Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 44 of 425
Found at i:11648199 original size:2 final size:2
Alignment explanation
Indices: 11648192--11648232 Score: 55
Period size: 2 Copynumber: 19.5 Consensus size: 2
11648182 TTCAACTATT
*
11648192 TA TA TA TA TA CA TA TA TA TA TA TA TA TA TA TCA TA TCA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T-A TA T
11648233 CATCTCATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 31 0.89
3 4 0.11
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:11662616 original size:20 final size:20
Alignment explanation
Indices: 11662588--11662654 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
11662578 AGTGCTGTAT
*
11662588 AGAGGCACCGAAGTGTAAAC
1 AGAGACACCGAAGTGTAAAC
* * *
11662608 AGAGACACCAAAGTGCAAAT
1 AGAGACACCGAAGTGTAAAC
* * *
11662628 AAAGAGCACAGAAGTGCTAATC
1 AGAGA-CACCGAAGTG-TAAAC
11662650 AGAGA
1 AGAGA
11662655 TCCAATTTCG
Statistics
Matches: 34, Mismatches: 11, Indels: 2
0.72 0.23 0.04
Matches are distributed among these distances:
20 20 0.59
21 8 0.24
22 6 0.18
ACGTcount: A:0.46, C:0.18, G:0.25, T:0.10
Consensus pattern (20 bp):
AGAGACACCGAAGTGTAAAC
Found at i:11665134 original size:23 final size:22
Alignment explanation
Indices: 11665107--11665154 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
11665097 GGATTTGCAC
*
11665107 TAATAATTTC-TAACTTGATAGAT
1 TAATAATTGCTTAACTT-ATA-AT
11665130 TAATAATTGCTTAACTTATAAT
1 TAATAATTGCTTAACTTATAAT
11665152 TAA
1 TAA
11665155 CTTGATAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 5 0.22
23 12 0.52
24 6 0.26
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (22 bp):
TAATAATTGCTTAACTTATAAT
Found at i:11665382 original size:17 final size:17
Alignment explanation
Indices: 11665360--11665394 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
11665350 TTCTTATATG
11665360 AATTCAAGTACTAGCTT
1 AATTCAAGTACTAGCTT
*
11665377 AATTCATGTACTAGCTT
1 AATTCAAGTACTAGCTT
11665394 A
1 A
11665395 TTGAAGATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.37
Consensus pattern (17 bp):
AATTCAAGTACTAGCTT
Found at i:11668058 original size:18 final size:17
Alignment explanation
Indices: 11668035--11668087 Score: 52
Period size: 18 Copynumber: 3.0 Consensus size: 17
11668025 GTACAATTCA
11668035 AATAATTTATTTTAATTT
1 AATAATTTA-TTTAATTT
* *
11668053 AATAATATATTTCATTT
1 AATAATTTATTTAATTT
* *
11668070 AATTATTTTACTTAATTT
1 AA-TAATTTATTTAATTT
11668088 TTTATTTCTA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
17 9 0.32
18 19 0.68
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (17 bp):
AATAATTTATTTAATTT
Found at i:11677395 original size:20 final size:21
Alignment explanation
Indices: 11677364--11677418 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 21
11677354 ATAAAATCAA
*
11677364 TAAAATTT-ATAAAAAATA-T
1 TAAATTTTAATAAAAAATATT
*
11677383 TAATTTTTAAT-AAAAATATT
1 TAAATTTTAATAAAAAATATT
*
11677403 TAAATTTTATTAAAAA
1 TAAATTTTAATAAAAA
11677419 TTAGAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 13 0.45
20 12 0.41
21 4 0.14
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TAAATTTTAATAAAAAATATT
Found at i:11677419 original size:20 final size:19
Alignment explanation
Indices: 11677364--11677419 Score: 67
Period size: 20 Copynumber: 2.9 Consensus size: 19
11677354 ATAAAATCAA
* *
11677364 TAAAATTTATAAAAAATAT
1 TAAATTTTATTAAAAATAT
* *
11677383 TAATTTTTAATAAAAATATT
1 TAAATTTTATTAAAAATA-T
11677403 TAAATTTTATTAAAAAT
1 TAAATTTTATTAAAAAT
11677420 TAGAAAAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TAAATTTTATTAAAAATAT
Found at i:11683248 original size:26 final size:26
Alignment explanation
Indices: 11683212--11683398 Score: 304
Period size: 26 Copynumber: 7.2 Consensus size: 26
11683202 CATGAAATTC
*
11683212 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
11683238 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
11683264 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
* *
11683290 TTATAATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
11683316 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
11683342 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
11683368 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
11683393 TTATCA
1 TTATCA
11683399 ATTTGTATCA
Statistics
Matches: 157, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
25 23 0.15
26 134 0.85
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:11689108 original size:26 final size:26
Alignment explanation
Indices: 11689072--11689258 Score: 306
Period size: 26 Copynumber: 7.2 Consensus size: 26
11689062 CATGAAATTC
*
11689072 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
11689098 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
11689124 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
11689150 TTAT-ATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
11689175 TTATCAT-AGAACATTTACCTAACCTA
1 TTATCATGA-AACATTTACCTAACCTA
*
11689201 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
11689227 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
11689253 TTATCA
1 TTATCA
11689259 ATTTGTATCA
Statistics
Matches: 153, Mismatches: 5, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
25 23 0.15
26 130 0.85
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:11690758 original size:21 final size:21
Alignment explanation
Indices: 11690733--11690790 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
11690723 TGTGTTTGTG
* *
11690733 GTTTAGGGTTTAGGGT-TCAT
1 GTTTAGGGTTTAAGGTCTCAA
11690753 GTTTTAGGGTTTAAGGTCTCAA
1 G-TTTAGGGTTTAAGGTCTCAA
*
11690775 GTTTAGGGTTTCAGGT
1 GTTTAGGGTTTAAGGT
11690791 TTAGAGTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 1 0.03
21 28 0.85
22 4 0.12
ACGTcount: A:0.17, C:0.07, G:0.33, T:0.43
Consensus pattern (21 bp):
GTTTAGGGTTTAAGGTCTCAA
Found at i:11693259 original size:39 final size:39
Alignment explanation
Indices: 11693216--11693293 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
11693206 AGGTAGAGAA
* *
11693216 CTTAAATTTGTTATTTTGCATGATTATTTGAGATCTGCT
1 CTTAAATTTGTTATTCTGCATGATTATTTGAGATATGCT
11693255 CTTAAATTTGTTATTCTGCATGATTATTTGAGATATGCT
1 CTTAAATTTGTTATTCTGCATGATTATTTGAGATATGCT
11693294 TCTGTCAATG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.24, C:0.10, G:0.15, T:0.50
Consensus pattern (39 bp):
CTTAAATTTGTTATTCTGCATGATTATTTGAGATATGCT
Found at i:11693283 original size:20 final size:20
Alignment explanation
Indices: 11693221--11693284 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
11693211 GAGAACTTAA
*
11693221 ATTTGTTATTTTGCATGATT
1 ATTTGTTATTCTGCATGATT
** *
11693241 ATTTGAGA-TCTGC-T-CTT
1 ATTTGTTATTCTGCATGATT
11693258 AAATTTGTTATTCTGCATGATT
1 --ATTTGTTATTCTGCATGATT
11693280 ATTTG
1 ATTTG
11693285 AGATATGCTT
Statistics
Matches: 32, Mismatches: 7, Indels: 10
0.65 0.14 0.20
Matches are distributed among these distances:
17 2 0.06
18 1 0.03
19 10 0.31
20 16 0.50
21 1 0.03
22 2 0.06
ACGTcount: A:0.22, C:0.09, G:0.16, T:0.53
Consensus pattern (20 bp):
ATTTGTTATTCTGCATGATT
Found at i:11694871 original size:58 final size:59
Alignment explanation
Indices: 11694784--11694898 Score: 214
Period size: 58 Copynumber: 2.0 Consensus size: 59
11694774 CCTAATTTTA
*
11694784 TTCCATGTTCTTTTGTAGAAATTAGTTATGAACAAGGTAATATATATAGATATAGTTAT
1 TTCCATGTTCTTTTGTACAAATTAGTTATGAACAAGGTAATATATATAGATATAGTTAT
11694843 TTCCATGTT-TTTTGTACAAATTAGTTATGAACAAGGTAATATATATAGATATAGTT
1 TTCCATGTTCTTTTGTACAAATTAGTTATGAACAAGGTAATATATATAGATATAGTT
11694899 TATTAATGAA
Statistics
Matches: 55, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
58 46 0.84
59 9 0.16
ACGTcount: A:0.36, C:0.07, G:0.15, T:0.43
Consensus pattern (59 bp):
TTCCATGTTCTTTTGTACAAATTAGTTATGAACAAGGTAATATATATAGATATAGTTAT
Found at i:11695584 original size:209 final size:210
Alignment explanation
Indices: 11695229--11695763 Score: 817
Period size: 209 Copynumber: 2.6 Consensus size: 210
11695219 ATTTTAAAAT
* * * *
11695229 TTTTATTTT-ATTTTGAAATTACCGAATTAAATTAAAATGTATTTAAAGTTTTA-TTTGAATATT
1 TTTTATTTTAATTTTTAAATTACCTAATT-AATTAAATTGTATTTAAAGTTTTATTTTAAATATT
* *
11695292 TTATTTGATTTTAATTTAA-CACGAAAATATTTTGTCTACTTTTA---T-TTTTTTAAATTACCT
65 TTACTTGATTTTAATTTAATCACAAAAATATTTTGTCTACTTTTATTTTATTTTTTAAATTACCT
* * *
11695352 AATTAAATTAAATTGTCTTTAAAGTTTTATTTTAAATATTTTACTTGATTTTAATTTACTCACTA
130 AACTAAATTAAAATGTCTTTAAAGTTTTATTTTAAATATTTTACTTGATTTTAATTTAATCACTA
11695417 AAAATATTTTGTCTAC
195 AAAATATTTTGTCTAC
11695433 TTTTATTTTAATTTTTAAATTACCTAATT-ATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
1 TTTTATTTTAATTTTTAAATTACCTAATTAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
11695497 TA-TTGATTTTAATTTAATCACAAAAAATATTTTGTCTACTTTTATTTTATTTTTTAAATTACCT
66 TACTTGATTTTAATTTAATCAC-AAAAATATTTTGTCTACTTTTATTTTATTTTTTAAATTACCT
11695561 AACTAAATTAAAATGTCTTTAAAGTTTTATTTTAAATATTTTACTTGATTTTAATTTAATCACTA
130 AACTAAATTAAAATGTCTTTAAAGTTTTATTTTAAATATTTTACTTGATTTTAATTTAATCACTA
11695626 AAAATATTTTGTCTAC
195 AAAATATTTTGTCTAC
* * * * *
11695642 TTTTATTTTATTTTTTAAATTACCTAATTAAATTAATTTTTCTTTAACGTTTTATTTTAAATATT
1 TTTTATTTTAATTTTTAAATTACCTAATT-AATTAAATTGTATTTAAAGTTTTATTTTAAATATT
11695707 TTACTTGATTTTAATTTAATCACTAAAAATA--TTGTCTAC-TTTATTTTA-TTTTTAAAT
65 TTACTTGATTTTAATTTAATCAC-AAAAATATTTTGTCTACTTTTATTTTATTTTTTAAAT
11695764 ATTTTATTTT
Statistics
Matches: 306, Mismatches: 14, Indels: 18
0.91 0.04 0.05
Matches are distributed among these distances:
203 37 0.12
204 24 0.08
205 38 0.12
208 10 0.03
209 130 0.42
210 8 0.03
211 33 0.11
212 26 0.08
ACGTcount: A:0.34, C:0.07, G:0.04, T:0.54
Consensus pattern (210 bp):
TTTTATTTTAATTTTTAAATTACCTAATTAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
TACTTGATTTTAATTTAATCACAAAAATATTTTGTCTACTTTTATTTTATTTTTTAAATTACCTA
ACTAAATTAAAATGTCTTTAAAGTTTTATTTTAAATATTTTACTTGATTTTAATTTAATCACTAA
AAATATTTTGTCTAC
Found at i:11695648 original size:106 final size:106
Alignment explanation
Indices: 11695229--11695763 Score: 821
Period size: 106 Copynumber: 5.2 Consensus size: 106
11695219 ATTTTAAAAT
* * * * *
11695229 TTTTATTTTA-TTTTGAAATTACCGAATTAAATTAAAATGTATTTAAAGTTTTA-TTTGAATATT
1 TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAATTGTCTTTAAAGTTTTATTTTAAATATT
* *
11695292 TTATTTGATTTTAATTTAA-CAC-GAAAATATTTTGTCTAC
66 TTACTTGATTTTAATTTAATCACTAAAAATATTTTGTCTAC
11695331 TTTTA---T-TTTTTTAAATTACCTAATTAAATTAAATTGTCTTTAAAGTTTTATTTTAAATATT
1 TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAATTGTCTTTAAAGTTTTATTTTAAATATT
*
11695392 TTACTTGATTTTAATTTACTCACTAAAAATATTTTGTCTAC
66 TTACTTGATTTTAATTTAATCACTAAAAATATTTTGTCTAC
* *
11695433 TTTTATTTTAATTTTTAAATTACCTAATT--ATTAAATTGTATTTAAAGTTTTATTTTAAATATT
1 TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAATTGTCTTTAAAGTTTTATTTTAAATATT
*
11695496 TTA-TTGATTTTAATTTAATCACAAAAAATATTTTGTCTAC
66 TTACTTGATTTTAATTTAATCACTAAAAATATTTTGTCTAC
* *
11695536 TTTTATTTTATTTTTTAAATTACCTAACTAAATTAAAATGTCTTTAAAGTTTTATTTTAAATATT
1 TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAATTGTCTTTAAAGTTTTATTTTAAATATT
11695601 TTACTTGATTTTAATTTAATCACTAAAAATATTTTGTCTAC
66 TTACTTGATTTTAATTTAATCACTAAAAATATTTTGTCTAC
* * *
11695642 TTTTATTTTATTTTTTAAATTACCTAATTAAATTAATTTTTCTTTAACGTTTTATTTTAAATATT
1 TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAATTGTCTTTAAAGTTTTATTTTAAATATT
11695707 TTACTTGATTTTAATTTAATCACTAAAAATA--TTGTCTAC
66 TTACTTGATTTTAATTTAATCACTAAAAATATTTTGTCTAC
11695746 -TTTATTTTA-TTTTTAAAT
1 TTTTATTTTATTTTTTAAAT
11695764 ATTTTATTTT
Statistics
Matches: 400, Mismatches: 22, Indels: 22
0.90 0.05 0.05
Matches are distributed among these distances:
99 40 0.10
100 26 0.06
101 3 0.01
102 35 0.09
103 71 0.18
104 44 0.11
105 36 0.09
106 145 0.36
ACGTcount: A:0.34, C:0.07, G:0.04, T:0.54
Consensus pattern (106 bp):
TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAATTGTCTTTAAAGTTTTATTTTAAATATT
TTACTTGATTTTAATTTAATCACTAAAAATATTTTGTCTAC
Found at i:11695952 original size:18 final size:18
Alignment explanation
Indices: 11695907--11696112 Score: 101
Period size: 18 Copynumber: 11.0 Consensus size: 18
11695897 ATATCATATA
* *
11695907 TTACATAAATTACATAAG
1 TTACATAACTTACATAAT
* * *
11695925 ATAAACAACTTACATAAT
1 TTACATAACTTACATAAT
*
11695943 TTACATAACTTACGTAA-
1 TTACATAACTTACATAAT
* * *
11695960 -CACATAAGTATATATTATAT
1 TTACATAACT-TACA-TA-AT
* *
11695980 CGTACATAATTTACATAAT
1 -TTACATAACTTACATAAT
***
11695999 TCGGATAACTTACATAAT
1 TTACATAACTTACATAAT
11696017 TTACATAACTTACATATAT
1 TTACATAACTTACATA-AT
* * *
11696036 AATACATAAATATATATCATAT
1 -TTACATAACT-TACAT-A-AT
* *
11696058 CGTACATAATTTACATAAT
1 -TTACATAACTTACATAAT
*** *
11696077 TCGGATAACTTACACAAT
1 TTACATAACTTACATAAT
11696095 TTACATAACTTACATAAT
1 TTACATAACTTACATAAT
11696113 ACATAAATAT
Statistics
Matches: 137, Mismatches: 41, Indels: 20
0.69 0.21 0.10
Matches are distributed among these distances:
16 7 0.05
17 2 0.01
18 80 0.58
19 7 0.05
20 11 0.08
21 11 0.08
22 19 0.14
ACGTcount: A:0.45, C:0.15, G:0.04, T:0.35
Consensus pattern (18 bp):
TTACATAACTTACATAAT
Found at i:11695960 original size:9 final size:9
Alignment explanation
Indices: 11695907--11696149 Score: 74
Period size: 9 Copynumber: 26.3 Consensus size: 9
11695897 ATATCATATA
*
11695907 TTACATAAA
1 TTACATAAC
*
11695916 TTACATAAG
1 TTACATAAC
* * *
11695925 ATAAACAAC
1 TTACATAAC
*
11695934 TTACATAAT
1 TTACATAAC
11695943 TTACATAAC
1 TTACATAAC
*
11695952 TTACGTAAC
1 TTACATAAC
*
11695961 --ACATAAG
1 TTACATAAC
*
11695968 TATATATTATATC
1 T-TACA-TA-A-C
* *
11695981 GTACATAAT
1 TTACATAAC
11695990 TTACATAA-
1 TTACATAAC
11695998 TT-CGGATAAC
1 TTAC--ATAAC
*
11696008 TTACATAAT
1 TTACATAAC
11696017 TTACATAAC
1 TTACATAAC
11696026 TTACATATA-
1 TTACATA-AC
*
11696035 TAATACATAAATA
1 T--TACAT-AA-C
*
11696048 TATATCATATC
1 T-TA-CATAAC
* *
11696059 GTACATAAT
1 TTACATAAC
11696068 TTACATAA-
1 TTACATAAC
11696076 TT-CGGATAAC
1 TTAC--ATAAC
* *
11696086 TTACACAAT
1 TTACATAAC
11696095 TTACATAAC
1 TTACATAAC
11696104 TTACATAA-
1 TTACATAAC
*
11696112 -TACATAAA
1 TTACATAAC
* *
11696120 TATATATCAC
1 T-TACATAAC
*
11696130 AT-CATAAC
1 TTACATAAC
11696138 TTACATAAC
1 TTACATAAC
11696147 TTA
1 TTA
11696150 ATTATACTTA
Statistics
Matches: 171, Mismatches: 38, Indels: 50
0.66 0.15 0.19
Matches are distributed among these distances:
7 14 0.08
8 9 0.05
9 108 0.63
10 15 0.09
11 12 0.07
12 9 0.05
13 4 0.02
ACGTcount: A:0.46, C:0.16, G:0.04, T:0.35
Consensus pattern (9 bp):
TTACATAAC
Found at i:11696063 original size:78 final size:74
Alignment explanation
Indices: 11695869--11696128 Score: 351
Period size: 74 Copynumber: 3.5 Consensus size: 74
11695859 CATCAACAAC
* ** * * ** *
11695869 TTACATAACTTACGTAATACATAAATATATATCATATATTACATAAATTACATAAGAT-AAACAA
1 TTACATAACTTACATAATACATAAATATATATCATATCGTACATAATTTACATAA-TTCGGATAA
11695933 CTTACATAAT
65 CTTACATAAT
* * * *
11695943 TTACATAACTTACGTAACACATAAGTATATATTATATCGTACATAATTTACATAATTCGGATAAC
1 TTACATAACTTACATAATACATAAATATATATCATATCGTACATAATTTACATAATTCGGATAAC
11696008 TTACATAAT
66 TTACATAAT
11696017 TTACATAACTTACATATATAATACATAAATATATATCATATCGTACATAATTTACATAATTCGGA
1 TTACATAACTTAC----ATAATACATAAATATATATCATATCGTACATAATTTACATAATTCGGA
*
11696082 TAACTTACACAAT
62 TAACTTACATAAT
11696095 TTACATAACTTACATAATACATAAATATATATCA
1 TTACATAACTTACATAATACATAAATATATATCA
11696129 CATCATAACT
Statistics
Matches: 166, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
73 1 0.01
74 96 0.58
78 69 0.42
ACGTcount: A:0.46, C:0.15, G:0.04, T:0.35
Consensus pattern (74 bp):
TTACATAACTTACATAATACATAAATATATATCATATCGTACATAATTTACATAATTCGGATAAC
TTACATAAT
Found at i:11697881 original size:12 final size:12
Alignment explanation
Indices: 11697864--11697889 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11697854 AAGATCGAGG
11697864 GATGAATCTGAT
1 GATGAATCTGAT
11697876 GATGAATCTGAT
1 GATGAATCTGAT
11697888 GA
1 GA
11697890 AGAGGATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.31
Consensus pattern (12 bp):
GATGAATCTGAT
Found at i:11701639 original size:21 final size:21
Alignment explanation
Indices: 11701614--11701653 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
11701604 TAGAGCGGAG
*
11701614 GCAGCAGAGAGGGAGGCAGCC
1 GCAGCAGAGAGAGAGGCAGCC
*
11701635 GCAGCAGTGAGAGAGGCAG
1 GCAGCAGAGAGAGAGGCAG
11701654 AGGCACGAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.20, G:0.47, T:0.03
Consensus pattern (21 bp):
GCAGCAGAGAGAGAGGCAGCC
Found at i:11702120 original size:42 final size:42
Alignment explanation
Indices: 11702053--11702173 Score: 172
Period size: 42 Copynumber: 2.9 Consensus size: 42
11702043 GTGGGAAAAG
11702053 CGCCGCTAAAAGCCATGACTTTTAGCGGCGCTTTTTAAACAAA
1 CGCCGCTAAAAGCCATGACTTTTAGCGGCGCTTTTT-AACAAA
* *
11702096 CGCCGCT-AAAGCTATCACTTTTAGCGGCGCCTTTTTAACAAA
1 CGCCGCTAAAAGCCATGACTTTTAGCGGCG-CTTTTTAACAAA
** *
11702138 CGTAGCTAAAAGCCATGACTTTTAGCGGCGTTTTTT
1 CGCCGCTAAAAGCCATGACTTTTAGCGGCGCTTTTT
11702174 TCAATAAACG
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
42 36 0.52
43 33 0.48
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (42 bp):
CGCCGCTAAAAGCCATGACTTTTAGCGGCGCTTTTTAACAAA
Found at i:11702798 original size:7 final size:7
Alignment explanation
Indices: 11702783--11702826 Score: 52
Period size: 7 Copynumber: 6.1 Consensus size: 7
11702773 AAAATTATAC
*
11702783 ATAATTA
1 ATAAATA
11702790 ATAAATA
1 ATAAATA
11702797 ATAAATA
1 ATAAATA
11702804 ATAAAATA
1 AT-AAATA
* *
11702812 TTATATA
1 ATAAATA
11702819 ATAAATA
1 ATAAATA
11702826 A
1 A
11702827 AATAACGTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
7 25 0.81
8 6 0.19
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (7 bp):
ATAAATA
Found at i:11704507 original size:45 final size:45
Alignment explanation
Indices: 11704457--11705030 Score: 232
Period size: 45 Copynumber: 13.0 Consensus size: 45
11704447 TAATATCCTT
*
11704457 GATCTGCTCCCCGTCAAATACAGAGATGCCAAATCTGCTATCTTC
1 GATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGCTATCTTC
** * * * **
11704502 GATCTGCT--TTGATGTAA-ACATACGAATGTCAGTTCTGCTATCTTC
1 GATCTGCTCCCCG-TCTAATACAGA-G-ATGCCAAATCTGCTATCTTC
* * *
11704547 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCT-TTCATTTTC
1 GATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGCT-ATCTTC
* * * * ** *
11704592 GATCTACT--TCGATGTAA-ACATACGAATATCAGATCTGCTATCTTC
1 GATCTGCTCCCCG-TCTAATACAGA-G-ATGCCAAATCTGCTATCTTC
* * *** * *
11704637 GATTTGCTCCCCGTCTAATATAGAGACATCAAATCT-ATCATTTTC
1 GATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGCT-ATCTTC
* * * * * *
11704682 GATCTGCT--TCGATGTAA-ACACACGAATGTCAGATCTGCTATCTTT
1 GATCTGCTCCCCG-TCTAATACAGA-G-ATGCCAAATCTGCTATCTTC
** *
11704727 GATCTGCTCTTCGTCTAATACAGAGACGCCAAATCTG-TCATCTTC
1 GATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGCT-ATCTTC
* * * * *
11704772 GATCTGCT--TCGATGTAA-ACACACGAATGCCAGATCTAG-TATGTTC
1 GATCTGCTCCCCG-TCTAATACAGA-G-ATGCCAAATCT-GCTATCTTC
* * * *
11704817 GATCTACTCCTCCGTCTAATACATAGACGCCAAATCTGCCATCTTC
1 GATCTGCTCC-CCGTCTAATACAGAGATGCCAAATCTGCTATCTTC
* * * * *
11704863 GATCTACT-----TC--ACAC-GA-ATGTCAGATCTACTATCTTC
1 GATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGCTATCTTC
* * * *
11704899 GATCTGCTCCCCATCTAATACAGAGACGCCAAATCT-ATCATTTTC
1 GATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGCT-ATCTTC
* * * *
11704944 AATCTGCTCCCCATCTAATACGGAGACGCCAAATCTG-TCATCTTC
1 GATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGCT-ATCTTC
* * * * *
11704989 GATTTGTTCCCTGTC-AATACAGAGATGTCAAATTTGCTATCT
1 GATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGCTATCT
11705031 ACATTGTCCC
Statistics
Matches: 391, Mismatches: 94, Indels: 89
0.68 0.16 0.16
Matches are distributed among these distances:
36 22 0.06
37 1 0.00
38 3 0.01
40 2 0.01
41 2 0.01
43 26 0.07
44 46 0.12
45 220 0.56
46 41 0.10
47 22 0.06
48 6 0.02
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (45 bp):
GATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGCTATCTTC
Found at i:11704610 original size:90 final size:90
Alignment explanation
Indices: 11704457--11704951 Score: 607
Period size: 90 Copynumber: 5.6 Consensus size: 90
11704447 TAATATCCTT
* * * *
11704457 GATCTGCTCCCCGTCAAATACAGAGATGCCAAATCT-GCTATCTTCGATCTGCTTTGATGTAAAC
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTATC-ATCTTCGATCTGCTTCGATGTAAAC
* *
11704521 ATACGAATGTCAGTTCTGCTATCTTC
65 ACACGAATGTCAGATCTGCTATCTTC
* * *
11704547 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTTTCATTTTCGATCTACTTCGATGTAAACA
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTATCATCTTCGATCTGCTTCGATGTAAACA
* *
11704612 TACGAATATCAGATCTGCTATCTTC
66 CACGAATGTCAGATCTGCTATCTTC
* * ** *
11704637 GATTTGCTCCCCGTCTAATATAGAGACATCAAATCTATCATTTTCGATCTGCTTCGATGTAAACA
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTATCATCTTCGATCTGCTTCGATGTAAACA
*
11704702 CACGAATGTCAGATCTGCTATCTTT
66 CACGAATGTCAGATCTGCTATCTTC
** *
11704727 GATCTGCTCTTCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTATCATCTTCGATCTGCTTCGATGTAAACA
* *
11704792 CACGAATGCCAGATCTAG-TATGTTC
66 CACGAATGTCAGATCT-GCTATCTTC
* * ** *
11704817 GATCTACTCCTCCGTCTAATACATAGACGCCAAATCTGCCATCTTCGA--T-CTAC--T-T---C
1 GATCTGCTCC-CCGTCTAATACAGAGACGCCAAATCTATCATCTTCGATCTGCTTCGATGTAAAC
*
11704873 ACACGAATGTCAGATCTACTATCTTC
65 ACACGAATGTCAGATCTGCTATCTTC
* * *
11704899 GATCTGCTCCCCATCTAATACAGAGACGCCAAATCTATCATTTTCAATCTGCT
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTATCATCTTCGATCTGCT
11704952 CCCCATCTAA
Statistics
Matches: 354, Mismatches: 44, Indels: 20
0.85 0.11 0.05
Matches are distributed among these distances:
81 31 0.09
82 32 0.09
83 1 0.00
84 2 0.01
85 1 0.00
86 1 0.00
88 3 0.01
89 1 0.00
90 246 0.69
91 36 0.10
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (90 bp):
GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTATCATCTTCGATCTGCTTCGATGTAAACA
CACGAATGTCAGATCTGCTATCTTC
Found at i:11716970 original size:7 final size:7
Alignment explanation
Indices: 11716955--11717005 Score: 50
Period size: 7 Copynumber: 7.1 Consensus size: 7
11716945 AAAATTATAC
*
11716955 ATAATTA
1 ATAAATA
11716962 ATAAATA
1 ATAAATA
11716969 ATAAATA
1 ATAAATA
11716976 ATAAAATA
1 AT-AAATA
* *
11716984 TTATATA
1 ATAAATA
11716991 ATAAAATA
1 AT-AAATA
11716999 A-AAATA
1 ATAAATA
11717005 A
1 A
11717006 CGTAAGGGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
6 6 0.16
7 20 0.54
8 11 0.30
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
ATAAATA
Found at i:11716991 original size:15 final size:15
Alignment explanation
Indices: 11716955--11717005 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
11716945 AAAATTATAC
*
11716955 ATAATTAAT-AAATA
1 ATAAATAATAAAATA
11716969 ATAAATAATAAAATA
1 ATAAATAATAAAATA
* *
11716984 TTATATAATAAAATA
1 ATAAATAATAAAATA
11716999 A-AAATAA
1 ATAAATAA
11717006 CGTAAGGGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
14 13 0.42
15 18 0.58
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
ATAAATAATAAAATA
Found at i:11717029 original size:12 final size:12
Alignment explanation
Indices: 11717014--11717099 Score: 61
Period size: 12 Copynumber: 7.0 Consensus size: 12
11717004 AACGTAAGGG
11717014 ATAATATATATA
1 ATAATATATATA
* *
11717026 ATAAAATTTATAA
1 ATAATATATAT-A
*
11717039 ATAAAATATATA
1 ATAATATATATA
11717051 ATAGA-ATATA-A
1 ATA-ATATATATA
*
11717062 ATAATATGA-AAA
1 ATAATAT-ATATA
*
11717074 ATAATATATAAAA
1 ATAATATAT-ATA
11717087 ATAAATATATATA
1 AT-AATATATATA
11717100 CTATTTTTAC
Statistics
Matches: 62, Mismatches: 4, Indels: 15
0.77 0.05 0.19
Matches are distributed among these distances:
10 1 0.02
11 8 0.13
12 27 0.44
13 19 0.31
14 7 0.11
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (12 bp):
ATAATATATATA
Found at i:11717043 original size:13 final size:13
Alignment explanation
Indices: 11717016--11717099 Score: 61
Period size: 13 Copynumber: 6.6 Consensus size: 13
11717006 CGTAAGGGAT
11717016 AATATATATAATAA
1 AATATATA-AATAA
*
11717030 AATTTATAAATAA
1 AATATATAAATAA
11717043 AATATAT-AAT-A
1 AATATATAAATAA
*
11717054 GA-ATATAAAT--
1 AATATATAAATAA
*
11717064 AATATGAAAAATAA
1 AATAT-ATAAATAA
* *
11717078 TATATAAAAATAA
1 AATATATAAATAA
11717091 ATATATATA
1 A-ATATATA
11717100 CTATTTTTAC
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
10 5 0.09
11 7 0.12
12 8 0.14
13 19 0.34
14 17 0.30
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (13 bp):
AATATATAAATAA
Found at i:11717047 original size:25 final size:23
Alignment explanation
Indices: 11717014--11717097 Score: 71
Period size: 23 Copynumber: 3.5 Consensus size: 23
11717004 AACGTAAGGG
*
11717014 ATAATATATATAATAAAATTTATAA
1 ATAAAATATATAATAAAA--TATAA
*
11717039 ATAAAATATATAATAGAATATAA
1 ATAAAATATATAATAAAATATAA
* * *
11717062 ATAATATGA-AAAATAATATATAA
1 ATAAAAT-ATATAATAAAATATAA
*
11717085 AAATAAATATATA
1 ATA-AAATATATA
11717098 TACTATTTTT
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
23 25 0.53
24 6 0.13
25 16 0.34
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (23 bp):
ATAAAATATATAATAAAATATAA
Found at i:11717065 original size:27 final size:25
Alignment explanation
Indices: 11717014--11717093 Score: 63
Period size: 25 Copynumber: 3.0 Consensus size: 25
11717004 AACGTAAGGG
* **
11717014 ATAATATATATAATAAAATTTATAA
1 ATAAAATATATAATAAAATAAATAA
11717039 ATAAAATATATAATAGAATATAAATAA
1 ATAAAATATATAATA-AA-ATAAATAA
11717066 TATGAAAA-ATAATATATAAAAATAAATA
1 -AT-AAAATAT-ATA-AT-AAAATAAATA
11717094 TATATACTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
25 14 0.31
26 2 0.04
27 6 0.13
28 4 0.09
29 14 0.31
30 4 0.09
31 1 0.02
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (25 bp):
ATAAAATATATAATAAAATAAATAA
Found at i:11717082 original size:14 final size:14
Alignment explanation
Indices: 11717058--11717097 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 14
11717048 ATAATAGAAT
11717058 ATAAATAATATGAAAA
1 ATAAAT-ATAT-AAAA
11717074 AT-AATATATAAAA
1 ATAAATATATAAAA
11717087 ATAAATATATA
1 ATAAATATATA
11717098 TACTATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 6 0.26
14 12 0.52
15 3 0.13
16 2 0.09
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (14 bp):
ATAAATATATAAAA
Found at i:11717159 original size:27 final size:29
Alignment explanation
Indices: 11717128--11717181 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
11717118 CTAATGTCTA
11717128 TAAAAAT-AAAT-AATATATAAAAAAATT
1 TAAAAATGAAATAAATATATAAAAAAATT
* *
11717155 TAAAAATGAATTAAATATATATAAAAA
1 TAAAAATGAAATAAATATATAAAAAAA
11717182 GGATTAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 7 0.30
28 3 0.13
29 13 0.57
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.30
Consensus pattern (29 bp):
TAAAAATGAAATAAATATATAAAAAAATT
Found at i:11717178 original size:31 final size:32
Alignment explanation
Indices: 11717134--11717203 Score: 90
Period size: 31 Copynumber: 2.2 Consensus size: 32
11717124 TCTATAAAAA
11717134 TAAATAATATATAAAAA-AATTTAAAAATGAA-T
1 TAAAT-ATATATAAAAAGAA-TTAAAAATGAATT
* *
11717166 TAAATATATATAAAAAGGATTAAAATTGAATT
1 TAAATATATATAAAAAGAATTAAAAATGAATT
11717198 TAAATA
1 TAAATA
11717204 AAAAAATCTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 21 0.62
32 13 0.38
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (32 bp):
TAAATATATATAAAAAGAATTAAAAATGAATT
Found at i:11718441 original size:6 final size:6
Alignment explanation
Indices: 11718430--11718468 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
11718420 CTTTTATTAT
*
11718430 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTT TTTTTG TTT
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTT
11718469 ATTTTCTGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (6 bp):
TTTTTG
Found at i:11718473 original size:12 final size:11
Alignment explanation
Indices: 11718430--11718473 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 11
11718420 CTTTTATTAT
11718430 TTTTTGTTTTTG
1 TTTTT-TTTTTG
11718442 TTTTTGTTTTTG
1 TTTTT-TTTTTG
11718454 TTTTTTTTTTTG
1 -TTTTTTTTTTG
*
11718466 TTTATTTT
1 TTTTTTTT
11718474 CTGGGTCGGG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 7 0.23
12 18 0.60
13 5 0.17
ACGTcount: A:0.02, C:0.00, G:0.11, T:0.86
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:11721671 original size:15 final size:15
Alignment explanation
Indices: 11721634--11721684 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
11721624 ATAGGCCATA
*
11721634 AAAATAAGAATA-G-
1 AAAATAATAATATGT
*
11721647 AAATTAATAATATGT
1 AAAATAATAATATGT
*
11721662 AAAATAATAATATAT
1 AAAATAATAATATGT
*
11721677 AAATTAAT
1 AAAATAAT
11721685 TTTATAATGA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
13 10 0.32
14 1 0.03
15 20 0.65
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (15 bp):
AAAATAATAATATGT
Found at i:11724974 original size:2 final size:2
Alignment explanation
Indices: 11724967--11725006 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
11724957 ACCTCAAAGG
11724967 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11725007 ATAGTTACGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11734064 original size:125 final size:126
Alignment explanation
Indices: 11733919--11734308 Score: 407
Period size: 128 Copynumber: 3.1 Consensus size: 126
11733909 ATTTCTAAAT
* * * *
11733919 ACGAAACATCGCCTCATTTTAATTTGAGAAAACATGGATGAAATTTC-AAAAGGATATTCTGTAT
1 ACGAAATATTGCCTCGTTTTAATTTAAGAAAACATGGATGAAATTTCAAAAAGGATATTCTGTAT
** * *
11733983 TTTAGTCGAATGAAAAATTGAAGCCCA-ACACGATTGGGCACGA-CTTCTCAAACTCCCAAAC
66 TTTAGTCGAATGAAAAAACGAAACCCAGA-ACGATTGGGCACGATC-CCTCAAACTCCCAAAC
* *
11734044 ACGAAATATTGCCTCGTTTT-ATTCTAAGAAAACGTGGATGAAATTTCAAAAAAAGGATATTCTA
1 ACGAAATATTGCCTCGTTTTAATT-TAAGAAAACATGGATGAAATTTC--AAAAAGGATATTCTG
* *
11734108 TATTTTAGTCTAATGAAAAAACGAAACCCAGAACGATTGGGCACGATCCCTCAAACTTCCAAAC
63 TATTTTAGTCGAATGAAAAAACGAAACCCAGAACGATTGGGCACGATCCCTCAAACTCCCAAAC
* * * * ** *
11734172 ACGAAATATTGCCTCGTTTAAATTTTTA-AAAGCATGGACGAAATTTCGGAAA-GATATTCCGTA
1 ACGAAATATTGCCTCGTTTTAA-TTTAAGAAAACATGGATGAAATTTCAAAAAGGATATTCTGTA
* * ** * *
11734235 TTTTAGTTGAATGGAAAAAAAATTGTCACCCAGCACGATTGGGCACGATCCCTCGAAC-CCACAA
65 TTTTAGTCGAAT-G--AAAAAA-CGAAACCCAGAACGATTGGGCACGATCCCTCAAACTCC-CAA
11734299 AC
125 AC
11734301 ACGAAATA
1 ACGAAATA
11734309 ATTTCTTAAG
Statistics
Matches: 223, Mismatches: 29, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
124 3 0.01
125 57 0.26
126 4 0.02
128 109 0.49
129 48 0.22
130 2 0.01
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.26
Consensus pattern (126 bp):
ACGAAATATTGCCTCGTTTTAATTTAAGAAAACATGGATGAAATTTCAAAAAGGATATTCTGTAT
TTTAGTCGAATGAAAAAACGAAACCCAGAACGATTGGGCACGATCCCTCAAACTCCCAAAC
Found at i:11736777 original size:178 final size:177
Alignment explanation
Indices: 11736413--11737509 Score: 1387
Period size: 178 Copynumber: 6.2 Consensus size: 177
11736403 GACTTCAATT
* ** * * * *** *
11736413 TGCTTCACTGCAACTTTTGGGAGATAAGGTTGATGACTAAGATCTGCTCCATCTTCAATACATGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGGCTG-TGGCTAAAATCTGCTCCATAGCCGATACATGG
** * *
11736478 AGATAAGA-TCTGTAATTTT-GATTTGCTCCATAGCCGATACATGGAGATAAGGTCTGTAA-TTT
65 AGATAAGACTC-GCCATTTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAGTTT
* * * * *
11736540 CCAGTCTGCTTCCTGCAACTTCAGGAAGATAAGACTTGTATATTGAGCC
129 TCAGTCTGCTTCCTGCAACTTCAAGAAGATAAGACTTGTATCTTCAACC
* * * *
11736589 TGCTCCACTGCAATTTTAAGGAGATAAGGCTGATGGCTAAAATCTGCTCCATAGCCGATACATGA
1 TGCTCCACTGCAACTTCAGGGAGATAAGGCTG-TGGCTAAAATCTGCTCCATAGCCGATACATGG
* *
11736654 AGATAAGATTCGCCATTTTCGATCTGCTCCATAACCGATACATGGAGATAAGATCTGTAAGTTTT
65 AGATAAGACTCGCCATTTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAGTTTT
* * * **
11736719 CAGTCTGCTTCCTGCAACTTAAAAAAGATAAGACTTATATCTTCAGTC
130 CAGTCTGCTTCCTGCAACTTCAAGAAGATAAGACTTGTATCTTCAACC
*
11736767 TGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGGCTAAAAATCTGCTCCATAGCCGATACATG
1 TGCTCCACTGCAACTTCAGGGAGATAAGGC-TGTGGCT-AAAATCTGCTCCATAGCCGATACATG
** * * *
11736832 GAGATAAGACTCGCCATTTTTTATCTACTTCATAGCTGATACATGGAGATAAGATCTGTAAGTTT
64 GAGATAAGACTCGCCATTTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAGTTT
* * * * *
11736897 TTAGTCTGCTTCCTGCAACTTTAGGAAGATAAGACATGTATCTTTAACC
129 TCAGTCTGCTTCCTGCAACTTCAAGAAGATAAGACTTGTATCTTCAACC
* *
11736946 TGCTCCACTGCAACTTCAGGGAGATAATGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGA
1 TGCTCCACTGCAACTTCAGGGAGATAAGGCT-GTGGCTAAAATCTGCTCCATAGCCGATACATGG
* * * * * *
11737011 AGATAAGATTTGCCATTTTCGACCTGCTTCATAGTCGATAGATGGAGATAAGATCTGTAAGTTTT
65 AGATAAGACTCGCCATTTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAGTTTT
* * * *
11737076 CAGTTTGCTTCTTGCAACTTTAAGAAGATAAGACTTGTATCTTCAATC
130 CAGTCTGCTTCCTGCAACTTCAAGAAGATAAGACTTGTATCTTCAACC
* *
11737124 TGCTCCACTACAACTTCAGGGAGATAAGACTTGTGGCTAAAAATCTGCTCCATAGCCGATACATG
1 TGCTCCACTGCAACTTCAGGGAGATAAGGC-TGTGGCT-AAAATCTGCTCCATAGCCGATACATG
* * * * * *
11737189 GAGATAAAACTCTCCATTTTTGATTTGCTCCATAGCTGATACATGGAGATAAGATCTATAAGTTT
64 GAGATAAGACTCGCCATTTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAGTTT
* * * *
11737254 TCAGTCTGCTTCCTGCAACTTCAAGAAGATAAGACCTCTATCTTTAATC
129 TCAGTCTGCTTCCTGCAACTTCAAGAAGATAAGACTTGTATCTTCAACC
* * * * *
11737303 TGCTCTC-TTGCTACCTT-AGAGAGATAAAGCTGGTGGCTAAAATCTGCTCCATAGCCGACACAT
1 TGCTC-CACTGC-AACTTCAGGGAGATAAGGCT-GTGGCTAAAATCTGCTCCATAGCCGATACAT
**
11737366 GGAGATAAGACTCGCCATTTTCGATCTGCTCCATAGTTGATACATGGAGATAAGATCTGTAA-TT
63 GGAGATAAGACTCGCCATTTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAGTT
11737430 TTCAGTCTGCTTCCTGCAACTTCAAGAAGATAAGACTTGCTATCTTCAACC
128 TTCAGTCTGCTTCCTGCAACTTCAAGAAGATAAGACTTG-TATCTTCAACC
*
11737481 CGCTCCACTGCAACTTCAGGGAGATAAGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGG
11737510 TTTGTAATCT
Statistics
Matches: 798, Mismatches: 109, Indels: 26
0.86 0.12 0.03
Matches are distributed among these distances:
176 67 0.08
177 83 0.10
178 339 0.42
179 304 0.38
180 5 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (177 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGGCTGTGGCTAAAATCTGCTCCATAGCCGATACATGGA
GATAAGACTCGCCATTTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAGTTTTC
AGTCTGCTTCCTGCAACTTCAAGAAGATAAGACTTGTATCTTCAACC
Found at i:11736898 original size:45 final size:46
Alignment explanation
Indices: 11736817--11736908 Score: 116
Period size: 45 Copynumber: 2.0 Consensus size: 46
11736807 AAATCTGCTC
* *
11736817 CATAGCCGATACATGGAGATAAGACTCGCCATTTTTTA-TCTACTT
1 CATAGCCGATACATGGAGATAAGACTCGCAAGTTTTTAGTCTACTT
* * *
11736862 CATAGCTGATACATGGAGATAAGA-TCTGTAAGTTTTTAGTCTGCTT
1 CATAGCCGATACATGGAGATAAGACTC-GCAAGTTTTTAGTCTACTT
11736908 C
1 C
11736909 CTGCAACTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
44 2 0.05
45 31 0.77
46 7 0.17
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.35
Consensus pattern (46 bp):
CATAGCCGATACATGGAGATAAGACTCGCAAGTTTTTAGTCTACTT
Found at i:11737208 original size:357 final size:356
Alignment explanation
Indices: 11736405--11737508 Score: 1520
Period size: 357 Copynumber: 3.1 Consensus size: 356
11736395 ATGTTTGTGA
* * ** * * * ***
11736405 CTTCAATTTGCTTCACTGCAACTTTTGGGAGATAAG-GTTGATGACT-AAGATCTGCTCCATCTT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-TGGCTAAAAATCTGCTCCATAGC
* * * * * * * *
11736468 CAATACATGGAGATAAGA-TCTG-TAATTTTGATTTGCTCCATAGCCGATACATGGAGATAAGGT
65 CGATACATGGAGATAAAACTC-GCCATTTTTGATCTACTCCATAGCTGATACATGGAGATAAGAT
* * * * *
11736531 CTGTAA-TTTCCAGTCTGCTTCCTGCAACTTCAGGAAGATAAGACTTGTATATTGAGCCTGCTCC
129 CTGTAAGTTTTCAGTCTGCTTCCTGCAACTTCAGGAAGATAAGACATGTATCTTTAACCTGCTCC
* * * *
11736595 ACTGCAATTTTAAGGAGATAAGGCTGATGGCTAAAATCTGCTCCATAGCCGATACATGAAGATAA
194 ACTGCAA-CTTAGGGAGATAAAGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGAAGATAA
**
11736660 GATTCGCCATTTTCGATCTGCTCCATAACCGATACATGGAGATAAGATCTGTAAGTTTTCAGTCT
258 GATTCGCCATTTTCGATCTGCTCCATAGTCGATACATGGAGATAAGATCTGTAAGTTTTCAGTCT
* *
11736725 GCTTCCTGCAACTTAAAAAAGATAAGACTTATAT
323 GCTTCCTGCAACTTAAAGAAGATAAGACTTGTAT
*
11736759 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGGCTAAAAATCTGCTCCATAGCC
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGGCTAAAAATCTGCTCCATAGCC
* * *
11736824 GATACATGGAGATAAGACTCGCCATTTTTTATCTACTTCATAGCTGATACATGGAGATAAGATCT
66 GATACATGGAGATAAAACTCGCCATTTTTGATCTACTCCATAGCTGATACATGGAGATAAGATCT
* *
11736889 GTAAGTTTTTAGTCTGCTTCCTGCAACTTTAGGAAGATAAGACATGTATCTTTAACCTGCTCCAC
131 GTAAGTTTTCAGTCTGCTTCCTGCAACTTCAGGAAGATAAGACATGTATCTTTAACCTGCTCCAC
*
11736954 TGCAACTTCAGGGAGATAATGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGAAGATAAGA
196 TGCAACTT-AGGGAGATAAAGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGAAGATAAGA
* * * * *
11737019 TTTGCCATTTTCGACCTGCTTCATAGTCGATAGATGGAGATAAGATCTGTAAGTTTTCAGTTTGC
260 TTCGCCATTTTCGATCTGCTCCATAGTCGATACATGGAGATAAGATCTGTAAGTTTTCAGTCTGC
* *
11737084 TTCTTGCAACTTTAAGAAGATAAGACTTGTAT
325 TTCCTGCAACTTAAAGAAGATAAGACTTGTAT
*
11737116 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTGGCTAAAAATCTGCTCCATAGCC
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGGCTAAAAATCTGCTCCATAGCC
* * *
11737181 GATACATGGAGATAAAACTCTCCATTTTTGATTTGCTCCATAGCTGATACATGGAGATAAGATCT
66 GATACATGGAGATAAAACTCGCCATTTTTGATCTACTCCATAGCTGATACATGGAGATAAGATCT
* * * * *
11737246 ATAAGTTTTCAGTCTGCTTCCTGCAACTTCAAGAAGATAAGACCTCTATCTTTAATCTGCTCTC-
131 GTAAGTTTTCAGTCTGCTTCCTGCAACTTCAGGAAGATAAGACATGTATCTTTAACCTGCTC-CA
* * * * *
11737310 TTGCTACCTTAGAGAGATAAAGCTGGTGGCTAAAATCTGCTCCATAGCCGACACATGGAGATAAG
195 CTGC-AACTTAGGGAGATAAAGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGAAGATAAG
* *
11737375 ACTCGCCATTTTCGATCTGCTCCATAGTTGATACATGGAGATAAGATCTGTAA-TTTTCAGTCTG
259 ATTCGCCATTTTCGATCTGCTCCATAGTCGATACATGGAGATAAGATCTGTAAGTTTTCAGTCTG
*
11737439 CTTCCTGCAACTTCAAGAAGATAAGACTTGCTAT
324 CTTCCTGCAACTTAAAGAAGATAAGACTTG-TAT
* *
11737473 CTTCAACCCGCTCCACTGCAACTTCAGGGAGATAAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
11737509 GTTTGTAATC
Statistics
Matches: 666, Mismatches: 75, Indels: 15
0.88 0.10 0.02
Matches are distributed among these distances:
354 35 0.05
355 34 0.05
356 81 0.12
357 511 0.77
358 5 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (356 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGGCTAAAAATCTGCTCCATAGCC
GATACATGGAGATAAAACTCGCCATTTTTGATCTACTCCATAGCTGATACATGGAGATAAGATCT
GTAAGTTTTCAGTCTGCTTCCTGCAACTTCAGGAAGATAAGACATGTATCTTTAACCTGCTCCAC
TGCAACTTAGGGAGATAAAGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGAAGATAAGAT
TCGCCATTTTCGATCTGCTCCATAGTCGATACATGGAGATAAGATCTGTAAGTTTTCAGTCTGCT
TCCTGCAACTTAAAGAAGATAAGACTTGTAT
Found at i:11737431 original size:45 final size:44
Alignment explanation
Indices: 11737344--11737440 Score: 115
Period size: 45 Copynumber: 2.2 Consensus size: 44
11737334 GGTGGCTAAA
*
11737344 ATCTGCTCCATAGCCGACACATGGAGATAAGACTCGCCATTTTC
1 ATCTGCTCCATAGCCGACACATGGAGATAAGACTCGCAATTTTC
** * *
11737388 GATCTGCTCCATAGTTGATACATGGAGATAAGA-TCTGTAATTTTC
1 -ATCTGCTCCATAGCCGACACATGGAGATAAGACTC-GCAATTTTC
11737433 AGTCTGCT
1 A-TCTGCT
11737441 TCCTGCAACT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
44 3 0.07
45 42 0.93
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.31
Consensus pattern (44 bp):
ATCTGCTCCATAGCCGACACATGGAGATAAGACTCGCAATTTTC
Found at i:11737732 original size:64 final size:64
Alignment explanation
Indices: 11737622--11737748 Score: 186
Period size: 64 Copynumber: 2.0 Consensus size: 64
11737612 TTATGTATCT
* *
11737622 ATGCTTATGCAAAATAATTAAGATGCTATGATCGAAATAATCCAAGTGCTCCTAGCTAGATGTG
1 ATGCTTATGCAAAATAATTAAGATGCTATGATCAAAATAATCCAAGTGCTCCTAACTAGATGTG
* *
11737686 ATGCTTATGTC-AAATAATTAGGATGTTATGATCAAAATGAAT-CAAGTGCTCCTAACTAGATGT
1 ATGCTTATG-CAAAATAATTAAGATGCTATGATCAAAAT-AATCCAAGTGCTCCTAACTAGATGT
11737749 ATTATGAATG
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
64 53 0.93
65 4 0.07
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.31
Consensus pattern (64 bp):
ATGCTTATGCAAAATAATTAAGATGCTATGATCAAAATAATCCAAGTGCTCCTAACTAGATGTG
Found at i:11742358 original size:46 final size:44
Alignment explanation
Indices: 11742254--11742361 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
11742244 TGTCTTTGAC
** * * *
11742254 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
11742298 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
11742344 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
11742362 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:11749755 original size:46 final size:44
Alignment explanation
Indices: 11749651--11749758 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
11749641 TGTCTTTGAC
** * * *
11749651 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
11749695 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
11749741 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
11749759 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:11754193 original size:27 final size:28
Alignment explanation
Indices: 11754097--11754200 Score: 82
Period size: 27 Copynumber: 3.9 Consensus size: 28
11754087 CTATTCAGAA
* *
11754097 ATCAGTGTTAA-CTGGGCCTTAGCCCAT
1 ATCAGTATTAATCTGGGCCGTAGCCCAT
* *
11754124 ATCAATATTAATCTGGG-CTTA---CAGT
1 ATCAGTATTAATCTGGGCCGTAGCCCA-T
11754149 ATCGGAGTA-T-AT-TGGGCC-TAGCCCAT
1 ATC--AGTATTAATCTGGGCCGTAGCCCAT
11754175 ATCAGTATTAATCTGGGCCGTAGCCC
1 ATCAGTATTAATCTGGGCCGTAGCCC
11754201 TATTACAAGT
Statistics
Matches: 62, Mismatches: 3, Indels: 23
0.70 0.03 0.26
Matches are distributed among these distances:
24 12 0.19
25 8 0.13
26 7 0.11
27 24 0.39
28 11 0.18
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (28 bp):
ATCAGTATTAATCTGGGCCGTAGCCCAT
Found at i:11754254 original size:21 final size:21
Alignment explanation
Indices: 11754230--11754269 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
11754220 TTGGGCCTTG
11754230 CCCATATT-AACACAGTTGGGC
1 CCCAT-TTCAACACAGTTGGGC
*
11754251 CCCATTTCAATACAGTTGG
1 CCCATTTCAACACAGTTGG
11754270 CCTATAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (21 bp):
CCCATTTCAACACAGTTGGGC
Found at i:11762875 original size:128 final size:126
Alignment explanation
Indices: 11762659--11763022 Score: 412
Period size: 128 Copynumber: 2.8 Consensus size: 126
11762649 TTTTAATTTG
** * ** *
11762659 AGAAAACATGGATGAAATTTCAAAAGGATATTCTGTATTTTAGTCGAATGAAACATTGAAGCCCA
1 AGAAAACATGGATGAAATTTCAAAAGGATATTCCATATTTTAGTCGAATGAAAAAACGAAACCCA
* * *
11762724 ACACGATTGGGCACGA-CTTCTCAAACTCCCAAACAAGAAATATTGCCTCGTTT-TATTCTA
66 GCACGATTGGGCACGATC-CCTCAAACTCCCAAACAAGAAATATTGCCTCGTTTAAATTCTA
11762784 AGAAAACATGGATGAAATTTCAAAAAAAGGATATTCCATATTTTAGTCGAATGAAAAAACGAAAC
1 AGAAAACATGGATGAAATTTC---AAAAGGATATTCCATATTTTAGTCGAATGAAAAAACGAAAC
* * * *
11762849 CCAGCACGATTGGGCACGATCCCTCAAACTTCCAAACACGAAATATTGCCTCGTTTAAATTTTT
63 CCAGCACGATTGGGCACGATCCCTCAAACTCCCAAACAAGAAATATTGCCTCGTTTAAATTCTA
* ** * * *
11762913 A-AAAGCATGGACAAAATTTCGAAAA-GATATTCCTTATTTTAGTTGAACGGAAAAAAAATCGAA
1 AGAAAACATGGATGAAATTTC-AAAAGGATATTCCATATTTTAGTCGAA-TG--AAAAAA-CGAA
** * *
11762976 ACCCAGCACGATTGGGCACGATCCCTCGGACCCCCAAACATGAAATA
61 ACCCAGCACGATTGGGCACGATCCCTCAAACTCCCAAACAAGAAATA
11763023 ATTTCTTAAG
Statistics
Matches: 205, Mismatches: 25, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
125 41 0.20
126 5 0.02
128 107 0.52
129 52 0.25
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (126 bp):
AGAAAACATGGATGAAATTTCAAAAGGATATTCCATATTTTAGTCGAATGAAAAAACGAAACCCA
GCACGATTGGGCACGATCCCTCAAACTCCCAAACAAGAAATATTGCCTCGTTTAAATTCTA
Found at i:11771625 original size:28 final size:28
Alignment explanation
Indices: 11771584--11771638 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
11771574 CAACCTATCT
*
11771584 AAACAAGTCTATCTATAATAAGAAAATA
1 AAACAAGTCCATCTATAATAAGAAAATA
11771612 AAACAAGTCCATCTATAATAAGAAAAT
1 AAACAAGTCCATCTATAATAAGAAAAT
11771639 GGAGGAGGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.56, C:0.13, G:0.07, T:0.24
Consensus pattern (28 bp):
AAACAAGTCCATCTATAATAAGAAAATA
Found at i:11773205 original size:2 final size:2
Alignment explanation
Indices: 11773198--11773232 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
11773188 CATTTCAATT
11773198 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11773233 TGAAAATTCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11773332 original size:22 final size:22
Alignment explanation
Indices: 11773284--11773333 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
11773274 CATTAAATCC
*
11773284 TAAAATTTTTAAAATTTTAATT
1 TAAAATTTTTAAAATCTTAATT
11773306 T-AAATTTTTAAAA-CTTAATGT
1 TAAAATTTTTAAAATCTTAAT-T
11773327 TAAAATT
1 TAAAATT
11773334 GATAATTGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 5 0.20
21 14 0.56
22 6 0.24
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
TAAAATTTTTAAAATCTTAATT
Found at i:11785975 original size:49 final size:49
Alignment explanation
Indices: 11785922--11786020 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
11785912 ACTTAATACG
11785922 TAATTCACATGTATTACTAAAACACATATATCATTATAACACTTTTACT
1 TAATTCACATGTATTACTAAAACACATATATCATTATAACACTTTTACT
*
11785971 TAATTCACATGTATTACTGAAACACATATATCATTATAACACTTTTACT
1 TAATTCACATGTATTACTAAAACACATATATCATTATAACACTTTTACT
11786020 T
1 T
11786021 TCACATAACA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.39, C:0.18, G:0.03, T:0.39
Consensus pattern (49 bp):
TAATTCACATGTATTACTAAAACACATATATCATTATAACACTTTTACT
Found at i:11787456 original size:16 final size:16
Alignment explanation
Indices: 11787435--11787470 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
11787425 AAAGTATAAA
11787435 TTTTCCAAAATATGAT
1 TTTTCCAAAATATGAT
11787451 TTTTCCAAAATATGAT
1 TTTTCCAAAATATGAT
11787467 TTTT
1 TTTT
11787471 GGATTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.33, C:0.11, G:0.06, T:0.50
Consensus pattern (16 bp):
TTTTCCAAAATATGAT
Found at i:11790458 original size:16 final size:16
Alignment explanation
Indices: 11790439--11790470 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
11790429 AAATATTTTA
11790439 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
11790455 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
11790471 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:11790740 original size:50 final size:50
Alignment explanation
Indices: 11790670--11790913 Score: 251
Period size: 50 Copynumber: 4.9 Consensus size: 50
11790660 ACCGAAGTTC
* * * *
11790670 TCTGGTACGCATAGTAGCCTGCATTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * * * *
11790720 TCTAGTACACGTAGTAGCCTGCATTTAGTACTACACACT-TGACTTAACCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA-TGTGACCTATCAA
* * ** *
11790770 TCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATTCAAAGTTAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGA--CCTA-TCAA
* * *
11790823 -CGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * *
11790872 TCTGGTACATGTAGTAG-CTGCACTTAGTTCTACACACGTGAC
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGAC
11790914 TCACAACAGA
Statistics
Matches: 158, Mismatches: 30, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
49 26 0.16
50 92 0.58
51 1 0.01
52 38 0.24
53 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
Found at i:11796943 original size:23 final size:22
Alignment explanation
Indices: 11796917--11796970 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
11796907 TTAATTTATG
*
11796917 TTATAATATATAC-ATATTATTA
1 TTATAATATA-ACTATAATATTA
* *
11796939 CTTATATTATAACTTTAATATTA
1 -TTATAATATAACTATAATATTA
11796962 TTATAATAT
1 TTATAATAT
11796971 TTTTTCCACC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 10 0.38
23 16 0.62
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.52
Consensus pattern (22 bp):
TTATAATATAACTATAATATTA
Found at i:11799029 original size:26 final size:27
Alignment explanation
Indices: 11798998--11799050 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
11798988 TTGTAAGTAT
11798998 GATG-AAAAGTATAAAATGCAATAGAA
1 GATGAAAAAGTATAAAATGCAATAGAA
* *
11799024 GATGAAAAAGTATACAATGTAATAGAA
1 GATGAAAAAGTATAAAATGCAATAGAA
11799051 ATCATCATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.57, C:0.04, G:0.19, T:0.21
Consensus pattern (27 bp):
GATGAAAAAGTATAAAATGCAATAGAA
Found at i:11801777 original size:25 final size:25
Alignment explanation
Indices: 11801711--11801804 Score: 86
Period size: 26 Copynumber: 3.8 Consensus size: 25
11801701 AGCTCCGCAT
* * *
11801711 AGCCA-TATATCAGGAAGTTCAAGCG
1 AGCCATTA-ATCAGGAAGCTCCAGAG
* *
11801736 AGCCA-T-ATCGGGAAGCTCCGGAG
1 AGCCATTAATCAGGAAGCTCCAGAG
*
11801759 AGCCATTAATCAGGAAGCTCACAAAG
1 AGCCATTAATCAGGAAGCTC-CAGAG
*
11801785 AGCCTTTAATCAGGAAGCTC
1 AGCCATTAATCAGGAAGCTC
11801805 AAAAGAGCTA
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
23 17 0.30
24 1 0.02
25 17 0.30
26 22 0.39
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.18
Consensus pattern (25 bp):
AGCCATTAATCAGGAAGCTCCAGAG
Found at i:11801793 original size:26 final size:25
Alignment explanation
Indices: 11801757--11801812 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 25
11801747 GAAGCTCCGG
11801757 AGAGCCATTAATCAGGAAGCTCACAA
1 AGAGCCATTAATCAGGAAGCTCA-AA
*
11801783 AGAGCCTTTAATCAGGAAGCTCAAA
1 AGAGCCATTAATCAGGAAGCTCAAA
11801808 AGAGC
1 AGAGC
11801813 TAAGGTGTGC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 7 0.24
26 22 0.76
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.16
Consensus pattern (25 bp):
AGAGCCATTAATCAGGAAGCTCAAA
Found at i:11802468 original size:19 final size:18
Alignment explanation
Indices: 11802444--11802482 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
11802434 ATCCCATGAA
11802444 TTCCATAAAATTCAAAATT
1 TTCCAT-AAATTCAAAATT
* *
11802463 TTCCATGAATTCAACATT
1 TTCCATAAATTCAAAATT
11802481 TT
1 TT
11802483 TTCAATTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.38, C:0.18, G:0.03, T:0.41
Consensus pattern (18 bp):
TTCCATAAATTCAAAATT
Found at i:11805572 original size:32 final size:32
Alignment explanation
Indices: 11805536--11805599 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
11805526 CAATGAAACA
*
11805536 TATTAACATTAACAGAAGAAAATAAAACTATC
1 TATTAACATTAACAGAAGAAAAGAAAACTATC
*
11805568 TATTAACATTAACAGAAGAAAAGAGAACTATC
1 TATTAACATTAACAGAAGAAAAGAAAACTATC
11805600 ATAGGAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.55, C:0.12, G:0.09, T:0.23
Consensus pattern (32 bp):
TATTAACATTAACAGAAGAAAAGAAAACTATC
Found at i:11808874 original size:71 final size:71
Alignment explanation
Indices: 11808788--11808951 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
11808778 CGATTTGTCT
11808788 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
11808853 CTTTCA
66 CTTTCA
11808859 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
11808924 CTTTCA
66 CTTTCA
*
11808930 CGTAGCTCTCTTGCCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
11808952 GATACATCTC
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:11808989 original size:71 final size:70
Alignment explanation
Indices: 11808788--11808985 Score: 213
Period size: 71 Copynumber: 2.8 Consensus size: 70
11808778 CGATTTGTCT
* * * * * *
11808788 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGCCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAACTACATTTAT
11808853 CTTTCA
65 CTTTCA
* * * * * *
11808859 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGCCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAACTACATTTAT
11808924 CTTTCA
65 CTTTCA
* * *
11808930 CGTAGCTCTCTTGCCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTATCTAC
1 CGTAGCTCTCTTGCCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAACTAC
11808986 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
68 21 0.18
69 1 0.01
70 1 0.01
71 95 0.81
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGCCTACATGGTGTACATACTTCGAATCACACATGCGACCTAACTACATTTATC
TTTCA
Found at i:11813309 original size:32 final size:32
Alignment explanation
Indices: 11813272--11813336 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
11813262 ACGAAGCAAC
*
11813272 TAGACAACAACACATGGTGTGTCATGTGAACT
1 TAGACAACAACACATGGTGTGTCACGTGAACT
*
11813304 TAGACAACAACACATGGTGTGTCACGTGTACT
1 TAGACAACAACACATGGTGTGTCACGTGAACT
11813336 T
1 T
11813337 CTTGTTGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (32 bp):
TAGACAACAACACATGGTGTGTCACGTGAACT
Found at i:11815375 original size:19 final size:19
Alignment explanation
Indices: 11815347--11815437 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
11815337 ATAATCTTCA
11815347 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
11815366 ATGATTTGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
11815385 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
11815402 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
11815420 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
11815438 AGATATGATT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 35 0.52
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:11815379 original size:36 final size:35
Alignment explanation
Indices: 11815339--11815437 Score: 130
Period size: 36 Copynumber: 2.7 Consensus size: 35
11815329 ATGGAAATAT
11815339 AATCTTCA-ATGATATGCAATCTTAGATATGATTTGC
1 AATCTT-AGATGATATGCAATCTTAGATATGA-TTGC
*
11815375 AATCTTAGAT-ATGATACAATCTTAGATATGATTGC
1 AATCTTAGATGAT-ATGCAATCTTAGATATGATTGC
11815410 AATCTTAGATATGATATGCAATCTTAGA
1 AATCTTAG--ATGATATGCAATCTTAGA
11815438 AGATATGATT
Statistics
Matches: 56, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
35 15 0.27
36 25 0.45
37 14 0.25
38 2 0.04
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.37
Consensus pattern (35 bp):
AATCTTAGATGATATGCAATCTTAGATATGATTGC
Found at i:11815417 original size:35 final size:37
Alignment explanation
Indices: 11815347--11815437 Score: 150
Period size: 35 Copynumber: 2.5 Consensus size: 37
11815337 ATAATCTTCA
11815347 ATGATATGCAATCTTAGATATGATTTGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATTTGCAATCTTAGAT
11815385 ATGATA-CAATCTTAGATATGA-TTGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATTTGCAATCTTAGAT
11815420 ATGATATGCAATCTTAGA
1 ATGATA-GCAATCTTAGA
11815438 AGATATGATT
Statistics
Matches: 51, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
35 20 0.39
36 15 0.29
37 10 0.20
38 6 0.12
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.37
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATTTGCAATCTTAGAT
Found at i:11815734 original size:17 final size:18
Alignment explanation
Indices: 11815700--11815734 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11815690 TGTTTCCCTG
*
11815700 ATTTTTTTATATATTTTA
1 ATTTTTTTATATAATTTA
11815718 ATTTTTTTA-ATAATTTA
1 ATTTTTTTATATAATTTA
11815735 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTTTTTTATATAATTTA
Found at i:11826022 original size:78 final size:78
Alignment explanation
Indices: 11825874--11826104 Score: 347
Period size: 78 Copynumber: 3.0 Consensus size: 78
11825864 TCGAAGACAT
* * * * * *
11825874 AGCATATCCAAGATGATTTGGCATATCTGTATTAGATGGGGAGCAGATCGAAGACACAGTAGATC
1 AGCAGATCCAAGATGATTTGGCATCTATGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATC
11825939 TGACCTTCATTGA
66 TGACCTTCATTGA
* * * *
11825952 AGCAGATCCAAGATGACTTGGCATCTTTGTATTAGACGGGGAGCAGATCAAAGACATAACAGAT-
1 AGCAGATCCAAGATGATTTGGCATCTATGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATC
11826016 TGGACCTTCATTGA
66 T-GACCTTCATTGA
*
11826030 AGCAGATCCAAGATTATTTGGCATCTATGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATC
1 AGCAGATCCAAGATGATTTGGCATCTATGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATC
11826095 TGACCTTCAT
66 TGACCTTCAT
11826105 GTGTTTACAT
Statistics
Matches: 137, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
77 1 0.01
78 135 0.99
79 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (78 bp):
AGCAGATCCAAGATGATTTGGCATCTATGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATC
TGACCTTCATTGA
Found at i:11826197 original size:45 final size:45
Alignment explanation
Indices: 11826128--11826317 Score: 240
Period size: 45 Copynumber: 4.2 Consensus size: 45
11826118 AGTAGATCCA
* *
11826128 AGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATTAG
1 AGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATTAG
* *
11826173 AGATAACAGATTTGGCATCTCTGTATTAAATGGGGAGCAGATT-G
1 AGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATTAG
* * * * *
11826217 AAGA-AGCAGATTTGGCGTCTTTGTATTAGACGGGGAGCAGATCAA
1 -AGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATTAG
* * *
11826262 AGATAACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAA
1 AGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATTAG
*
11826307 AGATAGCAGAT
1 AGATAACAGAT
11826318 ATCGCCTTCC
Statistics
Matches: 128, Mismatches: 14, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
44 37 0.29
45 91 0.71
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.26
Consensus pattern (45 bp):
AGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATTAG
Found at i:11826245 original size:89 final size:90
Alignment explanation
Indices: 11826121--11826317 Score: 272
Period size: 89 Copynumber: 2.2 Consensus size: 90
11826111 ACATCGAAGT
* * *
11826121 AGATCCAAGAT-GACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATTAGAGATAACAGATT
1 AGATCAAAGATAG-CAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCAAAGATAACAGATT
*
11826185 TGGCATCTCTGTATTAAATGGGGAGC
65 TGGCATCTCTGTATTAAACGGGGAGC
** * * *
11826211 AGATTGAAGA-AGCAGATTTGGCGTCTTTGTATTAGACGGGGAGCAGATCAAAGATAACAGATTT
1 AGATCAAAGATAGCAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCAAAGATAACAGATTT
* *
11826275 GGCGTCTCTGTATTAGACGGGGAGC
66 GGCATCTCTGTATTAAACGGGGAGC
11826300 AGATCAAAGATAGCAGAT
1 AGATCAAAGATAGCAGAT
11826318 ATCGCCTTCC
Statistics
Matches: 93, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
89 77 0.83
90 16 0.17
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.25
Consensus pattern (90 bp):
AGATCAAAGATAGCAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCAAAGATAACAGATTT
GGCATCTCTGTATTAAACGGGGAGC
Found at i:11826694 original size:19 final size:19
Alignment explanation
Indices: 11826670--11826741 Score: 105
Period size: 19 Copynumber: 3.9 Consensus size: 19
11826660 ATAATCCTCA
11826670 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
11826689 ATGATA--CAATCTTAAAT
1 ATGATATGCAATCTTAGAT
11826706 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
11826724 ATGATATGTAATCTTAGA
1 ATGATATGCAATCTTAGA
11826742 AGATATGATT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
17 15 0.32
18 15 0.32
19 17 0.36
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.38
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:11826698 original size:17 final size:17
Alignment explanation
Indices: 11826678--11826729 Score: 77
Period size: 17 Copynumber: 3.0 Consensus size: 17
11826668 CAATGATATG
11826678 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
* *
11826695 CAATCTTAAATATGATTG
1 CAATCTTAGATATGA-TA
11826713 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
11826730 TGTAATCTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 15 0.50
18 15 0.50
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:11826748 original size:22 final size:23
Alignment explanation
Indices: 11826720--11826764 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
11826710 TTGCAATCTT
11826720 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
11826742 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
11826765 GATTTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:11826774 original size:22 final size:23
Alignment explanation
Indices: 11826730--11826774 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
11826720 AGATATGATA
*
11826730 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
11826753 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
11826775 GAAGAGACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:11829744 original size:40 final size:40
Alignment explanation
Indices: 11829616--11829746 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 40
11829606 TATGCTGGAA
* * * *
11829616 ATTATATCCGGGTTAAGACCCGAAGGCAATTGCGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
11829656 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
11829696 ATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
11829736 ATTATATCCGG
1 ATTATATCCGG
11829747 TTATATTCCG
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:11843450 original size:48 final size:47
Alignment explanation
Indices: 11843361--11843726 Score: 248
Period size: 49 Copynumber: 7.7 Consensus size: 47
11843351 GATGTATGCT
* * **
11843361 AGTGTAAGACGTGTCTGGGACAT-GCATCGGCCA-CATTATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGG-CATTAAGATGAGAGCC
* * *
11843407 AGTGTAAGACCATGTTTAGGACATGGCATCGGCATTAAGATGAGAGCT
1 AGTGTAAGACC-TGTCTGGGACATGGCATCGGCATTAAGATGAGAGCC
* * * ** *
11843455 AGTGTAAGACATGTCCGGGACAT-GCATCGGCCTCGAGAT-ATGCAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCATTAAGATGA-G--AGCC
* * * *
11843503 AGTGTAAGACCTGTCTGGGACATGGCATCAGG--TTGACAT--GTGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATC-GGCATTAAGATGAGAGCC
* **
11843547 AGTGTAAGACCTGTCTGGGACATGGCATCGACAACAATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGC-ATTA-AGATGAGAGCC
* * * * * * *
11843596 AGTTTAAGACTTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCAT-TA-AGATGAGAGCC
* * *
11843645 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-TT-AGATGTTTGATCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCATTAAGATG--AGAGCC
* * *
11843692 AGTGTAAGACCATGTTTGGAACATGGCATAGGCAT
1 AGTGTAAGACC-TGTCTGGGACATGGCATCGGCAT
11843727 CGTACCCTAT
Statistics
Matches: 251, Mismatches: 50, Indels: 35
0.75 0.15 0.10
Matches are distributed among these distances:
43 1 0.00
44 30 0.12
45 5 0.02
46 25 0.10
47 37 0.15
48 74 0.29
49 77 0.31
50 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGGCATTAAGATGAGAGCC
Found at i:11843624 original size:142 final size:140
Alignment explanation
Indices: 11843406--11843673 Score: 387
Period size: 142 Copynumber: 1.9 Consensus size: 140
11843396 TTATGAGAGC
* * ** *
11843406 CAGTGTAAGACCATGTTTAGGACATGGCATCGGCATTAAGATGAGAGCTAGTGTAAGACATGTCC
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGACACAAAGATGAGAGCCAGTGTAAGACATGTCC
*
11843471 GGGACATGCATCGGCCTCGAGATATGCAAG-CTAGTGTAAGACCTGTCTGGGACATGGCATCAGG
66 GGGACATGCATCGGCCTCGAGATATGAAAGTC-AGTGTAAGACCTGTCTGGGACATGGCATCAGG
11843535 TTGACATGTGT
130 TTGACATGTGT
* * *
11843546 CAGTGTAAGACC-TGTCTGGGACATGGCATCGACAACAATAGATGAGAGCCAGTTTAAGACTTGT
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGAC-ACAA-AGATGAGAGCCAGTGTAAGACATGT
* *
11843610 CTGGGACATGGCATCGGCCTCGATATATGAAAGTCAGTGTAAGACCTGTCTGGGACATGGCATC
64 CCGGGACAT-GCATCGGCCTCGAGATATGAAAGTCAGTGTAAGACCTGTCTGGGACATGGCATC
11843674 GACTTAGATG
Statistics
Matches: 113, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
139 18 0.16
140 14 0.12
141 30 0.27
142 50 0.44
143 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (140 bp):
CAGTGTAAGACCATGTCTAGGACATGGCATCGACACAAAGATGAGAGCCAGTGTAAGACATGTCC
GGGACATGCATCGGCCTCGAGATATGAAAGTCAGTGTAAGACCTGTCTGGGACATGGCATCAGGT
TGACATGTGT
Found at i:11850657 original size:49 final size:49
Alignment explanation
Indices: 11850405--11850720 Score: 208
Period size: 49 Copynumber: 6.7 Consensus size: 49
11850395 GATGTATGCT
* * * * *
11850405 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCAC-AT-TATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGAAAGCC
* * * * * * *
11850451 AGTGTAAGACCATGTTTAGGACATGGCATCGGCAT-TA-AGATGACAGCT
1 AGTGTAAGACC-TGTCTGGGACATGGCATCGACCTCAATAGATGAAAGCC
* * * * * * * * *
11850499 AGTGTAAGACATGTCTTGGACAT-ACATCGGCCTCGAGATATGCAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGAAAGCC
** * * *
11850547 AGTGTAAGACCTGTCTGGGACATGGCATC-AGGT---TGACATG--TGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAAT-AGATGAAAGCC
* *
11850591 AGTGTAAGACCTGTCTGGGACATAGCATCGACAC-CAATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCAATAGATGAAAGCC
* * * * * *
11850640 AGTTTAAGACTTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGAAAGCC
11850689 AGTGTAAGACCTGTCTGGGACATGGCATCGAC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC
11850721 TTAGATTTTG
Statistics
Matches: 209, Mismatches: 45, Indels: 29
0.74 0.16 0.10
Matches are distributed among these distances:
44 29 0.14
45 1 0.00
46 22 0.11
47 25 0.12
48 58 0.28
49 74 0.35
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGAAAGCC
Found at i:11857578 original size:48 final size:46
Alignment explanation
Indices: 11857431--11857590 Score: 153
Period size: 48 Copynumber: 3.4 Consensus size: 46
11857421 ATAGATGTAT
* * * *
11857431 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGA
1 GCTAGTGTAAGACATGTCTTGGACATGCATCGGCCTCAATATGACA
* * * *
11857477 GCCAGTGTAAGACCATGT-TTAGGACATGGCATCGGCATTAAGATGACA
1 GCTAGTGTAAGA-CATGTCTT-GGACAT-GCATCGGCCTCAATATGACA
* *
11857525 TCTAGTGTAAGACATGTCTTGGACATACATCGGCCTCGAGATATG-CAA
1 GCTAGTGTAAGACATGTCTTGGACATGCATCGGCCTC-A-ATATGAC-A
*
11857573 GCTAGTGTAAGACCTGTC
1 GCTAGTGTAAGACATGTC
11857591 CGGGATATGG
Statistics
Matches: 91, Mismatches: 16, Indels: 12
0.76 0.13 0.10
Matches are distributed among these distances:
46 20 0.22
47 24 0.26
48 47 0.52
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTTGGACATGCATCGGCCTCAATATGACA
Found at i:11857684 original size:49 final size:49
Alignment explanation
Indices: 11857434--11857749 Score: 181
Period size: 49 Copynumber: 6.7 Consensus size: 49
11857424 GATGTATGCT
* * * * *
11857434 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCAC-AT-TATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGAAAGCC
* * * * * * * *
11857480 AGTGTAAGACCATGTTTAGGACATGGCATCGGCAT-TA-AGATGACATCT
1 AGTGTAAGACC-TGTCTGGGACATGGCATCGACCTCAATAGATGAAAGCC
* * * * * * * * *
11857528 AGTGTAAGACATGTCTTGGACAT-ACATCGGCCTCGAGATATGCAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGAAAGCC
* * ** * * *
11857576 AGTGTAAGACCTGTCCGGGATATGGCATC-AGGT---TGACATG--TGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAAT-AGATGAAAGCC
*
11857620 AGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CAATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCAATAGATGAAAGCC
* * * * * * *
11857669 AGTTTAAGACTTGTCTGGGACATTGCATCGGCCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGAAAGCC
11857718 AGTGTAAGACCTGTCTGGGACATGGCATCGAC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC
11857750 TTAGATTTTT
Statistics
Matches: 203, Mismatches: 51, Indels: 29
0.72 0.18 0.10
Matches are distributed among these distances:
44 28 0.14
45 1 0.00
46 22 0.11
47 25 0.12
48 54 0.27
49 73 0.36
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGAAAGCC
Found at i:11857703 original size:142 final size:140
Alignment explanation
Indices: 11857479--11857746 Score: 342
Period size: 142 Copynumber: 1.9 Consensus size: 140
11857469 TTATGAGAGC
* * ** * *
11857479 CAGTGTAAGACCATGTTTAGGACATGGCATCGGCATTAAGATGACATCTAGTGTAAGACATGTCT
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGACACAAAGATGACAGCCAGTGTAAGACATGTCT
* * *
11857544 TGGACATACATCGGCCTCGAGATATGCAAG-CTAGTGTAAGACCTGTCCGGGATATGGCATCAGG
66 GGGACATACATCGGCCTCGAGATATGAAAGTC-AGTGTAAGACCTGTCCGGGACATGGCATCAGG
11857608 TTGACATGTGT
130 TTGACATGTGT
* * * *
11857619 CAGTGTAAGACC-TGTCTGGGACATGGCATCGACACCAATAGATGAGAGCCAGTTTAAGACTTGT
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGACA-CAA-AGATGACAGCCAGTGTAAGACATGT
* * *
11857683 CTGGGACATTGCATCGGCCTCGATATATGAAAGTCAGTGTAAGACCTGTCTGGGACATGGCATC
64 CTGGGACA-TACATCGGCCTCGAGATATGAAAGTCAGTGTAAGACCTGTCCGGGACATGGCATC
11857747 GACTTAGATT
Statistics
Matches: 108, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
139 19 0.18
140 13 0.12
141 27 0.25
142 48 0.44
143 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (140 bp):
CAGTGTAAGACCATGTCTAGGACATGGCATCGACACAAAGATGACAGCCAGTGTAAGACATGTCT
GGGACATACATCGGCCTCGAGATATGAAAGTCAGTGTAAGACCTGTCCGGGACATGGCATCAGGT
TGACATGTGT
Found at i:11860775 original size:48 final size:47
Alignment explanation
Indices: 11860630--11860896 Score: 210
Period size: 48 Copynumber: 5.7 Consensus size: 47
11860620 ATGGATGTGT
* *
11860630 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCAC-ATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGAATATGA-A
* * * * * * *
11860676 GCCAGTGTAAGAATATGTCTAGGACATGGCATCAGCAT-TAAGATGAGA
1 GCTAGTGTAAG-ACATGTCTGGGACATGGCATCGGCCTCGAATATGA-A
11860724 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATATGCAA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGA-ATATG-AA
* * * * *
11860772 GCTAGTGTAAGACCTGTTTGGGACATGG-ATCGG-CTTG-ACATG-T
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGAATATGAA
* *
11860815 G-TCAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATAGATGAAA
1 GCT-AGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGA-ATATG-AA
** * * *
11860864 TTTAGTGTAAGACCTATTTGGGACATGGCATCG
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCG
11860897 ACTTAGATGT
Statistics
Matches: 179, Mismatches: 27, Indels: 27
0.77 0.12 0.12
Matches are distributed among these distances:
42 1 0.01
43 25 0.14
44 5 0.03
45 7 0.04
46 18 0.10
47 34 0.19
48 58 0.32
49 30 0.17
50 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.25
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGAATATGAA
Found at i:11860875 original size:92 final size:93
Alignment explanation
Indices: 11860624--11860946 Score: 275
Period size: 92 Copynumber: 3.4 Consensus size: 93
11860614 GGTGTTATGG
* * ** * *
11860624 ATGTGTGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCAC-A-TTATGAGAGCCAGTGTAA
1 ATGTGTGC-AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGAGAGATGAAAGCTAGTGTAA
* * *
11860686 GA-ATATGTCTAGGACATGGCATC-AGCATTAAG
65 GACCTAT-T-TGGGACATGGCATCGA-C-TT-AC
* * * * *
11860718 ATGAGAGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATATGCAAGCTAGTGTAA
1 ATGTGTGC-AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGAGAGATGAAAGCTAGTGTAA
* *
11860782 GACCTGTTTGGGACATGG-ATCGGCTTGAC
65 GACCTATTTGGGACATGGCATCGACTT-AC
* **
11860811 ATGTGT-CAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATAGATGAAATTTAGTGTAAG
1 ATGTGTGCAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGAGAGATGAAAGCTAGTGTAAG
*
11860875 ACCTATTTGGGACATGGCATCGACTTAG
66 ACCTATTTGGGACATGGCATCGACTTAC
* * *
11860903 ATGTGTGAGCCAGTGCAAGACCATGTTTGGAACATGGCATCGGC
1 ATGTGT--G-CAGTGTAAGACC-TGTCTGGGACATGGCATCGGC
11860947 ATCATACCCT
Statistics
Matches: 191, Mismatches: 27, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
91 22 0.12
92 52 0.27
93 14 0.07
94 44 0.23
95 10 0.05
96 28 0.15
97 21 0.11
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (93 bp):
ATGTGTGCAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGAGAGATGAAAGCTAGTGTAAG
ACCTATTTGGGACATGGCATCGACTTAC
Found at i:11863718 original size:39 final size:39
Alignment explanation
Indices: 11863618--11863799 Score: 222
Period size: 39 Copynumber: 4.6 Consensus size: 39
11863608 CTTCAGGACA
* ** * * *
11863618 TAGCCCGGTTATGGTAACCCGCACAAATGCCTTCGGGATT
1 TAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CT
* *
11863658 TAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCT
1 TAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCT
* * *
11863697 TAGCCCGGATATCATAGCTCGCACCATTACCTTCGGGCT
1 TAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCT
11863736 TAGCCCGGATATC-TCAACTCGCACAATTGCCTTCGGGCT
1 TAGCCCGGATATCAT-AACTCGCACAATTGCCTTCGGGCT
* *
11863775 TAGCCCGGATATCACAATTCGCACA
1 TAGCCCGGATATCATAACTCGCACA
11863800 TTCATACACA
Statistics
Matches: 122, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
38 1 0.01
39 91 0.75
40 30 0.25
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (39 bp):
TAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCT
Found at i:11885704 original size:55 final size:53
Alignment explanation
Indices: 11885589--11885704 Score: 162
Period size: 53 Copynumber: 2.2 Consensus size: 53
11885579 ACCAGACACA
*
11885589 GCCGTGTGATGGCCAAGTAGGCCGTGTGTGACACACAGGCTCGACCAAATTGG
1 GCCGTGTGATGGCCAAGTAGGCCGTGTGTGACACACAGGCTAGACCAAATTGG
* * *
11885642 GCCGTGTGATGGCCAAGTAGGCCGTGTGTGATC-CGCACGGCTAAGGCCAATTTGG
1 GCCGTGTGATGGCCAAGTAGGCCGTGTGTGA-CACACA-GGCT-AGACCAAATTGG
11885697 GCCGTGTG
1 GCCGTGTG
11885705 GGCCCACACG
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
53 34 0.61
54 5 0.09
55 17 0.30
ACGTcount: A:0.19, C:0.24, G:0.36, T:0.21
Consensus pattern (53 bp):
GCCGTGTGATGGCCAAGTAGGCCGTGTGTGACACACAGGCTAGACCAAATTGG
Found at i:11909709 original size:25 final size:25
Alignment explanation
Indices: 11909636--11909709 Score: 96
Period size: 25 Copynumber: 3.0 Consensus size: 25
11909626 TTTGAGCTAT
* *
11909636 GAATCGGTATGCTCTCACGAGCTGT
1 GAATCGGTAAGCTCTCACGAGCTGA
*
11909661 GAATCGATAAGCTCAT-ACGAGCTGA
1 GAATCGGTAAGCTC-TCACGAGCTGA
*
11909686 GAATTGGTAAGCTCTCACGAGCTG
1 GAATCGGTAAGCTCTCACGAGCTG
11909710 TAAGTCAGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
24 1 0.02
25 40 0.95
26 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (25 bp):
GAATCGGTAAGCTCTCACGAGCTGA
Found at i:11909720 original size:25 final size:23
Alignment explanation
Indices: 11909637--11909724 Score: 70
Period size: 25 Copynumber: 3.5 Consensus size: 23
11909627 TTGAGCTATG
*
11909637 AATCGGTATGCTCTCACGAGCTGT
1 AATC-GTAAGCTCTCACGAGCTGT
*
11909661 GAATCGATAAGCTCAT-ACGAGCTGAG
1 -AATCG-TAAGCTC-TCACGAGCTG-T
*
11909687 AATTGGTAAGCTCTCACGAGCTGT
1 AA-TCGTAAGCTCTCACGAGCTGT
11909711 AAGTCAGTAAGCTC
1 AA-TC-GTAAGCTC
11909725 ATATGAGTTG
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
24 5 0.10
25 43 0.84
26 3 0.06
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (23 bp):
AATCGTAAGCTCTCACGAGCTGT
Found at i:11910551 original size:16 final size:15
Alignment explanation
Indices: 11910527--11910564 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
11910517 CATGGCTAGG
*
11910527 TTTTCTTTTTCTTTT
1 TTTTTTTTTTCTTTT
11910542 CTTTTTTTTTTCTTTT
1 -TTTTTTTTTTCTTTT
11910558 TTTTTTT
1 TTTTTTT
11910565 GTGGAAGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (15 bp):
TTTTTTTTTTCTTTT
Found at i:11910563 original size:11 final size:11
Alignment explanation
Indices: 11910527--11910563 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
11910517 CATGGCTAGG
*
11910527 TTTTCTTTTTC
1 TTTTCTTTTTT
11910538 TTTTCTTTTTT
1 TTTTCTTTTTT
11910549 TTTTCTTTTTT
1 TTTTCTTTTTT
11910560 TTTT
1 TTTT
11910564 TGTGGAAGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:11915488 original size:38 final size:38
Alignment explanation
Indices: 11915444--11915517 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
11915434 AAATGCGAAT
11915444 TTAGTAATATGATAGAAAGGGCATCCTTATCAATTTAA
1 TTAGTAATATGATAGAAAGGGCATCCTTATCAATTTAA
* *
11915482 TTAGTAATATGATTGAAAGGGCATTCTTATCAATTT
1 TTAGTAATATGATAGAAAGGGCATCCTTATCAATTT
11915518 TTTTTTTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.38
Consensus pattern (38 bp):
TTAGTAATATGATAGAAAGGGCATCCTTATCAATTTAA
Found at i:11916288 original size:14 final size:15
Alignment explanation
Indices: 11916271--11916312 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
11916261 AAAGTTTAGG
11916271 GTTAGGGTTTTAA-A
1 GTTAGGGTTTTAAGA
* *
11916285 GTTA-GGATTTAAGG
1 GTTAGGGTTTTAAGA
11916299 GTTAGGGTTTTAAG
1 GTTAGGGTTTTAAG
11916313 TTGATTACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 7 0.30
14 8 0.35
15 8 0.35
ACGTcount: A:0.26, C:0.00, G:0.33, T:0.40
Consensus pattern (15 bp):
GTTAGGGTTTTAAGA
Found at i:11916623 original size:32 final size:32
Alignment explanation
Indices: 11916577--11916688 Score: 156
Period size: 32 Copynumber: 3.5 Consensus size: 32
11916567 CGCATGGTTC
11916577 TGTGAAATGATAACAAATATCAACTTTCATTT
1 TGTGAAATGATAACAAATATCAACTTTCATTT
*
11916609 TGTGAAATGGTAACAAAT-TACAAC-TTCAATTT
1 TGTGAAATGATAACAAATAT-CAACTTTC-ATTT
* *
11916641 TGTGAAATAATAACAAATATCAACTTTAATTT
1 TGTGAAATGATAACAAATATCAACTTTCATTT
*
11916673 TGTTAAATGATAACAA
1 TGTGAAATGATAACAA
11916689 TATTCCTCTA
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
31 4 0.06
32 63 0.90
33 3 0.04
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.36
Consensus pattern (32 bp):
TGTGAAATGATAACAAATATCAACTTTCATTT
Found at i:11922035 original size:1 final size:1
Alignment explanation
Indices: 11922029--11922053 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
11922019 TGGTTGGTTC
11922029 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
11922054 GGGGGGGGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:11923120 original size:18 final size:18
Alignment explanation
Indices: 11923094--11923128 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11923084 AGTGTAAAAC
*
11923094 TTGTTGAGTAGAATTAAG
1 TTGTGGAGTAGAATTAAG
11923112 TTGTGGAGTAGAATTAA
1 TTGTGGAGTAGAATTAA
11923129 CAATGAACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (18 bp):
TTGTGGAGTAGAATTAAG
Found at i:11928026 original size:17 final size:17
Alignment explanation
Indices: 11928004--11928038 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
11927994 GCCATGGGTT
*
11928004 AGACGTGTTAAAGACCA
1 AGACGTGCTAAAGACCA
11928021 AGACGTGCTAAAGACCA
1 AGACGTGCTAAAGACCA
11928038 A
1 A
11928039 CTATCCCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.14
Consensus pattern (17 bp):
AGACGTGCTAAAGACCA
Found at i:11928385 original size:225 final size:225
Alignment explanation
Indices: 11927988--11928431 Score: 836
Period size: 225 Copynumber: 2.0 Consensus size: 225
11927978 ATACATAAAC
11927988 CAGTTAGCCATGGGTTAGACGTGTTAAAGACCAAGACGTGCTAAAGACCAACTATCCCTATATGC
1 CAGTTAGCCATGGGTTAGACGTGTTAAAGACCAAGACGTGCTAAAGACCAACTATCCCTATATGC
11928053 AGTTTTAGTTATCCAAAAATTTTGATATTAGAATCCTTTGTTGGAAATCCGAAACAAAAAGATTT
66 AGTTTTAGTTATCCAAAAATTTTGATATTAGAATCCTTTGTTGGAAATCCGAAACAAAAAGATTT
* *
11928118 TTGCTTTGCTTAGGAGAACCAATTCTCAAGGGTCTGACCAAACCTCCGATAACATTGTCAATGAA
131 TTGCTTTGCTTAGGAGAACCAATTCTCAAGGGTCTAACCAAACCTCCGATAACACTGTCAATGAA
11928183 CAATAACATTATGAAAATGTTCCCTATATG
196 CAATAACATTATGAAAATGTTCCCTATATG
11928213 CAGTTAGCCATGGGTTAGACGTGTTAAAGACCAAGACGTTG-TAAAGACCAACTATCCCTATATG
1 CAGTTAGCCATGGGTTAGACGTGTTAAAGACCAAGACG-TGCTAAAGACCAACTATCCCTATATG
11928277 CAGTTTTAGTTATCCAAAAATTTTGATATTAGAATCCTTTGTTGGAAATCCGAAACAAAAAGATT
65 CAGTTTTAGTTATCCAAAAATTTTGATATTAGAATCCTTTGTTGGAAATCCGAAACAAAAAGATT
* *
11928342 TTTGCTTTGTTTAGGAGAACCAATTCTCAAGGGTCTAACCAAACCTCCGATAACACTGTTAATGA
130 TTTGCTTTGCTTAGGAGAACCAATTCTCAAGGGTCTAACCAAACCTCCGATAACACTGTCAATGA
11928407 ACAATAACATTATGAAAATGTTCCC
195 ACAATAACATTATGAAAATGTTCCC
11928432 CAAAGATGTG
Statistics
Matches: 214, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
225 212 0.99
226 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (225 bp):
CAGTTAGCCATGGGTTAGACGTGTTAAAGACCAAGACGTGCTAAAGACCAACTATCCCTATATGC
AGTTTTAGTTATCCAAAAATTTTGATATTAGAATCCTTTGTTGGAAATCCGAAACAAAAAGATTT
TTGCTTTGCTTAGGAGAACCAATTCTCAAGGGTCTAACCAAACCTCCGATAACACTGTCAATGAA
CAATAACATTATGAAAATGTTCCCTATATG
Found at i:11928699 original size:13 final size:13
Alignment explanation
Indices: 11928681--11928757 Score: 111
Period size: 13 Copynumber: 5.9 Consensus size: 13
11928671 AGTTTGGCAA
11928681 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
11928694 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
11928707 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
*
11928720 TGC-TGTGAAAAGG
1 TGCTTTTGAAAA-G
*
11928733 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
11928746 TGCTTTTGAAAA
1 TGCTTTTGAAAA
11928758 ATTTAAGTGT
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
12 6 0.11
13 44 0.79
14 6 0.11
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:11928928 original size:24 final size:22
Alignment explanation
Indices: 11928901--11928944 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
11928891 AAATATAAAA
11928901 AATAATTTATTATTACTTATTATT
1 AATAATTTATTA-TA-TTATTATT
*
11928925 AATATTTTATTATATTATTA
1 AATAATTTATTATATTATTA
11928945 ATATTTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 2 0.11
24 11 0.58
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (22 bp):
AATAATTTATTATATTATTATT
Found at i:11928940 original size:19 final size:19
Alignment explanation
Indices: 11928918--11928980 Score: 76
Period size: 19 Copynumber: 3.3 Consensus size: 19
11928908 TATTATTACT
*
11928918 TATTATTAATATTTTATTA
1 TATTATTAATATTTTAATA
11928937 TATTATTAATATTTTAATA
1 TATTATTAATATTTTAATA
*
11928956 TATAATATTAAT-TTTAAATA
1 TAT--TATTAATATTTTAATA
11928976 T-TTAT
1 TATTAT
11928981 AAGTAATTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
17 3 0.08
19 22 0.55
20 8 0.20
21 7 0.17
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TATTATTAATATTTTAATA
Found at i:11928953 original size:8 final size:9
Alignment explanation
Indices: 11928908--11928965 Score: 52
Period size: 10 Copynumber: 6.6 Consensus size: 9
11928898 AAAAATAATT
*
11928908 TATTATTACT
1 TATTATTA-A
11928918 TATTATTAA
1 TATTATTAA
11928927 TATT-TTATTA
1 TATTATTA--A
11928937 TATTATTAA
1 TATTATTAA
11928946 TATT-TTAA
1 TATTATTAA
11928954 TA-TA-TAA
1 TATTATTAA
11928961 TATTA
1 TATTA
11928966 ATTTTAAATA
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
7 6 0.14
8 11 0.26
9 9 0.21
10 13 0.31
11 3 0.07
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (9 bp):
TATTATTAA
Found at i:11929380 original size:12 final size:12
Alignment explanation
Indices: 11929363--11929388 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11929353 ATTGCTTGAT
11929363 TCACCATCATCA
1 TCACCATCATCA
11929375 TCACCATCATCA
1 TCACCATCATCA
11929387 TC
1 TC
11929389 GTCGTCGTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.42, G:0.00, T:0.27
Consensus pattern (12 bp):
TCACCATCATCA
Found at i:11931063 original size:72 final size:72
Alignment explanation
Indices: 11930800--11931033 Score: 357
Period size: 72 Copynumber: 3.3 Consensus size: 72
11930790 AAAATCATAT
* **
11930800 ATAAACAATTATTGATAAAACTA-ATTTA-GTATAAATAAGTAGAACATAAA-TCAATATCCAAA
1 ATAAACAACTATTGATAAAACTAGA-TTACACATAAATAAGTAGAACATAAATTCAATATCCAAA
*
11930862 TACCAAAC
65 AACCAAAC
*
11930870 ATAAACAACTATTAATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
1 ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
11930935 ACCAAAC
66 ACCAAAC
* *
11930942 ATAAACAACCATTGGTAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
1 ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
*
11931007 ATCAAAC
66 ACCAAAC
*
11931014 ATAAATAACTATTGATAAAA
1 ATAAACAACTATTGATAAAA
11931034 TTAGTTTAAC
Statistics
Matches: 149, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
70 24 0.16
71 21 0.14
72 104 0.70
ACGTcount: A:0.56, C:0.15, G:0.06, T:0.24
Consensus pattern (72 bp):
ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
ACCAAAC
Found at i:11931487 original size:18 final size:18
Alignment explanation
Indices: 11931466--11931531 Score: 123
Period size: 18 Copynumber: 3.7 Consensus size: 18
11931456 TCCATCAATT
11931466 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
11931484 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
*
11931502 TGAACATCATTTAAAATG
1 TGAACATCATTTGAAATG
11931520 TGAACATCATTT
1 TGAACATCATTT
11931532 CTCACATTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (18 bp):
TGAACATCATTTGAAATG
Found at i:11932489 original size:21 final size:21
Alignment explanation
Indices: 11932460--11932529 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
11932450 TAAGATAATA
*
11932460 TATATAAATATATGGTCATAG
1 TATAAAAATATATGGTCATAG
**
11932481 TATAAAAATATTACAGTCAATA-
1 TATAAAAATA-TATGGTC-ATAG
* *
11932503 TGTAAATATATATGGTCATAG
1 TATAAAAATATATGGTCATAG
*
11932524 TCTAAA
1 TATAAA
11932530 CCAATGGAGA
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
20 3 0.08
21 19 0.50
22 13 0.34
23 3 0.08
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.36
Consensus pattern (21 bp):
TATAAAAATATATGGTCATAG
Found at i:11937852 original size:26 final size:26
Alignment explanation
Indices: 11937823--11937930 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
11937813 TGGTACAAAT
11937823 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
11937849 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
11937875 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
11937901 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
11937927 TGAT
1 TGAT
11937931 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:11944272 original size:10 final size:10
Alignment explanation
Indices: 11944257--11944331 Score: 59
Period size: 10 Copynumber: 7.4 Consensus size: 10
11944247 AATCTTTATT
11944257 TTTATTTTTA
1 TTTATTTTTA
*
11944267 TTTATTATTTTC
1 TTTA-T-TTTTA
11944279 TTTATTTTCT-
1 TTTATTTT-TA
*
11944289 TTTATTATTA
1 TTTATTTTTA
11944299 TTTATTATTTA
1 TTTATT-TTTA
11944310 -TTA-TTTTA
1 TTTATTTTTA
11944318 TTT-TATTTTA
1 TTTAT-TTTTA
11944328 TTTA
1 TTTA
11944332 AATATTAATA
Statistics
Matches: 53, Mismatches: 3, Indels: 17
0.73 0.04 0.23
Matches are distributed among these distances:
8 4 0.08
9 4 0.08
10 31 0.58
11 6 0.11
12 8 0.15
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTATTTTTA
Found at i:11944274 original size:7 final size:7
Alignment explanation
Indices: 11944252--11944315 Score: 59
Period size: 7 Copynumber: 9.9 Consensus size: 7
11944242 AACCCAATCT
11944252 TTATTT-
1 TTATTTA
11944258 TTATTT-
1 TTATTTA
11944264 TTATTTA
1 TTATTTA
11944271 TTA-TT-
1 TTATTTA
*
11944276 TTCTTTA
1 TTATTTA
*
11944283 TT-TTCTT
1 TTATT-TA
11944290 TTA-TTA
1 TTATTTA
11944296 TTATTTA
1 TTATTTA
11944303 TTATTTA
1 TTATTTA
11944310 TTATTT
1 TTATTT
11944316 TATTTTATTT
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
5 2 0.04
6 22 0.45
7 25 0.51
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (7 bp):
TTATTTA
Found at i:11944307 original size:35 final size:35
Alignment explanation
Indices: 11944258--11944329 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 35
11944248 ATCTTTATTT
* *
11944258 TTATTTTTATTTA-TTATTTTCTTTATTTTCTTTTA
1 TTATTTTTATTTATTTATTAT-TTTATTTTATTTTA
11944293 TTATTATTTA-TTATTTATTATTTTATTTTATTTTA
1 TTATT-TTTATTTATTTATTATTTTATTTTATTTTA
11944328 TT
1 TT
11944330 TAAATATTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
35 23 0.70
36 10 0.30
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (35 bp):
TTATTTTTATTTATTTATTATTTTATTTTATTTTA
Found at i:11944314 original size:39 final size:39
Alignment explanation
Indices: 11944251--11944326 Score: 118
Period size: 39 Copynumber: 1.9 Consensus size: 39
11944241 CAACCCAATC
*
11944251 TTTATTTTTATTTTTATTTATTATTTT-CTTTATTTTCT
1 TTTATTATTATTTTTATTTATTATTTTACTTTATTTTCT
*
11944289 TTTATTATTATTTATTATTTATTATTTTATTTTATTTT
1 TTTATTATTATTT-TTATTTATTATTTTACTTTATTTT
11944327 ATTTAAATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
38 12 0.35
39 14 0.41
40 8 0.24
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.78
Consensus pattern (39 bp):
TTTATTATTATTTTTATTTATTATTTTACTTTATTTTCT
Found at i:11944331 original size:22 final size:23
Alignment explanation
Indices: 11944251--11944325 Score: 54
Period size: 24 Copynumber: 3.3 Consensus size: 23
11944241 CAACCCAATC
11944251 TTTATTT-TTATTTTTATTTATTAT
1 TTTATTTATTA-TTTTA-TTATTAT
*
11944275 TTTCTTTATT-TTCTT-TTATTA-
1 TTTATTTATTATT-TTATTATTAT
11944296 -TTATTTATTA-TTTATTATTTTAT
1 TTTATTTATTATTTTATTA--TTAT
11944319 TTTATTT
1 TTTATTT
11944326 TATTTAAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 16
0.69 0.03 0.27
Matches are distributed among these distances:
19 2 0.05
20 12 0.29
22 9 0.22
23 2 0.05
24 14 0.34
25 2 0.05
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (23 bp):
TTTATTTATTATTTTATTATTAT
Found at i:11944517 original size:41 final size:42
Alignment explanation
Indices: 11944408--11944510 Score: 138
Period size: 42 Copynumber: 2.5 Consensus size: 42
11944398 TATCATGGTA
* * * *
11944408 CCAAACAGTTCTATTCCAACCCAAAATGCCATATCCCTGCTG
1 CCAAACAGTTCTATTCTAGCCCAGAATGCCATATCCCTGCAG
* *
11944450 CCAAACAGTTCTATTCTAGCCCAGAATGCTATATCTCTGCAG
1 CCAAACAGTTCTATTCTAGCCCAGAATGCCATATCCCTGCAG
11944492 CCAAACAG-TCTATT-TAGCC
1 CCAAACAGTTCTATTCTAGCC
11944511 TTAGAATCCC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 5 0.09
41 6 0.11
42 44 0.80
ACGTcount: A:0.30, C:0.32, G:0.12, T:0.26
Consensus pattern (42 bp):
CCAAACAGTTCTATTCTAGCCCAGAATGCCATATCCCTGCAG
Found at i:11945413 original size:118 final size:118
Alignment explanation
Indices: 11945205--11945435 Score: 390
Period size: 118 Copynumber: 2.0 Consensus size: 118
11945195 TGTTTTCCAT
* *
11945205 GGTTATGAGTACAGCTTAGATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
11945270 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGA
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGA
**
11945323 GGTTATGAGTATGGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
****
11945388 CTACTTCGCGTCAAAAGGTTGTGTGACGTGTTGGGTAAAACTCCGCTA
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTA
11945436 ACCGGAAATA
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
118 105 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.29
Consensus pattern (118 bp):
GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGA
Found at i:11945567 original size:1 final size:1
Alignment explanation
Indices: 11945561--11945607 Score: 58
Period size: 1 Copynumber: 47.0 Consensus size: 1
11945551 AATAAAATTT
* * * *
11945561 AAAAAAATAAAAAAAAAAAAAAAAAAAGAAAAAGAAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
11945608 TAAGTACTAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.91, C:0.00, G:0.06, T:0.02
Consensus pattern (1 bp):
A
Found at i:11945578 original size:21 final size:21
Alignment explanation
Indices: 11945539--11945578 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
11945529 TATTCCTAAG
* * *
11945539 TAAATAAATAATAATAAAATT
1 TAAAAAAATAAAAAAAAAATT
11945560 TAAAAAAATAAAAAAAAAA
1 TAAAAAAATAAAAAAAAAA
11945579 AAAAAAAAAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (21 bp):
TAAAAAAATAAAAAAAAAATT
Found at i:11945579 original size:13 final size:13
Alignment explanation
Indices: 11945561--11945610 Score: 66
Period size: 14 Copynumber: 3.8 Consensus size: 13
11945551 AATAAAATTT
11945561 AAAAAAATAAAAA
1 AAAAAAATAAAAA
11945574 AAAAAAA-AAAAA
1 AAAAAAATAAAAA
*
11945586 AAGAAAAAGAAAAA
1 AA-AAAAATAAAAA
11945600 AGAAAAAATAA
1 A-AAAAAATAA
11945611 GTACTAATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
12 7 0.21
13 12 0.36
14 13 0.39
15 1 0.03
ACGTcount: A:0.90, C:0.00, G:0.06, T:0.04
Consensus pattern (13 bp):
AAAAAAATAAAAA
Found at i:11951962 original size:26 final size:26
Alignment explanation
Indices: 11951904--11952060 Score: 257
Period size: 25 Copynumber: 6.2 Consensus size: 26
11951894 TGGTACAAAT
11951904 TGATAATGGGTTAGGTAAATGTT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
11951929 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11951955 TGATAATGGGTTAGGTAAATGTT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
11951980 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11952006 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11952032 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11952057 TGAT
1 TGAT
11952061 GGCATTTCAT
Statistics
Matches: 122, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
25 66 0.54
26 56 0.46
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:11951964 original size:51 final size:51
Alignment explanation
Indices: 11951904--11952060 Score: 289
Period size: 51 Copynumber: 3.1 Consensus size: 51
11951894 TGGTACAAAT
11951904 TGATAATGGGTTAGGTAAATGTTCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCATGATAATGGATTAGGTAAATATTCCA
11951955 TGATAATGGGTTAGGTAAATGTTCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCATGATAATGGATTAGGTAAATATTCCA
*
11952006 TGATAATGGGTTAGGTAAATGTTCCATGATAATGG-TTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTT-CATGATAATGGATTAGGTAAATATTCCA
11952057 TGAT
1 TGAT
11952061 GGCATTTCAT
Statistics
Matches: 104, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
51 93 0.89
52 11 0.11
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.36
Consensus pattern (51 bp):
TGATAATGGGTTAGGTAAATGTTCATGATAATGGATTAGGTAAATATTCCA
Found at i:11955882 original size:19 final size:20
Alignment explanation
Indices: 11955838--11955888 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
11955828 ATTAATTATT
* *
11955838 TATAAAATTTAATTTGAATA
1 TATAAAATATAATTTAAATA
*
11955858 TATAAAATATATTTTAAATA
1 TATAAAATATAATTTAAATA
11955878 T-TAAAATATAA
1 TATAAAATATAA
11955889 CCAATAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 9 0.33
20 18 0.67
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
TATAAAATATAATTTAAATA
Found at i:11959319 original size:37 final size:37
Alignment explanation
Indices: 11959218--11959338 Score: 118
Period size: 37 Copynumber: 3.2 Consensus size: 37
11959208 CAAAAGACAA
* * * * *
11959218 AGATGAATAGAAGTAATTCCCTACAAAGAAAAAGATGG
1 AGATGAACAGAAATGATTCTCTACGAAGAAAAA-ATGG
* * * *
11959256 AGATAAATAGTAAA-GATCCTCCACGAAGAAAAAATGG
1 AGATGAACAG-AAATGATTCTCTACGAAGAAAAAATGG
* *
11959293 AGATGAACAGAAATGATTCTCTACGAAGAAAAGATAG
1 AGATGAACAGAAATGATTCTCTACGAAGAAAAAATGG
11959330 AGATGAACA
1 AGATGAACA
11959339 AGAACAATTC
Statistics
Matches: 68, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
36 3 0.04
37 40 0.59
38 23 0.34
39 2 0.03
ACGTcount: A:0.50, C:0.12, G:0.21, T:0.17
Consensus pattern (37 bp):
AGATGAACAGAAATGATTCTCTACGAAGAAAAAATGG
Done.