Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 140 of 240
Found at i:43578803 original size:24 final size:27
Alignment explanation
Indices: 43578754--43578803 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 27
43578744 TTATAGTTTA
43578754 GTATATATATTTTTTAATTACTAATTT
1 GTATATATATTTTTTAATTACTAATTT
*
43578781 GTAT-TAT-TTTTTTATTTAC-AATT
1 GTATATATATTTTTTAATTACTAATT
43578804 ATTTGTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 4 0.18
25 11 0.50
26 3 0.14
27 4 0.18
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (27 bp):
GTATATATATTTTTTAATTACTAATTT
Found at i:43579280 original size:14 final size:14
Alignment explanation
Indices: 43579257--43579287 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
43579247 TTAAGTTTTG
*
43579257 AATTATTCGAATCA
1 AATTAATCGAATCA
43579271 AATTAATCGAATCA
1 AATTAATCGAATCA
43579285 AAT
1 AAT
43579288 CAAATTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.32
Consensus pattern (14 bp):
AATTAATCGAATCA
Found at i:43580181 original size:19 final size:19
Alignment explanation
Indices: 43580157--43580210 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
43580147 TGAGATTAAG
*
43580157 GTATTGATTGTATAACTAT
1 GTATTGATTGTATAACGAT
*
43580176 GTATTGATTGTGATGACGAT
1 GTATTGATTGT-ATAACGAT
43580196 GATATTGATTTGTAT
1 G-TATTGA-TTGTAT
43580211 CACCTAACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 11 0.37
20 7 0.23
21 8 0.27
22 4 0.13
ACGTcount: A:0.28, C:0.04, G:0.22, T:0.46
Consensus pattern (19 bp):
GTATTGATTGTATAACGAT
Found at i:43584413 original size:55 final size:55
Alignment explanation
Indices: 43584347--43584456 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
43584337 ATTGGCAAAG
*
43584347 ATAGTCTTCCACTGATTCTGTTTGATTCAACTTCGCTAATTCCCCCAAAGGATTC
1 ATAGTCTTCCACTGATCCTGTTTGATTCAACTTCGCTAATTCCCCCAAAGGATTC
43584402 ATAGTCTTCCACTGATCCTGTTTGATTCAACTTCGCTAATTCCCCCAAAGGATTC
1 ATAGTCTTCCACTGATCCTGTTTGATTCAACTTCGCTAATTCCCCCAAAGGATTC
43584457 TTGCACAACA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.35
Consensus pattern (55 bp):
ATAGTCTTCCACTGATCCTGTTTGATTCAACTTCGCTAATTCCCCCAAAGGATTC
Found at i:43603277 original size:49 final size:47
Alignment explanation
Indices: 43603056--43603498 Score: 690
Period size: 47 Copynumber: 9.3 Consensus size: 47
43603046 CCCTTCGGGA
* * * * * *
43603056 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
43603103 CCTGTCACATATATACACTTTCACATTCATCACATGGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43603150 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43603197 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43603244 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCA-GC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATT-AGGC
*
43603293 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43603340 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43603387 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43603436 CTTATCACATATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43603485 CTTATCACATATAT
1 CTTATCACATATAT
43603499 GTACATTCAC
Statistics
Matches: 370, Mismatches: 20, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 229 0.62
49 139 0.38
50 1 0.00
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43603313 original size:143 final size:143
Alignment explanation
Indices: 43603056--43603498 Score: 721
Period size: 143 Copynumber: 3.1 Consensus size: 143
43603046 CCCTTCGGGA
* * * * * * * *
43603056 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
43603119 ACTTTCACATTCATCACATGGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
43603184 TCGGCTATTAGGC
131 TCGGCTATTAGGC
43603197 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
43603262 ACTTTCACATTCATCACATTGGCCATTCA-GCCTTATCACATATATACACTTTCACATTCATCAC
66 ACTTTCACATTCATCACATCGGCCATT-AGGCCTTATCACATATATACACTTTCACATTCATCAC
43603326 ATCGGCTATTAGGC
130 ATCGGCTATTAGGC
43603340 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
43603405 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
* *
43603470 CATCGACCATTAGGC
129 CATCGGCTATTAGGC
43603485 CTTATCACATATAT
1 CTTATCACATATAT
43603499 GTACATTCAC
Statistics
Matches: 283, Mismatches: 13, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
141 47 0.17
142 1 0.00
143 183 0.65
144 1 0.00
145 51 0.18
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCTATTAGGC
Found at i:43609699 original size:27 final size:27
Alignment explanation
Indices: 43609631--43609706 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
43609621 ACAACCAATA
*
43609631 TAGTCTGCCAAGACAGTAAACACAGGG
1 TAGTCTGCCGAGACAGTAAACACAGGG
** * *
43609658 TAGTCTATCGGGACAGTAAACACATGG
1 TAGTCTGCCGAGACAGTAAACACAGGG
*
43609685 TAGTCTGCCGAGACATTAAACA
1 TAGTCTGCCGAGACAGTAAACA
43609707 TAGTGATATG
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.20
Consensus pattern (27 bp):
TAGTCTGCCGAGACAGTAAACACAGGG
Found at i:43611002 original size:18 final size:18
Alignment explanation
Indices: 43610979--43611026 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
43610969 AAACCCTAGA
43610979 ATTCTTTTGAATCTGATT
1 ATTCTTTTGAATCTGATT
43610997 ATTCTTTGTG-ATCTGATT
1 ATTCTTT-TGAATCTGATT
43611015 -TT-TTTT-AATCTG
1 ATTCTTTTGAATCTG
43611027 TTTTGGTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 6 0.21
16 3 0.11
17 2 0.07
18 15 0.54
19 2 0.07
ACGTcount: A:0.19, C:0.10, G:0.12, T:0.58
Consensus pattern (18 bp):
ATTCTTTTGAATCTGATT
Found at i:43617478 original size:19 final size:19
Alignment explanation
Indices: 43617454--43617496 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
43617444 AGCCGTTTGG
43617454 AGGGAGTTGTGAAATCTTT
1 AGGGAGTTGTGAAATCTTT
43617473 AGGGAGTTGTGAAATCTTT
1 AGGGAGTTGTGAAATCTTT
*
43617492 CGGGA
1 AGGGA
43617497 TTTCAAGGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.26, C:0.07, G:0.35, T:0.33
Consensus pattern (19 bp):
AGGGAGTTGTGAAATCTTT
Found at i:43627402 original size:22 final size:22
Alignment explanation
Indices: 43627360--43627402 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
43627350 CATCATGTAT
*
43627360 TGATTTATTTGTTATATTATTG
1 TGATTTATTTGTTATACTATTG
43627382 TGATTTATTTGGTTAT-CTATT
1 TGATTTATTT-GTTATACTATT
43627403 TTGAATTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.21, C:0.02, G:0.14, T:0.63
Consensus pattern (22 bp):
TGATTTATTTGTTATACTATTG
Found at i:43632818 original size:75 final size:75
Alignment explanation
Indices: 43632583--43632939 Score: 581
Period size: 75 Copynumber: 4.8 Consensus size: 75
43632573 CTGTTATCGA
*
43632583 TGGATTCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTTCACATT
1 TGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTTCACATT
* *
43632648 TAAGTTACCG
66 TAAGATACGG
* * * *
43632658 TGGGATCAGCACTTAGCAACCACCAATGATTCAGGGAATCAGCACTTA-CAACCCCTCTCACATT
1 TGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTTCACATT
*
43632722 TAAGATATGG
66 TAAGATACGG
* *
43632732 TGGAATCAGCACTTAGTAACCACCAATGAGTCGGGGAATCAGCCCTTAGCAACCCCTTTCACATT
1 TGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTTCACATT
43632797 TAAGATACGG
66 TAAGATACGG
*
43632807 TGGAATTAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTTCACATT
1 TGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTTCACATT
43632872 TAAGATACGG
66 TAAGATACGG
* * *
43632882 TGGAATCAGCACTTAGCAACCACCAATGAATCGAGGAATCATCACTTAGCAACCCCTT
1 TGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTT
43632940 GGGGGAACCA
Statistics
Matches: 259, Mismatches: 22, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
74 65 0.25
75 194 0.75
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (75 bp):
TGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTTCACATT
TAAGATACGG
Found at i:43632825 original size:42 final size:42
Alignment explanation
Indices: 43632766--43632902 Score: 175
Period size: 42 Copynumber: 3.5 Consensus size: 42
43632756 AATGAGTCGG
*
43632766 GGAATCAGCCCTTAGCAACCCCTTTCACATTTAAGATACGGT
1 GGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGT
* * *
43632808 GGAATTAGCACTTAGCAACCAC---CA-A--TGAG-T-CGG-
1 GGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGT
43632841 GGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGT
1 GGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGT
43632883 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
43632903 ACCAATGAAT
Statistics
Matches: 79, Mismatches: 7, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
33 20 0.25
34 3 0.04
35 1 0.01
36 5 0.06
37 1 0.01
38 1 0.01
39 5 0.06
40 1 0.01
41 3 0.04
42 39 0.49
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (42 bp):
GGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGT
Found at i:43645663 original size:40 final size:40
Alignment explanation
Indices: 43645607--43645927 Score: 435
Period size: 40 Copynumber: 8.0 Consensus size: 40
43645597 ATAGTTTTTA
* *
43645607 TTTGGCGTGTTTCGGTTGGATCAACTCTTATGAGCTTCTG
1 TTTGGCGTGTTACGGTTGGATCAGCTCTTATGAGCTTCTG
* *
43645647 TTTGGCGTGTTACGGTTGAATCAGCTCTTATGAGCTTTTG
1 TTTGGCGTGTTACGGTTGGATCAGCTCTTATGAGCTTCTG
* * *
43645687 TTTGGTGTGTTTCGGTTGGATCAGCTCTTATGAGCTTCAG
1 TTTGGCGTGTTACGGTTGGATCAGCTCTTATGAGCTTCTG
* * * *
43645727 TTTGGTGTGTTATGGTTGGATCAGCTCTTATGATCTTTTG
1 TTTGGCGTGTTACGGTTGGATCAGCTCTTATGAGCTTCTG
* ** *
43645767 TTTGGCGTGTTACGGTTGGATTAGCTCTTATGATTTTTTG
1 TTTGGCGTGTTACGGTTGGATCAGCTCTTATGAGCTTCTG
* * *
43645807 TTTGGCGTGTTATGGTTGGATTAGCTTTTATGAGCTTCTG
1 TTTGGCGTGTTACGGTTGGATCAGCTCTTATGAGCTTCTG
* * *
43645847 TTTGGCATGTTACGGTTGGATCAGATCTTATGAGCTTCTA
1 TTTGGCGTGTTACGGTTGGATCAGCTCTTATGAGCTTCTG
* *
43645887 TTTGGCTTGTTACAGTTGGATCAGCTCTTATGAGCTTCTG
1 TTTGGCGTGTTACGGTTGGATCAGCTCTTATGAGCTTCTG
43645927 T
1 T
43645928 CAGGTGTACT
Statistics
Matches: 248, Mismatches: 33, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 248 1.00
ACGTcount: A:0.14, C:0.14, G:0.27, T:0.45
Consensus pattern (40 bp):
TTTGGCGTGTTACGGTTGGATCAGCTCTTATGAGCTTCTG
Found at i:43645947 original size:80 final size:78
Alignment explanation
Indices: 43645613--43645968 Score: 376
Period size: 80 Copynumber: 4.5 Consensus size: 78
43645603 TTTATTTGGC
* * *
43645613 GTGTTTCGGTTGGATCAACTCTTATGAGCTTCTGTTTGGCGTGTTACGGTTGAATCAGCTCTTAT
1 GTGTTTCGGTTGGATCAGCTCTTATGAGCTTCTATTTGGCGTGTTACGGTTGGATCAGCTCTTAT
*
43645678 GAGCTTTTGTTTGG
66 GAGCTTCTGTTT-G
* *
43645692 TGTGTTTCGGTTGGATCAGCTCTTATGAGCTTC-AGTTTGGTGTGTTATGGTTGGATCAGCTCTT
1 -GTGTTTCGGTTGGATCAGCTCTTATGAGCTTCTA-TTTGGCGTGTTACGGTTGGATCAGCTCTT
* *
43645756 ATGATCTTTTGTTTGG
64 ATGAGCTTCTGTTT-G
* * ** * * * * *
43645772 CGTGTTACGGTTGGATTAGCTCTTATGATTTTTTGTTTGGCGTGTTATGGTTGGATTAGCTTTTA
1 -GTGTTTCGGTTGGATCAGCTCTTATGAGCTTCTATTTGGCGTGTTACGGTTGGATCAGCTCTTA
43645837 TGAGCTTCTGTTTG
65 TGAGCTTCTGTTTG
* * * *
43645851 GCATGTTACGGTTGGATCAGATCTTATGAGCTTCTATTTGGCTTGTTACAGTTGGATCAGCTCTT
1 G--TGTTTCGGTTGGATCAGCTCTTATGAGCTTCTATTTGGCGTGTTACGGTTGGATCAGCTCTT
**
43645916 ATGAGCTTCTGTCAG
64 ATGAGCTTCTGTTTG
*
43645931 GTGTACTTCAGG-TGGATCAGCTTTTATGA-CTTTCTATT
1 GTGT--TTC-GGTTGGATCAGCTCTTATGAGC-TTCTATT
43645969 GGTGTGCTCG
Statistics
Matches: 234, Mismatches: 34, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
78 4 0.02
79 2 0.01
80 226 0.97
81 2 0.01
ACGTcount: A:0.15, C:0.14, G:0.27, T:0.44
Consensus pattern (78 bp):
GTGTTTCGGTTGGATCAGCTCTTATGAGCTTCTATTTGGCGTGTTACGGTTGGATCAGCTCTTAT
GAGCTTCTGTTTG
Found at i:43646688 original size:20 final size:20
Alignment explanation
Indices: 43646639--43646694 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
43646629 AGTTTATGCT
* * *
43646639 AAGTAAATGAAATGGAAAGT
1 AAGTAAATGGAATGGTAAGA
*
43646659 AAGTAAATGGACTGGTAAGA
1 AAGTAAATGGAATGGTAAGA
*
43646679 AAGTAAATGGAGTGGT
1 AAGTAAATGGAATGGT
43646695 TCATAATTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.46, C:0.02, G:0.30, T:0.21
Consensus pattern (20 bp):
AAGTAAATGGAATGGTAAGA
Found at i:43649219 original size:40 final size:40
Alignment explanation
Indices: 43649119--43649383 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
43649109 GCTCCTCGTT
* * * *
43649119 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
43649159 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
43649198 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
43649238 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
43649278 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
43649318 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
43649359 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
43649384 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:43649343 original size:80 final size:80
Alignment explanation
Indices: 43649086--43649383 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
43649076 AAATCACGTA
* ** * * *
43649086 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
43649148 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
43649164 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
43649227 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
43649244 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
43649308 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
43649324 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
43649384 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:43649392 original size:41 final size:41
Alignment explanation
Indices: 43649315--43649392 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
43649305 TTTGTATCTC
* * *
43649315 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
43649356 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
43649393 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:43656801 original size:40 final size:39
Alignment explanation
Indices: 43656679--43656939 Score: 251
Period size: 40 Copynumber: 6.6 Consensus size: 39
43656669 TCCTCGTTCA
* * * *
43656679 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* **
43656718 AATGCCTTCGGGACATAACCC-GA-TTAACAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
43656755 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
43656795 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
43656835 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
43656875 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
43656916 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
43656940 CAGCATTCAA
Statistics
Matches: 191, Mismatches: 23, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
37 11 0.06
38 21 0.11
39 27 0.14
40 120 0.63
41 12 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:43656899 original size:80 final size:80
Alignment explanation
Indices: 43656644--43656939 Score: 254
Period size: 80 Copynumber: 3.7 Consensus size: 80
43656634 AAATCACGTA
* ** * * *
43656644 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
43656706 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * *
43656722 CCTTCGGGACATAACCC-GAT-TA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
43656783 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
43656800 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
43656864 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
43656880 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
43656940 CAGCATTCAA
Statistics
Matches: 179, Mismatches: 25, Indels: 26
0.78 0.11 0.11
Matches are distributed among these distances:
75 1 0.01
77 38 0.21
78 37 0.21
79 11 0.06
80 79 0.44
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:43656948 original size:41 final size:41
Alignment explanation
Indices: 43656871--43656948 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
43656861 TTTGTATCTC
* * *
43656871 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
43656912 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
43656949 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:43675229 original size:13 final size:13
Alignment explanation
Indices: 43675211--43675240 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
43675201 TACAGCAACA
43675211 ATGAATTTATTTC
1 ATGAATTTATTTC
*
43675224 ATGAATTTATTTG
1 ATGAATTTATTTC
43675237 ATGA
1 ATGA
43675241 TGATCCATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.50
Consensus pattern (13 bp):
ATGAATTTATTTC
Found at i:43675403 original size:50 final size:50
Alignment explanation
Indices: 43675335--43675577 Score: 369
Period size: 50 Copynumber: 4.8 Consensus size: 50
43675325 ATTGGGGTAA
* *
43675335 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGGGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
43675385 AGAGGTCCCAAGTGAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
43675435 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
43675485 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
43675535 AGTACATCCCATCTAAGACCATGTCTGGGACATGCCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
43675578 TGTTATTATC
Statistics
Matches: 176, Mismatches: 16, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 143 0.81
51 33 0.19
ACGTcount: A:0.25, C:0.23, G:0.31, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:43704736 original size:20 final size:20
Alignment explanation
Indices: 43704711--43704755 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
43704701 GCTAATGGAA
* *
43704711 AGCTAAATTGAGCTCGAATG
1 AGCTAAACTGAGCTCAAATG
43704731 AGCTAAACTGAGCTCAAATG
1 AGCTAAACTGAGCTCAAATG
43704751 AGCTA
1 AGCTA
43704756 GTTGGAGCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (20 bp):
AGCTAAACTGAGCTCAAATG
Found at i:43704763 original size:20 final size:19
Alignment explanation
Indices: 43704740--43704795 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
43704730 GAGCTAAACT
* *
43704740 GAGCTCAAATGAGCTAGTTG
1 GAGCTAAAATGAGCTAG-GG
*
43704760 GAGCTAAAACGAGCTAGGG
1 GAGCTAAAATGAGCTAGGG
*
43704779 GAGCTGAAATTGAGCTA
1 GAGCT-AAAATGAGCTA
43704796 AAATCAGTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 6 0.20
20 24 0.80
ACGTcount: A:0.34, C:0.14, G:0.32, T:0.20
Consensus pattern (19 bp):
GAGCTAAAATGAGCTAGGG
Found at i:43707849 original size:20 final size:19
Alignment explanation
Indices: 43707819--43707868 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
43707809 GCACTCCCAA
43707819 TCTCTTTTTTCTCTTTTTCAT
1 TCTC-TTTTTCT-TTTTTCAT
*
43707840 TCTCTTTTTCTTTTTTGAT
1 TCTCTTTTTCTTTTTTCAT
43707859 T-TCTTTTTCT
1 TCTCTTTTTCT
43707869 GTCTTCCTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 9 0.32
19 8 0.29
20 7 0.25
21 4 0.14
ACGTcount: A:0.04, C:0.20, G:0.02, T:0.74
Consensus pattern (19 bp):
TCTCTTTTTCTTTTTTCAT
Found at i:43707853 original size:18 final size:17
Alignment explanation
Indices: 43707825--43707868 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 17
43707815 CCAATCTCTT
43707825 TTTTCTCTTTTTCATTCTC
1 TTTT-TCTTTTTCATT-TC
*
43707844 TTTTTCTTTTTTGATTTC
1 TTTTTC-TTTTTCATTTC
43707862 TTTTTCT
1 TTTTTCT
43707869 GTCTTCCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 1 0.04
18 10 0.43
19 12 0.52
ACGTcount: A:0.05, C:0.18, G:0.02, T:0.75
Consensus pattern (17 bp):
TTTTTCTTTTTCATTTC
Found at i:43716518 original size:85 final size:85
Alignment explanation
Indices: 43716375--43716553 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
43716365 GGCCGGCCAT
43716375 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
43716440 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
43716460 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
43716525 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
43716545 GGGCATGGG
1 GAGCATGGG
43716554 CAATAAAATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:43717869 original size:47 final size:47
Alignment explanation
Indices: 43717815--43718268 Score: 666
Period size: 47 Copynumber: 9.6 Consensus size: 47
43717805 TATTTGAATA
*
43717815 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAACA-TGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
43717862 AATGTGAA-AGTGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACA---TGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
43717911 AATGTGAA-AGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACA-TG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
43717960 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
43718007 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
43718054 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
43718101 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
43718148 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
43718195 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACA-TGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
43718242 GATGTGGAA-GTGTATAAATGTGATAAG
1 AATGT-GAACATGTATATATGTGATAAG
43718269 TCCCGAAGGG
Statistics
Matches: 380, Mismatches: 20, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 284 0.75
48 3 0.01
49 91 0.24
50 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.27
Consensus pattern (47 bp):
AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:43718146 original size:22 final size:22
Alignment explanation
Indices: 43718119--43718240 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
43718109 CATGTGTATG
43718119 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
43718141 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
43718166 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
43718188 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
43718213 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
43718235 TGTGAT
1 TGTGAT
43718241 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:43720887 original size:40 final size:40
Alignment explanation
Indices: 43720825--43721185 Score: 544
Period size: 40 Copynumber: 9.1 Consensus size: 40
43720815 AGGTCTCGAC
43720825 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
43720864 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
43720904 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * *
43720944 GATGTATCCGGGTTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
43720984 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
43721024 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
43721064 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * ** * *
43721104 GATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * * * * * *
43721144 GTTATATCTGGGCTAGGTCTCGAAGAGCAATCATGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
43721184 GA
1 GA
43721186 CGTGTATTCG
Statistics
Matches: 295, Mismatches: 26, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
39 4 0.01
40 291 0.99
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
Found at i:43722583 original size:85 final size:85
Alignment explanation
Indices: 43722440--43722618 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
43722430 GGCCGGCCAT
43722440 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
43722505 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
43722525 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
43722590 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
43722610 GGGCATGGG
1 GAGCATGGG
43722619 CAATAAAATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:43723934 original size:47 final size:47
Alignment explanation
Indices: 43723880--43724333 Score: 630
Period size: 47 Copynumber: 9.6 Consensus size: 47
43723870 TATTTGAATA
*
43723880 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAACA-TGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
43723927 AATGTGAA-AGTGTGTATATATGTGACAAGGCCTAATGGCCAATGTGATG
1 AATGTGAACA---TGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
43723976 AATGTGAA-AGTGTATATATATGTGATAAGTCCGAATGGCCAATGTGATG
1 AATGTGAACA-TG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
43724025 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
43724072 ACTGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
43724119 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
43724166 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
43724213 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
43724260 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACA-TGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
43724307 GATGTGGAA-GTGTATAAATGTGATAAG
1 AATGT-GAACATGTATATATGTGATAAG
43724334 TCCCGAAGGG
Statistics
Matches: 374, Mismatches: 26, Indels: 14
0.90 0.06 0.03
Matches are distributed among these distances:
46 1 0.00
47 281 0.75
48 3 0.01
49 88 0.24
50 1 0.00
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:43724211 original size:22 final size:22
Alignment explanation
Indices: 43724184--43724305 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
43724174 CATGTGTATG
43724184 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
43724206 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
43724231 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
43724253 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
43724278 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
43724300 TGTGAT
1 TGTGAT
43724306 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:43726511 original size:33 final size:34
Alignment explanation
Indices: 43726468--43726532 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
43726458 TTAAACAAAT
* *
43726468 TAATTACTAACACTTATTTAAGTTGAACTAAAAA
1 TAATTACTAACACGTATTTAAGCTGAACTAAAAA
*
43726502 TAATT-CTAACACGTATTTGAGCTGAACTAAA
1 TAATTACTAACACGTATTTAAGCTGAACTAAA
43726533 TTTAATAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 23 0.82
34 5 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (34 bp):
TAATTACTAACACGTATTTAAGCTGAACTAAAAA
Found at i:43730517 original size:18 final size:18
Alignment explanation
Indices: 43730494--43730528 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
43730484 CGTGAAGTTG
43730494 TGATTCTTAAAAGATTCA
1 TGATTCTTAAAAGATTCA
43730512 TGATTCTTAAAAGATTC
1 TGATTCTTAAAAGATTC
43730529 CCTCATTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.40
Consensus pattern (18 bp):
TGATTCTTAAAAGATTCA
Found at i:43731915 original size:33 final size:34
Alignment explanation
Indices: 43731872--43731946 Score: 107
Period size: 33 Copynumber: 2.2 Consensus size: 34
43731862 GAGTTAGTTT
* * *
43731872 ATTAAATTTAGTTCAGCTTCAATAAGTGTTAG-A
1 ATTAATTTTAGTTCAACTTAAATAAGTGTTAGTA
*
43731905 CTTAATTTTAGTTCAACTTAAATAAGTGTTAGTA
1 ATTAATTTTAGTTCAACTTAAATAAGTGTTAGTA
43731939 ATTAATTT
1 ATTAATTT
43731947 GTTTAAATCT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 28 0.78
34 8 0.22
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (34 bp):
ATTAATTTTAGTTCAACTTAAATAAGTGTTAGTA
Found at i:43735192 original size:39 final size:39
Alignment explanation
Indices: 43735134--43735227 Score: 154
Period size: 39 Copynumber: 2.4 Consensus size: 39
43735124 TAGACACTCG
* *
43735134 GATCTGAAACGGAACAGAAAATTAAACTTAGAA-CTAACA
1 GATCTGAAACGAAATAGAAAATTAAACTTAGAATC-AACA
43735173 GATCTGAAACGAAATAGAAAATTAAACTTAGAATCAACA
1 GATCTGAAACGAAATAGAAAATTAAACTTAGAATCAACA
43735212 GATCTGAAACGAAATA
1 GATCTGAAACGAAATA
43735228 CCCAAAACAA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
39 51 0.98
40 1 0.02
ACGTcount: A:0.52, C:0.14, G:0.15, T:0.19
Consensus pattern (39 bp):
GATCTGAAACGAAATAGAAAATTAAACTTAGAATCAACA
Found at i:43741880 original size:16 final size:15
Alignment explanation
Indices: 43741861--43741890 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
43741851 AGTATCAATT
43741861 TTTGATTGGTGATGAC
1 TTTGATTGG-GATGAC
43741877 TTTGATTGGGATGA
1 TTTGATTGGGATGA
43741891 TGGTTTTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.20, C:0.03, G:0.33, T:0.43
Consensus pattern (15 bp):
TTTGATTGGGATGAC
Found at i:43758178 original size:40 final size:40
Alignment explanation
Indices: 43758130--43758357 Score: 350
Period size: 40 Copynumber: 5.7 Consensus size: 40
43758120 GCAAACACAT
* * *
43758130 TTGCCTTCGGGTCTTAACCCAGACATATCAACGT-GCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAAC-TCGCATAA
*
43758170 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
43758210 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * * *
43758250 TTGCCTTCAGGTCATAGCCCGGACATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
43758290 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
43758330 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
43758358 TCCAATGCTC
Statistics
Matches: 176, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
39 1 0.01
40 175 0.99
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:43766680 original size:40 final size:40
Alignment explanation
Indices: 43766632--43766859 Score: 350
Period size: 40 Copynumber: 5.7 Consensus size: 40
43766622 GCAAACACAT
* * *
43766632 TTGCCTTCGGGTCTTAACCCAGACATATCAACGT-GCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAAC-TCGCATAA
*
43766672 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
43766712 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * * *
43766752 TTGCCTTCGGGTCATAGCTCGGACATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
43766792 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
43766832 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
43766860 TCCAATGCTC
Statistics
Matches: 176, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
39 1 0.01
40 175 0.99
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:43773979 original size:27 final size:28
Alignment explanation
Indices: 43773949--43774015 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 28
43773939 AACTGAAGGA
43773949 GAAAAAGAAAATG-AA-GAAAAGAAAATT
1 GAAAAAGAAAATGAAATGAAAA-AAAATT
* *
43773976 GAAAAAGAAATTGAAATTGAGAAAAAATT
1 GAAAAAGAAAATGAAA-TGAAAAAAAATT
43774005 GAAAAAGAAAA
1 GAAAAAGAAAA
43774016 ATGTTGAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 12 0.35
28 2 0.06
29 16 0.47
30 4 0.12
ACGTcount: A:0.69, C:0.00, G:0.18, T:0.13
Consensus pattern (28 bp):
GAAAAAGAAAATGAAATGAAAAAAAATT
Found at i:43773986 original size:12 final size:12
Alignment explanation
Indices: 43773949--43773991 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
43773939 AACTGAAGGA
*
43773949 GAAAAAGAAAAT
1 GAAAAAGAAATT
43773961 GAAGAAAAGAAAATT
1 G-A-AAAAG-AAATT
43773976 GAAAAAGAAATT
1 GAAAAAGAAATT
43773988 GAAA
1 GAAA
43773992 TTGAGAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 10 0.37
13 6 0.22
14 6 0.22
15 5 0.19
ACGTcount: A:0.70, C:0.00, G:0.19, T:0.12
Consensus pattern (12 bp):
GAAAAAGAAATT
Found at i:43773992 original size:18 final size:17
Alignment explanation
Indices: 43773971--43774008 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
43773961 GAAGAAAAGA
43773971 AAATTGAAAAAGAAATTG
1 AAATTGAAAAA-AAATTG
*
43773989 AAATTGAGAAAAAATTG
1 AAATTGAAAAAAAATTG
43774006 AAA
1 AAA
43774009 AAGAAAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.63, C:0.00, G:0.16, T:0.21
Consensus pattern (17 bp):
AAATTGAAAAAAAATTG
Found at i:43780043 original size:37 final size:37
Alignment explanation
Indices: 43779993--43780071 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
43779983 TTATTACAAA
* * *
43779993 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
43780030 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
43780067 GTCTT
1 GTCTT
43780072 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:43780259 original size:47 final size:47
Alignment explanation
Indices: 43780190--43780461 Score: 438
Period size: 47 Copynumber: 5.7 Consensus size: 47
43780180 CCATTCGGGA
* * * * *
43780190 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43780237 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43780284 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43780333 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43780380 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
43780427 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
43780462 AGAATCCTAA
Statistics
Matches: 214, Mismatches: 8, Indels: 6
0.94 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 166 0.78
49 47 0.22
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43780352 original size:96 final size:96
Alignment explanation
Indices: 43780190--43780461 Score: 437
Period size: 96 Copynumber: 2.9 Consensus size: 96
43780180 CCATTCGGGA
* * * *
43780190 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
43780253 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
43780284 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
43780349 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
43780380 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
43780443 A-TGTTCACATCCATCACAT
66 ACT-TTCACATTCATCACAT
43780462 AGAATCCTAA
Statistics
Matches: 168, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
93 1 0.01
94 79 0.47
95 1 0.01
96 87 0.52
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43780501 original size:143 final size:142
Alignment explanation
Indices: 43780201--43780463 Score: 368
Period size: 143 Copynumber: 1.9 Consensus size: 142
43780191 TTATCACATT
* * *
43780201 TATACACTTTCACATCCATCACGTTGGCTATTAGGCCTTATCACATATATACACTTTCACATTCA
1 TATACACTTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
* * * *
43780266 TCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAG
66 TCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATCCATCACATAGGCCATAAA
*** *
43780331 GCCTTATCACATA
130 GCAAAATCACAGA
*
43780344 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
1 TATACACTTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
* *
43780409 TCACATCGGCCATTAGGCCTTATCTC-ATATATGCA-TGTTCACATCCATCACATAG
66 TCACATCGGCCATTAGGCCTTATCACAATATATACACT-TTCACATCCATCACATAG
43780464 AATCCTAAAT
Statistics
Matches: 111, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
140 1 0.01
141 24 0.22
143 86 0.77
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (142 bp):
TATACACTTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
TCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATCCATCACATAGGCCATAAAG
CAAAATCACAGA
Found at i:43782779 original size:85 final size:85
Alignment explanation
Indices: 43782650--43782828 Score: 340
Period size: 85 Copynumber: 2.1 Consensus size: 85
43782640 TATTTTATTG
*
43782650 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
43782715 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
*
43782735 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCATCATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
43782800 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
43782820 CCCATGCTC
1 CCCATGCTC
43782829 ATGGCCGGCC
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 92 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.38
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:43782789 original size:41 final size:41
Alignment explanation
Indices: 43782659--43782789 Score: 92
Period size: 41 Copynumber: 3.1 Consensus size: 41
43782649 GCCCATGCCC
*
43782659 TTTATTTTATTAATCCTTACATAATGCACTACCCCAACATG
1 TTTATTTTATTAATCCTTACATAATGCACTACCCCATCATG
* * * ** *
43782700 TTTATGACATGTT-TTTAGCCATAACATCTTGTC-C-A-CCCATGC-TC
1 TTTAT----T-TTATTAATCC-TTACATAATG-CACTACCCCAT-CATG
43782744 TTTATTTTATTAATCCTTACATAATGCACTACCCCATCATG
1 TTTATTTTATTAATCCTTACATAATGCACTACCCCATCATG
43782785 TTTAT
1 TTTAT
43782790 GACATGTTTT
Statistics
Matches: 64, Mismatches: 13, Indels: 26
0.62 0.13 0.25
Matches are distributed among these distances:
38 1 0.02
39 10 0.16
40 8 0.12
41 16 0.25
44 10 0.16
45 8 0.12
46 10 0.16
47 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.07, T:0.41
Consensus pattern (41 bp):
TTTATTTTATTAATCCTTACATAATGCACTACCCCATCATG
Found at i:43784484 original size:40 final size:40
Alignment explanation
Indices: 43784452--43784803 Score: 569
Period size: 40 Copynumber: 8.8 Consensus size: 40
43784442 CCAGCATGAT
* * * * *
43784452 TGCTCTTCGAGACCTAGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
43784492 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
43784532 TGCTCCTCGGAACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
43784572 TGCTCCTCAGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
43784612 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
43784652 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
43784692 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
43784732 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
43784772 TGCTCTTCGGGACTTAGCCCGAATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
43784804 CTCAATTCTC
Statistics
Matches: 290, Mismatches: 22, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 290 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:43784794 original size:23 final size:23
Alignment explanation
Indices: 43784683--43784795 Score: 61
Period size: 23 Copynumber: 5.4 Consensus size: 23
43784673 GATATATCAC
43784683 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGGGACT
* * * *
43784706 TAGCCCGGAT-AT-ATC---AC-
1 TAGCACGAATGCTCTTCGGGACT
43784723 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGGGACT
* * * *
43784746 TAGCCCGGAT-AT-ATC---AC-
1 TAGCACGAATGCTCTTCGGGACT
43784763 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGGGACT
*
43784786 TAGCCCGAAT
1 TAGCACGAAT
43784796 ATATCACTCT
Statistics
Matches: 61, Mismatches: 17, Indels: 24
0.60 0.17 0.24
Matches are distributed among these distances:
17 16 0.26
18 6 0.10
19 4 0.07
21 4 0.07
22 6 0.10
23 25 0.41
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (23 bp):
TAGCACGAATGCTCTTCGGGACT
Found at i:43786069 original size:37 final size:37
Alignment explanation
Indices: 43786019--43786097 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
43786009 TTATTACAAA
* * *
43786019 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
43786056 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
43786093 GTCTT
1 GTCTT
43786098 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:43786285 original size:47 final size:47
Alignment explanation
Indices: 43786216--43786487 Score: 429
Period size: 47 Copynumber: 5.7 Consensus size: 47
43786206 CCATTCGGGA
* * * * *
43786216 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43786263 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43786310 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43786359 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43786406 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
43786453 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
43786488 AGAATCCTAA
Statistics
Matches: 214, Mismatches: 8, Indels: 6
0.94 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 167 0.78
49 46 0.21
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43786378 original size:96 final size:96
Alignment explanation
Indices: 43786216--43786487 Score: 428
Period size: 96 Copynumber: 2.9 Consensus size: 96
43786206 CCATTCGGGA
* * * *
43786216 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
43786279 ACTTTCACATTCATCACATTGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
43786310 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
43786375 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
43786406 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
43786469 A-TGTTCACATCCATCACAT
66 ACT-TTCACATTCATCACAT
43786488 AGAATCCTAA
Statistics
Matches: 167, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
93 1 0.01
94 79 0.47
95 1 0.01
96 86 0.51
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43786527 original size:143 final size:142
Alignment explanation
Indices: 43786227--43786489 Score: 359
Period size: 143 Copynumber: 1.9 Consensus size: 142
43786217 TTATCACATT
* * *
43786227 TATACACTTTCACATCCATCACGTTGGCTATTAGGCCTTATCACATATATACACTTTCACATTCA
1 TATACACTTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
* * * * *
43786292 TCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAG
66 TCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATCCATCACATAGGCCATAAA
*** *
43786357 GCCTTATCACATA
130 GCAAAATCACAGA
*
43786370 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
1 TATACACTTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
* *
43786435 TCACATCGGCCATTAGGCCTTATCTC-ATATATGCA-TGTTCACATCCATCACATAG
66 TCACATCGGCCATTAGGCCTTATCACAATATATACACT-TTCACATCCATCACATAG
43786490 AATCCTAAAT
Statistics
Matches: 110, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
140 1 0.01
141 24 0.22
143 85 0.77
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (142 bp):
TATACACTTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
TCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATCCATCACATAGGCCATAAAG
CAAAATCACAGA
Found at i:43788804 original size:85 final size:85
Alignment explanation
Indices: 43788675--43788853 Score: 340
Period size: 85 Copynumber: 2.1 Consensus size: 85
43788665 TATTTTATTG
*
43788675 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
43788740 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
*
43788760 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCATCATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
43788825 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
43788845 CCCATGCTC
1 CCCATGCTC
43788854 ATGGCCGGCC
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 92 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.38
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:43788814 original size:41 final size:41
Alignment explanation
Indices: 43788684--43788814 Score: 92
Period size: 41 Copynumber: 3.1 Consensus size: 41
43788674 GCCCATGCCC
*
43788684 TTTATTTTATTAATCCTTACATAATGCACTACCCCAACATG
1 TTTATTTTATTAATCCTTACATAATGCACTACCCCATCATG
* * * ** *
43788725 TTTATGACATGTT-TTTAGCCATAACATCTTGTC-C-A-CCCATGC-TC
1 TTTAT----T-TTATTAATCC-TTACATAATG-CACTACCCCAT-CATG
43788769 TTTATTTTATTAATCCTTACATAATGCACTACCCCATCATG
1 TTTATTTTATTAATCCTTACATAATGCACTACCCCATCATG
43788810 TTTAT
1 TTTAT
43788815 GACATGTTTT
Statistics
Matches: 64, Mismatches: 13, Indels: 26
0.62 0.13 0.25
Matches are distributed among these distances:
38 1 0.02
39 10 0.16
40 8 0.12
41 16 0.25
44 10 0.16
45 8 0.12
46 10 0.16
47 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.07, T:0.41
Consensus pattern (41 bp):
TTTATTTTATTAATCCTTACATAATGCACTACCCCATCATG
Found at i:43796681 original size:304 final size:304
Alignment explanation
Indices: 43796132--43796712 Score: 1045
Period size: 304 Copynumber: 1.9 Consensus size: 304
43796122 CGCTTCTATC
43796132 CTTCATCAAAATTCACCTTAAGAAATATAAGATTCGGGGCAATACTTTTTAGTATTGAAACATTC
1 CTTCATCAAAATTCACCTTAAGAAATATAAGATTCGGGGCAATACTTTTTAGTATTGAAACATTC
43796197 TTGAAGCTTGAGTTCAACTTCCATTCCATTTTATCTATCAATTTATAAATTATTTCTTTATTAAA
66 TTGAAGCTTGAGTTCAACTTCCATTCCATTTTATCTATCAATTTATAAATTATTTCTTTATTAAA
43796262 CCGAACCTATAAAAAACATCAATCCAAGCCATCTTTTGAACCCAAATTGCCTACTTCCGCTTATA
131 CCGAACCTATAAAAAACATCAATCCAAGCCATCTTTTGAACCCAAATTGCCTACTTCCGCTTATA
* * * *
43796327 CATCTTCATAACTCATTTTTCATATGACATCAAAACGAAAACTTCTCGTCGACAATCGAGCAATC
196 CATCTCCATAACTCAATTTTCATACGACATCAAAACAAAAACTTCTCGTCGACAATCGAGCAATC
43796392 AAGTGAATCGACTCAATATCCCAGGCCGGATCACATCATCTGTT
261 AAGTGAATCGACTCAATATCCCAGGCCGGATCACATCATCTGTT
*
43796436 CTTCATCAAAATTCACCTTAAGCAATATAAGATTCGGGGCAATACTTTTTAGTATTGAAACATTC
1 CTTCATCAAAATTCACCTTAAGAAATATAAGATTCGGGGCAATACTTTTTAGTATTGAAACATTC
* *
43796501 TTGATGCTTGAGTTCAACTTCCATTCTATTTTATCTATCAATTTATAAATTATTTCTTTATTAAA
66 TTGAAGCTTGAGTTCAACTTCCATTCCATTTTATCTATCAATTTATAAATTATTTCTTTATTAAA
* * *
43796566 CTGAACCTATAAAAAACATCAATCCAAGCCATCTTTTGAACCCAAATTGCTTGCTTCCGCTTATA
131 CCGAACCTATAAAAAACATCAATCCAAGCCATCTTTTGAACCCAAATTGCCTACTTCCGCTTATA
* * *
43796631 CATCTCCATAACTTAATTTTCATACGACATCAAAATAAAAACTTCTCGTCGACAATCGGGCAATC
196 CATCTCCATAACTCAATTTTCATACGACATCAAAACAAAAACTTCTCGTCGACAATCGAGCAATC
43796696 AAGTGAATCGACTCAAT
261 AAGTGAATCGACTCAAT
43796713 CACCCGGGCC
Statistics
Matches: 264, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
304 264 1.00
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (304 bp):
CTTCATCAAAATTCACCTTAAGAAATATAAGATTCGGGGCAATACTTTTTAGTATTGAAACATTC
TTGAAGCTTGAGTTCAACTTCCATTCCATTTTATCTATCAATTTATAAATTATTTCTTTATTAAA
CCGAACCTATAAAAAACATCAATCCAAGCCATCTTTTGAACCCAAATTGCCTACTTCCGCTTATA
CATCTCCATAACTCAATTTTCATACGACATCAAAACAAAAACTTCTCGTCGACAATCGAGCAATC
AAGTGAATCGACTCAATATCCCAGGCCGGATCACATCATCTGTT
Found at i:43801273 original size:18 final size:20
Alignment explanation
Indices: 43801250--43801299 Score: 68
Period size: 18 Copynumber: 2.5 Consensus size: 20
43801240 AAAGGAAGAC
43801250 AGAAAAAGA-AATCAAAAA-
1 AGAAAAAGAGAATCAAAAAG
*
43801268 AGAAAAAGAGAATGAAAAAG
1 AGAAAAAGAGAATCAAAAAG
43801288 AGAAAAAAGAGA
1 AG-AAAAAGAGA
43801300 TTGAGAGTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 9 0.32
19 8 0.29
20 2 0.07
21 9 0.32
ACGTcount: A:0.74, C:0.02, G:0.20, T:0.04
Consensus pattern (20 bp):
AGAAAAAGAGAATCAAAAAG
Found at i:43812252 original size:395 final size:395
Alignment explanation
Indices: 43811522--43812271 Score: 1112
Period size: 395 Copynumber: 1.9 Consensus size: 395
43811512 ATTTGACAAA
* * *
43811522 GTGATACGAGTCACAAAGGCCCAACTCAAGCTCAAGAACGTGATGGGCTCAAATTACCACAGGGC
1 GTGATACGAGTCACAAAGGCCCAACCCAAGCCCAAGAACGTGATGGGCTCAAATTACCACAAGGC
* * * ** *
43811587 CCAATAATGAGGTCAAAGGCTAGGCAAATGCATACGAAACTAAATGGAACCATTCAAGAGTTCAT
66 CCAATAACGAGATCAAAGGCCAGAAAAATGCATACCAAACTAAATGGAACCATTCAAGAGTTCAT
* * *
43811652 TTGCAAGGCCTTAGATGTGTATACAAATGAAAAAGAAAATCAAGATTCACTTTCTTGCTTTCAAG
131 TAGCAAGGCCTTAGATGCGTACACAAATGAAAAAGAAAATCAAGATTCACTTTCTTGCTTTCAAG
*
43811717 AAAATCAAGAAACCGAATCTTGGTCCAATCTTGCTGTTTTGAGCGATTTCAAGAATCAAGAAAAT
196 AAAATCAAGAAACCGAATCTTGGTCCAATCTTGCTGTTTGGAGCGATTTCAAGAATCAAGAAAAT
* ** * *
43811782 CAAGATTTCAAATCTTGGAAATCTTGGCCCAAGAAACTGAATCTTGCAGCTAAGGCGCGTTGGAT
261 CAAGATTTCAAATCTTGGAAATATTGGCCCAAGAAACCAAATCTTGCAGCTAAAGCGCATTGGAT
*
43811847 CTCAGTTACGAGCATCAGCGAACCAATTTCAGGAGAAAACAGATCACAAATCCAAGTTCTTGAAG
326 CTCAGTTACGAGCATCAACGAACCAATTTCAGGAGAAAACAGATCACAAATCCAAGTTCTTGAAG
43811912 ACACG
391 ACACG
*
43811917 GTGATACGAGTCACAAAGGCCCAACCCAAGCCCAAGAACGTGATGGGCTCAAATTACCACAAGTC
1 GTGATACGAGTCACAAAGGCCCAACCCAAGCCCAAGAACGTGATGGGCTCAAATTACCACAAGGC
* ** * * * **
43811982 CCAATAACGAGATCAAAGGCCCGAAAAATGTGTTCCAAA-TGAAATGGGACCATTCAGGAGTTTG
66 CCAATAACGAGATCAAAGGCCAGAAAAATGCATACCAAACT-AAATGGAACCATTCAAGAGTTCA
* * * *
43812046 TTAGCAGGGCCTTAGATGCGTACATGAAA-GAAAGAGAAAATCAAGATTCACTTTCTTGTTTTCA
130 TTAGCAAGGCCTTAGATGCGTACA-CAAATGAAAAAGAAAATCAAGATTCACTTTCTTGCTTTCA
*
43812110 AGCAAATCAAGAAACCGAATCTTGG-CCTAATCTTGCTGTTTGGAGCGATTTCAAGAATCAAGAA
194 AGAAAATCAAGAAACCGAATCTTGGTCC-AATCTTGCTGTTTGGAGCGATTTCAAGAATCAAGAA
* *
43812174 AATCAAGATTTCAAATCTTGGAAATATTTGTCCAAGAAACCAAATCTTGCAG-TCAAAGCGCATT
258 AATCAAGATTTCAAATCTTGGAAATATTGGCCCAAGAAACCAAATCTTGCAGCT-AAAGCGCATT
*
43812238 GGATCTCCGTTACGAGCATCAACGAACCAATTTC
322 GGATCTCAGTTACGAGCATCAACGAACCAATTTC
43812272 GGTAGAAGAT
Statistics
Matches: 315, Mismatches: 36, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
394 4 0.01
395 308 0.98
396 3 0.01
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (395 bp):
GTGATACGAGTCACAAAGGCCCAACCCAAGCCCAAGAACGTGATGGGCTCAAATTACCACAAGGC
CCAATAACGAGATCAAAGGCCAGAAAAATGCATACCAAACTAAATGGAACCATTCAAGAGTTCAT
TAGCAAGGCCTTAGATGCGTACACAAATGAAAAAGAAAATCAAGATTCACTTTCTTGCTTTCAAG
AAAATCAAGAAACCGAATCTTGGTCCAATCTTGCTGTTTGGAGCGATTTCAAGAATCAAGAAAAT
CAAGATTTCAAATCTTGGAAATATTGGCCCAAGAAACCAAATCTTGCAGCTAAAGCGCATTGGAT
CTCAGTTACGAGCATCAACGAACCAATTTCAGGAGAAAACAGATCACAAATCCAAGTTCTTGAAG
ACACG
Found at i:43818605 original size:17 final size:17
Alignment explanation
Indices: 43818573--43818606 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
43818563 ATGAAAATCA
43818573 GGCCAATTTGTCAAAGT
1 GGCCAATTTGTCAAAGT
43818590 GGCCTAATTTGT-AAAGT
1 GGCC-AATTTGTCAAAGT
43818607 TTTATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (17 bp):
GGCCAATTTGTCAAAGT
Found at i:43821700 original size:38 final size:38
Alignment explanation
Indices: 43821658--43821735 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
43821648 TTGAATCAGA
*
43821658 GATAGGATAATTGGGTGGCAAGATCAATTAAAAATTGT
1 GATAGGATAATTGGGCGGCAAGATCAATTAAAAATTGT
43821696 GATAGGATAATTGGGCGGCAAGATCAATTAAAAATTGT
1 GATAGGATAATTGGGCGGCAAGATCAATTAAAAATTGT
43821734 GA
1 GA
43821736 ATAGAAAACG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.40, C:0.06, G:0.27, T:0.27
Consensus pattern (38 bp):
GATAGGATAATTGGGCGGCAAGATCAATTAAAAATTGT
Found at i:43822593 original size:30 final size:30
Alignment explanation
Indices: 43822559--43822631 Score: 146
Period size: 30 Copynumber: 2.4 Consensus size: 30
43822549 AGATTCGGAT
43822559 TCTTGATTTTCTTGAAAACAAGAAAGTGAA
1 TCTTGATTTTCTTGAAAACAAGAAAGTGAA
43822589 TCTTGATTTTCTTGAAAACAAGAAAGTGAA
1 TCTTGATTTTCTTGAAAACAAGAAAGTGAA
43822619 TCTTGATTTTCTT
1 TCTTGATTTTCTT
43822632 TTTCCTTCGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (30 bp):
TCTTGATTTTCTTGAAAACAAGAAAGTGAA
Found at i:43829156 original size:40 final size:40
Alignment explanation
Indices: 43828971--43829156 Score: 220
Period size: 40 Copynumber: 4.7 Consensus size: 40
43828961 GCTCCTCGTT
* * *
43828971 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
* *
43829011 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ACTTCGCA
43829051 CAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTA-TCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTACT-TCGCA
* * *
43829091 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-ACTTCGCA
43829132 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
43829157 CATCATTCAA
Statistics
Matches: 126, Mismatches: 11, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
39 4 0.03
40 107 0.85
41 14 0.11
42 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
Found at i:43830750 original size:11 final size:11
Alignment explanation
Indices: 43830734--43830758 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
43830724 CTCAAAACAG
43830734 CAAAATTGGAC
1 CAAAATTGGAC
43830745 CAAAATTGGAC
1 CAAAATTGGAC
43830756 CAA
1 CAA
43830759 GATTTGTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.20, G:0.16, T:0.16
Consensus pattern (11 bp):
CAAAATTGGAC
Found at i:43833794 original size:10 final size:9
Alignment explanation
Indices: 43833776--43833832 Score: 60
Period size: 10 Copynumber: 5.9 Consensus size: 9
43833766 TTTAATGTGG
43833776 TTCAGCTCA
1 TTCAGCTCA
43833785 TTCGAGCTCAA
1 TTC-AGCTC-A
*
43833796 GTCAGCTCA
1 TTCAGCTCA
43833805 TTCAAGCTCAA
1 TTC-AGCTC-A
43833816 TTCAGCTCA
1 TTCAGCTCA
*
43833825 TTGAGCTC
1 TTCAGCTC
43833833 GTTATTAGCT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
9 14 0.34
10 20 0.49
11 7 0.17
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.30
Consensus pattern (9 bp):
TTCAGCTCA
Found at i:43833802 original size:20 final size:20
Alignment explanation
Indices: 43833777--43833832 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
43833767 TTAATGTGGT
43833777 TCAGCTCATTCGAGCTCAAG
1 TCAGCTCATTCGAGCTCAAG
* *
43833797 TCAGCTCATTCAAGCTCAAT
1 TCAGCTCATTCGAGCTCAAG
43833817 TCAGCTCATT-GAGCTC
1 TCAGCTCATTCGAGCTC
43833833 GTTATTAGCT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 5 0.15
20 28 0.85
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (20 bp):
TCAGCTCATTCGAGCTCAAG
Found at i:43836307 original size:15 final size:16
Alignment explanation
Indices: 43836287--43836318 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
43836277 GGAAATTGAA
43836287 AAAGAAAAAGAA-ATG
1 AAAGAAAAAGAAGATG
43836302 AAAGAAAAAGAAGATG
1 AAAGAAAAAGAAGATG
43836318 A
1 A
43836319 GATTGAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.06
Consensus pattern (16 bp):
AAAGAAAAAGAAGATG
Found at i:43836384 original size:21 final size:21
Alignment explanation
Indices: 43836345--43836384 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
43836335 GAAAGTATGT
* *
43836345 AAGAAACGAGTGTAATTGAAA
1 AAGAAACAAGAGTAATTGAAA
*
43836366 AAGAAACAAGAGTAGTTGA
1 AAGAAACAAGAGTAATTGA
43836385 GTTTTCTATG
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:0.53, C:0.05, G:0.25, T:0.17
Consensus pattern (21 bp):
AAGAAACAAGAGTAATTGAAA
Found at i:43842472 original size:7 final size:7
Alignment explanation
Indices: 43842454--43842488 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
43842444 CAATTTTGTT
*
43842454 GTTTTGG
1 GTTTAGG
43842461 GTTTAGG
1 GTTTAGG
*
43842468 ATTTAGG
1 GTTTAGG
43842475 GTTTAGG
1 GTTTAGG
43842482 GTTTAGG
1 GTTTAGG
43842489 CGCATTGGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.14, C:0.00, G:0.40, T:0.46
Consensus pattern (7 bp):
GTTTAGG
Found at i:43844153 original size:20 final size:20
Alignment explanation
Indices: 43844130--43844173 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
43844120 AGCTCCAACC
*
43844130 AGCTCATTTGAGCTCAATTT
1 AGCTCATTCGAGCTCAATTT
43844150 AGCTCATTCGAGCTCAATTT
1 AGCTCATTCGAGCTCAATTT
43844170 AGCT
1 AGCT
43844174 TTCCATCAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (20 bp):
AGCTCATTCGAGCTCAATTT
Found at i:43848733 original size:19 final size:20
Alignment explanation
Indices: 43848699--43848754 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
43848689 AAACCAATTT
43848699 TAGCTCAATTTCAGCTCC-CC
1 TAGCTC-ATTTCAGCTCCACC
*
43848719 TAGCTCATTTTAGCTCCAACC
1 TAGCTCATTTCAGCTCC-ACC
*
43848740 -AGCTCATTTGAGCTC
1 TAGCTCATTTCAGCTC
43848755 AATTTAGCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 10 0.31
20 20 0.62
21 2 0.06
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.32
Consensus pattern (20 bp):
TAGCTCATTTCAGCTCCACC
Found at i:43848763 original size:20 final size:20
Alignment explanation
Indices: 43848740--43848783 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
43848730 AGCTCCAACC
*
43848740 AGCTCATTTGAGCTCAATTT
1 AGCTCATTCGAGCTCAATTT
43848760 AGCTCATTCGAGCTCAATTT
1 AGCTCATTCGAGCTCAATTT
43848780 AGCT
1 AGCT
43848784 TTCCATCAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (20 bp):
AGCTCATTCGAGCTCAATTT
Found at i:43858371 original size:33 final size:34
Alignment explanation
Indices: 43858320--43858394 Score: 116
Period size: 33 Copynumber: 2.2 Consensus size: 34
43858310 AGATTTAAAC
*
43858320 AAATTAATTACTAACACTTATTTAAGGTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
*
43858354 AAATTAATT-CTAACACTTATTTGAGCTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
*
43858387 AATTTAAT
1 AAATTAAT
43858395 AAACTAACTC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
33 29 0.76
34 9 0.24
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.37
Consensus pattern (34 bp):
AAATTAATTACTAACACTTATTTAAGCTGAACTA
Found at i:43864278 original size:30 final size:30
Alignment explanation
Indices: 43864244--43864301 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
43864234 TTCGAGCTTG
*
43864244 GGGACAAAGA-TGTAATTATGCAAAAGTTTA
1 GGGACAAA-ATTGTAATTATCCAAAAGTTTA
*
43864274 GGGACAAAATTGTAATTTTCCAAAAGTT
1 GGGACAAAATTGTAATTATCCAAAAGTT
43864302 GAGTCGAAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (30 bp):
GGGACAAAATTGTAATTATCCAAAAGTTTA
Found at i:43864831 original size:97 final size:100
Alignment explanation
Indices: 43864637--43864917 Score: 292
Period size: 97 Copynumber: 2.9 Consensus size: 100
43864627 TAAATAATGG
* * * *
43864637 TCACGTGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAGAAGCTTTGAG-CATGTGTATAGT
1 TCACGTGTGTAGTACTAAGTGAAGGCTACTATGTGTACTGAAAAGCTTTG-GTCACGTGTGTAGT
* * * * *
43864701 ACTGTGTGAATGCTACTACGTCTATCGGTAAAC-T-A
65 ACTATGTGAAGGCTACTACGT-GAGCCGTAAACTTGA
* * * * *
43864736 -C-GGTGTGTAGTACTAAGTGAAGGCTACAATGGGTACTGAAAAGCTTTGGTCACATATGTAGTA
1 TCACGTGTGTAGTACTAAGTGAAGGCTACTATGTGTACTGAAAAGCTTTGGTCACGTGTGTAGTA
43864799 CTATGTGAAGGCTACTACGTGAGCCGTAAAACTTGA
66 CTATGTGAAGGCTACTACGTGAGCCGT-AAACTTGA
* * * *
43864835 TCACGT-TGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAA-C--TGATCACGTGTGTAGT
1 TCACGTGTGTAGTACTAAGTGAAGGCTACTATGTGTACTG-AAAAGCTTTGGTCACGTGTGTAGT
*
43864896 ACTATGTGAAGGCTACAACGTG
65 ACTATGTGAAGGCTACTACGTG
43864918 TACCGAATGA
Statistics
Matches: 151, Mismatches: 24, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
96 5 0.03
97 73 0.48
98 36 0.24
99 1 0.01
100 30 0.20
101 6 0.04
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGAAGGCTACTATGTGTACTGAAAAGCTTTGGTCACGTGTGTAGTA
CTATGTGAAGGCTACTACGTGAGCCGTAAACTTGA
Found at i:43864852 original size:49 final size:49
Alignment explanation
Indices: 43864637--43864922 Score: 217
Period size: 49 Copynumber: 5.8 Consensus size: 49
43864627 TAAATAATGG
* * * *
43864637 TCACGTGTGTAGTACTAAGTGAAGGCTACTATGTGTACCG-AGAAGCTTTGA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTA-AAAC--TGA
* * * * * * * *
43864688 GCATGTGTATAGTACTGTGTGAATGCTACTACGTCTATCGGT-AAACT-A
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGT-GAACCGTAAAACTGA
* * * * * * * *
43864736 -C-GGTGTGTAGTACTAAGTGAAGGCTACAATGGGTACTG-AAAAGCTTTGG
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAA-C--TGA
* * *
43864785 TCACATATGTAGTACTATGTGAAGGCTACTACGTGAGCCGTAAAACTTGA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAAC-TGA
*
43864835 TCACGT-TGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAACTGA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTGA
* *
43864883 TCACGTGTGTAGTACTATGTGAAGGCTACAACGTGTACCG
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG
43864923 AATGATAAAA
Statistics
Matches: 182, Mismatches: 42, Indels: 24
0.73 0.17 0.10
Matches are distributed among these distances:
45 5 0.03
46 24 0.13
47 1 0.01
48 11 0.06
49 68 0.37
50 9 0.05
51 58 0.32
52 6 0.03
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (49 bp):
TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTGA
Found at i:43872270 original size:51 final size:51
Alignment explanation
Indices: 43872160--43872491 Score: 243
Period size: 51 Copynumber: 6.6 Consensus size: 51
43872150 TGTCGATGAA
* * * * * * *
43872160 CACGTGTGTAGTACTGTGTGGAGGCTACTACGTGTATCAATAAA-TAATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGTACCGAGAAACT-TTGGT
* * *
43872211 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAGAAGCTTTGAG-
1 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGTACCGAGAAACTTTG-GT
* * * * * **
43872262 CACGTGTGTAGTACTGTGTGAATGCTACTACGTCTATCG-GTAAACTACGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGTACCGAG-AAACTTTGGT
* * * * *
43872313 TACATGTGTAGTACTAAGTGAAGGCTACAATGGGTACCGA-AAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGTACCGAGAAA-CTTTGGT
* *
43872364 CACGTATGTAGTACTATGTGAAGGCTACTATGTG-AGCCGTA-AAAC-TTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGTA-CCG-AGAAACTTTGGT
* ** * * * *
43872414 CACGTGTGTAGTACTATGTGAAGACTACTACATG-AACTATAAAAC--TGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGTACCGA-GAAACTTTGGT
*
43872463 CACGTGTGTAGTACTATGTGAAGGTTACT
1 CACGTGTGTAGTACTATGTGAAGGCTACT
43872492 GCGTGTATCG
Statistics
Matches: 224, Mismatches: 47, Indels: 22
0.76 0.16 0.08
Matches are distributed among these distances:
48 1 0.00
49 32 0.14
50 45 0.20
51 140 0.62
52 6 0.03
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTATGTGTACCGAGAAACTTTGGT
Found at i:43872336 original size:102 final size:102
Alignment explanation
Indices: 43872160--43872393 Score: 328
Period size: 102 Copynumber: 2.3 Consensus size: 102
43872150 TGTCGATGAA
* * *
43872160 CACGTGTGTAGTACTGTGTGGAGGCTACTACGTGTATCAATAAATAATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTCTATCAATAAATAACGGTCACATGTGTAGTAC
* * *
43872225 TAAGTGAAGGCTACTATGTGTACCGAGAAGCTTTGAG-
66 TAAGTGAAGGCTACAATGGGTACCGAAAAGCTTTG-GT
* ** *
43872262 CACGTGTGTAGTACTGTGTGAATGCTACTACGTCTATCGGTAAACT-ACGGTTACATGTGTAGTA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTCTATCAATAAA-TAACGGTCACATGTGTAGTA
43872326 CTAAGTGAAGGCTACAATGGGTACCGAAAAGCTTTGGT
65 CTAAGTGAAGGCTACAATGGGTACCGAAAAGCTTTGGT
* *
43872364 CACGTATGTAGTACTATGTGAAGGCTACTA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTA
43872394 TGTGAGCCGT
Statistics
Matches: 117, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
101 1 0.01
102 115 0.98
103 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTCTATCAATAAATAACGGTCACATGTGTAGTAC
TAAGTGAAGGCTACAATGGGTACCGAAAAGCTTTGGT
Found at i:43872409 original size:102 final size:101
Alignment explanation
Indices: 43872210--43872441 Score: 279
Period size: 102 Copynumber: 2.3 Consensus size: 101
43872200 TAAATAATGG
* * * *
43872210 TCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAGAAGCTTTGAGCACGTGTGTAGTA
1 TCACATGTGTAGTACTAAGTGAAGGCTACAATGGGTACCGAAAAGCTTTGAGCACGTATGTAGTA
* * * * * *
43872275 CTGTGTGAATGCTACTACGTCTATCGGTAAACTACGG
66 CTATGTGAAGGCTACTACGTCGAGCCGTAAACT-CGA
*
43872312 TTACATGTGTAGTACTAAGTGAAGGCTACAATGGGTACCGAAAAGCTTTG-GTCACGTATGTAGT
1 TCACATGTGTAGTACTAAGTGAAGGCTACAATGGGTACCGAAAAGCTTTGAG-CACGTATGTAGT
* *
43872376 ACTATGTGAAGGCTACTATGT-GAGCCGTAAAACTTGA
65 ACTATGTGAAGGCTACTACGTCGAGCCGT-AAACTCGA
* * *
43872413 TCACGTGTGTAGTACTATGTGAAGACTAC
1 TCACATGTGTAGTACTAAGTGAAGGCTAC
43872442 TACATGAACT
Statistics
Matches: 111, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
101 31 0.28
102 80 0.72
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (101 bp):
TCACATGTGTAGTACTAAGTGAAGGCTACAATGGGTACCGAAAAGCTTTGAGCACGTATGTAGTA
CTATGTGAAGGCTACTACGTCGAGCCGTAAACTCGA
Found at i:43872482 original size:49 final size:50
Alignment explanation
Indices: 43872363--43872485 Score: 176
Period size: 50 Copynumber: 2.5 Consensus size: 50
43872353 AAAGCTTTGG
* * ** * *
43872363 TCACGTATGTAGTACTATGTGAAGGCTACTATGTGAGCCGTAAAACTTGA
1 TCACGTGTGTAGTACTATGTGAAGACTACTACATGAACCATAAAACTTGA
*
43872413 TCACGTGTGTAGTACTATGTGAAGACTACTACATGAACTATAAAAC-TGA
1 TCACGTGTGTAGTACTATGTGAAGACTACTACATGAACCATAAAACTTGA
43872462 TCACGTGTGTAGTACTATGTGAAG
1 TCACGTGTGTAGTACTATGTGAAG
43872486 GTTACTGCGT
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
49 27 0.41
50 39 0.59
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGAAGACTACTACATGAACCATAAAACTTGA
Found at i:43874766 original size:27 final size:27
Alignment explanation
Indices: 43874735--43874912 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
43874725 TAAATTGTAC
*
43874735 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
43874762 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
43874788 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
43874816 GGCACTAAGTGTGCGAGATGGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * * *
43874844 GGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
43874871 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
43874898 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
43874913 GGCTCAATAA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:43874851 original size:82 final size:81
Alignment explanation
Indices: 43874736--43874891 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
43874726 AAATTGTACA
* * * *
43874736 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGAATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
43874800 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
43874817 GCACTAAGTGTGCGAGATGGACTATGTGGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-ATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
43874882 TGCGAGTTGA
65 TGCGAATTGA
43874892 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 15 0.23
82 49 0.75
83 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:43874903 original size:82 final size:81
Alignment explanation
Indices: 43874732--43874912 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
43874722 GATTAAATTG
* * * *
43874732 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAA
43874797 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
43874813 TGCGGCACTAAGTGTGCGAGATGGACTATGTGGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-ATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
43874877 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
43874895 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
43874913 GGCTCAATAA
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 18 0.22
82 64 0.78
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:43885085 original size:33 final size:34
Alignment explanation
Indices: 43885032--43885119 Score: 103
Period size: 33 Copynumber: 2.6 Consensus size: 34
43885022 CTGGAATAAA
* *
43885032 TTAAATAA--GTTAGTTTATTAAATTTAGTTCA-G
1 TTAAATAAGTGTTAG-TAATTAAATTTAGTTCACC
*
43885064 TTGAAATAAGTGTTAG-AATTAATTTTAGTTCACC
1 TT-AAATAAGTGTTAGTAATTAAATTTAGTTCACC
43885098 TTAAATAAGTGTTAGTAATTAA
1 TTAAATAAGTGTTAGTAATTAA
43885120 TTTGTTTAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
32 2 0.04
33 33 0.69
34 8 0.17
35 5 0.10
ACGTcount: A:0.39, C:0.05, G:0.14, T:0.43
Consensus pattern (34 bp):
TTAAATAAGTGTTAGTAATTAAATTTAGTTCACC
Found at i:43886982 original size:12 final size:12
Alignment explanation
Indices: 43886959--43887000 Score: 54
Period size: 10 Copynumber: 3.7 Consensus size: 12
43886949 CGTGAGTGAG
43886959 AAAAGAATATTGA
1 AAAAGAA-ATTGA
43886972 AAAAGAAATTG-
1 AAAAGAAATTGA
43886983 AAAA-AAA-TGA
1 AAAAGAAATTGA
43886993 AAAAGAAA
1 AAAAGAAA
43887001 AAGATGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 2 0.07
10 7 0.26
11 7 0.26
12 4 0.15
13 7 0.26
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (12 bp):
AAAAGAAATTGA
Found at i:43887095 original size:34 final size:33
Alignment explanation
Indices: 43887033--43887104 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 33
43887023 AACAAAAGAA
*
43887033 AGTG-AAAAGCAAAAAGAGCCTGACAAGAAATCG
1 AGTGAAAAAGCAAAAAGAGCCTGAAAAGAAA-CG
* *
43887066 ATTGAAAAAG-AAAGAGAGCCTGTAAAAGAAACG
1 AGTGAAAAAGCAAAAAGAGCCTG-AAAAGAAACG
43887099 AGTGAA
1 AGTGAA
43887105 GAGAGTAATC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
33 21 0.64
34 12 0.36
ACGTcount: A:0.53, C:0.11, G:0.25, T:0.11
Consensus pattern (33 bp):
AGTGAAAAAGCAAAAAGAGCCTGAAAAGAAACG
Found at i:43896883 original size:25 final size:24
Alignment explanation
Indices: 43896855--43896905 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
43896845 TTAAAACTAC
43896855 TTCTAA-AGAAAAACTCAAGAGAGAA
1 TTCTAAGAG-AAAACTCAA-AGAGAA
**
43896880 TTCTTGGAGAAAACTCAAAGAGAA
1 TTCTAAGAGAAAACTCAAAGAGAA
43896904 TT
1 TT
43896906 TTTTTCACTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 8 0.35
25 13 0.57
26 2 0.09
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.22
Consensus pattern (24 bp):
TTCTAAGAGAAAACTCAAAGAGAA
Found at i:43897781 original size:33 final size:34
Alignment explanation
Indices: 43897730--43897820 Score: 107
Period size: 33 Copynumber: 2.7 Consensus size: 34
43897720 AGATTTAAAC
*
43897730 AAATTAATTACTAACACTTATTTAAGTTGAACAA
1 AAATTAATTACTAACACTTATTTAAGCTGAACAA
* *
43897764 AAATTAATT-CTAACACTTATTTGAGCTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACAA
* *
43897797 AATTTAATAAACT-A-ACTTATTTAA
1 AAATTAAT-TACTAACACTTATTTAA
43897821 TTTATTCCAG
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
33 37 0.76
34 10 0.20
35 2 0.04
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.37
Consensus pattern (34 bp):
AAATTAATTACTAACACTTATTTAAGCTGAACAA
Found at i:43899582 original size:18 final size:17
Alignment explanation
Indices: 43899559--43899597 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
43899549 CTCTTTTTGC
43899559 TCTTTTTCATTCTCTTTT
1 TCTTTTTCATT-TCTTTT
*
43899577 TCTTTTTTGATTTCTTTT
1 TC-TTTTTCATTTCTTTT
43899595 TCT
1 TCT
43899598 GTCTTCCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
17 1 0.05
18 10 0.53
19 8 0.42
ACGTcount: A:0.05, C:0.18, G:0.03, T:0.74
Consensus pattern (17 bp):
TCTTTTTCATTTCTTTT
Found at i:43903828 original size:47 final size:47
Alignment explanation
Indices: 43903776--43904273 Score: 780
Period size: 47 Copynumber: 10.6 Consensus size: 47
43903766 GATAATTGTG
* * *
43903776 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGA
* *
43903823 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGA
*
43903870 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGA
* *
43903917 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGA
*
43903964 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGA
*
43904011 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGA
*
43904058 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGA
* *
43904105 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGTCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGA
*
43904152 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATGA
* * * * * * *
43904201 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGTCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGA
*
43904248 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
43904274 TCCCGAAGGG
Statistics
Matches: 422, Mismatches: 27, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
47 378 0.90
49 44 0.10
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGA
Found at i:43904008 original size:22 final size:22
Alignment explanation
Indices: 43903980--43904055 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
43903970 AAGTGTATAT
43903980 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * ***
43904002 ATGTGATGAATG-TGAAAGTGTATA
1 ATGTGAT-AAGGCCG-AA-TGGCCA
43904026 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
43904049 ATGTGAT
1 ATGTGAT
43904056 GAATGTGAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 15 0.38
23 8 0.21
24 8 0.21
25 8 0.21
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:43914730 original size:23 final size:23
Alignment explanation
Indices: 43914681--43914733 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
43914671 AAACCTGTAT
43914681 TTAAAATGTTCAGCTAAAGACACA
1 TTAAAATGTTCAGCT-AAGACACA
* *
43914705 TTAAAATGTTGTAGCT-AGACATA
1 TTAAAATGTT-CAGCTAAGACACA
43914728 TTAAAA
1 TTAAAA
43914734 AAACAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 12 0.46
24 10 0.38
25 4 0.15
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.30
Consensus pattern (23 bp):
TTAAAATGTTCAGCTAAGACACA
Found at i:43917561 original size:15 final size:15
Alignment explanation
Indices: 43917543--43917574 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
43917533 TTCTCCATTT
43917543 TCTTTTTCTCTCATC
1 TCTTTTTCTCTCATC
*
43917558 TCTTTTTTTCTCATC
1 TCTTTTTCTCTCATC
43917573 TC
1 TC
43917575 GAGTTCGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.31, G:0.00, T:0.62
Consensus pattern (15 bp):
TCTTTTTCTCTCATC
Found at i:43920258 original size:49 final size:49
Alignment explanation
Indices: 43920198--43920521 Score: 253
Period size: 49 Copynumber: 6.4 Consensus size: 49
43920188 GCCATGTCCT
*
43920198 AGACATGGTCTTACGTGGGATGTTTCTTGTACTGCCAATGTCATATCCC
1 AGACATGGTCTTACATGGGATGTTTCTTGTACTGCCAATGTCATATCCC
* * * * *
43920247 AGATATAGTCTTACATGGGA-GTTCTCATATCG-GC-GCCCATGTCATGTCCC
1 AGACATGGTCTTACATGGGATGTT-TC-T-T-GTACTGCCAATGTCATATCCC
** ** * * * * * * *
43920297 AGACATGGTCTTACGGGGGACCTCTCATCTCAGTGCCAATGCCATGTCCT
1 AGACATGGTCTTACATGGGATGTTTCTTGT-ACTGCCAATGTCATATCCC
* *
43920347 AGACATGGTCTTACATGGGAACTCTCATGATCTCAATG-A-TGCCAATGTCATGTCCC
1 AGACATGGTCTTACATGGG-A-TGT--T--TCT---TGTACTGCCAATGTCATATCCC
* *
43920403 AAACATGGTCTTACATGGGATGTTTCTTATACTGCCAATGTCATATCCC
1 AGACATGGTCTTACATGGGATGTTTCTTGTACTGCCAATGTCATATCCC
** * *
43920452 AGGTATGGTCTTACATGAGATATTTCTTGTACTGCCAATGTCATATCCC
1 AGACATGGTCTTACATGGGATGTTTCTTGTACTGCCAATGTCATATCCC
*
43920501 AGATATGGTCTTACATGGGAT
1 AGACATGGTCTTACATGGGAT
43920522 TTCTCATATC
Statistics
Matches: 217, Mismatches: 39, Indels: 38
0.74 0.13 0.13
Matches are distributed among these distances:
47 1 0.00
48 5 0.02
49 97 0.45
50 66 0.30
51 4 0.02
52 4 0.02
54 2 0.01
55 1 0.00
56 35 0.16
57 1 0.00
59 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (49 bp):
AGACATGGTCTTACATGGGATGTTTCTTGTACTGCCAATGTCATATCCC
Found at i:43920297 original size:50 final size:50
Alignment explanation
Indices: 43920180--43920620 Score: 285
Period size: 50 Copynumber: 8.8 Consensus size: 50
43920170 TGATCATAAC
* * * *
43920180 ATGCCAAAGCCATGTCCTAGACATGGTCTTACGTGGGATGTT-TC-T-T-G
1 ATGCCAATGTCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATATCG
* * *
43920227 TACTGCCAATGTCATATCCCAGATATAGTCTTACATGGGAGTTCTCATATCG
1 -A-TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCG
** * ** ** *
43920279 GCGCCCATGTCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTC-
1 ATGCCAATGTCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCG
* * **
43920328 AGTGCCAATGCCATGTCCTAGACATGGTCTTACATGGGAACTCTCATGATCTCAATG
1 A-TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGAGTTCTCAT-A--TC---G
* *
43920385 ATGCCAATGTCATGTCCCAAACATGGTCTTACATGGGATGTT-TCTTAT--
1 ATGCCAATGTCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATATCG
* ** * *
43920433 ACTGCCAATGTCATATCCCAGGTATGGTCTTACATGAGA-TATTTC-T-T-G
1 A-TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGAGT-TCTCATATCG
* * *
43920481 TACTGCCAATGTCATATCCCAGATATGGTCTTACATGGGATTTCTCATATCG
1 -A-TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCG
* * * ** ** *
43920533 ATGCCCATGCCATGTCCCGGACATGGTCTTACGGGGGACCTCTCATCTCG
1 ATGCCAATGTCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCG
* *** *
43920583 GTGCCAACACCATGTCACAGACATGGTCTTACATGGGA
1 ATGCCAATGTCATGTCCCAGACATGGTCTTACATGGGA
43920621 TCTCTTTACC
Statistics
Matches: 311, Mismatches: 59, Indels: 44
0.75 0.14 0.11
Matches are distributed among these distances:
47 2 0.01
48 7 0.02
49 106 0.34
50 148 0.48
51 3 0.01
52 2 0.01
53 3 0.01
55 1 0.00
56 37 0.12
57 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.30
Consensus pattern (50 bp):
ATGCCAATGTCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCG
Found at i:43928070 original size:50 final size:50
Alignment explanation
Indices: 43927997--43928135 Score: 190
Period size: 49 Copynumber: 2.8 Consensus size: 50
43927987 TCTTGTACTA
* * * *
43927997 CCAATGTCATATCCCAGATATGGTCTTACATGGGAATTCTCATATCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGAACTCTCATATCGGTG
* * * *
43928047 CCCATGCCATGTCCCAGACATGGTCTTAC-GGGGACCTCTCATCTCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGAACTCTCATATCGGTG
*
43928096 CCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGAACTCT
43928136 TTACCCAAAT
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
49 44 0.57
50 33 0.43
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.28
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGAACTCTCATATCGGTG
Found at i:43931452 original size:14 final size:14
Alignment explanation
Indices: 43931433--43931460 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
43931423 AGTAAAAGTA
43931433 TCCAATGAATTAGC
1 TCCAATGAATTAGC
43931447 TCCAATGAATTAGC
1 TCCAATGAATTAGC
43931461 ATCGATTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (14 bp):
TCCAATGAATTAGC
Found at i:43936817 original size:45 final size:45
Alignment explanation
Indices: 43936718--43936826 Score: 123
Period size: 45 Copynumber: 2.4 Consensus size: 45
43936708 ATTATAATCT
* *
43936718 ATTAAAACCTAAGAT-TGAATTTATAAGAAAATTAAAATCTAAACC
1 ATTAAAACCTAAAATCT-AATTTATAAGAAAATTAAAATCTAAACA
* * * *
43936763 ACTATAACCTAAAATCTAATTTATAAGAAAGTTAAAAT-TTAACAA
1 ATTAAAACCTAAAATCTAATTTATAAGAAAATTAAAATCTAAAC-A
*
43936808 ATTAGAACCTAAAATCTAA
1 ATTAAAACCTAAAATCTAA
43936827 AAAGAACAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
44 4 0.07
45 49 0.91
46 1 0.02
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.29
Consensus pattern (45 bp):
ATTAAAACCTAAAATCTAATTTATAAGAAAATTAAAATCTAAACA
Found at i:43938406 original size:18 final size:18
Alignment explanation
Indices: 43938383--43938420 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
43938373 CCTTTCATGG
*
43938383 TTTTCACTTTCTTTCTTT
1 TTTTCACTTTCCTTCTTT
*
43938401 TTTTCATTTTCCTTCTTT
1 TTTTCACTTTCCTTCTTT
43938419 TT
1 TT
43938421 CTCTTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTCACTTTCCTTCTTT
Found at i:43944181 original size:25 final size:25
Alignment explanation
Indices: 43944089--43944183 Score: 70
Period size: 25 Copynumber: 3.8 Consensus size: 25
43944079 AGCTATAAAC
* *
43944089 GGTAAGCTCTTTCGAGCTGAAGTAA-T
1 GGTAAGCTCATACGAGCTGAA--AATT
* * *
43944115 AGTAAGCCCATACGAGCTGAGAATT
1 GGTAAGCTCATACGAGCTGAAAATT
*
43944140 GGTAAGCTC-TCATGAGCT-ACAAATT
1 GGTAAGCTCAT-ACGAGCTGA-AAATT
*
43944165 GGTGAGCTCATACGAGCTG
1 GGTAAGCTCATACGAGCTG
43944184 TGGTGTGTCC
Statistics
Matches: 53, Mismatches: 11, Indels: 10
0.72 0.15 0.14
Matches are distributed among these distances:
24 4 0.08
25 32 0.60
26 17 0.32
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.25
Consensus pattern (25 bp):
GGTAAGCTCATACGAGCTGAAAATT
Found at i:43944366 original size:15 final size:15
Alignment explanation
Indices: 43944348--43944378 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
43944338 GTTCACAAAC
43944348 ATATAATTCAATTTA
1 ATATAATTCAATTTA
43944363 ATATAATTCAATTTA
1 ATATAATTCAATTTA
43944378 A
1 A
43944379 AACATATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (15 bp):
ATATAATTCAATTTA
Found at i:43952907 original size:20 final size:20
Alignment explanation
Indices: 43952884--43952934 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
43952874 TTTTACTCTC
43952884 TTTTGTCATTTTTCCTTTCT
1 TTTTGTCATTTTTCCTTTCT
* * *
43952904 TTTTCTCATTTTTCTTTTTT
1 TTTTGTCATTTTTCCTTTCT
43952924 TTTTG-CATTTT
1 TTTTGTCATTTT
43952935 CATTATTTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 6 0.22
20 21 0.78
ACGTcount: A:0.06, C:0.16, G:0.04, T:0.75
Consensus pattern (20 bp):
TTTTGTCATTTTTCCTTTCT
Found at i:43952920 original size:19 final size:19
Alignment explanation
Indices: 43952858--43952925 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 19
43952848 TCGCATTCTT
43952858 TTTCTTTTTCAT-ATTTTT-
1 TTTCTTTTTC-TCATTTTTC
*
43952876 TTACTCTCTTTTGTCATTTTTCC
1 TT--TCT-TTTTCTCATTTTT-C
43952899 TTTCTTTTTCTCATTTTTC
1 TTTCTTTTTCTCATTTTTC
43952918 TTT-TTTTT
1 TTTCTTTTT
43952926 TTGCATTTTC
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
18 7 0.17
19 4 0.10
20 16 0.38
21 13 0.31
23 2 0.05
ACGTcount: A:0.07, C:0.18, G:0.01, T:0.74
Consensus pattern (19 bp):
TTTCTTTTTCTCATTTTTC
Found at i:43952932 original size:19 final size:21
Alignment explanation
Indices: 43952884--43952934 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 21
43952874 TTTTACTCTC
43952884 TTTTGTCATTTTTCCTTTCTTT
1 TTTTG-CATTTTTCCTTTCTTT
*
43952906 TTCT-CATTTTT-CTTT-TTT
1 TTTTGCATTTTTCCTTTCTTT
43952924 TTTTGCATTTT
1 TTTTGCATTTT
43952935 CATTATTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 6 0.23
19 10 0.38
20 7 0.27
22 3 0.12
ACGTcount: A:0.06, C:0.16, G:0.04, T:0.75
Consensus pattern (21 bp):
TTTTGCATTTTTCCTTTCTTT
Found at i:43963923 original size:25 final size:25
Alignment explanation
Indices: 43963870--43963923 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
43963860 ATTTTATTTT
* *
43963870 AATTATCTAATTTTTCAATTTATTG
1 AATTATCTAATTTTTCAATTAATTA
43963895 AATTAT-TAATATTTT-ATATTAATTA
1 AATTATCTAAT-TTTTCA-ATTAATTA
43963920 AATT
1 AATT
43963924 TTTGAGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.56
Consensus pattern (25 bp):
AATTATCTAATTTTTCAATTAATTA
Found at i:43967194 original size:60 final size:60
Alignment explanation
Indices: 43967101--43967215 Score: 230
Period size: 60 Copynumber: 1.9 Consensus size: 60
43967091 CCAAGAGCTG
43967101 ACCTAGGGAATTTTACAATATTAATCAAGTTAGGGACCATACATATTGATAAATTCAAAA
1 ACCTAGGGAATTTTACAATATTAATCAAGTTAGGGACCATACATATTGATAAATTCAAAA
43967161 ACCTAGGGAATTTTACAATATTAATCAAGTTAGGGACCATACATATTGATAAATT
1 ACCTAGGGAATTTTACAATATTAATCAAGTTAGGGACCATACATATTGATAAATT
43967216 TTTGAGTGAC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (60 bp):
ACCTAGGGAATTTTACAATATTAATCAAGTTAGGGACCATACATATTGATAAATTCAAAA
Found at i:43973958 original size:21 final size:21
Alignment explanation
Indices: 43973933--43973982 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
43973923 ATTGTTGAGA
43973933 AGGAAGTTGCTGCTGTAGAAG
1 AGGAAGTTGCTGCTGTAGAAG
*
43973954 AGGAAGTTGCTGTTGTAGAAG
1 AGGAAGTTGCTGCTGTAGAAG
43973975 AGGAAGTT
1 AGGAAGTT
43973983 ATTGCTGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.30, C:0.06, G:0.38, T:0.26
Consensus pattern (21 bp):
AGGAAGTTGCTGCTGTAGAAG
Found at i:43978840 original size:40 final size:40
Alignment explanation
Indices: 43978747--43978847 Score: 116
Period size: 40 Copynumber: 2.6 Consensus size: 40
43978737 AAAATCCTTG
* *
43978747 TTATAATTATTGTAATTATAA--TTTACGATCAAATATTA
1 TTATAATTATTGTAATTATAATTTTTACGATAAAACATTA
* * * *
43978785 CTATAATTATTGTAATTTTAATTTTTTCGGTAAAACATTA
1 TTATAATTATTGTAATTATAATTTTTACGATAAAACATTA
* *
43978825 TTATAATTATGGTAATTGTAATT
1 TTATAATTATTGTAATTATAATT
43978848 ATTATATTCG
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
38 19 0.37
40 33 0.63
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.50
Consensus pattern (40 bp):
TTATAATTATTGTAATTATAATTTTTACGATAAAACATTA
Found at i:43983081 original size:37 final size:37
Alignment explanation
Indices: 43983031--43983109 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
43983021 TTATTACGAA
* *
43983031 GTCTTACCCGGACATAA-TCTCCACACGGAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGGAGTCATCGG
*
43983068 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGGAGTCATCGG
43983105 GTCTT
1 GTCTT
43983110 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGGAGTCATCGG
Found at i:43983306 original size:47 final size:47
Alignment explanation
Indices: 43983228--43983591 Score: 548
Period size: 47 Copynumber: 7.6 Consensus size: 47
43983218 CCCTTCGGGA
* * * * * *
43983228 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
43983275 CCTGTCACATATGTACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43983322 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43983373 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43983420 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43983467 CTTATCACATATATACACTCTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43983514 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43983565 CTTATCACATATACACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
43983592 TATTCAAATA
Statistics
Matches: 292, Mismatches: 17, Indels: 16
0.90 0.05 0.05
Matches are distributed among these distances:
47 200 0.68
51 92 0.32
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43983530 original size:145 final size:142
Alignment explanation
Indices: 43983228--43983591 Score: 550
Period size: 145 Copynumber: 2.5 Consensus size: 142
43983218 CCCTTCGGGA
* * * * * * * * *
43983228 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATGTACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
43983293 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--A-ATATATACACTCTCACATTCATCA
43983358 CATCGGCCATTAGGC
128 CATCGGCCATTAGGC
*
43983373 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
43983438 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATACACTCTCACATTCATCACAT
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTCTCACATTCATCACAT
43983502 CGGCCATTAGGC
131 CGGCCATTAGGC
*
43983514 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
43983579 ACACTTTCACATT
62 ACACTTTCACATT
43983592 TATTCAAATA
Statistics
Matches: 202, Mismatches: 13, Indels: 8
0.91 0.06 0.04
Matches are distributed among these distances:
141 46 0.23
145 156 0.77
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (142 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTCTCACATTCATCACAT
CGGCCATTAGGC
Found at i:43983555 original size:192 final size:192
Alignment explanation
Indices: 43983228--43983591 Score: 620
Period size: 192 Copynumber: 1.9 Consensus size: 192
43983218 CCCTTCGGGA
* * * * * *
43983228 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATGTACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
*
43983293 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCA
66 TCTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCA
* *
43983358 CATCGGCCATTAGGCCTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
131 CATCGGCCATTAGGCCTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
43983420 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
43983485 TCTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCA
66 TCTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCA
43983550 CATCGGCCATTAGGCCTTATCACATATACACACTTTCACATT
131 CATCGGCCATTAGGCCTTATCACATATACACACTTTCACATT
43983592 TATTCAAATA
Statistics
Matches: 160, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
192 160 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (192 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TCTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCA
CATCGGCCATTAGGCCTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43987185 original size:40 final size:40
Alignment explanation
Indices: 43987141--43987295 Score: 143
Period size: 40 Copynumber: 3.9 Consensus size: 40
43987131 GAATACACGT
* * *
43987141 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
** * *
43987181 CACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * * * **
43987221 CACTAGCACGAATGCTCTTCAGAACTTAGTCCGGATATGGT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT-AA
* *
43987262 CACTTAGCAC-AAAGC-CTTCGGGACTTAGCCCGGA
1 CAC-CAGCACGAATGCTCTTCGGGACTTAGCCCGGA
43987296 CATCATTCAA
Statistics
Matches: 94, Mismatches: 19, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
40 80 0.85
41 8 0.09
42 6 0.06
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:43987646 original size:29 final size:29
Alignment explanation
Indices: 43987607--43987685 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
43987597 CTTAATAATC
*
43987607 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
43987637 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
43987666 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
43987686 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:43989642 original size:37 final size:37
Alignment explanation
Indices: 43989592--43989670 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
43989582 TTATTACGAA
* *
43989592 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
43989629 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
43989666 GTCTT
1 GTCTT
43989671 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:43989867 original size:47 final size:47
Alignment explanation
Indices: 43989789--43990246 Score: 736
Period size: 47 Copynumber: 9.6 Consensus size: 47
43989779 CCCTTCGGGA
* * * * * *
43989789 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43989836 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43989883 CTTATCACATATATACACTCTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43989930 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43989981 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43990028 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43990075 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43990122 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43990169 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43990220 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
43990247 TATTCAAATA
Statistics
Matches: 387, Mismatches: 16, Indels: 16
0.92 0.04 0.04
Matches are distributed among these distances:
47 294 0.76
51 93 0.24
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43990063 original size:145 final size:145
Alignment explanation
Indices: 43989800--43990234 Score: 707
Period size: 145 Copynumber: 3.0 Consensus size: 145
43989790 TTATCACATT
* * * * * * *
43989800 TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACACTTTCACATTCA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
*
43989865 TCACATCGGCCATTAGGCCTTATCACATATATACACTCTCACATTCATCACATCGGCCATTAGGC
66 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43989930 CTTATCACATATATA
131 CTTATCACATATATA
*
43989945 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACGCTTTCACATTCA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
*
43990010 TCACATCGGCCATTAGGCCTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
66 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43990075 CTTATCAC----ATA
131 CTTATCACATATATA
*
43990086 TATACACTTTCACATTCATCACATCGACCATTAGGCCTTATCACATATATACACTTTCACATTCA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
43990151 TCACATCGGCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATT
66 TCACATCGGCCATTAGGCCTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATT
43990216 AGGCCTTATCACATATATA
127 AGGCCTTATCACATATATA
43990235 CACTTTCACA
Statistics
Matches: 269, Mismatches: 13, Indels: 12
0.91 0.04 0.04
Matches are distributed among these distances:
141 92 0.34
145 174 0.65
149 3 0.01
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (145 bp):
TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
CTTATCACATATATA
Found at i:43990119 original size:192 final size:188
Alignment explanation
Indices: 43989789--43990246 Score: 736
Period size: 192 Copynumber: 2.4 Consensus size: 188
43989779 CCCTTCGGGA
* * * * * * * *
43989789 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
43989854 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTCTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTCTCACATTCATCACATC
*
43989919 GGCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 GACCATTAGGCCTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43989981 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
43990046 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTCTCACATTCATCACATC
43990111 GACCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 GACCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43990169 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
43990234 ACACTTTCACATT
62 ACACTTTCACATT
43990247 TATTCAAATA
Statistics
Matches: 248, Mismatches: 14, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
188 47 0.19
192 201 0.81
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (188 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTCTCACATTCATCACATC
GACCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Done.