Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 105 of 373
Found at i:34304909 original size:21 final size:21
Alignment explanation
Indices: 34304857--34304910 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
34304847 TTAGTTGTTT
* *
34304857 TTTTAGTTATTTTAAAGGAAAA
1 TTTTAATT-TTTTAAAAGAAAA
* *
34304879 -TTTAAATTTTTAAAATAAAA
1 TTTTAATTTTTTAAAAGAAAA
34304899 TTTTAATTTTTT
1 TTTTAATTTTTT
34304911 TTTCAATTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.54
Consensus pattern (21 bp):
TTTTAATTTTTTAAAAGAAAA
Found at i:34305141 original size:146 final size:145
Alignment explanation
Indices: 34304855--34305144 Score: 340
Period size: 145 Copynumber: 2.0 Consensus size: 145
34304845 GTTTAGTTGT
* * * *
34304855 TTTTTTAGTTATTTTAAAGGAAAATTTAAATTTTTAAAATAAAATTTTAATTTTTTTTTCAATTA
1 TTTTTTAGTAATTTTAAAGGAAAATTTAAATTTTTAAAACAAAATTTTAA-TTCTTTTTCAACTA
*
34304920 TTTCAAAATAAAAGCTTTGATCTTTAAGAAAAATAGTTTTTTTTAAAAAAGAGAGTTTAGATTTT
65 TTTCAAAATAAAAGCTTTGATCTTTAAGAAAAATAGTTTTTTTTAAAAAAGAGACTTTAGATTTT
*
34304985 TAAAATAAAAAAAATG
130 TAAAAAAAAAAAAATG
* * *
34305001 TTTTTTAGTAATTTTAAAGGAAAAATTTAGATTTTTTAAAACAAAGTTTTGA-TCTTTTTCAACT
1 TTTTTTAGTAATTTTAAAGG-AAAATTTA-AATTTTTAAAACAAAATTTTAATTCTTTTTCAACT
** * * *
34305065 ATTTTGAAAT-AAAGTTTTGAT-TTGTAAGAAAAGTAGTGATTTTTTTAAAGAA-A-ACTTT-GA
64 ATTTCAAAATAAAAGCTTTGATCTT-TAAGAAAAATAGT--TTTTTTTAAAAAAGAGACTTTAGA
*
34305125 TTTTGTAAAGAAAAAAAAAT
126 TTTT-TAAAAAAAAAAAAAT
34305145 CCAGCCACCG
Statistics
Matches: 123, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
144 8 0.07
145 39 0.32
146 38 0.31
147 20 0.16
148 18 0.15
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.44
Consensus pattern (145 bp):
TTTTTTAGTAATTTTAAAGGAAAATTTAAATTTTTAAAACAAAATTTTAATTCTTTTTCAACTAT
TTCAAAATAAAAGCTTTGATCTTTAAGAAAAATAGTTTTTTTTAAAAAAGAGACTTTAGATTTTT
AAAAAAAAAAAAATG
Found at i:34306071 original size:27 final size:27
Alignment explanation
Indices: 34306040--34306098 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
34306030 GTAGGTGTTG
* *
34306040 CATTTTAATGAAACCATAAGTTTTTTA
1 CATTTTAATAAAACCATAAGATTTTTA
34306067 CATTTTAATAAAACCATAAGATTTTTA
1 CATTTTAATAAAACCATAAGATTTTTA
34306094 CATTT
1 CATTT
34306099 GGATTTATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (27 bp):
CATTTTAATAAAACCATAAGATTTTTA
Found at i:34306209 original size:52 final size:52
Alignment explanation
Indices: 34306147--34306253 Score: 196
Period size: 52 Copynumber: 2.1 Consensus size: 52
34306137 CCCTAGAAAA
34306147 ATTATAAATAATATGTAAGATATTTTTTTAGGGTTTTAAACTAATTCTAAAT
1 ATTATAAATAATATGTAAGATATTTTTTTAGGGTTTTAAACTAATTCTAAAT
* *
34306199 ATTATAAATAATATGTAATATATTTTTTTGGGGTTTTAAACTAATTCTAAAT
1 ATTATAAATAATATGTAAGATATTTTTTTAGGGTTTTAAACTAATTCTAAAT
34306251 ATT
1 ATT
34306254 GTATATTATT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.48
Consensus pattern (52 bp):
ATTATAAATAATATGTAAGATATTTTTTTAGGGTTTTAAACTAATTCTAAAT
Found at i:34308226 original size:27 final size:27
Alignment explanation
Indices: 34308196--34308373 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
34308186 ATATTGAGTC
* *
34308196 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
34308223 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
34308250 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
34308278 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
34308305 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
34308332 CGTACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
34308359 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34308374 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:34308339 original size:82 final size:81
Alignment explanation
Indices: 34308217--34308372 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
34308207 TGCTATATAA
* *
34308217 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
34308282 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
34308299 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGTACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
34308363 CACTTAGTGC
65 CACTTAGTGC
34308373 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:34328345 original size:22 final size:21
Alignment explanation
Indices: 34328310--34328367 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 21
34328300 AAAAGGTATC
* * *
34328310 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAAAT
34328331 TACAAAATCATATCTTCTAAAAT
1 TAC-AAATCATATC-TCTAAAAT
* *
34328354 TGCATATCATATCT
1 TACAAATCATATCT
34328368 AAGATTGCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.57
23 9 0.30
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAAAT
Found at i:34328387 original size:37 final size:38
Alignment explanation
Indices: 34328339--34328437 Score: 136
Period size: 37 Copynumber: 2.7 Consensus size: 38
34328329 ATTACAAAAT
*
34328339 CATATC-T-TCTAAAATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATCATATCTAAGATTG
34328375 CA-ATCATATCTAAGATTG--TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATCATATCTAAGATTG
*
34328410 CATTATCATATCTAAGGTTGCATATCAT
1 CA-TATCATATCTAAGATTGCATATCAT
34328438 TGAAGATTAT
Statistics
Matches: 55, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
35 22 0.40
36 3 0.05
37 24 0.44
39 6 0.11
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (38 bp):
CATATCATATCTAAGATTGCATATCATATCTAAGATTG
Found at i:34328418 original size:20 final size:19
Alignment explanation
Indices: 34328346--34328437 Score: 136
Period size: 20 Copynumber: 4.9 Consensus size: 19
34328336 AATCATATCT
*
34328346 TCTAAAATTGCATATCATA
1 TCTAAGATTGCATATCATA
34328365 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
34328383 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
34328400 TCTAAGATTGCATTATCATA
1 TCTAAGATTGCA-TATCATA
*
34328420 TCTAAGGTTGCATATCAT
1 TCTAAGATTGCATATCAT
34328438 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 8
0.87 0.03 0.10
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 17 0.25
20 18 0.27
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:34328595 original size:21 final size:20
Alignment explanation
Indices: 34328557--34328596 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
34328547 TTGGACTTCG
**
34328557 TTTTTTTTTTGGGTTTATTA
1 TTTTTTTTTTGGACTTATTA
34328577 TTTTTGTTTTTGGACTTATT
1 TTTTT-TTTTTGGACTTATT
34328597 TCTGGGCCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTTGGACTTATTA
Found at i:34330154 original size:39 final size:41
Alignment explanation
Indices: 34330083--34330302 Score: 136
Period size: 40 Copynumber: 5.5 Consensus size: 41
34330073 CTCGTTCAAG
* * * *
34330083 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATAGAAACTCACACGAA
* *
34330122 TGCCTTCGGGACTTAACCCGGATTTTA-AAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAGAAACTCACACGAA
* * * * *
34330162 TGCCTTC-GGACTTAACCCGGAAT-TAGTATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGATTATAGAAACTCACACGAA
* * * * *
34330201 GGCCTTCGGAACTTAACCCGGAATTA-A-TAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAGAAACTCACACGAA
** ** *
34330241 TGCCTTC-GGATCTTAGTCCGGA-TATAGTCACTTAGCAC-AA
1 TGCCTTCGGGA-CTTAACCCGGATTATAGAAACTCA-CACGAA
* *
34330281 AGCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGACTTAACCCGGA
34330303 CAGCATTCAA
Statistics
Matches: 147, Mismatches: 23, Indels: 21
0.77 0.12 0.11
Matches are distributed among these distances:
38 4 0.03
39 61 0.41
40 73 0.50
41 9 0.06
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (41 bp):
TGCCTTCGGGACTTAACCCGGATTATAGAAACTCACACGAA
Found at i:34330206 original size:79 final size:80
Alignment explanation
Indices: 34330118--34330302 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 80
34330108 AGTAACTCAT
* * *
34330118 ACAATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACGAATGCCTTCGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAACCCG
*
34330181 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
* **
34330196 ACAAAGGCCTTCGGAACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 ACAAA-GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAACCCG
34330261 GATATAGTCACTTAGC
65 GATATAGTCACTTAGC
*
34330277 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
34330303 CAGCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
78 8 0.09
79 41 0.45
80 32 0.35
81 10 0.11
82 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:34330226 original size:40 final size:40
Alignment explanation
Indices: 34330107--34330302 Score: 186
Period size: 40 Copynumber: 5.0 Consensus size: 40
34330097 AGCCCGGTTA
** * *
34330107 TAGTAACTCATAC-AATGCCTTCGGGACTTAACCCGGATTT
1 TAGTAACTCGCACAAATGCCTTCGGAACTTAACCCGGA-AT
* *
34330147 TA-AAACTCGCACGAATGCCTTCGG-ACTTAACCCGGAAT
1 TAGTAACTCGCACAAATGCCTTCGGAACTTAACCCGGAAT
* *
34330185 TAGTATCTCGCACAAAGGCCTTCGGAACTTAACCCGGAAT
1 TAGTAACTCGCACAAATGCCTTCGGAACTTAACCCGGAAT
* * **
34330225 TAATAACTCGCACAAATGCCTTCGGATCTTAGTCCGG-AT
1 TAGTAACTCGCACAAATGCCTTCGGAACTTAACCCGGAAT
* * * *
34330264 ATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 -TAGTAAC-TCGCACAAATGCCTTCGGAACTTAACCCGGA
34330303 CAGCATTCAA
Statistics
Matches: 130, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
38 3 0.02
39 39 0.30
40 80 0.62
41 8 0.06
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.24
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGAACTTAACCCGGAAT
Found at i:34338026 original size:39 final size:40
Alignment explanation
Indices: 34337983--34338150 Score: 139
Period size: 40 Copynumber: 4.2 Consensus size: 40
34337973 CTCGTTCAAG
* * * *
34337983 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
34338022 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
34338062 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * * *
34338102 GGCCTTCGGAACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
34338142 TGCCTTCGG
1 TGCCTTCGG
34338151 ATCTTAGTCC
Statistics
Matches: 110, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
39 26 0.24
40 80 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:34338163 original size:40 final size:40
Alignment explanation
Indices: 34338020--34338203 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
34338010 TAACTCATAC
* *
34338020 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
34338060 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* *
34338100 AAGGCCTTCGGAACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
34338140 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
34338181 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
34338204 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 7 0.06
40 104 0.85
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:34338163 original size:80 final size:80
Alignment explanation
Indices: 34337983--34338203 Score: 229
Period size: 80 Copynumber: 2.8 Consensus size: 80
34337973 CTCGTTCAAG
* * * * * * * *
34337983 TGCCTTCGGGACATAGCCCGGTTATAGTAACTCA-TACAATGCCTTCGGGACTTAACCCGGATTT
1 TGCCTTCGGGACTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGATAT
*
34338047 TAAAACTCGCACGAA
66 TAAAACTCGCACAAA
* *
34338062 TGCCTTCGGGACTTAACCCGGA-ATTAGT-A-TCTCGCACAAAGGCCTTCGGAACTTAACCCGGA
1 TGCCTTCGGGACTTAACCCGGATA-TAGTCACT-TAGCACAAA-GCCTTCGGGACTTAACCCGGA
34338124 -ATTAATAACTCGCACAAA
63 TATTAA-AACTCGCACAAA
** *
34338142 TGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
34338204 CAGCATTCAA
Statistics
Matches: 118, Mismatches: 15, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
77 1 0.01
78 2 0.02
79 34 0.29
80 70 0.59
81 10 0.08
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
TGCCTTCGGGACTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGATAT
TAAAACTCGCACAAA
Found at i:34350515 original size:122 final size:122
Alignment explanation
Indices: 34350296--34350690 Score: 600
Period size: 122 Copynumber: 3.3 Consensus size: 122
34350286 ATTACCATAA
* * * ** * *
34350296 GCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCC
* *
34350361 CGGATATATCAACTTGCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTC
66 CGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATATCAACTC
34350418 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCC
* *
34350483 CGGATATATCAACTCGTACAAATGCCTGCGGGTCTTAGCCCGG--ATATATCAACTC
66 CGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATATCAACTC
34350538 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATATCAACTCGCACAAATGCCTGCGGGTCTTAG
1 GCACAAATGCCTGCGGGTCTTAGCCCGG--ATATATCAACTCGCACAAATGCCTGCGGGTCTTAG
* *
34350603 CCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATA-AAATC-ACTA
64 CCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATATCAACTC
* * *
34350660 GCACAATTGCCTTCGGGACTTAGCCCGGATA
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATA
34350691 AAATTCAAAT
Statistics
Matches: 251, Mismatches: 18, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
120 43 0.17
122 203 0.81
123 4 0.02
124 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (122 bp):
GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCC
CGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATATCAACTC
Found at i:34350557 original size:162 final size:162
Alignment explanation
Indices: 34350296--34350690 Score: 639
Period size: 162 Copynumber: 2.4 Consensus size: 162
34350286 ATTACCATAA
* * ** *
34350296 GCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
* * *
34350361 CGGATATATCAACTTGCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTCGCACAAAT
66 CGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCCCGGATATATATCAACTCGCACAAAT
34350426 GCCTGCGGGTCTTAGCCCGGATATATCAACTC
131 GCCTGCGGGTCTTAGCCCGGATATATCAACTC
* * *
34350458 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGTACAAATGCCTGCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
34350523 CGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCCCGGATATATATCAACTCGCACAAAT
66 CGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCCCGGATATATATCAACTCGCACAAAT
34350588 GCCTGCGGGTCTTAGCCCGGATATATCAACTC
131 GCCTGCGGGTCTTAGCCCGGATATATCAACTC
* * * *
34350620 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTAGCACAATTGCCTTCGGGACTTAGC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
34350684 CCGGATA
65 CCGGATA
34350691 AAATTCAAAT
Statistics
Matches: 214, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
162 210 0.98
163 4 0.02
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (162 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
CGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCCCGGATATATATCAACTCGCACAAAT
GCCTGCGGGTCTTAGCCCGGATATATCAACTC
Found at i:34350694 original size:40 final size:40
Alignment explanation
Indices: 34350296--34350690 Score: 585
Period size: 40 Copynumber: 9.8 Consensus size: 40
34350286 ATTACCATAA
* * * ** *
34350296 GCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
* *
34350336 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
* *
34350376 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGG--ATATATCAACTC
34350418 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
34350458 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
*
34350498 GTACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
34350538 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGG--ATATATCAACTC
34350580 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
* * *
34350620 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTGCGGGTCTTAGCCCGGAT-ATATCAACTC
* * *
34350660 GCACAATTGCCTTCGGGACTTAGCCCGGATA
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATA
34350691 AAATTCAAAT
Statistics
Matches: 333, Mismatches: 17, Indels: 11
0.92 0.05 0.03
Matches are distributed among these distances:
39 1 0.00
40 251 0.75
41 4 0.01
42 77 0.23
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
Found at i:34361570 original size:25 final size:25
Alignment explanation
Indices: 34361541--34361591 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
34361531 GATACAAGTG
34361541 ACATGTCACTAGGAAACCATGAGTT
1 ACATGTCACTAGGAAACCATGAGTT
34361566 ACATGTCACTAGGAAACCATGAGTT
1 ACATGTCACTAGGAAACCATGAGTT
34361591 A
1 A
34361592 TGTGATCTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (25 bp):
ACATGTCACTAGGAAACCATGAGTT
Found at i:34361614 original size:39 final size:39
Alignment explanation
Indices: 34361560--34361638 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
34361550 TAGGAAACCA
34361560 TGAGTTACATGTCACTAGGAAACCATGAGTTATGTGATC
1 TGAGTTACATGTCACTAGGAAACCATGAGTTATGTGATC
34361599 TGAGTTACATGTCACTAGGAAACCATGAGTTATGTGATC
1 TGAGTTACATGTCACTAGGAAACCATGAGTTATGTGATC
34361638 T
1 T
34361639 ATGTGAATCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (39 bp):
TGAGTTACATGTCACTAGGAAACCATGAGTTATGTGATC
Found at i:34367206 original size:49 final size:47
Alignment explanation
Indices: 34367146--34367600 Score: 703
Period size: 47 Copynumber: 9.6 Consensus size: 47
34367136 GATAATTGTG
* *
34367146 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
34367193 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
34367240 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
34367287 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
34367334 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
34367381 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
34367430 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
34367479 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
34367528 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
34367575 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
34367601 TCCCGAAGGG
Statistics
Matches: 386, Mismatches: 20, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 244 0.63
49 142 0.37
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:34367331 original size:22 final size:22
Alignment explanation
Indices: 34367303--34367378 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
34367293 AAGTGTATAT
34367303 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * ***
34367325 ATGTGATGAATG-TGAAAGTGTATA
1 ATGTGAT-AAGGCCG-AA-TGGCCA
34367349 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
34367372 ATGTGAT
1 ATGTGAT
34367379 GAATGTGAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 15 0.38
23 8 0.21
24 8 0.21
25 8 0.21
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:34370034 original size:32 final size:32
Alignment explanation
Indices: 34369992--34370053 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
34369982 ATTGAATTCG
34369992 CTTACAAGGCTTTGTACGGGCGTAAATGTCAC
1 CTTACAAGGCTTTGTACGGGCGTAAATGTCAC
*
34370024 CTTACGAGGCTTTGTACGGGCGTAAATGTC
1 CTTACAAGGCTTTGTACGGGCGTAAATGTC
34370054 GTACGGGCGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (32 bp):
CTTACAAGGCTTTGTACGGGCGTAAATGTCAC
Found at i:34370059 original size:17 final size:17
Alignment explanation
Indices: 34370037--34370075 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
34370027 ACGAGGCTTT
34370037 GTACGGGCGTAAATGTC
1 GTACGGGCGTAAATGTC
34370054 GTACGGGCGTAAATGTC
1 GTACGGGCGTAAATGTC
34370071 GTACG
1 GTACG
34370076 CCATTGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.23, C:0.18, G:0.36, T:0.23
Consensus pattern (17 bp):
GTACGGGCGTAAATGTC
Found at i:34372719 original size:40 final size:40
Alignment explanation
Indices: 34372626--34372881 Score: 322
Period size: 40 Copynumber: 6.4 Consensus size: 40
34372616 GATGATAACT
* * **
34372626 GGGCTAAGTCCCAAAGGCATTT-TGCGCTAGTGACTAGTTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTACATCC
* *
34372667 GGGCTAAGTCCCGAAGGCATTTGTGCGTGTTATTACATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCC
34372707 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCC
* *
34372747 GAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCC
* *
34372787 GGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCC
* * *
34372827 GGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTACATCC
* *
34372866 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
34372882 TACTTGGCTT
Statistics
Matches: 195, Mismatches: 18, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
38 15 0.08
39 15 0.08
40 140 0.72
41 21 0.11
42 4 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCC
Found at i:34382312 original size:15 final size:16
Alignment explanation
Indices: 34382292--34382321 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
34382282 TTTTTATTAT
34382292 ATTTTTATGG-TCTAC
1 ATTTTTATGGATCTAC
34382307 ATTTTTATGGATCTA
1 ATTTTTATGGATCTA
34382322 TTCTGTGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.23, C:0.10, G:0.13, T:0.53
Consensus pattern (16 bp):
ATTTTTATGGATCTAC
Found at i:34386532 original size:42 final size:42
Alignment explanation
Indices: 34386473--34386592 Score: 152
Period size: 43 Copynumber: 2.8 Consensus size: 42
34386463 AGGTTAGTTG
*
34386473 AGATTTCTTGTAAGACCATATCTGGGATATGGCATCGATATA
1 AGATTTCATGTAAGACCATATCTGGGATATGGCATCGATATA
* * *
34386515 AGATTTCGTGTAAGACCATAGT-TGGGCTATTGGCATCGATATG
1 AGATTTCATGTAAGACCATA-TCTGGGATA-TGGCATCGATATA
** *
34386558 AGATCCCATGTAAGACCATATCTAGGATATGGCAT
1 AGATTTCATGTAAGACCATATCTGGGATATGGCAT
34386593 TGGTATGGTA
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
42 32 0.48
43 35 0.52
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (42 bp):
AGATTTCATGTAAGACCATATCTGGGATATGGCATCGATATA
Found at i:34388328 original size:6 final size:6
Alignment explanation
Indices: 34388301--34388353 Score: 63
Period size: 6 Copynumber: 8.7 Consensus size: 6
34388291 AGGTGTGCAC
* *
34388301 CTGTAT CTATA- CTTGTAT CTGTAC CTGTAT CTGTAT CTGTATT CTGTAT
1 CTGTAT CTGTAT C-TGTAT CTGTAT CTGTAT CTGTAT CTGTA-T CTGTAT
34388350 CTGT
1 CTGT
34388354 TTTAAGGTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 1 0.03
6 32 0.80
7 7 0.17
ACGTcount: A:0.17, C:0.19, G:0.15, T:0.49
Consensus pattern (6 bp):
CTGTAT
Found at i:34389952 original size:43 final size:43
Alignment explanation
Indices: 34389831--34389988 Score: 164
Period size: 43 Copynumber: 3.7 Consensus size: 43
34389821 AGCTCGTACA
* * *
34389831 ATGCCAACGTCCCAGATGTGGTCTTACATGT-AATTAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCAAATA-CG
** *
34389874 ATGCC-ACTGTCCCAGACAAGATCTTACACG-AAATCAAATACG
1 ATGCCAAC-GTCCCAGACGTGGTCTTACACGTAAATCAAATACG
*
34389916 ATGCCAACGTCCCTA-ACGTGGTCTTACACGTAAATCATAAGT-CA
1 ATGCCAACGTCCC-AGACGTGGTCTTACACGTAAATCA-AA-TACG
*
34389960 ATGCCAACATCCCAGACGTGGTCTTACAC
1 ATGCCAACGTCCCAGACGTGGTCTTACAC
34389989 AATAACACAT
Statistics
Matches: 96, Mismatches: 11, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
42 26 0.27
43 40 0.42
44 29 0.30
45 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCAAATACG
Found at i:34395844 original size:38 final size:38
Alignment explanation
Indices: 34395761--34395933 Score: 229
Period size: 38 Copynumber: 4.5 Consensus size: 38
34395751 AAATCCAGTC
* * * *
34395761 ACCAGCACAAAACCTGCGGAACTTTAAGCTCGAATATAAT
1 ACCAGCACGAAGCCTGCGGGA-TTTAA-CTCGGATATAAT
* * *
34395801 ACCAGCACTAAGCCTGCAGGATTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACTCGGATATAAT
34395839 ACCAGCACGAAGCCTGCGGGATTTAACTCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACTCGGATATAAT
** *
34395877 ACCAGCACGAAGCCTTTGGGATTTAACTCGAATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACTCGGATATAAT
*
34395915 ACCAGCATGAAGCCTGCGG
1 ACCAGCACGAAGCCTGCGG
34395934 ACCTTTAAGC
Statistics
Matches: 118, Mismatches: 15, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
38 96 0.81
39 5 0.04
40 17 0.14
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACTCGGATATAAT
Found at i:34399591 original size:44 final size:41
Alignment explanation
Indices: 34399501--34399607 Score: 99
Period size: 44 Copynumber: 2.5 Consensus size: 41
34399491 CTGATATGTG
* * * *
34399501 ATTTTATGTAAGACCACGTCTGAGACGTTGGCATCGACTTCT
1 ATTTTGTGTAAGACCATGTCTGAGACATCGGCATCGAC-TCT
*
34399543 ATTTTACGTGTAAGACCATGTCTGGGACATCGGCATCGTA-TCT
1 ATTTT--GTGTAAGACCATGTCTGAGACATCGGCATCG-ACTCT
* *
34399586 AATTTTTTGTAAGACCCTGTCT
1 -ATTTTGTGTAAGACCATGTCT
34399608 AGGATAGTGG
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
42 19 0.35
43 3 0.06
44 31 0.57
45 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.36
Consensus pattern (41 bp):
ATTTTGTGTAAGACCATGTCTGAGACATCGGCATCGACTCT
Found at i:34408163 original size:13 final size:13
Alignment explanation
Indices: 34408123--34408154 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
34408113 TTACCAAAGG
34408123 GACACGGCCATGT
1 GACACGGCCATGT
34408136 GACACGGCCATGT
1 GACACGGCCATGT
34408149 GACACG
1 GACACG
34408155 CCCGTGTGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.25, C:0.31, G:0.31, T:0.12
Consensus pattern (13 bp):
GACACGGCCATGT
Found at i:34420821 original size:14 final size:14
Alignment explanation
Indices: 34420802--34420830 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
34420792 TCAACCAATT
34420802 GAATGCTCATCCTA
1 GAATGCTCATCCTA
34420816 GAATGCTCATCCTA
1 GAATGCTCATCCTA
34420830 G
1 G
34420831 TTTGTTTGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (14 bp):
GAATGCTCATCCTA
Found at i:34424467 original size:43 final size:42
Alignment explanation
Indices: 34424399--34424516 Score: 150
Period size: 43 Copynumber: 2.8 Consensus size: 42
34424389 AGCTCGTACA
*
34424399 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCACTGTCCCAGACGTGGTCTTACATGTAATCAAATA-CG
* * *
34424442 ATGCCACTGTCCCAGACAG-GATCTTACACGAAATCAAATACG
1 ATGCCACTGTCCCAGAC-GTGGTCTTACATGTAATCAAATACG
*
34424484 ATGCCAAC-GTCCCTGACGTGGTCTTACATGTAA
1 ATGCC-ACTGTCCCAGACGTGGTCTTACATGTAA
34424517 AACATAAGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
41 1 0.02
42 26 0.41
43 36 0.56
44 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (42 bp):
ATGCCACTGTCCCAGACGTGGTCTTACATGTAATCAAATACG
Found at i:34424537 original size:44 final size:43
Alignment explanation
Indices: 34424399--34424555 Score: 146
Period size: 43 Copynumber: 3.7 Consensus size: 43
34424389 AGCTCGTACA
*
34424399 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAA-AT-ATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAA--AACATAATCG
* * *
34424442 ATGCC-ACTGTCCCAGACAG-GATCTTACACG-AAATCA-AATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGTAAAACATAAT-CG
*
34424484 ATGCCAACGTCCCTGACGTGGTCTTACATGTAAAACATAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAAAACATAA-TCG
** *
34424528 ATGCCAACGTCGTAGACATGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
34424556 CGATAACACA
Statistics
Matches: 92, Mismatches: 12, Indels: 19
0.75 0.10 0.15
Matches are distributed among these distances:
40 1 0.01
41 4 0.04
42 27 0.29
43 30 0.33
44 29 0.32
45 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAAAACATAATCG
Found at i:34426765 original size:15 final size:15
Alignment explanation
Indices: 34426745--34426773 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
34426735 CATGATCATC
34426745 TGAAGAAAAAAAATT
1 TGAAGAAAAAAAATT
34426760 TGAAGAAAAAAAAT
1 TGAAGAAAAAAAAT
34426774 GATAACCACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.17
Consensus pattern (15 bp):
TGAAGAAAAAAAATT
Found at i:34427210 original size:41 final size:43
Alignment explanation
Indices: 34427118--34427231 Score: 178
Period size: 41 Copynumber: 2.7 Consensus size: 43
34427108 AAAAAATGTC
*
34427118 GCTAAAGAACATGACCTTTAGTGGCGCTTTCACCACAAACGCC
1 GCTAAAGAACATGACCTTTAGTGGCGCTTTCACCACAAACGCA
*
34427161 GCTAAAGAACATGACCTTTAGTGACGCTTTCA-C-CAAACGCA
1 GCTAAAGAACATGACCTTTAGTGGCGCTTTCACCACAAACGCA
* *
34427202 GCTAAAGAACATGTCCTTTAGCGGCGCTTT
1 GCTAAAGAACATGACCTTTAGTGGCGCTTT
34427232 TTGTCACAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
41 34 0.52
42 1 0.02
43 31 0.47
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (43 bp):
GCTAAAGAACATGACCTTTAGTGGCGCTTTCACCACAAACGCA
Found at i:34443752 original size:24 final size:25
Alignment explanation
Indices: 34443708--34443755 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
34443698 TTTCATATTT
*
34443708 AAATATAATAAATAAACTATTTTTA
1 AAATATAATAAATAAAATATTTTTA
34443733 AAAT-TAATAAA-AATAATATTTTT
1 AAATATAATAAATAA-AATATTTTT
34443756 TTTGTTAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 15 0.71
25 4 0.19
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (25 bp):
AAATATAATAAATAAAATATTTTTA
Found at i:34445734 original size:37 final size:36
Alignment explanation
Indices: 34445657--34445740 Score: 96
Period size: 36 Copynumber: 2.3 Consensus size: 36
34445647 ATATGTTTTT
** ** * *
34445657 TTAAAATTTTAGAATTTAATTTTTGTATTTTTATTT
1 TTAAAATTTTAGAATTTAATTTCAGTATTAATACTA
*
34445693 TTAAAAATTTAGAATTTAATTTCAGTTATTAATACTA
1 TTAAAATTTTAGAATTTAATTTCAG-TATTAATACTA
34445730 TTAAAATTTTA
1 TTAAAATTTTA
34445741 ATTGTTAAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
36 22 0.56
37 17 0.44
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (36 bp):
TTAAAATTTTAGAATTTAATTTCAGTATTAATACTA
Found at i:34445896 original size:18 final size:18
Alignment explanation
Indices: 34445863--34445898 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
34445853 AATTAAATTT
34445863 AAATTTTAAAATATAAAA
1 AAATTTTAAAATATAAAA
34445881 AAATTCTTAAAA-ATAAAA
1 AAATT-TTAAAATATAAAA
34445899 TTACAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
AAATTTTAAAATATAAAA
Found at i:34446703 original size:16 final size:17
Alignment explanation
Indices: 34446682--34446723 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
34446672 AATAATTTAA
34446682 ATAAAATTAA-TTATTT
1 ATAAAATTAATTTATTT
**
34446698 ATAAAAACAATTTATTT
1 ATAAAATTAATTTATTT
*
34446715 GTAAAATTA
1 ATAAAATTA
34446724 TATATGAAAA
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (17 bp):
ATAAAATTAATTTATTT
Found at i:34451794 original size:34 final size:35
Alignment explanation
Indices: 34451756--34451832 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 35
34451746 TGAATTCATG
34451756 ATAAGCATGACTT-TTGCTACAACATTGATTTGTT
1 ATAAGCATGACTTATTGCTACAACATTGATTTGTT
* * ***
34451790 ATAAGAAT-ATTTATTGCTACCGTATTGATTTGTT
1 ATAAGCATGACTTATTGCTACAACATTGATTTGTT
*
34451824 ATAATCATG
1 ATAAGCATG
34451833 TCCATTGCTA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
33 3 0.09
34 31 0.91
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (35 bp):
ATAAGCATGACTTATTGCTACAACATTGATTTGTT
Found at i:34451840 original size:34 final size:34
Alignment explanation
Indices: 34451779--34451852 Score: 85
Period size: 34 Copynumber: 2.2 Consensus size: 34
34451769 TTGCTACAAC
**
34451779 ATTGATTTGTTATAAGAATATTTATTGCTACCGT
1 ATTGATTTGTTATAAGAATATCCATTGCTACCGT
** * **
34451813 ATTGATTTGTTATAATCATGTCCATTGCTATTGT
1 ATTGATTTGTTATAAGAATATCCATTGCTACCGT
34451847 ATTGAT
1 ATTGAT
34451853 CTATGATAAG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.27, C:0.09, G:0.15, T:0.49
Consensus pattern (34 bp):
ATTGATTTGTTATAAGAATATCCATTGCTACCGT
Found at i:34452069 original size:43 final size:43
Alignment explanation
Indices: 34451959--34452082 Score: 126
Period size: 43 Copynumber: 2.9 Consensus size: 43
34451949 CCAGTGGCAG
* * * *
34451959 TTTATCT-GCAAATTTGTTGCGCATCTACAGCCTACTAGAAGTT
1 TTTATCTGGGAAA-TTGTTGCGCATCCACAGCCTAGTGGAAGTT
* * ** * *
34452002 TTTATCTGTG-AATTCGCTATGCATCCATAGCCTAGTGGTAGTT
1 TTTATCTGGGAAATT-GTTGCGCATCCACAGCCTAGTGGAAGTT
34452045 TTTATCTGGGAAATTGTTGCGCATCCACAGCCTAGTGG
1 TTTATCTGGGAAATTGTTGCGCATCCACAGCCTAGTGG
34452083 CAGCTTGTTT
Statistics
Matches: 63, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
42 2 0.03
43 57 0.90
44 4 0.06
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (43 bp):
TTTATCTGGGAAATTGTTGCGCATCCACAGCCTAGTGGAAGTT
Found at i:34452930 original size:6 final size:6
Alignment explanation
Indices: 34452921--34452952 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
34452911 TTATTTTTGT
34452921 TTTAAG TTTAAG TTTAAG TTTAAG TTTAAG TT
1 TTTAAG TTTAAG TTTAAG TTTAAG TTTAAG TT
34452953 ATTATTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (6 bp):
TTTAAG
Found at i:34463456 original size:16 final size:17
Alignment explanation
Indices: 34463424--34463486 Score: 51
Period size: 16 Copynumber: 3.8 Consensus size: 17
34463414 TATATATGTA
34463424 TAATAAATATATAAAAT
1 TAATAAATATATAAAAT
*
34463441 TAATAACTAT-TAAAAT
1 TAATAAATATATAAAAT
* *
34463457 CT-ATAAA-ATTTAAATT
1 -TAATAAATATATAAAAT
* *
34463473 TAATGATTATATAA
1 TAATAAATATATAA
34463487 TATATAATGG
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
15 3 0.08
16 18 0.50
17 15 0.42
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.40
Consensus pattern (17 bp):
TAATAAATATATAAAAT
Found at i:34463697 original size:22 final size:20
Alignment explanation
Indices: 34463664--34463713 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 20
34463654 TTATATATAC
*
34463664 TTTTAATTTTTTAATTATTAATG
1 TTTT-ATTTTTTAA-TATTAA-A
34463687 TTTTATTTTTTAATATTAAA
1 TTTTATTTTTTAATATTAAA
34463707 TTTTATT
1 TTTTATT
34463714 AATATTATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 7 0.27
21 6 0.23
22 9 0.35
23 4 0.15
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (20 bp):
TTTTATTTTTTAATATTAAA
Found at i:34463717 original size:16 final size:15
Alignment explanation
Indices: 34463691--34463720 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
34463681 TTAATGTTTT
34463691 ATTTTTTAATATTAA
1 ATTTTTTAATATTAA
34463706 ATTTTATTAATATTA
1 ATTTT-TTAATATTA
34463721 TTATCTATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTTTTTAATATTAA
Found at i:34467676 original size:10 final size:10
Alignment explanation
Indices: 34467661--34467691 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
34467651 AAATATCTAG
34467661 ATTTCTCTTC
1 ATTTCTCTTC
34467671 ATTTCTCTTC
1 ATTTCTCTTC
34467681 ATTTCTCTTC
1 ATTTCTCTTC
34467691 A
1 A
34467692 ATTCCAGCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.13, C:0.29, G:0.00, T:0.58
Consensus pattern (10 bp):
ATTTCTCTTC
Found at i:34469935 original size:23 final size:23
Alignment explanation
Indices: 34469909--34469953 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
34469899 TGGGTATGTG
* * *
34469909 ATGACGTTATTTTATAAATATGC
1 ATGAAGTTATATTAAAAATATGC
*
34469932 ATGAATTTATATTAAAAATATG
1 ATGAAGTTATATTAAAAATATG
34469954 TTGAATTGGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.42
Consensus pattern (23 bp):
ATGAAGTTATATTAAAAATATGC
Found at i:34469976 original size:14 final size:14
Alignment explanation
Indices: 34469953--34469982 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
34469943 TTAAAAATAT
34469953 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
34469967 GTTGATTTGGATTG
1 GTTGAATTGGATTG
34469981 GT
1 GT
34469983 CTCGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:34473563 original size:27 final size:27
Alignment explanation
Indices: 34473533--34473586 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
34473523 ATGACCAAAA
*
34473533 TACCCCTATAGGGTAAAATGACT-ATTT
1 TACCCCTAGAGGGT-AAATGACTGATTT
*
34473560 TACCCCTCGAGGGTAAATGACTGATTT
1 TACCCCTAGAGGGTAAATGACTGATTT
34473587 GTGCTATGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (27 bp):
TACCCCTAGAGGGTAAATGACTGATTT
Found at i:34473884 original size:20 final size:20
Alignment explanation
Indices: 34473855--34474035 Score: 219
Period size: 20 Copynumber: 9.3 Consensus size: 20
34473845 CTATGTTTGA
*
34473855 GTGCCGCTATTGATGGCTTT
1 GTGCCACTATTGATGGCTTT
34473875 GTGCCACTATTGATGG-TTT
1 GTGCCACTATTGATGGCTTT
*
34473894 GTGCTACTATTGATGGCTTT
1 GTGCCACTATTGATGGCTTT
34473914 GTGCCACTATTGATGG-TTT
1 GTGCCACTATTGATGGCTTT
*
34473933 GTGCCACTATTGAAGGCTTT
1 GTGCCACTATTGATGGCTTT
*
34473953 GTGCCACTACTGATGGCTTT
1 GTGCCACTATTGATGGCTTT
* *
34473973 GTGCCGCTACTGATGG---T
1 GTGCCACTATTGATGGCTTT
* *
34473990 GTACCGCTATTGATGGCTTT
1 GTGCCACTATTGATGGCTTT
* ***
34474010 GTGCCGCTACACATGGCTTT
1 GTGCCACTATTGATGGCTTT
34474030 GTGCCA
1 GTGCCA
34474036 TATACTGATA
Statistics
Matches: 142, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
17 15 0.11
19 36 0.25
20 91 0.64
ACGTcount: A:0.15, C:0.21, G:0.27, T:0.37
Consensus pattern (20 bp):
GTGCCACTATTGATGGCTTT
Found at i:34473904 original size:39 final size:39
Alignment explanation
Indices: 34473855--34474035 Score: 215
Period size: 39 Copynumber: 4.7 Consensus size: 39
34473845 CTATGTTTGA
*
34473855 GTGCCGCTATTGATGGCTTTGTGCCACTATTGATGGTTT
1 GTGCCACTATTGATGGCTTTGTGCCACTATTGATGGTTT
*
34473894 GTGCTACTATTGATGGCTTTGTGCCACTATTGATGGTTT
1 GTGCCACTATTGATGGCTTTGTGCCACTATTGATGGTTT
* *
34473933 GTGCCACTATTGAAGGCTTTGTGCCACTACTGATGGCTTT
1 GTGCCACTATTGATGGCTTTGTGCCACTATTGATGG-TTT
* * * *
34473973 GTGCCGCTACTGATGG---TGTACCGCTATTGATGGCTTT
1 GTGCCACTATTGATGGCTTTGTGCCACTATTGATGG-TTT
* ***
34474010 GTGCCGCTACACATGGCTTTGTGCCA
1 GTGCCACTATTGATGGCTTTGTGCCA
34474036 TATACTGATA
Statistics
Matches: 123, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
37 32 0.26
39 70 0.57
40 21 0.17
ACGTcount: A:0.15, C:0.21, G:0.27, T:0.37
Consensus pattern (39 bp):
GTGCCACTATTGATGGCTTTGTGCCACTATTGATGGTTT
Found at i:34473925 original size:59 final size:59
Alignment explanation
Indices: 34473855--34474034 Score: 240
Period size: 59 Copynumber: 3.1 Consensus size: 59
34473845 CTATGTTTGA
* *
34473855 GTGCCGCTATTGATGGCTTTGTGCCACTATTGATGG-TTTGTGCTACTATTGATGGCTTT
1 GTGCCGCTATTGATGG-TTTGTGCCACTATTGATGGCTTTGTGCCACTACTGATGGCTTT
* *
34473914 GTGCCACTATTGATGGTTTGTGCCACTATTGAAGGCTTTGTGCCACTACTGATGGCTTT
1 GTGCCGCTATTGATGGTTTGTGCCACTATTGATGGCTTTGTGCCACTACTGATGGCTTT
* * * * **
34473973 GTGCCGCTACTGATGG--TGTACCGCTATTGATGGCTTTGTGCCGCTACACATGGCTTT
1 GTGCCGCTATTGATGGTTTGTGCCACTATTGATGGCTTTGTGCCACTACTGATGGCTTT
34474030 GTGCC
1 GTGCC
34474035 ATATACTGAT
Statistics
Matches: 108, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
57 40 0.37
58 18 0.17
59 50 0.46
ACGTcount: A:0.14, C:0.21, G:0.27, T:0.37
Consensus pattern (59 bp):
GTGCCGCTATTGATGGTTTGTGCCACTATTGATGGCTTTGTGCCACTACTGATGGCTTT
Found at i:34476065 original size:59 final size:59
Alignment explanation
Indices: 34475973--34476090 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
34475963 ACTAGAATCA
34475973 AATCCAGTGTTTCTTCGAAGGCTGACTAGCTTACTTTGCTCATCTTTACCCACTCATTC
1 AATCCAGTGTTTCTTCGAAGGCTGACTAGCTTACTTTGCTCATCTTTACCCACTCATTC
34476032 AATCCAGTGTTTCTTCGAAGGCTGACTAGCTTACTTTGCTCATCTTTACCCACTCATTC
1 AATCCAGTGTTTCTTCGAAGGCTGACTAGCTTACTTTGCTCATCTTTACCCACTCATTC
34476091 TTGTTGAATC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.20, C:0.29, G:0.14, T:0.37
Consensus pattern (59 bp):
AATCCAGTGTTTCTTCGAAGGCTGACTAGCTTACTTTGCTCATCTTTACCCACTCATTC
Found at i:34476249 original size:28 final size:28
Alignment explanation
Indices: 34476209--34476273 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
34476199 AAGAAAAGGC
*
34476209 AAGTTTGG-AAGAGAGAAAATGAGAGAG
1 AAGTGTGGAAAGAGAGAAAATGAGAGAG
34476236 AAGTGTGGAAAGAGAGAAAATGAGAGAG
1 AAGTGTGGAAAGAGAGAAAATGAGAGAG
34476264 AAGTGTGGAA
1 AAGTGTGGAA
34476274 TAAAGTTATA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 7 0.19
28 29 0.81
ACGTcount: A:0.48, C:0.00, G:0.38, T:0.14
Consensus pattern (28 bp):
AAGTGTGGAAAGAGAGAAAATGAGAGAG
Found at i:34478871 original size:37 final size:36
Alignment explanation
Indices: 34478823--34478931 Score: 166
Period size: 35 Copynumber: 3.0 Consensus size: 36
34478813 ATAATCTTCA
* *
34478823 ATGATATGCAATCTTAGATGTGATATGCGATCTTAGAT
1 ATGAT-TGCAATCTTAGATATGATAT-CAATCTTAGAT
34478861 ATGATTGCAATCTTAGATATGATA-CAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATATCAATCTTAGAT
34478896 ATGATTGCAATCTTAGATATGATATACAATCTTAGA
1 ATGATTGCAATCTTAGATATGATAT-CAATCTTAGA
34478932 AGATATGATT
Statistics
Matches: 67, Mismatches: 2, Indels: 5
0.91 0.03 0.07
Matches are distributed among these distances:
35 34 0.51
37 28 0.42
38 5 0.07
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.37
Consensus pattern (36 bp):
ATGATTGCAATCTTAGATATGATATCAATCTTAGAT
Found at i:34478875 original size:18 final size:19
Alignment explanation
Indices: 34478823--34478931 Score: 163
Period size: 18 Copynumber: 5.9 Consensus size: 19
34478813 ATAATCTTCA
34478823 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
* *
34478842 GTGATATGCGATCTTAGAT
1 ATGATATGCAATCTTAGAT
34478861 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
34478879 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
34478896 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
34478914 ATGATATACAATCTTAGA
1 ATGATATGCAATCTTAGA
34478932 AGATATGATT
Statistics
Matches: 81, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.20
18 33 0.41
19 32 0.40
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:34479299 original size:29 final size:26
Alignment explanation
Indices: 34479250--34479313 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 26
34479240 TATATTTTAT
*
34479250 TTTTTTAATAATTTTAGTATTATATCAA
1 TTTTTTAATAATTCTAGTATTAT-TC-A
34479278 TTTTTTAATTAAATTCTA-TATTATTCA
1 TTTTTTAA-T-AATTCTAGTATTATTCA
34479305 TTGTTTTAA
1 TT-TTTTAA
34479314 AAAATATATT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
27 3 0.09
28 16 0.50
29 7 0.22
30 6 0.19
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (26 bp):
TTTTTTAATAATTCTAGTATTATTCA
Found at i:34484688 original size:8 final size:8
Alignment explanation
Indices: 34484675--34484717 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
34484665 CTATTTCAAA
34484675 AAAAAAAG
1 AAAAAAAG
34484683 -AAAAAA-
1 AAAAAAAG
*
34484689 AAGAAAAG
1 AAAAAAAG
*
34484697 AAAAAGAG
1 AAAAAAAG
34484705 AAAAAAAG
1 AAAAAAAG
34484713 AAAAA
1 AAAAA
34484718 TAGAGAGGCC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
7 11 0.38
8 18 0.62
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:34484708 original size:21 final size:20
Alignment explanation
Indices: 34484672--34484717 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 20
34484662 CTTCTATTTC
34484672 AAAAAAAAAAGAAAAAAAAG
1 AAAAAAAAAAGAAAAAAAAG
*
34484692 AAAAGAAAAAGAGAAAAAAAG
1 AAAAAAAAAAGA-AAAAAAAG
34484713 AAAAA
1 AAAAA
34484718 TAGAGAGGCC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAAGAAAAAAAAG
Found at i:34485720 original size:43 final size:41
Alignment explanation
Indices: 34485672--34485810 Score: 106
Period size: 43 Copynumber: 3.3 Consensus size: 41
34485662 TGCCTTAATC
34485672 CCCTAAGCAGTAGGGTAGCAGGTTAAATTTGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAGCAGGTTAAA-TT-CAGATCTTATCT
* * * * * *
34485715 CCCTAAGCA-TAGTGG-AGCAGATCGAAGACTC-G-CCTTAACC
1 CCCTAAGCAGTAG-GGTAGCAGGT-TAA-ATTCAGATCTTATCT
* * *
34485755 CCCTAAGCAGTAGGTTAACAGGCTAAAATTACAGATCTTATCT
1 CCCTAAGCAGTAGGGTAGCAGG-TTAAATT-CAGATCTTATCT
34485798 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
34485811 CAGAACAAAT
Statistics
Matches: 73, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
40 17 0.23
41 11 0.15
42 12 0.16
43 32 0.44
44 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (41 bp):
CCCTAAGCAGTAGGGTAGCAGGTTAAATTCAGATCTTATCT
Found at i:34485851 original size:87 final size:84
Alignment explanation
Indices: 34485663--34485952 Score: 388
Period size: 87 Copynumber: 3.4 Consensus size: 84
34485653 AAAATTCAGT
* * * *
34485663 GCCTTAATCCCCTAAGCAGTAGGGTAGCAGGTTAAATTTGCAGATCTTATCTCCCTAAGCA-TAG
1 GCCTTAACCCCCTAAGCAGTAGGGTAACAGGTTAAAATTACAGATCTTATCTCCCTAAGCAGTAG
*
34485727 TGGAGCAGATCGAAGACTC
66 TGGAACAGATCGAAGACTC
* *
34485746 GCCTTAACCCCCTAAGCAGTAGGTTAACAGGCTAAAATTACAGATCTTATCTCCCTAAGCAGTAG
1 GCCTTAACCCCCTAAGCAGTAGGGTAACAGGTTAAAATTACAGATCTTATCTCCCTAAGCAGTAG
** * *
34485811 CAGAACAAATCAACGACGACTC
66 TGGAACAGAT---CGAAGACTC
* *
34485833 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTCAAAATTGA-AGATCTTATCTCCCTAAGCAGTA
1 GCCTTAACCCCCTAAGCAGTAGGGTAACAGGTTAAAATT-ACAGATCTTATCTCCCTAAGCAGTA
34485897 GTGGAACAGATCGAAGA-TGC
65 GTGGAACAGATCGAAGACT-C
*
34485917 GCCTTAACCCCCTAAGTAGTAGGGTAACAGGTTAAA
1 GCCTTAACCCCCTAAGCAGTAGGGTAACAGGTTAAA
34485953 GTATAGCAGA
Statistics
Matches: 179, Mismatches: 22, Indels: 11
0.84 0.10 0.05
Matches are distributed among these distances:
83 56 0.31
84 48 0.27
87 74 0.41
88 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.23
Consensus pattern (84 bp):
GCCTTAACCCCCTAAGCAGTAGGGTAACAGGTTAAAATTACAGATCTTATCTCCCTAAGCAGTAG
TGGAACAGATCGAAGACTC
Found at i:34485946 original size:41 final size:42
Alignment explanation
Indices: 34485745--34485946 Score: 112
Period size: 43 Copynumber: 4.7 Consensus size: 42
34485735 ATCGAAGACT
* *
34485745 CGCCTTAACCCCCTAAGCAGTAGGTTAACAG-GCTAAAATT-A
1 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGATC-AAAATTGA
* * * * * * *
34485786 CAGATCTTATCTCCCTAAGCAGTAGCAG-AACAAATCAACGA-CGA
1 C-G-CCTTAACCCCCTAAGCAGTAG-GGTAACAGATCAA-AATTGA
* *
34485830 CTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTCAAAATTGA
1 --CGCCTTAACCCCCTAAGCAGTAGGGTAACAGATCAAAATTGA
* * * * *
34485874 AGATCTTATCTCCCTAAGCAGTAGTGG-AACAGATCGAAGA-TG-
1 CG-CCTTAACCCCCTAAGCAGTAG-GGTAACAGATC-AAAATTGA
*
34485916 CGCCTTAACCCCCTAAGTAGTAGGGTAACAG
1 CGCCTTAACCCCCTAAGCAGTAGGGTAACAG
34485947 GTTAAAGTAT
Statistics
Matches: 117, Mismatches: 30, Indels: 28
0.67 0.17 0.16
Matches are distributed among these distances:
40 2 0.02
41 23 0.20
42 3 0.03
43 52 0.44
44 35 0.30
45 1 0.01
46 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (42 bp):
CGCCTTAACCCCCTAAGCAGTAGGGTAACAGATCAAAATTGA
Found at i:34486578 original size:207 final size:207
Alignment explanation
Indices: 34486077--34486785 Score: 1123
Period size: 207 Copynumber: 3.4 Consensus size: 207
34486067 CGGAGAGTAG
* * *
34486077 ATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTATGATGAAGCAAGTCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
* * *
34486142 TCTCTGTATTGTCAGAGAACAAATCAAATTTTGGCGTCTCCGTATTCGACGGAGGGCAGACACAT
66 TCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGTCTCCATATTCAACGGAGGGCAGACACAT
* * *
34486207 AGCAGATTTGGCCTTTAGATGTTTATACTAAAGCAAGATCCAAGATGGTTTGGGCATCCTTGTGC
131 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTT-GGCATCCTTGTGC
34486272 TTACAAGGAACAA
195 TTACAAGGAACAA
* *
34486285 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAGCAAGTCTAAGATGATTTGGTA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
*
34486350 TCTCTGTATTGTCAAAGAACAAATCAAAGTTTGGCGTCTCCATATTCAACGGAGGGCAGACACAT
66 TCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGTCTCCATATTCAACGGAGGGCAGACACAT
* *
34486415 AGTAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCTTTGTGCT
131 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
34486480 TACAAGGAACAA
196 TACAAGGAACAA
34486492 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
* * *
34486557 TCTTTGTATTGTCAGAGAACAAATCAAAGTTTGGCGTCTCCATATTCAACGGAGGACAGACATAT
66 TCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGTCTCCATATTCAACGGAGGGCAGACACAT
** * * * *
34486622 AGCAGATCTAACCTTCAGATGATTAGACTGAAGC-AGATCCAAGATGGTTCGGTATCCTTGTGCT
131 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
*
34486686 TACAAGGAGCAA
196 TACAAGGAACAA
* ** * *
34486698 ATCGAAGACATAGCTAATTTGGCTTTTGCGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
* *
34486763 TCTCTGTATTGTTAGGGAACAAA
66 TCTCTGTATTGTCAGAGAACAAA
34486786 CTGAAGAAGT
Statistics
Matches: 464, Mismatches: 37, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
206 118 0.25
207 178 0.38
208 168 0.36
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (207 bp):
ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
TCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGTCTCCATATTCAACGGAGGGCAGACACAT
AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
TACAAGGAACAA
Found at i:34487235 original size:18 final size:18
Alignment explanation
Indices: 34487187--34487293 Score: 164
Period size: 17 Copynumber: 5.9 Consensus size: 18
34487177 ATAATCTTCA
34487187 ATGATATACAATCTTAGAT
1 ATGAT-TACAATCTTAGAT
34487206 ATGA-TACAATCTTAGAT
1 ATGATTACAATCTTAGAT
*
34487223 ATGATTGCAATCTTAGAT
1 ATGATTACAATCTTAGAT
34487241 ATGA-TACAATCTTAGAT
1 ATGATTACAATCTTAGAT
*
34487258 ATGATTGCAATCTTAGAT
1 ATGATTACAATCTTAGAT
34487276 ATGATATACAATCTTAGA
1 ATGAT-TACAATCTTAGA
34487294 AGATATGATT
Statistics
Matches: 81, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
17 33 0.41
18 33 0.41
19 15 0.19
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.36
Consensus pattern (18 bp):
ATGATTACAATCTTAGAT
Found at i:34487235 original size:35 final size:35
Alignment explanation
Indices: 34487195--34487293 Score: 180
Period size: 35 Copynumber: 2.8 Consensus size: 35
34487185 CAATGATATA
34487195 CAATCTTAGATATGATACAATCTTAGATATGATTG
1 CAATCTTAGATATGATACAATCTTAGATATGATTG
34487230 CAATCTTAGATATGATACAATCTTAGATATGATTG
1 CAATCTTAGATATGATACAATCTTAGATATGATTG
34487265 CAATCTTAGATATGATATACAATCTTAGA
1 CAATCTTAGATATG--ATACAATCTTAGA
34487294 AGATATGATT
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
35 49 0.79
37 13 0.21
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.36
Consensus pattern (35 bp):
CAATCTTAGATATGATACAATCTTAGATATGATTG
Found at i:34502747 original size:18 final size:18
Alignment explanation
Indices: 34502702--34502739 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
34502692 AAAATGATAG
34502702 TAATAGTAATGATAATAA
1 TAATAGTAATGATAATAA
* *
34502720 TAATATTAATGGTAATAA
1 TAATAGTAATGATAATAA
34502738 TA
1 TA
34502740 CAAGTAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.37
Consensus pattern (18 bp):
TAATAGTAATGATAATAA
Found at i:34502880 original size:3 final size:3
Alignment explanation
Indices: 34502851--34502970 Score: 89
Period size: 3 Copynumber: 39.7 Consensus size: 3
34502841 TAAAAATAGT
* * * * * *
34502851 ATA ATA ATG ATA AT- ATG ATA GTA ATA ATA ACTA TATA GTG ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA -ATA ATA ATA ATA
* * * * * * * *
34502897 GTA GTA ATA ATA ATA AAA ATA ATA GTA ATA AAA ATA GTA CTA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
34502945 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
34502971 GACACAACAA
Statistics
Matches: 92, Mismatches: 22, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
2 2 0.02
3 85 0.92
4 4 0.04
5 1 0.01
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:34503190 original size:23 final size:23
Alignment explanation
Indices: 34503129--34503204 Score: 68
Period size: 23 Copynumber: 3.3 Consensus size: 23
34503119 AAGAAAATAT
* *
34503129 ATAAT-ATAATAGTAACAATATG
1 ATAATAATAATAGTAATAATAAG
* * *
34503151 AAAATAATTAAT-TTAATACTAAG
1 ATAATAA-TAATAGTAATAATAAG
34503174 ATAATAATAATAGTAATAATACA-
1 ATAATAATAATAGTAATAATA-AG
34503197 ATAATAAT
1 ATAATAAT
34503205 GGTATTAGAA
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
22 8 0.19
23 29 0.69
24 5 0.12
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.33
Consensus pattern (23 bp):
ATAATAATAATAGTAATAATAAG
Found at i:34507004 original size:22 final size:21
Alignment explanation
Indices: 34506974--34507039 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
34506964 TACAAATTAA
34506974 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
34506996 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
34507017 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
34507036 ATCT
1 ATCT
34507040 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:34507026 original size:19 final size:19
Alignment explanation
Indices: 34506991--34507088 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
34506981 AGATTACAAG
34506991 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
34507012 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
34507031 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
34507048 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
*
34507067 ATCATATCTAAGATTGCTT
1 ATCATATCTAAGATTGCAT
34507086 ATC
1 ATC
34507089 CTTAAAGATT
Statistics
Matches: 74, Mismatches: 1, Indels: 6
0.91 0.01 0.07
Matches are distributed among these distances:
17 17 0.23
19 48 0.65
20 1 0.01
21 8 0.11
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:34507033 original size:14 final size:15
Alignment explanation
Indices: 34507013--34507069 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
34507003 AGATTGCATA
34507013 TCATATCTAAGATTG
1 TCATATCTAAGATTG
34507028 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
34507047 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
34507064 -CATATC
1 TCATATC
34507070 ATATCTAAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.16
17 17 0.45
19 15 0.39
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:34507055 original size:36 final size:37
Alignment explanation
Indices: 34506991--34507082 Score: 150
Period size: 36 Copynumber: 2.4 Consensus size: 37
34506981 AGATTACAAG
34506991 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCATATCTAAGATTGCAT
34507031 ATCATATCTAAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
34507067 ATCATATCTAAGATTG
1 ATCATATCTAAGATTG
34507083 CTTATCCTTA
Statistics
Matches: 52, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
36 36 0.69
38 7 0.13
39 1 0.02
40 8 0.15
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
Found at i:34507935 original size:84 final size:84
Alignment explanation
Indices: 34507747--34508533 Score: 1055
Period size: 84 Copynumber: 9.4 Consensus size: 84
34507737 CTATGTCTTC
* * * * *
34507747 AACCTGTTACCCTACTGCTTAGGGGGTTAAGGTGCATCTTCTTCGATCTGCTCCGCTATTGCTTA
1 AACCTGTTACCCTACTGCTTAGGGGATTAAGGCG-A--GTCTTCGATCTGCTCCACTACTGCTTA
* *
34507812 -GG-GATAAGATCTGCAGATTT
63 GGGAGATAAGATCTTCAAATTT
* *
34507832 AACCTGTTACCCTACTGCTTAGGGGATTAATGCGAGTCTTCAATCTGCTCCACTACTGCTTAGGG
1 AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGG
34507897 AGATAAGATCTTCAAATTT
66 AGATAAGATCTTCAAATTT
* * * *
34507916 AACCTATTACCCTATTGCTTAGGGGATTAAGGCAAGTCGTCGTCGATCTGCTCCGCTACTGCTTA
1 AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTC-T--TCGATCTGCTCCACTACTGCTTA
*
34507981 GGGAGATAAGAT-TTGC-----G
63 GGGAGATAAGATCTT-CAAATTT
* * *
34507998 AACCTGTTACCCTACTACTTAGGGGATTAAGGCGAGTCTTCAATCTGCTCCACTACTACTTAGGG
1 AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGG
*
34508063 AGATAAGATCTGCAAATTT
66 AGATAAGATCTTCAAATTT
* *
34508082 AACCTGTTACCCTACCGCTTAGGGGATTAAGGCGGGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGG
*
34508147 AGATAAGATCTGCAAATTT
66 AGATAAGATCTTCAAATTT
* *
34508166 AACCTGTTACCCTACTGCTTAGGGAATTAAAGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGG
*
34508231 AGATAAGATCTGCAAATTT
66 AGATAAGATCTTCAAATTT
*
34508250 AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCATCGTCGATCTGCTCCGCTACTGCTTA
1 AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTC-T--TCGATCTGCTCCACTACTGCTTA
**
34508315 GGGAGATAAGATC-T---A-CG
63 GGGAGATAAGATCTTCAAATTT
* * *
34508332 AACCTGTTACCCTACTGCTTAGGGAATTAAAGCGAGTCTTCGATATGCTCCACTACTGCTTAGGG
1 AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGG
34508397 AGATAAGAT-TTGCAAATTT
66 AGATAAGATCTT-CAAATTT
* * * *
34508416 AACCTGTTACCCTCCCGCTTAGAGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTACTTAGGG
1 AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGG
34508481 AGATAAGAT-TTGCAAATTT
66 AGATAAGATCTT-CAAATTT
34508500 AACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
1 AACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
34508534 CTGAATTTTG
Statistics
Matches: 625, Mismatches: 56, Indels: 43
0.86 0.08 0.06
Matches are distributed among these distances:
79 67 0.11
80 1 0.00
81 2 0.00
82 93 0.15
83 4 0.01
84 354 0.57
85 33 0.05
86 2 0.00
87 69 0.11
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (84 bp):
AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGG
AGATAAGATCTTCAAATTT
Found at i:34508338 original size:250 final size:247
Alignment explanation
Indices: 34507747--34508533 Score: 1061
Period size: 250 Copynumber: 3.1 Consensus size: 247
34507737 CTATGTCTTC
* * *
34507747 AACCTGTTACCCTACTGCTTAGGGGGTTAAGGTGCA-TCTTCTTCGATCTGCTCCGCTATTGCTT
1 AACCTGTTACCCTACTGCTTAGGGGATTAAGGCG-AGTC-TC-TCGATCTGCTCCGCTACTGCTT
* * *
34507811 A-GG-GATAAGATCTGCAGATTTAACCTGTTACCCTACTGCTTAGGGGATTAATGCGAGTCTTCA
63 AGGGAGATAAGATCTAC-G----AACCTGTTACCCTACTGCTTAGGGGATTAAAGCGAGTCTTCG
* * *
34507874 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCAAATTTAACCTATTACCCTATTGCTTAGG
123 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTA-G
* * *
34507939 GGATTAAGGCAAGTCGTCGTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATTTGC-----G
187 GGATTAAGGCGAGTC-T--TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCAAATTT
* * * *
34507998 AACCTGTTACCCTACTACTTAGGGGATTAAGGCGAGTCT-TCAATCTGCTCCACTACTACTTAGG
1 AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTCTCGATCTGCTCCGCTACTGCTTAGG
** * * *
34508062 GAGATAAGATCTGCAAATTTAACCTGTTACCCTACCGCTTAGGGGATTAAGGCGGGTCTTCGATC
66 GAGATAAGATCT----A-CGAACCTGTTACCCTACTGCTTAGGGGATTAAAGCGAGTCTTCGATC
34508127 TGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGAA
126 TGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGG-A
* *
34508192 TTAAAGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTT
190 TTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCAAATTT
34508250 AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCATCGTCGATCTGCTCCGCTACTGCTTA
1 AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTC-TC-TCGATCTGCTCCGCTACTGCTTA
* *
34508315 GGGAGATAAGATCTACGAACCTGTTACCCTACTGCTTAGGGAATTAAAGCGAGTCTTCGATATGC
64 GGGAGATAAGATCTACGAACCTGTTACCCTACTGCTTAGGGGATTAAAGCGAGTCTTCGATCTGC
* * *
34508380 TCCACTACTGCTTAGGGAGATAAGATTTGCAAATTTAACCTGTTACCCTCCCGCTTAGAGGATTA
129 TCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAG-GGATTA
*
34508445 AGGCGAGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATTTGCAAATTT
193 AGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCAAATTT
34508500 AACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
1 AACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
34508534 CTGAATTTTG
Statistics
Matches: 479, Mismatches: 39, Indels: 37
0.86 0.07 0.07
Matches are distributed among these distances:
247 37 0.08
248 19 0.04
249 6 0.01
250 309 0.65
251 36 0.08
252 37 0.08
253 1 0.00
255 34 0.07
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (247 bp):
AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTCTCGATCTGCTCCGCTACTGCTTAGG
GAGATAAGATCTACGAACCTGTTACCCTACTGCTTAGGGGATTAAAGCGAGTCTTCGATCTGCTC
CACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGATTAAGG
CGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCAAATTT
Found at i:34508423 original size:334 final size:334
Alignment explanation
Indices: 34507747--34508529 Score: 1264
Period size: 334 Copynumber: 2.3 Consensus size: 334
34507737 CTATGTCTTC
* * * * * *
34507747 AACCTGTTACCCTACTGCTTAGGGGGTTAAGGTGCATCTTCTTCGATCTGCTCCGCTATTGCTTA
1 AACCTGTTACCCTACCGCTTAGGGGATTAAGGCG-A--GTCTTCGATCTGCTCCACTACTGCTTA
* *
34507812 -GG-GATAAGATCTGCAGATTTAACCTGTTACCCTACTGCTTAGGGGATTAATGCGAGTCTTCAA
63 GGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAAGCGAGTCTTCAA
* *
34507875 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCAAATTTAACCTATTACCCTATTGCTTAGGG
128 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTATTACCCTACTGCTTAGGG
* * *
34507940 GATTAAGGCAAGTCGTCGTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATTTGCGAACCTGT
193 GATTAAGGCAAGTCATCGTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTACGAACCTGT
* * *
34508005 TACCCTACTACTTAGGGGATTAAGGCGAGTCTTCAATCTGCTCCACTACTACTTAGGGAGATAAG
258 TACCCTACTACTTAGGGAATTAAAGCGAGTCTTCAATATGCTCCACTACTACTTAGGGAGATAAG
34508070 ATCTGCAAATTT
323 ATCTGCAAATTT
*
34508082 AACCTGTTACCCTACCGCTTAGGGGATTAAGGCGGGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AACCTGTTACCCTACCGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGG
* *
34508147 AGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGAATTAAAGCGAGTCTTCGATCT
66 AGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAAGCGAGTCTTCAATCT
*
34508212 GCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGAT
131 GCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTATTACCCTACTGCTTAGGGGAT
*
34508277 TAAGGCGAGTCATCGTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTACGAACCTGTTAC
196 TAAGGCAAGTCATCGTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTACGAACCTGTTAC
* * * *
34508342 CCTACTGCTTAGGGAATTAAAGCGAGTCTTCGATATGCTCCACTACTGCTTAGGGAGATAAGATT
261 CCTACTACTTAGGGAATTAAAGCGAGTCTTCAATATGCTCCACTACTACTTAGGGAGATAAGATC
34508407 TGCAAATTT
326 TGCAAATTT
* * *
34508416 AACCTGTTACCCTCCCGCTTAGAGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTACTTAGGG
1 AACCTGTTACCCTACCGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGG
*
34508481 AGATAAGATTTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAA
66 AGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAA
34508530 GGCGCTGAAT
Statistics
Matches: 415, Mismatches: 31, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
332 24 0.06
333 2 0.00
334 358 0.86
335 31 0.07
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (334 bp):
AACCTGTTACCCTACCGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGG
AGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAAGCGAGTCTTCAATCT
GCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTATTACCCTACTGCTTAGGGGAT
TAAGGCAAGTCATCGTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTACGAACCTGTTAC
CCTACTACTTAGGGAATTAAAGCGAGTCTTCAATATGCTCCACTACTACTTAGGGAGATAAGATC
TGCAAATTT
Found at i:34508515 original size:43 final size:43
Alignment explanation
Indices: 34508384--34508523 Score: 121
Period size: 43 Copynumber: 3.3 Consensus size: 43
34508374 ATATGCTCCA
34508384 CTACTGCTTAGGGAGATAAGATTTGCAAATTTAACCTGTTACC
1 CTACTGCTTAGGGAGATAAGATTTGCAAATTTAACCTGTTACC
* * * * * * * *
34508427 CTCCCGCTTAGAGGA-TTAAG----GCGAGTCTTCGATCTGCT-CC
1 CTACTGCTTAG-GGAGATAAGATTTGCAAAT-TT-AACCTGTTACC
*
34508467 ACTACTACTTAGGGAGATAAGATTTGCAAATTTAACCTGTTACC
1 -CTACTGCTTAGGGAGATAAGATTTGCAAATTTAACCTGTTACC
34508511 CTACTGCTTAGGG
1 CTACTGCTTAGGG
34508524 GATTAAGGCG
Statistics
Matches: 69, Mismatches: 18, Indels: 20
0.64 0.17 0.19
Matches are distributed among these distances:
39 4 0.06
40 7 0.10
41 17 0.25
43 30 0.43
44 7 0.10
45 4 0.06
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (43 bp):
CTACTGCTTAGGGAGATAAGATTTGCAAATTTAACCTGTTACC
Found at i:34509506 original size:14 final size:14
Alignment explanation
Indices: 34509483--34509518 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
34509473 CCTCTCCATT
34509483 TTTTTC-TTTTTTC
1 TTTTTCTTTTTTTC
34509496 TTTTTCTTTTTTTC
1 TTTTTCTTTTTTTC
34509510 TTTTTCTTT
1 TTTTTCTTT
34509519 AATTTTTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 6 0.27
14 16 0.73
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTTTCTTTTTTTC
Found at i:34509513 original size:19 final size:18
Alignment explanation
Indices: 34509480--34509545 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 18
34509470 TGGCCTCTCC
34509480 ATTTTTTTCTTTTTTCTTTTT
1 ATTTTTTTC--TTTT-TTTTT
* *
34509501 CTTTTTTTCTTTTTCTTTA
1 ATTTTTTTCTTTTT-TTTT
*
34509520 ATTTTTTCCTTTTTTTTT
1 ATTTTTTTCTTTTTTTTT
34509538 ATTTTTTT
1 ATTTTTTT
34509546 TGAAATAGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
18 11 0.29
19 19 0.50
21 8 0.21
ACGTcount: A:0.06, C:0.11, G:0.00, T:0.83
Consensus pattern (18 bp):
ATTTTTTTCTTTTTTTTT
Found at i:34509533 original size:7 final size:7
Alignment explanation
Indices: 34509482--34509518 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
34509472 GCCTCTCCAT
34509482 TTTTTTC
1 TTTTTTC
34509489 TTTTTTC
1 TTTTTTC
34509496 -TTTTTC
1 TTTTTTC
34509502 TTTTTT-
1 TTTTTTC
34509508 TCTTTTTC
1 T-TTTTTC
34509516 TTT
1 TTT
34509519 AATTTTTTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
6 7 0.26
7 19 0.70
8 1 0.04
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTTC
Found at i:34510763 original size:50 final size:51
Alignment explanation
Indices: 34510694--34510925 Score: 281
Period size: 46 Copynumber: 4.8 Consensus size: 51
34510684 TTATCTTTGA
* * *
34510694 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTC-TGT
1 CATGTTGCCATAGTATCTTTCAACCATGGTCTTACTCATTCATTTTCATGT
*
34510744 CATGTTGCCATGGTATCTTTCAACCATGGTC-T--T-ATTC-TTTTCATGT
1 CATGTTGCCATAGTATCTTTCAACCATGGTCTTACTCATTCATTTTCATGT
* *
34510790 CATGTTGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTC-TGT
1 CATGTTGCCATAGTATCTTTCAACCATGGTCTTACTCATTCATTTTCATGT
* *
34510840 CACGTTGCCATAGTATCTTTCAACCATGGTCTTA--CA--CA-TTTCATAT
1 CATGTTGCCATAGTATCTTTCAACCATGGTCTTACTCATTCATTTTCATGT
* * *
34510886 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATT
1 CATGTTGCCATAGTATCTTTCAACCATGGTCTTACTCATT
34510926 TCATATCAGA
Statistics
Matches: 159, Mismatches: 12, Indels: 22
0.82 0.06 0.11
Matches are distributed among these distances:
45 9 0.06
46 72 0.45
47 2 0.01
48 4 0.03
49 2 0.01
50 65 0.41
51 5 0.03
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.42
Consensus pattern (51 bp):
CATGTTGCCATAGTATCTTTCAACCATGGTCTTACTCATTCATTTTCATGT
Found at i:34510863 original size:96 final size:96
Alignment explanation
Indices: 34510694--34510925 Score: 356
Period size: 96 Copynumber: 2.4 Consensus size: 96
34510684 TTATCTTTGA
* * *
34510694 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTCTGTCATGTTGCCATGGTA
1 CATGTTGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTCTGTCACGTTGCCATAGTA
** * *
34510759 TCTTTCAACCATGGTCTTATTCTTTTCATGT
66 TCTTTCAACCATGGTCTTACACATTTCATAT
34510790 CATGTTGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTCTGTCACGTTGCCATAGTA
1 CATGTTGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTCTGTCACGTTGCCATAGTA
34510855 TCTTTCAACCATGGTCTTACACATTTCATAT
66 TCTTTCAACCATGGTCTTACACATTTCATAT
* * * * *
34510886 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATT
1 CATGTTGCCATAGTGTCTTTCAACTATGGTCTTACTCATT
34510926 TCATATCAGA
Statistics
Matches: 124, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 124 1.00
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.42
Consensus pattern (96 bp):
CATGTTGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTCTGTCACGTTGCCATAGTA
TCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:34513031 original size:17 final size:16
Alignment explanation
Indices: 34513009--34513048 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
34512999 AATTTTTCCC
*
34513009 TTTTTCCTTCTTTCCTT
1 TTTTTCCTTCCTT-CTT
34513026 TTTTTCCTTCCTTCTT
1 TTTTTCCTTCCTTCTT
*
34513042 TCTTTCC
1 TTTTTCC
34513049 CCTGCTCTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTTCCTTCCTTCTT
Found at i:34513123 original size:2 final size:2
Alignment explanation
Indices: 34513116--34513148 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
34513106 TCTTTTACTT
*
34513116 TA TA TA TA TA TA TA TA TA TA AA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
34513149 ATAACTTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:34519099 original size:22 final size:21
Alignment explanation
Indices: 34519069--34519134 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
34519059 TACAAATTAA
34519069 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
34519091 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
34519112 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
34519131 ATCT
1 ATCT
34519135 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:34519121 original size:19 final size:19
Alignment explanation
Indices: 34519086--34519164 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
34519076 AGATTACAAG
34519086 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
34519107 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
34519126 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
34519143 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
34519162 ATC
1 ATC
34519165 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
20 1 0.02
21 8 0.14
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:34519128 original size:14 final size:15
Alignment explanation
Indices: 34519108--34519164 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
34519098 AGATTGCATA
34519108 TCATATCTAAGATTG
1 TCATATCTAAGATTG
34519123 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
34519142 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
34519159 -CATATC
1 TCATATC
34519165 CTTAAAGATT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.16
17 17 0.45
19 15 0.39
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:34519150 original size:36 final size:39
Alignment explanation
Indices: 34519086--34519164 Score: 128
Period size: 36 Copynumber: 2.1 Consensus size: 39
34519076 AGATTACAAG
34519086 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATCTTCAAGATTG-ATATCATATCTAAGATTGCAT
34519126 ATCATATC-T-AAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTTCAAGATTGATATCATATCTAAGATTGCAT
34519162 ATC
1 ATC
34519165 CTTAAAGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
36 23 0.59
38 7 0.18
39 1 0.03
40 8 0.21
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (39 bp):
ATCATATCTTCAAGATTGATATCATATCTAAGATTGCAT
Found at i:34520681 original size:26 final size:26
Alignment explanation
Indices: 34520651--34520704 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
34520641 ATTATGTATG
*
34520651 TAAAGTAACATAGAATTAATAATATA
1 TAAAGCAACATAGAATTAATAATATA
34520677 TAAAGCAACATAGAATTAATAATATA
1 TAAAGCAACATAGAATTAATAATATA
34520703 TA
1 TA
34520705 TAGAATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.57, C:0.06, G:0.07, T:0.30
Consensus pattern (26 bp):
TAAAGCAACATAGAATTAATAATATA
Found at i:34522273 original size:19 final size:20
Alignment explanation
Indices: 34522251--34522290 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
34522241 AAATTTTTCA
*
34522251 AAAATGAATTT-ATTTGATT
1 AAAATAAATTTAATTTGATT
34522270 AAAATAAATTTAATTTGATT
1 AAAATAAATTTAATTTGATT
34522290 A
1 A
34522291 TATAGTGACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
AAAATAAATTTAATTTGATT
Found at i:34529151 original size:27 final size:27
Alignment explanation
Indices: 34529121--34529298 Score: 191
Period size: 27 Copynumber: 6.6 Consensus size: 27
34529111 ATATTGAGTC
* * *
34529121 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* * *
34529148 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
34529175 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
* * *
34529203 CGCACACTTAGTG-TCGCATGGTCAATT
1 CGCACACTTAGTGCT-ACATAGTCAACT
*
34529230 CGCACACTTAGTGC-ATCATATTC-ACTT
1 CGCACACTTAGTGCTA-CATAGTCAAC-T
* *
34529257 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
34529284 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34529299 GTACAATTTA
Statistics
Matches: 127, Mismatches: 17, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
26 1 0.01
27 102 0.80
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:34529262 original size:82 final size:81
Alignment explanation
Indices: 34529142--34529296 Score: 231
Period size: 82 Copynumber: 1.9 Consensus size: 81
34529132 TGCTATATAA
* *
34529142 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
34529207 CACTTAGTGTCGCATGG
65 CACTTAGTGTCGCATGG
* * **
34529224 TCAATTCGCACACTTAGTGC-ATCATATTCACTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
34529288 CACTTAGTG
65 CACTTAGTG
34529297 CTGTACAATT
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.23
82 51 0.77
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGTCGCATGG
Found at i:34537321 original size:27 final size:27
Alignment explanation
Indices: 34537291--34537467 Score: 182
Period size: 27 Copynumber: 6.6 Consensus size: 27
34537281 ATATTGAGTC
* * *
34537291 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* * *
34537318 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
34537345 CGCACACTTAGTGCTACATAGTCAAAC-
1 CGCACACTTAGTGCTACATAGTC-AACT
* * *
34537372 CGCACACTTAGTG-TCGCATGGTCAATT
1 CGCACACTTAGTGCT-ACATAGTCAACT
*
34537399 CGCACACTTAGTGC-ATCATATTC-ACTT
1 CGCACACTTAGTGCTA-CATAGTCAAC-T
* *
34537426 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
34537453 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34537468 GTACAATTTA
Statistics
Matches: 125, Mismatches: 17, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
26 4 0.03
27 117 0.94
28 4 0.03
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:34537429 original size:81 final size:81
Alignment explanation
Indices: 34537312--34537465 Score: 229
Period size: 81 Copynumber: 1.9 Consensus size: 81
34537302 TGCTATATAA
* *
34537312 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACCGCAC
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGCAC
34537377 ACTTAGTGTCGCATGG
66 ACTTAGTGTCGCATGG
* * ** *
34537393 TCAATTCGCACACTTAGTGC-ATCATATTCACTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGCA
34537457 CACTTAGTG
65 CACTTAGTG
34537466 CTGTACAATT
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
80 1 0.02
81 64 0.98
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGCAC
ACTTAGTGTCGCATGG
Found at i:34539889 original size:40 final size:40
Alignment explanation
Indices: 34539775--34539918 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
34539765 TACTCGAATG
*
34539775 ATATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGCGAGT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
34539815 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * * *
34539855 ATATCCAGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
34539895 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
34539919 TTGTGTGAGT
Statistics
Matches: 89, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
39 1 0.01
40 79 0.89
41 9 0.10
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:34551118 original size:40 final size:40
Alignment explanation
Indices: 34551060--34551204 Score: 229
Period size: 40 Copynumber: 3.6 Consensus size: 40
34551050 CGGATGATAA
* *
34551060 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
34551100 CCGGGCTAAGTCCAGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
34551140 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
34551180 CCGGACTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
34551205 AGCAAGTAGT
Statistics
Matches: 98, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 97 0.99
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:34551219 original size:80 final size:80
Alignment explanation
Indices: 34551060--34551236 Score: 225
Period size: 80 Copynumber: 2.2 Consensus size: 80
34551050 CGGATGATAA
* * *
34551060 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCAGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGACTAAGTCCAGAAGGCATTTG
* *
34551125 TGCGAGTTACTATAT
66 AGCAAGTTACTATAT
* *
34551140 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGACTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGACTAAGTCCAGAAGGCATTT
*
34551204 GAGCAAG-TAGTTATAT
65 GAGCAAGTTA-CTATAT
* *
34551220 TC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAG
34551237 ATGCTTGGGT
Statistics
Matches: 85, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
79 18 0.21
80 67 0.79
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGACTAAGTCCAGAAGGCATTTG
AGCAAGTTACTATAT
Found at i:34551504 original size:22 final size:21
Alignment explanation
Indices: 34551463--34551506 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
34551453 GAATGTGCAT
34551463 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
34551485 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
34551507 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:34553533 original size:81 final size:79
Alignment explanation
Indices: 34553387--34553540 Score: 193
Period size: 81 Copynumber: 1.9 Consensus size: 79
34553377 ATGGTGATAT
* * * * *
34553387 TCAGGCTTTGAGCCTAGCAAGCCTTGTGCTGGTGAATGAAATCGGGCTTATGCCTAGCGGGTTTA
1 TCAGACTTTGAGCCTAGCAAGCCTTGTGCCGGTG-ATGAAATCAGGCTTAGGCCTAGCGGCTTTA
34553452 TTGCCGGTGTATAAAA
65 -TGCCGGTGTATAAAA
* * *
34553468 TCAGACTTTGAGTCTAGCAGGCCTTGTGCCGGTG-TGAGATACAGGCTTAGGCCTAGCAGGCTTT
1 TCAGACTTTGAGCCTAGCAAGCCTTGTGCCGGTGATGAAAT-CAGGCTTAGGCCTAGC-GGCTTT
34553532 ATGCCGGTG
64 ATGCCGGTG
34553541 AATTATTATA
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
79 5 0.08
80 22 0.35
81 36 0.57
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (79 bp):
TCAGACTTTGAGCCTAGCAAGCCTTGTGCCGGTGATGAAATCAGGCTTAGGCCTAGCGGCTTTAT
GCCGGTGTATAAAA
Found at i:34553710 original size:21 final size:22
Alignment explanation
Indices: 34553679--34553719 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
34553669 GAATGTATTG
*
34553679 TGATGTATGTGGAAATGAAATA
1 TGATGTATGTGCAAATGAAATA
*
34553701 TGAT-TATGTGCCAATGAAA
1 TGATGTATGTGCAAATGAAA
34553720 CATAAAGGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (22 bp):
TGATGTATGTGCAAATGAAATA
Found at i:34556787 original size:51 final size:51
Alignment explanation
Indices: 34556705--34556836 Score: 165
Period size: 51 Copynumber: 2.6 Consensus size: 51
34556695 CGGTACACAA
*
34556705 AGTACCTCATCGGAACAAATCCAGAACAGTAACAGTAACAGTCAGGTACGG
1 AGTACCTCTTCGGAACAAATCCAGAACAGTAACAGTAACAGTCAGGTACGG
* * ** * *
34556756 AGTACCTCTTTGGAACGAATCTGGAATAGTAACAGTAACAGTCAGGTATGG
1 AGTACCTCTTCGGAACAAATCCAGAACAGTAACAGTAACAGTCAGGTACGG
* ** *
34556807 AGTACCTCTTCGAAATGAATCCGGAACAGT
1 AGTACCTCTTCGGAACAAATCCAGAACAGT
34556837 CATAGTGGTC
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 69 1.00
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (51 bp):
AGTACCTCTTCGGAACAAATCCAGAACAGTAACAGTAACAGTCAGGTACGG
Found at i:34559564 original size:39 final size:39
Alignment explanation
Indices: 34559506--34559729 Score: 349
Period size: 39 Copynumber: 5.7 Consensus size: 39
34559496 TTCCAACACA
*
34559506 AATGCCTTCGGGACTTAGCCCGGATATAACACTAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
* * *
34559545 AATACCTTCGGGACTTAGCCCGGATATAACACCAACACA
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
* *
34559584 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGTATG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
* *
34559623 AATGCCTTCGGGACTTAGCCCGGACATAACACCAGTACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
* *
34559662 AATGCCTTCGGGACTTAGCCCGAATATAACACCTGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
*
34559701 AATGCCTTCGGGACTTAGCCCAGATATAA
1 AATGCCTTCGGGACTTAGCCCGGATATAA
34559730 ATCTCACACA
Statistics
Matches: 168, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 168 1.00
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.21
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
Found at i:34564915 original size:16 final size:17
Alignment explanation
Indices: 34564883--34564915 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
34564873 ACATTTCACA
34564883 TAGTAAGCTTTGAATCT
1 TAGTAAGCTTTGAATCT
*
34564900 TAGTAAG-TTTGCATCT
1 TAGTAAGCTTTGAATCT
34564916 AATATAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.42
Consensus pattern (17 bp):
TAGTAAGCTTTGAATCT
Found at i:34567045 original size:17 final size:17
Alignment explanation
Indices: 34567023--34567064 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
34567013 GTTTAATATA
34567023 GCAAAAAGGGCTAAATT
1 GCAAAAAGGGCTAAATT
34567040 GCAAAAAGGGCTAAATT
1 GCAAAAAGGGCTAAATT
34567057 GCAAAAAG
1 GCAAAAAG
34567065 TGCAAAACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.50, C:0.12, G:0.24, T:0.14
Consensus pattern (17 bp):
GCAAAAAGGGCTAAATT
Found at i:34574778 original size:33 final size:34
Alignment explanation
Indices: 34574734--34574802 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 34
34574724 CAATATACAA
*
34574734 AACAATAACAGTCTGGGCCCT-GGCCCTATACAGT
1 AACAATAACAGTCTGGG-CCTAAGCCCTATACAGT
*
34574768 AACAAT-ACAGTTTGGGCCTAAGCCCTATACAGT
1 AACAATAACAGTCTGGGCCTAAGCCCTATACAGT
34574801 AA
1 AA
34574803 TCCAGCACAC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
32 3 0.09
33 23 0.72
34 6 0.19
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (34 bp):
AACAATAACAGTCTGGGCCTAAGCCCTATACAGT
Found at i:34575346 original size:19 final size:17
Alignment explanation
Indices: 34575324--34575369 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 17
34575314 CACTTTAAAT
34575324 GGCCCAAGGCCCATTAATC
1 GGCCCAAGGCCCATT-A-C
34575343 GGCCCAAGTGGCCCATTAC
1 GGCCCAA--GGCCCATTAC
34575362 GGCCCAAG
1 GGCCCAAG
34575370 CCCCGAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 1 0.04
19 15 0.60
20 1 0.04
21 8 0.32
ACGTcount: A:0.24, C:0.37, G:0.26, T:0.13
Consensus pattern (17 bp):
GGCCCAAGGCCCATTAC
Found at i:34575487 original size:8 final size:8
Alignment explanation
Indices: 34575474--34575500 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
34575464 AATGCCGATG
34575474 TTTCAGCT
1 TTTCAGCT
34575482 TTTCAGCT
1 TTTCAGCT
34575490 TTTCAGCT
1 TTTCAGCT
34575498 TTT
1 TTT
34575501 GCCGATCTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.22, G:0.11, T:0.56
Consensus pattern (8 bp):
TTTCAGCT
Found at i:34578233 original size:29 final size:29
Alignment explanation
Indices: 34578201--34578312 Score: 143
Period size: 29 Copynumber: 3.9 Consensus size: 29
34578191 ATTATCGACC
*
34578201 ATGAAAAGGGATGGTGACGACCATCAATT
1 ATGAAAAGGGATGGTGACGACCATCAAAT
*
34578230 ATGAAAAGGGATGCTGACGACCATCAAAT
1 ATGAAAAGGGATGGTGACGACCATCAAAT
** ** *
34578259 ATGAAAAGGGATAATTTCGACTATCAAAT
1 ATGAAAAGGGATGGTGACGACCATCAAAT
* *
34578288 ATGAAAAAGGATGGTGATGACCATC
1 ATGAAAAGGGATGGTGACGACCATC
34578313 GTTTAGCACA
Statistics
Matches: 69, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 69 1.00
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.21
Consensus pattern (29 bp):
ATGAAAAGGGATGGTGACGACCATCAAAT
Found at i:34579380 original size:49 final size:49
Alignment explanation
Indices: 34579321--34579495 Score: 235
Period size: 49 Copynumber: 3.5 Consensus size: 49
34579311 TGAGGTCACG
*
34579321 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
* * * * * * *
34579370 TATGTAGTACTAAGTGCAGGCTGCTATGAGTACTC-GATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CGGATAA-TT-GGTCGCA
*
34579421 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
34579470 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
34579496 TGCATACTAG
Statistics
Matches: 106, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
49 63 0.59
50 6 0.06
51 37 0.35
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
Found at i:34579489 original size:100 final size:100
Alignment explanation
Indices: 34579316--34579497 Score: 328
Period size: 100 Copynumber: 1.8 Consensus size: 100
34579306 TATTATGAGG
*
34579316 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTATTGGTCGCATATGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATATGTAGTACT
*
34579381 AAGTGCAGGCTGCTATGAGTACTCGATAACTTCGA
66 AAGTGCAGGCTACTATGAGTACTCGATAACTTCGA
* *
34579416 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATATGTAGTACT
34579481 AAGTGCAGGCTACTATG
66 AAGTGCAGGCTACTATG
34579498 CATACTAGAT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 78 1.00
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATATGTAGTACT
AAGTGCAGGCTACTATGAGTACTCGATAACTTCGA
Found at i:34591122 original size:21 final size:19
Alignment explanation
Indices: 34591090--34591128 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
34591080 TTAAATTTAA
34591090 ATTTAAATTAATTATTTTT
1 ATTTAAATTAATTATTTTT
34591109 ATTTAATATCTAATTATTTT
1 ATTTAA-AT-TAATTATTTT
34591129 AACACATGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 2 0.11
21 10 0.56
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTTAAATTAATTATTTTT
Found at i:34592687 original size:31 final size:31
Alignment explanation
Indices: 34592652--34592719 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
34592642 AAATGATAGC
*
34592652 AATTTATAAAAATTA-ACATAAAAAATA-TAAA
1 AATTTATAAAAAGTATA-A-AAAAAATAGTAAA
* *
34592683 AATTTATGAAAAGTATAAAAAAAGTAGTAAA
1 AATTTATAAAAAGTATAAAAAAAATAGTAAA
34592714 AATTTA
1 AATTTA
34592720 AAATATACAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 7 0.22
31 24 0.75
32 1 0.03
ACGTcount: A:0.63, C:0.01, G:0.06, T:0.29
Consensus pattern (31 bp):
AATTTATAAAAAGTATAAAAAAAATAGTAAA
Found at i:34593052 original size:15 final size:16
Alignment explanation
Indices: 34593032--34593063 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
34593022 AAAATTTTAA
34593032 AAAGTTA-TAAAAATT
1 AAAGTTATTAAAAATT
34593047 AAAGTTATTAAAAATT
1 AAAGTTATTAAAAATT
34593063 A
1 A
34593064 TTAAATGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.34
Consensus pattern (16 bp):
AAAGTTATTAAAAATT
Found at i:34594532 original size:25 final size:27
Alignment explanation
Indices: 34594477--34594533 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 27
34594467 AAAAAATTTA
* *
34594477 TTTATAAAATTATAAATTACATTAATG
1 TTTATAAAATTATAAATTAAAATAATG
* *
34594504 TTTATAAAATT-T-AATTAAAATGATT
1 TTTATAAAATTATAAATTAAAATAATG
34594529 TTTAT
1 TTTAT
34594534 GACGACAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 14 0.54
26 1 0.04
27 11 0.42
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.49
Consensus pattern (27 bp):
TTTATAAAATTATAAATTAAAATAATG
Found at i:34596594 original size:13 final size:13
Alignment explanation
Indices: 34596576--34596618 Score: 77
Period size: 13 Copynumber: 3.3 Consensus size: 13
34596566 TCAAGCTGTT
34596576 ACACGGTCTAGTG
1 ACACGGTCTAGTG
34596589 ACACGGTCTAGTG
1 ACACGGTCTAGTG
*
34596602 ACACAGTCTAGTG
1 ACACGGTCTAGTG
34596615 ACAC
1 ACAC
34596619 AGTTGTGTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.21
Consensus pattern (13 bp):
ACACGGTCTAGTG
Found at i:34597819 original size:48 final size:49
Alignment explanation
Indices: 34597744--34597874 Score: 156
Period size: 50 Copynumber: 2.7 Consensus size: 49
34597734 AGATCCCGTA
* * * * * * * * *
34597744 TAAGACCATATCTGGGATATGGGATTGGCATTG-GTATGTGTTATCATG
1 TAAGACCATGTTTGGGACATGGCATTGGCATCGAATATGAGATACCATG
*
34597792 TAAGACCATGTTTGGGACATGGCATTGGCATCGACATATGAGATCCCATG
1 TAAGACCATGTTTGGGACATGGCATTGGCATCGA-ATATGAGATACCATG
34597842 TAAGACCATGTTTGGGACATGGCATTGGCATCG
1 TAAGACCATGTTTGGGACATGGCATTGGCATCG
34597875 TTTGGTGATC
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
48 28 0.39
50 43 0.61
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (49 bp):
TAAGACCATGTTTGGGACATGGCATTGGCATCGAATATGAGATACCATG
Found at i:34597906 original size:48 final size:47
Alignment explanation
Indices: 34597744--34597915 Score: 159
Period size: 48 Copynumber: 3.6 Consensus size: 47
34597734 AGATCCCGTA
* * * *
34597744 TAAGACCATATCTGGGATATGGGATTGGCATTGGTATGTGTTAT-CATG
1 TAAGACCATATCTGGGACATGGCATTGGCA-TCGTATG-GTGATCCATG
* * *
34597792 TAAGACCATGTTTGGGACATGGCATTGGCATCGACATAT-GAGATCCCATG
1 TAAGACCATATCTGGGACATGGCATTGGCATCG---TATGGTGAT-CCATG
* * *
34597842 TAAGACCATGTTTGGGACATGGCATTGGCATCGTTTGGTGATCCTATG
1 TAAGACCATATCTGGGACATGGCATTGGCATCGTATGGTGATCC-ATG
* *
34597890 TAAGACCATATCTGGGATATGACATT
1 TAAGACCATATCTGGGACATGGCATT
34597916 AACATCTTAC
Statistics
Matches: 104, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
47 6 0.06
48 58 0.56
50 40 0.38
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (47 bp):
TAAGACCATATCTGGGACATGGCATTGGCATCGTATGGTGATCCATG
Done.