGTT
GAATATATATATATACAAGAAATAATTCAATTCGGCACAAATAATATATATACAATCGAATTTAA
CAACATTTATTTACTTATGAACTTACCTCGTACAGATTCGGACAGAAATAAACGGCTATTCAACG
ATTTTCAATTTCCCCCGATCTAATCCCGTTTTCTTCGGTTCTGGATCTAATCACATTTAAATTTG
ACTTATTAAATCTCAAATATATTCAAATTAATCCATAAACACAAATTTAGGGCATTTTACAATTT
AGCTCTCATATTTTCACATTTTGACATTTAAGTCACTAATTCACAAAATCACAAAATACACATAA
TTTCACATTTTTCATGCTTAGCCGAATTTTCACGGAGTTCATATAAGCCCAAATCTTTCATTTAT
TTCACATTTTGACCCCTCAATTTACAAAATTCACAATTTAAACCCAAATAGGCATTTGTACTAAA
AATCACTTAATTAAACATGAAAATCTATTAACATATTGGAATCCTATGTTGACG
Found at i:92772540 original size:15 final size:15
Alignment explanation
Indices: 92772506--92772534 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
92772496 AATAAAAGTG
92772506 AATAAAACATGGCAA
1 AATAAAACATGGCAA
92772521 AATAAAA-ATGGCAA
1 AATAAAACATGGCAA
92772535 TGATAACGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.62, C:0.10, G:0.14, T:0.14
Consensus pattern (15 bp):
AATAAAACATGGCAA
Found at i:92772646 original size:11 final size:11
Alignment explanation
Indices: 92772611--92772710 Score: 68
Period size: 11 Copynumber: 9.3 Consensus size: 11
92772601 ATGGTATTAA
92772611 AATATATACAT
1 AATATATACAT
92772622 AATAT-TA-A-
1 AATATATACAT
92772630 AGATATATACAT
1 A-ATATATACAT
92772642 AATATATACAT
1 AATATATACAT
* *
92772653 AA-A-AAATAT
1 AATATATACAT
* *
92772662 AATATTAAAAAT
1 AATA-TATACAT
92772674 ATATATATACAT
1 A-ATATATACAT
* *
92772686 GATATATATGA-
1 AATATATA-CAT
92772697 AATATATACAT
1 AATATATACAT
92772708 AAT
1 AAT
92772711 GTAGTTATTA
Statistics
Matches: 70, Mismatches: 9, Indels: 20
0.71 0.09 0.20
Matches are distributed among these distances:
8 1 0.01
9 11 0.16
10 7 0.10
11 35 0.50
12 13 0.19
13 3 0.04
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (11 bp):
AATATATACAT
Found at i:92772673 original size:14 final size:15
Alignment explanation
Indices: 92772642--92772681 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
92772632 ATATATACAT
* *
92772642 AATATATACATAAAA
1 AATATATATATTAAA
92772657 AATATA-ATATTAAA
1 AATATATATATTAAA
92772671 AATATATATAT
1 AATATATATAT
92772682 ACATGATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (15 bp):
AATATATATATTAAA
Found at i:92772681 original size:15 final size:15
Alignment explanation
Indices: 92772632--92772682 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
92772622 AATATTAAAG
* *
92772632 ATATATACATAATAT
1 ATATATAAAAAATAT
*
92772647 ATACATAAAAAATAT
1 ATATATAAAAAATAT
*
92772662 A-ATATTAAAAATAT
1 ATATATAAAAAATAT
92772676 ATATATA
1 ATATATA
92772683 CATGATATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
14 12 0.41
15 17 0.59
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (15 bp):
ATATATAAAAAATAT
Found at i:92772681 original size:20 final size:20
Alignment explanation
Indices: 92772605--92772710 Score: 76
Period size: 20 Copynumber: 5.0 Consensus size: 20
92772595 ATATGTATGG
92772605 TATT-AAAATATATACATAA
1 TATTAAAAATATATACATAA
*
92772624 TATTAAAGATATATACATAA
1 TATTAAAAATATATACATAA
*
92772644 TATATACATAAA-A-A-ATATAA
1 TAT-TA-A-AAATATATACATAA
*
92772664 TATTAAAAATATATATATACA
1 TATTAAAAATATATACATA-A
92772685 TGATATATATGAAATATATACATAA
1 T-AT-TA-A--AAATATATACATAA
92772710 T
1 T
92772711 GTAGTTATTA
Statistics
Matches: 70, Mismatches: 4, Indels: 20
0.74 0.04 0.21
Matches are distributed among these distances:
17 3 0.04
18 2 0.03
19 7 0.10
20 30 0.43
21 5 0.07
22 4 0.06
23 4 0.06
24 1 0.01
25 2 0.03
26 12 0.17
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.36
Consensus pattern (20 bp):
TATTAAAAATATATACATAA
Found at i:92772730 original size:27 final size:24
Alignment explanation
Indices: 92772696--92772781 Score: 82
Period size: 27 Copynumber: 3.3 Consensus size: 24
92772686 GATATATATG
92772696 AAATATATACATAATGTAGTTATTAAA
1 AAATATATACA-AATGTAG-TATT-AA
*
92772723 AAATATATACACAATATAGTATTAA
1 AAATATATACA-AATGTAGTATTAA
* *
92772748 GAATATACACAACATGTATGGTATTAA
1 AAATATATACAA-ATGTA--GTATTAA
92772775 AAATATA
1 AAATATA
92772782 GTATTAAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
24 1 0.02
25 15 0.30
26 4 0.08
27 30 0.60
ACGTcount: A:0.52, C:0.07, G:0.08, T:0.33
Consensus pattern (24 bp):
AAATATATACAAATGTAGTATTAA
Found at i:92773056 original size:3 final size:3
Alignment explanation
Indices: 92773048--92773074 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
92773038 ACACTTCTAT
92773048 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
92773075 TAGAAATGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:92773200 original size:24 final size:24
Alignment explanation
Indices: 92773173--92773220 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
92773163 ATACACTAAT
92773173 ATATAATAATAGTAATAATAATAA
1 ATATAATAATAGTAATAATAATAA
*
92773197 ATATAATAATAGTAATAATGATAA
1 ATATAATAATAGTAATAATAATAA
92773221 TAATACGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.33
Consensus pattern (24 bp):
ATATAATAATAGTAATAATAATAA
Found at i:92773236 original size:3 final size:3
Alignment explanation
Indices: 92773169--92773225 Score: 62
Period size: 3 Copynumber: 18.7 Consensus size: 3
92773159 AGATATACAC
* *
92773169 TAA TATA TAA TAA TAG TAA TAA TAA TAA -ATA TAA TAA TAG TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA
*
92773215 TGA TAA TAA TA
1 TAA TAA TAA TA
92773226 CGAAAATAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
2 1 0.02
3 40 0.89
4 4 0.09
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:92773347 original size:17 final size:17
Alignment explanation
Indices: 92773282--92773350 Score: 50
Period size: 19 Copynumber: 3.8 Consensus size: 17
92773272 TTTAATGGCA
*
92773282 ATAAT-AATAGTACAAT
1 ATAATAAATAGTAAAAT
* *
92773298 AATAACAAAGTAGTAGAAAAA
1 -ATAATAAA-TAGT--AAAAT
92773319 ATAACTATAATAGTAAAAT
1 ATAA-TA-AATAGTAAAAT
92773338 ATAATAAATAGTA
1 ATAATAAATAGTA
92773351 GTAAAAGAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 12
0.71 0.09 0.21
Matches are distributed among these distances:
17 11 0.27
18 4 0.10
19 12 0.29
20 4 0.10
21 8 0.20
22 2 0.05
ACGTcount: A:0.61, C:0.04, G:0.09, T:0.26
Consensus pattern (17 bp):
ATAATAAATAGTAAAAT
Found at i:92773363 original size:20 final size:20
Alignment explanation
Indices: 92773298--92773364 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 20
92773288 ATAGTACAAT
* *
92773298 AATAACAAAGTAGTAGAAAA
1 AATAACATAGTAGTAAAAAA
* *
92773318 AATAACTATAATAGTAAAATAT
1 AATAAC-ATAGTAGTAAAA-AA
92773340 AATAA-ATAGTAGTAAAAGAA
1 AATAACATAGTAGTAAAA-AA
92773360 AATAA
1 AATAA
92773365 TAAAATTATC
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
20 23 0.61
21 9 0.24
22 6 0.16
ACGTcount: A:0.64, C:0.03, G:0.10, T:0.22
Consensus pattern (20 bp):
AATAACATAGTAGTAAAAAA
Found at i:92774714 original size:5 final size:5
Alignment explanation
Indices: 92774673--92774711 Score: 69
Period size: 5 Copynumber: 7.8 Consensus size: 5
92774663 CATAAATAAA
*
92774673 TATAT TATAT TATAT TATAT TATAT TATAT TATAA TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
92774712 ATAGTTTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (5 bp):
TATAT
Found at i:92774753 original size:19 final size:20
Alignment explanation
Indices: 92774725--92774764 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
92774715 GTTTAATAAT
*
92774725 AAAAAGAAAGA-AATAAAGA
1 AAAAAAAAAGAGAATAAAGA
*
92774744 AAAAAAAAAGAGACTAAAGA
1 AAAAAAAAAGAGAATAAAGA
92774764 A
1 A
92774765 CAGAATAGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.78, C:0.03, G:0.15, T:0.05
Consensus pattern (20 bp):
AAAAAAAAAGAGAATAAAGA
Found at i:92774812 original size:12 final size:13
Alignment explanation
Indices: 92774787--92774811 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
92774777 AACGTAGTAG
92774787 GGGAAAGAAAAAA
1 GGGAAAGAAAAAA
92774800 GGGAAAGAAAAA
1 GGGAAAGAAAAA
92774812 GAAGGAAAAA
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:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (13 bp):
GGGAAAGAAAAAA
Found at i:92776178 original size:18 final size:18
Alignment explanation
Indices: 92776155--92776236 Score: 110
Period size: 18 Copynumber: 4.6 Consensus size: 18
92776145 CGAATAAAGG
*
92776155 TACTGAATGACTGACTGT
1 TACTGAATGACTGATTGT
*
92776173 TACTGAATGATTGATTGT
1 TACTGAATGACTGATTGT
* *
92776191 TACTGAATAACTGATTGC
1 TACTGAATGACTGATTGT
* *
92776209 TACTGAATAATTGATTGT
1 TACTGAATGACTGATTGT
92776227 TACTGAATGA
1 TACTGAATGA
92776237 TACTGATAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 56 1.00
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.38
Consensus pattern (18 bp):
TACTGAATGACTGATTGT
Found at i:92776195 original size:36 final size:36
Alignment explanation
Indices: 92776155--92776236 Score: 128
Period size: 36 Copynumber: 2.3 Consensus size: 36
92776145 CGAATAAAGG
* *
92776155 TACTGAATGACTGACTGTTACTGAATGATTGATTGT
1 TACTGAATGACTGACTGCTACTGAATAATTGATTGT
* *
92776191 TACTGAATAACTGATTGCTACTGAATAATTGATTGT
1 TACTGAATGACTGACTGCTACTGAATAATTGATTGT
92776227 TACTGAATGA
1 TACTGAATGA
92776237 TACTGATAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.38
Consensus pattern (36 bp):
TACTGAATGACTGACTGCTACTGAATAATTGATTGT
Found at i:92776240 original size:28 final size:28
Alignment explanation
Indices: 92776200--92776253 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
92776190 TTACTGAATA
* *
92776200 ACTGATTGCTACTGA-ATAATTGATTGTT
1 ACTGAATGATACTGATA-AATTGATTGTT
92776228 ACTGAATGATACTGATAAATTGATTG
1 ACTGAATGATACTGATAAATTGATTG
92776254 ATATTGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 22 0.96
29 1 0.04
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (28 bp):
ACTGAATGATACTGATAAATTGATTGTT
Found at i:92781800 original size:26 final size:26
Alignment explanation
Indices: 92781763--92781869 Score: 178
Period size: 26 Copynumber: 4.1 Consensus size: 26
92781753 GAAATGCCCG
*
92781763 TCATGGAACATTTACCTAAACCATTA
1 TCATGGAACATTTACCTAACCCATTA
*
92781789 TCATGGAGCATTTACCTAACCCATTA
1 TCATGGAACATTTACCTAACCCATTA
* *
92781815 TCATGGAATATTTACCTAATCCATTA
1 TCATGGAACATTTACCTAACCCATTA
92781841 TCATGGAACATTTACCTAACCCATTA
1 TCATGGAACATTTACCTAACCCATTA
92781867 TCA
1 TCA
92781870 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.33
Consensus pattern (26 bp):
TCATGGAACATTTACCTAACCCATTA
Found at i:92783132 original size:43 final size:43
Alignment explanation
Indices: 92783065--92783191 Score: 150
Period size: 44 Copynumber: 2.9 Consensus size: 43
92783055 CTCGTACAAC
* *
92783065 GCCAACGTCCCAAAC-GTGGTCTTACATGTAATCACATATCGAT
1 GCCAACGTCCCAGACAG-GGTCTTACACGTAATCACATATCGAT
* * *
92783108 GTC-ACTGTCCCAGATAGGGTCTTACACGTAAATCACAAATCGAT
1 GCCAAC-GTCCCAGACAGGGTCTTACACGT-AATCACATATCGAT
* *
92783152 GCCAACGTCCCAGACATGGTCTTACACGAAATCACATATC
1 GCCAACGTCCCAGACAGGGTCTTACACGTAATCACATATC
92783192 AGAATCCTAT
Statistics
Matches: 70, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
42 2 0.03
43 30 0.43
44 36 0.51
45 2 0.03
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (43 bp):
GCCAACGTCCCAGACAGGGTCTTACACGTAATCACATATCGAT
Found at i:92783721 original size:19 final size:20
Alignment explanation
Indices: 92783678--92783718 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
92783668 TTTCATGGAG
92783678 TTCATATAAGCCCAAATATT
1 TTCATATAAGCCCAAATATT
92783698 TTCATATAAGCCCAAATATT
1 TTCATATAAGCCCAAATATT
92783718 T
1 T
92783719 CATTTATTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.20, G:0.05, T:0.37
Consensus pattern (20 bp):
TTCATATAAGCCCAAATATT
Found at i:92787046 original size:33 final size:33
Alignment explanation
Indices: 92786982--92787050 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
92786972 TTGGAGAAAA
*
92786982 TAAATTAGGGTTTATGATGTTTTAAAAAATAAAT
1 TAAATTAGGATTTAT-ATGTTTTAAAAAATAAAT
92787016 TAAATTAGGATTTAT-TGTTTATAAAAAATAAAT
1 TAAATTAGGATTTATATGTTT-TAAAAAATAAAT
92787049 TA
1 TA
92787051 GGGTAAAGGG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 5 0.15
33 14 0.42
34 14 0.42
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.42
Consensus pattern (33 bp):
TAAATTAGGATTTATATGTTTTAAAAAATAAAT
Found at i:92787872 original size:15 final size:15
Alignment explanation
Indices: 92787852--92787880 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
92787842 AATGACTATG
92787852 TTATTTATATATATT
1 TTATTTATATATATT
92787867 TTATTTATATATAT
1 TTATTTATATATAT
92787881 ACTTACATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTATTTATATATATT
Found at i:92788117 original size:18 final size:18
Alignment explanation
Indices: 92788094--92788131 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
92788084 CGAGGATGTA
92788094 AAAATGGAAAGCGAAACT
1 AAAATGGAAAGCGAAACT
92788112 AAAATGGAAAGCGAAACT
1 AAAATGGAAAGCGAAACT
92788130 AA
1 AA
92788132 GCCCATGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.58, C:0.11, G:0.21, T:0.11
Consensus pattern (18 bp):
AAAATGGAAAGCGAAACT
Found at i:92789302 original size:25 final size:25
Alignment explanation
Indices: 92789274--92789327 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
92789264 ACATCTCAAA
92789274 ACATATCCAAAGTTCTCTAGCTTAT
1 ACATATCCAAAGTTCTCTAGCTTAT
92789299 ACATATCCAAAGTTCTCTAGCTTAT
1 ACATATCCAAAGTTCTCTAGCTTAT
92789324 ACAT
1 ACAT
92789328 GCCATGCATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.33, C:0.24, G:0.07, T:0.35
Consensus pattern (25 bp):
ACATATCCAAAGTTCTCTAGCTTAT
Found at i:92800573 original size:25 final size:25
Alignment explanation
Indices: 92800539--92800608 Score: 131
Period size: 25 Copynumber: 2.8 Consensus size: 25
92800529 AAGGAAGTGC
92800539 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
92800564 AAAAGGGCTTTGCCCCAATTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
92800589 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
92800609 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:92810326 original size:20 final size:21
Alignment explanation
Indices: 92810290--92810337 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
92810280 ATTTTGATAT
*
92810290 ACATGATTTGATATGATATGC
1 ACATGATATGATATGATATGC
92810311 ACATGATATG-TATGATATGC
1 ACATGATATGATATGATATGC
92810331 ACATGAT
1 ACATGAT
92810338 GTATTCATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (21 bp):
ACATGATATGATATGATATGC
Found at i:92816766 original size:20 final size:20
Alignment explanation
Indices: 92816741--92816778 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
92816731 TGTTAAAAAC
92816741 ACTTATTTTACTAATATTCT
1 ACTTATTTTACTAATATTCT
92816761 ACTTATTTTACTAATATT
1 ACTTATTTTACTAATATT
92816779 TATCATAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.13, G:0.00, T:0.55
Consensus pattern (20 bp):
ACTTATTTTACTAATATTCT
Found at i:92817692 original size:19 final size:20
Alignment explanation
Indices: 92817668--92817706 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
92817658 TCCCATTATT
92817668 TATTTATTTTT-TGTTTTAA
1 TATTTATTTTTATGTTTTAA
92817687 TATTTATTTTTATGTTTTAA
1 TATTTATTTTTATGTTTTAA
92817707 ATGTATTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (20 bp):
TATTTATTTTTATGTTTTAA
Found at i:92817724 original size:25 final size:23
Alignment explanation
Indices: 92817668--92817732 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 23
92817658 TCCCATTATT
*
92817668 TATTTATTTTT-TGTTTT-AA--
1 TATTTATTTTTATATTTTAAATG
*
92817687 TATTTATTTTTATGTTTTAAATG
1 TATTTATTTTTATATTTTAAATG
92817710 TATTTGATTTATTATATTTTAAA
1 TATTT-ATTT-TTATATTTTAAA
92817733 GTTTTTTATT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
19 11 0.28
20 6 0.15
21 2 0.05
23 5 0.13
24 4 0.10
25 11 0.28
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (23 bp):
TATTTATTTTTATATTTTAAATG
Found at i:92818081 original size:6 final size:7
Alignment explanation
Indices: 92818063--92818090 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
92818053 AACTTGCAAT
92818063 TAAAAAC
1 TAAAAAC
92818070 TAAAAAC
1 TAAAAAC
92818077 TAAAAAC
1 TAAAAAC
92818084 TAAAAAC
1 TAAAAAC
92818091 GAAAGAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.14, G:0.00, T:0.14
Consensus pattern (7 bp):
TAAAAAC
Found at i:92821143 original size:21 final size:21
Alignment explanation
Indices: 92821099--92821143 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
92821089 TTTGCAAACT
**
92821099 TAATTCATTGCTCGTCCCGTG
1 TAATTCATTGCTCGTCCCAAG
92821120 TAATTCATTGCTCGTCCCAAG
1 TAATTCATTGCTCGTCCCAAG
92821141 TAA
1 TAA
92821144 AAAGGGCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.22, C:0.27, G:0.16, T:0.36
Consensus pattern (21 bp):
TAATTCATTGCTCGTCCCAAG
Found at i:92835781 original size:13 final size:13
Alignment explanation
Indices: 92835763--92835787 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
92835753 TTGGCAGGGA
92835763 CACGCCCGTGTGG
1 CACGCCCGTGTGG
92835776 CACGCCCGTGTG
1 CACGCCCGTGTG
92835788 CGATTACTTC
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:0.08, C:0.40, G:0.36, T:0.16
Consensus pattern (13 bp):
CACGCCCGTGTGG
Found at i:92841910 original size:12 final size:12
Alignment explanation
Indices: 92841877--92841918 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 12
92841867 TCATTTTTCT
92841877 TTTTCTTTTTCT-
1 TTTTCTTTTT-TA
92841889 TTTTC-TTTTTA
1 TTTTCTTTTTTA
92841900 TTTTCTTTTTTTA
1 TTTTC-TTTTTTA
92841913 TTTTCT
1 TTTTCT
92841919 CTCATTCTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 1 0.04
11 9 0.33
12 6 0.22
13 11 0.41
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTCTTTTTTA
Done.