Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 270 of 318
Found at i:85658669 original size:24 final size:24
Alignment explanation
Indices: 85658640--85658690 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
85658630 AAAAAAAAAG
85658640 AAAAATCCCCTCTTGAATCTCAAA
1 AAAAATCCCCTCTTGAATCTCAAA
* *
85658664 AAAAATCTCTTCTTGAATCTCAAA
1 AAAAATCCCCTCTTGAATCTCAAA
85658688 AAA
1 AAA
85658691 TTTCTTCTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.45, C:0.24, G:0.04, T:0.27
Consensus pattern (24 bp):
AAAAATCCCCTCTTGAATCTCAAA
Found at i:85658691 original size:22 final size:23
Alignment explanation
Indices: 85658640--85658698 Score: 75
Period size: 24 Copynumber: 2.6 Consensus size: 23
85658630 AAAAAAAAAG
* *
85658640 AAAAATCCCCTCTTGAATCTCAAA
1 AAAAATCTCTTCTTGAATCTC-AA
85658664 AAAAATCTCTTCTTGAATCTC-A
1 AAAAATCTCTTCTTGAATCTCAA
*
85658686 AAAAATTTCTTCT
1 AAAAATCTCTTCT
85658699 CTCCAAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
22 13 0.41
24 19 0.59
ACGTcount: A:0.39, C:0.24, G:0.03, T:0.34
Consensus pattern (23 bp):
AAAAATCTCTTCTTGAATCTCAA
Found at i:85658918 original size:11 final size:10
Alignment explanation
Indices: 85658892--85658917 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
85658882 AGGTTTTTTC
85658892 TTTTTTGATT
1 TTTTTTGATT
85658902 TTTTTTGATT
1 TTTTTTGATT
85658912 TTTTTT
1 TTTTTT
85658918 TTTGGGTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.85
Consensus pattern (10 bp):
TTTTTTGATT
Found at i:85665215 original size:21 final size:20
Alignment explanation
Indices: 85665190--85665235 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 20
85665180 TTTTTCCTAA
85665190 AATGTGAATTTGATTAAATT
1 AATGTGAATTTGATTAAATT
*
85665210 GAATGTGAATTTTATTAAATT
1 -AATGTGAATTTGATTAAATT
85665231 AATGT
1 AATGT
85665236 TAAATTTACT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 5 0.21
21 19 0.79
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.46
Consensus pattern (20 bp):
AATGTGAATTTGATTAAATT
Found at i:85665243 original size:20 final size:21
Alignment explanation
Indices: 85665190--85665243 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
85665180 TTTTTCCTAA
85665190 AATGTG-AATTTGATTAAATTG
1 AATGTGAAATTT-ATTAAATTG
*
85665211 AATGTGAATTTTATTAAATT-
1 AATGTGAAATTTATTAAATTG
*
85665231 AATGTTAAATTTA
1 AATGTGAAATTTA
85665244 CTCGTATAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 11 0.38
21 14 0.48
22 4 0.14
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (21 bp):
AATGTGAAATTTATTAAATTG
Found at i:85667607 original size:26 final size:26
Alignment explanation
Indices: 85667571--85667624 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
85667561 CATCACAAAA
85667571 GTAAGATTACTCTCCTTATAGTTTAT
1 GTAAGATTACTCTCCTTATAGTTTAT
85667597 GTAAGATTACTCTCCTTATAGTTTAT
1 GTAAGATTACTCTCCTTATAGTTTAT
85667623 GT
1 GT
85667625 TGATGACATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.46
Consensus pattern (26 bp):
GTAAGATTACTCTCCTTATAGTTTAT
Found at i:85672916 original size:3 final size:3
Alignment explanation
Indices: 85672910--85673139 Score: 84
Period size: 3 Copynumber: 77.3 Consensus size: 3
85672900 AAAATACAAC
* * * *
85672910 AAT AAT AAT AGT AA- AAG ATAT AAT AA- CAT AAT AAT -AT AAT AGT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * *
85672953 AAT AGT AAC AAT -AT GAC GAT AAT AGT AAA AAT AAT -AT ATT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* * **
85672997 AAT AGT AAT AA- AAGT AGT GCT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
85673042 AAT AAT AAT -CT ATT AAGT TAT AAT GAA- AAT AAT GAT AAT GAT GAT
1 AAT AAT AAT AAT AAT AA-T AAT AAT -AAT AAT AAT AAT AAT AAT AAT
* * * *
85673087 -AT ATT AGAT AAT AAT AGT AA- AAT AAT AAGT AAC AAT AAT AAAT TAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT -AAT AAT
85673133 AAT AAT A
1 AAT AAT A
85673140 GTGATGAGAA
Statistics
Matches: 166, Mismatches: 43, Indels: 36
0.68 0.18 0.15
Matches are distributed among these distances:
2 18 0.11
3 131 0.79
4 17 0.10
ACGTcount: A:0.57, C:0.03, G:0.08, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:85672916 original size:22 final size:22
Alignment explanation
Indices: 85672865--85672925 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
85672855 ATAAGTAAAT
* *
85672865 ACAAAAATAA-AGGAAAATATA
1 ACAAAAATAATAGAAAAATACA
* *
85672886 ATAACAATAATAGAAAAATACA
1 ACAAAAATAATAGAAAAATACA
* *
85672908 ACAATAATAATAGTAAAA
1 ACAAAAATAATAGAAAAA
85672926 GATATAATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.18
Consensus pattern (22 bp):
ACAAAAATAATAGAAAAATACA
Found at i:85673158 original size:16 final size:16
Alignment explanation
Indices: 85673139--85673170 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
85673129 TTATAATAAT
85673139 AGTGATGAGAATAACA
1 AGTGATGAGAATAACA
*
85673155 AGTGATGATAATAACA
1 AGTGATGAGAATAACA
85673171 GTAACAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (16 bp):
AGTGATGAGAATAACA
Found at i:85673303 original size:16 final size:15
Alignment explanation
Indices: 85673274--85673316 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
85673264 TATACGTATG
*
85673274 AAAAATAATGATAGT
1 AAAAATAATAATAGT
85673289 AAAATATAATAATAGT
1 AAAA-ATAATAATAGT
*
85673305 AATAATAATAAT
1 AAAAATAATAAT
85673317 GGAATGAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
AAAAATAATAATAGT
Found at i:85673546 original size:3 final size:3
Alignment explanation
Indices: 85673532--85673573 Score: 75
Period size: 3 Copynumber: 13.7 Consensus size: 3
85673522 AAATATACAC
85673532 TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
85673574 TATATATATA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:85674129 original size:28 final size:26
Alignment explanation
Indices: 85674061--85674128 Score: 100
Period size: 26 Copynumber: 2.6 Consensus size: 26
85674051 AATCTCAAAA
* *
85674061 AAAAAGAAAAATCCCCTCTTGAATCTC
1 AAAAA-AAAAATCTCTTCTTGAATCTC
85674088 AAAAAAAAAATCTCTTCTTGAATCTC
1 AAAAAAAAAATCTCTTCTTGAATCTC
*
85674114 AAAAAAAAATTCTCT
1 AAAAAAAAAATCTCT
85674129 CCAAAATACA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
26 33 0.87
27 5 0.13
ACGTcount: A:0.49, C:0.21, G:0.04, T:0.26
Consensus pattern (26 bp):
AAAAAAAAAATCTCTTCTTGAATCTC
Found at i:85674606 original size:43 final size:43
Alignment explanation
Indices: 85674543--85674627 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 43
85674533 TGAGTTCTTG
*
85674543 ATCTGCTTCTTCGATCTGTTCC-CATAAACACAGGGATGCCAA
1 ATCTGCTTCTTCAATCTGTTCCTCATAAACACAGGGATGCCAA
*
85674585 ATCTGCTGTCTTCAA-CTTGTTCCTTATAAACACAGGGATGCCA
1 ATCTGCT-TCTTCAATC-TGTTCCTCATAAACACAGGGATGCCA
85674628 TGCTGAAATC
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
42 8 0.21
43 12 0.32
44 18 0.47
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (43 bp):
ATCTGCTTCTTCAATCTGTTCCTCATAAACACAGGGATGCCAA
Found at i:85675238 original size:205 final size:205
Alignment explanation
Indices: 85674681--85675877 Score: 1980
Period size: 205 Copynumber: 5.9 Consensus size: 205
85674671 AGATCTATTT
* * * * * * *
85674681 CTTCGATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTAACGTAAGCAC
1 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
* * * *
85674746 GTGAAAGCCAAATCAACTATG-ATTCGATTTGCTCCTTGTAAGCATAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAACCATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
* * * * *
85674810 GGATCCGCTTCAGCGTAAA-CATCCGAATGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTG
131 GGATCTGCTTCAGTG-AAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTG
85674874 AAGATGCCAAA
195 AAGATGCCAAA
*
85674885 CTTCGA-TCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTTC-TCGTAATCA
1 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGC-TTCATCGTAATCA
*
85674948 CGTGAAAGCCAAATC-ACCATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCT
65 CGTGAAAGCCAAATCAACCATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCT
* *
85675012 TGGATTTGCTTCAGTGAAATCGTCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTG
130 TGGATCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTG
85675077 AAGATGCCAAA
195 AAGATGCCAAA
85675088 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
*
85675153 GTGAAAGCCAAATCAACCATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAACCATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
*
85675218 GGATCTGCTTCAGTGAAATCGTCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
131 GGATCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
85675283 AGATGCCAAA
196 AGATGCCAAA
85675293 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
* *
85675358 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAACCATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
*
85675423 GGATCTGCTTCAGTGAAATCGTCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
131 GGATCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
85675488 AGATGCCAAA
196 AGATGCCAAA
*
85675498 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCATAATCAC
1 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
* *
85675563 GTGAAAGCCAAATCAAGCATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAACCATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
* *
85675628 GGATCTGCTTCAGCGAAATCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCT-CATCAAAGTGA
131 GGATCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
85675692 AGATGCCAAA
196 AGATGCCAAA
* *
85675702 CTTCGATTCTTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
* *
85675767 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAACCATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
85675832 GGAT-TCGCTTCAGCAT-AAA-CATCTGAAGGCGAGATCTGCTATGTGT
131 GGATCT-GCTTCAG--TGAAATCATCTGAAGGCGAGATCTGCTATGTGT
85675878 GGCCTATTAC
Statistics
Matches: 942, Mismatches: 42, Indels: 18
0.94 0.04 0.02
Matches are distributed among these distances:
202 8 0.01
203 174 0.18
204 256 0.27
205 504 0.54
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (205 bp):
CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
GTGAAAGCCAAATCAACCATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
AGATGCCAAA
Found at i:85693499 original size:15 final size:15
Alignment explanation
Indices: 85693479--85693507 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
85693469 TTCCAGATTT
85693479 TCTTTTCTACCTCTC
1 TCTTTTCTACCTCTC
85693494 TCTTTTCTACCTCT
1 TCTTTTCTACCTCT
85693508 GGAAAGTAAA
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:0.07, C:0.38, G:0.00, T:0.55
Consensus pattern (15 bp):
TCTTTTCTACCTCTC
Found at i:85697427 original size:22 final size:22
Alignment explanation
Indices: 85697376--85697436 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
85697366 ATAAGTAAAT
* *
85697376 ACAAAAATAA-AGGAAAATATA
1 ACAAAAATAATAGAAAAATACA
* *
85697397 ATAACAATAATAGAAAAATACA
1 ACAAAAATAATAGAAAAATACA
* *
85697419 ACAATAATAATAGTAAAA
1 ACAAAAATAATAGAAAAA
85697437 GATATAATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.18
Consensus pattern (22 bp):
ACAAAAATAATAGAAAAATACA
Found at i:85697651 original size:16 final size:16
Alignment explanation
Indices: 85697632--85697663 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
85697622 TTATAATAAT
85697632 AGTGATGAGAATAACA
1 AGTGATGAGAATAACA
*
85697648 AGTGATGATAATAACA
1 AGTGATGAGAATAACA
85697664 GTAACAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (16 bp):
AGTGATGAGAATAACA
Found at i:85697795 original size:16 final size:15
Alignment explanation
Indices: 85697766--85697808 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
85697756 TATACGTATG
*
85697766 AAAAATAATGATAGT
1 AAAAATAATAATAGT
85697781 AAAATATAATAATAGT
1 AAAA-ATAATAATAGT
*
85697797 AATAATAATAAT
1 AAAAATAATAAT
85697809 GGAATGAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
AAAAATAATAATAGT
Found at i:85698035 original size:3 final size:3
Alignment explanation
Indices: 85698023--85698071 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
85698013 AAATATACAC
85698023 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
85698070 TA
1 TA
85698072 TATATTATTA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:85698591 original size:27 final size:27
Alignment explanation
Indices: 85698552--85698614 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
85698542 AATCTCAAAA
85698552 AAAAAAGAAAAATCCCCTCTTGAATCTC
1 AAAAAA-AAAAATCCCCTCTTGAATCTC
* *
85698580 AAAAAAAAAAATCTCTTCTTGAATCTC
1 AAAAAAAAAAATCCCCTCTTGAATCTC
85698607 AAAAAAAA
1 AAAAAAAA
85698615 TTTCTTCTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
27 27 0.82
28 6 0.18
ACGTcount: A:0.54, C:0.19, G:0.05, T:0.22
Consensus pattern (27 bp):
AAAAAAAAAAATCCCCTCTTGAATCTC
Found at i:85698615 original size:24 final size:25
Alignment explanation
Indices: 85698554--85698622 Score: 77
Period size: 27 Copynumber: 2.7 Consensus size: 25
85698544 TCTCAAAAAA
* *
85698554 AAAAGAAAAATCCCCTCTTGAATCTC
1 AAAA-AAAAATCTCTTCTTGAATCTC
85698580 AAAAAAAAAAATCTCTTCTTGAATCTC
1 --AAAAAAAAATCTCTTCTTGAATCTC
*
85698607 -AAAAAAAATTTCTTCT
1 AAAAAAAAATCTCTTCT
85698623 CTCCAAAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
24 15 0.39
27 19 0.50
28 4 0.11
ACGTcount: A:0.46, C:0.20, G:0.04, T:0.29
Consensus pattern (25 bp):
AAAAAAAAATCTCTTCTTGAATCTC
Found at i:85700147 original size:2 final size:2
Alignment explanation
Indices: 85700140--85700167 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
85700130 ATCCAAAATA
85700140 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
85700168 TTAAGAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:85700987 original size:47 final size:47
Alignment explanation
Indices: 85700918--85701011 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
85700908 AAAAAAAGAG
*
85700918 TAAGTATATATTATCCTTGAGAAATAAAATACTAATTACTAATTAAT
1 TAAGTATATATCATCCTTGAGAAATAAAATACTAATTACTAATTAAT
85700965 TAAGTATATATCATCCTTGAGAAATAAAATACTAATTACTAATTAAT
1 TAAGTATATATCATCCTTGAGAAATAAAATACTAATTACTAATTAAT
85701012 CCATTAATGT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.47, C:0.10, G:0.06, T:0.37
Consensus pattern (47 bp):
TAAGTATATATCATCCTTGAGAAATAAAATACTAATTACTAATTAAT
Found at i:85702071 original size:13 final size:13
Alignment explanation
Indices: 85702053--85702079 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
85702043 AAATGGTCCC
85702053 TGTTAAAGTTTTA
1 TGTTAAAGTTTTA
85702066 TGTTAAAGTTTTA
1 TGTTAAAGTTTTA
85702079 T
1 T
85702080 TTGAATCATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56
Consensus pattern (13 bp):
TGTTAAAGTTTTA
Found at i:85703612 original size:27 final size:27
Alignment explanation
Indices: 85703582--85703637 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
85703572 ATTATGATAG
85703582 TAAATAATAACATGTAATTACCCTTAT
1 TAAATAATAACATGTAATTACCCTTAT
85703609 TAAATAATAACATGTAATTACCCTTAT
1 TAAATAATAACATGTAATTACCCTTAT
85703636 TA
1 TA
85703638 TATATGTGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.45, C:0.14, G:0.04, T:0.38
Consensus pattern (27 bp):
TAAATAATAACATGTAATTACCCTTAT
Found at i:85712253 original size:35 final size:35
Alignment explanation
Indices: 85712226--85712391 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
85712216 CATGGCAAAG
*
85712226 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
85712261 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
85712296 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
85712336 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
85712371 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
85712392 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:85712345 original size:75 final size:75
Alignment explanation
Indices: 85712226--85712396 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
85712216 CATGGCAAAG
** *
85712226 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
85712285 CCATACTGAGC
65 CCATACCGAGC
85712296 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
85712361 CATACCGAGT
66 CATACCGAGC
**
85712371 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
85712397 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:85719759 original size:35 final size:35
Alignment explanation
Indices: 85719732--85719897 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
85719722 CATGGCAAAG
*
85719732 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
85719767 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
85719802 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
85719842 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
85719877 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
85719898 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:85719851 original size:75 final size:75
Alignment explanation
Indices: 85719732--85719902 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
85719722 CATGGCAAAG
** *
85719732 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
85719791 CCATACTGAGC
65 CCATACCGAGC
85719802 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
85719867 CATACCGAGT
66 CATACCGAGC
**
85719877 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
85719903 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:85725493 original size:17 final size:18
Alignment explanation
Indices: 85725457--85725495 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
85725447 TGGCTATTCA
*
85725457 GTTTCTTTTCATTCTTTT
1 GTTTCCTTTCATTCTTTT
*
85725475 GTTTCCTTT-ATTTTTTT
1 GTTTCCTTTCATTCTTTT
85725492 GTTT
1 GTTT
85725496 AATTCTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.05, C:0.13, G:0.08, T:0.74
Consensus pattern (18 bp):
GTTTCCTTTCATTCTTTT
Found at i:85725516 original size:8 final size:8
Alignment explanation
Indices: 85725503--85725545 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
85725493 TTTAATTCTA
*
85725503 ATAATAAC
1 ATAATAAT
85725511 ATAATAAT
1 ATAATAAT
85725519 ATAATAAT
1 ATAATAAT
*
85725527 ATAATATT
1 ATAATAAT
85725535 A-ATATAAT
1 ATA-ATAAT
85725543 ATA
1 ATA
85725546 TTTACTTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
7 1 0.03
8 28 0.93
9 1 0.03
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (8 bp):
ATAATAAT
Found at i:85725525 original size:19 final size:19
Alignment explanation
Indices: 85725501--85725543 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
85725491 TGTTTAATTC
85725501 TAATAATA-ACATAATAATA
1 TAATAATATA-ATAATAATA
*
85725520 TAATAATATAATATTAATA
1 TAATAATATAATAATAATA
85725539 TAATA
1 TAATA
85725544 TATTTACTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 21 0.95
20 1 0.05
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (19 bp):
TAATAATATAATAATAATA
Found at i:85726964 original size:18 final size:17
Alignment explanation
Indices: 85726941--85726979 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
85726931 GCTACAGGGC
*
85726941 TAGGCCAAATTGGGCGTG
1 TAGGCCAAA-CGGGCGTG
*
85726959 TAGGCCACACGGGCGTG
1 TAGGCCAAACGGGCGTG
85726976 TAGG
1 TAGG
85726980 TTTTCGGCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.21, C:0.21, G:0.41, T:0.18
Consensus pattern (17 bp):
TAGGCCAAACGGGCGTG
Found at i:85731916 original size:3 final size:3
Alignment explanation
Indices: 85731908--85731933 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
85731898 AACATATATG
85731908 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
85731934 CTTTTTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:85732920 original size:6 final size:6
Alignment explanation
Indices: 85732895--85732964 Score: 88
Period size: 6 Copynumber: 11.5 Consensus size: 6
85732885 AATAAAGTTT
* * *
85732895 AAAATA GAAAA-A CAAAATA AACATA AAAATA CAAATA AAAATA AAGATA
1 AAAATA -AAAATA -AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
85732944 AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAA
85732965 CAAATTGACT
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
6 50 0.91
7 5 0.09
ACGTcount: A:0.79, C:0.04, G:0.03, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:85733939 original size:46 final size:46
Alignment explanation
Indices: 85733879--85734244 Score: 581
Period size: 46 Copynumber: 8.0 Consensus size: 46
85733869 TTTGACATGA
* * * * * *
85733879 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
85733925 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
85733971 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCGTATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
85734017 TGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
85734063 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
85734109 TACCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
85734155 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
85734201 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
85734245 AGAGCACACT
Statistics
Matches: 299, Mismatches: 20, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.01
46 295 0.99
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:85744903 original size:21 final size:21
Alignment explanation
Indices: 85744877--85744918 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
85744867 GGCGTGTGGC
85744877 TAACCATATGGCCCAAGTTAG
1 TAACCATATGGCCCAAGTTAG
85744898 TAACCATATGGCCCAAGTTAG
1 TAACCATATGGCCCAAGTTAG
85744919 ATTCGACCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (21 bp):
TAACCATATGGCCCAAGTTAG
Found at i:85754171 original size:15 final size:15
Alignment explanation
Indices: 85754136--85754173 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
85754126 ATTAGCATGC
85754136 ATATTTT-TTTTTAA
1 ATATTTTATTTTTAA
*
85754150 ATA-TTTATTTTTTA
1 ATATTTTATTTTTAA
85754164 ATATTTTATT
1 ATATTTTATT
85754174 ATGCCCTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 3 0.14
14 12 0.57
15 6 0.29
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
ATATTTTATTTTTAA
Found at i:85759180 original size:16 final size:17
Alignment explanation
Indices: 85759159--85759191 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
85759149 TTTGTTAGAG
85759159 CATATAAATTTG-AAAC
1 CATATAAATTTGCAAAC
*
85759175 CATATATATTTGCAAAC
1 CATATAAATTTGCAAAC
85759192 TGTTTAAAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.45, C:0.15, G:0.06, T:0.33
Consensus pattern (17 bp):
CATATAAATTTGCAAAC
Found at i:85759367 original size:19 final size:19
Alignment explanation
Indices: 85759337--85759409 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
85759327 AATTATACAG
85759337 ATTTTAGAATTTTTAAAAAT
1 ATTTT-GAATTTTTAAAAAT
*
85759357 ATTTTGAA-TTTAAAAAATT
1 ATTTTGAATTTTTAAAAA-T
* *
85759376 ATTTTCAATTTTTGAAAATT
1 ATTTTGAATTTTT-AAAAAT
*
85759396 ATTTTGATTTTTTA
1 ATTTTGAATTTTTA
85759410 TTTTTTGTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
18 8 0.18
19 12 0.27
20 20 0.45
21 4 0.09
ACGTcount: A:0.38, C:0.01, G:0.05, T:0.55
Consensus pattern (19 bp):
ATTTTGAATTTTTAAAAAT
Found at i:85761784 original size:3 final size:3
Alignment explanation
Indices: 85761778--85761808 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
85761768 AACAACAAAA
85761778 AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
85761809 AAGGAACAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:85765555 original size:21 final size:21
Alignment explanation
Indices: 85765525--85765588 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 21
85765515 TTAAGAATTG
*
85765525 TTTTAGTATTATTTTTATTTA
1 TTTTAATATTATTTTTATTTA
* *
85765546 TTTTAATATTTGTTTTTATGT-
1 TTTTAATA-TTATTTTTATTTA
*
85765567 TTTTAA-A-TATATTTGATTTA
1 TTTTAATATTAT-TTTTATTTA
85765587 TT
1 TT
85765589 ATATTTTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
18 2 0.06
19 6 0.18
20 3 0.09
21 13 0.38
22 10 0.29
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (21 bp):
TTTTAATATTATTTTTATTTA
Found at i:85765590 original size:26 final size:24
Alignment explanation
Indices: 85765551--85765599 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
85765541 ATTTATTTTA
*
85765551 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
85765575 ATATTTGATTTATTATATTTTTAAA
1 ATATTTG-TTT-TTATATTTTTAAA
85765600 CTTTTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:85765639 original size:340 final size:342
Alignment explanation
Indices: 85765035--85765728 Score: 1358
Period size: 340 Copynumber: 2.0 Consensus size: 342
85765025 GTTTAGAAAA
85765035 CGGG-CCGGGCCTCGGGTAAGGGTTTTTTGGCTCGGGCCCGGCCCAGCTCGGCCCGAATTATATA
1 CGGGCCCGGGCCTCGGGTAAGGGTTTTTTGGCTCGGGCCCGGCCCAGCTCGGCCCGAATTATATA
85765099 TTAATATATATATTTTTAATTATTTTAAATTTTTAATATAACCATCTTTTATTATATTATTAATT
66 TTAATATATATATTTTTAATTATTTTAAATTTTTAATATAACCATCTTTTATTATATTATTAATT
*
85765164 TGTGTATTGTTTTAAGAATTGTTTTAGTATTATTTTTATTTATTTTAATATTTTTTTTTATGTTT
131 TGTGTATTGTTTTAAGAATTGTTTTAGTATTATTTTTATTTATTTTAATATTTGTTTTTATGTTT
85765229 TTAAATATATTTGATTTATTATATTTTTAAACTTTTTTATTTAATGAAATAAAAAAAATTTAATA
196 TTAAATATATTTGATTTATTATATTTTTAAACTTTTTTATTTAATGAAATAAAAAAAATTTAATA
85765294 TGGGCCGGGCCGGGCTGGGCTCGAGCTTATTAATTTTATTTTGGGCCGAGCTTGGACAAAATTTT
261 TGGGCCGGGCCGGGCTGGGCTCGAGCTTATTAATTTTATTTTGGGCCGAGCTTGGACAAAATTTT
85765359 AGGCCCGTATTTCGGGC
326 AGGCCCGTATTTCGGGC
85765376 CGGGCCCGGGCCTCGGGTAAGGGTTTTTTGGCTCGGGCCCGGCCCAGCTCGGCCCGAATTATATA
1 CGGGCCCGGGCCTCGGGTAAGGGTTTTTTGGCTCGGGCCCGGCCCAGCTCGGCCCGAATTATATA
85765441 TT-A-ATATATATTTTTAATTATTTTAAATTTTTAATATAACCATCTTTTATTATATTATTAATT
66 TTAATATATATATTTTTAATTATTTTAAATTTTTAATATAACCATCTTTTATTATATTATTAATT
85765504 TGTGTATTGTTTTAAGAATTGTTTTAGTATTATTTTTATTTATTTTAATATTTGTTTTTATGTTT
131 TGTGTATTGTTTTAAGAATTGTTTTAGTATTATTTTTATTTATTTTAATATTTGTTTTTATGTTT
85765569 TTAAATATATTTGATTTATTATATTTTTAAACTTTTTTATTTAATGAAATAAAAAAAATTTAATA
196 TTAAATATATTTGATTTATTATATTTTTAAACTTTTTTATTTAATGAAATAAAAAAAATTTAATA
85765634 TGGGCCGGGCCGGGCTGGGCTCGAGCTTATTAATTTTATTTTGGGCCGAGCTTGGACAAAATTTT
261 TGGGCCGGGCCGGGCTGGGCTCGAGCTTATTAATTTTATTTTGGGCCGAGCTTGGACAAAATTTT
85765699 AGGCCCGTATTTCGGGC
326 AGGCCCGTATTTCGGGC
85765716 CGGGCCCGGGCCT
1 CGGGCCCGGGCCT
85765729 AGTAGATGGG
Statistics
Matches: 351, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
340 284 0.81
341 5 0.01
342 62 0.18
ACGTcount: A:0.25, C:0.13, G:0.18, T:0.44
Consensus pattern (342 bp):
CGGGCCCGGGCCTCGGGTAAGGGTTTTTTGGCTCGGGCCCGGCCCAGCTCGGCCCGAATTATATA
TTAATATATATATTTTTAATTATTTTAAATTTTTAATATAACCATCTTTTATTATATTATTAATT
TGTGTATTGTTTTAAGAATTGTTTTAGTATTATTTTTATTTATTTTAATATTTGTTTTTATGTTT
TTAAATATATTTGATTTATTATATTTTTAAACTTTTTTATTTAATGAAATAAAAAAAATTTAATA
TGGGCCGGGCCGGGCTGGGCTCGAGCTTATTAATTTTATTTTGGGCCGAGCTTGGACAAAATTTT
AGGCCCGTATTTCGGGC
Found at i:85768934 original size:18 final size:18
Alignment explanation
Indices: 85768913--85768949 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
85768903 GAGTTAACAA
85768913 GTAGTAATTTCTTAATTT
1 GTAGTAATTTCTTAATTT
85768931 GTAGTAATTTCTTAATTT
1 GTAGTAATTTCTTAATTT
85768949 G
1 G
85768950 AACTCCATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.05, G:0.14, T:0.54
Consensus pattern (18 bp):
GTAGTAATTTCTTAATTT
Found at i:85771219 original size:19 final size:19
Alignment explanation
Indices: 85771161--85771221 Score: 54
Period size: 19 Copynumber: 3.1 Consensus size: 19
85771151 TGAAAAATTA
85771161 TTTCTGGAAAAATGA-ATTACT
1 TTTCTGG-AAAATGATA-TA-T
* *
85771182 TTTCTGGAATA-GCTAATAT
1 TTTCTGGAAAATGAT-ATAT
85771201 TTTCTGGAAAATGATATAT
1 TTTCTGGAAAATGATATAT
85771220 TT
1 TT
85771222 ATAAATAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
19 18 0.55
20 7 0.21
21 8 0.24
ACGTcount: A:0.34, C:0.08, G:0.15, T:0.43
Consensus pattern (19 bp):
TTTCTGGAAAATGATATAT
Found at i:85778474 original size:14 final size:14
Alignment explanation
Indices: 85778455--85778501 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
85778445 AAAATATTTC
85778455 ATATAACTAATTCT
1 ATATAACTAATTCT
*
85778469 ATATAACTTATTC-
1 ATATAACTAATTCT
*
85778482 ATAT-ACTCATT-T
1 ATATAACTAATTCT
85778494 ATATAACT
1 ATATAACT
85778502 CTTTCGTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 10 0.34
13 7 0.24
14 12 0.41
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.45
Consensus pattern (14 bp):
ATATAACTAATTCT
Found at i:85778543 original size:13 final size:13
Alignment explanation
Indices: 85778525--85778559 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
85778515 GTCTCATATT
**
85778525 ACCATTTCGTTTA
1 ACCATTTCAATTA
85778538 ACCATTTCAATTA
1 ACCATTTCAATTA
85778551 ACCATTTCA
1 ACCATTTCA
85778560 TTTTACACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.31, C:0.26, G:0.03, T:0.40
Consensus pattern (13 bp):
ACCATTTCAATTA
Found at i:85778759 original size:6 final size:6
Alignment explanation
Indices: 85778748--85778772 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
85778738 ACAAAGCGTG
85778748 ACTGTA ACTGTA ACTGTA ACTGTA A
1 ACTGTA ACTGTA ACTGTA ACTGTA A
85778773 ATGCTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (6 bp):
ACTGTA
Found at i:85779652 original size:13 final size:13
Alignment explanation
Indices: 85779636--85779673 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
85779626 TAAACTAAAT
*
85779636 TTTTTAAAAGCAC
1 TTTTCAAAAGCAC
*
85779649 TTTTCAAAAGTAC
1 TTTTCAAAAGCAC
85779662 TTTTCAAAAGCA
1 TTTTCAAAAGCA
85779674 TTGCCAAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:85783707 original size:19 final size:20
Alignment explanation
Indices: 85783683--85783722 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
85783673 TTTACTTGTC
85783683 AAAAAACTTAAAAATA-AAT
1 AAAAAACTTAAAAATATAAT
* *
85783702 AAAAAATTTCAAAATATAAT
1 AAAAAACTTAAAAATATAAT
85783722 A
1 A
85783723 TTAAAAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (20 bp):
AAAAAACTTAAAAATATAAT
Found at i:85785263 original size:69 final size:68
Alignment explanation
Indices: 85785153--85785367 Score: 207
Period size: 69 Copynumber: 3.1 Consensus size: 68
85785143 ATTCTCATAT
* * * * * * * * *
85785153 ATTTTAATCCCACATTGACCA-AAGAATATTCTCATAGCTCACCTCTTAACTATTTTAATTAAAA
1 ATTTTAATCCCACATTAACTAGAA-AATACTATTATAACTCACTTCTTCACTATTTTTATTAAAA
85785217 AGTTA
65 A-TTA
* * ** *
85785222 ATTTTGATCCCACGTTAACTAGGGATTACTATTATAACTCACTTCTTCACTATTTTTATTAAAAA
1 ATTTTAATCCCACATTAACTAGAAAATACTATTATAACTCACTTCTTCACTATTTTTATTAAAAA
*
85785287 ATA
66 TTA
* * * * * *
85785290 ATTTTAATCCTACATTAATTAGAAAATGCTCTTATAACTCATTTATTCACTATTTTTATTAAAAA
1 ATTTTAATCCCACATTAACTAGAAAATACTATTATAACTCACTTCTTCACTATTTTTATT-AAAA
85785355 ATTA
65 ATTA
85785359 ATTTTAATC
1 ATTTTAATC
85785368 TTACATTGTT
Statistics
Matches: 117, Mismatches: 27, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
68 51 0.44
69 66 0.56
ACGTcount: A:0.37, C:0.17, G:0.05, T:0.41
Consensus pattern (68 bp):
ATTTTAATCCCACATTAACTAGAAAATACTATTATAACTCACTTCTTCACTATTTTTATTAAAAA
TTA
Found at i:85785402 original size:69 final size:68
Alignment explanation
Indices: 85785267--85785405 Score: 172
Period size: 69 Copynumber: 2.0 Consensus size: 68
85785257 AACTCACTTC
** * *
85785267 TTCACTATTTTTATTAAAAAATAATTTTAATCCTACATTAATTAGAAAATGCTCTTATAACTCAT
1 TTCACTATTTTTATTAAAAAATAATTTTAATCCTACATTAATTAGAAAACACTCATATAACACAT
85785332 TTA
66 TTA
* ** * *
85785335 TTCACTATTTTTATTAAAAAATTAATTTTAATCTTACATTGTTTAGACAACACTCCATAT-TCAC
1 TTCACTATTTTTATTAAAAAA-TAATTTTAATCCTACATTAATTAGAAAACACT-CATATAACAC
85785399 ATTTA
64 ATTTA
85785404 TT
1 TT
85785406 TTGTCAATAA
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
68 21 0.35
69 35 0.58
70 4 0.07
ACGTcount: A:0.37, C:0.14, G:0.03, T:0.45
Consensus pattern (68 bp):
TTCACTATTTTTATTAAAAAATAATTTTAATCCTACATTAATTAGAAAACACTCATATAACACAT
TTA
Found at i:85786327 original size:16 final size:14
Alignment explanation
Indices: 85786267--85786320 Score: 56
Period size: 15 Copynumber: 3.8 Consensus size: 14
85786257 TAATGAAATT
85786267 ATTTTTATTAATTAA
1 ATTTTTATTAA-TAA
* *
85786282 AATTTAATTAATATA
1 ATTTTTATTAATA-A
*
85786297 ATTTTTA-AAATAA
1 ATTTTTATTAATAA
85786310 ATTTTTATTAA
1 ATTTTTATTAA
85786321 ATCAAATGAC
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
13 8 0.26
14 8 0.26
15 15 0.48
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
ATTTTTATTAATAA
Found at i:85790000 original size:370 final size:371
Alignment explanation
Indices: 85789258--85790051 Score: 1111
Period size: 370 Copynumber: 2.1 Consensus size: 371
85789248 GAAGTGAAAA
* * **
85789258 GAAATTGCTAAAATCCTCACTTGCCATAAGAGTAAACATCTCACGAACCACCCTTAGCAAAATCA
1 GAAATTGCTAAAATCCTCACTTGCTAGAAGAGTAAACGCCTCACGAACCACCCTTAGCAAAATCA
85789323 CAACTAATGAAACCAAAAGACCCTACAAAGATATCAAAACAACCACCCTAAAATGAAACTAACGA
66 CAACTAATGAAACCAAAAGACCCTACAAAGATATCAAAACAACCACCCTAAAATGAAACTAACGA
* * * *
85789388 ATTATACCTGAAGATTTTGAAAACACCAACGCATTCTAAATGGTGGCACAAATGAAGATAGGTTG
131 ATTATACCTGAAGATTTTGAAAACACCAACACAATCTAAATGGCGACACAAATGAAGATAGGTTG
* * * * *
85789453 GCAACGAAGAAATAATAGCAAGAGATAACAACAAGGGAAAATGGTAACAAATTTAAAAGAAACAA
196 GCAACGAAGAAACAATAGCAAGAAACAACAACAAGGGAAAATGGTAAAAAATGTAAAAGAAACAA
*
85789518 AATAAAAATGAAATAGAAAGAAAGAAGAAGAAAAAAATAACGTTAGAGGAACAGAAAATTGGAAA
261 AATAAAAATGAAATAGAAAGAAAGAAGAAGAAAAAAATAACGTTAGAGGAACAAAAAATTGGAAA
* *
85789583 AAAGAAATGGAAGTAGTGGAAAGAGAGGAATACAAAAAAAATTGGG
326 AAAGAAATGGAAGAAATGGAAAGAGAGGAATACAAAAAAAATTGGG
* * *
85789629 GAAATTGTTAAAATCCTTACTTGCTAGAAGAGTAAACGCCTTACGAACCACCC-TAGCAAAATCA
1 GAAATTGCTAAAATCCTCACTTGCTAGAAGAGTAAACGCCTCACGAACCACCCTTAGCAAAATCA
* * *
85789693 CAACTAATGAAACCAAAAGACCTTTCAAAGATATCAAGACAACCACCCTAAAATGAAACTAACGA
66 CAACTAATGAAACCAAAAGACCCTACAAAGATATCAAAACAACCACCCTAAAATGAAACTAACGA
85789758 ATTATACTTACCTGAAGATTTT-AATAACACCAACACAATCTAAATGGCGACACAACA-GAAGAT
131 A-T-TA--TACCTGAAGATTTTGAA-AACACCAACACAATCTAAATGGCGACACAA-ATGAAGAT
* * * *
85789821 AGGTCT-GCAATGAAGAAACAATAGCAAGAAACGACAACAGGGGAATATGGTAAAAAATGTAAAA
190 AGGT-TGGCAACGAAGAAACAATAGCAAGAAACAACAACAAGGGAAAATGGTAAAAAATGTAAAA
* ** *
85789885 TAAATGAAA-GAAAATGAAATAGAAAGAAAGAAGAAGAAAAAAATAACGTTAGAGGAACAAAAAA
254 GAAACAAAATAAAAATGAAATAGAAAGAAAGAAGAAGAAAAAAATAACGTTAGAGGAACAAAAAA
* * * * *
85789949 TTGG-AAAAAGACATTGAAGAAATGGAAAGA-AGG-A-ACGTAAAAGATTTGGG
319 TTGGAAAAAAGAAATGGAAGAAATGGAAAGAGAGGAATAC-AAAAAAAATTGGG
* **
85789999 GAAATTGCTGAAATCCTCACTCACTAGAAGAGTAAACGCCTCACGAACCACCC
1 GAAATTGCTAAAATCCTCACTTGCTAGAAGAGTAAACGCCTCACGAACCACCC
85790052 CTAGTAAACG
Statistics
Matches: 374, Mismatches: 41, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
369 2 0.01
370 132 0.35
371 50 0.13
372 24 0.06
373 59 0.16
374 105 0.28
375 2 0.01
ACGTcount: A:0.50, C:0.16, G:0.17, T:0.17
Consensus pattern (371 bp):
GAAATTGCTAAAATCCTCACTTGCTAGAAGAGTAAACGCCTCACGAACCACCCTTAGCAAAATCA
CAACTAATGAAACCAAAAGACCCTACAAAGATATCAAAACAACCACCCTAAAATGAAACTAACGA
ATTATACCTGAAGATTTTGAAAACACCAACACAATCTAAATGGCGACACAAATGAAGATAGGTTG
GCAACGAAGAAACAATAGCAAGAAACAACAACAAGGGAAAATGGTAAAAAATGTAAAAGAAACAA
AATAAAAATGAAATAGAAAGAAAGAAGAAGAAAAAAATAACGTTAGAGGAACAAAAAATTGGAAA
AAAGAAATGGAAGAAATGGAAAGAGAGGAATACAAAAAAAATTGGG
Found at i:85790059 original size:25 final size:25
Alignment explanation
Indices: 85790029--85790080 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
85790019 TCACTAGAAG
85790029 AGTAAACGCCTCACGAACCACCCCT
1 AGTAAACGCCTCACGAACCACCCCT
*
85790054 AGTAAACGCCTCACGAACCACCTCT
1 AGTAAACGCCTCACGAACCACCCCT
85790079 AG
1 AG
85790081 CAAAATCACA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.40, G:0.13, T:0.13
Consensus pattern (25 bp):
AGTAAACGCCTCACGAACCACCCCT
Found at i:85790635 original size:25 final size:25
Alignment explanation
Indices: 85790589--85790637 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
85790579 AACAAATGTA
*
85790589 AAAGAAACAAAAGAAAATAAAATAG
1 AAAGAAACAAAAGAAAAGAAAATAG
*
85790614 AAAGAAATAAAA-AAGAAGAAAATA
1 AAAGAAACAAAAGAA-AAGAAAATA
85790638 ATGTTAGAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.78, C:0.02, G:0.12, T:0.08
Consensus pattern (25 bp):
AAAGAAACAAAAGAAAAGAAAATAG
Found at i:85790636 original size:15 final size:15
Alignment explanation
Indices: 85790599--85790638 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
85790589 AAAGAAACAA
*
85790599 AAGAAAATAAAATAG
1 AAGAAAATAAAAAAG
85790614 AA-AGAAATAAAAAAG
1 AAGA-AAATAAAAAAG
85790629 AAGAAAATAA
1 AAGAAAATAA
85790639 TGTTAGAGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 1 0.05
15 20 0.91
16 1 0.05
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (15 bp):
AAGAAAATAAAAAAG
Found at i:85790992 original size:372 final size:372
Alignment explanation
Indices: 85790231--85792264 Score: 1566
Period size: 372 Copynumber: 5.4 Consensus size: 372
85790221 CAACAAATGT
* * *
85790231 AAATGAAACAGAAAGAAAAAAGAAGAAGAAAATAATGTTAAAAGAACAAAAAATGGGAAAAAGAA
1 AAATGAAACAGAAAGAAAAAAGAAGAAGAAAATAACGTTAGAGGAACAAAAAATGGGAAAAAGAA
* * * *
85790296 ATAGAAGTAGTGGAAAGAGAGGAACATAAAAAAATTACGGAAGTTGCTAAAATTCTCACTCGCCA
66 ATGGAAGTAGTGGAAAGAGAGGAACATAAAAAATTTAGGGAAATTGCTAAAATTCTCACTCGCCA
* *
85790361 GAAGAGTAAACACATCAGGAACCACCCCTAGCAAAATCACAACTAATGAAACCAAAAGACCTTCC
131 GAAGAGTAAACACTTCACGAACCA-CCCTAGCAAAATCACAACTAATGAAACCAAAAGACCTTCC
* *
85790426 AAAGATATCAAGTCAACCACTCTAAAATGAAACTAACGAATTATACTTACCTAAAGATTTTAATA
195 AAAGATATCAAGACAACCACCCTAAAATGAAACTAACGAATTATACTTACCTAAAGATTTTAATA
* ** * *
85790491 ACACCGACATAGTCTAAATGGCAGCACAACAGAAGATAGGTCAGCAATGAAGAAACAATAACAAG
260 ACACCAACGCAGTCTAAATGGCAGCACAACAGAAGATAGGTCAGCAATGAAAAAACAATAGCAAG
* * * * *
85790556 A-ATCGACAACATGAGAATATAGTAACAAATGTAAAAGAAACAAAAG-A
325 AGA-CGACAACAAGGGAATATGGCAACAAATGTAAAAGAAACGAAAGAA
* * * * * *
85790603 AAATAAAATAGAAAGAAATAAAAAAGAAGAAAATAATGTTAGAGGAATAGAAAATGGGAAAAAGA
1 AAATGAAACAGAAAGAAA-AAAGAAGAAGAAAATAACGTTAGAGGAACAAAAAATGGGAAAAAGA
* * * * * *
85790668 AATGGAAGTAGTGGTAAGAGAGAAACATAAAAAATTTGGGGAAATTGCTAAAATCCTTACTCGTC
65 AATGGAAGTAGTGGAAAGAGAGGAACATAAAAAATTTAGGGAAATTGCTAAAATTCTCACTCGCC
* * * *
85790733 AGAAGAGTAAACACTTCACGAACCACCCTAGCAAAATCACAGCTAATGAAACTAAATGACCTTAC
130 AGAAGAGTAAACACTTCACGAACCACCCTAGCAAAATCACAACTAATGAAACCAAAAGACCTTCC
*
85790798 AAAGATATCAAGACAACCACCCTAAAACGAAACTAACGAATTATACTTACCTAAAGATTTTAATA
195 AAAGATATCAAGACAACCACCCTAAAATGAAACTAACGAATTATACTTACCTAAAGATTTTAATA
* * * *
85790863 ACACCAATGTAGGCTAAATGGCCA-CACAACAGAAGATAGGTCA-CAATGAAAAAATAATAGCAA
260 ACACCAACGCAGTCTAAATGG-CAGCACAACAGAAGATAGGTCAGCAATGAAAAAACAATAGCAA
* * *
85790926 GAGACGACAACAGGGGAATACGGCAACAAATGTAAAAGAAATGAAAGAA
324 GAGACGACAACAAGGGAATATGGCAACAAATGTAAAAGAAACGAAAGAA
* *
85790975 AAATGAAACAAAAAGAAAGAAGAAGAAGAAAATAACGTTAGAGGAACAAAAAATGGGAAAAAAGA
1 AAATGAAACAGAAAGAAAAAAGAAGAAGAAAATAACGTTAGAGGAACAAAAAATGGG-AAAAAGA
* * * * **
85791040 AATGGAAGTAGTGGAAAGAGAAGAACATAAAAAATTTAGGGAAATTGCTAATATCCTTA-AAG--
65 AATGGAAGTAGTGGAAAGAGAGGAACATAAAAAATTTAGGGAAATTGCTAAAATTCTCACTCGCC
* * * * * * * * * * ** *
85791102 AGAAGAACATAAAAAATTTAGGGAA--A---TTGTTAATATC-CTTACTCACTGAAGAGTAAACG
130 AGAAG-A-GTAAACACTTCA-CGAACCACCCTAG-CAAAATCAC-AACT-AATGAA-ACCAAAAG
* ** * * * * * **
85791161 -CC-TCACAAACCACCTCTAACAAAATCACAACT--AATGAAAC---C-AA-AATACTT-TTTAA
188 ACCTTC-CAAA-GATATC-AAGACAACCAC-CCTAAAATGAAACTAACGAATTATACTTACCTAA
** * * * ** * *** * * * *
85791216 AGATATCAAGACAACCAACCTAAAAGAAAACTAACTAATTA-TACTTACTTGAAGATTTTA-ATA
249 AGAT-TTTA-ATAA-C-ACC--AACGCAGTCTAAAT-GGCAGCAC-AAC-AGAAGA---TAGGT-
* * * * * * * *
85791279 ACACCAACGCAGTTTAAATGGCAGTACAATAG-AAGATAGGTCGACAATGAA-GAAACAGTAGTA
301 -CAGCAATG-A----AAA----A--ACAATAGCAAG--A-GACGACAA-CAAGGGAATA-TGGCA
* * * * ***
85791342 AGAGATG-ACAACAGGGGAATATGGCAA
349 ACAAATGTAAAAGAAACGAA-A--G-AA
* * * * * * *
85791369 CAAATGTAAA-AGAAACAAAAGAAAACAAAATAGAAAGAAAG-AAGAAGAAGAA-AATAGCGTCA
1 -AAATG-AAACAGAAAGAAAA-AAGA-AGAAGA-AAATAACGTTAG-AG--GAACAA--------
* *
85791431 GAGGAACAGAAAATGGGAAAAACAAATGAAAGTAGTGGAAAGAGAGGAACATAAAAAA-TTAGGG
50 ---------AAAATGGGAAAAAGAAATGGAAGTAGTGGAAAGAGAGGAACATAAAAAATTTA-GG
* * *
85791495 GAAA-TGACTAAAATTCTCACTCACCAGAAGAGTAAAC-CTCTCACGTACCATCCTAGCAAAATC
105 GAAATTG-CTAAAATTCTCACTCGCCAGAAGAGTAAACACT-TCACGAACCACCCTAGCAAAATC
* * *
85791558 AAAACTAATGAAACCAAAAGACCTTCCAAAAATATCAAGACAACCACCCTAAAATGAAACTAACT
168 ACAACTAATGAAACCAAAAGACCTTCCAAAGATATCAAGACAACCACCCTAAAATGAAACTAACG
** * * *
85791623 AATTATACTTATTTGAAGATTTTAATAACAACAACGCAGTCTAAATGGCAGCACAACATAAGATA
233 AATTATACTTACCTAAAGATTTTAATAACACCAACGCAGTCTAAATGGCAGCACAACAGAAGATA
* * * * * *
85791688 GGTTAACAATGAAGAAACAATAACAAGAGACGAAAACAAGGGAATATGGCAATAAATGTAAAAGA
298 GGTCAGCAATGAAAAAACAATAGCAAGAGACGACAACAAGGGAATATGGCAACAAATGTAAAAGA
85791753 AACGAAAGAA
363 AACGAAAGAA
* * *
85791763 AAATGAAACAGAAAGAAAGAAGTAGAA-AAAATAACGTTAGAGGAACAAAAAATGGAAAAAAGAA
1 AAATGAAACAGAAAGAAAAAAGAAGAAGAAAATAACGTTAGAGGAACAAAAAATGGGAAAAAGAA
* * * * *
85791827 ATAGAAGTAGTGAAAAAAGAGGAACATAAAAAATTTGGGGAAATTGCTAAAATTCTCACTCGCTA
66 ATGGAAGTAGTGGAAAGAGAGGAACATAAAAAATTTAGGGAAATTGCTAAAATTCTCACTCGCCA
* ** * * * * *
85791892 GGAGAGTAAATGCCTCACAAACCACCCTTAGCAAAATTACAACTAATGAAACCAAAATAGCTTCC
131 GAAGAGTAAACACTTCACGAACCACCC-TAGCAAAATCACAACTAATGAAACCAAAAGACCTTCC
* *
85791957 AAAGATATCAAGACAACCACCCTAAAATG--A--AACGAATTATTCTTACCTGAAGATTTTAATA
195 AAAGATATCAAGACAACCACCCTAAAATGAAACTAACGAATTATACTTACCTAAAGATTTTAATA
** * * *
85792018 ACACCAATACAGTTTAAATGGCAGCACAACAGAAGATAGGTCAGCAAT-AACAAAATAGTAGCAA
260 ACACCAACGCAGTCTAAATGGCAGCACAACAGAAGATAGGTCAGCAATGAA-AAAACAATAGCAA
85792082 GAGACGAC-ACAAGGGAATATGGCAACAAATGTAAAAGAAA-GAAA-AGA
324 GAGACGACAACAAGGGAATATGGCAACAAATGTAAAAGAAACGAAAGA-A
* * * * *
85792129 AAATGAAATAGAAAGAAAGAAGAAG-A-AAAATAACATTAGAGGAACAGAAAATGGAAAAAAGAA
1 AAATGAAACAGAAAGAAAAAAGAAGAAGAAAATAACGTTAGAGGAACAAAAAATGGGAAAAAGAA
*
85792192 ATGGAAATAGTGGAAAGAGAGGAACATAAAAAATTTAGGGAAATTGCTAAAATTCTCACTCGCCA
66 ATGGAAGTAGTGGAAAGAGAGGAACATAAAAAATTTAGGGAAATTGCTAAAATTCTCACTCGCCA
*
85792257 AAAGAGTA
131 GAAGAGTA
85792265 TGTAACACCC
Statistics
Matches: 1303, Mismatches: 247, Indels: 231
0.73 0.14 0.13
Matches are distributed among these distances:
364 7 0.01
365 110 0.08
366 33 0.03
367 38 0.03
368 95 0.07
369 16 0.01
370 31 0.02
371 193 0.15
372 304 0.23
373 121 0.09
374 1 0.00
375 2 0.00
376 2 0.00
377 4 0.00
378 1 0.00
382 3 0.00
386 1 0.00
387 6 0.00
388 8 0.01
389 9 0.01
390 21 0.02
391 12 0.01
392 5 0.00
393 14 0.01
394 4 0.00
395 13 0.01
396 6 0.00
397 17 0.01
398 25 0.02
399 3 0.00
400 9 0.01
401 3 0.00
402 1 0.00
406 2 0.00
410 1 0.00
411 5 0.00
412 2 0.00
413 1 0.00
414 5 0.00
415 62 0.05
416 25 0.02
417 29 0.02
418 16 0.01
419 12 0.01
420 4 0.00
421 5 0.00
422 8 0.01
423 8 0.01
ACGTcount: A:0.52, C:0.14, G:0.17, T:0.17
Consensus pattern (372 bp):
AAATGAAACAGAAAGAAAAAAGAAGAAGAAAATAACGTTAGAGGAACAAAAAATGGGAAAAAGAA
ATGGAAGTAGTGGAAAGAGAGGAACATAAAAAATTTAGGGAAATTGCTAAAATTCTCACTCGCCA
GAAGAGTAAACACTTCACGAACCACCCTAGCAAAATCACAACTAATGAAACCAAAAGACCTTCCA
AAGATATCAAGACAACCACCCTAAAATGAAACTAACGAATTATACTTACCTAAAGATTTTAATAA
CACCAACGCAGTCTAAATGGCAGCACAACAGAAGATAGGTCAGCAATGAAAAAACAATAGCAAGA
GACGACAACAAGGGAATATGGCAACAAATGTAAAAGAAACGAAAGAA
Found at i:85791102 original size:44 final size:44
Alignment explanation
Indices: 85791054--85791142 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
85791044 GAAGTAGTGG
85791054 AAAGAGAAGAACATAAAAAATTTAGGGAAATTGCTAATATCCTT
1 AAAGAGAAGAACATAAAAAATTTAGGGAAATTGCTAATATCCTT
*
85791098 AAAGAGAAGAACATAAAAAATTTAGGGAAATTGTTAATATCCTT
1 AAAGAGAAGAACATAAAAAATTTAGGGAAATTGCTAATATCCTT
85791142 A
1 A
85791143 CTCACTGAAG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.51, C:0.08, G:0.16, T:0.26
Consensus pattern (44 bp):
AAAGAGAAGAACATAAAAAATTTAGGGAAATTGCTAATATCCTT
Found at i:85791299 original size:416 final size:415
Alignment explanation
Indices: 85790683--85791499 Score: 1137
Period size: 416 Copynumber: 2.0 Consensus size: 415
85790673 AAGTAGTGGT
* * *
85790683 AAGAGAGAAACATAAAAAATTTGGGGAAATTGCTAAAATCCTTACTCGTCAGAAGAGTAAACACT
1 AAGAGAGAAACATAAAAAATTTAGGGAAATTGCTAAAATCCTTACTCGACAGAAGAGTAAACACC
* * * *
85790748 TCACGAACCACCCTAGCAAAATCACAGCTAATGAAACTAAATGACCTTACAAAGATATCAAGACA
66 TCACAAACCACCCTAACAAAATCACAACTAATGAAACAAAATGACCTTACAAAGATATCAAGACA
* * *
85790813 ACCACCCTAAAACGAAACTAACGAATTATACTTACCTAAAGATTTTAATAACACCAATGTAGGCT
131 ACCAACCTAAAACGAAACTAACGAATTATACTTACCTAAAGATTTTAATAACACCAACGCAGGCT
*
85790878 AAATGGCCA-CACAACAGAAGATAGGTC-ACAATGAAAAAATAATAGCAAGAGACGACAACAGGG
196 AAATGG-CAGCACAACAGAAGATAGGTCGACAATGAAAAAACAATAGCAAGAGACGACAACAGGG
**
85790941 GAATACGGCAACAAATGTAAAAGAAATGAAAGAAAA-ATGAAACAAAAAGAAAGAAGAAGAAGAA
260 GAATACGGCAACAAATGTAAAAGAAACAAAAGAAAACA--AAACAAAAAGAAAGAAGAAGAAGAA
* * *
85791005 AATAACGTTAGAGGAACAAAAAATGGGAAAAAAGAAATGGAAGTAGTGGAAAGAGAAGAACATAA
323 AATAACGTCAGAGGAACAAAAAATGGG-AAAAACAAATGAAAGTAGTGGAAAGAGAAGAACATAA
85791070 AAAATTTA-GGGAAATTGCTAATATCCTTA
387 AAAA-TTAGGGGAAATTGCTAATATCCTTA
* * * *
85791099 AAGAGA-AGAACATAAAAAATTTAGGGAAATTGTTAATATCCTTACTC-ACTGAAGAGTAAACGC
1 AAGAGAGA-AACATAAAAAATTTAGGGAAATTGCTAAAATCCTTACTCGACAGAAGAGTAAACAC
* **
85791162 CTCACAAACCACCTCTAACAAAATCACAACTAATGAAACCAAAAT-ACTTTTTAAAGATATCAAG
65 CTCACAAACCACC-CTAACAAAATCACAACTAATGAAA-CAAAATGACCTTACAAAGATATCAAG
* * *
85791226 ACAACCAACCTAAAA-GAAAACTAACTAATTATACTTACTTGAAGATTTTAATAACACCAACGCA
128 ACAACCAACCTAAAACG-AAACTAACGAATTATACTTACCTAAAGATTTTAATAACACCAACGCA
** * * * * * *
85791290 GTTTAAATGGCAGTACAATAGAAGATAGGTCGACAATGAAGAAACAGTAGTAAGAGATGACAACA
192 GGCTAAATGGCAGCACAACAGAAGATAGGTCGACAATGAAAAAACAATAGCAAGAGACGACAACA
* * *
85791355 GGGGAATATGGCAACAAATGTAAAAGAAACAAAAGAAAACAAAATAGAAAGAAAGAAGAAGAAGA
257 GGGGAATACGGCAACAAATGTAAAAGAAACAAAAGAAAACAAAACAAAAAGAAAGAAGAAGAAGA
* * *
85791420 AAATAGCGTCAGAGGAACAGAAAATGGGAAAAACAAATGAAAGTAGTGGAAAGAGAGGAACATAA
322 AAATAACGTCAGAGGAACAAAAAATGGGAAAAACAAATGAAAGTAGTGGAAAGAGAAGAACATAA
85791485 AAAATTAGGGGAAAT
387 AAAATTAGGGGAAAT
85791500 GACTAAAATT
Statistics
Matches: 353, Mismatches: 40, Indels: 17
0.86 0.10 0.04
Matches are distributed among these distances:
414 3 0.01
415 73 0.21
416 207 0.59
417 69 0.20
418 1 0.00
ACGTcount: A:0.51, C:0.14, G:0.18, T:0.17
Consensus pattern (415 bp):
AAGAGAGAAACATAAAAAATTTAGGGAAATTGCTAAAATCCTTACTCGACAGAAGAGTAAACACC
TCACAAACCACCCTAACAAAATCACAACTAATGAAACAAAATGACCTTACAAAGATATCAAGACA
ACCAACCTAAAACGAAACTAACGAATTATACTTACCTAAAGATTTTAATAACACCAACGCAGGCT
AAATGGCAGCACAACAGAAGATAGGTCGACAATGAAAAAACAATAGCAAGAGACGACAACAGGGG
AATACGGCAACAAATGTAAAAGAAACAAAAGAAAACAAAACAAAAAGAAAGAAGAAGAAGAAAAT
AACGTCAGAGGAACAAAAAATGGGAAAAACAAATGAAAGTAGTGGAAAGAGAAGAACATAAAAAA
TTAGGGGAAATTGCTAATATCCTTA
Found at i:85791778 original size:17 final size:15
Alignment explanation
Indices: 85791747--85791780 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
85791737 CAATAAATGT
85791747 AAAAGAAACGAAAGA
1 AAAAGAAACGAAAGA
85791762 AAAATGAAACAGAAAGA
1 AAAA-GAAAC-GAAAGA
85791779 AA
1 AA
85791781 GAAGTAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 5 0.29
17 8 0.47
ACGTcount: A:0.74, C:0.06, G:0.18, T:0.03
Consensus pattern (15 bp):
AAAAGAAACGAAAGA
Found at i:85791783 original size:21 final size:22
Alignment explanation
Indices: 85791741--85791783 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
85791731 ATATGGCAAT
85791741 AAATGTAAAAGAAACGAAAGAA
1 AAATGTAAAAGAAACGAAAGAA
85791763 AAATG-AAACAGAAA-GAAAGAA
1 AAATGTAAA-AGAAACGAAAGAA
85791784 GTAGAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.70, C:0.05, G:0.19, T:0.07
Consensus pattern (22 bp):
AAATGTAAAAGAAACGAAAGAA
Found at i:85791807 original size:371 final size:370
Alignment explanation
Indices: 85791098--85792264 Score: 1533
Period size: 371 Copynumber: 3.2 Consensus size: 370
85791088 TAATATCCTT
* * * * * *
85791098 AAAGAGAAGAACATAAAAAATTTAGGGAAATTGTTAATATCCTTACTCA-CTGAAGAGTAAACGC
1 AAAGAGAGGAACATAAAAAATTTAGGGAAATTGCTAAAATTCTCACTCACCAGAAGAGTAAAC-C
* * **
85791162 CTCACAAACCACCTCTAACAAAATCACAACTAATGAAACCAAAATACTTTTTAAAGATATCAAGA
65 CTCACAAACCACC-CTAGCAAAATCACAACTAATGAAACCAAAATACCTTCCAAAGATATCAAGA
*
85791227 CAACCAACCTAAAA-GAAAACTAACTAATTATACTTACTTGAAGATTTTAATAACACCAACGCAG
129 CAACCACCCTAAAATG-AAACTAACTAATTATACTTACTTGAAGATTTTAATAACACCAACGCAG
* * * * * * * *
85791291 TTTAAATGGCAGTACAATAGAAGATAGGTCGACAATGAAGAAACAGTAGTAAGAGATGACAACAG
193 TTTAAATGGCAGCACAACAGAAGATAGGTCAACAATGAAGAAACAATAGCAAGAGACGAAAACAA
*
85791356 GGGAATATGGCAACAAATGTAAAAGAAACAAAAGAAAACA--AAATAGAAAGAAAGAAGAAGAAG
258 GGGAATATGGCAACAAATGTAAAAGAAACGAAAGAAAA-ATGAAATAGAAAGAAAGAAGAAGAA-
* * * *
85791419 AAAATAGCGTCAGAGGAACAGAAAATGGGAAAAACAAATGAAAGTAGTGG
321 AAAATAACGTTAGAGGAACAGAAAATGGAAAAAAGAAATGAAAGTAGTGG
85791469 AAAGAGAGGAACATAAAAAA-TTAGGGGAAA-TGACTAAAATTCTCACTCACCAGAAGAGTAAAC
1 AAAGAGAGGAACATAAAAAATTTA-GGGAAATTG-CTAAAATTCTCACTCACCAGAAGAGTAAAC
** * * * *
85791532 CTCTCACGTACCATCCTAGCAAAATCAAAACTAATGAAACCAAAAGACCTTCCAAAAATATCAAG
64 C-CTCACAAACCACCCTAGCAAAATCACAACTAATGAAACCAAAATACCTTCCAAAGATATCAAG
* *
85791597 ACAACCACCCTAAAATGAAACTAACTAATTATACTTATTTGAAGATTTTAATAACAACAACGCAG
128 ACAACCACCCTAAAATGAAACTAACTAATTATACTTACTTGAAGATTTTAATAACACCAACGCAG
* * * *
85791662 TCTAAATGGCAGCACAACATAAGATAGGTTAACAATGAAGAAACAATAACAAGAGACGAAAACAA
193 TTTAAATGGCAGCACAACAGAAGATAGGTCAACAATGAAGAAACAATAGCAAGAGACGAAAACAA
* * *
85791727 GGGAATATGGCAATAAATGTAAAAGAAACGAAAGAAAAATGAAACAGAAAGAAAGAAGTAGAAAA
258 GGGAATATGGCAACAAATGTAAAAGAAACGAAAGAAAAATGAAATAGAAAGAAAGAAGAAGAAAA
* *
85791792 AATAACGTTAGAGGAACAAAAAATGGAAAAAAGAAAT-AGAAGTAGTGA
323 AATAACGTTAGAGGAACAGAAAATGGAAAAAAGAAATGA-AAGTAGTGG
* * * * * *
85791840 AAAAAGAGGAACATAAAAAATTTGGGGAAATTGCTAAAATTCTCACTCGCTAGGAGAGTAAATGC
1 AAAGAGAGGAACATAAAAAATTTAGGGAAATTGCTAAAATTCTCACTCACCAGAAGAGTAAA-CC
* *
85791905 CTCACAAACCACCCTTAGCAAAATTACAACTAATGAAACCAAAATAGCTTCCAAAGATATCAAGA
65 CTCACAAACCACCC-TAGCAAAATCACAACTAATGAAACCAAAATACCTTCCAAAGATATCAAGA
* * * **
85791970 CAACCACCCTAAAATG--A--AACGAATTATTCTTACCTGAAGATTTTAATAACACCAATACAGT
129 CAACCACCCTAAAATGAAACTAACTAATTATACTTACTTGAAGATTTTAATAACACCAACGCAGT
* * *
85792031 TTAAATGGCAGCACAACAGAAGATAGGTCAGCAAT-AACAAA-ATAGTAGCAAGAGACG-ACACA
194 TTAAATGGCAGCACAACAGAAGATAGGTCAACAATGAAGAAACA-A-TAGCAAGAGACGAAAACA
85792093 AGGGAATATGGCAACAAATGTAAAAGAAA-GAAA-AGAAAATGAAATAGAAAGAAAGAAGAAG-A
257 AGGGAATATGGCAACAAATGTAAAAGAAACGAAAGA-AAAATGAAATAGAAAGAAAGAAGAAGAA
*
85792155 AAAATAACATTAGAGGAACAGAAAATGGAAAAAAGAAATGGAAA-TAGTGG
321 AAAATAACGTTAGAGGAACAGAAAATGGAAAAAAGAAAT-GAAAGTAGTGG
* *
85792205 AAAGAGAGGAACATAAAAAATTTAGGGAAATTGCTAAAATTCTCACTCGCCAAAAGAGTA
1 AAAGAGAGGAACATAAAAAATTTAGGGAAATTGCTAAAATTCTCACTCACCAGAAGAGTA
85792265 TGTAACACCC
Statistics
Matches: 699, Mismatches: 80, Indels: 40
0.85 0.10 0.05
Matches are distributed among these distances:
365 99 0.14
366 31 0.04
367 39 0.06
368 79 0.11
370 8 0.01
371 334 0.48
372 109 0.16
ACGTcount: A:0.51, C:0.15, G:0.17, T:0.17
Consensus pattern (370 bp):
AAAGAGAGGAACATAAAAAATTTAGGGAAATTGCTAAAATTCTCACTCACCAGAAGAGTAAACCC
TCACAAACCACCCTAGCAAAATCACAACTAATGAAACCAAAATACCTTCCAAAGATATCAAGACA
ACCACCCTAAAATGAAACTAACTAATTATACTTACTTGAAGATTTTAATAACACCAACGCAGTTT
AAATGGCAGCACAACAGAAGATAGGTCAACAATGAAGAAACAATAGCAAGAGACGAAAACAAGGG
AATATGGCAACAAATGTAAAAGAAACGAAAGAAAAATGAAATAGAAAGAAAGAAGAAGAAAAAAT
AACGTTAGAGGAACAGAAAATGGAAAAAAGAAATGAAAGTAGTGG
Found at i:85793311 original size:9 final size:8
Alignment explanation
Indices: 85793287--85793331 Score: 56
Period size: 8 Copynumber: 5.5 Consensus size: 8
85793277 AATACAACCC
85793287 AAAAT-AA
1 AAAATAAA
85793294 AAAATAAA
1 AAAATAAA
85793302 AAAATAAA
1 AAAATAAA
85793310 AAAATGAAGA
1 AAAAT-AA-A
*
85793320 AAAAGAAA
1 AAAATAAA
85793328 AAAA
1 AAAA
85793332 CCTAACCTCT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
7 5 0.15
8 20 0.59
9 4 0.12
10 5 0.15
ACGTcount: A:0.84, C:0.00, G:0.07, T:0.09
Consensus pattern (8 bp):
AAAATAAA
Found at i:85794210 original size:2 final size:2
Alignment explanation
Indices: 85794205--85794240 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
85794195 TATGTGTGTG
85794205 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
85794241 ATTTAGCTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:85794532 original size:19 final size:19
Alignment explanation
Indices: 85794508--85794545 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
85794498 TTGAGATTGC
*
85794508 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
85794527 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
85794546 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:85805282 original size:37 final size:37
Alignment explanation
Indices: 85805232--85805308 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
85805222 ATAAGAAGTT
85805232 ACCATTTGCCCTCTTTGCTTATCGAACATCAGTCAGA
1 ACCATTTGCCCTCTTTGCTTATCGAACATCAGTCAGA
85805269 ACCATTTGCCCTCTTTGCTTATCGAACATCAGTCAGA
1 ACCATTTGCCCTCTTTGCTTATCGAACATCAGTCAGA
85805306 ACC
1 ACC
85805309 TCAACTGGGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.31
Consensus pattern (37 bp):
ACCATTTGCCCTCTTTGCTTATCGAACATCAGTCAGA
Found at i:85806783 original size:47 final size:47
Alignment explanation
Indices: 85806732--85806881 Score: 129
Period size: 47 Copynumber: 3.3 Consensus size: 47
85806722 TATCAGGCGG
85806732 GAAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTAAGTT
1 GAAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTAAGTT
* * * * *
85806779 GAAGCAGATC-----CA-AGATGATTTGGC-ATCTC-TGTATCAGACG-G
1 GAAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT-TTA-A-GTT
* *
85806820 GGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTT
1 GAAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTAAGTT
* *
85806867 GAAGCAAATCCAAGA
1 GAAGCAGATCGAAGA
85806882 TGATTTGGCG
Statistics
Matches: 76, Mismatches: 15, Indels: 24
0.66 0.13 0.21
Matches are distributed among these distances:
39 3 0.04
40 5 0.07
41 21 0.28
42 3 0.04
46 3 0.04
47 33 0.43
48 5 0.07
49 3 0.04
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.27
Consensus pattern (47 bp):
GAAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTAAGTT
Found at i:85806847 original size:88 final size:88
Alignment explanation
Indices: 85806698--85806921 Score: 369
Period size: 88 Copynumber: 2.6 Consensus size: 88
85806688 AGCTGAAGAT
* *
85806698 ATCCAAGATGATTTGGCATTTCTGTATCAGGCGGGAAGCAGATCGAAGACATAGCTGATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAGCTGATTTGGCT
*
85806763 TTCACGTGTTTAAGTTGAAGCAG
66 TTCACGTGTTTAAGTTGAAGCAA
*
85806786 ATCCAAGATGATTTGGCATCTCTGTATCAGACGGGGAGCAGATCGAAGACATAGCTGATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAGCTGATTTGGCT
*
85806851 TTCACGTGTTTACGTTGAAGCAA
66 TTCACGTGTTTAAGTTGAAGCAA
* * *
85806874 ATCCAAGATGATTTGGCGTCTCTGTAGC-GGCGGAGAGCAGATCGAAGA
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGA
85806922 TAACAGATTT
Statistics
Matches: 127, Mismatches: 9, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
87 18 0.14
88 109 0.86
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.27
Consensus pattern (88 bp):
ATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAGCTGATTTGGCT
TTCACGTGTTTAAGTTGAAGCAA
Found at i:85807092 original size:43 final size:44
Alignment explanation
Indices: 85806883--85807995 Score: 1395
Period size: 44 Copynumber: 25.4 Consensus size: 44
85806873 AATCCAAGAT
85806883 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
85806927 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
85806971 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
85807015 GATTTGGTGTCTC--TAGCGGCGGAGAGCAGGTCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
85807057 GATTT-GCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* **
85807100 GATTTGGCATCTCTGTAGCGGTAGAGAGCA-ATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
85807139 GATTTGGCATCTCTGTAGCGGCGGA-AGCAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
85807182 GATTTGGCATCTCTGTAGCGGC-GAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
85807225 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
**
85807269 GATTT-GCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGTA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
85807312 GATTTGACGTCTCTGTAGCGGCGGAGAGCAGAT--AAGATAATA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
85807354 GATTTGGCGTCTCTGTAGCGGTGGAGAGCAGAGCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
85807398 GATTTGGCGTCTCTGTAACTGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
85807442 GATTTGGCGTCTCTGTAGCGGCAGATAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* **
85807486 GATTTGGCGTCTCTATAGC-GTAGAGAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
85807525 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
85807569 GATTTGGCGTCTCTGTAGCGTCTGTAGCGGCGGAGAGCAGATCAAAGATAACA
1 GATTT-G-G---C-GT--C-TCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
**
85807622 GATTTGGCGTCTCTGTAGCTACGGAGAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
85807662 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
85807706 GATTTGGCGTCTCTGTAGCGAC-GAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
85807749 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * ** * * * *
85807793 CATTTGTCGTCTCTATTTGGAATCTCTGTAGCGGCG-G-AGAGCAGATCGA-AGATAA
1 GATTTGGCGTCTC----T-G--TAGC-G--GCGGAGAGCAGATC-GA-AGATA-A-CA
* * * *
85807848 CAGATTTG-G-CATCTCGTAGCGACGGAGAGCAGATCGAAGATAACA
1 GA-TTTGGCGTC-TCT-GTAGCGGCGGAGAGCAGATCGAAGATAACA
*
85807893 GATTTGGCGTCTCTGTAGCGGC-GAGAGCAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
85807936 GATTTGGCGTCTCTGTAGCGGC-GAGAGCAGATCGAAGATAACG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
85807979 GATTTGGCGTCTCTGTA
1 GATTTGGCGTCTCTGTA
85807996 TTAGACGGGG
Statistics
Matches: 942, Mismatches: 74, Indels: 107
0.84 0.07 0.10
Matches are distributed among these distances:
38 4 0.00
39 48 0.05
40 55 0.06
41 6 0.01
42 73 0.08
43 280 0.30
44 372 0.39
45 8 0.01
46 9 0.01
47 6 0.01
48 7 0.01
49 4 0.00
50 1 0.00
51 5 0.01
52 7 0.01
53 41 0.04
54 8 0.01
55 6 0.01
56 2 0.00
ACGTcount: A:0.28, C:0.18, G:0.32, T:0.22
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
Found at i:85807910 original size:187 final size:188
Alignment explanation
Indices: 85807424--85807975 Score: 681
Period size: 180 Copynumber: 3.0 Consensus size: 188
85807414 AACTGCGGAG
* * ** * *
85807424 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCAGATAGCAGATCGAAGATAACAGAT
1 AGCACATCAAAGATAACAGATTTGGAATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGAT
* * *
85807489 TTGGCGTCTCTATAGCGTA--GAGAGCAGATCGAAGAT----GATTTGGCATCTCTGTAGCGGCG
66 TTGGCATCTCTGTAGCG-ACGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGC-
* * * *
85807548 GAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGTCTG-TAGC-G-GCG--GAG
129 GAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGC-GAGAGCAGATCGAAGAT
* ** **
85807604 AGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCTACGGAGAGCAGATCGAAGAT----GAT
1 AGCACATCAAAGATAACAGATTTGGAATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGAT
* *
85807665 TTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGACGA
66 TTGGCATCTCTGTAGCGACGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGA
85807730 GAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT
131 GAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGC-GAGAGCAGATCGAAGAT
**** ** *
85807789 AGCACATTTGTCG-TCTC-TATTTGGAATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGA
1 AGCACA-TCAAAGATAACAGATTTGGAATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGA
85807852 TTTGGCATCTC-GTAGCGACGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCG
65 TTTGGCATCTCTGTAGCGACGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCG
*
85807916 AGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCGAGAGCAGATCGAAGAT
130 AGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGAGAGCAGATCGAAGAT
85807975 A
1 A
85807976 ACGGATTTGG
Statistics
Matches: 326, Mismatches: 30, Indels: 26
0.85 0.08 0.07
Matches are distributed among these distances:
176 18 0.06
177 17 0.05
180 96 0.29
181 23 0.07
182 1 0.00
183 2 0.01
184 35 0.11
185 9 0.03
186 20 0.06
187 92 0.28
188 13 0.04
ACGTcount: A:0.29, C:0.18, G:0.31, T:0.22
Consensus pattern (188 bp):
AGCACATCAAAGATAACAGATTTGGAATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGAT
TTGGCATCTCTGTAGCGACGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGA
GAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGAGAGCAGATCGAAGAT
Found at i:85807974 original size:86 final size:86
Alignment explanation
Indices: 85807815--85808026 Score: 304
Period size: 86 Copynumber: 2.4 Consensus size: 86
85807805 CTATTTGGAA
*
85807815 TCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCGTAGCGACGGAGAGCAG
1 TCTCTGTAGCGGC-GAGAGCAGATCAAAGATAACAGATTTGGCATCTCGTAGCGACGGAGAGCAG
85807880 ATCGAAGATAACAGATTTGGCG
65 ATCGAAGATAACAGATTTGGCG
* *
85807902 TCTCTGTAGCGGCGAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGC-GAGAGCAG
1 TCTCTGTAGCGGCGAGAGCAGATCAAAGATAACAGATTTGGCATCTC-GTAGCGACGGAGAGCAG
*
85807966 ATCGAAGATAACGGATTTGGCG
65 ATCGAAGATAACAGATTTGGCG
*
85807988 TCTCTGTATTAGACGG-G-GAGCAGATCAAAGATAGCAGAT
1 TCTCTG---TAG-CGGCGAGAGCAGATCAAAGATAACAGAT
85808027 ATCGCCTTCC
Statistics
Matches: 115, Mismatches: 5, Indels: 9
0.89 0.04 0.07
Matches are distributed among these distances:
86 67 0.58
87 20 0.17
88 21 0.18
89 4 0.03
90 3 0.03
ACGTcount: A:0.30, C:0.18, G:0.32, T:0.21
Consensus pattern (86 bp):
TCTCTGTAGCGGCGAGAGCAGATCAAAGATAACAGATTTGGCATCTCGTAGCGACGGAGAGCAGA
TCGAAGATAACAGATTTGGCG
Found at i:85809211 original size:2 final size:2
Alignment explanation
Indices: 85809204--85809232 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
85809194 TGTTTATGTG
85809204 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
85809233 TTAGCTACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:85809522 original size:19 final size:19
Alignment explanation
Indices: 85809498--85809535 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
85809488 TTGAGATTGC
*
85809498 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
85809517 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
85809536 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:85814457 original size:46 final size:44
Alignment explanation
Indices: 85814258--85814625 Score: 251
Period size: 46 Copynumber: 7.9 Consensus size: 44
85814248 AAACATAGGG
* *
85814258 TATAATACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC
1 TATAATGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTC
* * *
85814304 ACATATCTGTTCCGATGCATGTCCCAGACATGTCTTACACTAGCACATC
1 -TATA-ATG--CCGATGCATGTCCCAGACATGTCTTACACTAGCTC-TC
* * * * * * * *
85814353 TCGT-A-GTCGATGCGTGTCCCAAATATATCTTACACTGGCT-TA
1 T-ATAATGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTC
* * *
85814395 TATTTTGAGGCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTC
1 TA---TAATGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTC
* * * *
85814442 GTCTCAATGCCGATGCCATGTCCCAAATATGGTCTTACACTGGCTCTC
1 -TAT-AATGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTC
*
85814490 -ATAATGTGGCCGATACATGTCCCAGACATGTCTTACACTAGCTCTC
1 TATAA--T-GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTC
* * *
85814536 GTCTCAATGCCGATGCCATGTCCCAGATATGGTCTTACACTGGCTCTC
1 -TAT-AATGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTC
*
85814584 -ATAATGTGGCCGATACATGTCCCAGACATGTCTTACACTAGC
1 TATAA--T-GCCGATGCATGTCCCAGACATGTCTTACACTAGC
85814626 GCACACATAT
Statistics
Matches: 250, Mismatches: 45, Indels: 53
0.72 0.13 0.15
Matches are distributed among these distances:
42 2 0.01
44 28 0.11
45 6 0.02
46 72 0.29
47 57 0.23
48 60 0.24
49 19 0.08
50 6 0.02
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.30
Consensus pattern (44 bp):
TATAATGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTC
Found at i:85814522 original size:94 final size:95
Alignment explanation
Indices: 85814265--85814625 Score: 481
Period size: 94 Copynumber: 3.9 Consensus size: 95
85814255 GGGTATAATA
* * * * * *
85814265 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCTGTTCCGATGCATGTCCCA
1 CCGATGCCATGTCCCAAATATGGTCTTACACTGGCTCTCATATATGTG-GCCGATACATGTCCCA
*
85814330 GACATGTCTTACACTAGCACATC-TCGT--A-G
65 GACATGTCTTACACTAGCTC-TCGTC-TCAATG
* * * * * * *
85814359 TCGATG-CGTGTCCCAAATAT-ATCTTACACTGGCT-T-ATATTTTGAGGCTGATGCATGTCCCA
1 CCGATGCCATGTCCCAAATATGGTCTTACACTGGCTCTCATA-TATGTGGCCGATACATGTCCCA
85814420 GACATGTCTTACACTAGCTCTCGTCTCAATG
65 GACATGTCTTACACTAGCTCTCGTCTCAATG
85814451 CCGATGCCATGTCCCAAATATGGTCTTACACTGGCTCTCATA-ATGTGGCCGATACATGTCCCAG
1 CCGATGCCATGTCCCAAATATGGTCTTACACTGGCTCTCATATATGTGGCCGATACATGTCCCAG
85814515 ACATGTCTTACACTAGCTCTCGTCTCAATG
66 ACATGTCTTACACTAGCTCTCGTCTCAATG
*
85814545 CCGATGCCATGTCCCAGATATGGTCTTACACTGGCTCTCATA-ATGTGGCCGATACATGTCCCAG
1 CCGATGCCATGTCCCAAATATGGTCTTACACTGGCTCTCATATATGTGGCCGATACATGTCCCAG
85814609 ACATGTCTTACACTAGC
66 ACATGTCTTACACTAGC
85814626 GCACACATAT
Statistics
Matches: 238, Mismatches: 20, Indels: 18
0.86 0.07 0.07
Matches are distributed among these distances:
89 3 0.01
90 37 0.16
91 5 0.02
92 19 0.08
93 24 0.10
94 146 0.61
95 1 0.00
96 3 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (95 bp):
CCGATGCCATGTCCCAAATATGGTCTTACACTGGCTCTCATATATGTGGCCGATACATGTCCCAG
ACATGTCTTACACTAGCTCTCGTCTCAATG
Found at i:85818037 original size:14 final size:14
Alignment explanation
Indices: 85818018--85818047 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
85818008 AGAAGGAAAG
85818018 AAGAAAAGAAAGAA
1 AAGAAAAGAAAGAA
*
85818032 AAGAAAAGTAAGAA
1 AAGAAAAGAAAGAA
85818046 AA
1 AA
85818048 ACAAAAACGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (14 bp):
AAGAAAAGAAAGAA
Found at i:85818676 original size:18 final size:18
Alignment explanation
Indices: 85818650--85818689 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
85818640 GTGAAATATT
* *
85818650 AAGTGAAGTGTTTTATGA
1 AAGTAAAGTGTTATATGA
85818668 AAGTAAAGTGTTATATGA
1 AAGTAAAGTGTTATATGA
85818686 AAGT
1 AAGT
85818690 GAATTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.25, T:0.35
Consensus pattern (18 bp):
AAGTAAAGTGTTATATGA
Found at i:85824231 original size:11 final size:11
Alignment explanation
Indices: 85824210--85824244 Score: 52
Period size: 12 Copynumber: 3.0 Consensus size: 11
85824200 AATGGCCTCA
85824210 CAGGCCCGTGTG
1 CAGG-CCGTGTG
85824222 CAGGCCGTGTG
1 CAGGCCGTGTG
85824233 CTAGGCCGTGTG
1 C-AGGCCGTGTG
85824245 AAAATTGGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 8 0.36
12 14 0.64
ACGTcount: A:0.09, C:0.29, G:0.43, T:0.20
Consensus pattern (11 bp):
CAGGCCGTGTG
Found at i:85825956 original size:94 final size:95
Alignment explanation
Indices: 85825825--85826001 Score: 216
Period size: 94 Copynumber: 1.9 Consensus size: 95
85825815 CCACAATATA
* * ** *
85825825 AGAGCCAGTGTAAGACATGTCTGGGAAATGCTACAGCCTTGAGATATTTAAGCTAATGTTAGACA
1 AGAGCCAGTGTAAGACATGTCTGGGAAAGGCTACAGCCTCGAGATATACAAGCTAATGTAAGACA
85825890 TGTCTAGGACAT-GCATCGGCATTGAGAAG
66 TGTCTAGGACATGGCATCGGCATTGAGAAG
* * * *
85825919 AGAGCTAGTGTAAGACATGT-TTGGAACAGGC-ATCAGCCTCGCGATATACAAGCTAGTGTAAGA
1 AGAGCCAGTGTAAGACATGTCTGGGAA-AGGCTA-CAGCCTCGAGATATACAAGCTAATGTAAGA
* *
85825982 CCTGTCTGGGACATGGCATC
64 CATGTCTAGGACATGGCATC
85826002 AGCTTGTTGT
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
93 6 0.09
94 58 0.84
95 5 0.07
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (95 bp):
AGAGCCAGTGTAAGACATGTCTGGGAAAGGCTACAGCCTCGAGATATACAAGCTAATGTAAGACA
TGTCTAGGACATGGCATCGGCATTGAGAAG
Found at i:85827327 original size:20 final size:21
Alignment explanation
Indices: 85827286--85827327 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
85827276 CATGTACAAG
85827286 TTCCACACGGGCGTGTTGCCC
1 TTCCACACGGGCGTGTTGCCC
*
85827307 TTCCACACGGGTGTG-TGCCC
1 TTCCACACGGGCGTGTTGCCC
85827327 T
1 T
85827328 GTTTTAAGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.10, C:0.36, G:0.29, T:0.26
Consensus pattern (21 bp):
TTCCACACGGGCGTGTTGCCC
Found at i:85836767 original size:19 final size:19
Alignment explanation
Indices: 85836739--85836777 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
85836729 TTTATAGTTT
85836739 TAAATCATTTTTGGGTAAAA
1 TAAATCA-TTTTGGGTAAAA
*
85836759 TAAAT-ATTTTGGGTCAAA
1 TAAATCATTTTGGGTAAAA
85836777 T
1 T
85836778 TAGAATTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 12 0.67
19 1 0.06
20 5 0.28
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.41
Consensus pattern (19 bp):
TAAATCATTTTGGGTAAAA
Found at i:85842211 original size:2 final size:2
Alignment explanation
Indices: 85842204--85842245 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
85842194 TTAAAACATA
*
85842204 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
85842246 GCACACCAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:85850639 original size:28 final size:28
Alignment explanation
Indices: 85850599--85850654 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
85850589 TGAACTGTAA
85850599 GGGTTATACTTGTATATGCCTTTTGGTT
1 GGGTTATACTTGTATATGCCTTTTGGTT
85850627 GGGTTATACTTGTATATGCCTTTTGGTT
1 GGGTTATACTTGTATATGCCTTTTGGTT
85850655 AAGTATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.14, C:0.11, G:0.25, T:0.50
Consensus pattern (28 bp):
GGGTTATACTTGTATATGCCTTTTGGTT
Found at i:85854092 original size:22 final size:22
Alignment explanation
Indices: 85854064--85854110 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
85854054 GTTGTTAAAA
* *
85854064 AATAATAATTATATTTATTT-TT
1 AATAAT-ATTAAAATTATTTATT
85854086 AATAATATTAAAATTATTTATT
1 AATAATATTAAAATTATTTATT
85854108 AAT
1 AAT
85854111 GTTAGAATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
AATAATATTAAAATTATTTATT
Found at i:85854622 original size:2 final size:2
Alignment explanation
Indices: 85854615--85854640 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
85854605 AAAAATGCAA
85854615 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
85854641 TAACTGGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:85859323 original size:11 final size:11
Alignment explanation
Indices: 85859307--85859333 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
85859297 AGCCTAAAGT
85859307 TCTTGGAAATC
1 TCTTGGAAATC
85859318 TCTTGGAAATC
1 TCTTGGAAATC
85859329 TCTTG
1 TCTTG
85859334 CTTGGCTCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (11 bp):
TCTTGGAAATC
Found at i:85871993 original size:30 final size:31
Alignment explanation
Indices: 85871930--85872001 Score: 92
Period size: 33 Copynumber: 2.3 Consensus size: 31
85871920 CAAAATCTAC
* *
85871930 ACGACCGTGTCCCTTAGACTGTGTGCCCATTAA
1 ACGACCGTGCCCCTCAGACTGTGT--CCATTAA
*
85871963 ATGACCGTGCCCCTCAGACTGTGT-CATTAA
1 ACGACCGTGCCCCTCAGACTGTGTCCATTAA
85871993 ACGACCGTG
1 ACGACCGTG
85872002 TTCGCATCGT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 14 0.40
33 21 0.60
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.25
Consensus pattern (31 bp):
ACGACCGTGCCCCTCAGACTGTGTCCATTAA
Found at i:85875974 original size:13 final size:13
Alignment explanation
Indices: 85875956--85875980 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85875946 GCTTATGTGT
85875956 AACATTTAACATA
1 AACATTTAACATA
85875969 AACATTTAACAT
1 AACATTTAACAT
85875981 CCAATTGAAT
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:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (13 bp):
AACATTTAACATA
Found at i:85877801 original size:36 final size:36
Alignment explanation
Indices: 85877754--85877822 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
85877744 TTTGCTTGTC
85877754 CTCAAGCAAAATTCTCAACTCACATTAAAGTTAGTT
1 CTCAAGCAAAATTCTCAACTCACATTAAAGTTAGTT
85877790 CTCAAGCAAAATTCTCAACTCACATTAAAGTTA
1 CTCAAGCAAAATTCTCAACTCACATTAAAGTTA
85877823 ATCTTTCTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.41, C:0.23, G:0.07, T:0.29
Consensus pattern (36 bp):
CTCAAGCAAAATTCTCAACTCACATTAAAGTTAGTT
Found at i:85880717 original size:14 final size:14
Alignment explanation
Indices: 85880698--85880731 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
85880688 TGCCATGGCC
85880698 GTGTTGATAAGTCA
1 GTGTTGATAAGTCA
85880712 GTGTTGATAAGTCA
1 GTGTTGATAAGTCA
*
85880726 ATGTTG
1 GTGTTG
85880732 CCCACGGTTG
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:0.26, C:0.06, G:0.29, T:0.38
Consensus pattern (14 bp):
GTGTTGATAAGTCA
Found at i:85882250 original size:6 final size:6
Alignment explanation
Indices: 85882234--85882283 Score: 55
Period size: 6 Copynumber: 8.0 Consensus size: 6
85882224 CTAAAGAAGT
* **
85882234 ATAAGAA ATAAAA ATAACAA CTAAAA CCAAAA ATAAAA ATAAAA ATAAAA
1 ATAA-AA ATAAAA ATAA-AA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
85882284 GAAATAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
6 29 0.76
7 9 0.24
ACGTcount: A:0.76, C:0.08, G:0.02, T:0.14
Consensus pattern (6 bp):
ATAAAA
Found at i:85885833 original size:25 final size:25
Alignment explanation
Indices: 85885787--85885834 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
85885777 AATTAGAATG
*
85885787 TAAAAATTAAACTAAAACAAAAATA
1 TAAAAATTAAAATAAAACAAAAATA
*
85885812 TAAAAA-TAAAATAGAAATAAAAA
1 TAAAAATTAAAATA-AAACAAAAA
85885835 ATTGCTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.19
Consensus pattern (25 bp):
TAAAAATTAAAATAAAACAAAAATA
Found at i:85888450 original size:43 final size:41
Alignment explanation
Indices: 85888347--85888462 Score: 133
Period size: 43 Copynumber: 2.8 Consensus size: 41
85888337 CGCATCCATT
*
85888347 ACGAACTCAGACCACTCAACAAGATCGGATGCCTCATATATC
1 ACGAACTCAGACCACTCAACAAGATCGGAT-TCTCATATATC
* ** *
85888389 ACAAACTTGGACCACTCAACAAGTTCGGATTCTGACATATATC
1 ACGAACTCAGACCACTCAACAAGATCGGATTCT--CATATATC
* * *
85888432 ACGAACTCAGACCGCTCAACGAGCTCGGATT
1 ACGAACTCAGACCACTCAACAAGATCGGATT
85888463 TCTTAATTCC
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
41 2 0.03
42 26 0.43
43 33 0.54
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (41 bp):
ACGAACTCAGACCACTCAACAAGATCGGATTCTCATATATC
Found at i:85888985 original size:30 final size:30
Alignment explanation
Indices: 85888933--85888991 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
85888923 CAAAAATCAT
* * *
85888933 ATTTTTACAAATTTTCATTTTGGCCCCTAA
1 ATTTTCACAAATTTGCACTTTGGCCCCTAA
*
85888963 ATTTTCACATATTTGCACTTTGGCCCCTA
1 ATTTTCACAAATTTGCACTTTGGCCCCTA
85888992 GGCTCGTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.08, T:0.44
Consensus pattern (30 bp):
ATTTTCACAAATTTGCACTTTGGCCCCTAA
Found at i:85909697 original size:18 final size:17
Alignment explanation
Indices: 85909669--85909718 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 17
85909659 AATTTTTCAA
85909669 AAAATTATTAGAAATTATG
1 AAAA-TATTAGAAATTA-G
85909688 AAAATATTAGAAAAATTAG
1 AAAATATTAG--AAATTAG
85909707 AAAATATT-GAAA
1 AAAATATTAGAAA
85909719 ATTAATAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 3 0.10
18 7 0.24
19 13 0.45
20 6 0.21
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (17 bp):
AAAATATTAGAAATTAG
Found at i:85909705 original size:9 final size:10
Alignment explanation
Indices: 85909669--85909720 Score: 58
Period size: 9 Copynumber: 5.5 Consensus size: 10
85909659 AATTTTTCAA
85909669 AAAATTATTAG
1 AAAA-TATTAG
*
85909680 AAATTA-T-G
1 AAAATATTAG
85909688 AAAATATTAG
1 AAAATATTAG
85909698 AAAA-ATTAG
1 AAAATATTAG
85909707 AAAATATT-G
1 AAAATATTAG
85909716 AAAAT
1 AAAAT
85909721 TAATAATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
8 6 0.17
9 17 0.47
10 10 0.28
11 3 0.08
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.31
Consensus pattern (10 bp):
AAAATATTAG
Found at i:85909709 original size:19 final size:19
Alignment explanation
Indices: 85909680--85909719 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
85909670 AAATTATTAG
85909680 AAATTATGAAAATATTAGAA
1 AAATTATGAAAATATT-GAA
85909700 AAATTA-GAAAATATTGAA
1 AAATTATGAAAATATTGAA
85909718 AA
1 AA
85909720 TTAATAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 5 0.25
19 9 0.45
20 6 0.30
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (19 bp):
AAATTATGAAAATATTGAA
Found at i:85911535 original size:5 final size:5
Alignment explanation
Indices: 85911500--85911534 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
85911490 TATATCCCAA
*
85911500 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC ATTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
85911535 AACATCAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTC
Found at i:85933026 original size:2 final size:2
Alignment explanation
Indices: 85933014--85933052 Score: 69
Period size: 2 Copynumber: 19.0 Consensus size: 2
85933004 CTCAAAGAAA
85933014 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
85933053 CTTAACCAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 34 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:85933701 original size:17 final size:17
Alignment explanation
Indices: 85933676--85933726 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
85933666 AAAATTTTTT
85933676 AAATATAAAAATATAAGA
1 AAATATAAAAA-ATAAGA
*
85933694 AAAT-TAAAAAAATAATA
1 AAATAT-AAAAAATAAGA
85933711 AATATATAAAAAATAA
1 AA-ATATAAAAAATAA
85933727 AAATGTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
17 8 0.28
18 20 0.69
19 1 0.03
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.24
Consensus pattern (17 bp):
AAATATAAAAAATAAGA
Found at i:85933722 original size:26 final size:25
Alignment explanation
Indices: 85933680--85933729 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
85933670 TTTTTTAAAT
*
85933680 ATAAAAATATAAGAAAATTAAAAAA
1 ATAAAAATATAAGAAAAATAAAAAA
85933705 ATAATAAATATATA-AAAAATAAAAA
1 ATAA-AAATATA-AGAAAAATAAAAA
85933730 TGTATTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 4 0.18
26 17 0.77
27 1 0.05
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (25 bp):
ATAAAAATATAAGAAAAATAAAAAA
Found at i:85934347 original size:11 final size:10
Alignment explanation
Indices: 85934317--85934360 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
85934307 TTTATTTACT
85934317 ATTTTTATAA
1 ATTTTTATAA
*
85934327 ATTTTAATAA
1 ATTTTTATAA
85934337 TATTTTTATAA
1 -ATTTTTATAA
85934348 A--TTTATAA
1 ATTTTTATAA
85934356 ATTTT
1 ATTTT
85934361 CTTTTAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
8 8 0.28
10 12 0.41
11 9 0.31
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
ATTTTTATAA
Found at i:85936547 original size:42 final size:42
Alignment explanation
Indices: 85936488--85936573 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
85936478 ATCATAAATT
85936488 TATCATTTTACTAAACACTTACCTTAAAATACTTACCATACA
1 TATCATTTTACTAAACACTTACCTTAAAATACTTACCATACA
85936530 TATCATTTTACTAAACACTTACCTTAAAATACTTACCATACA
1 TATCATTTTACTAAACACTTACCTTAAAATACTTACCATACA
85936572 TA
1 TA
85936574 ATTAGTAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.41, C:0.23, G:0.00, T:0.36
Consensus pattern (42 bp):
TATCATTTTACTAAACACTTACCTTAAAATACTTACCATACA
Found at i:85937273 original size:5 final size:5
Alignment explanation
Indices: 85937265--85937308 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
85937255 TGTTTTGTTT
* *
85937265 TTTTA TTTTA TTTTA TTTTA TTTCTT TTATTC TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTT-TA TT-TTA TTTTA TTTTA TT
85937309 AACTTAGTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
5 27 0.79
6 6 0.18
7 1 0.03
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:85937294 original size:19 final size:18
Alignment explanation
Indices: 85937257--85937308 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
85937247 CTTTACTTTG
*
85937257 TTTTGTTTTTTTATTTTA
1 TTTTATTTTTTTATTTTA
*
85937275 TTTTATTTTATTTCTTTTA
1 TTTTATTTT-TTTATTTTA
*
85937294 TTCTT-TTATTTTATT
1 TT-TTATTTTTTTATT
85937309 AACTTAGTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 13 0.46
19 13 0.46
20 2 0.07
ACGTcount: A:0.13, C:0.04, G:0.02, T:0.81
Consensus pattern (18 bp):
TTTTATTTTTTTATTTTA
Found at i:85937615 original size:20 final size:20
Alignment explanation
Indices: 85937592--85937646 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 20
85937582 TTATTTTTAA
85937592 TAATAATAATAATCATAATT
1 TAATAATAATAATCATAATT
*
85937612 TAATAAT-ATAAATTATAATT
1 TAATAATAAT-AATCATAATT
*
85937632 TGATAGAATAATAAT
1 T-A-ATAATAATAAT
85937647 AATGATAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
19 2 0.07
20 17 0.59
21 1 0.03
22 7 0.24
23 2 0.07
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.40
Consensus pattern (20 bp):
TAATAATAATAATCATAATT
Found at i:85937664 original size:17 final size:17
Alignment explanation
Indices: 85937590--85937661 Score: 55
Period size: 16 Copynumber: 4.5 Consensus size: 17
85937580 ATTTATTTTT
* *
85937590 AATAATAATAATAATCAT
1 AATAATAATAATGAT-AG
*
85937608 AAT-TTAATAAT-ATA-
1 AATAATAATAATGATAG
* *
85937622 AATTATAAT-TTGATAG
1 AATAATAATAATGATAG
85937638 AATAATAATAATGATA-
1 AATAATAATAATGATAG
85937654 AATAATAA
1 AATAATAA
85937662 ATATCTATTT
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
14 4 0.09
15 8 0.18
16 18 0.40
17 12 0.27
18 3 0.07
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.36
Consensus pattern (17 bp):
AATAATAATAATGATAG
Found at i:85937840 original size:20 final size:21
Alignment explanation
Indices: 85937797--85937842 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
85937787 ATATGATATT
* *
85937797 TATAATTAATTAATTTAATAA
1 TATATTTAATTAATTAAATAA
*
85937818 TATATTTAA-TAATTAAATTA
1 TATATTTAATTAATTAAATAA
85937838 TATAT
1 TATAT
85937843 ATATATATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TATATTTAATTAATTAAATAA
Found at i:85937848 original size:28 final size:27
Alignment explanation
Indices: 85937783--85937859 Score: 70
Period size: 27 Copynumber: 2.8 Consensus size: 27
85937773 TAATTTAATT
85937783 TATAAT-ATGATATTTATAATTAATTAA
1 TATAATAAT-ATATTTATAATTAATTAA
*
85937810 TTTAATAATATATTTAATAATTAAATT-A
1 TATAATAATATATTT-ATAATT-AATTAA
**
85937838 TAT-ATATATATATACATAATTA
1 TATAATA-ATATATTTATAATTA
85937860 TAATCTAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
26 1 0.02
27 20 0.48
28 17 0.40
29 4 0.10
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (27 bp):
TATAATAATATATTTATAATTAATTAA
Found at i:85939413 original size:49 final size:49
Alignment explanation
Indices: 85939341--85939571 Score: 300
Period size: 49 Copynumber: 4.7 Consensus size: 49
85939331 TGGTAGGCAC
* *
85939341 AGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGT
1 AGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTGGTACACGT
* ** *
85939390 AGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGT
1 AGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCTGGTACACGT
* * * * * *
85939440 AGTAGCCTGCACTTTGTACTACACACGTGATCGAAGTTATCAGGTACGCAT
1 AGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCTGGTACACGT
*
85939491 AGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACGT
1 AGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTGGTACACGT
* *
85939540 AGTAGCCTGCACTTAATACTACACACGTGACC
1 AGTAGCCTGCACTTAGTACTACACACGCGACC
85939572 TCACAATAGC
Statistics
Matches: 155, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
49 71 0.46
50 47 0.30
51 37 0.24
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
AGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTGGTACACGT
Found at i:85939508 original size:101 final size:98
Alignment explanation
Indices: 85939341--85939571 Score: 318
Period size: 100 Copynumber: 2.3 Consensus size: 98
85939331 TGGTAGGCAC
* * * *
85939341 AGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTAG
1 AGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTAG
*
85939406 TACTACACACGTGACCTAACCATCTGATACACGT
66 TACTACACACGCGACC-AACCATCTGATACACGT
* * *
85939440 AGTAGCCTGCACTTTGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGCCTGCACTT
1 AGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGGTACACATAGTAGCCTGCACTT
* ** *
85939505 AGTACTACACATGCGACCAATTATCTGGTACACGT
64 AGTACTACACACGCGACCAACCATCTGATACACGT
*
85939540 AGTAGCCTGCACTTAATACTACACACGTGACC
1 AGTAGCCTGCACTTAGTACTACACACGTGACC
85939572 TCACAATAGC
Statistics
Matches: 115, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
99 28 0.24
100 45 0.39
101 42 0.37
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (98 bp):
AGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTAG
TACTACACACGCGACCAACCATCTGATACACGT
Found at i:85946490 original size:45 final size:45
Alignment explanation
Indices: 85946426--85946538 Score: 183
Period size: 45 Copynumber: 2.5 Consensus size: 45
85946416 TAATCAGTAA
* *
85946426 CTGTAGCAGTAACAGTAACAGTATTCAACACACAAAGTG-CTGAAT
1 CTGTAACAGTAACGGTAACAGTATTCAACACACAAAGTGTC-GAAT
85946471 CTGTAACAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAAT
1 CTGTAACAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAAT
*
85946516 CGGTAACAGTAACGGTAACAGTA
1 CTGTAACAGTAACGGTAACAGTA
85946539 ACAGTAGTCG
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
45 63 0.98
46 1 0.02
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.21
Consensus pattern (45 bp):
CTGTAACAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAAT
Found at i:85946533 original size:12 final size:12
Alignment explanation
Indices: 85946516--85946540 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
85946506 AGTGTCGAAT
85946516 CGGTAACAGTAA
1 CGGTAACAGTAA
85946528 CGGTAACAGTAA
1 CGGTAACAGTAA
85946540 C
1 C
85946541 AGTAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:85947694 original size:19 final size:19
Alignment explanation
Indices: 85947651--85947703 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
85947641 TTTTATTAAC
85947651 TTAATAAT-AATA-ATTAT
1 TTAATAATAAATATATTAT
* *
85947668 TATTATAATAAATATCTTAT
1 T-TAATAATAAATATATTAT
*
85947688 TTAATAACAAATATAT
1 TTAATAATAAATATAT
85947704 ATTACAATTG
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
17 1 0.04
18 6 0.21
19 16 0.57
20 5 0.18
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (19 bp):
TTAATAATAAATATATTAT
Found at i:85947931 original size:3 final size:3
Alignment explanation
Indices: 85947923--85948028 Score: 94
Period size: 3 Copynumber: 36.0 Consensus size: 3
85947913 AATTTATTTT
*
85947923 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * *
85947971 TCA TAA T-T TAA CAA T-A TAAA TTA TAA T-T TGA T-A GAA TAA TAA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
85948013 TAA TGAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA
85948029 AAATCTATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
2 5 0.06
3 73 0.88
4 5 0.06
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:85948020 original size:13 final size:13
Alignment explanation
Indices: 85948004--85948028 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85947994 TAATTTGATA
85948004 GAATAATAATAAT
1 GAATAATAATAAT
85948017 GAATAATAATAA
1 GAATAATAATAA
85948029 AAATCTATTT
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:0.00, G:0.08, T:0.28
Consensus pattern (13 bp):
GAATAATAATAAT
Found at i:85948211 original size:20 final size:21
Alignment explanation
Indices: 85948168--85948213 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
85948158 ATATGGTATT
* *
85948168 TATAATTAATTAATTTAATAA
1 TATATTTAATTAATTAAATAA
*
85948189 TATATTTAA-TAATTAAATTA
1 TATATTTAATTAATTAAATAA
85948209 TATAT
1 TATAT
85948214 ATATTACATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TATATTTAATTAATTAAATAA
Found at i:85948215 original size:24 final size:24
Alignment explanation
Indices: 85948174--85948229 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 24
85948164 TATTTATAAT
*
85948174 TAATTAATTTAATAATATATTTA-A
1 TAATTAAATTAATAATATA-TTACA
85948198 TAATTAAATT-ATATATATATTACA
1 TAATTAAATTAATA-ATATATTACA
85948222 TAATTAAA
1 TAATTAAA
85948230 ATTTAAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 6 0.21
24 23 0.79
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
TAATTAAATTAATAATATATTACA
Done.