Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold86
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: 313076
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.33
File 2 of 3
Found at i:143197 original size:163 final size:161
Alignment explanation
Indices: 142873--143197 Score: 395
Period size: 163 Copynumber: 2.0 Consensus size: 161
142863 CACAAGTTGA
* * * *
142873 TGGCACCTTTTAGTCCTCAAAGAGTAGGACGCTTTTTCCTTTTAAAGCCTACACAAATTGGTGGC
1 TGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCTA-ACAAATCGGTGGC
* * * * * *
142938 ACCTTTCAGTCTTTAAAGAGCAGGATGACTTTTCCTTTAAAGCCCACACAAGTTGGTGGCACCTT
65 ACCTTTCAGTCCTCAAAGAGCAGAACGACTTTTCCTTTAAAGCCCACACAAGTCGGTGACACCTT
* *
143003 TCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTG
130 TCAGTCCTCAAAAAGCAGGA-GCATTTTCCTTG
*
143036 TGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCTCGT-ACAAGTCGGTGG
1 TGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGC-C-TAACAAATCGGTGG
* * *
143100 CACCTTTCAGTCCTCAAAGAGTAGAACGCCTTTTCTTTTTAAAGCCCACACAAGTCGGTGACACC
64 CACCTTTCAGTCCTCAAAGAGCAGAACGACTTTTC-CTTTAAAGCCCACACAAGTCGGTGACACC
* * *
143165 TTTTTA-TCCTTAAAAAGTAGGA-CATATTTCCTT
128 -TTTCAGTCCTCAAAAAGCAGGAGCAT-TTTCCTT
143198 TTTAAAGCCC
Statistics
Matches: 138, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
162 2 0.01
163 91 0.66
164 40 0.29
165 5 0.04
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (161 bp):
TGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCTAACAAATCGGTGGCA
CCTTTCAGTCCTCAAAGAGCAGAACGACTTTTCCTTTAAAGCCCACACAAGTCGGTGACACCTTT
CAGTCCTCAAAAAGCAGGAGCATTTTCCTTG
Found at i:143240 original size:61 final size:58
Alignment explanation
Indices: 143131--143273 Score: 198
Period size: 61 Copynumber: 2.4 Consensus size: 58
143121 TAGAACGCCT
* *
143131 TTTCTTTTTAAAGCCCACACAAGTCGGTGACACCTTTTTATCCTTAAAAAGTAGGACATA
1 TTTCTTTTTAAAGCCCACACAAGTCGGTGACACCTTTCTATCCCTAAAAAGTAGGAC--A
* *
143191 TTTCCTTTTTAAAGCCCACACAAGTGGGTGGCACC-TTCTAGTCCCTAAAAAGTAGGACA
1 TTT-CTTTTTAAAGCCCACACAAGTCGGTGACACCTTTCTA-TCCCTAAAAAGTAGGACA
143250 TTTCTTTATTAAAGCCCACACAAG
1 TTTCTTT-TTAAAGCCCACACAAG
143274 CTAGAGGCCC
Statistics
Matches: 76, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
58 4 0.05
59 20 0.26
60 7 0.09
61 45 0.59
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.31
Consensus pattern (58 bp):
TTTCTTTTTAAAGCCCACACAAGTCGGTGACACCTTTCTATCCCTAAAAAGTAGGACA
Found at i:143287 original size:59 final size:60
Alignment explanation
Indices: 143134--143293 Score: 177
Period size: 61 Copynumber: 2.7 Consensus size: 60
143124 AACGCCTTTT
* * * *
143134 CTTTTTAAAGCCCACACAAGTCG-GTGACACCTTTTTA-TCCTTAAAAAGTAGGACATATTTC
1 CTTTTTAAAGCCCACACAAGT-GAGAGGCACC-TTCTAGTCCCTAAAAAGTAGGACA-ATTTC
* *
143195 CTTTTTAAAGCCCACACAAGTGGGTGGCACCTTCTAGTCCCTAAAAAGTAGGAC-ATTT-
1 CTTTTTAAAGCCCACACAAGTGAGAGGCACCTTCTAGTCCCTAAAAAGTAGGACAATTTC
*
143253 CTTTATTAAAGCCCACACAAGCT-AGAGGCCCCTTCTAGTCC
1 CTTT-TTAAAGCCCACACAAG-TGAGAGGCACCTTCTAGTCC
143294 TCAAAGAGCA
Statistics
Matches: 89, Mismatches: 6, Indels: 10
0.85 0.06 0.10
Matches are distributed among these distances:
58 4 0.04
59 35 0.39
60 6 0.07
61 44 0.49
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (60 bp):
CTTTTTAAAGCCCACACAAGTGAGAGGCACCTTCTAGTCCCTAAAAAGTAGGACAATTTC
Found at i:143962 original size:48 final size:51
Alignment explanation
Indices: 143874--144041 Score: 182
Period size: 48 Copynumber: 3.4 Consensus size: 51
143864 GATACATCCT
** ** * *
143874 TCATTGTATCGATACATTCTGGGTT-TTACCCAGATGTATTGATACATTTT
1 TCATTGTATTAATACATTCTGGGTTAAAACCTAGATGTATTGATACATTTC
143924 TCATTGTATTAATA-A-TCTGGG-TAAAACCTAGATGTATTGATACATTTC
1 TCATTGTATTAATACATTCTGGGTTAAAACCTAGATGTATTGATACATTTC
** * *** *
143972 TCATTGTAACAATACATTTTGGGTTTTGACCTAGATGTATCGATACATTTC
1 TCATTGTATTAATACATTCTGGGTTAAAACCTAGATGTATTGATACATTTC
*
144023 TCAATGTATTAATACATTC
1 TCATTGTATTAATACATTC
144042 AGGCATTTTT
Statistics
Matches: 97, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
47 1 0.01
48 39 0.40
49 2 0.02
50 17 0.18
51 38 0.39
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.42
Consensus pattern (51 bp):
TCATTGTATTAATACATTCTGGGTTAAAACCTAGATGTATTGATACATTTC
Found at i:146801 original size:79 final size:78
Alignment explanation
Indices: 146390--146799 Score: 344
Period size: 79 Copynumber: 5.2 Consensus size: 78
146380 TTTCATTCAT
* *
146390 GATTTTATTTCTAAAATACCAATTTTCCACCATCAGGGATACTCCAACC-CTGTTA-TTTCGGAG
1 GATTTTATTTCTAAAACACCAATTTTCTACCATC-GGGATACTCCAACCTC-GTTATTTTC-GAG
*
146453 GGGATAGTCCAA-CCC
63 GGGATACTCCAACCCC
* * * * *
146468 TAGTTTTATTTATAAAACACCAATTTCCTACCATCGAGGATACTCCAACCCCGTTGTTTTCGAGG
1 GA-TTTTATTTCTAAAACACCAATTTTCTACCATCG-GGATACTCCAACCTCGTTATTTTCGAGG
**
146533 GGATACTCCAACCTT
64 GGATACTCCAACCCC
* ** * * * * * *
146548 GGTTTTATTT-TCAAAACACTGATTTTTTGCAATTGGGAATACTCTAACCTTGTTATTTTCGAGG
1 GATTTTATTTCT-AAAACACCAATTTTCTACCATCGGG-ATACTCCAACCTCGTTATTTTCGAGG
*
146612 GGATACTCCAACCAC
64 GGATACTCCAACCCC
** * * * * * * * * * * **
146627 GGCTTTATTTTTAAAACATCGATTTTCCACAATTAGGGACATTCTAACCTTGTTATTTTTTA-GG
1 GATTTTATTTCTAAAACACCAATTTTCTACCA-TCGGGATACTCCAACCTCGTTATTTTCGAGGG
146691 GATACTCCAACCCC
65 GATACTCCAACCCC
* * *
146705 GATTTTATTTCTAAAATACCAATTTTTTACCATCGGAGATATTCCAACCTCGTTATTTTCGAGGG
1 GATTTTATTTCTAAAACACCAATTTTCTACCATCGG-GATACTCCAACCTCGTTATTTTCGAGGG
*
146770 GATATTCCAACCCC
65 GATACTCCAACCCC
* *
146784 CATTTTGTTTCTAAAA
1 GATTTTATTTCTAAAA
146800 TATTGACTTT
Statistics
Matches: 267, Mismatches: 54, Indels: 21
0.78 0.16 0.06
Matches are distributed among these distances:
77 3 0.01
78 63 0.24
79 190 0.71
80 11 0.04
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.36
Consensus pattern (78 bp):
GATTTTATTTCTAAAACACCAATTTTCTACCATCGGGATACTCCAACCTCGTTATTTTCGAGGGG
ATACTCCAACCCC
Found at i:159046 original size:11 final size:11
Alignment explanation
Indices: 159030--159060 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
159020 TAGATAATAA
159030 TTTTTATTTAT
1 TTTTTATTTAT
159041 TTTTTATTTAT
1 TTTTTATTTAT
*
159052 TTTTAATTT
1 TTTTTATTT
159061 TCAAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTTATTTAT
Found at i:159195 original size:140 final size:143
Alignment explanation
Indices: 159039--159412 Score: 402
Period size: 151 Copynumber: 2.6 Consensus size: 143
159029 ATTTTTATTT
* *
159039 ATTTTTTATTT--ATTTTTAATTTTCAAAATATTCATTTCGTACC-TAATGGAAAATCGAAAAGA
1 ATTTTTTATTTAGATTTTTAATTTTCAAAAAATTCATTTTGTACCTTAATGGAAAATCGAAAAGA
* * * **
159101 TATGAAAAGTTTTAAAATTTTTCAGATCCCTACGGATGCCAATAGGAATATCAAAAATTTCGACT
66 TATGAAAAGTTTTAAAATTTTTCAGACCCCTACGGATACCAATAGGAATATCAAAAATTTCAAAA
159166 AATTAGGATAATA
131 AATTAGGATAATA
* *
159179 ATTTTTATTTAGTTTTTATTTGATTTTTAATTTTTAAAAAATTCATTTTATACCTTAATGGAAAA
1 A--TTT-TTTA---TTTA---GATTTTTAATTTTCAAAAAATTCATTTTGTACCTTAATGGAAAA
* ** * * * * * * *
159244 CCGAAAAG-TACAAAAATTTTTAAAAATTTTCATACCCCTATGGATACCCATAGGAATATTAGAA
57 TCGAAAAGATATGAAAAGTTTTAAAATTTTTCAGACCCCTACGGATACCAATAGGAATATCAAAA
*
159308 ATTTCAAAAAATTGGGATAATA
122 ATTTCAAAAAATTAGGATAATA
* * *
159330 A-TTTTTATTT-GATTTTTAATTTTCAAAAAATTCATTTTGTACCTTAATGAAAAATCAAAAAAA
1 ATTTTTTATTTAGATTTTTAATTTTCAAAAAATTCATTTTGTACCTTAATGGAAAATCGAAAAGA
159393 TATGAAAAG-TTTAAATATTT
66 TATGAAAAGTTTTAAA-ATTT
159413 CTATACCCTT
Statistics
Matches: 190, Mismatches: 30, Indels: 27
0.77 0.12 0.11
Matches are distributed among these distances:
140 53 0.28
141 9 0.05
142 3 0.02
143 4 0.02
144 3 0.02
146 3 0.02
147 4 0.02
148 2 0.01
151 92 0.48
152 17 0.09
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (143 bp):
ATTTTTTATTTAGATTTTTAATTTTCAAAAAATTCATTTTGTACCTTAATGGAAAATCGAAAAGA
TATGAAAAGTTTTAAAATTTTTCAGACCCCTACGGATACCAATAGGAATATCAAAAATTTCAAAA
AATTAGGATAATA
Found at i:159283 original size:151 final size:149
Alignment explanation
Indices: 158956--159347 Score: 495
Period size: 151 Copynumber: 2.6 Consensus size: 149
158946 TAGGGGATAG
*
158956 AAATGTTTTGAAAA-TTTCTATACCCCTATGGATACCATAGGAATATTAAAAATTTCAAAAAATT
1 AAAT-TTTTAAAAATTTTC-ATACCCCTATGGATACCATAGGAATATTAAAAATTTCAAAAAA-T
* * *
159020 TA-GATAATAATTTTTATTTATTTTTTATTTATTTTTAATTTTCAAAATATTCATTTCGTACCTA
63 TAGGATAATAATTTTTATTTAGTTTTTATTTATTTTTAATTTTCAAAAAATTCATTTCATACCTA
* **
159084 ATGGAAAATCGAAAAGATATGA
128 ATGGAAAACCGAAAAGATACAA
* * * * * * * * **
159106 AAAGTTTTAAAATTTTTCAGATCCCTACGGATGCCAATAGGAATATCAAAAATTTCGACTAATTA
1 AAATTTTTAAAAATTTTCATACCCCTATGGATACC-ATAGGAATATTAAAAATTTCAAAAAATTA
* *
159171 GGATAATAATTTTTATTTAGTTTTTATTTGATTTTTAATTTTTAAAAAATTCATTTTATACCTTA
65 GGATAATAATTTTTATTTAGTTTTTATTT-ATTTTTAATTTTCAAAAAATTCATTTCATACC-TA
159236 ATGGAAAACCGAAAAG-TACAA
128 ATGGAAAACCGAAAAGATACAA
* *
159257 AAATTTTTAAAAATTTTCATACCCCTATGGATACCCATAGGAATATTAGAAATTTCAAAAAATTG
1 AAATTTTTAAAAATTTTCATACCCCTATGGATA-CCATAGGAATATTAAAAATTTCAAAAAATTA
159322 GGATAATAATTTTTATTT-GATTTTTA
65 GGATAATAATTTTTATTTAG-TTTTTA
159348 ATTTTCAAAA
Statistics
Matches: 204, Mismatches: 31, Indels: 13
0.82 0.12 0.05
Matches are distributed among these distances:
149 23 0.11
150 57 0.28
151 105 0.51
152 19 0.09
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.41
Consensus pattern (149 bp):
AAATTTTTAAAAATTTTCATACCCCTATGGATACCATAGGAATATTAAAAATTTCAAAAAATTAG
GATAATAATTTTTATTTAGTTTTTATTTATTTTTAATTTTCAAAAAATTCATTTCATACCTAATG
GAAAACCGAAAAGATACAA
Found at i:159457 original size:140 final size:140
Alignment explanation
Indices: 159191--159448 Score: 315
Period size: 140 Copynumber: 1.9 Consensus size: 140
159181 TTTTATTTAG
* * ** *
159191 TTTTTATTTGATTTTTAATTTTTAAAAAATTCATTTTATACCTTAATGGAAAACCGAAAAGTACA
1 TTTTTATTTGATTTTTAATTTTCAAAAAATTCATTTTATACCTTAATGAAAAACAAAAAAATACA
* * * ** * * *
159256 AAAATTTTTAAAAATTTTCATACCCCTATGGATACCCATAGGAATATTAGAAATTTCAAAAAATT
66 AAAATGTTTAAAAATTTTCATACCCCTACGGACAAACATAGAAATAATAAAAATTTCAAAAAATT
159321 GGGATAATAA
131 GGGATAATAA
* *
159331 TTTTTATTTGATTTTTAATTTTCAAAAAATTCATTTTGTACCTTAATGAAAAATCAAAAAAATAT
1 TTTTTATTTGATTTTTAATTTTCAAAAAATTCATTTTATACCTTAATGAAAAA-CAAAAAAATAC
* * *
159396 GAAAA-GTTTAAATA-TTTCTATACCCTTACGGACAAACATA-AAATAATAAAAAT
65 AAAAATGTTTAAAAATTTTC-ATACCCCTACGGACAAACATAGAAATAATAAAAAT
159449 ATATAAAAAT
Statistics
Matches: 98, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
139 14 0.14
140 73 0.74
141 11 0.11
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (140 bp):
TTTTTATTTGATTTTTAATTTTCAAAAAATTCATTTTATACCTTAATGAAAAACAAAAAAATACA
AAAATGTTTAAAAATTTTCATACCCCTACGGACAAACATAGAAATAATAAAAATTTCAAAAAATT
GGGATAATAA
Found at i:160239 original size:24 final size:23
Alignment explanation
Indices: 160202--160247 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
160192 TGCCTTGATT
160202 TTTCTTTTTTTCTCTATTTTTTC
1 TTTCTTTTTTTCTCTATTTTTTC
*
160225 TTTCTTTTTTCTCTCTCTTTTTT
1 TTTCTTTTTT-TCTCTATTTTTT
160248 TTCACTTGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTCTTTTTTTCTCTATTTTTTC
Found at i:160245 original size:11 final size:11
Alignment explanation
Indices: 160207--160246 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
160197 TGATTTTTCT
*
160207 TTTTTTCTCTA
1 TTTTTTCTCTC
*
160218 TTTTTTCTTTC
1 TTTTTTCTCTC
160229 TTTTTTCTCTC
1 TTTTTTCTCTC
160240 TCTTTTT
1 T-TTTTT
160247 TTTCACTTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
11 20 0.80
12 5 0.20
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTTTCTCTC
Found at i:160245 original size:22 final size:23
Alignment explanation
Indices: 160202--160250 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
160192 TGCCTTGATT
*
160202 TTTCTTTTTTTCTCTATTTTTTC
1 TTTCTTTTTTTCTCTATCTTTTC
* *
160225 TTTC-TTTTTTCTCTCTCTTTTT
1 TTTCTTTTTTTCTCTATCTTTTC
160247 TTTC
1 TTTC
160251 ACTTGCCCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTCTTTTTTTCTCTATCTTTTC
Found at i:165860 original size:23 final size:20
Alignment explanation
Indices: 165833--165887 Score: 56
Period size: 23 Copynumber: 2.6 Consensus size: 20
165823 CACAAGCTTG
165833 TGTATCGATACAAATCTATGAAA
1 TGTATCGATACAAAT-TATG--A
* **
165856 TGTATCAATACCCATTATGA
1 TGTATCGATACAAATTATGA
165876 TGTATCGATACA
1 TGTATCGATACA
165888 TAGCCTTGGT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 11 0.41
22 4 0.15
23 12 0.44
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (20 bp):
TGTATCGATACAAATTATGA
Found at i:168757 original size:91 final size:92
Alignment explanation
Indices: 168646--168835 Score: 339
Period size: 91 Copynumber: 2.1 Consensus size: 92
168636 AAATGTTCAA
* *
168646 ATAC-ATTGAAAAATGTATCGATACATTTCTGTCAAAACTCAAAATGTATCGATATAATAAGAAA
1 ATACAATTGAAAAATGTATCGATACATTTATGTCAAAACTCAAAATGCATCGATATAATAAGAAA
168710 TGTATCAAAAAAATTTCTTATGTATCG
66 TGTATCAAAAAAATTTCTTATGTATCG
*
168737 ATA-AATTGAAAAATGTATCGATACATTTATGTCAAAACTCAAAATGCATCGATATAATGAGAAA
1 ATACAATTGAAAAATGTATCGATACATTTATGTCAAAACTCAAAATGCATCGATATAATAAGAAA
168801 TGTATCAAAAAAATTTCTTATGTATCG
66 TGTATCAAAAAAATTTCTTATGTATCG
168828 ATACAATT
1 ATACAATT
168836 TCCTTCCAGA
Statistics
Matches: 94, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
91 90 0.96
92 4 0.04
ACGTcount: A:0.45, C:0.12, G:0.11, T:0.33
Consensus pattern (92 bp):
ATACAATTGAAAAATGTATCGATACATTTATGTCAAAACTCAAAATGCATCGATATAATAAGAAA
TGTATCAAAAAAATTTCTTATGTATCG
Found at i:168930 original size:21 final size:19
Alignment explanation
Indices: 168888--168930 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
168878 GCATGTATCG
*
168888 ATACATTACTTATGTATCA
1 ATACATTACTTATGTATAA
*
168907 ATACATTGCCTTATTGTATAA
1 ATACATT-ACTTA-TGTATAA
168928 ATA
1 ATA
168931 TAAATTATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 7 0.35
20 4 0.20
21 9 0.45
ACGTcount: A:0.37, C:0.14, G:0.07, T:0.42
Consensus pattern (19 bp):
ATACATTACTTATGTATAA
Found at i:172322 original size:17 final size:16
Alignment explanation
Indices: 172299--172357 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 16
172289 TTTTCTAATT
172299 TTTTTCTCTTTTCTTC
1 TTTTTCTCTTTTCTTC
172315 TATTTTCTCTTGCTT-TTC
1 T-TTTTCTCTT--TTCTTC
*
172333 TTTCTCTCTTTTCTTTC
1 TTTTTCTCTTTTC-TTC
172350 TTCTTTCT
1 TT-TTTCT
172358 TCGGCAGCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
15 2 0.06
16 1 0.03
17 22 0.63
18 8 0.23
19 2 0.06
ACGTcount: A:0.02, C:0.25, G:0.02, T:0.71
Consensus pattern (16 bp):
TTTTTCTCTTTTCTTC
Found at i:172345 original size:13 final size:12
Alignment explanation
Indices: 172308--172355 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 12
172298 TTTTTTCTCT
172308 TTTCTTCTATTT-
1 TTTCTTCT-TTTC
*
172320 TCTCTTGCTTTTC
1 TTTCTT-CTTTTC
172333 TTTCTCTCTTTTC
1 TTTCT-TCTTTTC
172346 TTTCTTCTTT
1 TTTCTTCTTT
172356 CTTCGGCAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
12 13 0.42
13 17 0.55
14 1 0.03
ACGTcount: A:0.02, C:0.25, G:0.02, T:0.71
Consensus pattern (12 bp):
TTTCTTCTTTTC
Found at i:173069 original size:151 final size:149
Alignment explanation
Indices: 172878--173173 Score: 400
Period size: 149 Copynumber: 2.0 Consensus size: 149
172868 TGATGAATTT
* * *
172878 TAAAAATTGAAAACTAAGAAAAATCCCCTCGAAAAAAATTACAAAGTA-AAAAAATATCGTATTT
1 TAAAAATTGAAAACCAAGAAAAATCCCCCCAAAAAAAATTACAAAGTAGAAAAAAT-T-GTATTT
*
172942 CAAAAAAAGGAA-AATTTCAAAGAAAAAATTTAAAAACTCATGAAAATGAATGAAT-TGTTGAAA
64 CAAAAAAA-GAAGAATTTCAAAGAAAAAA-TCAAAAACTCATGAAAATGAATGAATAT-TTGAAA
*
173005 ATTGAATTAATATGAAATAAATGA
126 ACTGAATTAATATGAAATAAATGA
* * * *
173029 TAAAAATTGAAAACCAAGAAAAATCCCCCCAAAAAAAATTACAGAGTAGAGAACATTGTATTTTA
1 TAAAAATTGAAAACCAAGAAAAATCCCCCCAAAAAAAATTACAAAGTAGAAAAAATTGTATTTCA
* * * *
173094 GAAAAAGAAGAATTTCAAGGAAAAAATCAAAAACTCATGAAAATGAATTAATATTTGCAAACTGA
66 AAAAAAGAAGAATTTCAAAGAAAAAATCAAAAACTCATGAAAATGAATGAATATTTGAAAACTGA
*
173159 TTTAATATGAAATAA
131 ATTAATATGAAATAA
173174 TAATATTTGA
Statistics
Matches: 128, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
149 50 0.39
150 28 0.22
151 45 0.35
152 5 0.04
ACGTcount: A:0.55, C:0.09, G:0.11, T:0.24
Consensus pattern (149 bp):
TAAAAATTGAAAACCAAGAAAAATCCCCCCAAAAAAAATTACAAAGTAGAAAAAATTGTATTTCA
AAAAAAGAAGAATTTCAAAGAAAAAATCAAAAACTCATGAAAATGAATGAATATTTGAAAACTGA
ATTAATATGAAATAAATGA
Found at i:178278 original size:13 final size:13
Alignment explanation
Indices: 178260--178287 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
178250 ATACAAAGGT
178260 CAATGTATCGATA
1 CAATGTATCGATA
178273 CAATGTATCGATA
1 CAATGTATCGATA
178286 CA
1 CA
178288 TTTGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:178368 original size:19 final size:17
Alignment explanation
Indices: 178344--178402 Score: 54
Period size: 19 Copynumber: 3.5 Consensus size: 17
178334 ATACATTGAT
178344 TCGATACAAAACTTATGTA
1 TCGATAC-AAA-TTATGTA
178363 TCGATAC--A-T-TGTA
1 TCGATACAAATTATGTA
178376 TCGATACAACATTTATGTA
1 TCGATACAA-A-TTATGTA
178395 TCGATACA
1 TCGATACA
178403 GTTACAGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
13 11 0.32
14 1 0.03
16 2 0.06
18 1 0.03
19 19 0.56
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (17 bp):
TCGATACAAATTATGTA
Found at i:178373 original size:32 final size:32
Alignment explanation
Indices: 178332--178402 Score: 108
Period size: 32 Copynumber: 2.2 Consensus size: 32
178322 AGCTTCGTAA
178332 CGATACATTG-ATTCGATACAAAACTTATGTAT
1 CGATACATTGTA-TCGATACAAAACTTATGTAT
* *
178364 CGATACATTGTATCGATACAACATTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
178396 CGATACA
1 CGATACA
178403 GTTACAGTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 35 0.97
33 1 0.03
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:178377 original size:13 final size:13
Alignment explanation
Indices: 178359--178383 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
178349 ACAAAACTTA
178359 TGTATCGATACAT
1 TGTATCGATACAT
178372 TGTATCGATACA
1 TGTATCGATACA
178384 ACATTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:178417 original size:21 final size:18
Alignment explanation
Indices: 178371--178424 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 18
178361 TATCGATACA
*
178371 TTGTATCGATACAACATT
1 TTGTATCGATACAACAGT
178389 TATGTATCGATACAGTTACAGT
1 T-TGTATCGATACA---ACAGT
178411 TTGTATCGATACAA
1 TTGTATCGATACAA
178425 ATTGTTGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
18 2 0.06
19 12 0.39
21 12 0.39
22 5 0.16
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (18 bp):
TTGTATCGATACAACAGT
Found at i:180572 original size:20 final size:20
Alignment explanation
Indices: 180547--180599 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
180537 GTTACAAGCT
180547 ATGTATCGATACATT-T-CTTC
1 ATGTATCGATACATTGTAC--C
180567 ATGTATCGATACATTGTACC
1 ATGTATCGATACATTGTACC
180587 ATGTATCGATACA
1 ATGTATCGATACA
180600 AATAGTGATA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 29 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTGTACC
Found at i:180655 original size:21 final size:21
Alignment explanation
Indices: 180629--180686 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
180619 CTGCCAGTTT
180629 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAATTTGTC
180650 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAATTTGTC
*
180671 CATTTATCGATACAAT
1 CATGTATCGATACAAT
180687 GAACATGTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (21 bp):
CATGTATCGATACAATTTGTC
Found at i:180709 original size:13 final size:13
Alignment explanation
Indices: 180691--180717 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
180681 TACAATGAAC
180691 ATGTATCGATATA
1 ATGTATCGATATA
180704 ATGTATCGATATA
1 ATGTATCGATATA
180717 A
1 A
180718 AGCAGAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (13 bp):
ATGTATCGATATA
Found at i:181285 original size:17 final size:16
Alignment explanation
Indices: 181254--181311 Score: 62
Period size: 17 Copynumber: 3.5 Consensus size: 16
181244 GTTTTCGTTT
181254 TTCTCTCCTTAAAAAA
1 TTCTCTCCTTAAAAAA
*
181270 TTCTCTTCCTTTAAAAA
1 TTCTC-TCCTTAAAAAA
* *
181287 TTCTCCCCCTTAAATAA
1 TTCT-CTCCTTAAAAAA
*
181304 TTATCTCC
1 TTCTCTCC
181312 CCTTTTAACA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
16 8 0.24
17 25 0.74
18 1 0.03
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.41
Consensus pattern (16 bp):
TTCTCTCCTTAAAAAA
Found at i:181312 original size:19 final size:19
Alignment explanation
Indices: 181288--181328 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
181278 CTTTAAAAAT
*
181288 TCTCCCCCTTAAATAATTA
1 TCTCCCCCTTAAACAATTA
* *
181307 TCTCCCCTTTTAACAATTA
1 TCTCCCCCTTAAACAATTA
181326 TCT
1 TCT
181329 TCTCCCCCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.27, C:0.32, G:0.00, T:0.41
Consensus pattern (19 bp):
TCTCCCCCTTAAACAATTA
Found at i:183068 original size:20 final size:19
Alignment explanation
Indices: 183027--183066 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 19
183017 TTCTGTTGAT
183027 GATTTTGATGAAAAATGAAA
1 GATTTTGATGAAAAAT-AAA
183047 GATTTTGAAGTGAAAAATAA
1 GATTTTG-A-TGAAAAATAA
183067 GAAATTTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 3 0.17
22 8 0.44
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (19 bp):
GATTTTGATGAAAAATAAA
Found at i:183215 original size:13 final size:13
Alignment explanation
Indices: 183197--183221 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
183187 AGTACCCAAA
183197 GTATCGATACAAT
1 GTATCGATACAAT
183210 GTATCGATACAA
1 GTATCGATACAA
183222 GGAATGTTGT
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:0.16, G:0.16, T:0.28
Consensus pattern (13 bp):
GTATCGATACAAT
Found at i:189379 original size:33 final size:33
Alignment explanation
Indices: 189341--189407 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
189331 GTTACAAGCT
*
189341 ATGTATCGATACATTTCT-TCATGTATCGATACA
1 ATGTATCGATACATTT-TACCATGTATCGATACA
*
189374 ATGTATTGATACATTTTACCATGTATCGATACA
1 ATGTATCGATACATTTTACCATGTATCGATACA
189407 A
1 A
189408 ATAGTGATAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 1 0.03
33 30 0.97
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (33 bp):
ATGTATCGATACATTTTACCATGTATCGATACA
Found at i:189481 original size:19 final size:19
Alignment explanation
Indices: 189436--189492 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
189426 CTGCCAGTTT
**
189436 CATGTATCAATACAATTTGTC
1 CATGTATCAATACAA--TGAA
189457 CATGTATCAATACAATGAA
1 CATGTATCAATACAATGAA
*
189476 CATGTATCGATACAATG
1 CATGTATCAATACAATG
189493 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 18 0.55
21 15 0.45
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.32
Consensus pattern (19 bp):
CATGTATCAATACAATGAA
Found at i:189495 original size:13 final size:13
Alignment explanation
Indices: 189477--189503 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
189467 TACAATGAAC
189477 ATGTATCGATACA
1 ATGTATCGATACA
189490 ATGTATCGATACA
1 ATGTATCGATACA
189503 A
1 A
189504 AGCAGAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:190971 original size:20 final size:19
Alignment explanation
Indices: 190946--191034 Score: 103
Period size: 20 Copynumber: 4.7 Consensus size: 19
190936 ATTTGCTTGC
*
190946 ATGTATAGATACATTGAATA
1 ATGTATCGATACATTG-ATA
*
190966 ATGTATCGATACA-T--CA
1 ATGTATCGATACATTGATA
190982 ATGTATCGATACATTGTATA
1 ATGTATCGATACATTG-ATA
*
191002 ATGTATCGATACACTGATAA
1 ATGTATCGATACATTGAT-A
191022 ATGTATCGATACA
1 ATGTATCGATACA
191035 AAACTTATGT
Statistics
Matches: 60, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
16 14 0.23
17 1 0.02
19 3 0.05
20 42 0.70
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (19 bp):
ATGTATCGATACATTGATA
Found at i:190986 original size:16 final size:16
Alignment explanation
Indices: 190965--190995 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
190955 TACATTGAAT
190965 AATGTATCGATACATC
1 AATGTATCGATACATC
190981 AATGTATCGATACAT
1 AATGTATCGATACAT
190996 TGTATAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (16 bp):
AATGTATCGATACATC
Found at i:190993 original size:36 final size:36
Alignment explanation
Indices: 190946--191014 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
190936 ATTTGCTTGC
190946 ATGTATAGATACATTGAATAATGTATCGATACATCA
1 ATGTATAGATACATTGAATAATGTATCGATACATCA
* *
190982 ATGTATCGATACATTGTATAATGTATCGATACA
1 ATGTATAGATACATTGAATAATGTATCGATACA
191015 CTGATAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (36 bp):
ATGTATAGATACATTGAATAATGTATCGATACATCA
Found at i:191128 original size:21 final size:21
Alignment explanation
Indices: 191104--191159 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
191094 GTTGGGACCT
*
191104 TGTATCGATGCATTCAAGAAA
1 TGTATCGATACATTCAAGAAA
191125 TGTATCGATACATTCAAGAAA
1 TGTATCGATACATTCAAGAAA
191146 TGTATCGATACATT
1 TGTATCGATACATT
191160 TAAAAAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (21 bp):
TGTATCGATACATTCAAGAAA
Found at i:192004 original size:52 final size:52
Alignment explanation
Indices: 191910--192067 Score: 194
Period size: 52 Copynumber: 3.0 Consensus size: 52
191900 TTGAAGATGA
* * * *
191910 TAAAGATGAGAA-AGATGCCAATATGCTGATTCAAGGCGAGTGATATTGGGCT
1 TAAAGATGAGAAGA-ATGCCAATGTGCTGATTCAAGGCCAGTGACATTAGGCT
* * * *
191962 TAAAGAT-ACGAAGAATGTCAATGTGCTAATTCACGGCCAGTGACATTAGTCT
1 TAAAGATGA-GAAGAATGCCAATGTGCTGATTCAAGGCCAGTGACATTAGGCT
* *
192014 TAAAGATGAGAAGAATGCCAATGTGCTGATTCAAGGCTAGCGACATTAGGCT
1 TAAAGATGAGAAGAATGCCAATGTGCTGATTCAAGGCCAGTGACATTAGGCT
192066 TA
1 TA
192068 GGAATGTTAA
Statistics
Matches: 89, Mismatches: 14, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
51 1 0.01
52 86 0.97
53 2 0.02
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (52 bp):
TAAAGATGAGAAGAATGCCAATGTGCTGATTCAAGGCCAGTGACATTAGGCT
Found at i:192082 original size:165 final size:164
Alignment explanation
Indices: 191686--192060 Score: 545
Period size: 165 Copynumber: 2.3 Consensus size: 164
191676 TGGACTTAAA
* * *
191686 AAAGATAAAGAGTGCCAATGTGCTGATTCAAGGCCAATGACATTGGATTTGAAGATGATAAGGAT
1 AAAGATAAAGAATGCCAATGTGCTGATTCAAGGCCAACGACATTGGATTTGAAGATGATAAAGAT
** * *
191751 GATTCAAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATATGAAGAATGTC
66 GATGAAAGATGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATACGAAGAATGTC
*
191816 AATGTGCTAATTCATGGCCAGCGACATTAATCTT
131 AATGTGCTAATTCACGGCCAGCGACATTAATCTT
* * * *
191850 GAAGAAAAAAAGATTACCAATGTGCTGATTCAAGGCCAACGACATTGGATTTGAAGATGATAAAG
1 -AA-AGATAAAGAATGCCAATGTGCTGATTCAAGGCCAACGACATTGGATTTGAAGATGATAAAG
* *
191915 ATGA-GAAAGATGCCAATATGCTGATTCAAGGCGAGTGATATTGGGCTTAAAGATACGAAGAATG
64 ATGATGAAAGATGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATACGAAGAATG
* *
191979 TCAATGTGCTAATTCACGGCCAGTGACATTAGTCTT
129 TCAATGTGCTAATTCACGGCCAGCGACATTAATCTT
* *
192015 AAAGATGAGAAGAATGCCAATGTGCTGATTCAAGGCTAGCGACATT
1 AAAGAT-A-AAGAATGCCAATGTGCTGATTCAAGGCCAACGACATT
192061 AGGCTTAGGA
Statistics
Matches: 186, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
163 2 0.01
164 3 0.02
165 122 0.66
166 59 0.32
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (164 bp):
AAAGATAAAGAATGCCAATGTGCTGATTCAAGGCCAACGACATTGGATTTGAAGATGATAAAGAT
GATGAAAGATGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATACGAAGAATGTC
AATGTGCTAATTCACGGCCAGCGACATTAATCTT
Found at i:192084 original size:52 final size:51
Alignment explanation
Indices: 191924--192106 Score: 163
Period size: 52 Copynumber: 3.5 Consensus size: 51
191914 GATGAGAAAG
* * * * *
191924 ATGCCAATATGCTGATTCAAGGCGAGTGATATTGGGCTTAAAGATACGAAGA
1 ATGCCAATGTGCTGATTCAAGGCCAGTGACATTAGGCTTAAAGTTA-GAAGA
* * * * *
191976 ATGTCAATGTGCTAATTCACGGCCAGTGACATTAGTCTTAAAGATGAGAAGA
1 ATGCCAATGTGCTGATTCAAGGCCAGTGACATTAGGCTTAAAG-TTAGAAGA
* *
192028 ATGCCAATGTGCTGATTCAAGGCTAGCGACATTAGGCTTAGGAATGTTA-AAG-
1 ATGCCAATGTGCTGATTCAAGGCCAGTGACATTAGGCTTA--AA-GTTAGAAGA
* * * *
192080 ATGCCAATATGGTAATTTAAGGCCAGT
1 ATGCCAATGTGCTGATTCAAGGCCAGT
192107 AATATCAGAC
Statistics
Matches: 104, Mismatches: 23, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
52 95 0.91
53 4 0.04
54 4 0.04
55 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (51 bp):
ATGCCAATGTGCTGATTCAAGGCCAGTGACATTAGGCTTAAAGTTAGAAGA
Found at i:192096 original size:104 final size:103
Alignment explanation
Indices: 191910--192126 Score: 233
Period size: 104 Copynumber: 2.1 Consensus size: 103
191900 TTGAAGATGA
* * *
191910 TAAAGATGAGAAAGATGCCAATATGCTGATTCAAGGCGAGTGATATTGGGCTTAAAGATACGAAG
1 TAAAGATGAGAAAGATGCCAATATGCTGATTCAAGGCGAGCGACATTAGGCTTAAAGATAC-AAG
* * * * * *
191975 AATGTCAATGTGCTAATTCACGGCCAGTGACATTAGTCT
65 AATGCCAATATGCTAATTCAAGGCCAGTAACATCAGACT
* * *
192014 TAAAGATGAG-AAGAATGCCAATGTGCTGATTCAAGGCTAGCGACATTAGGCTTAGGAATGTTA-
1 TAAAGATGAGAAAG-ATGCCAATATGCTGATTCAAGGCGAGCGACATTAGGCTTA--AA-GATAC
* * *
192077 AAG-ATGCCAATATGGTAATTTAAGGCCAGTAATATCAGACT
62 AAGAATGCCAATATGCTAATTCAAGGCCAGTAACATCAGACT
192118 TAAAGATGA
1 TAAAGATGA
192127 TGGTGCCTAT
Statistics
Matches: 94, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
103 3 0.03
104 83 0.88
105 3 0.03
106 2 0.02
107 3 0.03
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.26
Consensus pattern (103 bp):
TAAAGATGAGAAAGATGCCAATATGCTGATTCAAGGCGAGCGACATTAGGCTTAAAGATACAAGA
ATGCCAATATGCTAATTCAAGGCCAGTAACATCAGACT
Found at i:192269 original size:43 final size:43
Alignment explanation
Indices: 192185--192272 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
192175 AGAAGGATGA
* * * *
192185 TAAAGGTGCCGATATGCTGATTCAATGCCAGCGATATTGGACT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACACTGGACT
* * * *
192228 TAAAGGTGCCAATGTGCTTATTCAAGGTCAGCGCCACTGGACT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACACTGGACT
192271 TA
1 TA
192273 GAAAGAGATG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (43 bp):
TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACACTGGACT
Found at i:192487 original size:32 final size:32
Alignment explanation
Indices: 192340--192681 Score: 211
Period size: 32 Copynumber: 10.7 Consensus size: 32
192330 TAGAAGGAGA
* *
192340 TGCCACCAACTTGTGTGGGCTTTTGAAA-GGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAATGGT
* * * *
192371 TGCCACGGACTTGTATGGACTTTA-AGAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGA-AATGGT
** * * *
192403 CACCACCAATTTGTGTGGGCTTT-GAAGAAGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAA-ATGGT
* * * *
192435 TGCGACC-AGCTTATGCGGGCTTCAGAAATGGT
1 TGCCACCGA-CTTGTGTGGGCTTTAGAAATGGT
*
192467 TGCCACTGACTTGTGTGGGCTTTAGAAA-GAGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAATG-GT
* * *
192499 CGCCACCAACTTGTGTAGGG-TTT-GAAGAAGGT
1 TGCCACCGACTTGTGT-GGGCTTTAGAA-ATGGT
* * * *
192531 TGCTACC-AGCTTATGTGGGCTTTGGAAAGGGT
1 TGCCACCGA-CTTGTGTGGGCTTTAGAAATGGT
**
192563 TGCCACCGACTTGTGTGGGCTTTAGAAATACT
1 TGCCACCGACTTGTGTGGGCTTTAGAAATGGT
* * * *
192595 CGCCACC-ATCTTGTATGGGCTCT-GAAAAAGGT
1 TGCCACCGA-CTTGTGTGGGCTTTAG-AAATGGT
* * * *
192627 TGCCACCTAGCTTGTCT-AGCTTTAGAAAGGGT
1 TGCCACCGA-CTTGTGTGGGCTTTAGAAATGGT
*
192659 TGCCATCGACTTGTGTGGGCTTT
1 TGCCACCGACTTGTGTGGGCTTT
192682 GAAGAAGGTT
Statistics
Matches: 236, Mismatches: 55, Indels: 39
0.72 0.17 0.12
Matches are distributed among these distances:
30 1 0.00
31 39 0.17
32 176 0.75
33 20 0.08
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (32 bp):
TGCCACCGACTTGTGTGGGCTTTAGAAATGGT
Found at i:192532 original size:96 final size:96
Alignment explanation
Indices: 192340--192681 Score: 379
Period size: 96 Copynumber: 3.6 Consensus size: 96
192330 TAGAAGGAGA
* * * * * * * *
192340 TGCCACCAACTTGTGTGGGCTTTTGAAA-GGTTGCCACGGACTTGTATGGACTTTA-AGAAGGGT
1 TGCCACCAGCTTATGCGGGCTTTAGAAAGGGTTGCCACTGACTTGTGTGGGCTTTAGA-AAGAGT
* *
192403 CACCACCAATTTGTGTGGGCTTTGAAGAAGGT
65 CGCCACCAACTTGTGTGGGCTTTGAAGAAGGT
* * *
192435 TGCGACCAGCTTATGCGGGCTTCAGAAATGGTTGCCACTGACTTGTGTGGGCTTTAGAAAGAGTC
1 TGCCACCAGCTTATGCGGGCTTTAGAAAGGGTTGCCACTGACTTGTGTGGGCTTTAGAAAGAGTC
192500 GCCACCAACTTGTGTAGGG-TTTGAAGAAGGT
66 GCCACCAACTTGTGT-GGGCTTTGAAGAAGGT
* * * * * *
192531 TGCTACCAGCTTATGTGGGCTTTGGAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAATACTC
1 TGCCACCAGCTTATGCGGGCTTTAGAAAGGGTTGCCACTGACTTGTGTGGGCTTTAGAAAGAGTC
* * * *
192596 GCCACCATCTTGTATGGGCTCTGAAAAAGGT
66 GCCACCAACTTGTGTGGGCTTTGAAGAAGGT
* **
192627 TGCCACCTAGCTTGT-CTAGCTTTAGAAAGGGTTGCCA-TCGACTTGTGTGGGCTTT
1 TGCCACC-AGCTTATGCGGGCTTTAGAAAGGGTTGCCACT-GACTTGTGTGGGCTTT
192682 GAAGAAGGTT
Statistics
Matches: 210, Mismatches: 31, Indels: 11
0.83 0.12 0.04
Matches are distributed among these distances:
95 25 0.12
96 175 0.83
97 10 0.05
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (96 bp):
TGCCACCAGCTTATGCGGGCTTTAGAAAGGGTTGCCACTGACTTGTGTGGGCTTTAGAAAGAGTC
GCCACCAACTTGTGTGGGCTTTGAAGAAGGT
Found at i:192940 original size:28 final size:28
Alignment explanation
Indices: 192861--192941 Score: 112
Period size: 28 Copynumber: 2.9 Consensus size: 28
192851 TATATATAGC
*
192861 AAGTGCCACTGA-TTGTGGAC-TTCAAA
1 AAGTGCCACTGACTTGTGGACTTTGAAA
192887 AAGATGCCACTGACTTGTGGACTTTGAAA
1 AAG-TGCCACTGACTTGTGGACTTTGAAA
* *
192916 AAGTGCCACTGACTAGTGGGCTTTGA
1 AAGTGCCACTGACTTGTGGACTTTGA
192942 GAAGGGATTC
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
26 3 0.06
27 9 0.18
28 29 0.59
29 8 0.16
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (28 bp):
AAGTGCCACTGACTTGTGGACTTTGAAA
Found at i:194289 original size:8 final size:8
Alignment explanation
Indices: 194276--194357 Score: 74
Period size: 8 Copynumber: 11.4 Consensus size: 8
194266 TCTTTTTTTA
194276 TTTGTTGT
1 TTTGTTGT
194284 TTTGTTGT
1 TTTGTTGT
194292 TTTGTTGT
1 TTTGTTGT
*
194300 TTTTTTGT
1 TTTGTTGT
194308 TTT-TTGT
1 TTTGTTGT
*
194315 TTT-TT-A
1 TTTGTTGT
194321 TTTGTT-T
1 TTTGTTGT
194328 TTTG--GT
1 TTTGTTGT
*
194334 TTTTTTGT
1 TTTGTTGT
194342 TTT-TT-T
1 TTTGTTGT
194348 TTTG-TGT
1 TTTGTTGT
194355 TTT
1 TTT
194358 TTTTTACAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
6 12 0.19
7 21 0.33
8 31 0.48
ACGTcount: A:0.01, C:0.00, G:0.17, T:0.82
Consensus pattern (8 bp):
TTTGTTGT
Found at i:194340 original size:45 final size:44
Alignment explanation
Indices: 194268--194362 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 44
194258 TTCTTCCCTC
*
194268 TTTTTTTATTTGTTGTTTTGTTGTTTTGTTGTTTTTTTGTTTTT
1 TTTTTTTATTTGTTGTTTTGTTGTTTTGTTGTTTTTTTGTGTTT
* *
194312 TGTTTTTTATTTGTT-TTTTGGTTTTTTTGTTTTTTTTTTGTGTTT
1 T-TTTTTTATTTGTTGTTTT-GTTGTTTTGTTGTTTTTTTGTGTTT
194357 TTTTTT
1 TTTTTT
194363 ACAAAGGACA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
44 10 0.22
45 36 0.78
ACGTcount: A:0.02, C:0.00, G:0.15, T:0.83
Consensus pattern (44 bp):
TTTTTTTATTTGTTGTTTTGTTGTTTTGTTGTTTTTTTGTGTTT
Found at i:194357 original size:11 final size:11
Alignment explanation
Indices: 194299--194361 Score: 56
Period size: 11 Copynumber: 5.6 Consensus size: 11
194289 TGTTTTGTTG
*
194299 TTTTTTTGTTT
1 TTTTTTTGTGT
* *
194310 TTTGTTTTTTAT
1 TTT-TTTTGTGT
*
194322 TTGTTTTT-TGG
1 TT-TTTTTGTGT
*
194333 TTTTTTTGTTT
1 TTTTTTTGTGT
194344 TTTTTTTGTGT
1 TTTTTTTGTGT
194355 TTTTTTT
1 TTTTTTT
194362 TACAAAGGAC
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
10 5 0.12
11 24 0.57
12 12 0.29
13 1 0.02
ACGTcount: A:0.02, C:0.00, G:0.13, T:0.86
Consensus pattern (11 bp):
TTTTTTTGTGT
Found at i:204640 original size:33 final size:33
Alignment explanation
Indices: 204603--204669 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
204593 TTCAACGATT
204603 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
204636 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
204669 T
1 T
204670 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:204641 original size:13 final size:13
Alignment explanation
Indices: 204623--204647 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
204613 CATAAAATGT
204623 TGTATCGATACAA
1 TGTATCGATACAA
204636 TGTATCGATACA
1 TGTATCGATACA
204648 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:204729 original size:13 final size:13
Alignment explanation
Indices: 204711--204735 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
204701 ATTACTCAAA
204711 TGTATCGATACAT
1 TGTATCGATACAT
204724 TGTATCGATACA
1 TGTATCGATACA
204736 CCGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:204800 original size:52 final size:52
Alignment explanation
Indices: 204744--204864 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
204734 CACCGATCTT
*
204744 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
204796 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
204848 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
204865 ATAAATTTTC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:212061 original size:13 final size:12
Alignment explanation
Indices: 212039--212075 Score: 56
Period size: 13 Copynumber: 2.9 Consensus size: 12
212029 TTCCAAACAC
212039 AAAAAAAAAAAG
1 AAAAAAAAAAAG
212051 AAAAGAAAAAAAG
1 AAAA-AAAAAAAG
212064 AAAAAAACAAAA
1 AAAAAAA-AAAA
212076 CAGAAAATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.30
13 16 0.70
ACGTcount: A:0.89, C:0.03, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:212061 original size:15 final size:14
Alignment explanation
Indices: 212039--212082 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
212029 TTCCAAACAC
212039 AAAAAAAAAAAG-A
1 AAAAAAAAAAAGAA
*
212052 AAAGAAAAAAAGAA
1 AAAAAAAAAAAGAA
*
212066 AAAAACAAAACAGAA
1 AAAAA-AAAAAAGAA
212081 AA
1 AA
212083 TCTCGGTGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 11 0.42
14 5 0.19
15 10 0.38
ACGTcount: A:0.86, C:0.05, G:0.09, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAGAA
Found at i:213104 original size:31 final size:31
Alignment explanation
Indices: 213066--213666 Score: 258
Period size: 34 Copynumber: 18.7 Consensus size: 31
213056 ATACCTTCTT
*
213066 AAAGTCCATGACTCCGTGGCACCTTCTTTTC
1 AAAGTCCACGACTCCGTGGCACCTTCTTTTC
*
213097 AAAGTCCACGACTCAGTGGCATCCTT-TTCTTC
1 AAAGTCCACGACTCCGTGGCA-CCTTCTT-TTC
* * **
213129 AAAGTCCACGACTCAGTGGCA-ATCTCTGCTC
1 AAAGTCCACGACTCCGTGGCACCT-TCTTTTC
*
213160 AAAGTCCACGACTCCGTGGCACCTTCCTTTC
1 AAAGTCCACGACTCCGTGGCACCTTCTTTTC
* *
213191 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT-
1 AAAGTCCACGACTCCGTGGCAC-C---TT--CTTTTC
213227 AAAGTCCACGACTCCGTGGCACCTTCTTTTC
1 AAAGTCCACGACTCCGTGGCACCTTCTTTTC
* *
213258 AAAGCCCACAACTCCGTGGCACC--CTTTT-
1 AAAGTCCACGACTCCGTGGCACCTTCTTTTC
* *
213286 -AAGCCCACAACTCCGTGGCA-CTT-TTTTC
1 AAAGTCCACGACTCCGTGGCACCTTCTTTTC
*
213314 ATCTTTAAGTCCACAACTCCGTGGCACC--C--TTC
1 A-----AAGTCCACGACTCCGTGGCACCTTCTTTTC
* * * *
213346 TAAGCCCACAACTTCGTGGCA-CTT-TTTTC
1 AAAGTCCACGACTCCGTGGCACCTTCTTTTC
* * *
213375 ATCTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTT
1 A-----AAGTCCACGACTCCGTGGCACCTTCTT--TTC
* * * **
213413 TAAGTCCACAACTCAGTGGCACCTTCTCATC
1 AAAGTCCACGACTCCGTGGCACCTTCTTTTC
*
213444 AAAGCCCAC-AGCTCCGTGGCA-C-TCTTTTCCC
1 AAAGTCCACGA-CTCCGTGGCACCTTCTTTT--C
* * * *
213475 GTTTAAGACCACAACTCCGTGGCACCTTTTTCTTTTT
1 ---AAAGTCCACGACTCCGTGGCACC---TTCTTTTC
* *
213512 AAAGCCCAC-AGCTCCATGGCACTCTTTTTCCCTTTTC
1 AAAGTCCACGA-CTCCGTGGCAC-C---TT--CTTTTC
* *
213549 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTC
1 AAAGTCCACGACTCCGTGGCACC---TTCTTTTC
* * *
213583 AAAGCCCACAACTCTGTGGCACC--CTTTT-
1 AAAGTCCACGACTCCGTGGCACCTTCTTTTC
* * *
213611 -AAGCCCACAACTCCGTGGCACTCTTTTTCCTTC
1 AAAGTCCACGACTCCGTGGCAC-CTTCTT--TTC
* * *
213644 TAAGTCCACAACTCCATGGCACC
1 AAAGTCCACGACTCCGTGGCACC
213667 CTTTTAATGC
Statistics
Matches: 461, Mismatches: 49, Indels: 118
0.73 0.08 0.19
Matches are distributed among these distances:
26 2 0.00
27 62 0.13
28 1 0.00
29 17 0.04
30 10 0.02
31 107 0.23
32 38 0.08
33 26 0.06
34 118 0.26
35 15 0.03
36 28 0.06
37 28 0.06
38 3 0.01
39 6 0.01
ACGTcount: A:0.21, C:0.35, G:0.14, T:0.30
Consensus pattern (31 bp):
AAAGTCCACGACTCCGTGGCACCTTCTTTTC
Found at i:213165 original size:63 final size:62
Alignment explanation
Indices: 213061--213283 Score: 184
Period size: 67 Copynumber: 3.5 Consensus size: 62
213051 TTCAAATACC
* **
213061 TTCTT-AAAGTCCATGACTCCGTGGC-ACCTTCTTTTCAAAGTCCACGACTCAGTGGCATCCTT
1 TTCTTCAAAGTCCACGACTCCGTGGCAACCTTCTGCTCAAAGTCCACGACTCAGTGGCA-CC-T
* * *
213123 TTCTTCAAAGTCCACGACTCAGTGGCAATC-TCTGCTCAAAGTCCACGACTCCGTGGCACCT
1 TTCTTCAAAGTCCACGACTCCGTGGCAACCTTCTGCTCAAAGTCCACGACTCAGTGGCACCT
* * * * * * *
213184 TCCTTTCAAAGCCCACAACTCCGTGGC-ACTCTTTTTCCCTTTTAAAGTCCACGACTCCGTGGCA
1 TTC-TTCAAAGTCCACGACTCCGTGGCAAC-C-TTCT-GC--TCAAAGTCCACGACTCAGTGGCA
213248 CCT
60 CCT
* * * *
213251 TCTTTTCAAAGCCCACAACTCCGTGGCACCCTT
1 T-TCTTCAAAGTCCACGACTCCGTGGCAACCTT
213284 TTAAGCCCAC
Statistics
Matches: 133, Mismatches: 17, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
61 4 0.03
62 28 0.21
63 43 0.32
64 4 0.03
65 1 0.01
66 2 0.02
67 50 0.38
68 1 0.01
ACGTcount: A:0.21, C:0.35, G:0.15, T:0.29
Consensus pattern (62 bp):
TTCTTCAAAGTCCACGACTCCGTGGCAACCTTCTGCTCAAAGTCCACGACTCAGTGGCACCT
Found at i:213277 original size:98 final size:96
Alignment explanation
Indices: 213076--213750 Score: 479
Period size: 98 Copynumber: 7.0 Consensus size: 96
213066 AAAGTCCATG
* * * * *
213076 ACTCCGTGGCACCTTCTTTTCAAAGTCCACGACTCAGTGGCATCC-TTTT-C-TTCAAAGTCCAC
1 ACTCCGTGGCACCTTCCTTTCAAAGCCCACAACTCCGTGGCA-CCTTTTTCCTTTTAAAGTCCAC
* * * ** * *
213138 GACTCAGTGGCA-ATCTCTGCTCAAAGTCCACG
65 AACTCCGTGGCACCT-TCTTTTCAAAGCCCACA
213170 ACTCCGTGGCACCTTCCTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCA
1 ACTCCGTGGCACCTTCCTTTCAAAGCCCACAACTCCGTGGCAC-CTTTTT-CCTTTTAAAGTCCA
*
213235 CGACTCCGTGGCACCTTCTTTTCAAAGCCCACA
64 CAACTCCGTGGCACCTTCTTTTCAAAGCCCACA
* * *
213268 ACTCCGTGGCA-C--CCTTT-TAAGCCCACAACTCCGTGGCACTTTTTTCATCTTT-AAGTCCAC
1 ACTCCGTGGCACCTTCCTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCCT-TTTAAAGTCCAC
*
213328 AACTCCGTGGCACC--C--TTCTAAGCCCACA
65 AACTCCGTGGCACCTTCTTTTCAAAGCCCACA
* * *
213356 ACTTCGTGGCA-CTT-TTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTTT-AAGT
1 ACTCCGTGGCACCTTCCTTTCA-----AAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAAGT
* **
213418 CCACAACTCAGTGGCACCTTCTCATCAAAGCCCACA
61 CCACAACTCCGTGGCACCTTCTTTTCAAAGCCCACA
* * * *
213454 GCTCCGTGGCACTCTTTTCCCGTTT--AAGACCACAACTCCGTGGCACCTTTTTCTTTTTAAAGC
1 ACTCCGTGGCAC-C--TT-CC-TTTCAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAAGT
* *
213517 CCACAGCTCCATGGCACTCTTTTTCCCTTTTCAAAGCCCACA
61 CCACAACTCCGTGGCAC-C---TT--CTTTTCAAAGCCCACA
* * *
213559 ACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCTGTGGCA-C-----CCTTTT-AAGCCC
1 ACTCCGTGGCACC---TTCCTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAAGTCC
* * *
213617 ACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACA
63 ACAACTCCGTGGCAC-CTTCTT--TTCAAAGCCCACA
* * * * * * *
213654 ACTCCATGGCA-C--CCTTTTAATGCCCACAATTTCGTGGCAACCTTTTCCCTTTTAAAGCCCAC
1 ACTCCGTGGCACCTTCCTTTCAAAGCCCACAACTCCGTGGC-ACCTTTTTCCTTTTAAAGTCCAC
* *
213716 TACTCCGTGGCACCTTTTTCTTTCTAAAGCCCACA
65 AACTCCGTGGCACC-TTCT-TTTC-AAAGCCCACA
213751 CAAGTCGGTG
Statistics
Matches: 476, Mismatches: 56, Indels: 95
0.76 0.09 0.15
Matches are distributed among these distances:
88 23 0.05
89 23 0.05
90 2 0.00
91 1 0.00
92 23 0.05
93 11 0.02
94 85 0.18
95 59 0.12
96 11 0.02
97 34 0.07
98 119 0.25
99 23 0.05
100 2 0.00
102 2 0.00
103 5 0.01
104 3 0.01
105 50 0.11
ACGTcount: A:0.21, C:0.35, G:0.13, T:0.30
Consensus pattern (96 bp):
ACTCCGTGGCACCTTCCTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAAGTCCACA
ACTCCGTGGCACCTTCTTTTCAAAGCCCACA
Found at i:213335 original size:61 final size:60
Alignment explanation
Indices: 213220--213734 Score: 391
Period size: 61 Copynumber: 8.1 Consensus size: 60
213210 CACTCTTTTT
* * *
213220 CCCTTTTAAAGTCCACGACTCCGTGGCACCTTCTTT-TC--AAAGCCCACAACTCCGTGGCA
1 CCCTTTT-AAGCCCACAACTCCGTGGCACCTT-TTTCTCTTTAAGCCCACAACTCCGTGGCA
* *
213279 CCCTTTTAAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCA
1 CCCTTTTAAGCCCACAACTCCGTGGCACCTTTTTC-TCTTTAAGCCCACAACTCCGTGGCA
* * * *
213340 CCCTTCTAAGCCCACAACTTCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCA
1 CCCTTTTAAGCCCACAACTCCGTGGCACCTTTTTC-TCTTTAAGCCCACAACTCCGTGGCA
* * ** *
213401 CCTTTTTCCTTTTAAGTCCACAACTCAGTGGCACC---TTCTCATCAAAGCCCACAGCTCCGTGG
1 -C-----CCTTTTAAGCCCACAACTCCGTGGCACCTTTTTCTC-TTTAAGCCCACAACTCCGTGG
213463 CA
59 CA
* * * * *
213465 CTCTTTTCCCGTTTAAGACCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAGCTCCATG
1 -------CCCTTTTAAGCCCACAACTCCGTGGCACCTTTTTCTCTTT-AAGCCCACAACTCCGTG
213530 GCA
58 GCA
213533 CTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTCAAAGCCCACAACTC
1 --------CCCTTTT--AAGCCCACAACTCCGTGGCACCTTTTTCTCTTT--AAGCCCACAACTC
*
213597 TGTGGCA
54 CGTGGCA
* *
213604 CCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTC-CTTCTAAGTCCACAACTCCATGGCA
1 CCCTTTTAAGCCCACAACTCCGTGGCAC-CTTTTTCTCTT-TAAGCCCACAACTCCGTGGCA
* * * *
213665 CCCTTTTAATGCCCACAATTTCGTGGCAACC-TTTTCCCTTTTAAAGCCCACTACTCCGTGGCA
1 CCCTTTTAA-GCCCACAACTCCGTGGC-ACCTTTTTCTC-TTT-AAGCCCACAACTCCGTGGCA
*
213728 CCTTTTT
1 CCCTTTT
213735 CTTTCTAAAG
Statistics
Matches: 382, Mismatches: 41, Indels: 62
0.79 0.08 0.13
Matches are distributed among these distances:
57 3 0.01
58 21 0.05
59 9 0.02
61 130 0.34
62 28 0.07
63 37 0.10
64 22 0.06
65 25 0.07
67 24 0.06
68 23 0.06
69 10 0.03
70 4 0.01
71 46 0.12
ACGTcount: A:0.21, C:0.35, G:0.13, T:0.31
Consensus pattern (60 bp):
CCCTTTTAAGCCCACAACTCCGTGGCACCTTTTTCTCTTTAAGCCCACAACTCCGTGGCA
Found at i:213744 original size:34 final size:33
Alignment explanation
Indices: 213160--213750 Score: 451
Period size: 34 Copynumber: 18.3 Consensus size: 33
213150 ATCTCTGCTC
* * * *
213160 AAAGTCCACGACTCCGTGGCACC--TTCCTTTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
213191 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT
* *
213227 AAAGTCCACGACTCCGTGGCACC---TTCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
213257 CAAAGCCCACAACTCCGTGGCACC-----CTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
213286 -AAGCCCACAACTCCGTGGCACTTTTTTCATCTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTC-T-TTT
* *
213320 -AAGTCCACAACTCCGTGGCACC-----CTTCT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
* *
213347 -AAGCCCACAACTTCGTGGCACTTTTTTCATCTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTC-T-TTT
*
213381 -AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTT-CTTTT
* * * * *
213414 -AAGTCCACAACTCAGTGGCACC-TTCTC-ATC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
* * *
213444 AAAGCCCACAGCTCCGTGGCACTCTTTTCCCGTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTT-TCTTTT
*
213479 -AAGACCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTC-TTTT
* *
213512 AAAGCCCACAGCTCCATGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT
213548 CAAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
213582 CAAAGCCCACAACTCTGTGGCACC-----CTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
213611 -AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT-CTTTT
* *
213645 -AAGTCCACAACTCCATGGCACC-----CTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
* * * *
213672 AATGCCCACAATTTCGTGGCAACCTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGC-ACCTTTT-TCTTTT
*
213707 AAAGCCCACTACTCCGTGGCACCTTTTTCTTTCT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTT-T
213741 AAAGCCCACA
1 AAAGCCCACA
213751 CAAGTCGGTG
Statistics
Matches: 456, Mismatches: 56, Indels: 93
0.75 0.09 0.15
Matches are distributed among these distances:
27 66 0.14
28 16 0.04
29 14 0.03
30 6 0.01
31 60 0.13
32 10 0.02
33 41 0.09
34 158 0.35
35 30 0.07
36 34 0.07
37 21 0.05
ACGTcount: A:0.21, C:0.36, G:0.13, T:0.30
Consensus pattern (33 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
Found at i:213838 original size:30 final size:30
Alignment explanation
Indices: 213737--214093 Score: 527
Period size: 30 Copynumber: 11.4 Consensus size: 30
213727 ACCTTTTTCT
213737 TTCTAAAGCCCACACAAGTCGGTGGCAACCC
1 TTCTAAAGCCCACACAAGTCGGTGGCAA-CC
213768 TTCTCAAAGCCCACACAAGTCGGTGGCAACC
1 TTCT-AAAGCCCACACAAGTCGGTGGCAACC
213799 TTTTTCTAAAGCCCACACAAGTCGGTGGCAACC
1 ---TTCTAAAGCCCACACAAGTCGGTGGCAACC
213832 TTCTAAAGCCCACACAAGTCGGTGGCAACC
1 TTCTAAAGCCCACACAAGTCGGTGGCAACC
*
213862 TTCTAAAGCCCACACAAGTCAGTGGCAACCC
1 TTCTAAAGCCCACACAAGTCGGTGGCAA-CC
*
213893 TTCTCAAAGCCCACACAAGTCGGTAGCAACC
1 TTCT-AAAGCCCACACAAGTCGGTGGCAACC
213924 TTCTAAAGCCCACACAAGTCGGTGGCAACC
1 TTCTAAAGCCCACACAAGTCGGTGGCAACC
*
213954 TTCTAAAGCCCACACAAGTCAGTGGCAACCC
1 TTCTAAAGCCCACACAAGTCGGTGGCAA-CC
213985 TTCTCAAAGCCCACACAAGTCGGTGGCAACC
1 TTCT-AAAGCCCACACAAGTCGGTGGCAACC
*
214016 TTTTTCTAAAGCCCACACAAGTTGGTGGCAACC
1 ---TTCTAAAGCCCACACAAGTCGGTGGCAACC
214049 ATTCTCTAAAGCCCACACAAGTCGGTGGCAACCC
1 --T-TCTAAAGCCCACACAAGTCGGTGGCAA-CC
214083 TTCT-AAGCCCA
1 TTCTAAAGCCCA
214094 ATATAGCTGG
Statistics
Matches: 304, Mismatches: 9, Indels: 27
0.89 0.03 0.08
Matches are distributed among these distances:
30 116 0.38
31 29 0.10
32 72 0.24
33 77 0.25
34 10 0.03
ACGTcount: A:0.30, C:0.34, G:0.18, T:0.18
Consensus pattern (30 bp):
TTCTAAAGCCCACACAAGTCGGTGGCAACC
Found at i:213928 original size:92 final size:92
Alignment explanation
Indices: 213737--214093 Score: 565
Period size: 92 Copynumber: 3.8 Consensus size: 92
213727 ACCTTTTTCT
* *
213737 TTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCAACCTTT
1 TTCTAAAGCCCACACAAGTCGGTGGCAA-CCTTCT-AAAGCCCACACAAGTCAGTGGCAACCCTT
*
213802 TTCTAAAGCCCACACAAGTCGGTGGCAACC
64 CTC-AAAGCCCACACAAGTCGGTGGCAACC
213832 TTCTAAAGCCCACACAAGTCGGTGGCAACCTTCTAAAGCCCACACAAGTCAGTGGCAACCCTTCT
1 TTCTAAAGCCCACACAAGTCGGTGGCAACCTTCTAAAGCCCACACAAGTCAGTGGCAACCCTTCT
*
213897 CAAAGCCCACACAAGTCGGTAGCAACC
66 CAAAGCCCACACAAGTCGGTGGCAACC
213924 TTCTAAAGCCCACACAAGTCGGTGGCAACCTTCTAAAGCCCACACAAGTCAGTGGCAACCCTTCT
1 TTCTAAAGCCCACACAAGTCGGTGGCAACCTTCTAAAGCCCACACAAGTCAGTGGCAACCCTTCT
213989 CAAAGCCCACACAAGTCGGTGGCAACC
66 CAAAGCCCACACAAGTCGGTGGCAACC
* *
214016 TTTTTCTAAAGCCCACACAAGTTGGTGGCAACCATTCTCTAAAGCCCACACAAGTCGGTGGCAAC
1 ---TTCTAAAGCCCACACAAGTCGGTGGCAACC--T-TCTAAAGCCCACACAAGTCAGTGGCAAC
214081 CCTTCT--AAGCCCA
60 CCTTCTCAAAGCCCA
214094 ATATAGCTGG
Statistics
Matches: 249, Mismatches: 7, Indels: 11
0.93 0.03 0.04
Matches are distributed among these distances:
92 116 0.47
93 29 0.12
94 6 0.02
95 57 0.23
96 7 0.03
97 1 0.00
98 33 0.13
ACGTcount: A:0.30, C:0.34, G:0.18, T:0.18
Consensus pattern (92 bp):
TTCTAAAGCCCACACAAGTCGGTGGCAACCTTCTAAAGCCCACACAAGTCAGTGGCAACCCTTCT
CAAAGCCCACACAAGTCGGTGGCAACC
Found at i:215356 original size:28 final size:27
Alignment explanation
Indices: 215302--215358 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 27
215292 CAAGTTTAAA
**
215302 AATGGGGTCGGAGTATCCCCTCGGAAT
1 AATGGGGTCGGAGTATCCCCAAGGAAT
* *
215329 AATGGGTGTTGGAGTATCCCCAATGAAT
1 AATGGG-GTCGGAGTATCCCCAAGGAAT
215357 AA
1 AA
215359 AATTTGGTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 6 0.24
28 19 0.76
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.25
Consensus pattern (27 bp):
AATGGGGTCGGAGTATCCCCAAGGAAT
Found at i:221010 original size:20 final size:20
Alignment explanation
Indices: 220985--221041 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
220975 GTAAAAAGAC
* *
220985 AGAATGTATCGATACGTTGA
1 AGAATGTATCGATACATTAA
*
221005 AGAATGTATTGATACATTAA
1 AGAATGTATCGATACATTAA
*
221025 AAAATGTATCGATACAT
1 AGAATGTATCGATACAT
221042 CTAGGTAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.32
Consensus pattern (20 bp):
AGAATGTATCGATACATTAA
Found at i:221062 original size:50 final size:50
Alignment explanation
Indices: 221007--221101 Score: 154
Period size: 50 Copynumber: 1.9 Consensus size: 50
220997 TACGTTGAAG
* *
221007 AATGTATTGATACATTAAAAAATGTATCGATACATCTAGGTAAAAGACAA
1 AATGTATCGATACATTAAAAAATGTATCGATAAATCTAGGTAAAAGACAA
* *
221057 AATGTATCGATACATTAAAAAATTTATCGATAAATCTGGGTAAAA
1 AATGTATCGATACATTAAAAAATGTATCGATAAATCTAGGTAAAA
221102 ATGTGACTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.47, C:0.09, G:0.14, T:0.29
Consensus pattern (50 bp):
AATGTATCGATACATTAAAAAATGTATCGATAAATCTAGGTAAAAGACAA
Found at i:221700 original size:13 final size:13
Alignment explanation
Indices: 221682--221711 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
221672 ATTCTCACCC
221682 TTTTTTT-TTCCT
1 TTTTTTTGTTCCT
221694 TTTTTTTGTTCCT
1 TTTTTTTGTTCCT
221707 TTTTT
1 TTTTT
221712 GATTTTTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.83
Consensus pattern (13 bp):
TTTTTTTGTTCCT
Found at i:222285 original size:32 final size:32
Alignment explanation
Indices: 222248--222323 Score: 98
Period size: 32 Copynumber: 2.4 Consensus size: 32
222238 TGAAAAGGGT
222248 TGCCACTGACTTGCGTGGGCTTTAAAAAAAGG
1 TGCCACTGACTTGCGTGGGCTTTAAAAAAAGG
* * * * *
222280 TGCCACTAACTTGTGTGGGCTTTGAAAAGAGT
1 TGCCACTGACTTGCGTGGGCTTTAAAAAAAGG
*
222312 TGCCACCGACTT
1 TGCCACTGACTT
222324 ATGAGGGCTT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (32 bp):
TGCCACTGACTTGCGTGGGCTTTAAAAAAAGG
Found at i:222348 original size:30 final size:28
Alignment explanation
Indices: 222293--222768 Score: 441
Period size: 28 Copynumber: 16.6 Consensus size: 28
222283 CACTAACTTG
*
222293 TGTGGGCTTTGAAAAGAGTTGCCACCGACTT
1 TGTGGGCTTTG-AAAG-GGTGCCACCGAC-T
*
222324 ATGAGGGCTTTGAAAGGGTGCCACC-AGCT
1 -TGTGGGCTTTGAAAGGGTGCCACCGA-CT
* *
222353 TGTGGGCTTTGAAAAGAGTTGCCACCAACTT
1 TGTGGGCTTTG-AAAG-GGTGCCACCGAC-T
222384 GTGTGGGCTTTGAAAGGGTGCCACCGACT
1 -TGTGGGCTTTGAAAGGGTGCCACCGACT
222413 TGTGGGCTTTGAAAGGGTGCCACCGACT
1 TGTGGGCTTTGAAAGGGTGCCACCGACT
222441 TGTGGGCTTTGAAAGGGTGCCACCGACT
1 TGTGGGCTTTGAAAGGGTGCCACCGACT
* *
222469 TGCGGGCTTTGAAAGGGTATGCCACTGACT
1 TGTGGGCTTTGAAAGGG--TGCCACCGACT
*
222499 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACCGACT
* * * **
222527 TATGGGCTTTGAGAAAGATGCCATTGACT
1 TGTGGGCTTTGA-AAGGGTGCCACCGACT
* **
222556 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACCGACT
* * **
222584 TGTGGGCTTTGAAAAGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACCGACT
* * *** ***
222612 TGTCGGCTTTAAAAAAATGCCATTAACT
1 TGTGGGCTTTGAAAGGGTGCCACCGACT
* *
222640 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACCGACT
* * * * ***
222668 TATGGGCTTTGAAAAGATACCATTAACT
1 TGTGGGCTTTGAAAGGGTGCCACCGACT
* * **
222696 TGTGGGCTTTGAAAAGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACCGACT
* *
222724 TGTGGGCTTTGAGAAGGATGCCACTGACT
1 TGTGGGCTTTGA-AAGGGTGCCACCGACT
*
222753 TGTCGGCTTTGAAAGG
1 TGTGGGCTTTGAAAGG
222769 AGTCGTATTG
Statistics
Matches: 395, Mismatches: 39, Indels: 24
0.86 0.09 0.05
Matches are distributed among these distances:
28 254 0.64
29 56 0.14
30 54 0.14
31 10 0.03
32 21 0.05
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACCGACT
Found at i:222468 original size:56 final size:56
Alignment explanation
Indices: 222248--222769 Score: 508
Period size: 56 Copynumber: 9.0 Consensus size: 56
222238 TGAAAAGGGT
* * *
222248 TGCCACTGACTTGCGTGGGCTTTAAAAAAAGG-TGCCACTAACTTGTGTGGGCTTTGAAAAGAGT
1 TGCCACTGACTT--GTGGGCTTT---GAAAGGATGCCACTGAC-T-TGTGGGCTTTG-AAAG-GA
* * * * *
222312 TGCCACCGACTTATGAGGGCTTTGAAAGGGTGCCAC-CAGCTTGTGGGCTTTGAAAAGAGT
1 TGCCACTGAC-T-TGTGGGCTTTGAAAGGATGCCACTGA-CTTGTGGGCTTTG-AAAG-GA
** * * *
222372 TGCCACCAACTTGTGTGGGCTTTGAAAGGGTGCCACCGACTTGTGGGCTTTGAAAGGG
1 TGCCACTGAC-T-TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGA
* * * *
222430 TGCCACCGACTTGTGGGCTTTGAAAGGGTGCCACCGACTTGCGGGCTTTGAAAGGGTA
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAA-GG-A
* * *
222488 TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTATGGGCTTTGAGAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGA-AAGGA
* * *
222545 TGCCATTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGA
* * * ** * *
222601 TGCCACTAACTTGTCGGCTTTAAAAAAATGCCATTAACTTGTGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGA
* * * * * *
222657 TGCCACTGACTTATGGGCTTTGAAAAGATACCATTAACTTGTGGGCTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGA
* *
222713 TGCCACTAACTTGTGGGCTTTGAGAAGGATGCCACTGACTTGTCGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGA-AAGGATGCCACTGACTTGTGGGCTTTGAAAGGA
222770 GTCGTATTGA
Statistics
Matches: 405, Mismatches: 44, Indels: 25
0.85 0.09 0.05
Matches are distributed among these distances:
56 164 0.40
57 78 0.19
58 58 0.14
59 6 0.01
60 65 0.16
61 8 0.02
62 7 0.02
64 17 0.04
65 1 0.00
66 1 0.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (56 bp):
TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGA
Found at i:222674 original size:84 final size:84
Alignment explanation
Indices: 222236--222768 Score: 553
Period size: 84 Copynumber: 6.1 Consensus size: 84
222226 AAAGTGGTGA
* *
222236 TTTGAAAAGGGTTGCCACTGACTTGCGTGGGCTTTAAAAAAAGGTGCCACTAACTTGTGTGGGCT
1 TTTG-AAAGGG-TGCCACTAACTT--GTGGGCTTT--AAAAAGATGCCACTAAC-T-TGTGGGCT
* * *
222301 TTGAAAAGAGTTGCCACCGACTTATGAGGGC
58 TTG-AAAG-GATGCCACTGAC-T-TGTGGGC
* * * *
222332 TTTGAAAGGGTGCCACCAGCTTGTGGGCTTTGAAAAGAGTTGCCACCAACTTGTGTGGGCTTTGA
1 TTTGAAAGGGTGCCACTAACTTGTGGGCTTT-AAAA-AGATGCCACTAAC-T-TGTGGGCTTTGA
* *
222397 AAGGGTGCCACCGACTTGTGGGC
62 AAGGATGCCACTGACTTGTGGGC
** * * * ** *
222420 TTTGAAAGGGTGCCACCGACTTGTGGGCTTTGAAAGGGTGCCACCGACTTGCGGGCTTTGAAAGG
1 TTTGAAAGGGTGCCACTAACTTGTGGGCTTTAAAAAGATGCCACTAACTTGTGGGCTTTGAAA-G
222485 GTATGCCACTGACTTGTGGGC
65 G-ATGCCACTGACTTGTGGGC
* * * * *
222506 TTTGAAAGGGTGCCACTGACTTATGGGCTTTGAGAAAGATGCCATTGACTTGTGGGCTTTGAAAG
1 TTTGAAAGGGTGCCACTAACTTGTGGGCTTT-AAAAAGATGCCACTAACTTGTGGGCTTTGAAAG
*
222571 GATGCCACTAACTTGTGGGC
65 GATGCCACTGACTTGTGGGC
* * * * *
222591 TTTGAAAAGATGCCACTAACTTGTCGGCTTTAAAAAAATGCCATTAACTTGTGGGCTTTGAAAGG
1 TTTGAAAGGGTGCCACTAACTTGTGGGCTTTAAAAAGATGCCACTAACTTGTGGGCTTTGAAAGG
*
222656 ATGCCACTGACTTATGGGC
66 ATGCCACTGACTTGTGGGC
* * * * *
222675 TTTGAAAAGATACCATTAACTTGTGGGCTTTGAAAAGATGCCACTAACTTGTGGGCTTTGAGAAG
1 TTTGAAAGGGTGCCACTAACTTGTGGGCTTTAAAAAGATGCCACTAACTTGTGGGCTTTGA-AAG
*
222740 GATGCCACTGACTTGTCGGC
65 GATGCCACTGACTTGTGGGC
222760 TTTGAAAGG
1 TTTGAAAGG
222769 AGTCGTATTG
Statistics
Matches: 386, Mismatches: 46, Indels: 21
0.85 0.10 0.05
Matches are distributed among these distances:
84 116 0.30
85 76 0.20
86 58 0.15
87 28 0.07
88 35 0.09
89 1 0.00
90 11 0.03
91 8 0.02
92 34 0.09
94 9 0.02
95 6 0.02
96 4 0.01
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.28
Consensus pattern (84 bp):
TTTGAAAGGGTGCCACTAACTTGTGGGCTTTAAAAAGATGCCACTAACTTGTGGGCTTTGAAAGG
ATGCCACTGACTTGTGGGC
Found at i:224984 original size:20 final size:21
Alignment explanation
Indices: 224936--225007 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 21
224926 TTTTACAATT
* *
224936 TGTATCGATATAAACAGTAAA
1 TGTATCGATACATACAGTAAA
* *
224957 TATATCGATACATA-AGTGAA
1 TGTATCGATACATACAGTAAA
* *
224977 TGTATCGATACATGC-TTGAAA
1 TGTATCGATACATACAGT-AAA
224998 TGTATCGATA
1 TGTATCGATA
225008 TAAAACCACT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
20 18 0.44
21 23 0.56
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.32
Consensus pattern (21 bp):
TGTATCGATACATACAGTAAA
Found at i:225089 original size:22 final size:21
Alignment explanation
Indices: 225032--225093 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
225022 ATTCTAGAAA
* *
225032 GAAATTGTATCAATACATAAGT
1 GAAATTGTATCGATACAT-TGT
*
225054 GAAA-TGTATTGATACATTGCT
1 GAAATTGTATCGATACATTG-T
*
225075 TAAATTGTATCGATACATT
1 GAAATTGTATCGATACATT
225094 CTGGGTTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
20 1 0.03
21 15 0.45
22 17 0.52
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.37
Consensus pattern (21 bp):
GAAATTGTATCGATACATTGT
Found at i:229411 original size:154 final size:157
Alignment explanation
Indices: 229126--229419 Score: 425
Period size: 154 Copynumber: 1.9 Consensus size: 157
229116 TAACTTTAAT
* *
229126 GTAAAAGTACCTAATACCCTTAAAGGACTTAAAAAAGGATTTTAAAAGAGATGAACCTATCCCAA
1 GTAAAAGTACCTAATACCCATAAAGGACTTAAAAAAGGATTTTAAAAGAGATAAACCTATCCCAA
* * * * * *
229191 ATATCTACCTTCGGCGTGAAAGCAGACCCGGTGGCAACCTAAGGCTCGGTTCTAAAAAATTACCA
66 ATAGCTACCTTCGGCATAAAAGCAAACCCGGTGACAACCTAAGGCTCGATTCTAAAAAATTACCA
229256 AAATG-CCTTTAAAGGATACCTTCGAC
131 AAATGTCCTTTAAAGGATACCTTCGAC
* * * *
229282 GTAAAAGTACTTGATACCCATAAAGGACTT-AAAAAGGATTTTAAATGAGATAAACCTATCCTAA
1 GTAAAAGTACCTAATACCCATAAAGGACTTAAAAAAGGATTTTAAAAGAGATAAACCTATCCCAA
* *
229346 AT-GCTACCTTCTGCATAAAAGCAAACTCGGTGACAACCT-AGGACTCGATTCTAAAAAATTACC
66 ATAGCTACCTTCGGCATAAAAGCAAACCCGGTGACAACCTAAGG-CTCGATTCTAAAAAATTACC
229409 AAAATGTCCTT
130 AAAATGTCCTT
229420 AGGAGATCTG
Statistics
Matches: 122, Mismatches: 14, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
153 3 0.02
154 55 0.45
155 37 0.30
156 27 0.22
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.24
Consensus pattern (157 bp):
GTAAAAGTACCTAATACCCATAAAGGACTTAAAAAAGGATTTTAAAAGAGATAAACCTATCCCAA
ATAGCTACCTTCGGCATAAAAGCAAACCCGGTGACAACCTAAGGCTCGATTCTAAAAAATTACCA
AAATGTCCTTTAAAGGATACCTTCGAC
Found at i:231024 original size:30 final size:30
Alignment explanation
Indices: 230989--231051 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
230979 CCAAAAGATG
230989 AAGGTAAAAAAGATGATTACCTTAGTAGAA
1 AAGGTAAAAAAGATGATTACCTTAGTAGAA
231019 AAGGTAAAAAAGATGATTACCTTAGTAGAA
1 AAGGTAAAAAAGATGATTACCTTAGTAGAA
231049 AAG
1 AAG
231052 TGAAAATGCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.51, C:0.06, G:0.21, T:0.22
Consensus pattern (30 bp):
AAGGTAAAAAAGATGATTACCTTAGTAGAA
Found at i:231267 original size:98 final size:98
Alignment explanation
Indices: 231159--231354 Score: 392
Period size: 98 Copynumber: 2.0 Consensus size: 98
231149 AGCAAGAAAC
231159 GTCCAAGGGTGAAGGAGAAATGGGATGGCCGAATGGCCATTTCTTTTTCTTTTTCATTATTTTAT
1 GTCCAAGGGTGAAGGAGAAATGGGATGGCCGAATGGCCATTTCTTTTTCTTTTTCATTATTTTAT
231224 TTTTTTATTTTCTATGCCATTTATTATATCATA
66 TTTTTTATTTTCTATGCCATTTATTATATCATA
231257 GTCCAAGGGTGAAGGAGAAATGGGATGGCCGAATGGCCATTTCTTTTTCTTTTTCATTATTTTAT
1 GTCCAAGGGTGAAGGAGAAATGGGATGGCCGAATGGCCATTTCTTTTTCTTTTTCATTATTTTAT
231322 TTTTTTATTTTCTATGCCATTTATTATATCATA
66 TTTTTTATTTTCTATGCCATTTATTATATCATA
231355 AAAAGAAGAA
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 98 1.00
ACGTcount: A:0.23, C:0.13, G:0.17, T:0.46
Consensus pattern (98 bp):
GTCCAAGGGTGAAGGAGAAATGGGATGGCCGAATGGCCATTTCTTTTTCTTTTTCATTATTTTAT
TTTTTTATTTTCTATGCCATTTATTATATCATA
Found at i:231887 original size:13 final size:13
Alignment explanation
Indices: 231871--231900 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
231861 ATACATTGTT
231871 CATTGTATCGATA
1 CATTGTATCGATA
231884 CATTGTATCGATA
1 CATTGTATCGATA
231897 CATT
1 CATT
231901 CTGGGTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:231941 original size:20 final size:20
Alignment explanation
Indices: 231916--232019 Score: 91
Period size: 20 Copynumber: 5.6 Consensus size: 20
231906 TTTACCTAGA
*
231916 TGTATCGATACATT-TTGCAT
1 TGTATCGATACATTGCT-CAT
231936 TGTATCGATACATTGCTCAT
1 TGTATCGATACATTGCTCAT
231956 TGTATCGAT--A-----CAT
1 TGTATCGATACATTGCTCAT
*
231969 TGTATCGATACGTTGCTCAT
1 TGTATCGATACATTGCTCAT
* * *
231989 TGTATCGATACAATGC-AAA
1 TGTATCGATACATTGCTCAT
232008 TGTATCGATACA
1 TGTATCGATACA
232020 ATGAGCAACG
Statistics
Matches: 70, Mismatches: 6, Indels: 17
0.75 0.06 0.18
Matches are distributed among these distances:
13 12 0.17
18 1 0.01
19 13 0.19
20 43 0.61
21 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATTGCTCAT
Found at i:231969 original size:13 final size:13
Alignment explanation
Indices: 231953--231979 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
231943 ATACATTGCT
231953 CATTGTATCGATA
1 CATTGTATCGATA
231966 CATTGTATCGATA
1 CATTGTATCGATA
231979 C
1 C
231980 GTTGCTCATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.37
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:231975 original size:33 final size:33
Alignment explanation
Indices: 231933--232075 Score: 135
Period size: 33 Copynumber: 4.1 Consensus size: 33
231923 ATACATTTTG
*
231933 CATTGTATCGATACATTGCTCATTGTATCGATA
1 CATTGTATCGATACATTGCTCAATGTATCGATA
* *
231966 CATTGTATCGATACGTTGCTCATTGTATCGATA
1 CATTGTATCGATACATTGCTCAATGTATCGATA
* ** *
231999 CAATGCAAATGTATCGATACAATGAGCAACGTATCGATA
1 C-AT-----TGTATCGATACATTGCTCAATGTATCGATA
*
232038 CATTTGTATCGATACATT-TTACAATGTATCGATA
1 CA-TTGTATCGATACATTGCT-CAATGTATCGATA
232072 CATT
1 CATT
232076 CAGGCATTTT
Statistics
Matches: 91, Mismatches: 11, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
33 35 0.38
34 29 0.32
38 1 0.01
39 26 0.29
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.36
Consensus pattern (33 bp):
CATTGTATCGATACATTGCTCAATGTATCGATA
Found at i:231991 original size:53 final size:52
Alignment explanation
Indices: 231916--232019 Score: 138
Period size: 53 Copynumber: 2.0 Consensus size: 52
231906 TTTACCTAGA
* * * *
231916 TGTATCGATACATTTTGCATTGTATCGATACATTGCTCATTGTATCGATACAT
1 TGTATCGATACATTCTGCATTGTATCGATACAATGC-AAATGTATCGATACAT
*
231969 TGTATCGATACGTTGCT-CATTGTATCGATACAATGCAAATGTATCGATACA
1 TGTATCGATACATT-CTGCATTGTATCGATACAATGCAAATGTATCGATACA
232020 ATGAGCAACG
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
52 13 0.29
53 31 0.69
54 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (52 bp):
TGTATCGATACATTCTGCATTGTATCGATACAATGCAAATGTATCGATACAT
Found at i:232034 original size:20 final size:19
Alignment explanation
Indices: 231990--232039 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
231980 GTTGCTCATT
*
231990 GTATCGATACAATGCAAAT
1 GTATCGATACAATGCAAAC
232009 GTATCGATACAATG-AGCAAC
1 GTATCGATACAATGCA--AAC
232029 GTATCGATACA
1 GTATCGATACA
232040 TTTGTATCGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 1 0.04
19 14 0.50
20 13 0.46
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.24
Consensus pattern (19 bp):
GTATCGATACAATGCAAAC
Found at i:232048 original size:14 final size:14
Alignment explanation
Indices: 232029--232056 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
232019 AATGAGCAAC
232029 GTATCGATACATTT
1 GTATCGATACATTT
232043 GTATCGATACATTT
1 GTATCGATACATTT
232057 TACAATGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (14 bp):
GTATCGATACATTT
Found at i:232051 original size:34 final size:34
Alignment explanation
Indices: 232008--232075 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
231998 ACAATGCAAA
232008 TGTATCGATACA-ATGAGCAACGTATCGATACATT
1 TGTATCGATACATATGA-CAACGTATCGATACATT
* * *
232042 TGTATCGATACATTTTACAATGTATCGATACATT
1 TGTATCGATACATATGACAACGTATCGATACATT
232076 CAGGCATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 28 0.93
35 2 0.07
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (34 bp):
TGTATCGATACATATGACAACGTATCGATACATT
Found at i:234494 original size:51 final size:51
Alignment explanation
Indices: 234411--234536 Score: 184
Period size: 51 Copynumber: 2.5 Consensus size: 51
234401 AAACATCAAT
* *
234411 TTTTCTTAATC-GGGATACTCCAACTCCAATTTTATTTCTAAAACACCCA-
1 TTTTCATAATCGGGGATACTCCAACTCCAATTTTATTTCCAAAACACCCAC
* *
234460 TTTTCCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCGAC
1 TTTT-CATAATCGGGGATACTCCAACTCCAATTTTATTTCCAAAACACCCAC
*
234512 TTTTCACAATCGGGGATACTCCAAC
1 TTTTCATAATCGGGGATACTCCAAC
234537 CCCGTTATTT
Statistics
Matches: 69, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
49 4 0.06
50 6 0.09
51 55 0.80
52 4 0.06
ACGTcount: A:0.29, C:0.28, G:0.10, T:0.33
Consensus pattern (51 bp):
TTTTCATAATCGGGGATACTCCAACTCCAATTTTATTTCCAAAACACCCAC
Found at i:234564 original size:79 final size:76
Alignment explanation
Indices: 234472--234695 Score: 236
Period size: 76 Copynumber: 2.9 Consensus size: 76
234462 TTCCATAATC
* * *
234472 GGGGATACTCCAACTCC-GATTTTATTTCCAAAACACCGACTTTTCACAATCGGGGATACTCCAA
1 GGGGACACTCCAACCCCAG-TTTTATTTCCAAAACACC-AATTTT-AC-ATCGGGGATACTCCAA
234536 CCCCGTTATTTCCGA
62 CCCCGTTATTTCCGA
* * *
234551 GGGGACACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAACCCC
1 GGGGACACTCCAACCCCAGTTTTATTTCCAAAACACCAATTTTACATCGGGGATACTCCAACCCC
*
234616 GTTATTTTCGA
66 GTTATTTCCGA
* * * * ** *
234627 GGGGATAC-CCTAACCCCAGCTTTATTTCTAAAATATTAATTTCTCATAATCGGGGATACTCCAA
1 GGGGACACTCC-AACCCCAGTTTTATTTCCAAAACACCAATTT-T-A-CATCGGGGATACTCCAA
234691 CCCCG
62 CCCCG
234696 ATTTTATTTC
Statistics
Matches: 127, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
75 2 0.02
76 65 0.51
77 2 0.02
78 5 0.04
79 52 0.41
80 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (76 bp):
GGGGACACTCCAACCCCAGTTTTATTTCCAAAACACCAATTTTACATCGGGGATACTCCAACCCC
GTTATTTCCGA
Found at i:234630 original size:76 final size:78
Alignment explanation
Indices: 234519--234695 Score: 261
Period size: 76 Copynumber: 2.3 Consensus size: 78
234509 GACTTTTCAC
*
234519 AATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGACACTCC-AACCCCAGTTTTATTTCTAAA
1 AATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGACAC-CCTAACCCCAGCTTTATTTCTAAA
234583 ACATCAATTT-T-T
65 ACATCAATTTCTAT
* * *
234595 CATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACCCTAACCCCAGCTTTATTTCTAAAA
1 AATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGACACCCTAACCCCAGCTTTATTTCTAAAA
* *
234660 TATTAATTTCTCAT
66 CATCAATTTCT-AT
234674 AATCGGGGATACTCCAACCCCG
1 AATCGGGGATACTCCAACCCCG
234696 ATTTTATTTC
Statistics
Matches: 90, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
75 2 0.02
76 65 0.72
77 1 0.01
79 22 0.24
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.29
Consensus pattern (78 bp):
AATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGACACCCTAACCCCAGCTTTATTTCTAAAA
CATCAATTTCTAT
Found at i:234703 original size:51 final size:51
Alignment explanation
Indices: 234647--234743 Score: 167
Period size: 51 Copynumber: 1.9 Consensus size: 51
234637 TAACCCCAGC
** *
234647 TTTATTTCTAAAATATTAATTTCTCATAATCGGGGATACTCCAACCCCGAT
1 TTTATTTCTAAAATATTAATTTCTCATAATCGAAGATACTCAAACCCCGAT
234698 TTTATTTCTAAAATATTAATTTCTCATAATCGAAGATACTCAAACC
1 TTTATTTCTAAAATATTAATTTCTCATAATCGAAGATACTCAAACC
234744 TCGTTATTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (51 bp):
TTTATTTCTAAAATATTAATTTCTCATAATCGAAGATACTCAAACCCCGAT
Found at i:234761 original size:79 final size:79
Alignment explanation
Indices: 234681--234960 Score: 287
Period size: 79 Copynumber: 3.5 Consensus size: 79
234671 CATAATCGGG
* ** *
234681 GATACTCCAACCCCGATTTTATTTCTAAAATATTAATTTCTCATAATCGAAGATACTCAAACCTC
1 GATACTCCAACCCCGATTTTATTTCTAAAATATCAATTTCTCATAATCGGGGATACTCAAACCCC
*
234746 GTTATTTCCGAGGG
66 GTTATTTCCGAGGA
* * * * * *
234760 GATACTCTAACCCC-AGTTTTATTTCTAAAACATCAATTTTTTATAGTCGGGGATACTCCAACCC
1 GATACTCCAACCCCGA-TTTTATTTCTAAAATATCAATTTCTCATAATCGGGGATACTCAAACCC
*
234824 CGTTATTTCTGAGGA
65 CGTTATTTCCGAGGA
* * * * * * *
234839 GATATTCCGATCCCAATTTTATTTCT-AAATCATCGATTTTTCACAATCGGGGATACTCAAACCC
1 GATACTCCAACCCCGATTTTATTTCTAAAAT-ATCAATTTCTCATAATCGGGGATACTCAAACCC
* *
234903 CATTATTTTCGAGGA
65 CGTTATTTCCGAGGA
* * *
234918 GATACTCCAACCCCG-TTATTATCTCCAAAATATTAAATTTCTC
1 GATACTCCAACCCCGATT-TTATTTCTAAAATA-TCAATTTCTC
234961 GTCGAGAGAT
Statistics
Matches: 161, Mismatches: 34, Indels: 11
0.78 0.17 0.05
Matches are distributed among these distances:
78 6 0.04
79 143 0.89
80 12 0.07
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (79 bp):
GATACTCCAACCCCGATTTTATTTCTAAAATATCAATTTCTCATAATCGGGGATACTCAAACCCC
GTTATTTCCGAGGA
Found at i:234781 original size:130 final size:128
Alignment explanation
Indices: 234551--234825 Score: 365
Period size: 130 Copynumber: 2.1 Consensus size: 128
234541 TTATTTCCGA
* * ** *
234551 GGGGACACTCCAACCCC-AGTTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAACCC
1 GGGGATACTCCAACCCCGAGTTTTATTTCTAAAACATCAATTTTTAATCGAAGATACTCAAACCC
* * *
234615 CGTTATTTTCGAGGGGATACCCTAACCCCAGCTTTATTTCTAAAATATTAATTTCTCATAATC
66 CGTTATTTCCGAGGGGATACCCTAACCCCAGCTTTATTTCTAAAACATCAATTTCTCATAATC
* *
234678 GGGGATACTCCAACCCCGA-TTTTATTTCTAAAATATTAATTTCTCATAATCGAAGATACTCAAA
1 GGGGATACTCCAACCCCGAGTTTTATTTCTAAAACATCAATTT-T--TAATCGAAGATACTCAAA
* * * * * *
234742 CCTCGTTATTTCCGAGGGGATACTCTAACCCCAGTTTTATTTCTAAAACATCAATTTTTTATAGT
63 CCCCGTTATTTCCGAGGGGATACCCTAACCCCAGCTTTATTTCTAAAACATCAATTTCTCATAAT
234807 C
128 C
234808 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
234826 TTATTTCTGA
Statistics
Matches: 128, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
127 37 0.29
128 2 0.02
130 89 0.70
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (128 bp):
GGGGATACTCCAACCCCGAGTTTTATTTCTAAAACATCAATTTTTAATCGAAGATACTCAAACCC
CGTTATTTCCGAGGGGATACCCTAACCCCAGCTTTATTTCTAAAACATCAATTTCTCATAATC
Found at i:236433 original size:165 final size:168
Alignment explanation
Indices: 236243--236603 Score: 491
Period size: 168 Copynumber: 2.2 Consensus size: 168
236233 TTTAAAACTG
* * *
236243 ATTA-AATATTTGATAAATTTTAAAAATTAAAAACTAAG-AAAAATCCCTTCGAAAACCTTTAC-
1 ATTATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAAATCCCTTCAAAAACATTTACG
* * * * *
236305 CATGTAGAAAACT-TCGTATTTCGAAAAAAATG-AA-TTTCAAGGAAAAATTCAAAAACTCATGA
66 CA-GTAAAAAACTCT-ATATTTCAAAAAAAAGGAAATTTTCAAGAAAAAATTCAAAAACTCATGA
*
236367 AAATAAATTAATTTTTCAAAACTAATTTAATATGAATTAA
129 AAATAAATTAATTTTTCAAAACTAATTTAATATGAAATAA
* * *
236407 ATTATAATATTTTATGAATTTTAAAAATTAAAAACTAAGAAAAAATCCTTTTAAAAACATTTACG
1 ATTATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAAATCCCTTCAAAAACATTTACG
* * *
236472 GAGTAAAAAACTCTATATTTTAAAAAAAAGGAAATTTTTAAGAAAAAATTCAAAAACTCATGAAA
66 CAGTAAAAAACTCTATATTTCAAAAAAAAGGAAATTTTCAAGAAAAAATTCAAAAACTCATGAAA
* *
236537 ATGAATTAATTTTTCAAAACTGATTTAATATGAAATAA
131 ATAAATTAATTTTTCAAAACTAATTTAATATGAAATAA
* *
236575 ATAATAATATTTGATGAATTTTTAAAATT
1 ATTATAATATTTGATGAATTTTAAAAATT
236604 TTAAACTCAT
Statistics
Matches: 171, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
164 4 0.02
165 32 0.19
166 42 0.25
167 4 0.02
168 89 0.52
ACGTcount: A:0.51, C:0.08, G:0.07, T:0.34
Consensus pattern (168 bp):
ATTATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAAATCCCTTCAAAAACATTTACG
CAGTAAAAAACTCTATATTTCAAAAAAAAGGAAATTTTCAAGAAAAAATTCAAAAACTCATGAAA
ATAAATTAATTTTTCAAAACTAATTTAATATGAAATAA
Found at i:238236 original size:13 final size:13
Alignment explanation
Indices: 238218--238242 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
238208 ATAATGCACA
238218 GTATCGATACATT
1 GTATCGATACATT
238231 GTATCGATACAT
1 GTATCGATACAT
238243 GACCACTGTA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:238239 original size:33 final size:32
Alignment explanation
Indices: 238197--238259 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
238187 CACCTTTAGA
*
238197 TGTATCGATACATAATGCACAGTATCGATACAT
1 TGTATCGATACATAA-CCACAGTATCGATACAT
* *
238230 TGTATCGATACATGACCACTGTATCGATAC
1 TGTATCGATACATAACCACAGTATCGATAC
238260 TTGCAAAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (32 bp):
TGTATCGATACATAACCACAGTATCGATACAT
Found at i:238349 original size:13 final size:13
Alignment explanation
Indices: 238331--238356 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
238321 ACATATAAGA
238331 TGTATCGATACAT
1 TGTATCGATACAT
238344 TGTATCGATACAT
1 TGTATCGATACAT
238357 GACCAAATGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:238372 original size:33 final size:32
Alignment explanation
Indices: 238311--238378 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 32
238301 CCTTAACTGT
*
238311 TTGTATCGATACATATAAGATGTATCGATACA
1 TTGTATCGATACATACAAGATGTATCGATACA
238343 TTGTATCGATACATGACCAA-ATGTATCGATACA
1 TTGTATCGATACAT-A-CAAGATGTATCGATACA
238376 TTG
1 TTG
238379 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 14 0.42
33 17 0.52
34 2 0.06
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (32 bp):
TTGTATCGATACATACAAGATGTATCGATACA
Found at i:241591 original size:16 final size:16
Alignment explanation
Indices: 241570--241601 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
241560 TTGTGTAAAG
241570 GGTAAGCATAAAAGAA
1 GGTAAGCATAAAAGAA
241586 GGTAAGCATAAAAGAA
1 GGTAAGCATAAAAGAA
241602 CTACTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.06, G:0.25, T:0.12
Consensus pattern (16 bp):
GGTAAGCATAAAAGAA
Found at i:242050 original size:19 final size:18
Alignment explanation
Indices: 242026--242121 Score: 68
Period size: 19 Copynumber: 5.7 Consensus size: 18
242016 TTTCAACAAT
242026 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAA-TG
242045 TTGTATCGATAC--AA--
1 TTGTATCGATACATAATG
*
242059 -TGTATCGATGCATAAATG
1 TTGTATCGATACAT-AATG
* *
242077 GTGTATCAATAC--AA--
1 TTGTATCGATACATAATG
242091 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAA-TG
242109 TTGTATCGATACA
1 TTGTATCGATACA
242122 ATGTATCGCT
Statistics
Matches: 61, Mismatches: 4, Indels: 24
0.69 0.04 0.27
Matches are distributed among these distances:
13 20 0.33
15 2 0.03
16 4 0.07
17 2 0.03
19 33 0.54
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.34
Consensus pattern (18 bp):
TTGTATCGATACATAATG
Found at i:242064 original size:32 final size:32
Alignment explanation
Indices: 242027--242129 Score: 170
Period size: 32 Copynumber: 3.2 Consensus size: 32
242017 TTCAACAATT
242027 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* * * *
242059 TGTATCGATGCATAAATGGTGTATCAATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
242091 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
242123 TGTATCG
1 TGTATCG
242130 CTATGAAGCT
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 63 1.00
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:242192 original size:13 final size:13
Alignment explanation
Indices: 242174--242201 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
242164 ATTACTCAAA
242174 TGTATCGATACAT
1 TGTATCGATACAT
242187 TGTATCGATACAT
1 TGTATCGATACAT
242200 TG
1 TG
242202 ATATTTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:242204 original size:21 final size:21
Alignment explanation
Indices: 242180--242220 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
242170 CAAATGTATC
242180 GATACATTGTATCGATACATT
1 GATACATTGTATCGATACATT
**
242201 GATATTTTGTATCGATACAT
1 GATACATTGTATCGATACAT
242221 CTGAAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (21 bp):
GATACATTGTATCGATACATT
Found at i:248164 original size:13 final size:13
Alignment explanation
Indices: 248146--248183 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
248136 CAGCATTCTC
*
248146 TGTATCGATACAT
1 TGTATCGATACAG
248159 TGTATCGATACAG
1 TGTATCGATACAG
248172 TGTATCGATACA
1 TGTATCGATACA
248184 AGGGGTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:250732 original size:19 final size:20
Alignment explanation
Indices: 250687--250736 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
250677 CACCTTCAGA
*
250687 TGTATCGATACATAATGCAC
1 TGTATCGATACATAATCCAC
* *
250707 AGTATCGATACATGA-CCAC
1 TGTATCGATACATAATCCAC
250726 TGTATCGATAC
1 TGTATCGATAC
250737 TTGCAAAGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (20 bp):
TGTATCGATACATAATCCAC
Found at i:250826 original size:13 final size:13
Alignment explanation
Indices: 250808--250833 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
250798 ACATACAAGA
250808 TGTATCGATACAT
1 TGTATCGATACAT
250821 TGTATCGATACAT
1 TGTATCGATACAT
250834 GACTAAATGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:250849 original size:33 final size:32
Alignment explanation
Indices: 250788--250855 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
250778 CCTTAACTGT
250788 TTGTATCGATACATACAAGATGTATCGATACA
1 TTGTATCGATACATACAAGATGTATCGATACA
250820 TTGTATCGATACATGACTAA-ATGTATCGATACA
1 TTGTATCGATACAT-AC-AAGATGTATCGATACA
250853 TTG
1 TTG
250856 GCTTGTAACG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
32 14 0.41
33 18 0.53
34 2 0.06
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (32 bp):
TTGTATCGATACATACAAGATGTATCGATACA
Found at i:253301 original size:20 final size:20
Alignment explanation
Indices: 253276--253314 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
253266 TTATGTTTGA
*
253276 GAATTTGAATTTCAAAAATT
1 GAATTTAAATTTCAAAAATT
253296 GAATTTAAATTTCAAAAAT
1 GAATTTAAATTTCAAAAAT
253315 AATACAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (20 bp):
GAATTTAAATTTCAAAAATT
Found at i:254847 original size:21 final size:22
Alignment explanation
Indices: 254802--254848 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
254792 ATTGTTTGAT
* *
254802 TTTTGACTGTCAATTTTTTAAA
1 TTTTGACTGTAAATATTTTAAA
*
254824 TTTTGACT-TAAATATTTTATA
1 TTTTGACTGTAAATATTTTAAA
254845 TTTT
1 TTTT
254849 AATGAATCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.60
Consensus pattern (22 bp):
TTTTGACTGTAAATATTTTAAA
Found at i:261586 original size:33 final size:33
Alignment explanation
Indices: 261544--261612 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
261534 CTGTTACAAG
* *
261544 CAATGTATCGATACAAT-TCATCATGTATCGATA
1 CAATATATCGATACAATGT-ACCATGTATCGATA
*
261577 CAATATATCGATATAATGTACCATGTATCGATA
1 CAATATATCGATACAATGTACCATGTATCGATA
261610 CAA
1 CAA
261613 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (33 bp):
CAATATATCGATACAATGTACCATGTATCGATA
Found at i:261685 original size:19 final size:19
Alignment explanation
Indices: 261640--261726 Score: 78
Period size: 20 Copynumber: 4.8 Consensus size: 19
261630 ACTGCTAGTT
*
261640 TCATGTATCGATACAATTA
1 TCATGTATCGATACAATGA
*
261659 TCCATGTATCGATACAGTGA
1 T-CATGTATCGATACAATGA
*
261679 TCATGTATTGATAC-A--A
1 TCATGTATCGATACAATGA
261695 T-A--TATCGATACAATGTA
1 TCATGTATCGATACAATG-A
*
261712 TAATGTATCGATACA
1 TCATGTATCGATACA
261727 TCTGGGTGTG
Statistics
Matches: 55, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
13 8 0.15
14 1 0.02
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 13 0.24
20 27 0.49
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (19 bp):
TCATGTATCGATACAATGA
Found at i:261725 original size:33 final size:32
Alignment explanation
Indices: 261665--261726 Score: 88
Period size: 33 Copynumber: 1.9 Consensus size: 32
261655 ATTATCCATG
* * *
261665 TATCGATACAGTGATCATGTATTGATACAATA
1 TATCGATACAATGATAATGTATCGATACAATA
261697 TATCGATACAATGTATAATGTATCGATACA
1 TATCGATACAATG-ATAATGTATCGATACA
261727 TCTGGGTGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 12 0.46
33 14 0.54
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.34
Consensus pattern (32 bp):
TATCGATACAATGATAATGTATCGATACAATA
Found at i:264106 original size:21 final size:21
Alignment explanation
Indices: 264080--264121 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
264070 CGTTTTTGTT
*
264080 AGTGATTTTGATG-AAAAATGA
1 AGTGA-TTTGAAGTAAAAATGA
264101 AGTGATTTGAAGTAAAAATGA
1 AGTGATTTGAAGTAAAAATGA
264122 GGAAATTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.45, C:0.00, G:0.24, T:0.31
Consensus pattern (21 bp):
AGTGATTTGAAGTAAAAATGA
Found at i:272997 original size:107 final size:108
Alignment explanation
Indices: 272867--273065 Score: 294
Period size: 107 Copynumber: 1.9 Consensus size: 108
272857 TTTTACAATC
* * * *
272867 GGGGATACTCCAACCTCGTTATTTCCGAAGGGATACTCTAACTCCGATTTTATTT-TCAAAACAC
1 GGGGAAACTCCAACCTCATTATTTCCGAAGGGATACTCCAACCCCGATTTTATTTCT-AAAACAC
272931 CAATTTTTCATAATC-GGAGATACTCCAACCCCGTTATTTCCAA
65 CAATTTTTCATAATCAGGAGATACTCCAACCCCGTTATTTCCAA
* * *
272974 GGGGAAACTCCAACCTTATTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACACC
1 GGGGAAACTCCAACCTCATTATTTCCGAAGGGATACTCCAACCCCGATTTTATTTCTAAAACACC
* *
273039 GATTTTTCATAATCAGGGGATACTCCA
66 AATTTTTCATAATCAGGAGATACTCCA
273066 GCTCTGTCGT
Statistics
Matches: 81, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
107 69 0.85
108 12 0.15
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (108 bp):
GGGGAAACTCCAACCTCATTATTTCCGAAGGGATACTCCAACCCCGATTTTATTTCTAAAACACC
AATTTTTCATAATCAGGAGATACTCCAACCCCGTTATTTCCAA
Found at i:283026 original size:1 final size:1
Alignment explanation
Indices: 283022--283094 Score: 74
Period size: 1 Copynumber: 73.0 Consensus size: 1
283012 TTCTTTTTTT
* * * * * * * *
283022 AAAAAAAAAAACAAAAAAAACAAAACAAAACAAAACAAAAAAACAAAAAAAATAAAAAAAAAATA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
283087 AAAAAAAA
1 AAAAAAAA
283095 GAGAAAAGAA
Statistics
Matches: 56, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 56 1.00
ACGTcount: A:0.89, C:0.08, G:0.00, T:0.03
Consensus pattern (1 bp):
A
Found at i:283101 original size:10 final size:10
Alignment explanation
Indices: 283022--283108 Score: 59
Period size: 10 Copynumber: 8.1 Consensus size: 10
283012 TTCTTTTTTT
*
283022 AAAAAAAAAA
1 AAAAAAAAAG
*
283032 ACAAAAAAAAC
1 A-AAAAAAAAG
*
283043 AAAACAAAACAA
1 AAAA-AAAA-AG
*
283055 AACAAAAAAAC
1 AA-AAAAAAAG
283066 AAAAAAAATA-
1 AAAAAAAA-AG
*
283076 AAAAAAAAAT
1 AAAAAAAAAG
283086 AAAAAAAAAG
1 AAAAAAAAAG
283096 AGAAAAGAAAAG
1 A-AAAA-AAAAG
283108 A
1 A
283109 GCCTGCTTAA
Statistics
Matches: 65, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
9 1 0.02
10 28 0.43
11 21 0.32
12 13 0.20
13 2 0.03
ACGTcount: A:0.86, C:0.07, G:0.05, T:0.02
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:283101 original size:12 final size:11
Alignment explanation
Indices: 283022--283106 Score: 59
Period size: 11 Copynumber: 7.7 Consensus size: 11
283012 TTCTTTTTTT
283022 AAAAAAAAAA-
1 AAAAAAAAAAG
* *
283032 ACAAAAAAAAC
1 AAAAAAAAAAG
*
283043 AAAACAAAACA-
1 AAAA-AAAAAAG
*
283054 AAACAAAAAA-
1 AAAAAAAAAAG
* *
283064 ACAAAAAAAAT
1 AAAAAAAAAAG
*
283075 AAAAAAAAAAT
1 AAAAAAAAAAG
283086 AAAAAAAAAGAG
1 AAAAAAAAA-AG
283098 AAAAGAAAA
1 AAAA-AAAA
283107 GAGCCTGCTT
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
10 22 0.36
11 25 0.41
12 10 0.16
13 4 0.07
ACGTcount: A:0.87, C:0.07, G:0.04, T:0.02
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:284164 original size:61 final size:61
Alignment explanation
Indices: 284068--284563 Score: 608
Period size: 61 Copynumber: 8.3 Consensus size: 61
284058 TCCTTTTACT
284068 TTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
1 TTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
*
284129 CTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-
1 TTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * * * * * *
284189 TTTCCCAGTCTTCAAAGAACATG--A-C--GT-CTTTTAAAGCCCACACAACTTGATGGCAC
1 TTT-CTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * *
284245 TTTTCTAGTCCTCAAAGAGCAGGACGCGTTTTCCTTTTAAAGCACACACAAGTTGGTGGCAC
1 -TTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* *
284307 CTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-
1 TTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * *
284367 TTTCCTAGTCCTCAAAGAGCA--AGA-C--GT-CTTTTAAAGTCCACACAAGTTGGTGGCAC
1 TTT-CTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * *
284423 TTTTCTAGTCCTCAAAGAGTAGGACGCGTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
1 -TTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * * * * *
284485 CTTCTAGTCCTCAAAGAGCAGGACGCATTTTCATTTTAAAGCTCACACAAGTTAGTGGCA-
1 TTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
*
284545 TTTCCCAGTCCTCAAAGAG
1 TTT-CTAGTCCTCAAAGAG
284564 AAGGTTAAAG
Statistics
Matches: 375, Mismatches: 41, Indels: 38
0.83 0.09 0.08
Matches are distributed among these distances:
55 53 0.14
56 33 0.09
57 6 0.02
58 3 0.01
59 2 0.01
60 6 0.02
61 218 0.58
62 54 0.14
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (61 bp):
TTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
Found at i:284305 original size:117 final size:119
Alignment explanation
Indices: 284097--284618 Score: 570
Period size: 117 Copynumber: 4.5 Consensus size: 119
284087 AGGACACCTT
* * *
284097 TTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCTAGTCCTCAAAGAGCAGGACACCTTTTC
1 TTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCGTTTTC
* *
284161 CTTTTAAAGCCCACACAAGTTGGTGGCA-TTTCCCAGTCTTCAAAGAACATGACG
66 CTTTTAAAG-CCACACAAGTTGGTGGCACTTTCCCAGTCCTCAAAGAACAGGACG
* *
284215 -T-CTTTTAAAGCCCACACAACTTGATGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCGTTTTC
1 TTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCGTTTTC
* * *
284278 CTTTTAAAGCACACACAAGTTGGTGGCACCTT-CTAGTCCTCAAAGAGCAGGACG
66 CTTTTAAAGC-CACACAAGTTGGTGGCACTTTCCCAGTCCTCAAAGAACAGGACG
* *
284332 CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTCCTAGTCCTCAAAGAGCAAGA--CG-
1 ----TTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCGT
* * **
284393 --T-CTTTTAAAGTCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGTAGGACGCG
62 TTTCCTTTTAAAG-CCACACAAGTTGGTGGCACTTTCCCAGTCCTCAAAGAACAGGA--CG
* *
284451 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCTAGTCCTCAAAGAGCAGGACGCATTT
1 --TTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCGTTT
* *
284515 TCATTTTAAAGCTCACACAAGTTAGTGGCA-TTTCCCAGTCCTCAAAGAGA-A-G--G
64 TCCTTTTAAAGC-CACACAAGTTGGTGGCACTTTCCCAGTCCTCAAAGA-ACAGGACG
*
284568 ------TTAAAGCCCACACAAGTTGGTAGCACTTTTCTAGTCCTCAAAGAGCAGGAC
1 TTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGAC
284619 ACTGTCGTAA
Statistics
Matches: 354, Mismatches: 27, Indels: 54
0.81 0.06 0.12
Matches are distributed among these distances:
109 25 0.07
110 23 0.06
116 57 0.16
117 149 0.42
118 2 0.01
119 3 0.01
120 2 0.01
121 1 0.00
122 42 0.12
123 50 0.14
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (119 bp):
TTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCGTTTTC
CTTTTAAAGCCACACAAGTTGGTGGCACTTTCCCAGTCCTCAAAGAACAGGACG
Found at i:284364 original size:178 final size:177
Alignment explanation
Indices: 284065--284618 Score: 888
Period size: 178 Copynumber: 3.2 Consensus size: 177
284055 TTCTCCTTTT
* *
284065 ACTTTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 ACTTTTCTAGTCCTCAAAGAGCAGGACGCGTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
*
284130 TTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTCCC
66 TTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTCCC
* * *
284195 AGTCTTCAAAGAACATGACGTCTTTTAAAGCCCACACAACTTGATGGC
131 AGTCCTCAAAGAACA-GACGTCTTTTAAAGCCCACACAAGTTGGTGGC
*
284243 ACTTTTCTAGTCCTCAAAGAGCAGGACGCGTTTTCCTTTTAAAGCACACACAAGTTGGTGGCACC
1 ACTTTTCTAGTCCTCAAAGAGCAGGACGCGTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
*
284308 TTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTCCT
66 TTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTCCC
* *
284373 AGTCCTCAAAGAGCAAGACGTCTTTTAAAGTCCACACAAGTTGGTGGC
131 AGTCCTCAAAGAAC-AGACGTCTTTTAAAGCCCACACAAGTTGGTGGC
*
284421 ACTTTTCTAGTCCTCAAAGAGTAGGACGCGTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 ACTTTTCTAGTCCTCAAAGAGCAGGACGCGTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* * * *
284486 TTCTAGTCCTCAAAGAGCAGGACGCATTTTCATTTTAAAGCTCACACAAGTTAGTGGCATTTCCC
66 TTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTCCC
*
284551 AGTCCTCAAAGAGA-AG--G----TTAAAGCCCACACAAGTTGGTAGC
131 AGTCCTCAAAGA-ACAGACGTCTTTTAAAGCCCACACAAGTTGGTGGC
284592 ACTTTTCTAGTCCTCAAAGAGCAGGAC
1 ACTTTTCTAGTCCTCAAAGAGCAGGAC
284619 ACTGTCGTAA
Statistics
Matches: 353, Mismatches: 21, Indels: 11
0.92 0.05 0.03
Matches are distributed among these distances:
171 48 0.14
175 1 0.00
177 2 0.01
178 301 0.85
179 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (177 bp):
ACTTTTCTAGTCCTCAAAGAGCAGGACGCGTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
TTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTCCC
AGTCCTCAAAGAACAGACGTCTTTTAAAGCCCACACAAGTTGGTGGC
Found at i:287798 original size:13 final size:13
Alignment explanation
Indices: 287780--287805 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
287770 ACAAAGATCC
287780 ATGTATCGATACA
1 ATGTATCGATACA
287793 ATGTATCGATACA
1 ATGTATCGATACA
287806 TTGAGTAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:288411 original size:61 final size:61
Alignment explanation
Indices: 288215--289115 Score: 965
Period size: 61 Copynumber: 15.2 Consensus size: 61
288205 TCTACAGACG
* *
288215 CCTTTTCCTTTTAAAGCCCGCACAAGTTGGTGGCA-TTTCCCAGTCCTCAAAGAGCAGG--A
1 CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTT-CTAGTCCTCAAAGAGCAGGACA
* * * *
288274 -C--GT-CTTTTAAAGCCCACACAACTTGGTGGCACTTTTCTAGTCCCCAAAAAGCAAGGACA
1 CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTCTAGTCCTCAAAGAGC-AGGACA
* * * *
288333 CTTTTTCCTTTTCAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTTAAAGAGCAGGACA
1 CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGACA
* * *
288394 CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTCCCAGTCTTCAAAGAGCATG--A
1 CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTT-CTAGTCCTCAAAGAGCAGGACA
* * * **
288453 -C--GT-CTTTTAAAGCCCACACAACTTGATGGCACTTTTCTAGTCCTCAAAGAGCAGGATG
1 CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTCTAGTCCTCAAAGAGCAGGACA
** * *
288511 TTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACG
1 CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGACA
*
288572 CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTCCCAGTCCTCAAAGAGCAGG--A
1 CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTT-CTAGTCCTCAAAGAGCAGGACA
* * *
288631 -C--GT-CTTTTAAAGCCCACACAAGTTGGTGACACTTTTCTAGTCCTCAAAGAGCAGGACG
1 CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTCTAGTCCTCAAAGAGCAGGACA
* * * *
288689 CTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAAGACG
1 CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGACA
* * * *
288750 CCTTTTCCTTTTAAAGCCCACACAAGTTAGTGGCA-TTTCCCAGTCCTCAAAGAGAAGGTCA
1 CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTT-CTAGTCCTCAAAGAGCAGGACA
* *
288811 -----T-CTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCTAGTCCTCAAAGAGAAGGACA
1 CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCTAGTCCTCAAAGAGCAGGACA
* * *
288867 CCTTTTCCTTTTAAAGCCCATACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGG--A
1 CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGACA
* * * * *
288926 -C---GCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCCGCACG
1 CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGACA
* ** * * *
288983 CCTTTTCCTTTTAAAGCCCACATAACCTGGTGGCACCTTC-AGTCCTCAAAGAGCAAGACG
1 CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGACA
* * * * *
289043 CCTTTTCCTTTTAAAACCCACACAAGTTGGTGCCACTTT-TCAGTCCTCAAAAAGTAGGACG
1 CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCT-AGTCCTCAAAGAGCAGGACA
289104 CCTTTTCCTTTT
1 CCTTTTCCTTTT
289116 CTCCTTTGCC
Statistics
Matches: 713, Mismatches: 85, Indels: 86
0.81 0.10 0.10
Matches are distributed among these distances:
55 154 0.22
56 71 0.10
57 15 0.02
58 5 0.01
59 3 0.00
60 56 0.08
61 284 0.40
62 98 0.14
63 27 0.04
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (61 bp):
CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGACA
Found at i:288518 original size:117 final size:119
Alignment explanation
Indices: 288219--289115 Score: 984
Period size: 117 Copynumber: 7.6 Consensus size: 119
288209 CAGACGCCTT
* * *
288219 TTCCTTTTAAAGCCCGCACAAGTTGGTGGCA-TTTCCCAGTCCTCAAAGAGCAGGACG-----T-
1 TTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTC
* * * * *
288277 CTTTTAAAGCCCACACAACTTGGTGGCACTTTTCTAGTCCCCAAAAAGCAAGGACACTTT
66 CTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTCCAGTCCTCAAAGAGC-AGG--AC--G
* * * *
288337 TTCCTTTTCAAGCCCACACAAGTTGGTGGCAC-CTTCTAGTCCTTAAAGAGCAGGACACCTTTTC
1 TTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTC
* *
288401 CTTTTAAAGCCCACACAAGTTGGTGGCA-TTTCCCAGTCTTCAAAGAGCATGACG
66 CTTTTAAAGCCCACACAAGTTGGTGGCACTTT-CCAGTCCTCAAAGAGCAGGACG
* * * **
288455 -T-CTTTTAAAGCCCACACAACTTGATGGCACTTTTCTAGTCCTCAAAGAGCAGGATGTTTTTTC
1 TTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTC
* *
288518 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACG
66 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACG
* *
288572 CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTCCCAGTCCTCAAAGAGCAGGACG---
1 ----TTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCT
* *
288633 --T-CTTTTAAAGCCCACACAAGTTGGTGACACTTTTCTAGTCCTCAAAGAGCAGGACG
62 TTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTCCAGTCCTCAAAGAGCAGGACG
* *
288689 CTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCTAGTCCTCAAAGAGCAAGACGCCT
1 ----TTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCT
* * *
288753 TTTCCTTTTAAAGCCCACACAAGTTAGTGGCA-TTTCCCAGTCCTCAAAGAGAAGGTC-
62 TTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTT-CCAGTCCTCAAAGAGCAGGACG
* * * *
288810 AT-CTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCTAGTCCTCAAAGAGAAGGACACCTTTTC
1 TTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTC
* *
288874 CTTTTAAAGCCCATACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACG
66 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACG
* * *
288928 --CCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTCCAGTCCTCAAAGAGCCGCACGCCTTTTC
1 TTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTC
* ** * *
288990 CTTTTAAAGCCCACATAACCTGGTGGCACCTT-CAGTCCTCAAAGAGCAAGACG
66 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACG
* * * *
289043 CCTTTTCCTTTTAAAACCCACACAAGTTGGTGCCACTTTTC-AGTCCTCAAAAAGTAGGACGCCT
1 ----TTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCT
289107 TTTCCTTTT
62 TTTCCTTTT
289116 CTCCTTTGCC
Statistics
Matches: 670, Mismatches: 73, Indels: 69
0.83 0.09 0.08
Matches are distributed among these distances:
115 20 0.03
116 135 0.20
117 256 0.38
118 54 0.08
120 2 0.00
121 59 0.09
122 52 0.08
123 65 0.10
124 27 0.04
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (119 bp):
TTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTC
CTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACG
Found at i:288593 original size:178 final size:178
Alignment explanation
Indices: 288211--289115 Score: 1299
Period size: 178 Copynumber: 5.1 Consensus size: 178
288201 GGTGTCTACA
*
288211 GACGCCTTTTCCTTTTAAAGCCCGCACAAGTTGGTGGCATTTCCCAGTCCTCAAAGAGCAGGACG
1 GACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTCCCAGTCCTCAAAGAGCAGGACG
* * *
288276 TCTTTTAAAGCCCACACAACTTGGTGGCACTTTTCTAGTCCCCAAAAAGCAAGGACACTTTTTCC
66 TCTTTTAAAGCCCACACAACTTGGTGGCACTTTTCTAGTCCTCAAAGAGC-AGGACGCTTTTTCC
* *
288341 TTTTCAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTTAAAGAGCAG
130 TTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAG
* * *
288390 GACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTCCCAGTCTTCAAAGAGCATGACG
1 GACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTCCCAGTCCTCAAAGAGCAGGACG
* * *
288455 TCTTTTAAAGCCCACACAACTTGATGGCACTTTTCTAGTCCTCAAAGAGCAGGATGTTTTTTCCT
66 TCTTTTAAAGCCCACACAACTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCTTTTTCCT
288520 TTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAG
131 TTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAG
288568 GACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTCCCAGTCCTCAAAGAGCAGGACG
1 GACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTCCCAGTCCTCAAAGAGCAGGACG
* *
288633 TCTTTTAAAGCCCACACAAGTTGGTGACACTTTTCTAGTCCTCAAAGAGCAGGACGCTTTTTCCT
66 TCTTTTAAAGCCCACACAACTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCTTTTTCCT
*
288698 TTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAA
131 TTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAG
* * * *
288746 GACGCCTTTTCCTTTTAAAGCCCACACAAGTTAGTGGCATTTCCCAGTCCTCAAAGAGAAGGTCA
1 GACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTCCCAGTCCTCAAAGAGCAGGACG
* * * * *
288811 TCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCTAGTCCTCAAAGAGAAGGACACCTTTTCCT
66 TCTTTTAAAGCCCACACAACTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCTTTTTCCT
* ** *
288876 TTTAAAGCCCATACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAG
131 TTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAG
* *
288924 GACG------CCTTTTAAAGCCCACACAAGTTGGTGGCACTTT-CCAGTCCTCAAAGAGCCGCAC
1 GACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTCCCAGTCCTCAAAGAGCAGGAC
* * * * *
288982 GCCTTTTCCTTTTAAAGCCCACATAACCTGGTGGCAC-CTTC-AGTCCTCAAAGAGCAAGACGCC
65 G-----T-CTTTTAAAGCCCACACAACTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCT
* * * * *
289045 TTTTCCTTTTAAAACCCACACAAGTTGGTGCCA-CTTTTCAGTCCTCAAAAAGTAG
124 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT-AGTCCTCAAAGAGCAG
289100 GACGCCTTTTCCTTTT
1 GACGCCTTTTCCTTTT
289116 CTCCTTTGCC
Statistics
Matches: 655, Mismatches: 57, Indels: 25
0.89 0.08 0.03
Matches are distributed among these distances:
172 45 0.07
173 3 0.00
175 2 0.00
176 67 0.10
177 4 0.01
178 420 0.64
179 108 0.16
182 6 0.01
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (178 bp):
GACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTCCCAGTCCTCAAAGAGCAGGACG
TCTTTTAAAGCCCACACAACTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCTTTTTCCT
TTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAG
Found at i:289140 original size:37 final size:38
Alignment explanation
Indices: 289087--289179 Score: 125
Period size: 37 Copynumber: 2.5 Consensus size: 38
289077 ACTTTTCAGT
* *
289087 CCTCAAAAAGTAGGACGCCTTTTCCTTTTCTCCTTTGC
1 CCTCAAAGAGCAGGACGCCTTTTCCTTTTCTCCTTTGC
** * *
289125 CCTC-TTGAGCAGGACGCCTTTTCCTTTTTTCCTTTGT
1 CCTCAAAGAGCAGGACGCCTTTTCCTTTTCTCCTTTGC
289162 CCTCAAAGAGCAGGACGC
1 CCTCAAAGAGCAGGACGC
289180 ACTTCATTTC
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
37 31 0.67
38 15 0.33
ACGTcount: A:0.17, C:0.31, G:0.17, T:0.34
Consensus pattern (38 bp):
CCTCAAAGAGCAGGACGCCTTTTCCTTTTCTCCTTTGC
Done.