Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 111 of 145
Found at i:37092198 original size:30 final size:30
Alignment explanation
Indices: 37092164--37092237 Score: 94
Period size: 30 Copynumber: 2.5 Consensus size: 30
37092154 ATATAATCCC
37092164 TAAAAATCAATTAAACCCTCCTAAAATAAT
1 TAAAAATCAATTAAACCCTCCTAAAATAAT
* ** *
37092194 TAAAAATCATTTAGGCCCTCGTAAAATAAT
1 TAAAAATCAATTAAACCCTCCTAAAATAAT
* *
37092224 AAAAAATTAATTAA
1 TAAAAATCAATTAA
37092238 CCTCTACACG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.53, C:0.15, G:0.04, T:0.28
Consensus pattern (30 bp):
TAAAAATCAATTAAACCCTCCTAAAATAAT
Found at i:37094689 original size:3 final size:3
Alignment explanation
Indices: 37094681--37094726 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
37094671 ACATGCTTTG
37094681 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
37094727 GGATTAGTTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.35, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:37097266 original size:22 final size:20
Alignment explanation
Indices: 37097213--37097270 Score: 50
Period size: 19 Copynumber: 2.9 Consensus size: 20
37097203 TAATTATTAG
*
37097213 ATTTTCATATTATGTTTACT
1 ATTTTCATTTTATGTTTACT
*
37097233 -TTTTC-TTATTATGTGGTTCCT
1 ATTTTCATT-TTATGT--TTACT
37097254 ATTTTCATTTTAT-TTTA
1 ATTTTCATTTTATGTTTA
37097271 TTTTATGTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 11
0.68 0.07 0.25
Matches are distributed among these distances:
18 1 0.03
19 13 0.43
21 5 0.17
22 9 0.30
23 2 0.07
ACGTcount: A:0.19, C:0.10, G:0.07, T:0.64
Consensus pattern (20 bp):
ATTTTCATTTTATGTTTACT
Found at i:37104305 original size:105 final size:105
Alignment explanation
Indices: 37104120--37104330 Score: 404
Period size: 105 Copynumber: 2.0 Consensus size: 105
37104110 TCTCTAAATG
37104120 TGTTATGAGTTCTAATCTCTAATGGGTGTGTTTTCTAAGGTTATAAAAGAACTTATTTATAGGCT
1 TGTTATGAGTTCTAATCTCTAATGGGTGTGTTTTCTAAGGTTATAAAAGAACTTATTTATAGGCT
*
37104185 AAATTAGTAGGTCAAATAAACTATGCTAATAAATGTTAAA
66 AAATTAGTAGATCAAATAAACTATGCTAATAAATGTTAAA
*
37104225 TGTTATGAGTTCTAATCTCTAATGGGTGTGTTTTCTAAGGTTGTAAAAGAACTTATTTATAGGCT
1 TGTTATGAGTTCTAATCTCTAATGGGTGTGTTTTCTAAGGTTATAAAAGAACTTATTTATAGGCT
37104290 AAATTAGTAGATCAAATAAACTATGCTAATAAATGTTAAA
66 AAATTAGTAGATCAAATAAACTATGCTAATAAATGTTAAA
37104330 T
1 T
37104331 ATATTATATT
Statistics
Matches: 104, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
105 104 1.00
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (105 bp):
TGTTATGAGTTCTAATCTCTAATGGGTGTGTTTTCTAAGGTTATAAAAGAACTTATTTATAGGCT
AAATTAGTAGATCAAATAAACTATGCTAATAAATGTTAAA
Found at i:37105074 original size:99 final size:100
Alignment explanation
Indices: 37104911--37105110 Score: 393
Period size: 99 Copynumber: 2.0 Consensus size: 100
37104901 GGCAAAACTG
37104911 AATTCTATTTTAAAAGCAAATTTGGCTTATGGCTATGCCCATTAGCTAGTGTTTATTTTTTATAT
1 AATTCTATTTTAAAAGCAAATTTGGCTTATGGCTATGCCCATTAGCTAGTGTTTATTTTTTATAT
37104976 ATTATAAAATATTAAAAAATTAT-ATTAAATTTAA
66 ATTATAAAATATTAAAAAATTATAATTAAATTTAA
37105010 AATTCTATTTTAAAAGCAAATTTGGCTTATGGCTATGCCCATTAGCTAGTGTTTATTTTTTATAT
1 AATTCTATTTTAAAAGCAAATTTGGCTTATGGCTATGCCCATTAGCTAGTGTTTATTTTTTATAT
37105075 ATTATAAAATATTAAAAAATTATAATTAAATTTAA
66 ATTATAAAATATTAAAAAATTATAATTAAATTTAA
37105110 A
1 A
37105111 CAAAATAAAT
Statistics
Matches: 100, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
99 88 0.88
100 12 0.12
ACGTcount: A:0.39, C:0.08, G:0.09, T:0.44
Consensus pattern (100 bp):
AATTCTATTTTAAAAGCAAATTTGGCTTATGGCTATGCCCATTAGCTAGTGTTTATTTTTTATAT
ATTATAAAATATTAAAAAATTATAATTAAATTTAA
Found at i:37107932 original size:22 final size:24
Alignment explanation
Indices: 37107894--37107942 Score: 59
Period size: 22 Copynumber: 2.1 Consensus size: 24
37107884 GTGTATATGT
*
37107894 ATATGTATTTACTAAAA-TA-AAA
1 ATATGTATGTACTAAAAGTATAAA
37107916 ATATGTATGTA-TAAAAAGTATAAA
1 ATATGTATGTACT-AAAAGTATAAA
37107940 ATA
1 ATA
37107943 CAAATAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 1 0.04
22 14 0.61
23 2 0.09
24 6 0.26
ACGTcount: A:0.55, C:0.02, G:0.08, T:0.35
Consensus pattern (24 bp):
ATATGTATGTACTAAAAGTATAAA
Found at i:37109833 original size:18 final size:18
Alignment explanation
Indices: 37109821--37109855 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
37109811 ATTTTGTATG
37109821 TTCTTAT-ATTTTTATAT
1 TTCTTATAATTTTTATAT
*
37109838 TTGTTATAATTTTTATAT
1 TTCTTATAATTTTTATAT
37109856 ATTTTGAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (18 bp):
TTCTTATAATTTTTATAT
Found at i:37109896 original size:21 final size:21
Alignment explanation
Indices: 37109872--37109911 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
37109862 AATTACTCTT
*
37109872 ATAAAATTTTATAATTTTTAG
1 ATAAAATTTCATAATTTTTAG
* *
37109893 ATAATATTTCATTATTTTT
1 ATAAAATTTCATAATTTTT
37109912 TAATAATCGT
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:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (21 bp):
ATAAAATTTCATAATTTTTAG
Found at i:37113569 original size:4 final size:4
Alignment explanation
Indices: 37113560--37113586 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
37113550 GAATAATATG
37113560 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
37113587 AATAATGACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:37114813 original size:89 final size:89
Alignment explanation
Indices: 37114656--37115387 Score: 1169
Period size: 89 Copynumber: 8.2 Consensus size: 89
37114646 TGAGCAGCAA
* *
37114656 AGATCAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATAT
1 AGATGAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAAATAT
37114721 TGTCTTCATATACTGGCGTGAAGT
66 TGTCTTCATATACTGGCGTGAAGT
* * * *
37114745 AGATGAAAGATAACAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAAATCT
1 AGATGAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAAATAT
*
37114810 TGTCTTCATGTACTGGCGTGAAGT
66 TGTCTTCATATACTGGCGTGAAGT
* *
37114834 AGATCAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATAT
1 AGATGAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAAATAT
37114899 TGTCTTCATATACTGGCGTGAAGT
66 TGTCTTCATATACTGGCGTGAAGT
* * * *
37114923 AGATGAAAGATAACAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAAATCT
1 AGATGAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAAATAT
*
37114988 TGTCTTCATGTACTGGCGTGAAGT
66 TGTCTTCATATACTGGCGTGAAGT
* *
37115012 AGATCAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATAT
1 AGATGAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAAATAT
37115077 TGTCTTCATATACTGGCGTGAAGT
66 TGTCTTCATATACTGGCGTGAAGT
* * * *
37115101 AGATGAAAGATAACAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAAATCT
1 AGATGAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAAATAT
*
37115166 TGTCTTCATGTACTGGCGTGAAGT
66 TGTCTTCATATACTGGCGTGAAGT
* *
37115190 AGATCAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATAT
1 AGATGAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAAATAT
37115255 TGTCTTCATATACTGGCGTGAAGT
66 TGTCTTCATATACTGGCGTGAAGT
* * * *
37115279 AGATGAAAGATAACAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAAATCT
1 AGATGAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAAATAT
* * *
37115344 TGTCTTCATGTATTGGCATGAAGT
66 TGTCTTCATATACTGGCGTGAAGT
*
37115368 AGATCG-AAGAAAGCAGATCT
1 AGAT-GAAAGAAAACAGATCT
37115388 ATCTCCCTGG
Statistics
Matches: 589, Mismatches: 53, Indels: 2
0.91 0.08 0.00
Matches are distributed among these distances:
89 588 1.00
90 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (89 bp):
AGATGAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAAATAT
TGTCTTCATATACTGGCGTGAAGT
Found at i:37114955 original size:178 final size:178
Alignment explanation
Indices: 37114656--37115387 Score: 1428
Period size: 178 Copynumber: 4.1 Consensus size: 178
37114646 TGAGCAGCAA
37114656 AGATCAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATAT
1 AGATCAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATAT
37114721 TGTCTTCATATACTGGCGTGAAGTAGATGAAAGATAACAGATCTTGTCTTCCCATATTGGTGGCG
66 TGTCTTCATATACTGGCGTGAAGTAGATGAAAGATAACAGATCTTGTCTTCCCATATTGGTGGCG
37114786 AAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTACTGGCGTGAAGT
131 AAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTACTGGCGTGAAGT
37114834 AGATCAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATAT
1 AGATCAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATAT
37114899 TGTCTTCATATACTGGCGTGAAGTAGATGAAAGATAACAGATCTTGTCTTCCCATATTGGTGGCG
66 TGTCTTCATATACTGGCGTGAAGTAGATGAAAGATAACAGATCTTGTCTTCCCATATTGGTGGCG
37114964 AAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTACTGGCGTGAAGT
131 AAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTACTGGCGTGAAGT
37115012 AGATCAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATAT
1 AGATCAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATAT
37115077 TGTCTTCATATACTGGCGTGAAGTAGATGAAAGATAACAGATCTTGTCTTCCCATATTGGTGGCG
66 TGTCTTCATATACTGGCGTGAAGTAGATGAAAGATAACAGATCTTGTCTTCCCATATTGGTGGCG
37115142 AAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTACTGGCGTGAAGT
131 AAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTACTGGCGTGAAGT
37115190 AGATCAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATAT
1 AGATCAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATAT
37115255 TGTCTTCATATACTGGCGTGAAGTAGATGAAAGATAACAGATCTTGTCTTCCCATATTGGTGGCG
66 TGTCTTCATATACTGGCGTGAAGTAGATGAAAGATAACAGATCTTGTCTTCCCATATTGGTGGCG
* *
37115320 AAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGGCATGAAGT
131 AAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTACTGGCGTGAAGT
* *
37115368 AGATCGAAGAAAGCAGATCT
1 AGATCAAAGAAAACAGATCT
37115388 ATCTCCCTGG
Statistics
Matches: 550, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
178 550 1.00
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (178 bp):
AGATCAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATAT
TGTCTTCATATACTGGCGTGAAGTAGATGAAAGATAACAGATCTTGTCTTCCCATATTGGTGGCG
AAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTACTGGCGTGAAGT
Found at i:37115472 original size:44 final size:43
Alignment explanation
Indices: 37115365--37115472 Score: 137
Period size: 44 Copynumber: 2.5 Consensus size: 43
37115355 ATTGGCATGA
* *
37115365 AGTAGATCGAAGAAAGCAGATCTATCTCCCTGGGCAGCAGTGG
1 AGTAGATCGAAGATAGCAGATCTATCTCCCTAGGCAGCAGTGG
* * *
37115408 AATAGATTGAAGATTA-CAGATCTTATCTCCCTAGGCAGTAGTGG
1 AGTAGATCGAAGA-TAGCAGATC-TATCTCCCTAGGCAGCAGTGG
*
37115452 AGTAGATCGAAGATGGCAGAT
1 AGTAGATCGAAGATAGCAGAT
37115473 TTTACTTCCC
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
43 18 0.33
44 36 0.67
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (43 bp):
AGTAGATCGAAGATAGCAGATCTATCTCCCTAGGCAGCAGTGG
Found at i:37116922 original size:3 final size:3
Alignment explanation
Indices: 37116916--37116965 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
37116906 ACTTTTTTTG
**
37116916 TTA TTA TTA TTA -TA TTA -TA CCA TTA TTA TTTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
*
37116960 ATA TTA
1 TTA TTA
37116966 CACTTTTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
2 4 0.10
3 32 0.82
4 3 0.08
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:37116956 original size:16 final size:17
Alignment explanation
Indices: 37116916--37116965 Score: 59
Period size: 16 Copynumber: 3.0 Consensus size: 17
37116906 ACTTTTTTTG
37116916 TTATTATTATTATATTA
1 TTATTATTATTATATTA
**
37116933 -TACCATTATTAT-TTA
1 TTATTATTATTATATTA
37116948 TTATTATTATTAATATTA
1 TTATTATTATT-ATATTA
37116966 CACTTTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
15 3 0.12
16 18 0.69
17 2 0.08
18 3 0.12
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (17 bp):
TTATTATTATTATATTA
Found at i:37116959 original size:19 final size:19
Alignment explanation
Indices: 37116916--37116965 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
37116906 ACTTTTTTTG
37116916 TTATTATTATTATATTATA
1 TTATTATTATTATATTATA
**
37116935 CCATTATTATT-TATTATTA
1 TTATTATTATTATATTA-TA
*
37116954 TTATTAATATTA
1 TTATTATTATTA
37116966 CACTTTTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (19 bp):
TTATTATTATTATATTATA
Found at i:37118340 original size:23 final size:23
Alignment explanation
Indices: 37118309--37118353 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
37118299 ATATAAAAGA
* *
37118309 ATGTTCATAAAAAAAATGTATAC
1 ATGTACATAAAAAAAATATATAC
*
37118332 ATGTACATATAAAAAATATATA
1 ATGTACATAAAAAAAATATATA
37118354 TAGGTTTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.31
Consensus pattern (23 bp):
ATGTACATAAAAAAAATATATAC
Found at i:37120123 original size:44 final size:44
Alignment explanation
Indices: 37120063--37120184 Score: 156
Period size: 44 Copynumber: 2.8 Consensus size: 44
37120053 ACCCGATGCG
* * * * *
37120063 ATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGT-GATTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATAGACTTTA
* *
37120107 ATCTGCTCCACTGCAACTTCAGGGAGATAGGATTATAGGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATAGACTTTA
*
37120151 ATCTGCTCCACTGCAACTTCAGGGAGACAAGATT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
37120185 TATATCTTCG
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
43 2 0.03
44 66 0.97
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.30
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATAGACTTTA
Found at i:37120237 original size:44 final size:45
Alignment explanation
Indices: 37120175--37121021 Score: 646
Period size: 44 Copynumber: 19.4 Consensus size: 45
37120165 AACTTCAGGG
*
37120175 AGACAAGAT-T-TATATCTTCGATCTACTTCATGCCAATACATGA
1 AGACAAGATCTGTCTATCTTCGATCTACTTCATGCCAATACATGA
* *
37120218 AGACAATATCTGTC-ATCTTCGATCTACTTCACGCCAATACATGA
1 AGACAAGATCTGTCTATCTTCGATCTACTTCATGCCAATACATGA
* *
37120262 AGACAAGATCTG-CTA-CATTTGATCTACTTCATGCCGATACATGA
1 AGACAAGATCTGTCTATC-TTCGATCTACTTCATGCCAATACATGA
* * *
37120306 AGACAAGATCT-TCTACCCTT-GATCTACTTTATGCCGATACATGA
1 AGACAAGATCTGTCTA-TCTTCGATCTACTTCATGCCAATACATGA
* * * *
37120350 AGACAAGATCCGT-TTTCTTTGATCTACTTCACGCCAATACATGA
1 AGACAAGATCTGTCTATCTTCGATCTACTTCATGCCAATACATGA
* * * * *
37120394 AGACAAGACCT-TCTACCTTTGATCTACTTTATGCCGATACATGA
1 AGACAAGATCTGTCTATCTTCGATCTACTTCATGCCAATACATGA
* **
37120438 AGACAAGATCTGT-TTTCTTCGATCTACTTCACACCAATACATGA
1 AGACAAGATCTGTCTATCTTCGATCTACTTCATGCCAATACATGA
* * * ** * *
37120482 AGAAAAGATCT-TCTACCTTTGATCTACTTCATATCGATATATGA
1 AGACAAGATCTGTCTATCTTCGATCTACTTCATGCCAATACATGA
* * *
37120526 AGACAAGAT-TCGT-TTTCTTCGATTTACTTCACGCCAATACATGA
1 AGACAAGATCT-GTCTATCTTCGATCTACTTCATGCCAATACATGA
* * * *
37120570 AGACAAGATCTG-CTACCTTTGATCTACTTCACGCCGATACATGA
1 AGACAAGATCTGTCTATCTTCGATCTACTTCATGCCAATACATGA
* * ** * ***
37120614 AGACAAGATCAGT-TTTCTTCGATCTACTTCACCACCAGTATGGGA
1 AGACAAGATCTGTCTATCTTCGATCTACTTCA-TGCCAATACATGA
* * * * * *
37120659 AGACAAGATCTG-CTATCTTCAATCCACTTCGCTACCAATATAGGA
1 AGACAAGATCTGTCTATCTTCGATCTACTTC-ATGCCAATACATGA
* * * * *
37120704 AGATAGGATTTG-CTTTCTTCGATCTACTTCACGCCAATACATGA
1 AGACAAGATCTGTCTATCTTCGATCTACTTCATGCCAATACATGA
* * * * ***
37120748 AGACAAGATTTG-CTTTCTTTGATCTACTTCACTACCAATATGGGA
1 AGACAAGATCTGTCTATCTTCGATCTACTTCA-TGCCAATACATGA
* * * * *
37120793 AGAC-A-A---G---ATCTTCGATCCACTTCCTACCAATATAGGA
1 AGACAAGATCTGTCTATCTTCGATCTACTTCATGCCAATACATGA
* **
37120830 AGACAGGATCTG-CTATCTTCGATCTACTTCACACCAATACATGA
1 AGACAAGATCTGTCTATCTTCGATCTACTTCATGCCAATACATGA
* * ***
37120874 AGACAAGATCTAT-TTTCTTCGATCTACTTC--GCCACCAGTATGGGA
1 AGACAAGATCTGTCTATCTTCGATCTACTTCATGCCA--A-TACATGA
* * * * * *
37120919 AGACAAGATCTG--TACCTTCGATCCACTTCCTACCAATATAGGA
1 AGACAAGATCTGTCTATCTTCGATCTACTTCATGCCAATACATGA
*
37120962 AGACAGGATCTG-CTATCTTCGATCTACTTCATGCCAATACATGA
1 AGACAAGATCTGTCTATCTTCGATCTACTTCATGCCAATACATGA
*
37121006 AGATAAGATCTG-CTAT
1 AGACAAGATCTGTCTAT
37121022 TTTTAACCTA
Statistics
Matches: 647, Mismatches: 122, Indels: 69
0.77 0.15 0.08
Matches are distributed among these distances:
37 16 0.02
38 13 0.02
39 1 0.00
40 1 0.00
42 4 0.01
43 34 0.05
44 474 0.73
45 100 0.15
46 4 0.01
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (45 bp):
AGACAAGATCTGTCTATCTTCGATCTACTTCATGCCAATACATGA
Found at i:37120346 original size:88 final size:88
Alignment explanation
Indices: 37120189--37121016 Score: 737
Period size: 88 Copynumber: 9.5 Consensus size: 88
37120179 AAGATTTATA
* * * * *
37120189 TCTTCGATCTACTTCATGCCAATACATGAAGACAATATCTGTC-ATCTTCGATCTACTTCACGCC
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT-TCTACCTTTGATCTACTTCATGCC
* *
37120253 AATACATGAAGACAAGATCTG-CT
65 GATACATGAAGACAAGATCTGTTT
* * * * * *
37120276 ACATTTGATCTACTTCATGCCGATACATGAAGACAAGATCTTCTACCCTTGATCTACTTTATGCC
1 TC-TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTTCTACCTTTGATCTACTTCATGCC
*
37120341 GATACATGAAGACAAGATCCGTTT
65 GATACATGAAGACAAGATCTGTTT
* * *
37120365 TCTTTGATCTACTTCACGCCAATACATGAAGACAAGACCTTCTACCTTTGATCTACTTTATGCCG
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTTCTACCTTTGATCTACTTCATGCCG
37120430 ATACATGAAGACAAGATCTGTTT
66 ATACATGAAGACAAGATCTGTTT
* * **
37120453 TCTTCGATCTACTTCACACCAATACATGAAGAAAAGATCTTCTACCTTTGATCTACTTCATATCG
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTTCTACCTTTGATCTACTTCATGCCG
*
37120518 ATATATGAAGACAAGAT-TCGTTT
66 ATACATGAAGACAAGATCT-GTTT
* * *
37120541 TCTTCGATTTACTTCACGCCAATACATGAAGACAAGATCTGCTACCTTTGATCTACTTCACGCCG
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTTCTACCTTTGATCTACTTCATGCCG
*
37120606 ATACATGAAGACAAGATCAGTTT
66 ATACATGAAGACAAGATCTGTTT
* * *** * * ** * * *
37120629 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATCTTCAATCCACTTCGCTAC
1 TCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTTCTACCTTTGATCTACTTC-ATGC
* * * * * * *
37120694 CAATATAGGAAGATAGGATTTGCTT
64 CGATACATGAAGACAAGATCTGTTT
** *
37120719 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGAT-TTGCTTTCTTTGATCTACTTCACTAC
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTT-CTACCTTTGATCTACTTCA-TGC
* ***
37120783 CAATATGGGAAGACAAGA-------
64 CGATACATGAAGACAAGATCTGTTT
* * * * * * * * **
37120801 TCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACACC
1 TCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTTCTACCTTTGATCTACTTCATGCC
* *
37120865 AATACATGAAGACAAGATCTATTT
65 GATACATGAAGACAAGATCTGTTT
* * * *** * * * * *
37120889 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATC-TGTACCTTCGATCCACTTCCTACC
1 TCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTTCTACCTTTGATCTACTTCATGCC
* * * * * *
37120953 AATATAGGAAGACAGGATCTGCTA
65 GATACATGAAGACAAGATCTGTTT
* *
37120977 TCTTCGATCTACTTCATGCCAATACATGAAGATAAGATCT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
37121017 GCTATTTTTA
Statistics
Matches: 614, Mismatches: 106, Indels: 41
0.81 0.14 0.05
Matches are distributed among these distances:
81 18 0.03
82 48 0.08
83 1 0.00
87 20 0.03
88 388 0.63
89 104 0.17
90 35 0.06
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.31
Consensus pattern (88 bp):
TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTTCTACCTTTGATCTACTTCATGCCG
ATACATGAAGACAAGATCTGTTT
Found at i:37120856 original size:82 final size:82
Alignment explanation
Indices: 37120719--37120972 Score: 246
Period size: 82 Copynumber: 3.0 Consensus size: 82
37120709 GGATTTGCTT
* * * * * *
37120719 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATTTGCTTTCTTTGATCTACTTCACTACC
1 TCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTACC
*
37120784 AATATGGGAAGACAAGA
66 AATATAGGAAGACAAGA
* *
37120801 TCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCAC-AC
1 TCTTCGATCTACTTCAC-ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTAC
* *
37120864 CAATACATGAAGACAAGATCTA
65 CAATATAGGAAGACAAG----A
* * * * *
37120886 TTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG-TACCTTCGATCCACTTC-C
1 ---TCTTCGATCTACTTC-ACACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
*
37120949 TACCAATATAGGAAGACAGGA
62 TACCAATATAGGAAGACAAGA
37120970 TCT
1 TCT
37120973 GCTATCTTCG
Statistics
Matches: 141, Mismatches: 20, Indels: 23
0.77 0.11 0.12
Matches are distributed among these distances:
81 20 0.14
82 51 0.36
84 1 0.01
85 1 0.01
87 1 0.01
88 45 0.32
89 21 0.15
90 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.29
Consensus pattern (82 bp):
TCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACTACC
AATATAGGAAGACAAGA
Found at i:37121016 original size:132 final size:132
Alignment explanation
Indices: 37120170--37121017 Score: 795
Period size: 132 Copynumber: 6.5 Consensus size: 132
37120160 ACTGCAACTT
* ** * * **
37120170 CAGGGAGACAAGAT-TTATATCTTCGATCTACTTCATGCCAATACATGAAGACAATATCTGTCAT
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTT
* * * * * * * * *
37120234 CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTACATTTGATCTACTTCATGCCGA
66 CTTCGATCTACTTCACACCAATATAGGAAGACAAGATCTGCTACCTTCGATCCACTTCCTACCAA
37120299 TA
131 TA
* * * * * * *
37120301 CATGAAGACAAGATCTTCTACCCTT-GATCTACTTTATGCCGATACATGAAGACAAGATCCGTTT
1 CAGGAAGACAAGATCTGCTA-TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
* * * * * * * * ** * *
37120365 TCTTTGATCTACTTCACGCCAATACATGAAGACAAGACCTTCTACCTTTGATCTACTTTATGCCG
65 TCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCTGCTACCTTCGATCCACTTCCTACCA
37120430 ATA
130 ATA
* * * * * *
37120433 CATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACACCAATACATGAAGAAAAGATCT-TCTA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGT-TT
* * * * * * * ** ** *
37120497 CCTTTGATCTACTTCATATCGATATATGAAGACAAGAT-TCGTTTTCTTCGATTTACTTCAC-GC
65 TCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCT-GCTACCTTCGATCCACTTC-CTAC
37120560 CAATA
128 CAATA
* * * * *
37120565 CATGAAGACAAGATCTGCTACCTTTGATCTACTTCACGCCGATACATGAAGACAAGATCAGTTTT
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTT
* * * *
37120630 CTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATCTTCAATCCACTTCGCTACC
66 CTTCGATCTACTTCA-CACCAATATAGGAAGACAAGATCTGCTACCTTCGATCCACTTC-CTACC
37120695 AATA
129 AATA
* * * * * * *
37120699 TAGGAAGATAGGATTTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATTTGCTTT
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTT
* *
37120764 CTTTGATCTACTTCACTACCAATATGGGAAGACAAGA-----T--CTTCGATCCACTTCCTACCA
66 CTTCGATCTACTTCAC-ACCAATATAGGAAGACAAGATCTGCTACCTTCGATCCACTTCCTACCA
37120822 ATA
130 ATA
* * * *
37120825 TAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTATTTT
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTT
* * *
37120890 CTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG-TACCTTCGATCCACTTCCTACCA
66 CTTCGATCTACTTC-ACACCAATATAGGAAGACAAGATCTGCTACCTTCGATCCACTTCCTACCA
37120954 ATA
130 ATA
* * * *
37120957 TAGGAAGACAGGATCTGCTATCTTCGATCTACTTCATGCCAATACATGAAGATAAGATCTG
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTG
37121018 CTATTTTTAA
Statistics
Matches: 604, Mismatches: 95, Indels: 35
0.82 0.13 0.05
Matches are distributed among these distances:
126 99 0.16
127 14 0.02
129 1 0.00
130 1 0.00
131 17 0.03
132 343 0.57
133 36 0.06
134 93 0.15
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (132 bp):
CAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTT
CTTCGATCTACTTCACACCAATATAGGAAGACAAGATCTGCTACCTTCGATCCACTTCCTACCAA
TA
Found at i:37130054 original size:18 final size:18
Alignment explanation
Indices: 37130033--37130067 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
37130023 TTTCTCTTTT
37130033 TCAATTT-TTTTCTCAATC
1 TCAATTTCTTTT-TCAATC
37130051 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTTTCAAT
37130068 TTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTCTTTTTCAATC
Found at i:37130187 original size:36 final size:36
Alignment explanation
Indices: 37130147--37130215 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
37130137 TTCGCTTTTG
* * *
37130147 TTTTCTTGTTGTTTTCTTTCAATTTCTTTTTCCACT
1 TTTTCTTGTTCTTCTCTTTCAATTTCTTGTTCCACT
*
37130183 TTTTCTTTTTCTTCTCTTTCAATTTCTTGTTCC
1 TTTTCTTGTTCTTCTCTTTCAATTTCTTGTTCC
37130216 TTTTCTTTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.07, C:0.22, G:0.04, T:0.67
Consensus pattern (36 bp):
TTTTCTTGTTCTTCTCTTTCAATTTCTTGTTCCACT
Found at i:37130225 original size:22 final size:21
Alignment explanation
Indices: 37130184--37130225 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
37130174 TTTTCCACTT
*
37130184 TTTCTTTTTCTTCTCTTTCAA
1 TTTCTTTTCCTTCTCTTTCAA
*
37130205 TTTCTTGTTCCTTTTCTTTCA
1 TTTCTT-TTCCTTCTCTTTCA
37130226 TCTTTCTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.07, C:0.24, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTCTTTTCCTTCTCTTTCAA
Found at i:37137505 original size:15 final size:15
Alignment explanation
Indices: 37137485--37137515 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
37137475 AGGGTTTCTG
37137485 ACTGTAATTTGGGCC
1 ACTGTAATTTGGGCC
*
37137500 ACTGTAGTTTGGGCC
1 ACTGTAATTTGGGCC
37137515 A
1 A
37137516 TTGTTATTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.32
Consensus pattern (15 bp):
ACTGTAATTTGGGCC
Found at i:37139927 original size:25 final size:25
Alignment explanation
Indices: 37139879--37139927 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
37139869 ACTGTTATTT
* * * *
37139879 TATTATATATTTCTATTATTTTTAG
1 TATTATAGATTGCTATCATATTTAG
37139904 TATTATAGATTGCTATCATATTTA
1 TATTATAGATTGCTATCATATTTA
37139928 TTTATATTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (25 bp):
TATTATAGATTGCTATCATATTTAG
Found at i:37140038 original size:27 final size:27
Alignment explanation
Indices: 37139971--37140038 Score: 68
Period size: 25 Copynumber: 2.6 Consensus size: 27
37139961 ATTTTACTAC
37139971 ATATTATTTTAAAATTACTTTTATATA
1 ATATTATTTTAAAATTACTTTTATATA
* * ** *
37139998 GTTTTA-TTCCAAATT-GTTTTATATA
1 ATATTATTTTAAAATTACTTTTATATA
37140023 ATAATTATTTTAAAAT
1 AT-ATTATTTTAAAAT
37140039 CATCCTATAC
Statistics
Matches: 30, Mismatches: 9, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
25 10 0.33
26 10 0.33
27 10 0.33
ACGTcount: A:0.38, C:0.04, G:0.03, T:0.54
Consensus pattern (27 bp):
ATATTATTTTAAAATTACTTTTATATA
Found at i:37147690 original size:5 final size:5
Alignment explanation
Indices: 37147680--37147705 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
37147670 TTGAGATTTA
37147680 TTATT TTATT TTATT TTATT TTATT T
1 TTATT TTATT TTATT TTATT TTATT T
37147706 AAACTTTAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:37161785 original size:23 final size:24
Alignment explanation
Indices: 37161759--37161828 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 24
37161749 TAATTCAAAA
37161759 AATATATA-ATATTTAAATAATTT
1 AATATATATATATTTAAATAATTT
* *
37161782 AATATA-ATATATATAAATTAATCT
1 AATATATATATATTTAAA-TAATTT
* * *
37161806 AATTTTTATATACTTAAATAATT
1 AATATATATATATTTAAATAATT
37161829 GATTAAGAGT
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
22 1 0.03
23 14 0.38
24 13 0.35
25 9 0.24
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (24 bp):
AATATATATATATTTAAATAATTT
Found at i:37169080 original size:7 final size:7
Alignment explanation
Indices: 37169068--37169102 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
37169058 TTTCTTTATT
37169068 TATTAAA
1 TATTAAA
37169075 TATTAAA
1 TATTAAA
37169082 TATTAAA
1 TATTAAA
37169089 TATTAAA
1 TATTAAA
37169096 TATTAAA
1 TATTAAA
37169103 AAAAAGTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
TATTAAA
Found at i:37180964 original size:2 final size:2
Alignment explanation
Indices: 37180957--37180990 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
37180947 TTTTGTCATT
37180957 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
37180991 ACATCACGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:37198810 original size:35 final size:35
Alignment explanation
Indices: 37198764--37198835 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
37198754 TAACTTGCTA
37198764 AATTTGAGAAAGTGACTAACCATTAATTATAATTT
1 AATTTGAGAAAGTGACTAACCATTAATTATAATTT
37198799 AATTTGAGAAAGTGACTAACCATTAATTATAATTT
1 AATTTGAGAAAGTGACTAACCATTAATTATAATTT
37198834 AA
1 AA
37198836 CTTTTTCTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.36
Consensus pattern (35 bp):
AATTTGAGAAAGTGACTAACCATTAATTATAATTT
Found at i:37199846 original size:4 final size:4
Alignment explanation
Indices: 37199837--37200079 Score: 486
Period size: 4 Copynumber: 60.8 Consensus size: 4
37199827 ACTCCCAACA
37199837 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
37199885 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
37199933 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
37199981 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
37200029 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
37200077 ATG
1 ATG
37200080 CTGCCCTTAC
Statistics
Matches: 239, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 239 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:37201853 original size:25 final size:23
Alignment explanation
Indices: 37201807--37201855 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
37201797 AAAAATAAAC
* *
37201807 AAAAAAATTCAAATGGTTATATT
1 AAAAAAATACAAATGGTAATATT
37201830 AAAAAAATACAAATGACGTAATATT
1 AAAAAAATACAAATG--GTAATATT
37201855 A
1 A
37201856 CTATTTCATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 14 0.64
25 8 0.36
ACGTcount: A:0.57, C:0.06, G:0.08, T:0.29
Consensus pattern (23 bp):
AAAAAAATACAAATGGTAATATT
Found at i:37202743 original size:7 final size:7
Alignment explanation
Indices: 37202731--37202757 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
37202721 CAGACAAGTA
37202731 TCGTCAC
1 TCGTCAC
37202738 TCGTCAC
1 TCGTCAC
37202745 TCGTCAC
1 TCGTCAC
37202752 TCGTCA
1 TCGTCA
37202758 TTACCATTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.41, G:0.15, T:0.30
Consensus pattern (7 bp):
TCGTCAC
Found at i:37205223 original size:16 final size:16
Alignment explanation
Indices: 37205202--37205235 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
37205192 TTTTAACTTT
*
37205202 AATTTTTCGTTTAACC
1 AATTTTCCGTTTAACC
37205218 AATTTTCCGTTTAACC
1 AATTTTCCGTTTAACC
37205234 AA
1 AA
37205236 ATAGAATAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.21, G:0.06, T:0.44
Consensus pattern (16 bp):
AATTTTCCGTTTAACC
Found at i:37209393 original size:98 final size:98
Alignment explanation
Indices: 37209252--37209448 Score: 322
Period size: 98 Copynumber: 2.0 Consensus size: 98
37209242 TTAAAAATTA
* * **
37209252 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCATGCCCTAACGTATTGGGTGTGATTTC
*
37209317 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATATTCTTTTAAAG
* * *
37209350 TAAATGAAATATTCCGTGTTTGAGATTCTAGAGGAATCATGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCATGCCCTAACGTATTGGGTGTGATTTC
37209415 TTAAATCTTGGATAAGTGGATATTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATATTCTTTTAAAG
37209448 T
1 T
37209449 TTTATTGTAC
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 91 1.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.38
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCATGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATATTCTTTTAAAG
Found at i:37221329 original size:45 final size:45
Alignment explanation
Indices: 37221278--37221396 Score: 136
Period size: 45 Copynumber: 2.6 Consensus size: 45
37221268 TCGCATCTAG
*
37221278 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACT-AAGCAAAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG-AAAGCAAA
* **
37221323 TCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGGCTGAAGATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACTGAAGAAAGCAAA
**
37221368 TCTTATCTCCCTGAAGTTGTGGTGGAGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCA
37221397 AATTAAAGCC
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
44 3 0.05
45 54 0.86
46 6 0.10
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGCAAA
Found at i:37221614 original size:44 final size:44
Alignment explanation
Indices: 37221476--37221811 Score: 190
Period size: 44 Copynumber: 7.7 Consensus size: 44
37221466 GCATCTAGTT
* * *
37221476 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAAGCA-AG-TC
1 TTATCTCCCTGAAGTTGCAGTGGAGTAGA-TTA--AAACCACAGATC
* * * * *
37221521 TTATC-CTCTTGAAGTTGCGGTGGAGCAGATTAAAGCCGATA-ATC
1 TTATCTC-CCTGAAGTTGCAGTGGAGTAGATTAAAACC-ACAGATC
* * * * *
37221565 CTATCTCCCTGAAGTTACAATGGAGTGGATTAAAACCTCAGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAACCACAGATC
* * * * *** * *
37221609 TTATCTCTCTAAAGATGCAG-AGAGTAGA-TCGTATC-TAG-TC
1 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAACCACAGATC
* * *
37221649 TTATCTCCCTGAAGTTACAGTGGAGTAGACTAAGCAA--AGCAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTAA--AACCA-CAGATC
* * ** *
37221694 TTATCTCCCTGAAGTTGCTGCGGAACAGATTAAAGCCGACA-ATC
1 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAACC-ACAGATC
* * * *
37221738 CTATCTCCCTGAAGTTGCAGTGGAGTGGATTATAACCACATATC
1 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAACCACAGATC
* *
37221782 TTATCTCTCTGAAGTTGCAGTAGAGTAGAT
1 TTATCTCCCTGAAGTTGCAGTGGAGTAGAT
37221812 CACATTGGGT
Statistics
Matches: 217, Mismatches: 57, Indels: 35
0.70 0.18 0.11
Matches are distributed among these distances:
40 18 0.08
41 9 0.04
42 7 0.03
43 12 0.06
44 113 0.52
45 57 0.26
46 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAACCACAGATC
Found at i:37221763 original size:89 final size:88
Alignment explanation
Indices: 37221477--37221763 Score: 262
Period size: 89 Copynumber: 3.3 Consensus size: 88
37221467 CATCTAGTTT
* * * * *
37221477 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAAGCAAGTCTTATC-CTCTTGAAGTTGCGG
1 TATCTCCCTGAAGTTACAGTGGAGTAGACTAAGCAAAGCAAATCTTATCTC-CCTGAAGTTGCAG
37221541 TGGAGCAGATTAAAGCCGATAATCC
65 -GGAGCAGATTAAAGCCGATAATCC
* * * ** * * * *
37221566 TATCTCCCTGAAGTTACAATGGAGTGGATTAA--AACCTCAGATCTTATCTCTCTAAAGATGCAG
1 TATCTCCCTGAAGTTACAGTGGAGTAGACTAAGCAA-AGCAAATCTTATCTCCCTGAAGTTGCAG
* * *** * * *
37221629 AGAGTAGATCGTA-TC--TAGTCT
65 GGAGCAGATTAAAGCCGATAATCC
*
37221650 TATCTCCCTGAAGTTACAGTGGAGTAGACTAAGCAAAGCAAATCTTATCTCCCTGAAGTTGCTGC
1 TATCTCCCTGAAGTTACAGTGGAGTAGACTAAGCAAAGCAAATCTTATCTCCCTGAAGTTGCAG-
* *
37221715 GGAACAGATTAAAGCCGACAATCC
65 GGAGCAGATTAAAGCCGATAATCC
*
37221739 TATCTCCCTGAAGTTGCAGTGGAGT
1 TATCTCCCTGAAGTTACAGTGGAGT
37221764 GGATTATAAC
Statistics
Matches: 147, Mismatches: 43, Indels: 16
0.71 0.21 0.08
Matches are distributed among these distances:
84 33 0.22
85 21 0.14
86 10 0.07
87 11 0.07
88 17 0.12
89 55 0.37
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (88 bp):
TATCTCCCTGAAGTTACAGTGGAGTAGACTAAGCAAAGCAAATCTTATCTCCCTGAAGTTGCAGG
GAGCAGATTAAAGCCGATAATCC
Found at i:37221932 original size:175 final size:172
Alignment explanation
Indices: 37221409--37221942 Score: 700
Period size: 173 Copynumber: 3.1 Consensus size: 172
37221399 TTAAAGCCGA
37221409 CAGTGGAGTGGATTAAATCCTCAGATCTTATCTCTCTGAAGATGCAGAGAGTAGATCGCATCTAG
1 CAGTGGAGTGGATTAAA-CCTCAGATCTTATCTCTCTGAAGATGCAGAGAGTAGATCGCATCTAG
* * *
37221474 TTTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAAGCAAGTCTTATCCTCTTGAAGTTGC
65 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGCAAAGCAAGTCTTATCCCCTTGAAGTTGC
* * *
37221539 GGT-GGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTA
130 TGTGGGA-CAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTG
* * *
37221582 CAATGGAGTGGATTAAAACCTCAGATCTTATCTCTCTAAAGATGCAGAGAGTAGATCGTATCTAG
1 CAGTGGAGTGGATT-AAACCTCAGATCTTATCTCTCTGAAGATGCAGAGAGTAGATCGCATCTAG
* *
37221647 TCTTATCTCCCTGAAGTTACAGTGGAGTAGACTAAGCAAAGCAAATCTTATCTCCC-TGAAGTTG
65 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGCAAAGCAAGTCTTATC-CCCTTGAAGTTG
* *
37221711 CTGCGGAACAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTG
129 CTGTGGGACAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTG
* * * *
37221755 CAGTGGAGTGGATTATAACCACATATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCACAT-TG
1 CAGTGGAGTGGATTA-AACCTCAGATCTTATCTCTCTGAAGATGCAG-AGAGTAGATCGCATCT-
* * * * *
37221819 GGTCTTAATCTCCTTGAAGTTGCAGTGGAGTAGAATCAAG-AAATCAAGTCTTATCCCCTTGAAA
63 AGTCTT-ATCTCCCTGAAGTTGCAGTGGAGTAGACT-AAGCAAAGCAAGTCTTATCCCCTTGAAG
* ** * *
37221883 TTGCTGTGGGACAGACTAAA-CATACCAATCCTATCTCCCCGACGTTG
126 TTGCTGTGGGACAGATTAAAGCCGA-CAATCCTATCTCCCTGAAGTTG
37221930 CAGTGGAGTGGAT
1 CAGTGGAGTGGAT
37221943 CGAGACACCA
Statistics
Matches: 317, Mismatches: 34, Indels: 18
0.86 0.09 0.05
Matches are distributed among these distances:
172 1 0.00
173 191 0.60
174 29 0.09
175 93 0.29
176 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (172 bp):
CAGTGGAGTGGATTAAACCTCAGATCTTATCTCTCTGAAGATGCAGAGAGTAGATCGCATCTAGT
CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGCAAAGCAAGTCTTATCCCCTTGAAGTTGCT
GTGGGACAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTG
Found at i:37226348 original size:6 final size:6
Alignment explanation
Indices: 37226337--37226362 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
37226327 AAAATTTTTC
37226337 AAAATA AAAATA AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AA
37226363 GCCACTGCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:37226694 original size:20 final size:20
Alignment explanation
Indices: 37226648--37226696 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
37226638 CAAATAAAAG
*
37226648 TTATAAAAAATATTAA-TTT
1 TTATAAAAAATATAAATTTT
*
37226667 TTAAATAAAAATATAAAATTTT
1 TTATA-AAAAATAT-AAATTTT
37226689 TTATAAAA
1 TTATAAAA
37226697 TCATAAGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 4 0.17
20 8 0.33
21 5 0.21
22 7 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TTATAAAAAATATAAATTTT
Found at i:37226711 original size:19 final size:18
Alignment explanation
Indices: 37226689--37226754 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 18
37226679 ATAAAATTTT
*
37226689 TTATAAAATCATAAGAAAA
1 TTATAAAATCGTAA-AAAA
37226708 TTATGAAAAAT-GTAAAGAAA
1 TTAT--AAAATCGTAAA-AAA
37226728 -TATAAAATTCGTAAAAAAA
1 TTATAAAA-TCGT-AAAAAA
37226747 TTATAAAA
1 TTATAAAA
37226755 ATTATTGTAC
Statistics
Matches: 39, Mismatches: 1, Indels: 13
0.74 0.02 0.25
Matches are distributed among these distances:
17 4 0.10
18 1 0.03
19 13 0.33
20 16 0.41
21 5 0.13
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.27
Consensus pattern (18 bp):
TTATAAAATCGTAAAAAA
Found at i:37226958 original size:18 final size:19
Alignment explanation
Indices: 37226922--37226958 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
37226912 GTTGAAGTAC
37226922 TTTTTTGATTCATTTTATA
1 TTTTTTGATTCATTTTATA
37226941 TTTTTT-ATT-ATTTCTATA
1 TTTTTTGATTCATTT-TATA
37226959 AATTTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.24
18 7 0.41
19 6 0.35
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.70
Consensus pattern (19 bp):
TTTTTTGATTCATTTTATA
Found at i:37227449 original size:19 final size:19
Alignment explanation
Indices: 37227417--37227458 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
37227407 AAAAATGGCA
37227417 GAAAGCAATAGAG-AGAGAT
1 GAAAGCAATAGAGAAGA-AT
* *
37227436 GAAAGCTATCGAGAAGAAT
1 GAAAGCAATAGAGAAGAAT
37227455 GAAA
1 GAAA
37227459 CTTGAGAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.52, C:0.07, G:0.29, T:0.12
Consensus pattern (19 bp):
GAAAGCAATAGAGAAGAAT
Found at i:37231427 original size:16 final size:16
Alignment explanation
Indices: 37231382--37231427 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
37231372 GTGACATTTA
*
37231382 AATATTTTATTGAAAT
1 AATATTTTATTTAAAT
*
37231398 AATATTTTAATTAAGAT
1 AATATTTTATTTAA-AT
37231415 AAT-TTTTATTTAA
1 AATATTTTATTTAA
37231428 TAAATTATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 21 0.81
17 5 0.19
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (16 bp):
AATATTTTATTTAAAT
Found at i:37232568 original size:26 final size:27
Alignment explanation
Indices: 37232531--37232581 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
37232521 ATTTTTCTCA
* *
37232531 TAAAATTTATAATAAAT-TAAAAATAT
1 TAAAATTGATAAAAAATATAAAAATAT
37232557 TAAAATTGATAAAAAATATAAAAAT
1 TAAAATTGATAAAAAATATAAAAAT
37232582 TTCTAACAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (27 bp):
TAAAATTGATAAAAAATATAAAAATAT
Found at i:37232592 original size:19 final size:19
Alignment explanation
Indices: 37232549--37232609 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
37232539 ATAATAAATT
*
37232549 AAAAATATTAAAATTGATA
1 AAAAATATAAAAATTGATA
**
37232568 AAAAATATAAAAATTTCTA
1 AAAAATATAAAAATTGATA
* *
37232587 ACAAATTATAACAATT-ATA
1 A-AAAATATAAAAATTGATA
37232606 AAAA
1 AAAA
37232610 TTAAAATTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
18 3 0.09
19 20 0.57
20 12 0.34
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.30
Consensus pattern (19 bp):
AAAAATATAAAAATTGATA
Found at i:37236946 original size:11 final size:11
Alignment explanation
Indices: 37236932--37236956 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
37236922 GTTGAAGGAG
37236932 GATTATAAAAT
1 GATTATAAAAT
37236943 GATTATAAAAT
1 GATTATAAAAT
37236954 GAT
1 GAT
37236957 CCTAACTACC
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:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (11 bp):
GATTATAAAAT
Found at i:37237910 original size:19 final size:19
Alignment explanation
Indices: 37237872--37237910 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
37237862 AATTGTGATT
*
37237872 TTTTTAAATAATTTTATAA
1 TTTTTAAATAATTGTATAA
37237891 TTTTTAAATTAATTGT-TAA
1 TTTTTAAA-TAATTGTATAA
37237910 T
1 T
37237911 GTGGCATACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (19 bp):
TTTTTAAATAATTGTATAA
Found at i:37243667 original size:40 final size:40
Alignment explanation
Indices: 37243580--37243689 Score: 134
Period size: 40 Copynumber: 2.7 Consensus size: 40
37243570 AGTACGAATT
*
37243580 ATTATACCGGC-CTGAAGCCTGCTAGGGCACTAAGCCCGACA
1 ATTACACCGGCAC-GAAGCCTGCTA-GGCACTAAGCCCGACA
* * *
37243621 ATTACACCGGTACGAAGCCTGCTAGGCATTAAGCCCGATA
1 ATTACACCGGCACGAAGCCTGCTAGGCACTAAGCCCGACA
*
37243661 GA-TACACTGGCACGAAGCCTGCTAGGCAC
1 -ATTACACCGGCACGAAGCCTGCTAGGCAC
37243690 AAGGCTTAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
40 38 0.63
41 21 0.35
42 1 0.02
ACGTcount: A:0.28, C:0.30, G:0.25, T:0.17
Consensus pattern (40 bp):
ATTACACCGGCACGAAGCCTGCTAGGCACTAAGCCCGACA
Found at i:37246267 original size:14 final size:14
Alignment explanation
Indices: 37246244--37246277 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
37246234 AAACTGCAGT
*
37246244 AATGATAAAGGTAC
1 AATGACAAAGGTAC
37246258 AATGACAAAGGTAC
1 AATGACAAAGGTAC
37246272 AATGAC
1 AATGAC
37246278 TATTGAGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.50, C:0.12, G:0.21, T:0.18
Consensus pattern (14 bp):
AATGACAAAGGTAC
Found at i:37248171 original size:24 final size:24
Alignment explanation
Indices: 37248141--37248188 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
37248131 GTCAAGCTGT
37248141 ACGTTGTGGTCAAGCCACTCAATA
1 ACGTTGTGGTCAAGCCACTCAATA
* *
37248165 ACATTGTGGCCAAGCCACTCAATA
1 ACGTTGTGGTCAAGCCACTCAATA
37248189 TCACAGGCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (24 bp):
ACGTTGTGGTCAAGCCACTCAATA
Found at i:37248236 original size:64 final size:63
Alignment explanation
Indices: 37248102--37248252 Score: 212
Period size: 64 Copynumber: 2.4 Consensus size: 63
37248092 ATAACACACC
* * * * * *
37248102 ACGTTGTGACCAAGCCACTCAATATCGCAGTCAAGCTGTACGTTGTGGTCAAGCCACTCAATA
1 ACGTTGTGGCCAAGCCACTCAATATCACAGGCAAACTGCACGTTATGGTCAAGCCACTCAATA
* *
37248165 ACATTGTGGCCAAGCCACTCAATATCACAGGCAAACTGCATCGTTATTGTCAAGCCACTCAATA
1 ACGTTGTGGCCAAGCCACTCAATATCACAGGCAAACTGCA-CGTTATGGTCAAGCCACTCAATA
*
37248229 GCGTTGTGGCCAAGCCACTCAATA
1 ACGTTGTGGCCAAGCCACTCAATA
37248253 ACGTTGTGGT
Statistics
Matches: 77, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
63 34 0.44
64 43 0.56
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (63 bp):
ACGTTGTGGCCAAGCCACTCAATATCACAGGCAAACTGCACGTTATGGTCAAGCCACTCAATA
Found at i:37248242 original size:24 final size:24
Alignment explanation
Indices: 37248215--37248273 Score: 100
Period size: 24 Copynumber: 2.5 Consensus size: 24
37248205 TCGTTATTGT
*
37248215 CAAGCCACTCAATAGCGTTGTGGC
1 CAAGCCACTCAATAACGTTGTGGC
*
37248239 CAAGCCACTCAATAACGTTGTGGT
1 CAAGCCACTCAATAACGTTGTGGC
37248263 CAAGCCACTCA
1 CAAGCCACTCA
37248274 TTATTGCAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (24 bp):
CAAGCCACTCAATAACGTTGTGGC
Found at i:37248412 original size:42 final size:42
Alignment explanation
Indices: 37248359--37248460 Score: 127
Period size: 42 Copynumber: 2.5 Consensus size: 42
37248349 ACAATATTTT
* *
37248359 TAGT-GACATGCTTAACATGTAAAT-TGAATTTATAATCAACA
1 TAGTCGACATGCTTAACATGCAAATCAG-ATTTATAATCAACA
* * * *
37248400 TAGTCGGCATGCTTAACATGCGAATCAGATTTATAATTAATA
1 TAGTCGACATGCTTAACATGCAAATCAGATTTATAATCAACA
37248442 TAGTCGACATGCTTAACAT
1 TAGTCGACATGCTTAACAT
37248461 ACGAATCATA
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
41 4 0.08
42 47 0.90
43 1 0.02
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (42 bp):
TAGTCGACATGCTTAACATGCAAATCAGATTTATAATCAACA
Found at i:37248466 original size:42 final size:42
Alignment explanation
Indices: 37248386--37248468 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
37248376 TGTAAATTGA
* *
37248386 ATTTATAATCAACATAGTCGGCATGCTTAACATGCGAATCAG
1 ATTTATAATCAACATAGTCGACATGCTTAACATACGAATCAG
* *
37248428 ATTTATAATTAATATAGTCGACATGCTTAACATACGAATCA
1 ATTTATAATCAACATAGTCGACATGCTTAACATACGAATCA
37248469 TATCTCAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (42 bp):
ATTTATAATCAACATAGTCGACATGCTTAACATACGAATCAG
Found at i:37250988 original size:16 final size:17
Alignment explanation
Indices: 37250969--37251005 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
37250959 ATAAACATTT
*
37250969 AAAACCTTAA-AAACCA
1 AAAACCCTAACAAACCA
37250985 AAAACCCTAACAAACCA
1 AAAACCCTAACAAACCA
37251002 AAAA
1 AAAA
37251006 ATTGTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.65, C:0.27, G:0.00, T:0.08
Consensus pattern (17 bp):
AAAACCCTAACAAACCA
Found at i:37255724 original size:8 final size:7
Alignment explanation
Indices: 37255708--37255763 Score: 53
Period size: 7 Copynumber: 8.0 Consensus size: 7
37255698 CCCTTTTTTT
37255708 ATTTT-A
1 ATTTTAA
37255714 ATTTTAAA
1 ATTTT-AA
37255722 ATTTTTAA
1 A-TTTTAA
* *
37255730 TTTTTAT
1 ATTTTAA
*
37255737 ATTTCAA
1 ATTTTAA
37255744 ATTTTAA
1 ATTTTAA
37255751 ATTTT-A
1 ATTTTAA
37255757 ATTTTAA
1 ATTTTAA
37255764 TTATTAGTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
6 11 0.28
7 21 0.52
8 4 0.10
9 4 0.10
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (7 bp):
ATTTTAA
Found at i:37255734 original size:22 final size:21
Alignment explanation
Indices: 37255708--37255763 Score: 76
Period size: 22 Copynumber: 2.6 Consensus size: 21
37255698 CCCTTTTTTT
*
37255708 ATTTTAATTTTAAAATTTTTA
1 ATTTTAATTTTAAAATTTTAA
* *
37255729 ATTTTTATATTTCAAATTTTAA
1 ATTTTAAT-TTTAAAATTTTAA
37255751 ATTTTAATTTTAA
1 ATTTTAATTTTAA
37255764 TTATTAGTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
21 11 0.38
22 18 0.62
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
ATTTTAATTTTAAAATTTTAA
Found at i:37256472 original size:24 final size:24
Alignment explanation
Indices: 37256445--37256508 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 24
37256435 TTTCTAGAAG
* * *
37256445 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTGATTAGCATAATAT
37256469 ATTTAGCATTGATTAGCATAATAT
1 ATTTAGCATTGATTAGCATAATAT
37256493 ATTT-GACATTGATTAG
1 ATTTAG-CATTGATTAG
37256509 AATTAGGTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
23 1 0.03
24 35 0.97
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.47
Consensus pattern (24 bp):
ATTTAGCATTGATTAGCATAATAT
Found at i:37259614 original size:26 final size:26
Alignment explanation
Indices: 37259578--37259630 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
37259568 ACCAGAGTGT
37259578 TTTATAGTCTCAAAAAAGGAGGACTA
1 TTTATAGTCTCAAAAAAGGAGGACTA
37259604 TTTATAGTCTCAAAAAAGGAGGACTA
1 TTTATAGTCTCAAAAAAGGAGGACTA
37259630 T
1 T
37259631 GTTTGCTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.28
Consensus pattern (26 bp):
TTTATAGTCTCAAAAAAGGAGGACTA
Found at i:37260948 original size:24 final size:24
Alignment explanation
Indices: 37260891--37260942 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
37260881 TTTCTAGAAG
* * *
37260891 ATTTAGTACTTATTAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
37260915 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
37260939 ATTT
1 ATTT
37260943 GACATTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.06, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:37260953 original size:24 final size:24
Alignment explanation
Indices: 37260902--37260954 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
37260892 TTTAGTACTT
* *
37260902 ATTAGTATAATATATTTAGCATTT
1 ATTAGCATAATATATTTAGCATTG
37260926 ATTAGCATAATATATTT-GACATTG
1 ATTAGCATAATATATTTAG-CATTG
37260950 ATTAG
1 ATTAG
37260955 AATTAGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 25 0.96
ACGTcount: A:0.38, C:0.06, G:0.11, T:0.45
Consensus pattern (24 bp):
ATTAGCATAATATATTTAGCATTG
Found at i:37268264 original size:12 final size:12
Alignment explanation
Indices: 37268247--37268273 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
37268237 CAAATTTTTT
37268247 TATACATATATA
1 TATACATATATA
37268259 TATACATATATA
1 TATACATATATA
37268271 TAT
1 TAT
37268274 TACTTTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (12 bp):
TATACATATATA
Found at i:37270097 original size:15 final size:15
Alignment explanation
Indices: 37270060--37270099 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
37270050 TGTTCTGCTC
* *
37270060 TGTTCTATTTTGCTT
1 TGTTCTGTTTTACTT
37270075 TGTTTCTGTTTTACTT
1 TG-TTCTGTTTTACTT
37270091 TGTTCTGTT
1 TGTTCTGTT
37270100 GTATTACATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.05, C:0.12, G:0.15, T:0.68
Consensus pattern (15 bp):
TGTTCTGTTTTACTT
Found at i:37270099 original size:21 final size:21
Alignment explanation
Indices: 37270049--37270099 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
37270039 TTGAATTGCA
* *
37270049 TTGTTCTG-CTCTGTTCTATT
1 TTGTTCTGTTTCTGTTCTACT
*
37270069 TTGCTT-TGTTTCTGTTTTACT
1 TTG-TTCTGTTTCTGTTCTACT
37270090 TTGTTCTGTT
1 TTGTTCTGTT
37270100 GTATTACATC
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.04, C:0.16, G:0.16, T:0.65
Consensus pattern (21 bp):
TTGTTCTGTTTCTGTTCTACT
Found at i:37279777 original size:5 final size:5
Alignment explanation
Indices: 37279769--37279797 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
37279759 TATATTTTGT
37279769 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
37279798 AAGGAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTC
Found at i:37281470 original size:39 final size:40
Alignment explanation
Indices: 37281325--37281476 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
37281315 AAACAGACTT
** * * *
37281325 TTAGCGGCGTTTGGATAAAAAACGCCTCTAAAAATCAATCT
1 TTAGCGGCGTTT-TCTAAAAAACGCCGCTAAAAATCAAGCA
* * * *
37281366 TTAGCGGCG-CTTCTAGAAAAACGCCGCTACAGATCAAGTA
1 TTAGCGGCGTTTTCTA-AAAAACGCCGCTAAAAATCAAGCA
*
37281406 TTCGCGGCGCTTTTCT-AAAAACGCCGCTAAAAATC-AGCA
1 TTAGCGGCG-TTTTCTAAAAAACGCCGCTAAAAATCAAGCA
* *
37281445 TTAGCGGCGTTTTCCAAAAAGCGCCGC-AAAAA
1 TTAGCGGCGTTTTCTAAAAAACGCCGCTAAAAA
37281477 CCTAAGCCCA
Statistics
Matches: 90, Mismatches: 17, Indels: 11
0.76 0.14 0.09
Matches are distributed among these distances:
38 10 0.11
39 23 0.26
40 44 0.49
41 9 0.10
42 4 0.04
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (40 bp):
TTAGCGGCGTTTTCTAAAAAACGCCGCTAAAAATCAAGCA
Found at i:37287985 original size:43 final size:43
Alignment explanation
Indices: 37287924--37288011 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
37287914 NNNNNNNNNN
* *
37287924 TATAGATCGTGGTCTTTAGCGGCGTTTGTTGGAAAAGCGTCGC
1 TATAGATCGTGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
37287967 TATAGATCGTGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
1 TATAGATCGTGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
37288010 TA
1 TA
37288012 AAGTTAGCGA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.19, C:0.17, G:0.33, T:0.31
Consensus pattern (43 bp):
TATAGATCGTGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
Found at i:37288085 original size:22 final size:22
Alignment explanation
Indices: 37288057--37288098 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
37288047 GGCGCTTCTC
*
37288057 AAAGCGCCGCTAAAGGCCTAAA
1 AAAGCGCCGCTAAAAGCCTAAA
37288079 AAAGCGCCGCTAAAAGCCTA
1 AAAGCGCCGCTAAAAGCCTA
37288099 TTTTGGTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.29, G:0.21, T:0.10
Consensus pattern (22 bp):
AAAGCGCCGCTAAAAGCCTAAA
Found at i:37290640 original size:26 final size:26
Alignment explanation
Indices: 37290602--37290663 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
37290592 ACATATTTTC
37290602 TCAAAATTTTACC-AGAGACAAAATCG
1 TCAAAATTTTACCAAG-GACAAAATCG
* *
37290628 TTAAAATTTTACCAAGGATAAAATCG
1 TCAAAATTTTACCAAGGACAAAATCG
*
37290654 TCAAGATTTT
1 TCAAAATTTT
37290664 GCTTGGGGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 29 0.94
27 2 0.06
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.31
Consensus pattern (26 bp):
TCAAAATTTTACCAAGGACAAAATCG
Found at i:37291051 original size:19 final size:19
Alignment explanation
Indices: 37291027--37291069 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
37291017 ATTTAGTATT
37291027 TAATTGTAATCTAAAATGA
1 TAATTGTAATCTAAAATGA
37291046 TAATTGTAATCTAAAATGA
1 TAATTGTAATCTAAAATGA
*
37291065 CAATT
1 TAATT
37291070 ACTCACCCTT
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:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (19 bp):
TAATTGTAATCTAAAATGA
Found at i:37292926 original size:23 final size:23
Alignment explanation
Indices: 37292900--37292943 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
37292890 CATTGCATCG
*
37292900 AAGTGCCACTTTTATTTGCACCA
1 AAGTGCCACTTTCATTTGCACCA
37292923 AAGTGCCACTTTCATTTGCAC
1 AAGTGCCACTTTCATTTGCAC
37292944 GCATAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.25, C:0.27, G:0.14, T:0.34
Consensus pattern (23 bp):
AAGTGCCACTTTCATTTGCACCA
Found at i:37296771 original size:91 final size:90
Alignment explanation
Indices: 37296612--37296778 Score: 280
Period size: 91 Copynumber: 1.8 Consensus size: 90
37296602 CTCCTGCTTA
* *
37296612 TGGATGAACCACAAGTGTTGTAGGTTAATACACTACCAGTAATTGTGAATACACAACGGATTTGC
1 TGGATAAACCACAAGTGTTGTAGGTTAATACACTACCAGTAATTGTGAATACACAACGGATTTAC
37296677 AGATAAAAGTTGCCATTAAATGTTG
66 AGATAAAAGTTGCCATTAAATGTTG
* * *
37296702 TGGATAAACCACAATTGTTTGTAGGTTAATACGCTACCAGTAATTGTGAATACACAATGGATTTA
1 TGGATAAACCACAAGTG-TTGTAGGTTAATACACTACCAGTAATTGTGAATACACAACGGATTTA
37296767 CAGATAAAAGTT
65 CAGATAAAAGTT
37296779 ACAAGTAAAA
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
90 15 0.21
91 56 0.79
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.30
Consensus pattern (90 bp):
TGGATAAACCACAAGTGTTGTAGGTTAATACACTACCAGTAATTGTGAATACACAACGGATTTAC
AGATAAAAGTTGCCATTAAATGTTG
Found at i:37327710 original size:21 final size:21
Alignment explanation
Indices: 37327686--37327753 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
37327676 ACTCATATGA
*
37327686 GTTTCAGTTTAACCCTTCTGG
1 GTTTCAATTTAACCCTTCTGG
* * *
37327707 GTTTCAATTCAACTCTTCTGA
1 GTTTCAATTTAACCCTTCTGG
* *
37327728 GCTTCAATTTAACCCTTATGG
1 GTTTCAATTTAACCCTTCTGG
37327749 GTTTC
1 GTTTC
37327754 CATTCAGCTC
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.43
Consensus pattern (21 bp):
GTTTCAATTTAACCCTTCTGG
Found at i:37327740 original size:42 final size:42
Alignment explanation
Indices: 37327675--37327795 Score: 134
Period size: 42 Copynumber: 2.9 Consensus size: 42
37327665 AGCTTCAGTT
* * * *
37327675 AACTCATATGAGTTTCAGTTTAACCCTTCTGGGTTTCAATTC
1 AACTCCTATGAGCTTCAATTTAACCCTTATGGGTTTCAATTC
* * *
37327717 AACTCTTCTGAGCTTCAATTTAACCCTTATGGGTTTCCATTC
1 AACTCCTATGAGCTTCAATTTAACCCTTATGGGTTTCAATTC
* ** * *
37327759 AGCTCCTATGAGCTTCTCTTCAACCCTTACGGGTTTC
1 AACTCCTATGAGCTTCAATTTAACCCTTATGGGTTTC
37327796 TGTTTAGCAC
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.21, C:0.26, G:0.14, T:0.39
Consensus pattern (42 bp):
AACTCCTATGAGCTTCAATTTAACCCTTATGGGTTTCAATTC
Found at i:37329984 original size:15 final size:16
Alignment explanation
Indices: 37329960--37329989 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
37329950 GCATTGGAAC
37329960 TTTTATTTTATTTTAT
1 TTTTATTTTATTTTAT
37329976 TTTTA-TTTATTTTA
1 TTTTATTTTATTTTA
37329990 CTTAGTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTATTTTATTTTAT
Found at i:37331708 original size:26 final size:26
Alignment explanation
Indices: 37331679--37331748 Score: 86
Period size: 26 Copynumber: 2.7 Consensus size: 26
37331669 TGCAGATACT
*
37331679 CCACAGCTTGTGTGAGCAGGCCCATC
1 CCACAGCTCGTGTGAGCAGGCCCATC
* * * *
37331705 CCACAACTCATGTGAACAGGCCCATT
1 CCACAGCTCGTGTGAGCAGGCCCATC
*
37331731 TCACAGCTCGTGTGAGCA
1 CCACAGCTCGTGTGAGCA
37331749 ATGATGTAAA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.24, C:0.33, G:0.23, T:0.20
Consensus pattern (26 bp):
CCACAGCTCGTGTGAGCAGGCCCATC
Found at i:37335341 original size:19 final size:19
Alignment explanation
Indices: 37335319--37335361 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
37335309 TATTAAGATG
37335319 AAATTAAT-ATATAAAAAA
1 AAATTAATAATATAAAAAA
* *
37335337 TAAATTAGTAATATAATAAA
1 -AAATTAATAATATAAAAAA
37335357 AAATT
1 AAATT
37335362 TCAAAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (19 bp):
AAATTAATAATATAAAAAA
Found at i:37336123 original size:135 final size:135
Alignment explanation
Indices: 37335881--37336150 Score: 522
Period size: 135 Copynumber: 2.0 Consensus size: 135
37335871 TTTTTTAGCT
* *
37335881 TGGAAAACTTTGAAAGGCCATAACTTTTCGCTCGGTTGTTCTTCTAGCGTTTCACGTATATTTTT
1 TGGAAAACTTTGAAAGGCCATAACTTTTCGCTCGGTTGTCCTTCTAGCCTTTCACGTATATTTTT
37335946 ATGGTTTCATTTGAAACCCAACTCGACCCAATATCAAAACTGACCCAACCCAATACTAAAGGAAA
66 ATGGTTTCATTTGAAACCCAACTCGACCCAATATCAAAACTGACCCAACCCAATACTAAAGGAAA
37336011 ACAAA
131 ACAAA
37336016 TGGAAAACTTTGAAAGGCCATAACTTTTCGCTCGGTTGTCCTTCTAGCCTTTCACGTATATTTTT
1 TGGAAAACTTTGAAAGGCCATAACTTTTCGCTCGGTTGTCCTTCTAGCCTTTCACGTATATTTTT
37336081 ATGGTTTCATTTGAAACCCAACTCGACCCAATATCAAAACTGACCCAACCCAATACTAAAGGAAA
66 ATGGTTTCATTTGAAACCCAACTCGACCCAATATCAAAACTGACCCAACCCAATACTAAAGGAAA
37336146 ACAAA
131 ACAAA
37336151 AGGGCAATTT
Statistics
Matches: 133, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
135 133 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (135 bp):
TGGAAAACTTTGAAAGGCCATAACTTTTCGCTCGGTTGTCCTTCTAGCCTTTCACGTATATTTTT
ATGGTTTCATTTGAAACCCAACTCGACCCAATATCAAAACTGACCCAACCCAATACTAAAGGAAA
ACAAA
Found at i:37339016 original size:16 final size:18
Alignment explanation
Indices: 37338995--37339032 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
37338985 ATATTAAGAT
37338995 AAAATTAAT-ATATAA-A
1 AAAATTAATAATATAATA
*
37339011 AAAATTAGTAATATAATA
1 AAAATTAATAATATAATA
37339029 AAAA
1 AAAA
37339033 ATTCAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (18 bp):
AAAATTAATAATATAATA
Found at i:37343283 original size:15 final size:15
Alignment explanation
Indices: 37343263--37343292 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
37343253 TGTCATATAG
37343263 ATTCAGAAGTTGTCT
1 ATTCAGAAGTTGTCT
37343278 ATTCAGAAGTTGTCT
1 ATTCAGAAGTTGTCT
37343293 TTCTTAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (15 bp):
ATTCAGAAGTTGTCT
Found at i:37343895 original size:91 final size:91
Alignment explanation
Indices: 37343740--37343947 Score: 319
Period size: 91 Copynumber: 2.3 Consensus size: 91
37343730 GACAGGTTCT
* ** * *
37343740 CTACAAACACTGGTGGTTTATCCACAAGTTTTACTGGTAGCTTTTATCTGCAAACCCATTGTGTA
1 CTACAAACACTTGTGGTTTATCCACAACATTTAATGGCAGCTTTTATCTGCAAACCCATTGTGTA
*
37343805 TTCACAACTACTGGTAGCGTATTAAC
66 TTCACAACTACTAGTAGCGTATTAAC
* *
37343831 CTACAAACAATTGTGGTTTATCCACAACATTTAATGGCAGCTTTTATCTGTAAACCCATTGTGTA
1 CTACAAACACTTGTGGTTTATCCACAACATTTAATGGCAGCTTTTATCTGCAAACCCATTGTGTA
*
37343896 TTCACAATTACTAGTAGCGTATTAAC
66 TTCACAACTACTAGTAGCGTATTAAC
*
37343922 CTAC-AACACTTGTGGTTCATCCACAA
1 CTACAAACACTTGTGGTTTATCCACAA
37343948 GCCCGAGATA
Statistics
Matches: 106, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
90 20 0.19
91 86 0.81
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (91 bp):
CTACAAACACTTGTGGTTTATCCACAACATTTAATGGCAGCTTTTATCTGCAAACCCATTGTGTA
TTCACAACTACTAGTAGCGTATTAAC
Found at i:37350063 original size:16 final size:16
Alignment explanation
Indices: 37350042--37350079 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
37350032 TTTGGTTCGC
37350042 TGTAATGGAATAAAGG
1 TGTAATGGAATAAAGG
*
37350058 TGTAATGGAATAGAGG
1 TGTAATGGAATAAAGG
*
37350074 CGTAAT
1 TGTAAT
37350080 AGTAATTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.03, G:0.32, T:0.26
Consensus pattern (16 bp):
TGTAATGGAATAAAGG
Found at i:37350112 original size:45 final size:44
Alignment explanation
Indices: 37350061--37350153 Score: 152
Period size: 44 Copynumber: 2.1 Consensus size: 44
37350051 ATAAAGGTGT
37350061 AATGGAATAGAGGCGTAATAGTAATTCAAT-TGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGT-ATTC-ATGTGTTTGGTTGAATGG
*
37350106 AATGGAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGTATTCATGTGTTTGGTTGAATGG
37350150 AATG
1 AATG
37350154 ATGTTGTAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.50
45 22 0.48
ACGTcount: A:0.31, C:0.04, G:0.30, T:0.34
Consensus pattern (44 bp):
AATGGAATAGAGGCGTAATAGTATTCATGTGTTTGGTTGAATGG
Found at i:37355788 original size:23 final size:23
Alignment explanation
Indices: 37355746--37355789 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
37355736 CCTACTGAAG
*
37355746 AACGGTAAGCTCTATTGAGCTAA
1 AACGGTAAGCTCTATAGAGCTAA
37355769 AACGGTAAGCTC-ATAAGAGCT
1 AACGGTAAGCTCTAT-AGAGCT
37355790 GATATATCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (23 bp):
AACGGTAAGCTCTATAGAGCTAA
Found at i:37367986 original size:18 final size:18
Alignment explanation
Indices: 37367949--37368010 Score: 67
Period size: 18 Copynumber: 3.4 Consensus size: 18
37367939 TCTTTCTAGT
37367949 TTATTTTTATTT-ATTAAA
1 TTATTTTTATTTAATT-AA
37367967 TTATTTTTATTTAATTAA
1 TTATTTTTATTTAATTAA
*
37367985 TT-TTTATT-TTTAAATTTA
1 TTATTT-TTATTT-AATTAA
37368003 TTATTTTT
1 TTATTTTT
37368011 CATTATCTCA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
17 6 0.15
18 27 0.69
19 6 0.15
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TTATTTTTATTTAATTAA
Found at i:37367987 original size:15 final size:14
Alignment explanation
Indices: 37367958--37367993 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
37367948 TTTATTTTTA
*
37367958 TTTATTAAATTATT
1 TTTATTTAATTATT
37367972 TTTATTTAATTAATT
1 TTTATTTAATT-ATT
37367987 TTTATTT
1 TTTATTT
37367994 TTAAATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTATTTAATTATT
Found at i:37368006 original size:15 final size:14
Alignment explanation
Indices: 37367951--37368010 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 14
37367941 TTTCTAGTTT
37367951 ATTTTTATTTATTAA
1 ATTTTTATTT-TTAA
37367966 ATTATTT-TTATTTAATTA
1 ATT-TTTATT-TTT-A--A
37367984 ATTTTTATTTTTAA
1 ATTTTTATTTTTAA
37367998 ATTTATTATTTTT
1 ATTT-TTATTTTT
37368011 CATTATCTCA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
14 5 0.13
15 15 0.39
16 6 0.16
17 6 0.16
18 6 0.16
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
ATTTTTATTTTTAA
Found at i:37368010 original size:21 final size:21
Alignment explanation
Indices: 37367948--37367996 Score: 68
Period size: 18 Copynumber: 2.5 Consensus size: 21
37367938 TTCTTTCTAG
37367948 TTTATTTTTATTT-ATTAA--
1 TTTATTTTTATTTAATTAATT
*
37367966 ATTATTTTTATTTAATTAATT
1 TTTATTTTTATTTAATTAATT
37367987 TTTATTTTTA
1 TTTATTTTTA
37367997 AATTTATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 12 0.46
19 5 0.19
21 9 0.35
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTATTTTTATTTAATTAATT
Found at i:37371754 original size:16 final size:18
Alignment explanation
Indices: 37371733--37371769 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
37371723 TATTAAGATG
37371733 AAATTAAT-ATATAA-AA
1 AAATTAATAATATAATAA
*
37371749 AAATTAGTAATATAATAA
1 AAATTAATAATATAATAA
37371767 AAA
1 AAA
37371770 ATTCAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 6 0.33
18 5 0.28
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (18 bp):
AAATTAATAATATAATAA
Found at i:37372109 original size:13 final size:13
Alignment explanation
Indices: 37372091--37372115 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37372081 GAATTTACGA
37372091 AAATTAACAAATC
1 AAATTAACAAATC
37372104 AAATTAACAAAT
1 AAATTAACAAAT
37372116 TTATTATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATTAACAAATC
Found at i:37375786 original size:23 final size:23
Alignment explanation
Indices: 37375751--37375794 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
37375741 AGGCAAACCT
*
37375751 AAAACCTACATAAACT-CAATCC
1 AAAACATACATAAACTACAATCC
37375773 AAAACATACCATAAACTACAAT
1 AAAACATA-CATAAACTACAAT
37375795 TCACCATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 8 0.42
24 4 0.21
ACGTcount: A:0.55, C:0.27, G:0.00, T:0.18
Consensus pattern (23 bp):
AAAACATACATAAACTACAATCC
Found at i:37378941 original size:32 final size:32
Alignment explanation
Indices: 37378900--37378966 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
37378890 GATAAGTGGC
37378900 ACTGTAAGAACATTTACATTGCGAGAAAGATA
1 ACTGTAAGAACATTTACATTGCGAGAAAGATA
37378932 ACTGTAAGAACATTTACATTGCGAGAAAGATA
1 ACTGTAAGAACATTTACATTGCGAGAAAGATA
37378964 ACT
1 ACT
37378967 TACTTTAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.43, C:0.13, G:0.18, T:0.25
Consensus pattern (32 bp):
ACTGTAAGAACATTTACATTGCGAGAAAGATA
Found at i:37380479 original size:37 final size:37
Alignment explanation
Indices: 37380383--37380481 Score: 96
Period size: 37 Copynumber: 2.7 Consensus size: 37
37380373 AAGAATTTAA
* *
37380383 TATTATATTAAATTAA-ATTTAATATTTATCTAGATAT
1 TATTTTATTAATTTAATA-TTAATATTTATCTAGATAT
* * * *
37380420 TAATATGA-GATATTTAAT-TTAATATTTATCTATATAT
1 T-ATTTTATTA-ATTTAATATTAATATTTATCTAGATAT
37380457 TATTTTATTAATTTAATATTAATAT
1 TATTTTATTAATTTAATATTAATAT
37380482 GATTAATTCT
Statistics
Matches: 48, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
36 11 0.23
37 29 0.60
38 8 0.17
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (37 bp):
TATTTTATTAATTTAATATTAATATTTATCTAGATAT
Found at i:37387663 original size:22 final size:22
Alignment explanation
Indices: 37387635--37387687 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
37387625 AAACTTCCGT
37387635 AGCATGTCATGCATATATT-GG-A
1 AGCATGTCAT--ATATATTAGGTA
37387657 AGCATGTCATATATATTAGGTA
1 AGCATGTCATATATATTAGGTA
*
37387679 AGAATGTCA
1 AGCATGTCA
37387688 CTAGAACTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 7 0.25
21 2 0.07
22 19 0.68
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (22 bp):
AGCATGTCATATATATTAGGTA
Found at i:37400644 original size:1 final size:1
Alignment explanation
Indices: 37400638--37400662 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
37400628 TCTCCTTTCC
37400638 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
37400663 GTTGTTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:37405951 original size:29 final size:29
Alignment explanation
Indices: 37405918--37405979 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 29
37405908 TATCATGAAA
*
37405918 ATAAAAG-CCC-AAATAAAATCATAAAGTCC
1 ATAAAAGTCCCAAAATAAAAT-AT-AAGCCC
37405947 ATAAAAGTCCCAAAATAAAATATAAGCCC
1 ATAAAAGTCCCAAAATAAAATATAAGCCC
37405976 ATAA
1 ATAA
37405980 TCATGAAAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 16 0.53
30 5 0.17
31 9 0.30
ACGTcount: A:0.56, C:0.19, G:0.06, T:0.18
Consensus pattern (29 bp):
ATAAAAGTCCCAAAATAAAATATAAGCCC
Found at i:37406987 original size:5 final size:5
Alignment explanation
Indices: 37406977--37407003 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
37406967 GTAATTTGAT
37406977 AATTA AATTA AATTA AATTA AATTA AA
1 AATTA AATTA AATTA AATTA AATTA AA
37407004 ACCAAAATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
AATTA
Found at i:37407197 original size:5 final size:5
Alignment explanation
Indices: 37407187--37407213 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
37407177 GTAATTTGAT
37407187 AATTA AATTA AATTA AATTA AATTA AA
1 AATTA AATTA AATTA AATTA AATTA AA
37407214 ACCAAAATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
AATTA
Found at i:37407262 original size:210 final size:211
Alignment explanation
Indices: 37406900--37407321 Score: 837
Period size: 210 Copynumber: 2.0 Consensus size: 211
37406890 TGCCATATAT
37406900 TTATGTGATGGACAAATATGGACATGACTTTGGTGTTTTATTTATTTTTTTAACTAAGGGCAAAA
1 TTATGTGATGGACAAATATGGACATGACTTTGGTGTTTTATTTATTTTTTTAACTAAGGGCAAAA
37406965 TGGTAATTTGATAATTAAATTAAATTAAATTAAATTAAAACCAAAATGTTTATATTCATTTTGGT
66 TGGTAATTTGATAATTAAATTAAATTAAATTAAATTAAAACCAAAATGTTTATATTCATTTTGGT
37407030 GTCTTCTTCTTCACGAATGAAAAAAAGAAAGAAAGAAACCATGGAAGCATCAAGTTTCGGCCATT
131 GTCTTCTTCTTCACGAATGAAAAAAAGAAAGAAAGAAACCATGGAAGCATCAAGTTTCGGCCATT
37407095 CTTTT-ATGGTGCATG
196 CTTTTGATGGTGCATG
37407110 TTATGTGATGGACAAATATGGACATGACTTTGGTGTTTTATTTATTTTTTTAACTAAGGGCAAAA
1 TTATGTGATGGACAAATATGGACATGACTTTGGTGTTTTATTTATTTTTTTAACTAAGGGCAAAA
37407175 TGGTAATTTGATAATTAAATTAAATTAAATTAAATTAAAACCAAAATGTTTATATTCATTTTGGT
66 TGGTAATTTGATAATTAAATTAAATTAAATTAAATTAAAACCAAAATGTTTATATTCATTTTGGT
37407240 GTCTTCTTCTTCACGAATGAAAAAAAGAAAGAAAGAAACCATGGAAGCATCAAGTTTCGGCCATT
131 GTCTTCTTCTTCACGAATGAAAAAAAGAAAGAAAGAAACCATGGAAGCATCAAGTTTCGGCCATT
37407305 CTTTTGATGGTGCATG
196 CTTTTGATGGTGCATG
37407321 T
1 T
37407322 AAGTTCAATT
Statistics
Matches: 211, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
210 200 0.95
211 11 0.05
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (211 bp):
TTATGTGATGGACAAATATGGACATGACTTTGGTGTTTTATTTATTTTTTTAACTAAGGGCAAAA
TGGTAATTTGATAATTAAATTAAATTAAATTAAATTAAAACCAAAATGTTTATATTCATTTTGGT
GTCTTCTTCTTCACGAATGAAAAAAAGAAAGAAAGAAACCATGGAAGCATCAAGTTTCGGCCATT
CTTTTGATGGTGCATG
Found at i:37419104 original size:9 final size:9
Alignment explanation
Indices: 37419090--37419114 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
37419080 GTGTGGGAAA
37419090 ATTTTGTGT
1 ATTTTGTGT
37419099 ATTTTGTGT
1 ATTTTGTGT
37419108 ATTTTGT
1 ATTTTGT
37419115 ATTTTATGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.20, T:0.68
Consensus pattern (9 bp):
ATTTTGTGT
Found at i:37420345 original size:41 final size:41
Alignment explanation
Indices: 37420290--37420490 Score: 258
Period size: 41 Copynumber: 4.9 Consensus size: 41
37420280 GAAGGCTTAT
* * *
37420290 TGCCAGTGAGACAATTCAGACTCTATGTCTAGCAGGCTGGA
1 TGCCGGTGAAACAATTCAGACTTTATGTCTAGCAGGCTGGA
* * * *
37420331 TGCCGGTGAAACAATGCAGACTCTATGTCTAGAATGCTGGA
1 TGCCGGTGAAACAATTCAGACTTTATGTCTAGCAGGCTGGA
* *
37420372 TGCTGGTGAAACAATTCAGACTTTATGTCTAGCAGGCTTGA
1 TGCCGGTGAAACAATTCAGACTTTATGTCTAGCAGGCTGGA
* * *
37420413 TGCCGGTGAAATAATTCAGAGTTTATGTCTAGCAGGCTTGA
1 TGCCGGTGAAACAATTCAGACTTTATGTCTAGCAGGCTGGA
* * * *
37420454 TGCCAGTGAAACATTTCGGACTTTAAGTCTAGCAGGC
1 TGCCGGTGAAACAATTCAGACTTTATGTCTAGCAGGC
37420491 CAAAAGCCGG
Statistics
Matches: 140, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 140 1.00
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (41 bp):
TGCCGGTGAAACAATTCAGACTTTATGTCTAGCAGGCTGGA
Found at i:37430563 original size:19 final size:19
Alignment explanation
Indices: 37430536--37430573 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
37430526 ATTTAGTATT
* *
37430536 TAATTGTAATCTAAAATGA
1 TAATCGTAATCCAAAATGA
37430555 TAATCGTAATCCAAAATGA
1 TAATCGTAATCCAAAATGA
37430574 CAATTACTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.32
Consensus pattern (19 bp):
TAATCGTAATCCAAAATGA
Found at i:37434403 original size:91 final size:90
Alignment explanation
Indices: 37434245--37434412 Score: 273
Period size: 91 Copynumber: 1.9 Consensus size: 90
37434235 ACACTCCTGC
* * *
37434245 TTGTGGATGAACCACAAGTGTTGTAAGTTAATACGCTACCAGTAATTGTGAATACACAACGGGTT
1 TTGTGGATAAACCACAAGTGTTGTAAGTTAATACACTACCAGTAATTGTGAATACACAACGGATT
37434310 TGCAGATAAAAGCTGCCATTAAATG
66 TGCAGATAAAAGCTGCCATTAAATG
* * *
37434335 TTGTGGATAAACCACAATTGTTTGTAGGTTAATACACTACCAGTAATTGTGAATACACAATGGAT
1 TTGTGGATAAACCACAAGTG-TTGTAAGTTAATACACTACCAGTAATTGTGAATACACAACGGAT
37434400 TTGCAGATAAAAG
65 TTGCAGATAAAAG
37434413 TTACCAGTAA
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
90 18 0.25
91 53 0.75
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (90 bp):
TTGTGGATAAACCACAAGTGTTGTAAGTTAATACACTACCAGTAATTGTGAATACACAACGGATT
TGCAGATAAAAGCTGCCATTAAATG
Found at i:37437822 original size:19 final size:20
Alignment explanation
Indices: 37437799--37437867 Score: 65
Period size: 19 Copynumber: 3.5 Consensus size: 20
37437789 AAGTCAATTT
37437799 GTATCGATACCTTTATAAT-
1 GTATCGATACCTTTATAATA
*
37437818 GTATCGAT-CC-TTAGGAATAA
1 GTATCGATACCTTTA-TAAT-A
* *
37437838 GTATCGATA-CTTTATACTG
1 GTATCGATACCTTTATAATA
37437857 GTATCGATACC
1 GTATCGATACC
37437868 AAATTGGCAT
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
17 3 0.08
18 5 0.12
19 17 0.43
20 12 0.30
21 3 0.08
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.36
Consensus pattern (20 bp):
GTATCGATACCTTTATAATA
Found at i:37440722 original size:106 final size:107
Alignment explanation
Indices: 37440563--37440784 Score: 315
Period size: 106 Copynumber: 2.1 Consensus size: 107
37440553 CCCTAAAATA
** *
37440563 GGTAAAATAACTGAAATACCCCTATAGGAGAAAATAATTGAAATACCCTCATAGGGTAAAATAAC
1 GGTAAAATAACCAAAATACCCC-ATAGGAGAAAATAACTGAAATACCCTCATAGGGTAAAATAAC
* *
37440628 TGAAATACCCCTATAGAATAAATTGACCGAAATACCACCATAG
65 TGAAATACCCCCATAGAATAAAATGACCGAAATACCACCATAG
*
37440671 GGTAAAATAACCAAAATACCCC-TAGG-GTAAAATAACTGAAATATCCC-CATAGGGTAAAATGA
1 GGTAAAATAACCAAAATACCCCATAGGAG-AAAATAACTGAAATA-CCCTCATAGGGTAAAATAA
** *
37440733 CTGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAG
64 CTGAAATACCCCCATAGAATAAAATGACCGAAATACCACCATAG
37440777 GGTAAAAT
1 GGTAAAAT
37440785 GATTGTTATA
Statistics
Matches: 103, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
105 1 0.01
106 79 0.77
107 3 0.03
108 20 0.19
ACGTcount: A:0.45, C:0.20, G:0.15, T:0.20
Consensus pattern (107 bp):
GGTAAAATAACCAAAATACCCCATAGGAGAAAATAACTGAAATACCCTCATAGGGTAAAATAACT
GAAATACCCCCATAGAATAAAATGACCGAAATACCACCATAG
Found at i:37440786 original size:27 final size:27
Alignment explanation
Indices: 37440563--37440784 Score: 270
Period size: 27 Copynumber: 8.3 Consensus size: 27
37440553 CCCTAAAATA
*
37440563 GGTAAAATAACTGAAATACCCCTATAG
1 GGTAAAATAACTGAAATACCCCCATAG
* *
37440590 GAG-AAAATAATTGAAATACCCTCATAG
1 G-GTAAAATAACTGAAATACCCCCATAG
*
37440617 GGTAAAATAACTGAAATACCCCTATAG
1 GGTAAAATAACTGAAATACCCCCATAG
** * * * *
37440644 AATAAATTGACCGAAATACCACCATAG
1 GGTAAAATAACTGAAATACCCCCATAG
**
37440671 GGTAAAATAACCAAAATA-CCCC-TAG
1 GGTAAAATAACTGAAATACCCCCATAG
*
37440696 GGTAAAATAACTGAAATATCCCCATAG
1 GGTAAAATAACTGAAATACCCCCATAG
*
37440723 GGTAAAATGACTGAAATACCCCCATAG
1 GGTAAAATAACTGAAATACCCCCATAG
* *
37440750 GGTAAAATGACCGAAATACCCCCATAG
1 GGTAAAATAACTGAAATACCCCCATAG
37440777 GGTAAAAT
1 GGTAAAAT
37440785 GATTGTTATA
Statistics
Matches: 167, Mismatches: 24, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
25 19 0.11
26 8 0.05
27 139 0.83
28 1 0.01
ACGTcount: A:0.45, C:0.20, G:0.15, T:0.20
Consensus pattern (27 bp):
GGTAAAATAACTGAAATACCCCCATAG
Found at i:37448848 original size:11 final size:11
Alignment explanation
Indices: 37448832--37448864 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
37448822 TAAAAAGTGT
37448832 AGAGAAAACTA
1 AGAGAAAACTA
*
37448843 AGAGAAACCT-
1 AGAGAAAACTA
37448853 AGAGAAAACTA
1 AGAGAAAACTA
37448864 A
1 A
37448865 ACCTAAAGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.61, C:0.12, G:0.18, T:0.09
Consensus pattern (11 bp):
AGAGAAAACTA
Found at i:37457643 original size:16 final size:16
Alignment explanation
Indices: 37457613--37457654 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
37457603 GATATTTATA
*
37457613 TTTTATTTTTATTAACT
1 TTTTATTATTATTAA-T
37457630 TTTTATTATT-TTAAT
1 TTTTATTATTATTAAT
37457645 TTTTAATTAT
1 TTTT-ATTAT
37457655 CATGGAACTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 5 0.22
16 9 0.39
17 9 0.39
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTATTATTATTAAT
Found at i:37459813 original size:21 final size:21
Alignment explanation
Indices: 37459780--37459839 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
37459770 AACTTTTGAC
37459780 TTTTACAAT-TTATAATTA-TA
1 TTTTA-AATATTATAATTATTA
*
37459800 TTGTTAATTATTATAATTAATTA
1 TT-TTAAATATTATAATT-ATTA
37459823 TTTTAAATATT-TAATTA
1 TTTTAAATATTATAATTA
37459840 AATAATTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
20 5 0.15
21 16 0.47
22 9 0.26
23 4 0.12
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
TTTTAAATATTATAATTATTA
Found at i:37462439 original size:15 final size:15
Alignment explanation
Indices: 37462403--37462431 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
37462393 CCACCACCGG
37462403 CCACCACCACCACTT
1 CCACCACCACCACTT
37462418 CCACCACCACCACT
1 CCACCACCACCACT
37462432 ATCACCACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.62, G:0.00, T:0.10
Consensus pattern (15 bp):
CCACCACCACCACTT
Found at i:37471017 original size:21 final size:21
Alignment explanation
Indices: 37470964--37471018 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
37470954 ACCATTATTT
* *
37470964 CTAATCTCACCACTAAAGTAT
1 CTAATCTCACCGCTAAAGTAA
* *
37470985 CCAATCTCACCGCTACAGTAA
1 CTAATCTCACCGCTAAAGTAA
37471006 CTAATCTCACCGC
1 CTAATCTCACCGC
37471019 CACCGCTGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.33, C:0.36, G:0.07, T:0.24
Consensus pattern (21 bp):
CTAATCTCACCGCTAAAGTAA
Found at i:37474420 original size:23 final size:23
Alignment explanation
Indices: 37474387--37474430 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
37474377 TAATTTCTAA
*
37474387 AAACAAATTTT-CTTTTTATTTC
1 AAACAAATTTTAATTTTTATTTC
37474409 AAACAAAATTTTAATTTTTATT
1 AAAC-AAATTTTAATTTTTATT
37474431 ATGATTTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 7 0.37
24 8 0.42
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (23 bp):
AAACAAATTTTAATTTTTATTTC
Found at i:37477842 original size:25 final size:24
Alignment explanation
Indices: 37477804--37477861 Score: 80
Period size: 25 Copynumber: 2.4 Consensus size: 24
37477794 ATGTTCAAGC
* *
37477804 GAGCTATATTAGGAAGCTCAAAAA
1 GAGCTACATCAGGAAGCTCAAAAA
*
37477828 GAGCATACATCAGGAAGCTCATAAA
1 GAGC-TACATCAGGAAGCTCAAAAA
37477853 GAGCTACAT
1 GAGCTACAT
37477862 TTGTGTCTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
24 9 0.30
25 21 0.70
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.19
Consensus pattern (24 bp):
GAGCTACATCAGGAAGCTCAAAAA
Found at i:37480543 original size:20 final size:21
Alignment explanation
Indices: 37480518--37480638 Score: 108
Period size: 20 Copynumber: 5.9 Consensus size: 21
37480508 ATTAAATGAT
37480518 AAAAAAG-TACAACTAAAAAG
1 AAAAAAGTTACAACTAAAAAG
*
37480538 AAAAAAGTTACAACT-AAATG
1 AAAAAAGTTACAACTAAAAAG
*
37480558 ATAAAAAG-TACAAGTAAAAA-
1 A-AAAAAGTTACAACTAAAAAG
* **
37480578 CAAAAAGTTACAACTAAATGACT
1 AAAAAAGTTACAACTAAA--AAG
* *
37480601 AAAAAAG-TACAAATAAAAAC
1 AAAAAAGTTACAACTAAAAAG
*
37480621 AAAAAAGTTATAACTAAA
1 AAAAAAGTTACAACTAAA
37480639 TGTTGAAAAA
Statistics
Matches: 81, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
19 6 0.07
20 35 0.43
21 24 0.30
22 10 0.12
23 6 0.07
ACGTcount: A:0.65, C:0.10, G:0.08, T:0.17
Consensus pattern (21 bp):
AAAAAAGTTACAACTAAAAAG
Found at i:37480543 original size:42 final size:42
Alignment explanation
Indices: 37480484--37480649 Score: 219
Period size: 42 Copynumber: 4.0 Consensus size: 42
37480474 ATAATAATAA
* ** *
37480484 ACAACTAAAAACCAAAAACATACAATTAAATGATAAAAAAGT
1 ACAACTAAAAACAAAAAAGTTACAACTAAATGATAAAAAAGT
*
37480526 ACAACTAAAAAGAAAAAAGTTACAACTAAATGAT-AAAAAGT
1 ACAACTAAAAACAAAAAAGTTACAACTAAATGATAAAAAAGT
*
37480567 ACAAGTAAAAAC-AAAAAGTTACAACTAAATGACTAAAAAAGT
1 ACAACTAAAAACAAAAAAGTTACAACTAAATGA-TAAAAAAGT
* * *
37480609 ACAAATAAAAACAAAAAAGTTATAACTAAATGTTGAAAAAA
1 ACAACTAAAAACAAAAAAGTTACAACTAAATGAT-AAAAAA
37480650 ATGCAACTCA
Statistics
Matches: 110, Mismatches: 10, Indels: 7
0.87 0.08 0.06
Matches are distributed among these distances:
40 20 0.18
41 18 0.16
42 48 0.44
43 24 0.22
ACGTcount: A:0.64, C:0.11, G:0.08, T:0.17
Consensus pattern (42 bp):
ACAACTAAAAACAAAAAAGTTACAACTAAATGATAAAAAAGT
Found at i:37480628 original size:83 final size:83
Alignment explanation
Indices: 37480484--37480640 Score: 235
Period size: 83 Copynumber: 1.9 Consensus size: 83
37480474 ATAATAATAA
* * *
37480484 ACAACTAAAAACCAAAAACATACAATTAAATGATAAAAAAGTACAACTAAAAAGAAAAAAGTTAC
1 ACAACTAAAAACCAAAAACATACAACTAAATGATAAAAAAGTACAAATAAAAACAAAAAAGTTAC
37480549 AACTAAATGATAAAAAGT
66 AACTAAATGATAAAAAGT
* **
37480567 ACAAGTAAAAA-CAAAAAGTTACAACTAAATGACTAAAAAAGTACAAATAAAAACAAAAAAGTTA
1 ACAACTAAAAACCAAAAACATACAACTAAATGA-TAAAAAAGTACAAATAAAAACAAAAAAGTTA
*
37480631 TAACTAAATG
65 CAACTAAATG
37480641 TTGAAAAAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
82 18 0.27
83 48 0.73
ACGTcount: A:0.64, C:0.11, G:0.08, T:0.17
Consensus pattern (83 bp):
ACAACTAAAAACCAAAAACATACAACTAAATGATAAAAAAGTACAAATAAAAACAAAAAAGTTAC
AACTAAATGATAAAAAGT
Done.