Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, whole genome shotgun sequence
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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 80 of 121
Found at i:13703142 original size:54 final size:54
Alignment explanation
Indices: 13703038--13703221 Score: 124
Period size: 55 Copynumber: 3.4 Consensus size: 54
13703028 CCCTGTGCAA
* * * *
13703038 CACTTTCTTATTGCATTAAAGCTCCACGCCAACACGTATGACGTGTCTTGTGCT
1 CACTTTCTTATTGCATTAAAGCTCCACACCAACACGTATAACATGCCTTGTGCT
** * *
13703092 CACTTTCTTATTGTGTTAAAGCTTCACACTAACACGTCA-AACATGCCTTGTGAAC-
1 CACTTTCTTATTGCATTAAAGCTCCACACCAACACGT-ATAACATGCCTTGTG--CT
* * * * *** * *
13703147 CA-TTCTTTTATTGCATTAAGGCTCCGTC-CCAACATGCCCAACATGCCCTGTGCAC
1 CACTT-TCTTATTGCATTAAAGCTCC-ACACCAACACGTATAACATGCCTTGTGC-T
*
13703202 CATTTTCTTATTGCATTAAA
1 CACTTTCTTATTGCATTAAA
13703222 ATTCTATGCC
Statistics
Matches: 100, Mismatches: 21, Indels: 17
0.72 0.15 0.12
Matches are distributed among these distances:
53 1 0.01
54 44 0.44
55 51 0.51
56 4 0.04
ACGTcount: A:0.25, C:0.28, G:0.14, T:0.34
Consensus pattern (54 bp):
CACTTTCTTATTGCATTAAAGCTCCACACCAACACGTATAACATGCCTTGTGCT
Found at i:13703190 original size:55 final size:55
Alignment explanation
Indices: 13703131--13703280 Score: 160
Period size: 55 Copynumber: 2.7 Consensus size: 55
13703121 TAACACGTCA
* *
13703131 AACATGCCTTGTGAACCATTCTTTTATTGCATTAAGGCTCCGTCCCAACATGCCC
1 AACATGCCTTGTGCACCATTCTTTTATTGCATTAAGGCTCCATCCCAACATGCCC
* *** * *
13703186 AACATGCCCTGTGCACCATT-TTCTTATTGCATTAAAATTCTATGCCAACATGCCC
1 AACATGCCTTGTGCACCATTCTT-TTATTGCATTAAGGCTCCATCCCAACATGCCC
** **
13703241 AATGTGGCCTTGTGCACCATTC-TTTATTGTGTTAAGGCTC
1 AACAT-GCCTTGTGCACCATTCTTTTATTGCATTAAGGCTC
13703281 TTCAGCTAAC
Statistics
Matches: 76, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
54 2 0.03
55 59 0.78
56 15 0.20
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.34
Consensus pattern (55 bp):
AACATGCCTTGTGCACCATTCTTTTATTGCATTAAGGCTCCATCCCAACATGCCC
Found at i:13713385 original size:43 final size:42
Alignment explanation
Indices: 13713295--13713424 Score: 138
Period size: 42 Copynumber: 3.1 Consensus size: 42
13713285 CTAAACAAAA
* * *
13713295 GCTCAATAATTTTAGAAAATTT-AAAAGATTCCTTTTATCAGA-
1 GCTCAATAA-TTTAAAAAATTTAAAAAGCTT-CTATTATCAGAG
*
13713337 GCTCAATAACTTTAAAAAATTTAAAAAGCTTCTCTTATCAGAG
1 GCTCAATAA-TTTAAAAAATTTAAAAAGCTTCTATTATCAGAG
* * * * *
13713380 GCTCAACAATTTCAAAAATTTAAAATGCTCCTATCATCAGAG
1 GCTCAATAATTTAAAAAATTTAAAAAGCTTCTATTATCAGAG
13713422 GCT
1 GCT
13713425 ATAAAACTTT
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
42 61 0.80
43 15 0.20
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (42 bp):
GCTCAATAATTTAAAAAATTTAAAAAGCTTCTATTATCAGAG
Found at i:13713618 original size:43 final size:42
Alignment explanation
Indices: 13713497--13713616 Score: 120
Period size: 42 Copynumber: 2.8 Consensus size: 42
13713487 AAAGGCTCAT
* * *
13713497 CTCATCAAAGGCTATGAAACTTTAAAACTTTAAAAGGTTTTT
1 CTCATCAAAGGCTATGAAACTTTAAAAATTTAAAAGGTCTTC
* * * *
13713539 CTCATTAGAGGCTCA--ACAATTTTGAAAAACTTAAAAGG-CTTC
1 CTCATCAAAGGCT-ATGA-AACTTT-AAAAATTTAAAAGGTCTTC
13713581 CATCATCAAAGGCTATGAAACTTTAAAAATTTAAAA
1 C-TCATCAAAGGCTATGAAACTTTAAAAATTTAAAA
13713617 AGCTCATTTT
Statistics
Matches: 61, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
41 1 0.02
42 31 0.51
43 28 0.46
44 1 0.02
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.31
Consensus pattern (42 bp):
CTCATCAAAGGCTATGAAACTTTAAAAATTTAAAAGGTCTTC
Found at i:13713638 original size:170 final size:169
Alignment explanation
Indices: 13713344--13713706 Score: 408
Period size: 170 Copynumber: 2.1 Consensus size: 169
13713334 AGAGCTCAAT
* * * *
13713344 AACTTTAAAAAATTTAAAAAGCTTCTCTTATCAGAGGCTCAACAATTTCAAAAATTTAAAATGCT
1 AACTTT-AAAAATTTAAAAGGCTTCTCTCATCAGAGGCTCAACAATTTCAAAAACTTAAAAGGCT
* * * * *
13713409 CCTATCATCAGAGGCTATAAAACTTTGAAGATTTAAATGTCCCATTTCATCATAGGCTTAATAA-
65 CCTATCATCAAAGGCTATAAAACTTTAAAAATTTAAAAGTCCCATTTCATCAGAGGCTTAA-AAT
* * * *
13713473 CTTCAAAAAATATTAAAGGCTCATCTCATCAAAGGCTATGA
129 CTTCAAAAAATATAAAAAGCTCATCTCATAAAAAGCTATGA
* * * * *
13713514 AACTTTAAAACTTTAAAAGGTTTTTCTCATTAGAGGCTCAACAATTTTGAAAAACTTAAAAGGCT
1 AACTTTAAAAATTTAAAAGGCTTCTCTCATCAGAGGCTCAACAA-TTTCAAAAACTTAAAAGGC-
* * * *
13713579 TCC-ATCATCAAAGGCTATGAAACTTTAAAAATTTAAAAAG-CTCATTTTATTAGAGGCTTAAAA
64 TCCTATCATCAAAGGCTATAAAACTTTAAAAATTT-AAAAGTCCCATTTCATCAGAGGCTTAAAA
* ** *
13713642 TTTTTTGAAAAATATAAAAAGCTCATCTCATAAAAAGTTATGA
128 -TCTTCAAAAAATATAAAAAGCTCATCTCATAAAAAGCTATGA
*
13713685 AACTTTAAAATTTTAAAAGGCT
1 AACTTTAAAAATTTAAAAGGCT
13713707 CCTATAACAA
Statistics
Matches: 160, Mismatches: 28, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
169 34 0.21
170 66 0.41
171 60 0.38
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.33
Consensus pattern (169 bp):
AACTTTAAAAATTTAAAAGGCTTCTCTCATCAGAGGCTCAACAATTTCAAAAACTTAAAAGGCTC
CTATCATCAAAGGCTATAAAACTTTAAAAATTTAAAAGTCCCATTTCATCAGAGGCTTAAAATCT
TCAAAAAATATAAAAAGCTCATCTCATAAAAAGCTATGA
Found at i:13713691 original size:86 final size:87
Alignment explanation
Indices: 13713344--13713707 Score: 281
Period size: 85 Copynumber: 4.3 Consensus size: 87
13713334 AGAGCTCAAT
* * * * * *
13713344 AACTTTAAAAAATTTAAAAAGCT--TCTCTTATCAGAGGCTCAACAA-TTTCAAAAATTTAAAAT
1 AACTTT-AAAAATTTAAAAAGCTCATTTCTCATTAGAGGCTCAACAATTTTGAAAAATATAAAAG
* * * *
13713406 GCTCCTATCATCAGAGGCTATAA
65 GCTCATCTCATCAAAGGCTATGA
* * * * * * * ** *
13713429 AACTTTGAAGATTT-AAATGTCCCATTTCATCA-T--AGGCTTAATAACTTCAAAAAATATTAAA
1 AACTTTAAAAATTTAAAAAG-CTCATTTC-TCATTAGAGGCTCAACAATTTTGAAAAATATAAAA
13713490 GGCTCATCTCATCAAAGGCTATGA
64 GGCTCATCTCATCAAAGGCTATGA
* * *
13713514 AACTTTAAAACTTT-AAAAGGT-TTTTCTCATTAGAGGCTCAACAATTTTGAAAAACT-TAAAAG
1 AACTTTAAAAATTTAAAAAGCTCATTTCTCATTAGAGGCTCAACAATTTTGAAAAA-TATAAAAG
13713576 GCT--TCCATCATCAAAGGCTATGA
65 GCTCAT-C-TCATCAAAGGCTATGA
*
13713599 AACTTTAAAAATTTAAAAAGCTCATTT-T-ATTAGAGGCTTAA-AATTTTTTGAAAAATATAAAA
1 AACTTTAAAAATTTAAAAAGCTCATTTCTCATTAGAGGCTCAACAA--TTTTGAAAAATATAAAA
* * * *
13713661 AGCTCATCTCATAAAAAGTTATGA
64 GGCTCATCTCATCAAAGGCTATGA
* *
13713685 AACTTTAAAATTTTAAAAGGCTC
1 AACTTTAAAAATTTAAAAAGCTC
13713708 CTATAACAAG
Statistics
Matches: 220, Mismatches: 41, Indels: 35
0.74 0.14 0.12
Matches are distributed among these distances:
82 3 0.01
83 10 0.05
84 19 0.09
85 118 0.54
86 63 0.29
87 6 0.03
88 1 0.00
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (87 bp):
AACTTTAAAAATTTAAAAAGCTCATTTCTCATTAGAGGCTCAACAATTTTGAAAAATATAAAAGG
CTCATCTCATCAAAGGCTATGA
Found at i:13714114 original size:14 final size:13
Alignment explanation
Indices: 13714083--13714119 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
13714073 ACACCACTTT
*
13714083 ATGAATACAATGC
1 ATGAATGCAATGC
13714096 ATGAATGCAATGTC
1 ATGAATGCAATG-C
13714110 ATGAATGCAA
1 ATGAATGCAA
13714120 CTCCAGTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.43, C:0.14, G:0.19, T:0.24
Consensus pattern (13 bp):
ATGAATGCAATGC
Found at i:13714884 original size:17 final size:17
Alignment explanation
Indices: 13714864--13714897 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
13714854 CTTTTTCCTC
13714864 TTTTTTCTTC-TTTTTTT
1 TTTTTTC-TCATTTTTTT
13714881 TTTTTTCTCATTTTTTT
1 TTTTTTCTCATTTTTTT
13714898 ATCATTTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTTTCTCATTTTTTT
Found at i:13714905 original size:27 final size:26
Alignment explanation
Indices: 13714849--13714905 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
13714839 TTAATTTAAG
*
13714849 TTTTTCTTTTTCCTCTTTTTTCTTCT
1 TTTTTCTTTTTCCTCTTTTTTCTTCA
* *
13714875 TTTTTTTTTTTTCTCATTTTTT-TATCA
1 TTTTTCTTTTTCCTC-TTTTTTCT-TCA
13714902 TTTT
1 TTTT
13714906 CATTCATTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (26 bp):
TTTTTCTTTTTCCTCTTTTTTCTTCA
Found at i:13717186 original size:67 final size:67
Alignment explanation
Indices: 13717078--13717212 Score: 243
Period size: 67 Copynumber: 2.0 Consensus size: 67
13717068 CAGGCACCAA
* *
13717078 ACACAATTCAAAGGCATCCATGGACCTGTAGAAGTCCATTCCTTAAATAGCTCGAAGTCTCTTTT
1 ACACAATTCAAAGGCATCCATAGACCTGTAGAAGTCCATTCCTTAAACAGCTCGAAGTCTCTTTT
13717143 CT
66 CT
*
13717145 ACACAATTCAAAGGCATCCATAGACCTGTAGAAGTTCATTCCTTAAACAGCTCGAAGTCTCTTTT
1 ACACAATTCAAAGGCATCCATAGACCTGTAGAAGTCCATTCCTTAAACAGCTCGAAGTCTCTTTT
13717210 CT
66 CT
13717212 A
1 A
13717213 ATAGATTCTT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (67 bp):
ACACAATTCAAAGGCATCCATAGACCTGTAGAAGTCCATTCCTTAAACAGCTCGAAGTCTCTTTT
CT
Found at i:13719034 original size:99 final size:106
Alignment explanation
Indices: 13718902--13719158 Score: 280
Period size: 109 Copynumber: 2.5 Consensus size: 106
13718892 AAAATCTTTC
* *
13718902 AATAGTTTGGTAAAATTTTATTTTGAGATTTAAATCTTCTAATAGTTTAGTAA-ATTAAAAAATT
1 AATAGTTTGATAAAA-TTTAATTTGAGATTTAAATCTTCTAATAGTTTAGTAAGATTAAAAAATT
* *
13718966 TTAAA-TTTA-AT-TTTCTTT-AAA-ATA-ATTAAACCTTCT
65 ATAAATTTTATATATTTCTTTAAAAGAAACATTAAACCTTCT
* * *
13719002 AATAGTTTGATAAAATTTAATTTGAGACTTAAAT-TCTCCAATAGTTTGGTAAGATTAAAAAATT
1 AATAGTTTGATAAAATTTAATTTGAGATTTAAATCT-TCTAATAGTTTAGTAAGATTAAAAAATT
* * *
13719066 ATAAATTTGTTTATGTATTTGTTTAAAAGAAACATTAAATCTTCT
65 ATAAA--T-TTTATATATTTCTTTAAAAGAAACATTAAACCTTCT
* * *
13719111 AATAATTTGATAAGATTTAATTTAAGATTTAAATCTT-TCAATAGTTTA
1 AATAGTTTGATAAAATTTAATTTGAGATTTAAATCTTCT-AATAGTTTA
13719159 ATATGATTGA
Statistics
Matches: 128, Mismatches: 16, Indels: 17
0.80 0.10 0.11
Matches are distributed among these distances:
98 1 0.01
99 31 0.24
100 29 0.23
104 4 0.03
105 1 0.01
106 6 0.05
107 3 0.02
108 2 0.02
109 50 0.39
110 1 0.01
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.45
Consensus pattern (106 bp):
AATAGTTTGATAAAATTTAATTTGAGATTTAAATCTTCTAATAGTTTAGTAAGATTAAAAAATTA
TAAATTTTATATATTTCTTTAAAAGAAACATTAAACCTTCT
Found at i:13721975 original size:12 final size:12
Alignment explanation
Indices: 13721926--13721978 Score: 61
Period size: 12 Copynumber: 4.4 Consensus size: 12
13721916 AGTTTAAAAC
*
13721926 ATATATATACAT
1 ATATACATACAT
*
13721938 ACATACATACAT
1 ATATACATACAT
*
13721950 ACATACATACAT
1 ATATACATACAT
* *
13721962 ATATATATATAT
1 ATATACATACAT
13721974 ATATA
1 ATATA
13721979 AGCCTCATCT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (12 bp):
ATATACATACAT
Found at i:13721978 original size:4 final size:4
Alignment explanation
Indices: 13721932--13721962 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
13721922 AAACATATAT
13721932 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
13721963 TATATATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:13725695 original size:31 final size:30
Alignment explanation
Indices: 13725651--13725745 Score: 90
Period size: 30 Copynumber: 3.1 Consensus size: 30
13725641 ATAATTTATG
*
13725651 TTAA-GAGTCTATTTAGGTATAAATTAAAAA
1 TTAAGGAGTTTATTT-GGTATAAATTAAAAA
*
13725681 TTTAGGAGTTTATTT-GTATACAAATGT-AAAA
1 TTAAGGAGTTTATTTGGTAT--AAAT-TAAAAA
*
13725712 TTAAGG-GTTTATTTGAGTTTAAATTAAAAA
1 TTAAGGAGTTTATTTG-GTATAAATTAAAAA
13725742 TTAA
1 TTAA
13725746 AGACTTATTT
Statistics
Matches: 54, Mismatches: 4, Indels: 14
0.75 0.06 0.19
Matches are distributed among these distances:
29 5 0.09
30 23 0.43
31 22 0.41
32 4 0.07
ACGTcount: A:0.42, C:0.02, G:0.15, T:0.41
Consensus pattern (30 bp):
TTAAGGAGTTTATTTGGTATAAATTAAAAA
Found at i:13726388 original size:3 final size:3
Alignment explanation
Indices: 13726380--13726409 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
13726370 GATAAAATAT
13726380 TTA TTA TTA TTA TTA TTA TTA TTA TATA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TT
13726410 TATTTAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:13726454 original size:13 final size:14
Alignment explanation
Indices: 13726436--13726470 Score: 54
Period size: 13 Copynumber: 2.5 Consensus size: 14
13726426 CGTTCTCTAT
13726436 TTTTTTCTTTC-TC
1 TTTTTTCTTTCTTC
13726449 TTTTTTCTTTCTTC
1 TTTTTTCTTTCTTC
13726463 TTTCTTTC
1 TTT-TTTC
13726471 CTCCTTTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 11 0.55
14 5 0.25
15 4 0.20
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTTCTTTCTTC
Found at i:13726463 original size:16 final size:16
Alignment explanation
Indices: 13726416--13726461 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 16
13726406 TATTTATTTA
13726416 ATTTTTTTCTCGTTCTCT
1 ATTTTTTTCT--TTCTCT
13726434 ATTTTTTTCTTTCTCT
1 ATTTTTTTCTTTCTCT
*
13726450 TTTTTCTTTCTT
1 ATTTT-TTTCTT
13726462 CTTTCTTTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 10 0.38
17 6 0.23
18 10 0.38
ACGTcount: A:0.04, C:0.20, G:0.02, T:0.74
Consensus pattern (16 bp):
ATTTTTTTCTTTCTCT
Found at i:13727925 original size:209 final size:208
Alignment explanation
Indices: 13727547--13727925 Score: 500
Period size: 209 Copynumber: 1.8 Consensus size: 208
13727537 CAATAATAAG
* * * * *
13727547 AAAAAGAAATTTTATCCGACGATGAGATTCAAAAGTATTCTGAGTAGTGATGCCTACAAAATCTC
1 AAAAAGAAATTTTATCCAACGAAGAGATTCAAAAGTATTCCGAATAGAGATGCCTACAAAATCTC
* * *
13727612 TAGGTGAGAAGATTTTTTTAAAATACTATCAGTGTATTAGAGTATTTATAAAAAATTTTCAATAC
66 TAGGTGAAAAGATTTTTTTAAAATACTATCAGTGTATTAGAATATTTATAAAAAATCTTCAATAC
* * * *
13727677 AGTAAAATTTTTCTTTTTTTTTAAATAATAAATAAAAATTGATTAATATATTAAAAATATAAGTA
131 AATAAAATTTTTCTTTTTCTTCAAATAATAAAAAAAAATTGATTAATATATTAAAAATATAAGTA
13727742 ATAAAAATGAGAA
196 ATAAAAATGAGAA
* * *
13727755 AAAAATAAATTTTATCCAATGAAGAGATTCCAAAAGTATTCCGAATAGAGATGCTTTA-AGAAAT
1 AAAAAGAAATTTTATCCAACGAAGAGATT-CAAAAGTATTCCGAATAGAGATGC-CTACA-AAAT
*
13727819 CTCTAGGTGAAAAGATTTTTTT-AAATATTATCAGTGTATT-GAAATATTTATAGAAAAA-CTTC
63 CTCTAGGTGAAAAGATTTTTTTAAAATACTATCAGTGTATTAG-AATATTTATA-AAAAATCTTC
*
13727881 AATACAATAAAAATTCTTT-TTTTTCTTCAAA-ATTAAAAAAAAATT
126 AATACAAT-AAAATT-TTTCTTTTTCTTCAAATAATAAAAAAAAATT
13727926 AATAAAATTT
Statistics
Matches: 147, Mismatches: 17, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
208 26 0.18
209 70 0.48
210 48 0.33
211 3 0.02
ACGTcount: A:0.45, C:0.08, G:0.11, T:0.36
Consensus pattern (208 bp):
AAAAAGAAATTTTATCCAACGAAGAGATTCAAAAGTATTCCGAATAGAGATGCCTACAAAATCTC
TAGGTGAAAAGATTTTTTTAAAATACTATCAGTGTATTAGAATATTTATAAAAAATCTTCAATAC
AATAAAATTTTTCTTTTTCTTCAAATAATAAAAAAAAATTGATTAATATATTAAAAATATAAGTA
ATAAAAATGAGAA
Found at i:13739104 original size:37 final size:37
Alignment explanation
Indices: 13739061--13739134 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
13739051 AGAATCAAGG
13739061 AAGTCATCTGATTTAGTTTTAGAGAAAGAATCTGAGA
1 AAGTCATCTGATTTAGTTTTAGAGAAAGAATCTGAGA
13739098 AAGTCATCTGATTTAGTTTTAGAGAAAGAATCTGAGA
1 AAGTCATCTGATTTAGTTTTAGAGAAAGAATCTGAGA
13739135 GTATTTTGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (37 bp):
AAGTCATCTGATTTAGTTTTAGAGAAAGAATCTGAGA
Found at i:13739867 original size:52 final size:52
Alignment explanation
Indices: 13739807--13739975 Score: 186
Period size: 52 Copynumber: 3.3 Consensus size: 52
13739797 TAAATGAAAA
13739807 TTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAATTATTTTCAAGATATGAGAT
1 TTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAATTATTTTCAAGATATGAGAT
* ** * *
13739859 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCT-TTTCCAAGAGA--AGA-
1 TTTTAAAGTTGTTGAGCCTCTGCTAAGAGGA-ATTATTTTCAAGATATGAGAT
* * * *
13739908 TTTTAAAGTTGTTGAGCCTTTGCTGAA-ATGAGTCATTTTCAAGATATGAGAT
1 TTTTAAAGTTGTTGAGCCTCTGCT-AAGAGGAATTATTTTCAAGATATGAGAT
* *
13739960 TTTTGAAGTTATTGAG
1 TTTTAAAGTTGTTGAG
13739976 AGGAGCTTTT
Statistics
Matches: 96, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
49 35 0.36
50 4 0.04
51 3 0.03
52 53 0.55
53 1 0.01
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.38
Consensus pattern (52 bp):
TTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAATTATTTTCAAGATATGAGAT
Found at i:13739932 original size:49 final size:48
Alignment explanation
Indices: 13739759--13740072 Score: 228
Period size: 49 Copynumber: 6.6 Consensus size: 48
13739749 AATGAAAATT
* * * * *
13739759 TTTTTAAGTTGTT-ATGCCTCTACTGAGATGAGCTTTTCTAA-ATGAAAA
1 TTTTAAAGTTGTTGA-GCCTCTGCTGAGAGGAGCTTTTCCAAGAT-AAGA
* ** *
13739807 TTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAATTATTTTCAAGATATGAGA
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCT-TTTCCAAGATA--AGA
*
13739858 TTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTCCAAGAGAAGA
1 -TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTCCAAGATAAGA
* * *
13739908 TTTTAAAGTTGTTGAGCCTTTGCTGAAATGAGTCATTTT-CAAGATATGAGA
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-C-TTTTCCAAGATA--AGA
* *
13739959 TTTTTGAA---GTT-A-----T--TGAGAGGAGCTTTTCCAAAATAAGAA
1 -TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAGATAAG-A
* *
13739998 TTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTCAAGA-AA-A
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAGATAAGA
* *
13740044 TTTTAAAGTTGTTGAGCATCTGCTAAGAG
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGAG
13740073 AAACCTTTTA
Statistics
Matches: 213, Mismatches: 29, Indels: 50
0.73 0.10 0.17
Matches are distributed among these distances:
38 8 0.04
39 5 0.02
40 7 0.03
41 10 0.05
42 1 0.00
43 1 0.00
46 27 0.13
47 1 0.00
48 29 0.14
49 64 0.30
50 9 0.04
51 5 0.02
52 45 0.21
53 1 0.00
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.37
Consensus pattern (48 bp):
TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAGATAAGA
Found at i:13739946 original size:101 final size:100
Alignment explanation
Indices: 13739758--13739975 Score: 280
Period size: 101 Copynumber: 2.2 Consensus size: 100
13739748 AAATGAAAAT
* * *
13739758 TTTTTTAAGTTGTT-ATGCCTCTACTGAGATGAGCTTTTCTAAATGAAAATTTTAAAGTTGTTGA
1 TTTTTAAAGTTGTTGA-GCCTCTACTGAGAGGAGCTTTTCCAAATGAAAATTTTAAAGTTGTTGA
*
13739822 GCCTCTGCTAAGAGGAATTATTTTCAAGATATGAGA
65 GCCTCTGCTAAGAGGAATCATTTTCAAGATATGAGA
* *
13739858 TTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTCCAAGA-GAAGATTTTAAAGTTGTTG
1 TTTTTAAAGTTGTTGAGCCTCTACTGAGAGGAG-CTTTTCCAA-ATGAAAATTTTAAAGTTGTTG
* * *
13739922 AGCCTTTGCTGAA-ATGAGTCATTTTCAAGATATGAGA
64 AGCCTCTGCT-AAGAGGAATCATTTTCAAGATATGAGA
* *
13739959 TTTTTGAAGTTATTGAG
1 TTTTTAAAGTTGTTGAG
13739976 AGGAGCTTTT
Statistics
Matches: 103, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
100 28 0.27
101 72 0.70
102 3 0.03
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (100 bp):
TTTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAAATGAAAATTTTAAAGTTGTTGAG
CCTCTGCTAAGAGGAATCATTTTCAAGATATGAGA
Found at i:13740308 original size:11 final size:11
Alignment explanation
Indices: 13740294--13740345 Score: 54
Period size: 12 Copynumber: 4.7 Consensus size: 11
13740284 ATTTATTTAA
13740294 TTTTTTTCTCGT
1 TTTTTTTCTC-T
*
13740306 TTTCTTT-T-T
1 TTTTTTTCTCT
13740315 TTTTTTTCTTCT
1 TTTTTTTC-TCT
*
13740327 TTTTTTCCTCT
1 TTTTTTTCTCT
13740338 TTTTTTTC
1 TTTTTTTC
13740346 CCTTCTTCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
9 7 0.21
11 12 0.36
12 14 0.42
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (11 bp):
TTTTTTTCTCT
Found at i:13740321 original size:13 final size:13
Alignment explanation
Indices: 13740305--13740344 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
13740295 TTTTTTCTCG
13740305 TTTTCTTTTTTTT
1 TTTTCTTTTTTTT
13740318 TTTTCTTCTTTTTT
1 TTTTCTT-TTTTTT
**
13740332 TCCTCTTTTTTTT
1 TTTTCTTTTTTTT
13740345 CCCTTCTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTCTTTTTTTT
Found at i:13740346 original size:12 final size:12
Alignment explanation
Indices: 13740314--13740346 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
13740304 GTTTTCTTTT
*
13740314 TTTTTTTTCTTC
1 TTTTTTTTCCTC
13740326 -TTTTTTTCCTC
1 TTTTTTTTCCTC
13740337 TTTTTTTTCC
1 TTTTTTTTCC
13740347 CTTCTTCTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTTTTCCTC
Found at i:13740352 original size:14 final size:13
Alignment explanation
Indices: 13740313--13740362 Score: 50
Period size: 12 Copynumber: 3.9 Consensus size: 13
13740303 CGTTTTCTTT
*
13740313 TTTTTTTTTCTTC
1 TTTTTTTTCCTTC
13740326 -TTTTTTTCC-TC
1 TTTTTTTTCCTTC
13740337 TTTTTTTTCCCTTC
1 TTTTTTTT-CCTTC
* *
13740351 TTCTTCTTCCTT
1 TTTTTTTTCCTT
13740363 ATTCAGTTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
11 2 0.06
12 15 0.48
13 6 0.19
14 8 0.26
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTTTTTCCTTC
Found at i:13740747 original size:13 final size:13
Alignment explanation
Indices: 13740731--13740765 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
13740721 CACATAAAAA
13740731 AAAAAAAACAAAC
1 AAAAAAAACAAAC
*
13740744 AAAAAAAACACAC
1 AAAAAAAACAAAC
13740757 AAAATAAAA
1 AAAA-AAAA
13740766 AAAATTTACC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.83, C:0.14, G:0.00, T:0.03
Consensus pattern (13 bp):
AAAAAAAACAAAC
Found at i:13742709 original size:5 final size:5
Alignment explanation
Indices: 13742699--13742727 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
13742689 ATCTCAATTC
13742699 ATTAT ATTAT ATTAT ATTAT ATTAT ATTA
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTA
13742728 AGTAAATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:13754123 original size:24 final size:25
Alignment explanation
Indices: 13754087--13754150 Score: 94
Period size: 24 Copynumber: 2.6 Consensus size: 25
13754077 TGGTAGGATT
*
13754087 TTTATTATTATATTTATTTACGTGA
1 TTTATTATTATATTTATTTACATGA
*
13754112 TTT-TTATTATATTTATTTGCATGA
1 TTTATTATTATATTTATTTACATGA
*
13754136 TTTATTATGATATTT
1 TTTATTATTATATTT
13754151 TTGCATGATC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
24 22 0.63
25 13 0.37
ACGTcount: A:0.27, C:0.03, G:0.08, T:0.62
Consensus pattern (25 bp):
TTTATTATTATATTTATTTACATGA
Found at i:13754157 original size:23 final size:22
Alignment explanation
Indices: 13754091--13754159 Score: 77
Period size: 24 Copynumber: 3.0 Consensus size: 22
13754081 AGGATTTTTA
* *
13754091 TTATTATATTTATTTACGTGATTT
1 TTATTATATTTATTTGCATGA--T
13754115 TTATTATATTTATTTGCATGAT
1 TTATTATATTTATTTGCATGAT
13754137 TTATTATGATATT-TTTGCATGAT
1 TTATTAT-AT-TTATTTGCATGAT
13754160 CTTTGTATGT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
22 8 0.20
23 12 0.29
24 21 0.51
ACGTcount: A:0.26, C:0.04, G:0.10, T:0.59
Consensus pattern (22 bp):
TTATTATATTTATTTGCATGAT
Found at i:13756029 original size:287 final size:288
Alignment explanation
Indices: 13755471--13756041 Score: 939
Period size: 287 Copynumber: 2.0 Consensus size: 288
13755461 GTCAAGCATT
* *
13755471 CAAATAAGAAAGGGATGAATGAAAGAGTTTGTTCACTAACATTAACATAACATAGTCATCCACCA
1 CAAACAAGAAAGGGATGAACGAAAGAGTTTGTTCACTAACATTAACATAACATAGTCATCCACCA
*
13755536 CTCGTGAGTTGGCCCAACATCTAAAAAAAAAAGTAATTGTAAGCAAAGGTGCAATAAAGTGAAAA
66 CTCGTGAGTTGGCCCAACATCTAAAAAAAAAAGCAATTGTAAGCAAAGGTGCAATAAAGTGAAAA
* * ** **
13755601 GGCACTCTCTAAAGTGTAACAGTACATCCAAATGCTAAATGGGGTTATGGTTGAAATTGAAACAC
131 GGCACTCTCTAAAGTGCAACAATACATCCAAATGCTAAATACGGTTATAATTGAAATTGAAACAC
* * * *
13755666 AAATGGGTGCCTTAAATGAGGAAGTGAACAAGTAAATGAGGCATATGTAAAGAAGCATAACCAAT
196 AAATGGATGCATTAAATGAGGAAATGAACAAGTAAAAGAGGCATATGTAAAGAAGCATAACCAAT
13755731 TGGAGTGCTTGCTTGACCAAATCATGAC
261 TGGAGTGCTTGCTTGACCAAATCATGAC
* *
13755759 CAAACAAGAAAGGGATGAACGAAAGATTTTGTTCGCTAACA-TAACATAACATAGTCATCCACCA
1 CAAACAAGAAAGGGATGAACGAAAGAGTTTGTTCACTAACATTAACATAACATAGTCATCCACCA
** *
13755823 CTCGTGAGTTGGCCCAACATCTAAAAAAATGA-CAATTGTAAGCAAATGTGCAATAAAGTGAAAA
66 CTCGTGAGTTGGCCCAACATCTAAAAAAAAAAGCAATTGTAAGCAAAGGTGCAATAAAGTGAAAA
*
13755887 GGCACTCTCTAAAGTGCAACAATACATCCAAATGCTAAATACGGTTATAATTGAAATTGGAACAC
131 GGCACTCTCTAAAGTGCAACAATACATCCAAATGCTAAATACGGTTATAATTGAAATTGAAACAC
*
13755952 AAATGGATGCATTAAATGAGGAATATGAACAAGTAAAAGAGGCATATGTAAAGAAGCATGACCAA
196 AAATGGATGCATTAAATGAGGAA-ATGAACAAGTAAAAGAGGCATATGTAAAGAAGCATAACCAA
13756017 TTGGAGTGCTTGCTTGACCAAATCA
260 TTGGAGTGCTTGCTTGACCAAATCA
13756042 CTATGGCTAC
Statistics
Matches: 262, Mismatches: 20, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
286 109 0.42
287 116 0.44
288 37 0.14
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.23
Consensus pattern (288 bp):
CAAACAAGAAAGGGATGAACGAAAGAGTTTGTTCACTAACATTAACATAACATAGTCATCCACCA
CTCGTGAGTTGGCCCAACATCTAAAAAAAAAAGCAATTGTAAGCAAAGGTGCAATAAAGTGAAAA
GGCACTCTCTAAAGTGCAACAATACATCCAAATGCTAAATACGGTTATAATTGAAATTGAAACAC
AAATGGATGCATTAAATGAGGAAATGAACAAGTAAAAGAGGCATATGTAAAGAAGCATAACCAAT
TGGAGTGCTTGCTTGACCAAATCATGAC
Found at i:13756572 original size:28 final size:28
Alignment explanation
Indices: 13756510--13756574 Score: 78
Period size: 30 Copynumber: 2.3 Consensus size: 28
13756500 CAAATTTGTC
13756510 CAAAAAAAAATATATACAAAATACGAAATA
1 CAAAAAAAAATATATACAAAATACG-AA-A
* * *
13756540 CAAAAAAATATATATATAAAATA-TAAA
1 CAAAAAAAAATATATACAAAATACGAAA
13756567 CAAAAAAA
1 CAAAAAAA
13756575 TACAAAACAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 9 0.28
28 2 0.06
30 21 0.66
ACGTcount: A:0.72, C:0.08, G:0.02, T:0.18
Consensus pattern (28 bp):
CAAAAAAAAATATATACAAAATACGAAA
Found at i:13756584 original size:15 final size:15
Alignment explanation
Indices: 13756564--13756609 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
13756554 TATAAAATAT
13756564 AAACAAAAAAATACA
1 AAACAAAAAAATACA
*
13756579 AAACAAAAAAA-A-T
1 AAACAAAAAAATACA
*
13756592 AACCAAAAAAATACA
1 AAACAAAAAAATACA
13756607 AAA
1 AAA
13756610 AAAGGAACAG
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 10 0.40
14 2 0.08
15 13 0.52
ACGTcount: A:0.80, C:0.13, G:0.00, T:0.07
Consensus pattern (15 bp):
AAACAAAAAAATACA
Found at i:13758028 original size:16 final size:16
Alignment explanation
Indices: 13758009--13758058 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
13757999 CTAGGTTTCT
13758009 AAAACCCCTAAAATCC
1 AAAACCCCTAAAATCC
* * *
13758025 AAAATCCCTTAAATTC
1 AAAACCCCTAAAATCC
13758041 -AAACCCCTAAAATCC
1 AAAACCCCTAAAATCC
13758056 AAA
1 AAA
13758059 CCCTTATATC
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
15 12 0.44
16 15 0.56
ACGTcount: A:0.50, C:0.32, G:0.00, T:0.18
Consensus pattern (16 bp):
AAAACCCCTAAAATCC
Found at i:13758053 original size:15 final size:15
Alignment explanation
Indices: 13758010--13758061 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
13758000 TAGGTTTCTA
13758010 AAACCCCTAAAATCC
1 AAACCCCTAAAATCC
* * *
13758025 AAAATCCCTTAAATTC
1 -AAACCCCTAAAATCC
13758041 AAACCCCTAAAATCC
1 AAACCCCTAAAATCC
13758056 AAACCC
1 AAACCC
13758062 TTATATCAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
15 18 0.60
16 12 0.40
ACGTcount: A:0.46, C:0.37, G:0.00, T:0.17
Consensus pattern (15 bp):
AAACCCCTAAAATCC
Found at i:13758073 original size:14 final size:14
Alignment explanation
Indices: 13758009--13758075 Score: 53
Period size: 14 Copynumber: 4.5 Consensus size: 14
13757999 CTAGGTTTCT
*
13758009 AAAACCCCTAAAATCC
1 AAAA-CCCTTAAAT-C
13758025 AAAATCCCTTAAATTC
1 AAAA-CCCTTAAA-TC
* *
13758041 AAACCCCTAAAATC
1 AAAACCCTTAAATC
* *
13758055 CAAACCCTTATATC
1 AAAACCCTTAAATC
13758069 AAAACCC
1 AAAACCC
13758076 CAAACCTCAA
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
14 18 0.44
15 7 0.17
16 15 0.37
17 1 0.02
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAACCCTTAAATC
Found at i:13758212 original size:12 final size:12
Alignment explanation
Indices: 13758187--13758221 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
13758177 AACCAAACTT
13758187 TCAAAACCTCTAC
1 TCAAAACCT-TAC
*
13758200 TCAAACCCTTAC
1 TCAAAACCTTAC
13758212 TCAAAACCTT
1 TCAAAACCTT
13758222 CGAAAAATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.26
Consensus pattern (12 bp):
TCAAAACCTTAC
Found at i:13770839 original size:36 final size:36
Alignment explanation
Indices: 13770697--13770868 Score: 88
Period size: 35 Copynumber: 4.8 Consensus size: 36
13770687 CATTTTTTTC
* * * * * *
13770697 TTTGACTTACGGTTCAATCTCAATTATCTTTAA-TA
1 TTTGACTTATGGTTCAATCTGAGTCATCGTTAATTT
* * *
13770732 TTTGACTCATGGTTTAATCCTGA-TCATTC-TTATAGCTT
1 TTTGACTTATGGTTCAAT-CTGAGTCA-TCGTTA-A-TTT
* * **
13770770 TTTGACTTATGGTTTAATCTTAGTCATTTTTAATTT
1 TTTGACTTATGGTTCAATCTGAGTCATCGTTAATTT
* *
13770806 TTTGACTTATGGTTCAGTCTCGA-TCATCGTTAA-TA
1 TTTGACTTATGGTTCAATCT-GAGTCATCGTTAATTT
*
13770841 TTTGA-TTCATGGTTTAATCCTGA-TCATC
1 TTTGACTT-ATGGTTCAAT-CTGAGTCATC
13770869 CTTATAGCTT
Statistics
Matches: 109, Mismatches: 18, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
34 2 0.02
35 41 0.38
36 36 0.33
37 6 0.06
38 24 0.22
ACGTcount: A:0.23, C:0.16, G:0.13, T:0.48
Consensus pattern (36 bp):
TTTGACTTATGGTTCAATCTGAGTCATCGTTAATTT
Found at i:13770865 original size:109 final size:109
Alignment explanation
Indices: 13770603--13771575 Score: 1174
Period size: 109 Copynumber: 8.9 Consensus size: 109
13770593 GACTTGGGAC
* * * **
13770603 TCAGTCCCGATCATCGTTAATCTTTGATTGATGATTTAATTTTGATCATTCTTATAGCTTCTCGA
1 TCAGTCTCGATCATCGTTAATCTTTGATTCATGGTTTAATCCTGATCATTCTTATAGCTTCTCGA
13770668 CTTATGGTTTAATCCTAGTCA-TTTT-TTTCTTTGACTTACGGT
66 CTTATGGTTTAATCCTAGTCATTTTTATTTCTTTGACTTACGGT
* * * * * * * *
13770710 TCAATCTCAATTATCTTTAATATTTGACTCATGGTTTAATCCTGATCATTCTTATAGCTTTTTGA
1 TCAGTCTCGATCATCGTTAATCTTTGATTCATGGTTTAATCCTGATCATTCTTATAGCTTCTCGA
* *
13770775 CTTATGGTTTAATCTTAGTCATTTTTAATTT-TTTGACTTATGGT
66 CTTATGGTTTAATCCTAGTCATTTTT-ATTTCTTTGACTTACGGT
* *
13770819 TCAGTCTCGATCATCGTTAATATTTGATTCATGGTTTAATCCTGATCATCCTTATAGCTTCTCGA
1 TCAGTCTCGATCATCGTTAATCTTTGATTCATGGTTTAATCCTGATCATTCTTATAGCTTCTCGA
* * * *
13770884 CTTATGGTTTTATTCTAAG-CATTTTTATTTCCTTGACTTGCGGT
66 CTTATGGTTTAATCCT-AGTCATTTTTATTTCTTTGACTTACGGT
* * * * * *
13770928 TCAGTCCCAATTATCTTTAATCTTTGACTTC-TGGTTTAATCCCGATCATTCTTATAGCTTTTCG
1 TCAGTCTCGATCATCGTTAATCTTTGA-TTCATGGTTTAATCCTGATCATTCTTATAGCTTCTCG
* * *
13770992 ACTTACGATTTAATCCTAGTCACTTTTATTTCTTTGACTTACGGT
65 ACTTATGGTTTAATCCTAGTCATTTTTATTTCTTTGACTTACGGT
* *
13771037 TCAATCTCGATCATCGTTAATCTTTGATTCATGGTTTAATCCTGATCATTCTTATAGCTGCTCGA
1 TCAGTCTCGATCATCGTTAATCTTTGATTCATGGTTTAATCCTGATCATTCTTATAGCTTCTCGA
*
13771102 CTTATGGTTTAATCCTAGTCGTTTTTATTTCTTTGACTTACGGT
66 CTTATGGTTTAATCCTAGTCATTTTTATTTCTTTGACTTACGGT
* * * * * *
13771146 TCAGTCTC-ACTTATCTTTAATCTTTGACTCGTGGTTTAATCCTGATCATTCTTATAACTTTTCG
1 TCAGTCTCGA-TCATCGTTAATCTTTGATTCATGGTTTAATCCTGATCATTCTTATAGCTTCTCG
* * * * *
13771210 ACTTACGATTTAATCCTAGTCACTTTTATTTCTTTAACTTGCGGT
65 ACTTATGGTTTAATCCTAGTCATTTTTATTTCTTTGACTTACGGT
*
13771255 TCAGTCTCGATCATCGTTCATCTTTGATTCATGGTTTAATCCTGATCATTCTTATAGCTTCTCGA
1 TCAGTCTCGATCATCGTTAATCTTTGATTCATGGTTTAATCCTGATCATTCTTATAGCTTCTCGA
* * * *
13771320 TTTATGGTTTAATCCAAGTCGTTTTTATTTCCTTGACTTACGGT
66 CTTATGGTTTAATCCTAGTCATTTTTATTTCTTTGACTTACGGT
* * * * * * * *
13771364 TCAATC-CCAGTTATCTTTAATCTTTGACTCATGATTTAAT-CTCGATCATTCTTATAGCTTTTT
1 TCAGTCTCGA-TCATCGTTAATCTTTGATTCATGGTTTAATCCT-GATCATTCTTATAGCTTCTC
* * *** * *
13771427 GACTTACGATTTAATCCTAGTTGCTTTTATTTCTTTAACTTATGGT
64 GACTTATGGTTTAATCCTAGTCATTTTTATTTCTTTGACTTACGGT
* * * *
13771473 TTAGTC-CCAGTCATCGTTAATCTTTGACTT-GTGGTTCAATCCTGATCATTCTTATAGCTTCTC
1 TCAGTCTCGA-TCATCGTTAATCTTTGA-TTCATGGTTTAATCCTGATCATTCTTATAGCTTCTC
* *
13771536 GACTTACGGTTTAATCCTAGTCATTTTTATTTCTGTGACT
64 GACTTATGGTTTAATCCTAGTCATTTTTATTTCTTTGACT
13771576 CGTGGTTTAA
Statistics
Matches: 732, Mismatches: 120, Indels: 26
0.83 0.14 0.03
Matches are distributed among these distances:
107 72 0.10
108 18 0.02
109 630 0.86
110 12 0.02
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (109 bp):
TCAGTCTCGATCATCGTTAATCTTTGATTCATGGTTTAATCCTGATCATTCTTATAGCTTCTCGA
CTTATGGTTTAATCCTAGTCATTTTTATTTCTTTGACTTACGGT
Found at i:13771030 original size:218 final size:218
Alignment explanation
Indices: 13770603--13771568 Score: 1388
Period size: 218 Copynumber: 4.4 Consensus size: 218
13770593 GACTTGGGAC
* * * **
13770603 TCAGTCCCGATCATCGTTAATCTTTGATTGATGATTTAATTTTGATCATTCTTATAGCTTCTCGA
1 TCAGTCTCGATCATCGTTAATCTTTGATTCATGGTTTAATCCTGATCATTCTTATAGCTTCTCGA
* *
13770668 CTTATGGTTTAATCCTAGTCA-TTTT-TTTCTTTGACTTACGGTTCAATCTCAATTATCTTTAAT
66 CTTATGGTTTAATCCTAGTCATTTTTATTTCCTTGACTTACGGTTCAATCCCAATTATCTTTAAT
* * * * * *
13770731 ATTTGACTCATGGTTTAATCCTGATCATTCTTATAGCTTTTTGACTTATGGTTTAATCTTAGTCA
131 CTTTGACTCATGGTTTAATCCCGATCATTCTTATAGCTTTTCGACTTACGATTTAATCCTAGTCA
* * *
13770796 TTTTTAATTT-TTTGACTTATGGT
196 CTTTT-ATTTCTTTAACTTACGGT
* *
13770819 TCAGTCTCGATCATCGTTAATATTTGATTCATGGTTTAATCCTGATCATCCTTATAGCTTCTCGA
1 TCAGTCTCGATCATCGTTAATCTTTGATTCATGGTTTAATCCTGATCATTCTTATAGCTTCTCGA
* * * *
13770884 CTTATGGTTTTATTCTAAG-CATTTTTATTTCCTTGACTTGCGGTTCAGTCCCAATTATCTTTAA
66 CTTATGGTTTAATCCT-AGTCATTTTTATTTCCTTGACTTACGGTTCAATCCCAATTATCTTTAA
13770948 TCTTTGACTTC-TGGTTTAATCCCGATCATTCTTATAGCTTTTCGACTTACGATTTAATCCTAGT
130 TCTTTGAC-TCATGGTTTAATCCCGATCATTCTTATAGCTTTTCGACTTACGATTTAATCCTAGT
*
13771012 CACTTTTATTTCTTTGACTTACGGT
194 CACTTTTATTTCTTTAACTTACGGT
* *
13771037 TCAATCTCGATCATCGTTAATCTTTGATTCATGGTTTAATCCTGATCATTCTTATAGCTGCTCGA
1 TCAGTCTCGATCATCGTTAATCTTTGATTCATGGTTTAATCCTGATCATTCTTATAGCTTCTCGA
* * * * *
13771102 CTTATGGTTTAATCCTAGTCGTTTTTATTTCTTTGACTTACGGTTCAGTCTCACTTATCTTTAAT
66 CTTATGGTTTAATCCTAGTCATTTTTATTTCCTTGACTTACGGTTCAATCCCAATTATCTTTAAT
* * *
13771167 CTTTGACTCGTGGTTTAATCCTGATCATTCTTATAACTTTTCGACTTACGATTTAATCCTAGTCA
131 CTTTGACTCATGGTTTAATCCCGATCATTCTTATAGCTTTTCGACTTACGATTTAATCCTAGTCA
*
13771232 CTTTTATTTCTTTAACTTGCGGT
196 CTTTTATTTCTTTAACTTACGGT
*
13771255 TCAGTCTCGATCATCGTTCATCTTTGATTCATGGTTTAATCCTGATCATTCTTATAGCTTCTCGA
1 TCAGTCTCGATCATCGTTAATCTTTGATTCATGGTTTAATCCTGATCATTCTTATAGCTTCTCGA
* * * *
13771320 TTTATGGTTTAATCCAAGTCGTTTTTATTTCCTTGACTTACGGTTCAATCCCAGTTATCTTTAAT
66 CTTATGGTTTAATCCTAGTCATTTTTATTTCCTTGACTTACGGTTCAATCCCAATTATCTTTAAT
* * * **
13771385 CTTTGACTCATGATTTAATCTCGATCATTCTTATAGCTTTTTGACTTACGATTTAATCCTAGTTG
131 CTTTGACTCATGGTTTAATCCCGATCATTCTTATAGCTTTTCGACTTACGATTTAATCCTAGTCA
*
13771450 CTTTTATTTCTTTAACTTATGGT
196 CTTTTATTTCTTTAACTTACGGT
* * * *
13771473 TTAGTC-CCAGTCATCGTTAATCTTTGACTT-GTGGTTCAATCCTGATCATTCTTATAGCTTCTC
1 TCAGTCTCGA-TCATCGTTAATCTTTGA-TTCATGGTTTAATCCTGATCATTCTTATAGCTTCTC
*
13771536 GACTTACGGTTTAATCCTAGTCATTTTTATTTC
64 GACTTATGGTTTAATCCTAGTCATTTTTATTTC
13771569 TGTGACTCGT
Statistics
Matches: 677, Mismatches: 64, Indels: 16
0.89 0.08 0.02
Matches are distributed among these distances:
216 74 0.11
217 16 0.02
218 583 0.86
219 4 0.01
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (218 bp):
TCAGTCTCGATCATCGTTAATCTTTGATTCATGGTTTAATCCTGATCATTCTTATAGCTTCTCGA
CTTATGGTTTAATCCTAGTCATTTTTATTTCCTTGACTTACGGTTCAATCCCAATTATCTTTAAT
CTTTGACTCATGGTTTAATCCCGATCATTCTTATAGCTTTTCGACTTACGATTTAATCCTAGTCA
CTTTTATTTCTTTAACTTACGGT
Found at i:13771183 original size:327 final size:324
Alignment explanation
Indices: 13770579--13771568 Score: 1324
Period size: 327 Copynumber: 3.0 Consensus size: 324
13770569 AGTTATGGTT
* * * *
13770579 ATTTTTATTCCCTTGACTTG-GGACTCAGTCCCGATCATCGTTAATCTTTGATTGATGATTTAAT
1 ATTTTTATTTCCTTGACTTGCGG-TTCAGTCCCGATCATCGTTAATCTTTGATT-CTGGTTTAAT
**
13770643 TTTGATCATTCTTATAGCTTCTCGACTTATGGTTTAATCCTAGTCATTTT-TTTCTTTGACTTAC
64 CCTGATCATTCTTATAGCTTCTCGACTTATGGTTTAATCCTAGTCATTTTATTTCTTTGACTTAC
*
13770707 GGTTCAATCTCAATTATCTTTAATATTTGACTCATGGTTTAATCCTGATCATTCTTATAGCTTTT
129 GGTTCAATCTCAATTATCTTTAATCTTTGACTCATGGTTTAATCCTGATCATTCTTATAGCTTTT
* *
13770772 TGACTTATGGTTTAATCTTAGTCATTTTTAATTT-TTTGACTTATGGTTCAGTCTCGATCATCGT
194 TGACTTATGGTTTAATCCTAGTCGTTTTT-ATTTCTTTGACTTATGGTTCAGTCTC-ATCATCGT
* * * * * * *
13770836 TAATATTTGATTCATGGTTTAATCCTGATCATCCTTATAGCTTCTCGACTTATGGTTTTATTCTA
257 TAATCTTTGACTCGTGGTTTAATCCTGATCATTCTTATAGCTTCTCGACTTACGGTTTAATCCT-
13770901 AG-C
321 AGTC
* * *
13770904 ATTTTTATTTCCTTGACTTGCGGTTCAGTCCCAATTATCTTTAATCTTTGACTTCTGGTTTAATC
1 ATTTTTATTTCCTTGACTTGCGGTTCAGTCCCGATCATCGTTAATCTTTGA-TTCTGGTTTAATC
* * * *
13770969 CCGATCATTCTTATAGCTTTTCGACTTACGATTTAATCCTAGTCACTTTTATTTCTTTGACTTAC
65 CTGATCATTCTTATAGCTTCTCGACTTATGGTTTAATCCTAGTCA-TTTTATTTCTTTGACTTAC
* * * * **
13771034 GGTTCAATCTCGATCATCGTTAATCTTTGATTCATGGTTTAATCCTGATCATTCTTATAGCTGCT
129 GGTTCAATCTCAATTATCTTTAATCTTTGACTCATGGTTTAATCCTGATCATTCTTATAGCTTTT
* * * *
13771099 CGACTTATGGTTTAATCCTAGTCGTTTTTATTTCTTTGACTTACGGTTCAGTCTCACTTATCTTT
194 TGACTTATGGTTTAATCCTAGTCGTTTTTATTTCTTTGACTTATGGTTCAGTCTCA-TCATCGTT
* * *
13771164 AATCTTTGACTCGTGGTTTAATCCTGATCATTCTTATAACTTTTCGACTTACGATTTAATCCTAG
258 AATCTTTGACTCGTGGTTTAATCCTGATCATTCTTATAGCTTCTCGACTTACGGTTTAATCCTAG
13771229 TC
323 TC
* * * * *
13771231 ACTTTTATTTCTTTAACTTGCGGTTCAGTCTCGATCATCGTTCATCTTTGATTCATGGTTTAATC
1 ATTTTTATTTCCTTGACTTGCGGTTCAGTCCCGATCATCGTTAATCTTTGATTC-TGGTTTAATC
* * * *
13771296 CTGATCATTCTTATAGCTTCTCGATTTATGGTTTAATCCAAGTCGTTTTTATTTCCTTGACTTAC
65 CTGATCATTCTTATAGCTTCTCGACTTATGGTTTAATCCTAGTC-ATTTTATTTCTTTGACTTAC
* * *
13771361 GGTTCAATCCCAGTTATCTTTAATCTTTGACTCATGATTTAAT-CTCGATCATTCTTATAGCTTT
129 GGTTCAATCTCAATTATCTTTAATCTTTGACTCATGGTTTAATCCT-GATCATTCTTATAGCTTT
* * * * * * *
13771425 TTGACTTACGATTTAATCCTAGTTGCTTTTATTTCTTTAACTTATGGTTTAGTCCCAGTCATCGT
193 TTGACTTATGGTTTAATCCTAGTCGTTTTTATTTCTTTGACTTATGGTTCAGTCTCA-TCATCGT
* *
13771490 TAATCTTTGACTTGTGGTTCAATCCTGATCATTCTTATAGCTTCTCGACTTACGGTTTAATCCTA
257 TAATCTTTGACTCGTGGTTTAATCCTGATCATTCTTATAGCTTCTCGACTTACGGTTTAATCCTA
13771555 GTC
322 GTC
13771558 ATTTTTATTTC
1 ATTTTTATTTC
13771569 TGTGACTCGT
Statistics
Matches: 576, Mismatches: 79, Indels: 18
0.86 0.12 0.03
Matches are distributed among these distances:
325 91 0.16
326 20 0.03
327 465 0.81
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (324 bp):
ATTTTTATTTCCTTGACTTGCGGTTCAGTCCCGATCATCGTTAATCTTTGATTCTGGTTTAATCC
TGATCATTCTTATAGCTTCTCGACTTATGGTTTAATCCTAGTCATTTTATTTCTTTGACTTACGG
TTCAATCTCAATTATCTTTAATCTTTGACTCATGGTTTAATCCTGATCATTCTTATAGCTTTTTG
ACTTATGGTTTAATCCTAGTCGTTTTTATTTCTTTGACTTATGGTTCAGTCTCATCATCGTTAAT
CTTTGACTCGTGGTTTAATCCTGATCATTCTTATAGCTTCTCGACTTACGGTTTAATCCTAGTC
Found at i:13771689 original size:105 final size:105
Alignment explanation
Indices: 13771555--13771811 Score: 349
Period size: 105 Copynumber: 2.4 Consensus size: 105
13771545 TTTAATCCTA
*
13771555 GTCATTTTTAT-TTCTGTGACTCGTGGTTTAATCTCGATCTTTTTATTCTTCGATTCGCGGTTCA
1 GTCATTTTTATCTTC--TGACTCGTGGTTTAATCTCGATCTTTTTATTCTTCGATTCGCGATTCA
**
13771619 ATCTTGATCTCTTTAATTTAAAATCACAATTTAATCTCGATT
64 ATCCCGATCTCTTTAATTTAAAATCACAATTTAATCTCGATT
* *
13771661 GTTATTTTTATCTTCTGACTCGTGGTTTAATCAT-GATCTTTTTATTCTTCGATTCGTGATTCAA
1 GTCATTTTTATCTTCTGACTCGTGGTTTAATC-TCGATCTTTTTATTCTTCGATTCGCGATTCAA
** *
13771725 TCCCGATCTCTTTAATTTAAAATCGTAGTTTAATCTCGATT
65 TCCCGATCTCTTTAATTTAAAATCACAATTTAATCTCGATT
* * * *
13771766 GTCATTGTTAATC-CCTGACTCGTGGTTTATTCTCGGTCTTTTTATT
1 GTCATT-TTTATCTTCTGACTCGTGGTTTAATCTCGATCTTTTTATT
13771812 TTATGACTTG
Statistics
Matches: 134, Mismatches: 13, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
104 1 0.01
105 114 0.85
106 16 0.12
107 3 0.02
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.49
Consensus pattern (105 bp):
GTCATTTTTATCTTCTGACTCGTGGTTTAATCTCGATCTTTTTATTCTTCGATTCGCGATTCAAT
CCCGATCTCTTTAATTTAAAATCACAATTTAATCTCGATT
Found at i:13771899 original size:245 final size:245
Alignment explanation
Indices: 13771611--13772093 Score: 806
Period size: 245 Copynumber: 2.0 Consensus size: 245
13771601 TCTTCGATTC
* *
13771611 GCGGTTCAATCTTGATCTCTTTAATTTAAAATCACAATTTAATCTCGATTGTTATTTTTATCTTC
1 GCGGTTCAATCTCGATCTCTTTAATTTAAAATCACAATTTAATCTCGATTGTTATTGTTATCTTC
*
13771676 TGACTCGTGGTTTAATCAT-GATCTTTTTATTCTTCGATTCGTGATTCAATCCCGATCTCTTTAA
66 TGACTCGTGGTTTAATC-TCGATCTTTTTATTCTTCGATTCGCGATTCAATCCCGATCTCTTTAA
*
13771740 TTTAAAATCGTAGTTTAATCTCGATTGTCATTGTTAATCCCTGACTCGTGGTTTATTCTCGGTCT
130 TTTAAAATCATAGTTTAATCTCGATTGTCATTGTTAATCCCTGACTCGTGGTTTATTCTCGGTCT
* *
13771805 TTTTATTTTATGACTTGTGATTCAATCTAAGTTAACGTCATTTTCTGACTA
195 TCTTATTTTATGACTTGTGATTCAATCCAAGTTAACGTCATTTTCTGACTA
* *
13771856 GCGGTTCAATCTCGATCTCTTTAATTTAAAATCACAGTTTAATCTCGATTGTTGTTGTTATCTTC
1 GCGGTTCAATCTCGATCTCTTTAATTTAAAATCACAATTTAATCTCGATTGTTATTGTTATCTTC
* *
13771921 TGACTCGTGGTTTAATCTCGATCTTTTTATTCTTCGATTCGCGGTTCAATCCTGATCTCTTTAAT
66 TGACTCGTGGTTTAATCTCGATCTTTTTATTCTTCGATTCGCGATTCAATCCCGATCTCTTTAAT
* *
13771986 TTAAAATCATAGTTTAATCTCGATTTTCGTTGTTAATCCCTGACTCGTGGTTTATTCTCGGTCTT
131 TTAAAATCATAGTTTAATCTCGATTGTCATTGTTAATCCCTGACTCGTGGTTTATTCTCGGTCTT
* * * *
13772051 CTTATTTTTTTACTTGTGTTTCAATCCAAGTTAATGTCATTTT
196 CTTATTTTATGACTTGTGATTCAATCCAAGTTAACGTCATTTT
13772094 TTTGATTCGC
Statistics
Matches: 221, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
244 1 0.00
245 220 1.00
ACGTcount: A:0.22, C:0.18, G:0.13, T:0.47
Consensus pattern (245 bp):
GCGGTTCAATCTCGATCTCTTTAATTTAAAATCACAATTTAATCTCGATTGTTATTGTTATCTTC
TGACTCGTGGTTTAATCTCGATCTTTTTATTCTTCGATTCGCGATTCAATCCCGATCTCTTTAAT
TTAAAATCATAGTTTAATCTCGATTGTCATTGTTAATCCCTGACTCGTGGTTTATTCTCGGTCTT
CTTATTTTATGACTTGTGATTCAATCCAAGTTAACGTCATTTTCTGACTA
Found at i:13772077 original size:105 final size:106
Alignment explanation
Indices: 13771856--13772056 Score: 311
Period size: 105 Copynumber: 1.9 Consensus size: 106
13771846 TTTCTGACTA
*
13771856 GCGGTTCAAT-CTCGATCTCTTTAATTTAAAATCACAGTTTAATCTCGATTGTTGTTGTTATCTT
1 GCGGTTCAATCCTCGATCTCTTTAATTTAAAATCACAGTTTAATCTCGATTGTTGTTGTTATCTC
*
13771920 CTGACTCGTGGTTTAATCTCGATCTTTTTATTCTTCGATTC
66 CTGACTCGTGGTTTAATCTCGATCTTCTTATTCTTCGATTC
*
13771961 GCGGTTCAATCCT-GATCTCTTTAATTTAAAATCATAGTTTAATCTCGATT-TTCGTTGTTAATC
1 GCGGTTCAATCCTCGATCTCTTTAATTTAAAATCACAGTTTAATCTCGATTGTT-GTTGTT-ATC
* *
13772024 -CCTGACTCGTGGTTTATTCTCGGTCTTCTTATT
64 TCCTGACTCGTGGTTTAATCTCGATCTTCTTATT
13772057 TTTTTACTTG
Statistics
Matches: 88, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
104 2 0.02
105 81 0.92
106 5 0.06
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.46
Consensus pattern (106 bp):
GCGGTTCAATCCTCGATCTCTTTAATTTAAAATCACAGTTTAATCTCGATTGTTGTTGTTATCTC
CTGACTCGTGGTTTAATCTCGATCTTCTTATTCTTCGATTC
Found at i:13772517 original size:11 final size:11
Alignment explanation
Indices: 13772487--13772561 Score: 63
Period size: 11 Copynumber: 7.1 Consensus size: 11
13772477 AAAAATATAT
13772487 ATACAAAATAGAA
1 ATACAAAA-A-AA
*
13772500 TTACAAAAAAA
1 ATACAAAAAAA
13772511 ATACAAAAAAA
1 ATACAAAAAAA
13772522 ATAC-----AA
1 ATACAAAAAAA
13772528 A-ACAAAAAAA
1 ATACAAAAAAA
*
13772538 ATACCTAAAAAA
1 ATA-CAAAAAAA
13772550 ATACAAAAAAA
1 ATACAAAAAAA
13772561 A
1 A
13772562 GAAAAATCAA
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
5 2 0.04
6 3 0.06
10 3 0.06
11 25 0.49
12 11 0.22
13 7 0.14
ACGTcount: A:0.76, C:0.11, G:0.01, T:0.12
Consensus pattern (11 bp):
ATACAAAAAAA
Found at i:13772522 original size:28 final size:28
Alignment explanation
Indices: 13772502--13772568 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
13772492 AAATAGAATT
13772502 ACAAAAAAAATA-CAAAAAAAATACAAA
1 ACAAAAAAAATACCAAAAAAAATACAAA
*
13772529 ACAAAAAAAATACCTAAAAAAATACAAA
1 ACAAAAAAAATACCAAAAAAAATACAAA
*
13772557 AAAAAGAAAAAT
1 ACAAA-AAAAAT
13772569 CAATGATGAC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 12 0.33
28 18 0.50
29 6 0.17
ACGTcount: A:0.79, C:0.10, G:0.01, T:0.09
Consensus pattern (28 bp):
ACAAAAAAAATACCAAAAAAAATACAAA
Found at i:13777030 original size:21 final size:21
Alignment explanation
Indices: 13777000--13777056 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
13776990 GATAGCTCGA
13777000 GCTTAAGGTCAAGCTCAATAAT
1 GCTT-AGGTCAAGCTCAATAAT
*
13777022 GCTTAGGTCAAGCTCAATGAT
1 GCTTAGGTCAAGCTCAATAAT
* *
13777043 GCTTCGGACAAGCT
1 GCTTAGGTCAAGCT
13777057 AAGGTTCATC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
21 28 0.88
22 4 0.12
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (21 bp):
GCTTAGGTCAAGCTCAATAAT
Found at i:13778227 original size:23 final size:21
Alignment explanation
Indices: 13778185--13778236 Score: 59
Period size: 23 Copynumber: 2.4 Consensus size: 21
13778175 TGATTCTTAG
13778185 ATGTGAATCTCTAAAATTTTTAA
1 ATGTGAATCTCTAAAA-TTTT-A
* * *
13778208 ATGTGAATCTTTGAAGTTTTA
1 ATGTGAATCTCTAAAATTTTA
13778229 ATGTGAAT
1 ATGTGAAT
13778237 ACCATTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 9 0.35
22 4 0.15
23 13 0.50
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTGAATCTCTAAAATTTTA
Found at i:13778521 original size:36 final size:35
Alignment explanation
Indices: 13778436--13778591 Score: 116
Period size: 36 Copynumber: 4.3 Consensus size: 35
13778426 TTTATAAATC
** **
13778436 TTGAATTTTTTATGAATTTTTGAATCTTTGCTAACC
1 TTGAATTTTTTATGAA-TTTTGAATCTTTGAGAATT
* * * *
13778472 TTGAGTCTCTTATGAATATTTAAATCTTTGAGAATT
1 TTGAATTTTTTATGAAT-TTTGAATCTTTGAGAATT
* * *
13778508 TTGAATATTTTATGAACTTTTGAATTTTTAAGAATT
1 TTGAATTTTTTATGAA-TTTTGAATCTTTGAGAATT
* * *
13778544 TTGAGTTTTTTATGAACCTCTGAATCTTT-ATGAATT
1 TTGAATTTTTTATGAA-TTTTGAATCTTTGA-GAATT
* *
13778580 TTTAATGTTTTA
1 TTGAATTTTTTA
13778592 CAAATCTTTA
Statistics
Matches: 95, Mismatches: 22, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
35 2 0.02
36 92 0.97
37 1 0.01
ACGTcount: A:0.28, C:0.08, G:0.12, T:0.52
Consensus pattern (35 bp):
TTGAATTTTTTATGAATTTTGAATCTTTGAGAATT
Found at i:13778591 original size:18 final size:17
Alignment explanation
Indices: 13778481--13778625 Score: 94
Period size: 18 Copynumber: 8.0 Consensus size: 17
13778471 CTTGAGTCTC
*
13778481 TTATGAATATTTAAATCTT
1 TTATGAAT-TTTGAAT-TT
*
13778500 TGA-GAATTTTGAATATT
1 TTATGAATTTTGAAT-TT
13778517 TTATGAACTTTTGAATTT
1 TTATGAA-TTTTGAATTT
* *
13778535 TTAAGAATTTTGAGTTTT
1 TTATGAATTTTGA-ATTT
* * *
13778553 TTATGAACCTCTGAATCT
1 TTATGAA-TTTTGAATTT
*
13778571 TTATGAATTTTTAATGTT
1 TTATGAATTTTGAAT-TT
** *
13778589 TTACAAATCTTTAAATTT
1 TTATGAAT-TTTGAATTT
13778607 CTTATGAATTTTTGAATTT
1 -TTATGAA-TTTTGAATTT
13778626 AATTGTGAAT
Statistics
Matches: 97, Mismatches: 21, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
17 21 0.22
18 42 0.43
19 33 0.34
20 1 0.01
ACGTcount: A:0.31, C:0.06, G:0.10, T:0.52
Consensus pattern (17 bp):
TTATGAATTTTGAATTT
Found at i:13778654 original size:22 final size:22
Alignment explanation
Indices: 13778617--13778679 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
13778607 CTTATGAATT
13778617 TTTGAATTT--AATTGTGAATCC
1 TTTGAATTTCAAATTGTGAA-CC
13778638 -TTGAATTTCAAATTGTGAACC
1 TTTGAATTTCAAATTGTGAACC
* *
13778659 TTTGAATTTCAAGTTGAGAAC
1 TTTGAATTTCAAATTGTGAAC
13778680 TTTTAAAAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
20 8 0.22
21 2 0.05
22 27 0.73
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (22 bp):
TTTGAATTTCAAATTGTGAACC
Found at i:13779894 original size:17 final size:17
Alignment explanation
Indices: 13779874--13779908 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
13779864 TTAGGGCTTA
13779874 ATTTATGATTTAT-TTAT
1 ATTTAT-ATTTATATTAT
13779891 ATTTATATTTATATTAT
1 ATTTATATTTATATTAT
13779908 A
1 A
13779909 AGTGGATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (17 bp):
ATTTATATTTATATTAT
Found at i:13782184 original size:29 final size:29
Alignment explanation
Indices: 13782127--13782183 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
13782117 CATTTAAAGA
*
13782127 AATTAAATTTTTTTCAAAAACTATTTTTT
1 AATTAAATTTTTATCAAAAACTATTTTTT
*
13782156 AATTTAATTTTTATCAAAAA-TATTTTTT
1 AATTAAATTTTTATCAAAAACTATTTTTT
13782184 TCATTCCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 8 0.31
29 18 0.69
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (29 bp):
AATTAAATTTTTATCAAAAACTATTTTTT
Found at i:13785591 original size:14 final size:14
Alignment explanation
Indices: 13785567--13785603 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
13785557 ACTATTAATA
*
13785567 TTTAAAAAAAAATT
1 TTTAAATAAAAATT
*
13785581 TTTACATAAAAATT
1 TTTAAATAAAAATT
13785595 TTTAAATAA
1 TTTAAATAA
13785604 TTATTATTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (14 bp):
TTTAAATAAAAATT
Found at i:13789607 original size:625 final size:629
Alignment explanation
Indices: 13787500--13789997 Score: 4433
Period size: 630 Copynumber: 4.0 Consensus size: 629
13787490 AATACAAATT
* * *
13787500 GTTTTAGTTAGTTTCGACTAGTTTTGGTGAATTTCATTTTATTAGCATGTTTGGATCGGTACGTC
1 GTTTTAGTTAGTTTTGACTAATTTTGGTGAATTTCATTATATTAGCATGTTTGGATCGGTACGTC
** * * * * *
13787565 AAACAT-AAACAGATTTTGTACTTTTAAATTTATTTTTTGTTGTTTGACTATTTTTAACGTAAAA
66 -AATTTGAAACAGATTTTGTAATTTTTAACTTATTTTTTGTTGTTTGACTATTTTTAACCTAAGA
* *
13787629 AAAATAAAATTAATTAACAAATAACCCTTTAAAATTTAG--TTTTTTTT-TTTTATTATTGTAAC
130 AAAATAAAATTAATTAACAAATAACCCTTTAAAGTTTAGTTTTTTTTTTCTTTTTTTATTGTAAC
* *
13787691 TTGTTTTCTTTTATACTTTATTTTTTAAACCTAAGTTTATAAGTATTTCAATCTCTTTCAAGAAA
195 TTGTTTTCTTTTATACTTTATTTTTCAAACCTAAATTTATAAGTATTTCAATCTCTTTCAAGAAA
13787756 GCAATTATTCTCCTTTTATAAAGTTTAACAATCTAAAACCTTAGTTAATTTTTTCATCTTTTTGT
260 GCAATTATTCTCCTTTTATAAAG-TT----ATCTAAAACCTTAGTTAATTTTTTCATCTTTTTGT
* * *
13787821 TTTTATCTTAACATTTACATG-AAAAAAATTACTTATTTAACTATCATATAATTAGATTAAGTGT
320 TTTTATCTTAATATTTACATGAAAAAAAAATACTTATTTAACTATCATATAATCAGATTAAGTGT
* *
13787885 TTAAAAATATCATAAAGATTTTATGATATTATTTCTTATACTTTTAAACATATTTATTTTATTTT
385 TTAAAAATATCATAAAAATTTTATGATATTATTTCTTATACTTTTAAACATATTTATTTGATTTT
*
13787950 TGAAGATATTGCATATTTATTTTGTAGATTATTAATAGTATTATAGTGTACAAGTTCATGAATAT
450 TGAAGATATTGCATATTTATTTTGTAGATTATTAATAGTATTATAGTGTACAAGTTCATGCATAT
* *
13788015 TTATAAATATATTTGTACTAAATCAAAAAATATGAAATAATATGTCAAACTAACTGGAACTGGTA
515 TTATAAATATATTTATACTAAATCAAAAAATATGAAATAATATGTCAAAATAACTGGAACTGGTA
*
13788080 TATACCATATTTTTATAGAAAATCGATATTATCTGGTACGATATTAGTTA
580 TATACCATATTTTTATAGAAAATCGATATTATCTGGTACAATATTAGTTA
*
13788130 GTTTTAGTTAGTTTTGACTAGTTTTGGTGAATTTCATTATATTAGCATGTTTGGATCGGTACGTC
1 GTTTTAGTTAGTTTTGACTAATTTTGGTGAATTTCATTATATTAGCATGTTTGGATCGGTACGTC
* *
13788195 AATCTGAAACAGATTTTGTAATTTTTAACTTATTTTTTGTTGTTTGATTATTTTTAACCTAAGAA
66 AATTTGAAACAGATTTTGTAATTTTTAACTTATTTTTTGTTGTTTGACTATTTTTAACCTAAGAA
* *
13788260 AAATAATATTAATTAACAAATAACCTTTTAAAGTTTAGTTTTTTTTTTTCTTTTTTTATTGTAAC
131 AAATAAAATTAATTAACAAATAACCCTTTAAAGTTTAG-TTTTTTTTTTCTTTTTTTATTGTAAC
* *
13788325 TTGTTTTCTTTTATACTTTATTTTTTAAACCTAAGTTTATAAGTATTTCAATCTCTTTCAAGAAA
195 TTGTTTTCTTTTATACTTTATTTTTCAAACCTAAATTTATAAGTATTTCAATCTCTTTCAAGAAA
*
13788390 GCAATTATTCTCTTTTTATAAAGTTATCTAAAACCTTAGTTAATTTTTTCATCTTTTTGTTTTTA
260 GCAATTATTCTCCTTTTATAAAGTTATCTAAAACCTTAGTTAATTTTTTCATCTTTTTGTTTTTA
13788455 TCTTAATATTTACATGAAAAAAAAATACTTATTTAACTATCATATAATCAGATTAAGTGTTTAAA
325 TCTTAATATTTACATGAAAAAAAAATACTTATTTAACTATCATATAATCAGATTAAGTGTTTAAA
13788520 AATATCATAAAAATTTTATGATATTATTTCTTATACTTTTAAACATATTTATTTGATTTTTGAAG
390 AATATCATAAAAATTTTATGATATTATTTCTTATACTTTTAAACATATTTATTTGATTTTTGAAG
13788585 ATATTGCATATTTATTTTGTAGATTATTAATAGTATTATAGTGTACAAGTTCATGCATATTTATA
455 ATATTGCATATTTATTTTGTAGATTATTAATAGTATTATAGTGTACAAGTTCATGCATATTTATA
*
13788650 AATATATTTATACTAAATCAAAAAATATGAAATAATATGTCAAAATAACTGGAATTGGTATATAC
520 AATATATTTATACTAAATCAAAAAATATGAAATAATATGTCAAAATAACTGGAACTGGTATATAC
13788715 CATATTTTTATAGAAAATCGATATTATCTGGTACAATATTAGTTA
585 CATATTTTTATAGAAAATCGATATTATCTGGTACAATATTAGTTA
*
13788760 GTTTTAGTTAGTTTTGACTAATTTTGGTGAATTTCATTATATTAGCATGTTTGGATTGGTACGTC
1 GTTTTAGTTAGTTTTGACTAATTTTGGTGAATTTCATTATATTAGCATGTTTGGATCGGTACGTC
13788825 AATTTGAAACAGATTTTGTAATTTTTAACTTATTTTTTGTTGTTTGACTATTTTTAACCTAAGAA
66 AATTTGAAACAGATTTTGTAATTTTTAACTTATTTTTTGTTGTTTGACTATTTTTAACCTAAGAA
13788890 AAATAAAATTAATTAACAAATAACCCTTTAAAGTTTAGTTTTTTTTTTCTTTTTTTATTGTAACT
131 AAATAAAATTAATTAACAAATAACCCTTTAAAGTTTAGTTTTTTTTTTCTTTTTTTATTGTAACT
13788955 TGTTTTCTTTTATACTTTATTTTTCAAACCTAAATTTATAAGTATTTCAATCTCTTTCAAGAAAG
196 TGTTTTCTTTTATACTTTATTTTTCAAACCTAAATTTATAAGTATTTCAATCTCTTTCAAGAAAG
13789020 CAATTATTCTCCTTTTATAAAGTTATCTAAAACCTTAGTTAATTTTTTCATCTTTTTGTTTTTAT
261 CAATTATTCTCCTTTTATAAAGTTATCTAAAACCTTAGTTAATTTTTTCATCTTTTTGTTTTTAT
13789085 CTTAATATTTACATGAAAAAAAAATACTTATTTAACTATCATATAATCA-ATATAAGTGTTTAAA
326 CTTAATATTTACATGAAAAAAAAATACTTATTTAACTATCATATAATCAGAT-TAAGTGTTTAAA
13789149 AATATCAT-AAAATTTTATGATATTATTTCTTATACTTTTAAACATATTTATTTGATTTTTGAAG
390 AATATCATAAAAATTTTATGATATTATTTCTTATACTTTTAAACATATTTATTTGATTTTTGAAG
13789213 ATATTGCATATTTATTTTGTAGATTATTAATAGTATTATAGTGTACAAGTTCATGCATATTTATA
455 ATATTGCATATTTATTTTGTAGATTATTAATAGTATTATAGTGTACAAGTTCATGCATATTTATA
*
13789278 AATATATTTATACTAAATCAAAAAATATGAAATAATATGTCAAAATAACTGGAATTGGTATA-A-
520 AATATATTTATACTAAATCAAAAAATATGAAATAATATGTCAAAATAACTGGAACTGGTATATAC
*
13789341 TATATTTTTATAGAAAATCGATATTATCTGGTACAATATTAGTTA
585 CATATTTTTATAGAAAATCGATATTATCTGGTACAATATTAGTTA
*
13789386 GTTTTAGTTAG-TTTGACTAATTTTGGTGAATTTCATTATATTAGCATGTTTGGATTGGTACGTC
1 GTTTTAGTTAGTTTTGACTAATTTTGGTGAATTTCATTATATTAGCATGTTTGGATCGGTACGTC
13789450 AATTTGAAACAGATTTTGTAATTTTTAACTTATTTTTTGTTGTTTGACTATTTTTAACCTAAGAA
66 AATTTGAAACAGATTTTGTAATTTTTAACTTATTTTTTGTTGTTTGACTATTTTTAACCTAAGAA
13789515 AAATAAAATTAATTAACAAATAACCCTTTAAAGTTTAGTTTTTTTTTTCTTTTTTTATTGTAACT
131 AAATAAAATTAATTAACAAATAACCCTTTAAAGTTTAGTTTTTTTTTTCTTTTTTTATTGTAACT
13789580 TGTTTTCTTTTATACTTTATTTTTCAAACCTAAATTTATAAGTATTTCAATCTCTTTCAAGAAAG
196 TGTTTTCTTTTATACTTTATTTTTCAAACCTAAATTTATAAGTATTTCAATCTCTTTCAAGAAAG
13789645 CAATTATTCTCCTTTTATAAAGTTATCTAAAACCTTAGTTAATTTTTTCATCTTTTTGTTTTTAT
261 CAATTATTCTCCTTTTATAAAGTTATCTAAAACCTTAGTTAATTTTTTCATCTTTTTGTTTTTAT
*
13789710 CTTAATATTTACATGAAAAAAAAATACTTATTTAACTATCATATAATCATATTAAGTGTTTAAAA
326 CTTAATATTTACATGAAAAAAAAATACTTATTTAACTATCATATAATCAGATTAAGTGTTTAAAA
13789775 ATATCATAAAAAATTTT-TGATATTATTTCTTATACTTTTAAACATATTTATTTGATTTTTGAAG
391 ATATCAT-AAAAATTTTATGATATTATTTCTTATACTTTTAAACATATTTATTTGATTTTTGAAG
* * *
13789839 ATATTGCATATTTATTTTGTAGATTATTAATAGTATTATAATGTACAAGTTAATCCATATTTATA
455 ATATTGCATATTTATTTTGTAGATTATTAATAGTATTATAGTGTACAAGTTCATGCATATTTATA
* ***
13789904 AATATATTTGTACTAAATCAAAAAATCCAAAATAATATGTCAAAATAACTGGAACTGGTATATAC
520 AATATATTTATACTAAATCAAAAAATATGAAATAATATGTCAAAATAACTGGAACTGGTATATAC
*
13789969 CATATTTTTATAGAAAATTGATATTATCT
585 CATATTTTTATAGAAAATCGATATTATCT
13789998 AGTATGATAT
Statistics
Matches: 1811, Mismatches: 45, Indels: 26
0.96 0.02 0.01
Matches are distributed among these distances:
625 382 0.21
626 223 0.12
627 10 0.01
628 212 0.12
629 281 0.16
630 592 0.33
633 10 0.01
634 101 0.06
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.47
Consensus pattern (629 bp):
GTTTTAGTTAGTTTTGACTAATTTTGGTGAATTTCATTATATTAGCATGTTTGGATCGGTACGTC
AATTTGAAACAGATTTTGTAATTTTTAACTTATTTTTTGTTGTTTGACTATTTTTAACCTAAGAA
AAATAAAATTAATTAACAAATAACCCTTTAAAGTTTAGTTTTTTTTTTCTTTTTTTATTGTAACT
TGTTTTCTTTTATACTTTATTTTTCAAACCTAAATTTATAAGTATTTCAATCTCTTTCAAGAAAG
CAATTATTCTCCTTTTATAAAGTTATCTAAAACCTTAGTTAATTTTTTCATCTTTTTGTTTTTAT
CTTAATATTTACATGAAAAAAAAATACTTATTTAACTATCATATAATCAGATTAAGTGTTTAAAA
ATATCATAAAAATTTTATGATATTATTTCTTATACTTTTAAACATATTTATTTGATTTTTGAAGA
TATTGCATATTTATTTTGTAGATTATTAATAGTATTATAGTGTACAAGTTCATGCATATTTATAA
ATATATTTATACTAAATCAAAAAATATGAAATAATATGTCAAAATAACTGGAACTGGTATATACC
ATATTTTTATAGAAAATCGATATTATCTGGTACAATATTAGTTA
Found at i:13791642 original size:22 final size:23
Alignment explanation
Indices: 13791617--13791665 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
13791607 TTTTTTTGGA
13791617 TTTTCATTTTTTGT-TTTCTAGT
1 TTTTCATTTTTTGTATTTCTAGT
* * *
13791639 TTTTGATTTTTTTTATTTCTATT
1 TTTTCATTTTTTGTATTTCTAGT
13791662 TTTT
1 TTTT
13791666 TTATTTTTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.10, C:0.06, G:0.06, T:0.78
Consensus pattern (23 bp):
TTTTCATTTTTTGTATTTCTAGT
Found at i:13791750 original size:46 final size:45
Alignment explanation
Indices: 13791692--13792321 Score: 481
Period size: 46 Copynumber: 14.0 Consensus size: 45
13791682 CGCAAATTTT
* * * * *
13791692 GAAAA-CTTAACAATTTTTTAAAATAAATTTGAAAGTTCTTTTAG
1 GAAAAGCTCAACAACTTTTGAAAATAAATTTAAAAGCTCTTTTAG
* * *
13791736 GCAAAAGCTCAACAACTTTTG---A-AAATTTAAAAGTTTCTTTAAT
1 G-AAAAGCTCAACAACTTTTGAAAATAAATTTAAAAG-CTCTTTTAG
*
13791779 AAAAAGCTCAACAACTTTTGAAAATAAATTTAAAAGCTCTTTTAAG
1 GAAAAGCTCAACAACTTTTGAAAATAAATTTAAAAGCTCTTTT-AG
* * *
13791825 AAAAAGCTTAATAACTTTTGAAAATAAATTTAAAA-CTCATTTTA-
1 GAAAAGCTCAACAACTTTTGAAAATAAATTTAAAAGCTC-TTTTAG
* * * *
13791869 GAAAAGGCTTAACAATTTTTG---A-AAATTTAAAAACTCTTTTAA
1 GAAAA-GCTCAACAACTTTTGAAAATAAATTTAAAAGCTCTTTTAG
* * *
13791911 GAAAAGGTTTC-GCAACTTTTGAAAATAAATTTAAAAGCTAC-TTTAA
1 GAAAA-G-CTCAACAACTTTTGAAAATAAATTTAAAAGCT-CTTTTAG
* * * * *
13791957 GAAAAGACCCAACAATTTTTTAACATAAATTTAAAAACTCATTTT-G
1 GAAAAG-CTCAACAACTTTTGAAAATAAATTTAAAAGCTC-TTTTAG
* * * *
13792003 GAAAAGGCTCAA-GACTTTTGAAAAT-ACTTTAAAAACTCCTTTAGG
1 GAAAA-GCTCAACAACTTTTGAAAATAAATTTAAAAGCTCTTTTA-G
* * *
13792048 GAAAGGCTCAACAA-TTTTGAAAAGAAATTTAAAAGCTCATTTAG
1 GAAAAGCTCAACAACTTTTGAAAATAAATTTAAAAGCTCTTTTAG
* * * * *
13792092 GAAAAGGCTTAATAAC-TTTAAAAAT-AATTTAAAAGTTTTTTTAG
1 GAAAA-GCTCAACAACTTTTGAAAATAAATTTAAAAGCTCTTTTAG
* * *
13792136 GAAAAGGTTCAACAACTTTTGAAAATGAATTTAAAAGCTCTTGTA-
1 GAAAA-GCTCAACAACTTTTGAAAATAAATTTAAAAGCTCTTTTAG
** * * *
13792181 GAAAAGAACTCAAGGACTTTTGAAAATGAATTTAAAAACTCTTGTAG
1 GAAAAG--CTCAACAACTTTTGAAAATAAATTTAAAAGCTCTTTTAG
** * *
13792228 GAGAAAGCTCAACGTCTTTTAAAAATAAATTTAAAAAGCTCATTTAG
1 GA-AAAGCTCAACAACTTTTGAAAATAAATTT-AAAAGCTCTTTTAG
* * * *
13792275 GAAAAGGCTCAACAATTTTTGACAATGAATTTAAAAGTTCTTTTAG
1 GAAAA-GCTCAACAACTTTTGAAAATAAATTTAAAAGCTCTTTTAG
13792321 G
1 G
13792322 TAAATAACTT
Statistics
Matches: 474, Mismatches: 76, Indels: 70
0.76 0.12 0.11
Matches are distributed among these distances:
41 15 0.03
42 48 0.10
43 12 0.03
44 67 0.14
45 88 0.19
46 200 0.42
47 40 0.08
48 4 0.01
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (45 bp):
GAAAAGCTCAACAACTTTTGAAAATAAATTTAAAAGCTCTTTTAG
Found at i:13791929 original size:133 final size:136
Alignment explanation
Indices: 13791700--13792319 Score: 522
Period size: 133 Copynumber: 4.6 Consensus size: 136
13791690 TTGAAAACTT
* * * **
13791700 AACAATTTTTTAAAATAAATTTGAAAGTTC-TTTTAGGCAAAA-GCTCAACAACTTTTG-AAAAT
1 AACAACTTTTAAAAATAAATTTAAAAACTCATTTTAGG-AAAAGGCTCAACAACTTTTGAAAAAT
* * * * *
13791762 TT-AAAAGTTTCTTTAATAAAAAGCTCAACAACTTTTGAAAATAAATTTAAAAGCTCTTTTAAGA
65 TTAAAAACTCT-TTTAAGAAAAGGCTCAGCAACTTTTGAAAATAAATTTAAAAGCTCTTTTAAGA
*
13791826 AAAAGCTT
129 AAAAGCTC
* * * *
13791834 AATAACTTTTGAAAATAAATTT-AAAACTCATTTTA-GAAAAGGCTTAACAATTTTTG-AAAATT
1 AACAACTTTTAAAAATAAATTTAAAAACTCATTTTAGGAAAAGGCTCAACAACTTTTGAAAAATT
*
13791896 TAAAAACTCTTTTAAGAAAAGGTTTC-GCAACTTTTGAAAATAAATTTAAAAGCTAC-TTTAAG-
66 TAAAAACTCTTTTAAGAAAAGG-CTCAGCAACTTTTGAAAATAAATTTAAAAGCT-CTTTTAAGA
*
13791958 AAAAGACCC
129 AAAAG-CTC
* * * *
13791967 AACAATTTTTTAACATAAATTTAAAAACTCATTTT-GGAAAAGGCTCAA-GACTTTTGAAAATAC
1 AACAACTTTTAAAAATAAATTTAAAAACTCATTTTAGGAAAAGGCTCAACAACTTTTGAAAA-A-
* * * * * * *
13792030 TTTAAAAACTCCTTTAGGGAAAGGCTCAACAA-TTTTGAAAAGAAATTTAAAAGCTCATTTAGGA
64 TTTAAAAACTCTTTTAAGAAAAGGCTCAGCAACTTTTGAAAATAAATTTAAAAGCTCTTTTAAGA
* *
13792094 AAAGGCTT
129 AAAAGCTC
* * ** *
13792102 AATAAC-TTTAAAAAT-AATTT-AAAAGTTTTTTTAGGAAAAGGTTCAACAACTTTTGAAAATGA
1 AACAACTTTTAAAAATAAATTTAAAAACTCATTTTAGGAAAAGGCTCAACAACTTTTG-AAA--A
* * * * * * *
13792164 ATTTAAAAGCTCTTGT-AGAAAAGAACTCAAG-GACTTTTGAAAATGAATTTAAAAACTCTTGTA
63 ATTTAAAAACTCTTTTAAGAAAAG-GCTC-AGCAACTTTTGAAAATAAATTTAAAAGCTCTTTTA
* *
13792227 GGAGAAAGCTC
126 AGAAAAAGCTC
** *
13792238 AACGTCTTTTAAAAATAAATTTAAAAAGCTCA-TTTAGGAAAAGGCTCAACAATTTTTGACAATG
1 AACAACTTTTAAAAATAAATTTAAAAA-CTCATTTTAGGAAAAGGCTCAACAACTTTTGA-AA--
**
13792302 AATTTAAAAGTTCTTTTA
62 AATTTAAAAACTCTTTTA
13792320 GGTAAATAAC
Statistics
Matches: 391, Mismatches: 67, Indels: 50
0.77 0.13 0.10
Matches are distributed among these distances:
132 18 0.05
133 111 0.28
134 79 0.20
135 54 0.14
136 65 0.17
137 10 0.03
138 6 0.02
139 47 0.12
140 1 0.00
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (136 bp):
AACAACTTTTAAAAATAAATTTAAAAACTCATTTTAGGAAAAGGCTCAACAACTTTTGAAAAATT
TAAAAACTCTTTTAAGAAAAGGCTCAGCAACTTTTGAAAATAAATTTAAAAGCTCTTTTAAGAAA
AAGCTC
Found at i:13792920 original size:14 final size:14
Alignment explanation
Indices: 13792888--13792933 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 14
13792878 TTTCTGTTTC
13792888 TTTTTCTC--CTTT
1 TTTTTCTCTTCTTT
*
13792900 TTCTTTCTTTTCTTT
1 TT-TTTCTCTTCTTT
13792915 TTTTTCTCTT-TTT
1 TTTTTCTCTTCTTT
13792928 TTTTTC
1 TTTTTC
13792934 AAACTTTTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 2 0.07
13 14 0.48
14 7 0.24
15 6 0.21
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTTCTCTTCTTT
Found at i:13793401 original size:80 final size:79
Alignment explanation
Indices: 13793283--13793481 Score: 179
Period size: 79 Copynumber: 2.5 Consensus size: 79
13793273 TAAATCTTGT
* * * * * * * *
13793283 TCAGAGGACTTGAAATTCACTCAGAAATCTGAGATTTTGCCTATGG-GTCTTAGAAATCATTTAA
1 TCAGAGGTCTTGGAATTCAGTAAAAAATCTAAGGTTTTGCC-ATGGAATCTTAGAAATCA-TTAA
* *
13793347 AAATTTAAGATTTTGC
64 AAATTTAAAACTTTGC
* *
13793363 TCAGAGGTCTTGGAATTCAGTAAAAAATCTAAGGTTTTG-CATGGAAATCTTGGAAATCATTCAA
1 TCAGAGGTCTTGGAATTCAGTAAAAAATCTAAGGTTTTGCCATGG-AATCTTAGAAATCATTAAA
*
13793427 ATTTTAAAACTTTGC
65 AATTTAAAACTTTGC
* * * **
13793442 -CTAAAGGTCTTAGAATTTAGTAAATGATCTAAGGTTTTGC
1 TC-AGAGGTCTTGGAATTCAGTAAAAAATCTAAGGTTTTGC
13793482 TCGAAAGCCC
Statistics
Matches: 97, Mismatches: 18, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
78 5 0.05
79 49 0.51
80 43 0.44
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (79 bp):
TCAGAGGTCTTGGAATTCAGTAAAAAATCTAAGGTTTTGCCATGGAATCTTAGAAATCATTAAAA
ATTTAAAACTTTGC
Found at i:13793528 original size:79 final size:79
Alignment explanation
Indices: 13793367--13793534 Score: 182
Period size: 79 Copynumber: 2.1 Consensus size: 79
13793357 TTTTGCTCAG
* * * * * *
13793367 AGGTCTTGGAATTCAGTAAAAAATCTAAGGTTTTGCATGGAAATCTTGGAAATCATTCAAATTTT
1 AGGTCTTAGAATTCAGTAAAAAATCTAAGGTTTTGCATCGAAACCCTGGAAATCATTCAAAATCT
13793432 AAAACTTTGCCTAA
66 AAAACTTTGCCTAA
* ** *
13793446 AGGTCTTAGAATTTAGTAAATGATCTAAGGTTTTGC-TCGAAAGCCCTGGAAATCTTTCAAAAAT
1 AGGTCTTAGAATTCAGTAAAAAATCTAAGGTTTTGCATCGAAA-CCCTGGAAATCATTC-AAAAT
*
13793510 CTAATGA-TTTGCCT-A
64 CTAA-AACTTTGCCTAA
13793525 AGGTC-TAGAA
1 AGGTCTTAGAA
13793535 AATCTTTCTA
Statistics
Matches: 75, Mismatches: 11, Indels: 7
0.81 0.12 0.08
Matches are distributed among these distances:
78 10 0.13
79 50 0.67
80 14 0.19
81 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (79 bp):
AGGTCTTAGAATTCAGTAAAAAATCTAAGGTTTTGCATCGAAACCCTGGAAATCATTCAAAATCT
AAAACTTTGCCTAA
Found at i:13793692 original size:40 final size:40
Alignment explanation
Indices: 13793582--13793761 Score: 111
Period size: 40 Copynumber: 4.4 Consensus size: 40
13793572 AGAATTTAGT
* * *
13793582 AAAAAATCTAAGGTTTTGGCCCAAAAGTCTTGGAAATCTTTC
1 AAAAAAT-TAAGATTTT-GCTCAGAAGTCTTGGAAATCTTTC
* ** * * *
13793624 TAAATTTTAATGA-TTTACTTAGAGGTCTTGGAAATCTTTC
1 AAAAAATTAA-GATTTTGCTCAGAAGTCTTGGAAATCTTTC
*
13793664 AAAAAATTAAGATTTTGCTCAGAAGTCTTAG-AAT-TTAGT-
1 AAAAAATTAAGATTTTGCTCAGAAGTCTTGGAAATCTT--TC
* * *
13793703 AAAAAATCTAA-ACTTTTAC-CTGAAGGTCTTGAAAAATCTTTC
1 AAAAAAT-TAAGA-TTTTGCTCAGAA-GTCTTG-GAAATCTTTC
*
13793745 AAAAATTTAAGATTTTG
1 AAAAAATTAAGATTTTG
13793762 GTTGGAGGTC
Statistics
Matches: 104, Mismatches: 22, Indels: 25
0.69 0.15 0.17
Matches are distributed among these distances:
38 2 0.02
39 17 0.16
40 54 0.52
41 14 0.13
42 15 0.14
43 2 0.02
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.37
Consensus pattern (40 bp):
AAAAAATTAAGATTTTGCTCAGAAGTCTTGGAAATCTTTC
Found at i:13793698 original size:121 final size:118
Alignment explanation
Indices: 13793430--13793713 Score: 327
Period size: 121 Copynumber: 2.4 Consensus size: 118
13793420 CATTCAAATT
* ** * *
13793430 TTAAAACTTTGC-CTAAAGGTCTTAGAATTTAGTAAATGATCTAAGGTTTTGCTCGAAAGCCCTG
1 TTAAAATTTTGCAC-AAA-GTCTTAGAATTTAGTAAAAAATCTAAGGTTTTGCCCAAAAGCCCTG
* * *
13793494 GAAATCTTTCAAAAATCTAATGATTTGCCTAAGGTCTAGAAAATCTTTCTAAAAT
64 GAAATCTTTCAAAAATCTAATGATTTACCTAAGGTCTAGAAAATCTTTCAAAAAA
* * * *
13793549 TTAAAATTTTTCACAAAGATCTGAGAATTTAGTAAAAAATCTAAGGTTTTGGCCCAAAAGTCTTG
1 TTAAAATTTTGCACAAAG-TCTTAGAATTTAGTAAAAAATCTAAGGTTTT-GCCCAAAAGCCCTG
* * * * * *
13793614 GAAATCTTTCTAAATTTTAATGATTTACTTAGAGGTCTTGGAAATCTTTCAAAAAA
64 GAAATCTTTCAAAAATCTAATGATTTACCTA-AGGTCTAGAAAATCTTTCAAAAAA
* *
13793670 TTAAGATTTTGCTCAGAAGTCTTAGAATTTAGTAAAAAATCTAA
1 TTAAAATTTTGCACA-AAGTCTTAGAATTTAGTAAAAAATCTAA
13793714 ACTTTTACCT
Statistics
Matches: 138, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
118 1 0.01
119 41 0.30
120 37 0.27
121 56 0.41
122 3 0.02
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (118 bp):
TTAAAATTTTGCACAAAGTCTTAGAATTTAGTAAAAAATCTAAGGTTTTGCCCAAAAGCCCTGGA
AATCTTTCAAAAATCTAATGATTTACCTAAGGTCTAGAAAATCTTTCAAAAAA
Found at i:13793740 original size:121 final size:120
Alignment explanation
Indices: 13793495--13793759 Score: 302
Period size: 121 Copynumber: 2.2 Consensus size: 120
13793485 AAAGCCCTGG
* * * * *
13793495 AAATCTTTCAAAAATCTAATGATTTGCCTAAGGTCTAGAAAATCTTTCTAAAATTTAAAATTTTT
1 AAATCTTTCAAAAATTTAATGATTTACCTAAGGTCTAGAAAATCTTTCAAAAAATTAAAATTTTG
** * *
13793560 CACAAAGATCTGAGAATTTAGTAAAAAATCTAAGGTTTTGGCCCAAAAGTCTTGG
66 CACAAAGATCTGAGAATTTAGTAAAAAATCTAAACTTTTGACCCAAAAGTCTTGA
* * * * * *
13793615 AAATCTTTCTAAATTTTAATGATTTACTTAGAGGTCTTGGAAATCTTTCAAAAAATTAAGATTTT
1 AAATCTTTCAAAAATTTAATGATTTACCTA-AGGTCTAGAAAATCTTTCAAAAAATTAAAATTTT
* * ** *
13793680 GCTCAGAAG-TCTTAGAATTTAGTAAAAAATCTAAACTTTT-ACCTGAAGGTCTTGAA
65 GCACA-AAGATCTGAGAATTTAGTAAAAAATCTAAACTTTTGACCCAAAAGTCTTG-A
13793736 AAATCTTTCAAAAATTTAA-GATTT
1 AAATCTTTCAAAAATTTAATGATTT
13793760 TGGTTGGAGG
Statistics
Matches: 120, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
120 40 0.33
121 77 0.64
122 3 0.03
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (120 bp):
AAATCTTTCAAAAATTTAATGATTTACCTAAGGTCTAGAAAATCTTTCAAAAAATTAAAATTTTG
CACAAAGATCTGAGAATTTAGTAAAAAATCTAAACTTTTGACCCAAAAGTCTTGA
Found at i:13793770 original size:121 final size:120
Alignment explanation
Indices: 13793410--13793778 Score: 300
Period size: 121 Copynumber: 3.1 Consensus size: 120
13793400 TGCATGGAAA
* ** * * * **
13793410 TCTTGGAAATCATTC-AAATTTTAAAACTTTGC-CTAAAGGTCTTAGAATTTAGTAAATGATCTA
1 TCTTGGAAATCTTTCAAAAAATTAAAATTTTGCAC-AAAGATCTGAGAATTTAGTAAAAAATCTA
** * * * * * * * *
13793473 AGGTTTTG-CTCGAAAGCCCTGGAAATCTTTCAAAAATCTAATGATTTGCCTAAGG
65 AACTTTTGACCCAAAAGTCTTGAAAATCTTTCAAAAATTTAATGATTTGCTTGAGG
* * * * *
13793528 TCTAGAAAATCTTTCTAAAATTTAAAATTTTTCACAAAGATCTGAGAATTTAGTAAAAAATCTAA
1 TCTTGGAAATCTTTCAAAAAATTAAAATTTTGCACAAAGATCTGAGAATTTAGTAAAAAATCTAA
** * * * * *
13793593 GGTTTTGGCCCAAAAGTCTTGGAAATCTTTCTAAATTTTAATGATTTACTTAGAGG
66 ACTTTTGACCCAAAAGTCTTGAAAATCTTTCAAAAATTTAATGATTTGCTT-GAGG
* * *
13793649 TCTTGGAAATCTTTCAAAAAATTAAGATTTTGCTCAGAAG-TCTTAGAATTTAGTAAAAAATCTA
1 TCTTGGAAATCTTTCAAAAAATTAAAATTTTGCACA-AAGATCTGAGAATTTAGTAAAAAATCTA
** * *
13793713 AACTTTT-ACCTGAAGGTCTTGAAAAATCTTTCAAAAATTTAA-GATTTTGGTTGGAGG
65 AACTTTTGACCCAAAAGTCTTG-AAAATCTTTCAAAAATTTAATGA-TTTGCTT-GAGG
*
13793770 TCTTAGAAA
1 TCTTGGAAA
13793779 ATTTTTACTA
Statistics
Matches: 203, Mismatches: 41, Indels: 11
0.80 0.16 0.04
Matches are distributed among these distances:
118 12 0.06
119 47 0.23
120 47 0.23
121 94 0.46
122 3 0.01
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (120 bp):
TCTTGGAAATCTTTCAAAAAATTAAAATTTTGCACAAAGATCTGAGAATTTAGTAAAAAATCTAA
ACTTTTGACCCAAAAGTCTTGAAAATCTTTCAAAAATTTAATGATTTGCTTGAGG
Found at i:13800542 original size:15 final size:15
Alignment explanation
Indices: 13800522--13800551 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13800512 CAGTGAGAAT
*
13800522 CATATTGTTTATCCA
1 CATATTATTTATCCA
13800537 CATATTATTTATCCA
1 CATATTATTTATCCA
13800552 TGTATACACC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.20, G:0.03, T:0.47
Consensus pattern (15 bp):
CATATTATTTATCCA
Found at i:13801117 original size:11 final size:12
Alignment explanation
Indices: 13801097--13801127 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
13801087 AATCAAAATG
13801097 TTTCTTTTTTCT
1 TTTCTTTTTTCT
13801109 TTT-TTTTTTCT
1 TTTCTTTTTTCT
13801120 TTTCTTTT
1 TTTCTTTT
13801128 AGAAAGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (12 bp):
TTTCTTTTTTCT
Found at i:13803617 original size:5 final size:5
Alignment explanation
Indices: 13803609--13803655 Score: 51
Period size: 5 Copynumber: 9.0 Consensus size: 5
13803599 ATTTAATAAA
*
13803609 AAAAT AAAAT AAAAT AAAA- ACAAT AACAAT AAAAAT AAAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AA-AAT -AAAAT -AAAAT AAAAT
13803656 TAAGCCTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
4 3 0.08
5 20 0.54
6 12 0.32
7 2 0.05
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:13803628 original size:6 final size:6
Alignment explanation
Indices: 13803608--13803654 Score: 51
Period size: 6 Copynumber: 7.7 Consensus size: 6
13803598 AATTTAATAA
* *
13803608 AAAAAT -AAAAT AAAATAA AAACAAT AACAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAA-AT AAA-AAT AAAAAT AAAAAT AAAAAT AAAA
13803655 TTAAGCCTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
5 5 0.15
6 21 0.62
7 7 0.21
8 1 0.03
ACGTcount: A:0.81, C:0.04, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:13803633 original size:27 final size:27
Alignment explanation
Indices: 13803603--13803654 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
13803593 TAATTAATTT
13803603 AATAAAAAAATAAAAT-AAAATAAAAAC
1 AATAAAAAAA-AAAATAAAAATAAAAAC
* *
13803630 AATAACAATAAAAATAAAAATAAAA
1 AATAAAAAAAAAAATAAAAATAAAA
13803655 TTAAGCCTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.81, C:0.04, G:0.00, T:0.15
Consensus pattern (27 bp):
AATAAAAAAAAAAATAAAAATAAAAAC
Found at i:13803639 original size:15 final size:14
Alignment explanation
Indices: 13803603--13803643 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
13803593 TAATTAATTT
13803603 AATAAAA-AAATAA-
1 AATAAAATAAA-AAC
13803616 AATAAAATAAAAAC
1 AATAAAATAAAAAC
13803630 AATAACAATAAAAA
1 AATAA-AATAAAAA
13803644 TAAAAATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 9 0.36
14 8 0.32
15 8 0.32
ACGTcount: A:0.80, C:0.05, G:0.00, T:0.15
Consensus pattern (14 bp):
AATAAAATAAAAAC
Found at i:13804016 original size:18 final size:18
Alignment explanation
Indices: 13803993--13804205 Score: 97
Period size: 18 Copynumber: 11.8 Consensus size: 18
13803983 AGCCCTAAGC
*
13803993 CCTAAACCTTTAACCTAA
1 CCTAAACCTTAAACCTAA
13804011 CCTAAACCTTAAACCTAA
1 CCTAAACCTTAAACCTAA
** *
13804029 TGTAAACCTTAAACATAA
1 CCTAAACCTTAAACCTAA
*
13804047 CCTAAACGC-GAAACCTTAA
1 CCTAAAC-CTTAAACC-TAA
* * *
13804066 CAT-GACCTT-AACCCAA
1 CCTAAACCTTAAACCTAA
*
13804082 CCTTAAACCATAAACCCTAA
1 CC-TAAACCTTAAA-CCTAA
*
13804102 CCCCTAAA-ATTAAACCT--
1 --CCTAAACCTTAAACCTAA
*
13804119 --TAAACCCTAAACCTAA
1 CCTAAACCTTAAACCTAA
* * *
13804135 ACTAAACC-TAAATCGAA
1 CCTAAACCTTAAACCTAA
*
13804152 CTTGAAA-CTCTAAACCTAA
1 CCT-AAACCT-TAAACCTAA
* *
13804171 CCTTAAACCCTAAATCGT-A
1 CC-TAAACCTTAAA-CCTAA
13804190 CCTTAAACCTTAAACC
1 CC-TAAACCTTAAACC
13804206 AAACACCTAA
Statistics
Matches: 144, Mismatches: 31, Indels: 40
0.67 0.14 0.19
Matches are distributed among these distances:
13 4 0.03
14 7 0.05
16 3 0.02
17 15 0.10
18 57 0.40
19 40 0.28
20 12 0.08
21 4 0.03
22 2 0.01
ACGTcount: A:0.43, C:0.31, G:0.03, T:0.23
Consensus pattern (18 bp):
CCTAAACCTTAAACCTAA
Found at i:13804025 original size:13 final size:13
Alignment explanation
Indices: 13803993--13804274 Score: 70
Period size: 13 Copynumber: 22.5 Consensus size: 13
13803983 AGCCCTAAGC
*
13803993 CCTAAACCTTTAA
1 CCTAAACCTTAAA
13804006 CCT-AACC-TAAA
1 CCTAAACCTTAAA
13804017 CCTTAAACC-T-AA
1 CC-TAAACCTTAAA
**
13804029 TGTAAACCTTAAA
1 CCTAAACCTTAAA
*
13804042 CAT-AACC-TAAA
1 CCTAAACCTTAAA
*
13804053 CGCGAAACCTT-AA
1 C-CTAAACCTTAAA
* *
13804066 CAT-GACCTT-AA
1 CCTAAACCTTAAA
*
13804077 CC-CAACCTTAAA
1 CCTAAACCTTAAA
* *
13804089 CCATAAACCCTAACC
1 CC-TAAACCTTAA-A
*
13804104 CCTAAA-ATTAAA
1 CCTAAACCTTAAA
*
13804116 CCTTAAACCCTAAA
1 CC-TAAACCTTAAA
13804130 CCTAAA-C-TAAA
1 CCTAAACCTTAAA
**
13804141 CCTAAA--TCGAA
1 CCTAAACCTTAAA
*
13804152 CTTGAAA-CTCTAAA
1 CCT-AAACCT-TAAA
13804166 CCT-AACCTTAAA
1 CCTAAACCTTAAA
* *
13804178 CCCTAAATCGT--A
1 -CCTAAACCTTAAA
13804190 CCTTAAACCTTAAA
1 CC-TAAACCTTAAA
*
13804204 CC-AAACACCTAAA
1 CCTAAAC-CTTAAA
*
13804217 CCGT-AACTTTAAA
1 CC-TAAACCTTAAA
* *
13804230 CC-AAACCCTATA
1 CCTAAACCTTAAA
* * *
13804242 TCTTAACCTTAAGT
1 CCTAAACCTTAA-A
13804256 CCTAAA-CTTAAA
1 CCTAAACCTTAAA
13804268 TCCTAAA
1 -CCTAAA
13804275 TGCCAATCCA
Statistics
Matches: 194, Mismatches: 44, Indels: 62
0.65 0.15 0.21
Matches are distributed among these distances:
11 45 0.23
12 46 0.24
13 65 0.34
14 36 0.19
15 2 0.01
ACGTcount: A:0.43, C:0.30, G:0.03, T:0.23
Consensus pattern (13 bp):
CCTAAACCTTAAA
Found at i:13804115 original size:20 final size:20
Alignment explanation
Indices: 13804092--13804129 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13804082 CCTTAAACCA
*
13804092 TAAACCCTAACCCCTAAAAT
1 TAAACCCTAAACCCTAAAAT
*
13804112 TAAACCTTAAACCCTAAA
1 TAAACCCTAAACCCTAAA
13804130 CCTAAACTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (20 bp):
TAAACCCTAAACCCTAAAAT
Found at i:13804141 original size:5 final size:6
Alignment explanation
Indices: 13803993--13804146 Score: 59
Period size: 7 Copynumber: 25.0 Consensus size: 6
13803983 AGCCCTAAGC
* **
13803993 CCTAAA CCTTTAA CCT-AA CCTAAA CCTTAAA CCT-AA TGTAAA CCTTAAA
1 CCTAAA CC-TAAA CCTAAA CCTAAA CC-TAAA CCTAAA CCTAAA CC-TAAA
* * * * * * *
13804042 CAT-AA CCTAAA CGCGAAA CCTTAA CAT-GA CCTTAA CC-CAA CCTTAAA
1 CCTAAA CCTAAA C-CTAAA CCTAAA CCTAAA CCTAAA CCTAAA CC-TAAA
* **
13804089 CCATAAA CCCTAACC CCTAAA ATTAAA CCTTAAA CCCTAAA CCTAAA -CTAAA
1 CC-TAAA -CCTAA-A CCTAAA CCTAAA CC-TAAA -CCTAAA CCTAAA CCTAAA
13804141 CCTAAA
1 CCTAAA
13804147 TCGAACTTGA
Statistics
Matches: 110, Mismatches: 23, Indels: 30
0.67 0.14 0.18
Matches are distributed among these distances:
5 24 0.22
6 37 0.34
7 45 0.41
8 4 0.04
ACGTcount: A:0.45, C:0.31, G:0.03, T:0.21
Consensus pattern (6 bp):
CCTAAA
Found at i:13804178 original size:19 final size:19
Alignment explanation
Indices: 13804114--13804205 Score: 84
Period size: 19 Copynumber: 4.9 Consensus size: 19
13804104 CCTAAAATTA
13804114 AACCTTAAACCCTAAACCT
1 AACCTTAAACCCTAAACCT
* * *
13804133 AAAC-TAAA-CCTAAATCG
1 AACCTTAAACCCTAAACCT
*
13804150 AA-CTTGAAACTCTAAACCT
1 AACCTT-AAACCCTAAACCT
*
13804169 AACCTTAAACCCTAAATCGT
1 AACCTTAAACCCTAAA-CCT
*
13804189 -ACCTTAAACCTTAAACC
1 AACCTTAAACCCTAAACC
13804206 AAACACCTAA
Statistics
Matches: 58, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
16 1 0.02
17 10 0.17
18 8 0.14
19 34 0.59
20 5 0.09
ACGTcount: A:0.43, C:0.30, G:0.03, T:0.23
Consensus pattern (19 bp):
AACCTTAAACCCTAAACCT
Found at i:13804248 original size:25 final size:26
Alignment explanation
Indices: 13804195--13804253 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
13804185 TCGTACCTTA
13804195 AACCTTAAACCAAACACCTAAACCGT
1 AACCTTAAACCAAACACCTAAACCGT
* * * *
13804221 AACTTTAAACCAAAC-CCTATATCTT
1 AACCTTAAACCAAACACCTAAACCGT
13804246 AACCTTAA
1 AACCTTAA
13804254 GTCCTAAACT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 14 0.50
26 14 0.50
ACGTcount: A:0.44, C:0.31, G:0.02, T:0.24
Consensus pattern (26 bp):
AACCTTAAACCAAACACCTAAACCGT
Found at i:13805528 original size:129 final size:131
Alignment explanation
Indices: 13805287--13805541 Score: 318
Period size: 129 Copynumber: 2.0 Consensus size: 131
13805277 GGATGGAAAC
*
13805287 TTATAGGCTTTATCCATCCCTTGTTTTGGTTCTTAAGTGACATGAGATTCATTTGTATATGCATA
1 TTATAGGCTTTACCCATCCCTTGTTTTGGTTCTTAAGTGACATGAGATTCATTTGTATATGCATA
** * * ** ** *
13805352 GATGTGTGGCAGATAAAGATGATGGGAATTTATAGGCTTTAACCATCCCTTTTTTTAGTTCAAAA
66 GATGTGCAGCAGAGAAAGAGGATGAAAATTTATAAACTTTAACCATCCCTTGTTTTAGTTCAAAA
13805417 T
131 T
* * * ** *
13805418 TTATAGGTTTTACCCATTCTTTGTTTTGGTTCTTAAGTGATGTGGGATTCATTTG-A-ATGCATA
1 TTATAGGCTTTACCCATCCCTTGTTTTGGTTCTTAAGTGACATGAGATTCATTTGTATATGCATA
* *
13805481 GATGTGCAGCAGAGGAAA-AGGATGAAAATTTATAAACTTTACCCATCCCTTGTTTTGGTTC
66 GATGTGCAGCAGA-GAAAGAGGATGAAAATTTATAAACTTTAACCATCCCTTGTTTTAGTTC
13805542 TTATGCCTAT
Statistics
Matches: 105, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
129 53 0.50
130 4 0.04
131 48 0.46
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (131 bp):
TTATAGGCTTTACCCATCCCTTGTTTTGGTTCTTAAGTGACATGAGATTCATTTGTATATGCATA
GATGTGCAGCAGAGAAAGAGGATGAAAATTTATAAACTTTAACCATCCCTTGTTTTAGTTCAAAA
T
Found at i:13811978 original size:14 final size:13
Alignment explanation
Indices: 13811959--13812000 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 13
13811949 ATAAATGAAG
13811959 AAAAAAAGTAAAGA
1 AAAAAAAGTAAA-A
13811973 AAAAAAAGTAAAA
1 AAAAAAAGTAAAA
*
13811986 AATAAAAGTGAAAA
1 AAAAAAAGT-AAAA
13812000 A
1 A
13812001 GATTTTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 9 0.35
14 17 0.65
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.10
Consensus pattern (13 bp):
AAAAAAAGTAAAA
Found at i:13811999 original size:13 final size:13
Alignment explanation
Indices: 13811959--13812000 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
13811949 ATAAATGAAG
13811959 AAAAAAAGTAAAGA
1 AAAAAAAGTAAA-A
13811973 AAAAAAAGTAAAA
1 AAAAAAAGTAAAA
* *
13811986 AATAAAAGTGAAA
1 AAAAAAAGTAAAA
13811999 AA
1 AA
13812001 GATTTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 14 0.54
14 12 0.46
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.10
Consensus pattern (13 bp):
AAAAAAAGTAAAA
Found at i:13813200 original size:17 final size:17
Alignment explanation
Indices: 13813174--13813212 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
13813164 GATGGTAACA
* *
13813174 AAAAGGGAAAAGAAATT
1 AAAAGGGAAAAAAAAAT
*
13813191 AAAAGTGAAAAAAAAAT
1 AAAAGGGAAAAAAAAAT
13813208 AAAAG
1 AAAAG
13813213 CCAAGAAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.18, T:0.10
Consensus pattern (17 bp):
AAAAGGGAAAAAAAAAT
Found at i:13814739 original size:60 final size:60
Alignment explanation
Indices: 13814606--13814748 Score: 160
Period size: 60 Copynumber: 2.4 Consensus size: 60
13814596 AGATGATATT
* * * * * *
13814606 CATTAATTAAGTTTTAAGCCCAATGTAGCTAGCATAGAGGTTTAAGCCTAGTAAAATTGG
1 CATTAATTAAGTTTTAAGCCCAATCTAGCTAGAAGAGAGGTTTAAGCCCAATAAAATTAG
* * * * *
13814666 CATCAATTAAGTTTTAAGCCTAATCTAGTTAGAAGAGAGGTTTAAGCCCAATGAACTTAG
1 CATTAATTAAGTTTTAAGCCCAATCTAGCTAGAAGAGAGGTTTAAGCCCAATAAAATTAG
* * *
13814726 CATTAGTTGAGTTTTAAGTCCAA
1 CATTAATTAAGTTTTAAGCCCAA
13814749 GTTAACTAGT
Statistics
Matches: 67, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
60 67 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (60 bp):
CATTAATTAAGTTTTAAGCCCAATCTAGCTAGAAGAGAGGTTTAAGCCCAATAAAATTAG
Found at i:13815034 original size:14 final size:15
Alignment explanation
Indices: 13814975--13815049 Score: 53
Period size: 15 Copynumber: 4.7 Consensus size: 15
13814965 AAGAAATCAA
*
13814975 AAAAATCAAAAAGTTCA
1 AAAAAT-AAAAAGTT-G
* *
13814992 AAAAATAAAAATTAATT
1 AAAAATAAAAAGT--TG
*
13815009 AAAAATTCAAAAG-TG
1 AAAAA-TAAAAAGTTG
*
13815024 AAAAATAAAAAGTTT
1 AAAAATAAAAAGTTG
13815039 AAAAATAAAAA
1 AAAAATAAAAA
13815050 TAAAAAATTT
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
14 6 0.13
15 18 0.38
16 6 0.13
17 11 0.23
18 6 0.13
ACGTcount: A:0.69, C:0.04, G:0.05, T:0.21
Consensus pattern (15 bp):
AAAAATAAAAAGTTG
Found at i:13815060 original size:21 final size:22
Alignment explanation
Indices: 13815009--13815060 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
13814999 AAAATTAATT
* *
13815009 AAAAATTCAAAAGTGAAAAATA
1 AAAAATTTAAAAATGAAAAATA
*
13815031 AAAAGTTTAAAAAT-AAAAATA
1 AAAAATTTAAAAATGAAAAATA
13815052 AAAAATTTA
1 AAAAATTTA
13815061 GGAAAATTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 15 0.58
22 11 0.42
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.23
Consensus pattern (22 bp):
AAAAATTTAAAAATGAAAAATA
Found at i:13815127 original size:16 final size:16
Alignment explanation
Indices: 13815082--13815126 Score: 65
Period size: 15 Copynumber: 2.8 Consensus size: 16
13815072 ACAATCAATC
13815082 AAAAGATTCAAAAATTA
1 AAAAGATT-AAAAATTA
13815099 AAAAGATTAAAAATT-
1 AAAAGATTAAAAATTA
*
13815114 AAAATATTAAAAA
1 AAAAGATTAAAAA
13815127 AACTTTCTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 12 0.44
16 7 0.26
17 8 0.30
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.24
Consensus pattern (16 bp):
AAAAGATTAAAAATTA
Found at i:13817188 original size:25 final size:25
Alignment explanation
Indices: 13817151--13817313 Score: 91
Period size: 25 Copynumber: 6.7 Consensus size: 25
13817141 AAATCCATAA
* *
13817151 CCTAAA-CTCTAAACTTAACGTAAAC
1 CCTAAACCT-TAAACCTAACCTAAAC
* *
13817176 CCTAGACCTTAAACCTAACCTTAAC
1 CCTAAACCTTAAACCTAACCTAAAC
13817201 CCTAAACCTT--ACCTAAACTCTAAA-
1 CCTAAACCTTAAACCT-AAC-CTAAAC
*
13817225 CCTAGA-C-TAAACCATAAACCCT-AA-
1 CCTAAACCTTAAACC-T-AA-CCTAAAC
13817249 CCT-AACCTTAAACCTAACCTAAA-
1 CCTAAACCTTAAACCTAACCTAAAC
* *
13817272 CCTAAAACCCT-AACCTAACCTTAAC
1 CCT-AAACCTTAAACCTAACCTAAAC
*
13817297 TCT-AACC-TAAACTCTAA
1 CCTAAACCTTAAAC-CTAA
13817314 ACTTTAAACC
Statistics
Matches: 112, Mismatches: 11, Indels: 31
0.73 0.07 0.20
Matches are distributed among these distances:
22 5 0.04
23 20 0.18
24 34 0.30
25 50 0.45
26 3 0.03
ACGTcount: A:0.42, C:0.34, G:0.02, T:0.23
Consensus pattern (25 bp):
CCTAAACCTTAAACCTAACCTAAAC
Found at i:13817215 original size:11 final size:12
Alignment explanation
Indices: 13817176--13817320 Score: 88
Period size: 12 Copynumber: 12.0 Consensus size: 12
13817166 TAACGTAAAC
*
13817176 CCTAGACCTTAAA
1 CCTAAACCTT-AA
13817189 CCT-AACCTTAA
1 CCTAAACCTTAA
13817200 CCCTAAACCTT-A
1 -CCTAAACCTTAA
*
13817212 CCTAAACTCTAAA
1 CCTAAAC-CTTAA
* *
13817225 CCTAGA-CTAAA
1 CCTAAACCTTAA
*
13817236 CCATAAACCCTAA
1 CC-TAAACCTTAA
13817249 CCT-AACCTTAAA
1 CCTAAACCTT-AA
*
13817261 CCT-AACCTAAA
1 CCTAAACCTTAA
*
13817272 CCTAAAACCCTAA
1 CCT-AAACCTTAA
13817285 CCT-AACCTTAA
1 CCTAAACCTTAA
*
13817296 CTCT-AACCTAAA
1 C-CTAAACCTTAA
*
13817308 CTCTAAACTTTAA
1 C-CTAAACCTTAA
13817321 ACCTTATATA
Statistics
Matches: 107, Mismatches: 14, Indels: 22
0.75 0.10 0.15
Matches are distributed among these distances:
11 34 0.32
12 38 0.36
13 35 0.33
ACGTcount: A:0.41, C:0.34, G:0.01, T:0.23
Consensus pattern (12 bp):
CCTAAACCTTAA
Found at i:13817227 original size:36 final size:36
Alignment explanation
Indices: 13817185--13817507 Score: 152
Period size: 36 Copynumber: 8.7 Consensus size: 36
13817175 CCCTAGACCT
* *
13817185 TAAACCTAACCTTAACCCTAAACCTTACCTAAACTC
1 TAAACCTAACCTAAACCCTAAACCTAACCTAAACTC
* *
13817221 TAAACCTAGA-CTAAACCATAAACCCTAACCTAACCT-
1 TAAACCTA-ACCTAAACCCTAAA-CCTAACCTAAACTC
13817257 TAAACCTAACCTAAA-CCTAAAACCCTAACCT-AAC-C
1 TAAACCTAACCTAAACCCT-AAA-CCTAACCTAAACTC
* * *
13817292 TTAACTCTAACCTAAACTCTAAACTTTAAACCTTATATAAACT-
1 TAAAC-CTAACCTAAACCCTAAAC-CT-AACC-----TAAACTC
** * *
13817335 TGAAACCCTAA-CTTGACCCTAACCCTAACCTAAACCC
1 T-AAA-CCTAACCTAAACCCTAAACCTAACCTAAACTC
* * *
13817372 TAAACCCTAAATCTAAACTCTAAACATAACCTAAACTC
1 TAAA-CCT-AACCTAAACCCTAAACCTAACCTAAACTC
* * *
13817410 CAAACCAAACCCTAAACCCT-AACCT----TAAACTT
1 TAAACCTAA-CCTAAACCCTAAACCTAACCTAAACTC
* * *
13817442 TAAACCCTTACATTAAACCCTAAACTTAACCTTAAA-TAC
1 TAAA-CCTAAC-CTAAACCCTAAACCTAACC-TAAACT-C
13817481 T-AACCTTAAACCCTAAACCCTAAACCT
1 TAAACC-T-AA-CCTAAACCCTAAACCT
13817508 TAAACCAAAC
Statistics
Matches: 216, Mismatches: 37, Indels: 65
0.68 0.12 0.20
Matches are distributed among these distances:
32 10 0.05
33 11 0.05
34 4 0.02
35 10 0.05
36 75 0.35
37 33 0.15
38 27 0.12
39 19 0.09
40 1 0.00
41 4 0.02
42 2 0.01
43 13 0.06
44 6 0.03
45 1 0.00
ACGTcount: A:0.42, C:0.33, G:0.01, T:0.24
Consensus pattern (36 bp):
TAAACCTAACCTAAACCCTAAACCTAACCTAAACTC
Found at i:13817254 original size:5 final size:5
Alignment explanation
Indices: 13817244--13817306 Score: 54
Period size: 5 Copynumber: 11.0 Consensus size: 5
13817234 AACCATAAAC
13817244 CCTAA CCTAA CCTTAAA CCTAA CCTAAA CCTAAAA CCCTAA CCTAA CCTTAA
1 CCTAA CCTAA CC-T-AA CCTAA CCT-AA CCT--AA -CCTAA CCTAA CC-TAA
13817296 CTCTAA CCTAA
1 C-CTAA CCTAA
13817307 ACTCTAAACT
Statistics
Matches: 51, Mismatches: 0, Indels: 14
0.78 0.00 0.22
Matches are distributed among these distances:
5 23 0.45
6 17 0.33
7 8 0.16
8 3 0.06
ACGTcount: A:0.41, C:0.37, G:0.00, T:0.22
Consensus pattern (5 bp):
CCTAA
Found at i:13817375 original size:7 final size:7
Alignment explanation
Indices: 13817350--13817513 Score: 79
Period size: 7 Copynumber: 25.4 Consensus size: 7
13817340 CCCTAACTTG
13817350 ACCCT-A
1 ACCCTAA
13817356 ACCCT-A
1 ACCCTAA
13817362 A-CCTAA
1 ACCCTAA
13817368 ACCCTAA
1 ACCCTAA
13817375 ACCCTAA
1 ACCCTAA
*
13817382 A-TCTAA
1 ACCCTAA
*
13817388 ACTCTAA
1 ACCCTAA
*
13817395 A-CAT-A
1 ACCCTAA
13817400 A-CCTAA
1 ACCCTAA
13817406 ACTCC-AA
1 AC-CCTAA
13817413 A-CC-AA
1 ACCCTAA
13817418 ACCCTAA
1 ACCCTAA
13817425 ACCCT-A
1 ACCCTAA
*
13817431 ACCTTAA
1 ACCCTAA
**
13817438 ACTTTAA
1 ACCCTAA
*
13817445 ACCCT-T
1 ACCCTAA
**
13817451 ACATTAA
1 ACCCTAA
13817458 ACCCTAA
1 ACCCTAA
*
13817465 A--CTTA
1 ACCCTAA
*
13817470 ACCTTAA
1 ACCCTAA
**
13817477 ATACT-A
1 ACCCTAA
*
13817483 ACCTTAA
1 ACCCTAA
13817490 ACCCTAA
1 ACCCTAA
13817497 ACCCTAA
1 ACCCTAA
*
13817504 ACCTTAA
1 ACCCTAA
13817511 ACC
1 ACC
13817514 AAACTTGTAA
Statistics
Matches: 120, Mismatches: 25, Indels: 25
0.71 0.15 0.15
Matches are distributed among these distances:
5 16 0.13
6 30 0.25
7 72 0.60
8 2 0.02
ACGTcount: A:0.43, C:0.35, G:0.00, T:0.22
Consensus pattern (7 bp):
ACCCTAA
Found at i:13817433 original size:13 final size:13
Alignment explanation
Indices: 13817350--13817506 Score: 51
Period size: 13 Copynumber: 12.2 Consensus size: 13
13817340 CCCTAACTTG
13817350 ACCCTAACCCT-A
1 ACCCTAACCCTAA
13817362 A-CCTAAACCCTAA
1 ACCCT-AACCCTAA
**
13817375 ACCCTAAATCTAA
1 ACCCTAACCCTAA
* * *
13817388 ACTCTAAACAT-A
1 ACCCTAACCCTAA
13817400 A-CCTAAACTCC-AA
1 ACCCT-AAC-CCTAA
*
13817413 A-CCAAACCCTAA
1 ACCCTAACCCTAA
*
13817425 ACCCTAACCTTAA
1 ACCCTAACCCTAA
** *
13817438 ACTTTAAACCCT-T
1 ACCCT-AACCCTAA
**
13817451 ACATTAAACCCTAA
1 ACCCT-AACCCTAA
* *
13817465 A-CTTAACCTTAA
1 ACCCTAACCCTAA
** *
13817477 ATACTAACCTTAA
1 ACCCTAACCCTAA
13817490 ACCCTAAACCCTAA
1 ACCCT-AACCCTAA
13817504 ACC
1 ACC
13817507 TTAAACCAAA
Statistics
Matches: 109, Mismatches: 24, Indels: 22
0.70 0.15 0.14
Matches are distributed among these distances:
11 7 0.06
12 25 0.23
13 58 0.53
14 19 0.17
ACGTcount: A:0.43, C:0.35, G:0.00, T:0.22
Consensus pattern (13 bp):
ACCCTAACCCTAA
Found at i:13817445 original size:20 final size:20
Alignment explanation
Indices: 13817185--13817513 Score: 115
Period size: 18 Copynumber: 17.9 Consensus size: 20
13817175 CCCTAGACCT
13817185 TAAA-CCTAACCTT-AACCC
1 TAAACCCTAACCTTAAACCC
* *
13817203 TAAA-CCTTACC-TAAACTC
1 TAAACCCTAACCTTAAACCC
*
13817221 TAAA-CCTAGA-C-TAAACCA
1 TAAACCCTA-ACCTTAAACCC
*
13817239 TAAACCCTAACC-T-AACCT
1 TAAACCCTAACCTTAAACCC
13817257 TAAA-CCTAACC-TAAA-CC
1 TAAACCCTAACCTTAAACCC
13817274 TAAAACCCTAACC-T-AA-CC
1 T-AAACCCTAACCTTAAACCC
* * *
13817292 TTAACTCTAACC-TAAACTC
1 TAAACCCTAACCTTAAACCC
** * *
13817311 TAAACTTTAAACCTTATATAAACT
1 TAAACCCT-AACC-T-TA-AACCC
*
13817335 TGAAACCCTAA-CTT-GACCC
1 T-AAACCCTAACCTTAAACCC
13817354 T-AACCCTAACC-TAAACCC
1 TAAACCCTAACCTTAAACCC
* *
13817372 TAAACCCTAA-ATCTAAACTC
1 TAAACCCTAACCT-TAAACCC
*
13817392 TAAA-CATAACC-TAAA--C
1 TAAACCCTAACCTTAAACCC
*
13817408 T----CCAAACC--AAACCC
1 TAAACCCTAACCTTAAACCC
**
13817422 TAAACCCTAACCTTAAACTT
1 TAAACCCTAACCTTAAACCC
* *
13817442 TAAACCCTTACATTAAACCC
1 TAAACCCTAACCTTAAACCC
*
13817462 TAAA-CTTAACCTTAAA---
1 TAAACCCTAACCTTAAACCC
13817478 T--A--CTAACCTTAAACCC
1 TAAACCCTAACCTTAAACCC
13817494 TAAACCCTAAACCTTAAACC
1 TAAACCCT-AACCTTAAACC
13817514 AAACTTGTAA
Statistics
Matches: 236, Mismatches: 38, Indels: 71
0.68 0.11 0.21
Matches are distributed among these distances:
12 3 0.01
13 15 0.06
14 3 0.01
16 4 0.02
17 30 0.13
18 69 0.29
19 46 0.19
20 40 0.17
21 12 0.05
22 1 0.00
23 3 0.01
24 5 0.02
25 5 0.02
ACGTcount: A:0.43, C:0.33, G:0.01, T:0.23
Consensus pattern (20 bp):
TAAACCCTAACCTTAAACCC
Found at i:13821351 original size:11 final size:11
Alignment explanation
Indices: 13821318--13821369 Score: 59
Period size: 11 Copynumber: 4.7 Consensus size: 11
13821308 GTATTAATAT
*
13821318 AAACGAACAAC
1 AAACGAATAAC
* *
13821329 AAACAAACAAC
1 AAACGAATAAC
*
13821340 AAATGAATAAC
1 AAACGAATAAC
*
13821351 AAACGAATAAT
1 AAACGAATAAC
13821362 AAACGAAT
1 AAACGAAT
13821370 GAGTTTTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 35 1.00
ACGTcount: A:0.65, C:0.17, G:0.08, T:0.10
Consensus pattern (11 bp):
AAACGAATAAC
Found at i:13821881 original size:25 final size:26
Alignment explanation
Indices: 13821839--13821888 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
13821829 ATCAAAATAA
13821839 TATTTAAATATTAAAAAT-TATTTTT
1 TATTTAAATATTAAAAATATATTTTT
* **
13821864 TATTTTAATATTTTAAATATATTTT
1 TATTTAAATATTAAAAATATATTTT
13821889 AAAATTAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
TATTTAAATATTAAAAATATATTTTT
Found at i:13825025 original size:33 final size:33
Alignment explanation
Indices: 13824973--13825050 Score: 117
Period size: 33 Copynumber: 2.5 Consensus size: 33
13824963 TTGTAAGTTC
*
13824973 AAATTTAA-ATT-A-TCAAATTCCAATGGTTGA
1 AAATTTAAGATTAAGTCAAATTCCAATGGTTAA
*
13825003 AAATTTAAGATTAAGTCAAATTCGAATGGTTAA
1 AAATTTAAGATTAAGTCAAATTCCAATGGTTAA
13825036 AAATTTAAGATTAAG
1 AAATTTAAGATTAAG
13825051 ACTTAGTTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
30 8 0.19
31 3 0.07
32 1 0.02
33 31 0.72
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.35
Consensus pattern (33 bp):
AAATTTAAGATTAAGTCAAATTCCAATGGTTAA
Found at i:13830823 original size:13 final size:13
Alignment explanation
Indices: 13830805--13830834 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
13830795 AAATCGAACA
*
13830805 TAATATATATATT
1 TAATATATAAATT
13830818 TAATATATAAATT
1 TAATATATAAATT
13830831 TAAT
1 TAAT
13830835 TTGAATCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TAATATATAAATT
Found at i:13830856 original size:22 final size:22
Alignment explanation
Indices: 13830830--13830876 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
13830820 ATATATAAAT
*
13830830 TTAATTTGAATCAAATAAAAAA
1 TTAATCTGAATCAAATAAAAAA
* *
13830852 TTAATCTGAATCAAATCAAATA
1 TTAATCTGAATCAAATAAAAAA
13830874 TTA
1 TTA
13830877 TAATTTCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.34
Consensus pattern (22 bp):
TTAATCTGAATCAAATAAAAAA
Found at i:13831591 original size:29 final size:29
Alignment explanation
Indices: 13831535--13831593 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
13831525 TTGCTAAAAG
* **
13831535 TTAATGTTTTTGTTGTAAAGATTTTTTTT
1 TTAATGTTTCTGTTGTAAAGATAGTTTTT
*
13831564 TTAATGTTTCTGTTGTAAAGGTAGTTTTT
1 TTAATGTTTCTGTTGTAAAGATAGTTTTT
13831593 T
1 T
13831594 CTTCCTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.20, C:0.02, G:0.17, T:0.61
Consensus pattern (29 bp):
TTAATGTTTCTGTTGTAAAGATAGTTTTT
Found at i:13831628 original size:38 final size:38
Alignment explanation
Indices: 13831588--13831698 Score: 195
Period size: 38 Copynumber: 2.9 Consensus size: 38
13831578 GTAAAGGTAG
13831588 TTTTTTCTTCCTTTTTTGCTGTTTTTGTTGATGCCCAGT
1 TTTTTTCTT-CTTTTTTGCTGTTTTTGTTGATGCCCAGT
* *
13831627 TTTTTTCTTCTCTTTTGCTGTTTATGTTGATGCCCAGT
1 TTTTTTCTTCTTTTTTGCTGTTTTTGTTGATGCCCAGT
13831665 TTTTTTCTTCTTTTTTGCTGTTTTTGTTGATGCC
1 TTTTTTCTTCTTTTTTGCTGTTTTTGTTGATGCC
13831699 TATTTGCTCA
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
38 59 0.87
39 9 0.13
ACGTcount: A:0.05, C:0.17, G:0.15, T:0.62
Consensus pattern (38 bp):
TTTTTTCTTCTTTTTTGCTGTTTTTGTTGATGCCCAGT
Found at i:13842124 original size:26 final size:25
Alignment explanation
Indices: 13842070--13842133 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 25
13842060 GTTTAATTTT
*
13842070 TTTAAAAAAAATTATGATTTGAAAA
1 TTTAAAAAAAATTATGAATTGAAAA
13842095 --TAAAAAAAATTATAGACATT-AAAA
1 TTTAAAAAAAATTAT-GA-ATTGAAAA
13842119 TTTAAATTAAAAATT
1 TTTAAA--AAAAATT
13842134 TATTAAATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
23 13 0.41
24 6 0.19
25 2 0.06
26 4 0.12
28 7 0.22
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (25 bp):
TTTAAAAAAAATTATGAATTGAAAA
Found at i:13843147 original size:15 final size:15
Alignment explanation
Indices: 13843127--13843273 Score: 195
Period size: 15 Copynumber: 9.8 Consensus size: 15
13843117 AAGATGCACT
* *
13843127 GGTGGTGGTGGTGAA
1 GGTGGAGGTGGAGAA
* *
13843142 GGTGGTGGTGGTGAA
1 GGTGGAGGTGGAGAA
13843157 GGTGGAGGTGGAGAA
1 GGTGGAGGTGGAGAA
13843172 GGTGGAGGTGGAGAA
1 GGTGGAGGTGGAGAA
* *
13843187 GGTGGTGGTGGTGAA
1 GGTGGAGGTGGAGAA
*
13843202 GGGGGAGGTGGAGAA
1 GGTGGAGGTGGAGAA
* *
13843217 GGTGGTGGTGGTGAA
1 GGTGGAGGTGGAGAA
13843232 GGTGGAGGTGGAGAA
1 GGTGGAGGTGGAGAA
*
13843247 GGGGGAGGTGGAGAA
1 GGTGGAGGTGGAGAA
*
13843262 GGTGGCGGTGGA
1 GGTGGAGGTGGA
13843274 CTTCTAGGCG
Statistics
Matches: 117, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 117 1.00
ACGTcount: A:0.20, C:0.01, G:0.62, T:0.18
Consensus pattern (15 bp):
GGTGGAGGTGGAGAA
Found at i:13843191 original size:45 final size:45
Alignment explanation
Indices: 13843127--13843273 Score: 231
Period size: 45 Copynumber: 3.3 Consensus size: 45
13843117 AAGATGCACT
* *
13843127 GGTGGTGGTGGTGAAGGTGGTGGTGGTGAAGGTGGAGGTGGAGAA
1 GGTGGTGGTGGAGAAGGTGGTGGTGGTGAAGGGGGAGGTGGAGAA
*
13843172 GGTGGAGGTGGAGAAGGTGGTGGTGGTGAAGGGGGAGGTGGAGAA
1 GGTGGTGGTGGAGAAGGTGGTGGTGGTGAAGGGGGAGGTGGAGAA
* * *
13843217 GGTGGTGGTGGTGAAGGTGGAGGTGGAGAAGGGGGAGGTGGAGAA
1 GGTGGTGGTGGAGAAGGTGGTGGTGGTGAAGGGGGAGGTGGAGAA
*
13843262 GGTGGCGGTGGA
1 GGTGGTGGTGGA
13843274 CTTCTAGGCG
Statistics
Matches: 93, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 93 1.00
ACGTcount: A:0.20, C:0.01, G:0.62, T:0.18
Consensus pattern (45 bp):
GGTGGTGGTGGAGAAGGTGGTGGTGGTGAAGGGGGAGGTGGAGAA
Found at i:13843259 original size:6 final size:6
Alignment explanation
Indices: 13843145--13843244 Score: 56
Period size: 6 Copynumber: 16.2 Consensus size: 6
13843135 TGGTGAAGGT
* * ** * *
13843145 GGTGGT GGTGAA GGTGGA GGTGGAGAA GGTGGA GGTGGA GAAGGT GGTGGT
1 GGTGGA GGTGGA GGTGGA GGT-G-G-A GGTGGA GGTGGA GGTGGA GGTGGA
* * ** * * *
13843196 GGTGAA GGGGGA GGTGGA GAAGGT GGTGGT GGTGAA GGTGGA GGTGGA
1 GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA
13843244 G
1 G
13843245 AAGGGGGAGG
Statistics
Matches: 70, Mismatches: 21, Indels: 6
0.72 0.22 0.06
Matches are distributed among these distances:
6 62 0.89
7 2 0.03
8 2 0.03
9 4 0.06
ACGTcount: A:0.20, C:0.00, G:0.62, T:0.18
Consensus pattern (6 bp):
GGTGGA
Found at i:13846667 original size:4 final size:4
Alignment explanation
Indices: 13846658--13846692 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
13846648 ATACCTTCAT
*
13846658 ATAC ATAC ATAC ATAC ATAC ATAC ATTC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
13846693 TATATATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.29
Consensus pattern (4 bp):
ATAC
Found at i:13847406 original size:5 final size:5
Alignment explanation
Indices: 13847387--13847430 Score: 53
Period size: 4 Copynumber: 9.8 Consensus size: 5
13847377 ACTTTAAGGT
13847387 TTTTC -TTTC -TTTC TTTTC TTTTC TTTTC TTTT- TTTT- TTTT- TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
13847431 TTTGTCTCAG
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
4 20 0.53
5 18 0.47
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (5 bp):
TTTTC
Found at i:13847411 original size:10 final size:10
Alignment explanation
Indices: 13847387--13847430 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
13847377 ACTTTAAGGT
13847387 TTTTC-TTTC
1 TTTTCTTTTC
13847396 -TTTCTTTTC
1 TTTTCTTTTC
13847405 TTTTCTTTTC
1 TTTTCTTTTC
13847415 TTTT-TTTT-
1 TTTTCTTTTC
13847423 TTTT-TTTT
1 TTTTCTTTT
13847431 TTTGTCTCAG
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
8 12 0.36
9 8 0.24
10 13 0.39
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTCTTTTC
Found at i:13849398 original size:11 final size:10
Alignment explanation
Indices: 13849369--13849429 Score: 59
Period size: 11 Copynumber: 5.7 Consensus size: 10
13849359 GCAATAGATT
*
13849369 AAAAGAAGAA
1 AAAAAAAGAA
13849379 ACAAAAAAGCAA
1 A-AAAAAAG-AA
*
13849391 AGAAAAAGAA
1 AAAAAAAGAA
13849401 AAAAAAAGAGA
1 AAAAAAAGA-A
*
13849412 AAAAAAATAA
1 AAAAAAAGAA
13849422 AAATAAAA
1 AAA-AAAA
13849430 ATTATAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
10 15 0.35
11 25 0.58
12 3 0.07
ACGTcount: A:0.82, C:0.03, G:0.11, T:0.03
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:13849408 original size:16 final size:15
Alignment explanation
Indices: 13849369--13849430 Score: 52
Period size: 16 Copynumber: 3.9 Consensus size: 15
13849359 GCAATAGATT
*
13849369 AAAAGAAGAAACAAAA
1 AAAAAAAGAAA-AAAA
**
13849385 AAGCAAAGAAAAAGAA
1 AAAAAAAGAAAAA-AA
13849401 AAAAAAAGAGAAAAAA
1 AAAAAAAGA-AAAAAA
*
13849417 AATAAAAATAAAAA
1 AA-AAAAAGAAAAA
13849431 TTATAAAATG
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
15 2 0.05
16 25 0.68
17 10 0.27
ACGTcount: A:0.82, C:0.03, G:0.11, T:0.03
Consensus pattern (15 bp):
AAAAAAAGAAAAAAA
Found at i:13849415 original size:19 final size:21
Alignment explanation
Indices: 13849369--13849418 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
13849359 GCAATAGATT
*
13849369 AAAAGAAGAAACAAAAAAGCA
1 AAAAAAAGAAACAAAAAAGCA
*
13849390 AAGAAAAAGAAA-AAAAAAGAGA
1 AA-AAAAAGAAACAAAAAAG-CA
13849412 AAAAAAA
1 AAAAAAA
13849419 TAAAAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.82, C:0.04, G:0.14, T:0.00
Consensus pattern (21 bp):
AAAAAAAGAAACAAAAAAGCA
Found at i:13849710 original size:44 final size:43
Alignment explanation
Indices: 13849655--13849797 Score: 153
Period size: 44 Copynumber: 3.2 Consensus size: 43
13849645 CAAAATTCAT
* *
13849655 AATTCATCTTGAAAAGCTCCTCTAAGCAGAGGTTAACACTTTAA
1 AATTTATCTTGAAAAGCTCCTCTAAGTAGAGGTTAACACTTT-A
* *
13849699 AATTTATCTTGAAAAAGCT-CTTTAAGTAGAGGCTCAACAACTTTA
1 AATTTATCTTG-AAAAGCTCCTCTAAGTAGAGG-TTAAC-ACTTTA
* *
13849744 AATTCATCATCTTGGAAAAGTTCCTCTAAGTAGAGCTTAACACTTTA
1 AATT--T-ATCTT-GAAAAGCTCCTCTAAGTAGAGGTTAACACTTTA
13849791 AATTTAT
1 AATTTAT
13849798 TCATACTTTG
Statistics
Matches: 83, Mismatches: 8, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
44 23 0.28
45 17 0.20
46 5 0.06
47 11 0.13
48 15 0.18
49 12 0.14
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (43 bp):
AATTTATCTTGAAAAGCTCCTCTAAGTAGAGGTTAACACTTTA
Found at i:13849775 original size:49 final size:47
Alignment explanation
Indices: 13849658--13849812 Score: 160
Period size: 48 Copynumber: 3.3 Consensus size: 47
13849648 AATTCATAAT
*
13849658 TCATCTT-GAAAAGCTCCTCTAAGCAGAGG-TTAACACTTTAAAATT-
1 TCATCTTGGAAAAGCTCCTCTAAGTAGAGGCTTAACACTTT-AAATTA
* * *
13849703 T-ATCTTGAAAAAGCT-CTTTAAGTAGAGGCTCAACAACTTTAAATTCA
1 TCATCTTGGAAAAGCTCCTCTAAGTAGAGGCTTAAC-ACTTTAAATT-A
*
13849750 TCATCTTGGAAAAGTTCCTCTAAGTAGA-GCTTAACACTTTAAATTTA
1 TCATCTTGGAAAAGCTCCTCTAAGTAGAGGCTTAACACTTTAAA-TTA
*
13849797 TTCATACTTTGAAAAG
1 -TCAT-CTTGGAAAAG
13849813 TACAACTTTA
Statistics
Matches: 91, Mismatches: 9, Indels: 16
0.78 0.08 0.14
Matches are distributed among these distances:
44 16 0.18
45 17 0.19
46 5 0.05
47 10 0.11
48 24 0.26
49 19 0.21
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (47 bp):
TCATCTTGGAAAAGCTCCTCTAAGTAGAGGCTTAACACTTTAAATTA
Found at i:13850192 original size:75 final size:75
Alignment explanation
Indices: 13850071--13850664 Score: 686
Period size: 75 Copynumber: 7.8 Consensus size: 75
13850061 TATCATCATT
* * * *
13850071 GAGAAAATGTAATTC-AAGTTTAACACTCGGATATCACCACCGAGAATATGCAAATGACTTCGGA
1 GAGAAAATGCAATTCAAACTTTGACACTCAGATATCACCACCGAGAATATGCAAATGACTTCGGA
13850135 TATCGCCACC
66 TATCGCCACC
* *
13850145 GAGAAAATGCAATTCAAACTTTGACACTCAGATATCACCACCAAGAATATGCAAATGACTTCGAA
1 GAGAAAATGCAATTCAAACTTTGACACTCAGATATCACCACCGAGAATATGCAAATGACTTCGGA
*
13850210 TATCGCTACC
66 TATCGCCACC
* * * * *
13850220 GAAAAAATGCAATTCAAACTTGGACACTCAGATATCACCACTGAGAATATGCAAAAGACTTCGAA
1 GAGAAAATGCAATTCAAACTTTGACACTCAGATATCACCACCGAGAATATGCAAATGACTTCGGA
* *
13850285 TATTGCCATC
66 TATCGCCACC
13850295 GAGAAAATGCAATTCAAACTTTGACACTCAGATATCACCACCGAGAATATGCAAATGACTTCGGA
1 GAGAAAATGCAATTCAAACTTTGACACTCAGATATCACCACCGAGAATATGCAAATGACTTCGGA
***
13850360 TATTATCACC
66 TATCGCCACC
* ** * * **
13850370 GAGAAAATGCAATTCAAACTTGGACACTTGGATATCACCACTGAGAATATACAAATGACTTCAAA
1 GAGAAAATGCAATTCAAACTTTGACACTCAGATATCACCACCGAGAATATGCAAATGACTTCGGA
13850435 TATCGCCACC
66 TATCGCCACC
* * * * * * * *
13850445 GAAAAAATGTAATTCAAACCTTGACAGTCGGATATCACCACTGAGAATATGTAAATGATTTCGGA
1 GAGAAAATGCAATTCAAACTTTGACACTCAGATATCACCACCGAGAATATGCAAATGACTTCGGA
*
13850510 TATCACCACC
66 TATCGCCACC
* * * *
13850520 GAGAAAATGCAATTCAAACTTGGACACTCGGATATCACCACCAAGAAAAGGTAATTCAAACTTTG
1 GAGAAAATGCAATTCAAACTTTGACACTCAGATATCACCACC--GAGAA--T-ATGCAAA---TG
* * * **
13850585 ACACTCGGATATCACAATT
58 AC-TTCGGATATCGCCACC
* * * *
13850604 GAGAAGATGCAATTCAAACCTTGACACTCAGATATCACCACCGAGAAGATACAAATGACTT
1 GAGAAAATGCAATTCAAACTTTGACACTCAGATATCACCACCGAGAATATGCAAATGACTT
13850665 TTTTAATACT
Statistics
Matches: 443, Mismatches: 67, Indels: 19
0.84 0.13 0.04
Matches are distributed among these distances:
74 14 0.03
75 352 0.79
76 4 0.01
77 4 0.01
79 7 0.02
80 5 0.01
82 4 0.01
83 3 0.01
84 50 0.11
ACGTcount: A:0.40, C:0.22, G:0.15, T:0.23
Consensus pattern (75 bp):
GAGAAAATGCAATTCAAACTTTGACACTCAGATATCACCACCGAGAATATGCAAATGACTTCGGA
TATCGCCACC
Found at i:13850360 original size:225 final size:225
Alignment explanation
Indices: 13850071--13850664 Score: 769
Period size: 225 Copynumber: 2.6 Consensus size: 225
13850061 TATCATCATT
* * *
13850071 GAGAAAATGTAATTC-AAGTTTAACACTCGGATATCACCACCGAGAATATGCAAATGACTTCGGA
1 GAGAAAATGCAATTCAAACTTTGACACTCGGATATCACCACCGAGAATATGCAAATGACTTCGGA
* * *
13850135 TATCGCCACCGAGAAAATGCAATTCAAACTTTGACACTCAGATATCACCACCAAGAATATGCAAA
66 TATCACCACCGAGAAAATGCAATTCAAACTTTGACACTCAGATATCACCACCGAGAATATACAAA
* *
13850200 TGACTTCGAATATCGCTACCGAAAAAATGCAATTCAAA-CTTGGACACTCAGATATCACCACTGA
131 TGACTTCAAATATCGCCACCGAAAAAATGCAATTCAAACCTT-GACACTCAGATATCACCACTGA
** *
13850264 GAATATGCAAAAGACTTCGAATATTGCCATC
195 GAATATGCAAAAGACTTCGAATATCACCACC
*
13850295 GAGAAAATGCAATTCAAACTTTGACACTCAGATATCACCACCGAGAATATGCAAATGACTTCGGA
1 GAGAAAATGCAATTCAAACTTTGACACTCGGATATCACCACCGAGAATATGCAAATGACTTCGGA
* * * ** *
13850360 TATTATCACCGAGAAAATGCAATTCAAACTTGGACACTTGGATATCACCACTGAGAATATACAAA
66 TATCACCACCGAGAAAATGCAATTCAAACTTTGACACTCAGATATCACCACCGAGAATATACAAA
* * *
13850425 TGACTTCAAATATCGCCACCGAAAAAATGTAATTCAAACCTTGACAGTCGGATATCACCACTGAG
131 TGACTTCAAATATCGCCACCGAAAAAATGCAATTCAAACCTTGACACTCAGATATCACCACTGAG
* * * *
13850490 AATATGTAAATGATTTCGGATATCACCACC
196 AATATGCAAAAGACTTCGAATATCACCACC
* * *
13850520 GAGAAAATGCAATTCAAACTTGGACACTCGGATATCACCACCAAGAAAAGGTAATTCAAACTTTG
1 GAGAAAATGCAATTCAAACTTTGACACTCGGATATCACCACC--GAGAA--T-ATGCAAA---TG
* * ** * *
13850585 ACACTCGGATATCACAATTGAGAAGATGCAATTCAAACCTTGACACTCAGATATCACCACCGAGA
58 AC-TTCGGATATCACCACCGAGAAAATGCAATTCAAACTTTGACACTCAGATATCACCACCGAGA
*
13850650 AGATACAAATGACTT
122 ATATACAAATGACTT
13850665 TTTTAATACT
Statistics
Matches: 317, Mismatches: 42, Indels: 12
0.85 0.11 0.03
Matches are distributed among these distances:
224 14 0.04
225 221 0.70
226 3 0.01
227 4 0.01
229 1 0.00
230 6 0.02
233 4 0.01
234 64 0.20
ACGTcount: A:0.40, C:0.22, G:0.15, T:0.23
Consensus pattern (225 bp):
GAGAAAATGCAATTCAAACTTTGACACTCGGATATCACCACCGAGAATATGCAAATGACTTCGGA
TATCACCACCGAGAAAATGCAATTCAAACTTTGACACTCAGATATCACCACCGAGAATATACAAA
TGACTTCAAATATCGCCACCGAAAAAATGCAATTCAAACCTTGACACTCAGATATCACCACTGAG
AATATGCAAAAGACTTCGAATATCACCACC
Found at i:13850653 original size:42 final size:42
Alignment explanation
Indices: 13850505--13850650 Score: 195
Period size: 42 Copynumber: 3.5 Consensus size: 42
13850495 GTAAATGATT
13850505 TCGGATATCACCACCGAGAAAATGCAATTCAAA-CTTGGACAC
1 TCGGATATCACCACCGAGAAAATGCAATTCAAACCTT-GACAC
* * * *
13850547 TCGGATATCACCACCAAGAAAAGGTAATTCAAACTTTGACAC
1 TCGGATATCACCACCGAGAAAATGCAATTCAAACCTTGACAC
* ** *
13850589 TCGGATATCACAATTGAGAAGATGCAATTCAAACCTTGACAC
1 TCGGATATCACCACCGAGAAAATGCAATTCAAACCTTGACAC
*
13850631 TCAGATATCACCACCGAGAA
1 TCGGATATCACCACCGAGAA
13850651 GATACAAATG
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 85 0.98
43 2 0.02
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.21
Consensus pattern (42 bp):
TCGGATATCACCACCGAGAAAATGCAATTCAAACCTTGACAC
Found at i:13851021 original size:34 final size:35
Alignment explanation
Indices: 13850969--13851057 Score: 128
Period size: 35 Copynumber: 2.6 Consensus size: 35
13850959 TATGAGGCAA
* *
13850969 ATGAAATGTAAATGTCTTTTCTT-AAATGATGCT-C
1 ATGAAATGCAAATGTCTTTTCTTAAAAAGATG-TAC
*
13851003 ATGAGATGCAAATGTCTTTTCTTAAAAAGATGTAC
1 ATGAAATGCAAATGTCTTTTCTTAAAAAGATGTAC
13851038 ATGAAATGCAAATGTCTTTT
1 ATGAAATGCAAATGTCTTTT
13851058 TCAAAAATAC
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
34 22 0.45
35 27 0.55
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (35 bp):
ATGAAATGCAAATGTCTTTTCTTAAAAAGATGTAC
Found at i:13852654 original size:26 final size:26
Alignment explanation
Indices: 13852625--13852676 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
13852615 AATTAAAATT
13852625 TTAT-TTTTCTCACTTTAATTTTTTTG
1 TTATCTTTTCTCACTTT-ATTTTTTTG
* * *
13852651 TTATCTTTTTTTACTTTTTTTTTTTG
1 TTATCTTTTCTCACTTTATTTTTTTG
13852677 CTTTTTTACT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.12, C:0.10, G:0.04, T:0.75
Consensus pattern (26 bp):
TTATCTTTTCTCACTTTATTTTTTTG
Found at i:13852663 original size:22 final size:21
Alignment explanation
Indices: 13852638--13852692 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
13852628 TTTTTCTCAC
*
13852638 TTTAATTTTTTTGTTAT-CTTTT
1 TTTACTTTTTTT-TTATGC-TTT
*
13852660 TTTACTTTTTTTTTTTGCTTT
1 TTTACTTTTTTTTTATGCTTT
13852681 TTTACTTTTTTT
1 TTTACTTTTTTT
13852693 CACTTTCTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 18 0.60
22 12 0.40
ACGTcount: A:0.09, C:0.07, G:0.04, T:0.80
Consensus pattern (21 bp):
TTTACTTTTTTTTTATGCTTT
Found at i:13852698 original size:31 final size:32
Alignment explanation
Indices: 13852646--13852707 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
13852636 ACTTTAATTT
* *
13852646 TTTTGTTATCTTTTTTTACTTTTTTTTTTTGC
1 TTTTGTTATCTTTTTTTACTTTCTCTTTTTGC
13852678 TTTT-TTA-CTTTTTTTCACTTTCTCTTTTTG
1 TTTTGTTATCTTTTTTT-ACTTTCTCTTTTTG
13852708 AGATCGTTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 8 0.30
31 15 0.56
32 4 0.15
ACGTcount: A:0.06, C:0.13, G:0.05, T:0.76
Consensus pattern (32 bp):
TTTTGTTATCTTTTTTTACTTTCTCTTTTTGC
Found at i:13855327 original size:23 final size:24
Alignment explanation
Indices: 13855296--13855360 Score: 69
Period size: 27 Copynumber: 2.6 Consensus size: 24
13855286 ATTTAATATA
*
13855296 TATTTTTTATCTATTAATATTT-T
1 TATTATTTATCTATTAATATTTAT
*
13855319 TATTATTTATCTACTTTTATTATTTAT
1 TATTATTTATCTA---TTAATATTTAT
*
13855346 TATTAGTTATCTATT
1 TATTATTTATCTATT
13855361 TCTTTTATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
23 12 0.34
24 2 0.06
26 8 0.23
27 13 0.37
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (24 bp):
TATTATTTATCTATTAATATTTAT
Found at i:13855372 original size:17 final size:18
Alignment explanation
Indices: 13855296--13855381 Score: 67
Period size: 17 Copynumber: 5.1 Consensus size: 18
13855286 ATTTAATATA
* *
13855296 TATTTTTTATCTA-TTAA
1 TATTATTTATCTATTTAT
13855313 TATT-TTTAT-TATTTAT
1 TATTATTTATCTATTTAT
*
13855329 CTACT-TTTAT-TATTTAT
1 -TATTATTTATCTATTTAT
* *
13855346 TATTAGTTATCTATTTCT
1 TATTATTTATCTATTTAT
*
13855364 T-TTATTTATCTAATTAT
1 TATTATTTATCTATTTAT
13855381 T
1 T
13855382 TTTTTTGTTA
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
15 2 0.04
16 11 0.19
17 37 0.65
18 7 0.12
ACGTcount: A:0.26, C:0.07, G:0.01, T:0.66
Consensus pattern (18 bp):
TATTATTTATCTATTTAT
Done.