Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 45 of 168
Found at i:12620362 original size:36 final size:36
Alignment explanation
Indices: 12620305--12620381 Score: 109
Period size: 36 Copynumber: 2.1 Consensus size: 36
12620295 GTTTATTGGT
* *
12620305 TTAGGGGTTAGGTGTTAGGGATTTAGGGGTTAAGTG
1 TTAGGGGTTAGGGGTTAGGGATTTAGGGGTTAAGAG
* * *
12620341 TTAGGGGTTTGGGGTTCGGGATTTAGGGGTTAGGAG
1 TTAGGGGTTAGGGGTTAGGGATTTAGGGGTTAAGAG
12620377 TTAGG
1 TTAGG
12620382 AATTTAGTGT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.17, C:0.01, G:0.47, T:0.35
Consensus pattern (36 bp):
TTAGGGGTTAGGGGTTAGGGATTTAGGGGTTAAGAG
Found at i:12620386 original size:22 final size:22
Alignment explanation
Indices: 12620341--12620388 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
12620331 GGGTTAAGTG
* * * *
12620341 TTAGGGGTTTGGGGTTCGGGAT
1 TTAGGGGTTAGGAGTTAGGAAT
12620363 TTAGGGGTTAGGAGTTAGGAAT
1 TTAGGGGTTAGGAGTTAGGAAT
12620385 TTAG
1 TTAG
12620389 TGTTTAGGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.19, C:0.02, G:0.44, T:0.35
Consensus pattern (22 bp):
TTAGGGGTTAGGAGTTAGGAAT
Found at i:12621088 original size:16 final size:16
Alignment explanation
Indices: 12621067--12621099 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
12621057 ACTTAGTAAT
*
12621067 TAAAAGATGCAATTAA
1 TAAAAGATACAATTAA
12621083 TAAAAGATACAATTAA
1 TAAAAGATACAATTAA
12621099 T
1 T
12621100 TGTATTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.58, C:0.06, G:0.09, T:0.27
Consensus pattern (16 bp):
TAAAAGATACAATTAA
Found at i:12621393 original size:25 final size:25
Alignment explanation
Indices: 12621371--12621418 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
12621361 TTTATATTGC
*
12621371 ATACATAAATATTTATATTTATTCA
1 ATACAAAAATATTTATATTTATTCA
*
12621396 ATATAAAAATATATT-TATTTATT
1 ATACAAAAATAT-TTATATTTATT
12621419 TATTTTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (25 bp):
ATACAAAAATATTTATATTTATTCA
Found at i:12622634 original size:22 final size:22
Alignment explanation
Indices: 12622588--12622635 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
12622578 CTTTTAGTTG
12622588 ATCTTATGTTTACATGCAACTTT
1 ATCTTATGTTTACATG-AACTTT
*
12622611 ATCTTATGTTTCACTTG-ACTTT
1 ATCTTATGTTT-ACATGAACTTT
12622633 ATC
1 ATC
12622636 AATTGATACT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 8 0.35
23 11 0.48
24 4 0.17
ACGTcount: A:0.23, C:0.19, G:0.08, T:0.50
Consensus pattern (22 bp):
ATCTTATGTTTACATGAACTTT
Found at i:12623474 original size:15 final size:15
Alignment explanation
Indices: 12623454--12623487 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
12623444 TGAACGACAG
12623454 AATTCAAAGTTATTT
1 AATTCAAAGTTATTT
12623469 AATTCAAAGTTATTT
1 AATTCAAAGTTATTT
12623484 AATT
1 AATT
12623488 TATATAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (15 bp):
AATTCAAAGTTATTT
Found at i:12623527 original size:22 final size:21
Alignment explanation
Indices: 12623463--12623531 Score: 65
Period size: 17 Copynumber: 3.3 Consensus size: 21
12623453 GAATTCAAAG
12623463 TTATTTAATTCAAAGTTATTTAAT
1 TTATTTAATTCAAAG-TATTT--T
*
12623487 TTATATAATT-AAA-TA--TT
1 TTATTTAATTCAAAGTATTTT
12623504 TTATTTAATTCAAAGTAATTTT
1 TTATTTAATTCAAAGT-ATTTT
12623526 TTATTT
1 TTATTT
12623532 GTTTTAAAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
17 10 0.26
18 3 0.08
19 2 0.05
20 1 0.03
21 2 0.05
22 8 0.21
23 3 0.08
24 9 0.24
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (21 bp):
TTATTTAATTCAAAGTATTTT
Found at i:12623934 original size:21 final size:20
Alignment explanation
Indices: 12623851--12623952 Score: 79
Period size: 20 Copynumber: 5.3 Consensus size: 20
12623841 CATAAAATTC
*
12623851 AGATAACTTATATAATATTA
1 AGATAACTTATACAATATTA
* * *
12623871 AGATTACTTATATAGTATTA
1 AGATAACTTATACAATATTA
* * *
12623891 CGACAA-TT-T-CTA-ATT-
1 AGATAACTTATACAATATTA
*
12623906 ACATAACTTATACAATTATTA
1 AGATAACTTATACAA-TATTA
*
12623927 AGATAACTTATATAATATTA
1 AGATAACTTATACAATATTA
12623947 AGATAA
1 AGATAA
12623953 AATTTCTAAC
Statistics
Matches: 62, Mismatches: 14, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
15 3 0.05
16 5 0.08
17 1 0.02
18 3 0.05
19 2 0.03
20 35 0.56
21 13 0.21
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.39
Consensus pattern (20 bp):
AGATAACTTATACAATATTA
Found at i:12624043 original size:142 final size:142
Alignment explanation
Indices: 12623787--12624434 Score: 978
Period size: 142 Copynumber: 4.6 Consensus size: 142
12623777 AGGACACTTC
* * ** * *
12623787 ATAACTTTTACAATATTAAGATAAAATTTCTAACTGCGCATCAATTTCTAATTACATAAAATTCA
1 ATAACTTATATAATATTAAGATAAAATTTCTAACCACACATCAATTTCTAATTACATAAAATTAA
*
12623852 GATAACTTATATAATATTAAGATTACTTATATAGTATTACGACAATTTCTAATTACATAACTTAT
66 GATAACTTATATAATATTAAGATTACTTATATAGTATTAAGACAATTTCTAATTACATAACTTAT
*
12623917 ACAATTATTAAG
131 ATAATTATTAAG
12623929 ATAACTTATATAATATTAAGATAAAATTTCTAACCACACATCAATTTCTAATTACATAAAATTAA
1 ATAACTTATATAATATTAAGATAAAATTTCTAACCACACATCAATTTCTAATTACATAAAATTAA
*
12623994 GATAACCTATATAATATTAAGATTACTTATATAGTATTAAGACAATTTCTAATTACATAACTTAT
66 GATAACTTATATAATATTAAGATTACTTATATAGTATTAAGACAATTTCTAATTACATAACTTAT
12624059 ATAA-TATTAAG
131 ATAATTATTAAG
* * * ** * * *
12624070 ATTACTTATATAGTATTAAG--ACAATTTCTAA--TTACAT-AACTTAT-A-TA-AT--TATTAA
1 ATAACTTATATAATATTAAGATAAAATTTCTAACCACACATCAATTTCTAATTACATAAAATTAA
* *
12624125 GATAACTTATATAATATTAAGATAAAATT-TATAGTATTAAGACAATTTCTAATTACATAACTTA
66 GATAACTTATATAATATTAAGAT-TACTTATATAGTATTAAGACAATTTCTAATTACATAACTTA
12624189 TATAATTATTAAG
130 TATAATTATTAAG
* *
12624202 ATAACTTATATAATATTAAGATAAAATTTCTAACCACACATCAATTTCTAATTGCATAAATTTAA
1 ATAACTTATATAATATTAAGATAAAATTTCTAACCACACATCAATTTCTAATTACATAAAATTAA
* *
12624267 GATAACTTATATAATATTAAGATTACTTGTATAGTATTAAGGCAATTTCTAATTACATAACTTAT
66 GATAACTTATATAATATTAAGATTACTTATATAGTATTAAGACAATTTCTAATTACATAACTTAT
12624332 ATAATTATTAAG
131 ATAATTATTAAG
* *
12624344 ATAACTTATATAATATTAAGATAAAATTTCTAACCACACATGAATTTCTAATTACATAAATTTAA
1 ATAACTTATATAATATTAAGATAAAATTTCTAACCACACATCAATTTCTAATTACATAAAATTAA
12624409 GATAACTTATATAATATTAAGATTAC
66 GATAACTTATATAATATTAAGATTAC
12624435 NNNNNNNNNN
Statistics
Matches: 458, Mismatches: 35, Indels: 26
0.88 0.07 0.05
Matches are distributed among these distances:
131 67 0.15
132 28 0.06
133 2 0.00
134 12 0.03
135 1 0.00
136 9 0.02
137 9 0.02
138 1 0.00
139 11 0.02
140 2 0.00
141 28 0.06
142 288 0.63
ACGTcount: A:0.45, C:0.11, G:0.05, T:0.39
Consensus pattern (142 bp):
ATAACTTATATAATATTAAGATAAAATTTCTAACCACACATCAATTTCTAATTACATAAAATTAA
GATAACTTATATAATATTAAGATTACTTATATAGTATTAAGACAATTTCTAATTACATAACTTAT
ATAATTATTAAG
Found at i:12624073 original size:55 final size:55
Alignment explanation
Indices: 12623995--12624146 Score: 268
Period size: 55 Copynumber: 2.7 Consensus size: 55
12623985 TAAAATTAAG
*
12623995 ATAACCTATATAATATTAAGATTACTTATATAGTATTAAGACAATTTCTAATTAC
1 ATAACTTATATAATATTAAGATTACTTATATAGTATTAAGACAATTTCTAATTAC
12624050 ATAACTTATATAATATTAAGATTACTTATATAGTATTAAGACAATTTCTAATTAC
1 ATAACTTATATAATATTAAGATTACTTATATAGTATTAAGACAATTTCTAATTAC
* *
12624105 ATAACTTATATAATTATTAAGATAACTTATATAATATTAAGA
1 ATAACTTATATAA-TATTAAGATTACTTATATAGTATTAAGA
12624147 TAAAATTTAT
Statistics
Matches: 93, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
55 67 0.72
56 26 0.28
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (55 bp):
ATAACTTATATAATATTAAGATTACTTATATAGTATTAAGACAATTTCTAATTAC
Found at i:12624146 original size:76 final size:76
Alignment explanation
Indices: 12624050--12624230 Score: 328
Period size: 76 Copynumber: 2.4 Consensus size: 76
12624040 TTCTAATTAC
* *
12624050 ATAACTTATATAATATTAAGAT-TACTTATATAGTATTAAGACAATTTCTAATTACATAACTTAT
1 ATAACTTATATAATATTAAGATAAAATT-TATAGTATTAAGACAATTTCTAATTACATAACTTAT
12624114 ATAATTATTAAG
65 ATAATTATTAAG
12624126 ATAACTTATATAATATTAAGATAAAATTTATAGTATTAAGACAATTTCTAATTACATAACTTATA
1 ATAACTTATATAATATTAAGATAAAATTTATAGTATTAAGACAATTTCTAATTACATAACTTATA
12624191 TAATTATTAAG
66 TAATTATTAAG
12624202 ATAACTTATATAATATTAAGATAAAATTT
1 ATAACTTATATAATATTAAGATAAAATTT
12624231 CTAACCACAC
Statistics
Matches: 102, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
76 99 0.97
77 3 0.03
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.41
Consensus pattern (76 bp):
ATAACTTATATAATATTAAGATAAAATTTATAGTATTAAGACAATTTCTAATTACATAACTTATA
TAATTATTAAG
Found at i:12624247 original size:76 final size:75
Alignment explanation
Indices: 12624050--12624260 Score: 273
Period size: 76 Copynumber: 2.8 Consensus size: 75
12624040 TTCTAATTAC
* * ** *
12624050 ATAACTTATATAATATTAAGAT-TACTTATATAGTATTAAGACAATTTCTAATTACATAACTTAT
1 ATAACTTATATAATATTAAGATAAAATT-TATAG-ACCAACACAATTTCTAATTACATAACTTAT
12624114 ATAATTATTAAG
64 ATAATTATTAAG
** *
12624126 ATAACTTATATAATATTAAGATAAAATTTATAGTATTAAGACAATTTCTAATTACATAACTTATA
1 ATAACTTATATAATATTAAGATAAAATTTATAG-ACCAACACAATTTCTAATTACATAACTTATA
12624191 TAATTATTAAG
65 TAATTATTAAG
* *
12624202 ATAACTTATATAATATTAAGATAAAATTTCTA-ACCACACATCAATTTCTAATTGCATAA
1 ATAACTTATATAATATTAAGATAAAATTTATAGACCA-ACA-CAATTTCTAATTACATAA
12624261 ATTTAAGATA
Statistics
Matches: 125, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
74 2 0.02
75 2 0.02
76 118 0.94
77 3 0.02
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (75 bp):
ATAACTTATATAATATTAAGATAAAATTTATAGACCAACACAATTTCTAATTACATAACTTATAT
AATTATTAAG
Found at i:12624269 original size:273 final size:274
Alignment explanation
Indices: 12623851--12624364 Score: 906
Period size: 273 Copynumber: 1.9 Consensus size: 274
12623841 CATAAAATTC
* * *
12623851 AGATAACTTATATAATATTAAGATTACTTATATAGTATTACGACAATTTCTAATTACATAACTTA
1 AGATAACTTATATAATATTAAGATAAATTATATAGTATTAAGACAATTTCTAATTACATAACTTA
12623916 TACAATTATTAAGATAACTTATATAATATTAAGATAAAATTTCTAACCACACATCAATTTCTAAT
66 TACAATTATTAAGATAACTTATATAATATTAAGATAAAATTTCTAACCACACATCAATTTCTAAT
12623981 TACATAAAATTAAGATAACCTATATAATATTAAGATTACTTATATAGTATTAAGACAATTTCTAA
131 TACATAAAATTAAGATAACCTATATAATATTAAGATTACTTATATAGTATTAAGACAATTTCTAA
* *
12624046 TTACATAACTTATATAA-TATTAAGATTACTTATATAGTATTAAGACAATTTCTAATTACATAAC
196 TTACATAACTTATATAATTATTAAGATAACTTATATAATATTAAGACAATTTCTAATTACATAAC
12624110 TTATATAATTATTA
261 TTATATAATTATTA
12624124 AGATAACTTATATAATATTAAGATAAAATT-TATAGTATTAAGACAATTTCTAATTACATAACTT
1 AGATAACTTATATAATATTAAGAT-AAATTATATAGTATTAAGACAATTTCTAATTACATAACTT
*
12624188 ATATAATTATTAAGATAACTTATATAATATTAAGATAAAATTTCTAACCACACATCAATTTCTAA
65 ATACAATTATTAAGATAACTTATATAATATTAAGATAAAATTTCTAACCACACATCAATTTCTAA
* * * * *
12624253 TTGCATAAATTTAAGATAACTTATATAATATTAAGATTACTTGTATAGTATTAAGGCAATTTCTA
130 TTACATAAAATTAAGATAACCTATATAATATTAAGATTACTTATATAGTATTAAGACAATTTCTA
12624318 ATTACATAACTTATATAATTATTAAGATAACTTATATAATATTAAGA
195 ATTACATAACTTATATAATTATTAAGATAACTTATATAATATTAAGA
12624365 TAAAATTTCT
Statistics
Matches: 228, Mismatches: 11, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
273 199 0.87
274 29 0.13
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.39
Consensus pattern (274 bp):
AGATAACTTATATAATATTAAGATAAATTATATAGTATTAAGACAATTTCTAATTACATAACTTA
TACAATTATTAAGATAACTTATATAATATTAAGATAAAATTTCTAACCACACATCAATTTCTAAT
TACATAAAATTAAGATAACCTATATAATATTAAGATTACTTATATAGTATTAAGACAATTTCTAA
TTACATAACTTATATAATTATTAAGATAACTTATATAATATTAAGACAATTTCTAATTACATAAC
TTATATAATTATTA
Found at i:12626634 original size:21 final size:21
Alignment explanation
Indices: 12626608--12626653 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
12626598 NNNNNNTTAC
12626608 ATAACTTATATAAT-TATTAAG
1 ATAACTT-TATAATATATTAAG
*
12626629 ATAACTTTATATTATATTAAG
1 ATAACTTTATAATATATTAAG
12626650 ATAA
1 ATAA
12626654 AATTTCTACC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.43
Consensus pattern (21 bp):
ATAACTTTATAATATATTAAG
Found at i:12626742 original size:66 final size:66
Alignment explanation
Indices: 12626672--12627765 Score: 630
Period size: 66 Copynumber: 16.3 Consensus size: 66
12626662 CCACACATCA
* *
12626672 AATTTCTAATTGCATAAATTTAAGATAACTTATATAATATTAAGATTACTTGTATAGTATTAAGA
1 AATTTCTAATTACATAAATTTAAGATAACTTATATAATATTAAGATTACTTATATAGTATTAAGA
12626737 C
66 C
* * *
12626738 AATTTCTAATTACATAACTTATATAATTATTAAGATAACTTATATAATATTAAGATAAAATT-TC
1 AATTTCTAA-T---T-AC--ATA-AA-T-TTAAGATAACTTATATAATATTAAGAT-TACTTATA
** * *
12626802 TA--ACCACACATG
55 TAGTATTA-AGA-C
12626814 AATTTCTAATTACATAAATTTAAGATAACTTATATAATATTAAGATTACTTATATAGTATTAAGA
1 AATTTCTAATTACATAAATTTAAGATAACTTATATAATATTAAGATTACTTATATAGTATTAAGA
12626879 C
66 C
* * *
12626880 AATTTCTAATTACATAACTTATATAATTATTAAGATAACTTATATAATATTAAGATAAAATT-TC
1 AATTTCTAA-T---T-AC--ATA-AA-T-TTAAGATAACTTATATAATATTAAGAT-TACTTATA
** *
12626944 TA--ACCACACATC
55 TAGTATTA-AGA-C
* *
12626956 AATTTCTAATTACATAAAATTATGATAACTTATATAATATTAAGATTACTTATATAGTATTAAGA
1 AATTTCTAATTACATAAATTTAAGATAACTTATATAATATTAAGATTACTTATATAGTATTAAGA
12627021 C
66 C
* *
12627022 AATTTCTAATTAC-----------ATAACTTATATAATATTAAGATTACTTATTTAGTATAAAGA
1 AATTTCTAATTACATAAATTTAAGATAACTTATATAATATTAAGATTACTTATATAGTATTAAGA
12627076 C
66 C
* *
12627077 AA-GTCTAATTAC-----------ATAACTTATATAATATTAAGATTACTTATATAGTATAAAGA
1 AATTTCTAATTACATAAATTTAAGATAACTTATATAATATTAAGATTACTTATATAGTATTAAGA
12627130 C
66 C
* * * * *
12627131 AAGTCTAATTACATAACTTATATAATTATTAAGATAACTTATATAATATTAAGATAAAATT-TCT
1 AA---T--TT-C-TAA-TTACATAAAT-TTAAGATAACTTATATAATATTAAGAT-TACTTATAT
* *
12627195 A--ATCACACATC
56 AGTATTA-AGA-C
* *
12627206 AATTTCTAATTACATAAAATTAAGATAACTTATATAATATTAGGATTACTTATATAGTATTAAGA
1 AATTTCTAATTACATAAATTTAAGATAACTTATATAATATTAAGATTACTTATATAGTATTAAGA
12627271 C
66 C
* * * *
12627272 AATTTCTAGTTACATAACTTATATAATTATTAAGATAACTTATATAATATTAAGATAAAATT-TC
1 AATTTC----TA-ATTAC--ATA-AA-T-TTAAGATAACTTATATAATATTAAGAT-TACTTATA
** * *
12627336 TA--ACCACACATA
55 TAGTATTA-AGA-C
12627348 AATTTCTAATTACATAAATTTAAGATAACTTATATAATATTAAGATTACTTATATAGTATTAAGA
1 AATTTCTAATTACATAAATTTAAGATAACTTATATAATATTAAGATTACTTATATAGTATTAAGA
12627413 C
66 C
* * *
12627414 AATTTCTAATGACATAACTTATATAATTATTAAGATAACTTATATAATATTAAGATAAAATT-TC
1 AATTTCTAAT----T-AC--ATA-AA-T-TTAAGATAACTTATATAATATTAAGAT-TACTTATA
** *
12627478 TA--ACCACACATC
55 TAGTATTA-AGA-C
* *
12627490 AATTTCTAATTACATAAAATTATGATAACTTATATAATATTAAGATTACTTATATAGTA-T----
1 AATTTCTAATTACATAAATTTAAGATAACTTATATAATATTAAGATTACTTATATAGTATTAAGA
12627550 C
66 C
* * * * * **
12627551 AATTTCTAATTACATAAAATTAAGATAACTTATAAAATATTAAGATAAAATT-TCTA--ACCACA
1 AATTTCTAATTACATAAATTTAAGATAACTTATATAATATTAAGAT-TACTTATATAGTATTA-A
*
12627613 CATC
64 GA-C
* * * * * ** *
12627617 AATTTGTAATTACATAAAATTAAGATAACTTATATAATATTAAGATAAAATT-TCTA--ACCACG
1 AATTTCTAATTACATAAATTTAAGATAACTTATATAATATTAAGAT-TACTTATATAGTATTAAG
12627679 CATC
65 -A-C
* * *
12627683 AATTTCTAATTACATAAAATTAAGATAACTTATATAATATTAAGAATACTTATTTAGTATTAAGA
1 AATTTCTAATTACATAAATTTAAGATAACTTATATAATATTAAGATTACTTATATAGTATTAAGA
12627748 C
66 C
12627749 AATTTCTAATTACATAA
1 AATTTCTAATTACATAA
12627766 CTTATATAAT
Statistics
Matches: 828, Mismatches: 97, Indels: 206
0.73 0.09 0.18
Matches are distributed among these distances:
54 52 0.06
55 42 0.05
59 1 0.00
60 1 0.00
61 49 0.06
62 6 0.01
63 3 0.00
65 18 0.02
66 323 0.39
67 20 0.02
68 24 0.03
69 13 0.02
70 7 0.01
71 19 0.02
72 6 0.01
73 15 0.02
74 18 0.02
75 41 0.05
76 158 0.19
77 12 0.01
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.39
Consensus pattern (66 bp):
AATTTCTAATTACATAAATTTAAGATAACTTATATAATATTAAGATTACTTATATAGTATTAAGA
C
Found at i:12626861 original size:142 final size:142
Alignment explanation
Indices: 12626604--12627063 Score: 816
Period size: 142 Copynumber: 3.2 Consensus size: 142
12626594 NNNNNNNNNN
*
12626604 TTACATAACTTATATAATTATTAAGATAACTTTATATTATATTAAGATAAAATTTCT-ACCACAC
1 TTACATAACTTATATAATTATTAAGATAAC-TTATATAATATTAAGATAAAATTTCTAACCACAC
* *
12626668 ATCAAATTTCTAATTGCATAAATTTAAGATAACTTATATAATATTAAGATTACTTGTATAGTATT
65 AT-AAATTTCTAATTACATAAATTTAAGATAACTTATATAATATTAAGATTACTTATATAGTATT
12626733 AAGACAATTTCTAA
129 AAGACAATTTCTAA
12626747 TTACATAACTTATATAATTATTAAGATAACTTATATAATATTAAGATAAAATTTCTAACCACACA
1 TTACATAACTTATATAATTATTAAGATAACTTATATAATATTAAGATAAAATTTCTAACCACACA
*
12626812 TGAATTTCTAATTACATAAATTTAAGATAACTTATATAATATTAAGATTACTTATATAGTATTAA
66 TAAATTTCTAATTACATAAATTTAAGATAACTTATATAATATTAAGATTACTTATATAGTATTAA
12626877 GACAATTTCTAA
131 GACAATTTCTAA
12626889 TTACATAACTTATATAATTATTAAGATAACTTATATAATATTAAGATAAAATTTCTAACCACACA
1 TTACATAACTTATATAATTATTAAGATAACTTATATAATATTAAGATAAAATTTCTAACCACACA
* * *
12626954 TCAATTTCTAATTACATAAAATTATGATAACTTATATAATATTAAGATTACTTATATAGTATTAA
66 TAAATTTCTAATTACATAAATTTAAGATAACTTATATAATATTAAGATTACTTATATAGTATTAA
12627019 GACAATTTCTAA
131 GACAATTTCTAA
*
12627031 TTACATAACTTATATAA-TATTAAGATTACTTAT
1 TTACATAACTTATATAATTATTAAGATAACTTAT
12627064 TTAGTATAAA
Statistics
Matches: 308, Mismatches: 8, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
141 15 0.05
142 254 0.82
143 39 0.13
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (142 bp):
TTACATAACTTATATAATTATTAAGATAACTTATATAATATTAAGATAAAATTTCTAACCACACA
TAAATTTCTAATTACATAAATTTAAGATAACTTATATAATATTAAGATTACTTATATAGTATTAA
GACAATTTCTAA
Found at i:12627088 original size:29 final size:29
Alignment explanation
Indices: 12627055--12627142 Score: 71
Period size: 29 Copynumber: 3.2 Consensus size: 29
12627045 TAATATTAAG
12627055 ATTACTTATTTAGTATAAAGACAAGTCTA
1 ATTACTTATTTAGTATAAAGACAAGTCTA
* * **
12627084 ATTACATAACTTA-TATAATA-TTAAG----
1 ATTAC-TTATTTAGTATAA-AGACAAGTCTA
*
12627109 ATTACTTATATAGTATAAAGACAAGTCTA
1 ATTACTTATTTAGTATAAAGACAAGTCTA
12627138 ATTAC
1 ATTAC
12627143 ATAACTTATA
Statistics
Matches: 42, Mismatches: 9, Indels: 16
0.63 0.13 0.24
Matches are distributed among these distances:
24 5 0.12
25 13 0.31
29 18 0.43
30 6 0.14
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (29 bp):
ATTACTTATTTAGTATAAAGACAAGTCTA
Found at i:12627108 original size:54 final size:54
Alignment explanation
Indices: 12626980--12627184 Score: 338
Period size: 54 Copynumber: 3.8 Consensus size: 54
12626970 TAAAATTATG
* *
12626980 ATAACTTATATAATATTAAGATTACTTATATAGTATTAAGACAATTTCTAATTAC
1 ATAACTTATATAATATTAAGATTACTTATATAGTATAAAGACAA-GTCTAATTAC
*
12627035 ATAACTTATATAATATTAAGATTACTTATTTAGTATAAAGACAAGTCTAATTAC
1 ATAACTTATATAATATTAAGATTACTTATATAGTATAAAGACAAGTCTAATTAC
12627089 ATAACTTATATAATATTAAGATTACTTATATAGTATAAAGACAAGTCTAATTAC
1 ATAACTTATATAATATTAAGATTACTTATATAGTATAAAGACAAGTCTAATTAC
* * *
12627143 ATAACTTATATAATTATTAAGATAACTTATATAATATTAAGA
1 ATAACTTATATAA-TATTAAGATTACTTATATAGTATAAAGA
12627185 TAAAATTTCT
Statistics
Matches: 142, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
54 75 0.53
55 67 0.47
ACGTcount: A:0.46, C:0.08, G:0.06, T:0.40
Consensus pattern (54 bp):
ATAACTTATATAATATTAAGATTACTTATATAGTATAAAGACAAGTCTAATTAC
Found at i:12627112 original size:25 final size:25
Alignment explanation
Indices: 12627030--12627113 Score: 64
Period size: 25 Copynumber: 3.2 Consensus size: 25
12627020 ACAATTTCTA
12627030 ATTACATAACTTATATAATATTAAG
1 ATTACATAACTTATATAATATTAAG
* * **
12627055 ATTAC-TTATTTAGTATAA-AGACAAG
1 ATTACATAACTTA-TATAATA-TTAAG
12627080 TCTAATTACATAACTTATATAATATTAAG
1 ----ATTACATAACTTATATAATATTAAG
12627109 ATTAC
1 ATTAC
12627114 TTATATAGTA
Statistics
Matches: 43, Mismatches: 8, Indels: 16
0.64 0.12 0.24
Matches are distributed among these distances:
24 6 0.14
25 18 0.42
29 13 0.30
30 6 0.14
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.39
Consensus pattern (25 bp):
ATTACATAACTTATATAATATTAAG
Found at i:12627154 original size:29 final size:29
Alignment explanation
Indices: 12627068--12627155 Score: 73
Period size: 29 Copynumber: 3.2 Consensus size: 29
12627058 ACTTATTTAG
12627068 TATAAAGACAAGTCTAATTACATAACTTA
1 TATAAAGACAAGTCTAATTACATAACTTA
** *
12627097 TATAATA-TTAAG----ATTAC-TTA-TATA
1 TATAA-AGACAAGTCTAATTACATAACT-TA
12627121 GTATAAAGACAAGTCTAATTACATAACTTA
1 -TATAAAGACAAGTCTAATTACATAACTTA
12627151 TATAA
1 TATAA
12627156 TTATTAAGAT
Statistics
Matches: 43, Mismatches: 6, Indels: 20
0.62 0.09 0.29
Matches are distributed among these distances:
23 1 0.02
24 5 0.12
25 13 0.30
29 18 0.42
30 5 0.12
31 1 0.02
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.35
Consensus pattern (29 bp):
TATAAAGACAAGTCTAATTACATAACTTA
Found at i:12627335 original size:392 final size:397
Alignment explanation
Indices: 12626696--12627662 Score: 1428
Period size: 392 Copynumber: 2.4 Consensus size: 397
12626686 TAAATTTAAG
* * *
12626696 ATAACTTATATAATATTAAGATTACTTGTATAGTATTAAGACAATTTCTAATTACATAACTTATA
1 ATAACTTATATAATATTAAGATTACTTATATAGTATAAAGACAA-GTCTAATTACATAACTTATA
*
12626761 TAATTATTAAGATAACTTATATAATATTAAGATAAAATTTCTAACCACACATGAATTTCTAATTA
65 TAATTATTAAGATAACTTATATAATATTAAGATAAAATTTCTAACCACACATCAATTTCTAATTA
*
12626826 CATAAATTTAAGATAACTTATATAATATTAAGATTACTTATATAGTATTAAGACAATTTCTAATT
130 CATAAAATTAAGATAACTTATATAATATTAAGATTACTTATATAGTATTAAGACAATTTCTAATT
*
12626891 ACATAACTTATATAATTATTAAGATAACTTATATAATATTAAGATAAAATTTCTAACCACACATC
195 ACATAACTTATATAATTATTAAGATAACTTATATAATATTAAGATAAAATTTCTAACCACACATA
*
12626956 AATTTCTAATTACATAAAATTATGATAACTTATATAATATTAAGATTACTTATATAGTATTAAGA
260 AATTTCTAATTACATAAAATTAAGATAACTTATATAATATTAAGATTACTTATATAGTATTAAGA
* * * * *
12627021 CAATTTCTAATTACATAACTTATATAA-TATTAAGATTACTTATTTAGTA-TAA-AGACAA-GTC
325 CAATTTCTAATGACATAACTTATATAATTATTAAGATAACTTATATAATATTAAGAGAAAATGTC
**
12627082 TAA-TTAC
390 TAACACAC
12627089 ATAACTTATATAATATTAAGATTACTTATATAGTATAAAGACAAGTCTAATTACATAACTTATAT
1 ATAACTTATATAATATTAAGATTACTTATATAGTATAAAGACAAGTCTAATTACATAACTTATAT
*
12627154 AATTATTAAGATAACTTATATAATATTAAGATAAAATTTCTAATCACACATCAATTTCTAATTAC
66 AATTATTAAGATAACTTATATAATATTAAGATAAAATTTCTAACCACACATCAATTTCTAATTAC
* *
12627219 ATAAAATTAAGATAACTTATATAATATTAGGATTACTTATATAGTATTAAGACAATTTCTAGTTA
131 ATAAAATTAAGATAACTTATATAATATTAAGATTACTTATATAGTATTAAGACAATTTCTAATTA
12627284 CATAACTTATATAATTATTAAGATAACTTATATAATATTAAGATAAAATTTCTAACCACACATAA
196 CATAACTTATATAATTATTAAGATAACTTATATAATATTAAGATAAAATTTCTAACCACACATAA
*
12627349 ATTTCTAATTACATAAATTTAAGATAACTTATATAATATTAAGATTACTTATATAGTATTAAGAC
261 ATTTCTAATTACATAAAATTAAGATAACTTATATAATATTAAGATTACTTATATAGTATTAAGAC
* *
12627414 AATTTCTAATGACATAACTTATATAATTATTAAGATAACTTATATAATATTAAGATAAAATTTCT
326 AATTTCTAATGACATAACTTATATAATTATTAAGATAACTTATATAATATTAAGAGAAAATGTCT
12627479 AACCACAC
391 AA-CACAC
* * * * * * *
12627487 ATCAATTTCTAATTACATAAAATTATGATAACTTATATAATATTAAGATTACTTATATAGTATCA
1 AT-AA---C---TTATATAATATTAAGATTACTTATATAGTA-TAA-A-GAC----A-AGTCT-A
* * * *
12627552 ATTTC-TAA-TTACATAA-AATTAAGATAACTTATAAAATATTAAGATAAAATTTCTAACCACAC
50 ATTACATAACTTATATAATTATTAAGATAACTTATATAATATTAAGATAAAATTTCTAACCACAC
*
12627614 ATCAATTTGTAATTACATAAAATTAAGATAACTTATATAATATTAAGAT
115 ATCAATTTCTAATTACATAAAATTAAGATAACTTATATAATATTAAGAT
12627663 AAAATTTCTA
Statistics
Matches: 518, Mismatches: 34, Indels: 26
0.90 0.06 0.04
Matches are distributed among these distances:
392 297 0.57
393 61 0.12
394 3 0.01
395 4 0.01
396 5 0.01
398 4 0.01
399 2 0.00
402 1 0.00
405 25 0.05
406 3 0.01
407 1 0.00
408 2 0.00
411 90 0.17
412 8 0.02
413 7 0.01
414 5 0.01
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.39
Consensus pattern (397 bp):
ATAACTTATATAATATTAAGATTACTTATATAGTATAAAGACAAGTCTAATTACATAACTTATAT
AATTATTAAGATAACTTATATAATATTAAGATAAAATTTCTAACCACACATCAATTTCTAATTAC
ATAAAATTAAGATAACTTATATAATATTAAGATTACTTATATAGTATTAAGACAATTTCTAATTA
CATAACTTATATAATTATTAAGATAACTTATATAATATTAAGATAAAATTTCTAACCACACATAA
ATTTCTAATTACATAAAATTAAGATAACTTATATAATATTAAGATTACTTATATAGTATTAAGAC
AATTTCTAATGACATAACTTATATAATTATTAAGATAACTTATATAATATTAAGAGAAAATGTCT
AACACAC
Found at i:12627344 original size:142 final size:142
Alignment explanation
Indices: 12627089--12627662 Score: 937
Period size: 142 Copynumber: 4.2 Consensus size: 142
12627079 GTCTAATTAC
* *
12627089 ATAACTTATATAATATTAAGATTACTTATATAGTATAAAGACAA-GTCTAATTACATAACTTATA
1 ATAACTTATATAATATTAAGATTACTTATATAGTATTAAGACAATTTCTAATTACATAACTTATA
*
12627153 TAATTATTAAGATAACTTATATAATATTAAGATAAAATTTCTAATCACACATCAATTTCTAATTA
66 TAATTATTAAGATAACTTATATAATATTAAGATAAAATTTCTAACCACACATCAATTTCTAATTA
12627218 CATAAAATTAAG
131 CATAAAATTAAG
* *
12627230 ATAACTTATATAATATTAGGATTACTTATATAGTATTAAGACAATTTCTAGTTACATAACTTATA
1 ATAACTTATATAATATTAAGATTACTTATATAGTATTAAGACAATTTCTAATTACATAACTTATA
*
12627295 TAATTATTAAGATAACTTATATAATATTAAGATAAAATTTCTAACCACACATAAATTTCTAATTA
66 TAATTATTAAGATAACTTATATAATATTAAGATAAAATTTCTAACCACACATCAATTTCTAATTA
*
12627360 CATAAATTTAAG
131 CATAAAATTAAG
*
12627372 ATAACTTATATAATATTAAGATTACTTATATAGTATTAAGACAATTTCTAATGACATAACTTATA
1 ATAACTTATATAATATTAAGATTACTTATATAGTATTAAGACAATTTCTAATTACATAACTTATA
12627437 TAATTATTAAGATAACTTATATAATATTAAGATAAAATTTCTAACCACACATCAATTTCTAATTA
66 TAATTATTAAGATAACTTATATAATATTAAGATAAAATTTCTAACCACACATCAATTTCTAATTA
*
12627502 CATAAAATTATG
131 CATAAAATTAAG
12627514 ATAACTTATATAATATTAAGATTACTTATATAGTA-T----CAATTTCTAA-T---T-AC--ATA
1 ATAACTTATATAATATTAAGATTACTTATATAGTATTAAGACAATTTCTAATTACATAACTTATA
* *
12627567 -AA--ATTAAGATAACTTATAAAATATTAAGATAAAATTTCTAACCACACATCAATTTGTAATTA
66 TAATTATTAAGATAACTTATATAATATTAAGATAAAATTTCTAACCACACATCAATTTCTAATTA
12627629 CATAAAATTAAG
131 CATAAAATTAAG
12627641 ATAACTTATATAATATTAAGAT
1 ATAACTTATATAATATTAAGAT
12627663 AAAATTTCTA
Statistics
Matches: 415, Mismatches: 17, Indels: 16
0.93 0.04 0.04
Matches are distributed among these distances:
127 91 0.22
129 2 0.00
130 3 0.01
132 2 0.00
133 1 0.00
137 10 0.02
141 43 0.10
142 263 0.63
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.38
Consensus pattern (142 bp):
ATAACTTATATAATATTAAGATTACTTATATAGTATTAAGACAATTTCTAATTACATAACTTATA
TAATTATTAAGATAACTTATATAATATTAAGATAAAATTTCTAACCACACATCAATTTCTAATTA
CATAAAATTAAG
Found at i:12627451 original size:21 final size:20
Alignment explanation
Indices: 12627427--12627471 Score: 81
Period size: 21 Copynumber: 2.2 Consensus size: 20
12627417 TTCTAATGAC
12627427 ATAACTTATATAATTATTAAG
1 ATAACTTATATAA-TATTAAG
12627448 ATAACTTATATAATATTAAG
1 ATAACTTATATAATATTAAG
12627468 ATAA
1 ATAA
12627472 AATTTCTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.40
Consensus pattern (20 bp):
ATAACTTATATAATATTAAG
Found at i:12627531 original size:20 final size:20
Alignment explanation
Indices: 12627503--12627598 Score: 70
Period size: 20 Copynumber: 4.8 Consensus size: 20
12627493 TTCTAATTAC
*
12627503 ATAAAATTATGATAACTTAT
1 ATAAAATTAAGATAACTTAT
* *
12627523 ATAATATTAAGATTACTTAT
1 ATAAAATTAAGATAACTTAT
** * ** *
12627543 ATAGTATCAATTTCTAA-TTAC
1 ATAAAATTAA--GATAACTTAT
12627564 ATAAAATTAAGATAACTTAT
1 ATAAAATTAAGATAACTTAT
12627584 A-AAATATTAAGATAA
1 ATAAA-ATTAAGATAA
12627599 AATTTCTAAC
Statistics
Matches: 57, Mismatches: 15, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
19 6 0.11
20 39 0.68
21 10 0.18
22 2 0.04
ACGTcount: A:0.50, C:0.06, G:0.05, T:0.39
Consensus pattern (20 bp):
ATAAAATTAAGATAACTTAT
Found at i:12627590 original size:127 final size:131
Alignment explanation
Indices: 12627442--12627727 Score: 463
Period size: 127 Copynumber: 2.2 Consensus size: 131
12627432 TTATATAATT
12627442 ATTAAGATAACTTATATAATATTAAGATAAAATTTCTAACCACACATCAATTTCTAATTACATAA
1 ATTAAGATAACTTATATAATATTAAGATAAAATTTCTAACCACACATCAATTTCTAATTACATAA
* * * *
12627507 AATTATGATAACTTATATAATATTAAGAT-TACTTAT-A-TA-GTATCAATTTCTAATTACATAA
66 AATTAAGATAACTTATATAATATTAAGATAAACTTATAACCACGCATCAATTTCTAATTACATAA
12627568 A
131 A
* *
12627569 ATTAAGATAACTTATAAAATATTAAGATAAAATTTCTAACCACACATCAATTTGTAATTACATAA
1 ATTAAGATAACTTATATAATATTAAGATAAAATTTCTAACCACACATCAATTTCTAATTACATAA
* *
12627634 AATTAAGATAACTTATATAATATTAAGATAAAATTTCTAACCACGCATCAATTTCTAATTACATA
66 AATTAAGATAACTTATATAATATTAAGAT-AAACTTATAACCACGCATCAATTTCTAATTACATA
12627699 AA
130 AA
12627701 ATTAAGATAACTTATATAATATTAAGA
1 ATTAAGATAACTTATATAATATTAAGA
12627728 ATACTTATTT
Statistics
Matches: 145, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
127 91 0.63
129 4 0.03
130 1 0.01
131 1 0.01
132 48 0.33
ACGTcount: A:0.48, C:0.11, G:0.05, T:0.36
Consensus pattern (131 bp):
ATTAAGATAACTTATATAATATTAAGATAAAATTTCTAACCACACATCAATTTCTAATTACATAA
AATTAAGATAACTTATATAATATTAAGATAAACTTATAACCACGCATCAATTTCTAATTACATAA
A
Found at i:12627724 original size:20 final size:20
Alignment explanation
Indices: 12627696--12627804 Score: 81
Period size: 20 Copynumber: 5.8 Consensus size: 20
12627686 TTCTAATTAC
*
12627696 ATAAAATTAAGATAACTTAT
1 ATAATATTAAGATAACTTAT
12627716 ATAATATTAAGA-ATACTTAT
1 ATAATATTAAGATA-ACTTAT
* * *
12627736 TTAGTATTAAGACAA-TT-T
1 ATAATATTAAGATAACTTAT
* *
12627754 CT-A-ATT-ACATAACTTAT
1 ATAATATTAAGATAACTTAT
12627771 ATAATTATTAAGATAAC-T-T
1 ATAA-TATTAAGATAACTTAT
*
12627790 ATAATATTAATATAA
1 ATAATATTAAGATAA
12627805 AATTTCTAAC
Statistics
Matches: 71, Mismatches: 10, Indels: 18
0.72 0.10 0.18
Matches are distributed among these distances:
15 4 0.06
16 5 0.07
17 2 0.03
18 13 0.18
19 8 0.11
20 32 0.45
21 7 0.10
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.40
Consensus pattern (20 bp):
ATAATATTAAGATAACTTAT
Found at i:12627809 original size:56 final size:54
Alignment explanation
Indices: 12627707--12627813 Score: 128
Period size: 56 Copynumber: 1.9 Consensus size: 54
12627697 TAAAATTAAG
* *
12627707 ATAACTTATATAATATTAAGAATACTTATTTAGTATTAAGACAATTTCTAATTAC
1 ATAACTTATATAATATTAAGAATACTTA-TTAATATTAAGAAAATTTCTAATTAC
*
12627762 ATAACTTATATAATTATTAAG-ATAACTTA-TAATATTAATATAAAATTTCTAA
1 ATAACTTATATAA-TATTAAGAAT-ACTTATTAATATT-A-AGAAAATTTCTAA
12627814 CATAACTAAC
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
54 6 0.13
55 16 0.36
56 23 0.51
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (54 bp):
ATAACTTATATAATATTAAGAATACTTATTAATATTAAGAAAATTTCTAATTAC
Found at i:12627947 original size:9 final size:9
Alignment explanation
Indices: 12627922--12628084 Score: 98
Period size: 9 Copynumber: 19.4 Consensus size: 9
12627912 TAACTTATAT
*
12627922 ATAACTCAC
1 ATAACTTAC
12627931 ATAACTTAC
1 ATAACTTAC
*
12627940 ATAGCTTAC
1 ATAACTTAC
*
12627949 AT-TC-TAC
1 ATAACTTAC
*
12627956 ACAACTTAC
1 ATAACTTAC
* * *
12627965 ATGACATGC
1 ATAACTTAC
12627974 ATAA--TAC
1 ATAACTTAC
*
12627981 ATAACTGAC
1 ATAACTTAC
*
12627990 ATAACTAAC
1 ATAACTTAC
12627999 ATAA--TAC
1 ATAACTTAC
*
12628006 ATAGCTTAC
1 ATAACTTAC
12628015 ATAA--TAC
1 ATAACTTAC
*
12628022 ACAACTTAC
1 ATAACTTAC
12628031 ATAACTTAC
1 ATAACTTAC
*
12628040 ATAA--TAA
1 ATAACTTAC
*
12628047 ATAACTAAC
1 ATAACTTAC
**
12628056 ATAAAATAC
1 ATAACTTAC
12628065 --AACTTAC
1 ATAACTTAC
*
12628072 ATAACTTAT
1 ATAACTTAC
12628081 ATAA
1 ATAA
12628085 TACATAAATT
Statistics
Matches: 115, Mismatches: 27, Indels: 24
0.69 0.16 0.14
Matches are distributed among these distances:
7 32 0.28
8 2 0.02
9 81 0.70
ACGTcount: A:0.48, C:0.21, G:0.03, T:0.28
Consensus pattern (9 bp):
ATAACTTAC
Found at i:12628001 original size:25 final size:24
Alignment explanation
Indices: 12627929--12628059 Score: 88
Period size: 25 Copynumber: 5.2 Consensus size: 24
12627919 TATATAACTC
* * **
12627929 ACATAACTTACATAGCTTACATTCT
1 ACATAACTTACATA-ATAACATAAT
* *
12627954 ACACAACTTACATGACAT-GCATAAT
1 ACATAACTTACAT-A-ATAACATAAT
*
12627979 ACATAACTGACATAACTAACATAAT
1 ACATAACTTACATAA-TAACATAAT
* *
12628004 ACATAGCTTACATAATACACA-ACTT
1 ACATAACTTACATAATA-ACATA-AT
12628029 ACATAACTTACATAATAA-ATAACT
1 ACATAACTTACATAATAACATAA-T
12628053 AACATAA
1 -ACATAA
12628060 AATACAACTT
Statistics
Matches: 84, Mismatches: 14, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
23 2 0.02
24 8 0.10
25 72 0.86
26 2 0.02
ACGTcount: A:0.47, C:0.21, G:0.04, T:0.27
Consensus pattern (24 bp):
ACATAACTTACATAATAACATAAT
Found at i:12628051 original size:116 final size:116
Alignment explanation
Indices: 12627815--12628058 Score: 302
Period size: 116 Copynumber: 2.1 Consensus size: 116
12627805 AATTTCTAAC
*
12627815 ATAACTAACGTAGCTTACATTCTACACAACTTACAAAACATACATAATACATAACTAGCATAACT
1 ATAACTAACATAGCTTACATTCTACACAACTTACAAAACATACATAATACATAACTAGCATAACT
** * * *
12627880 AACATAATACATAGCTTATATAATTATTAAGATAACTTATATATAACTCAC
66 AACATAATACATAGCTTATATAACAATTAACATAACTTATACATAACTCAA
* ** *
12627931 ATAACTTACATAGCTTACATTCTACACAACTTACATGACATGCATAATACATAACT-GACATAAC
1 ATAACTAACATAGCTTACATTCTACACAACTTACAAAACATACATAATACATAACTAG-CATAAC
12627995 TAACATAATACATAGCTTACATAATACACAACTT-ACATAAC-T-TACATAA-T-AA
65 TAACATAATACATAGCTT--AT-ATA-ACAA-TTAACATAACTTATACATAACTCAA
12628047 ATAACTAACATA
1 ATAACTAACATA
12628059 AAATACAACT
Statistics
Matches: 111, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
115 1 0.01
116 87 0.78
117 1 0.01
118 8 0.07
119 4 0.04
120 8 0.07
121 2 0.02
ACGTcount: A:0.47, C:0.20, G:0.04, T:0.29
Consensus pattern (116 bp):
ATAACTAACATAGCTTACATTCTACACAACTTACAAAACATACATAATACATAACTAGCATAACT
AACATAATACATAGCTTATATAACAATTAACATAACTTATACATAACTCAA
Found at i:12628058 original size:41 final size:41
Alignment explanation
Indices: 12627973--12628091 Score: 157
Period size: 41 Copynumber: 2.9 Consensus size: 41
12627963 ACATGACATG
* * * * *
12627973 CATAATACATAACTGACATAACTAACATAATACATAGCTTA
1 CATAATACACAACTTACATAACTTACATAATACATAACTAA
*
12628014 CATAATACACAACTTACATAACTTACATAATAAATAACTAA
1 CATAATACACAACTTACATAACTTACATAATACATAACTAA
* * *
12628055 CATAAAATACAACTTACATAACTTATATAATACATAA
1 CATAATACACAACTTACATAACTTACATAATACATAA
12628092 ATTTCCAAGC
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 68 1.00
ACGTcount: A:0.52, C:0.18, G:0.02, T:0.28
Consensus pattern (41 bp):
CATAATACACAACTTACATAACTTACATAATACATAACTAA
Found at i:12628065 original size:25 final size:25
Alignment explanation
Indices: 12628012--12628065 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
12628002 ATACATAGCT
* * **
12628012 TACATAATACACAACTTACATAACT
1 TACATAATAAACAACTAACATAAAA
*
12628037 TACATAATAAATAACTAACATAAAA
1 TACATAATAAACAACTAACATAAAA
12628062 TACA
1 TACA
12628066 ACTTACATAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.26
Consensus pattern (25 bp):
TACATAATAAACAACTAACATAAAA
Found at i:12628073 original size:66 final size:66
Alignment explanation
Indices: 12627933--12628088 Score: 181
Period size: 66 Copynumber: 2.4 Consensus size: 66
12627923 TAACTCACAT
** * * * * *
12627933 AACTTACATAGCTTACATTCTACACAACTTACATGACATGCATAATACATAACTGACATAACTAA
1 AACTTACATAGCTTACATAATACACAACTTACATAACATACATAATAAATAACTAACATAAATAA
12627998 C
66 C
* *
12627999 ATA-ATACATAGCTTACATAATACACAACTTACATAACTTACATAATAAATAACTAACATAAA-A
1 A-ACTTACATAGCTTACATAATACACAACTTACATAACATACATAATAAATAACTAACATAAATA
12628062 TAC
65 -AC
* *
12628065 AACTTACATAACTTATATAATACA
1 AACTTACATAGCTTACATAATACA
12628089 TAAATTTCCA
Statistics
Matches: 75, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
65 2 0.03
66 72 0.96
67 1 0.01
ACGTcount: A:0.48, C:0.21, G:0.03, T:0.28
Consensus pattern (66 bp):
AACTTACATAGCTTACATAATACACAACTTACATAACATACATAATAAATAACTAACATAAATAA
C
Found at i:12633576 original size:66 final size:66
Alignment explanation
Indices: 12633470--12633596 Score: 202
Period size: 66 Copynumber: 1.9 Consensus size: 66
12633460 CAAATTACAC
* * *
12633470 AACTTAAAGCGGAGGCAGCATCGAGAGAAGCTGAGGTTCAAA-AAAGATATGAAGAACTCCAGCT
1 AACTTAAAGCAGAGGCAACAGCGAGAGAAGCTGAGGTTCAAAGAAAG-TATGAAGAACTCCAGCT
12633534 AA
65 AA
*
12633536 AACTTAAAGCAGATGCAACAGCGAGAGAAGCTGAGGTTCAAAGAAAGTATGAAGAACTCCA
1 AACTTAAAGCAGAGGCAACAGCGAGAGAAGCTGAGGTTCAAAGAAAGTATGAAGAACTCCA
12633597 CCTGCAGCTT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
66 52 0.93
67 4 0.07
ACGTcount: A:0.43, C:0.17, G:0.25, T:0.15
Consensus pattern (66 bp):
AACTTAAAGCAGAGGCAACAGCGAGAGAAGCTGAGGTTCAAAGAAAGTATGAAGAACTCCAGCTA
A
Found at i:12633608 original size:66 final size:66
Alignment explanation
Indices: 12633470--12633617 Score: 199
Period size: 66 Copynumber: 2.2 Consensus size: 66
12633460 CAAATTACAC
* * * *
12633470 AACTTAAAGCGGAGGCAGCATCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTA
1 AACTTAAAGCAGAGGCAACAGCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCACCTA
12633535 A
66 A
*
12633536 AACTTAAAGCAGATGCAACAGCGAGAGAAGCTGAGGTTCAAAGAAAG-TATGAAGAACTCCACCT
1 AACTTAAAGCAGAGGCAACAGCGAGAGAAGCTGAGGTTCAAA-AAAGATATGAAGAACTCCACCT
**
12633600 GC
65 AA
* *
12633602 AGCTTAAACCAGAGGC
1 AACTTAAAGCAGAGGC
12633618 TGTAGCGAGG
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
66 67 0.94
67 4 0.06
ACGTcount: A:0.41, C:0.19, G:0.25, T:0.15
Consensus pattern (66 bp):
AACTTAAAGCAGAGGCAACAGCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCACCTA
A
Found at i:12633638 original size:21 final size:21
Alignment explanation
Indices: 12633611--12633657 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
12633601 CAGCTTAAAC
** *
12633611 CAGAGGCTGTAGCGAGGGAAG
1 CAGAGGCTACAGCGAAGGAAG
*
12633632 TAGAGGCTACAGCGAAGGAAG
1 CAGAGGCTACAGCGAAGGAAG
12633653 CAGAG
1 CAGAG
12633658 CAGCGTAGAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.34, C:0.15, G:0.43, T:0.09
Consensus pattern (21 bp):
CAGAGGCTACAGCGAAGGAAG
Found at i:12634050 original size:43 final size:43
Alignment explanation
Indices: 12634003--12634291 Score: 271
Period size: 43 Copynumber: 6.7 Consensus size: 43
12633993 AAAAAAATGA
* * *
12634003 CGCTAAAGGTAAGGGTCTTTTGCGGCGTTTGTAGG-AAAAGCGC
1 CGCTAAAGGTCATGGTCTTTAGCGGCGTTTGT-GGTAAAAGCGC
* * * *
12634046 CGCTAAAGATCAGGGTCTTTAGCGACGTTTGTTTGG--CAAGCGC
1 CGCTAAAGGTCATGGTCTTTAGCGGCGTTTG--TGGTAAAAGCGC
** * * *
12634089 CGCTAAAGACCATGGACCTTTAGCGGTGTTTGTGGGGAAAA-CGC
1 CGCTAAAGGTCATGG-TCTTTAGCGGCGTTTGT-GGTAAAAGCGC
* * * *
12634133 CGCAAAAGGTCATGGTCTTTAGTGGCGTTTGTGGTGAAAGTGC
1 CGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGTAAAAGCGC
** ** * *
12634176 CGCTAAAGACCATGACCTTTAGTGGCGTTTGTGGTGAAAGCGC
1 CGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGTAAAAGCGC
* * *
12634219 CGCTAAAGGTCATGGCCTGTAGCGGCGTTTGTGGTAATAGCGC
1 CGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGTAAAAGCGC
*
12634262 CGCTAAAGGTCTTGGTCTTTAGCGGCGTTT
1 CGCTAAAGGTCATGGTCTTTAGCGGCGTTT
12634292 TTTCTAAAAA
Statistics
Matches: 203, Mismatches: 36, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
42 6 0.03
43 164 0.81
44 30 0.15
45 3 0.01
ACGTcount: A:0.21, C:0.19, G:0.33, T:0.27
Consensus pattern (43 bp):
CGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGTAAAAGCGC
Found at i:12634231 original size:86 final size:86
Alignment explanation
Indices: 12634019--12634291 Score: 302
Period size: 86 Copynumber: 3.2 Consensus size: 86
12634009 AGGTAAGGGT
* * * * * * *
12634019 CTTTTGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGATCAGGGTCTTTAGCGACGTTTGT-TTGGC
1 CTTTAGCGGCGTTTGT-GGGAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGT-GA
12634083 AAGCGCCGCTAAAGACCATGGAC
64 AAGCGCCGCTAAAGACCATGGAC
* * * *
12634106 CTTTAGCGGTGTTTGTGGGGAAAACGCCGCAAAAGGTCATGGTCTTTAGTGGCGTTTGTGGTGAA
1 CTTTAGCGGCGTTTGT-GGGAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGTGAA
*
12634171 AGTGCCGCTAAAGACCAT-GAC
65 AGCGCCGCTAAAGACCATGGAC
* * *
12634192 CTTTAGTGGCGTTTGTGGTGAAAGCGCCGCTAAAGGTCATGGCCTGTAGCGGCGTTTGTGGT-AA
1 CTTTAGCGGCGTTTGTGG-GAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGTGAA
** * *
12634256 TAGCGCCGCTAAAGGTCTTGG-T
65 -AGCGCCGCTAAAGACCATGGAC
12634278 CTTTAGCGGCGTTT
1 CTTTAGCGGCGTTT
12634292 TTTCTAAAAA
Statistics
Matches: 156, Mismatches: 26, Indels: 9
0.82 0.14 0.05
Matches are distributed among these distances:
85 4 0.03
86 82 0.53
87 69 0.44
88 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.32, T:0.28
Consensus pattern (86 bp):
CTTTAGCGGCGTTTGTGGGAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGTGAAA
GCGCCGCTAAAGACCATGGAC
Found at i:12636129 original size:23 final size:23
Alignment explanation
Indices: 12636103--12636155 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
12636093 CTTATGCCAA
12636103 GCTTATGGTTTGGGTTATATTAT
1 GCTTATGGTTTGGGTTATATTAT
12636126 GCTTATGGTTTGGGTTATATTAT
1 GCTTATGGTTTGGGTTATATTAT
12636149 GCTTATG
1 GCTTATG
12636156 CTTTATATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.17, C:0.06, G:0.26, T:0.51
Consensus pattern (23 bp):
GCTTATGGTTTGGGTTATATTAT
Found at i:12636166 original size:23 final size:23
Alignment explanation
Indices: 12636103--12636166 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 23
12636093 CTTATGCCAA
* * *
12636103 GCTTATGGTTTGGGTTATATTAT
1 GCTTATGCTTTAGATTATATTAT
* * *
12636126 GCTTATGGTTTGGGTTATATTAT
1 GCTTATGCTTTAGATTATATTAT
*
12636149 GCTTATGCTTTATATTAT
1 GCTTATGCTTTAGATTAT
12636167 GCAAATGAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.19, C:0.06, G:0.22, T:0.53
Consensus pattern (23 bp):
GCTTATGCTTTAGATTATATTAT
Found at i:12636998 original size:54 final size:55
Alignment explanation
Indices: 12636893--12637002 Score: 152
Period size: 54 Copynumber: 2.0 Consensus size: 55
12636883 GAGTTCCTTA
* * *
12636893 GGTGAGGACACAAGCATGTGACAAGGCTGTGTGACCCTATTTAGAAAGTTACACG
1 GGTGAGGACACAAGCATGGGACAAGGCCGTATGACCCTATTTAGAAAGTTACACG
* *
12636948 GGTGAGGACACAAGC-TGGGACAAGGCCGTATGTCCCTAGTTT-GAAGGTTACACG
1 GGTGAGGACACAAGCATGGGACAAGGCCGTATGACCCTA-TTTAGAAAGTTACACG
12637002 G
1 G
12637003 CCTCACCACA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
54 31 0.63
55 18 0.37
ACGTcount: A:0.28, C:0.19, G:0.32, T:0.21
Consensus pattern (55 bp):
GGTGAGGACACAAGCATGGGACAAGGCCGTATGACCCTATTTAGAAAGTTACACG
Found at i:12648679 original size:21 final size:21
Alignment explanation
Indices: 12648655--12648694 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
12648645 TCAGCACTCT
12648655 CAGATACATCCACAACAAAGC
1 CAGATACATCCACAACAAAGC
* *
12648676 CAGATGCATCCACACCAAA
1 CAGATACATCCACAACAAA
12648695 ATCAAACGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.35, G:0.10, T:0.10
Consensus pattern (21 bp):
CAGATACATCCACAACAAAGC
Found at i:12653271 original size:49 final size:48
Alignment explanation
Indices: 12653179--12653339 Score: 130
Period size: 49 Copynumber: 3.3 Consensus size: 48
12653169 TTCCAGGCTG
* * * *
12653179 GTTAACAAATAACATGCCCTACCAATGAGCCAGCA--TATCCGCCATTCTA
1 GTTAGCAACTAACATGCCCTACCAGTG-GCC--CATTTATACGCCATTCTA
* * * *
12653228 GTTAGCAATTAACATGCCCTACTAGTGGCCTATCTTATACGCCAATT-TG
1 GTTAGCAACTAACATGCCCTACCAGTGGCCCAT-TTATACGCC-ATTCTA
** * * * *
12653277 GTTAATAACTAACTTGCCCTACCAGTGGCCCATTTCTTCCCCATTCTA
1 GTTAGCAACTAACATGCCCTACCAGTGGCCCATTTATACGCCATTCTA
12653325 GTTAGCAACTAACAT
1 GTTAGCAACTAACAT
12653340 ACCTTAGAAG
Statistics
Matches: 87, Mismatches: 20, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
46 1 0.01
47 3 0.03
48 22 0.25
49 58 0.67
50 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (48 bp):
GTTAGCAACTAACATGCCCTACCAGTGGCCCATTTATACGCCATTCTA
Found at i:12658743 original size:15 final size:16
Alignment explanation
Indices: 12658718--12658750 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
12658708 TAGATTAAAC
*
12658718 AATAGAAATAACATTT
1 AATAGAAATAAAATTT
12658734 AATA-AAATAAAATTT
1 AATAGAAATAAAATTT
12658749 AA
1 AA
12658751 CCTAGAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (16 bp):
AATAGAAATAAAATTT
Found at i:12659013 original size:16 final size:17
Alignment explanation
Indices: 12658987--12659018 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
12658977 TTCCCCCAAA
12658987 GATAGGTTAAGAAAAAT
1 GATAGGTTAAGAAAAAT
12659004 GATA-GTTAAGAAAAA
1 GATAGGTTAAGAAAAA
12659019 GCTCTCATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.56, C:0.00, G:0.22, T:0.22
Consensus pattern (17 bp):
GATAGGTTAAGAAAAAT
Found at i:12666583 original size:37 final size:37
Alignment explanation
Indices: 12666543--12666657 Score: 194
Period size: 37 Copynumber: 3.1 Consensus size: 37
12666533 TGTCGAGGTG
* *
12666543 TGTTATCGATTGGATTAGCTCTCATTAGCGTTTGGCG
1 TGTTATCGATTGGATTAGCTCTCATGAGCGTTTGGCA
*
12666580 TGTTATCGGTTGGATTAGCTCTCATGAGCGTTTGGCA
1 TGTTATCGATTGGATTAGCTCTCATGAGCGTTTGGCA
*
12666617 TGTTATCGATTGGATTAGCTCTCATGAGTGTTTGGCA
1 TGTTATCGATTGGATTAGCTCTCATGAGCGTTTGGCA
12666654 TGTT
1 TGTT
12666658 TTGGTTGGTT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 73 1.00
ACGTcount: A:0.17, C:0.15, G:0.28, T:0.41
Consensus pattern (37 bp):
TGTTATCGATTGGATTAGCTCTCATGAGCGTTTGGCA
Found at i:12669636 original size:21 final size:21
Alignment explanation
Indices: 12669603--12669655 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
12669593 GTCCAAACTG
* *
12669603 TGTGGCTATCCCACACGCCCA
1 TGTGTCTACCCCACACGCCCA
*
12669624 TGTGTCTACCCCACACGCCCG
1 TGTGTCTACCCCACACGCCCA
12669645 TGTGTCTACCC
1 TGTGTCTACCC
12669656 GTGTAACTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.15, C:0.43, G:0.19, T:0.23
Consensus pattern (21 bp):
TGTGTCTACCCCACACGCCCA
Found at i:12674824 original size:20 final size:20
Alignment explanation
Indices: 12674799--12674852 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
12674789 ACCTAAAATA
12674799 AAAAATTGGGTCCAAGAACC
1 AAAAATTGGGTCCAAGAACC
* * * * *
12674819 AAAAATCGAGACCGAGACCC
1 AAAAATTGGGTCCAAGAACC
12674839 AAAAATT-GGTCCAA
1 AAAAATTGGGTCCAA
12674853 CCGGGCTTGG
Statistics
Matches: 25, Mismatches: 9, Indels: 1
0.71 0.26 0.03
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.46, C:0.22, G:0.19, T:0.13
Consensus pattern (20 bp):
AAAAATTGGGTCCAAGAACC
Found at i:12684363 original size:13 final size:13
Alignment explanation
Indices: 12684345--12684404 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
12684335 TCTGACACTT
*
12684345 TGTTTTGAAGATA
1 TGTTTTAAAGATA
* *
12684358 TGTTTTCAAGTTA
1 TGTTTTAAAGATA
* *
12684371 AGTTTTTAAA-CTA
1 TG-TTTTAAAGATA
12684384 TGTTTTAAAAGATA
1 TGTTTT-AAAGATA
12684398 TGTTTTA
1 TGTTTTA
12684405 TGTGTGCTTC
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
12 4 0.11
13 19 0.51
14 14 0.38
ACGTcount: A:0.32, C:0.03, G:0.15, T:0.50
Consensus pattern (13 bp):
TGTTTTAAAGATA
Found at i:12684459 original size:14 final size:13
Alignment explanation
Indices: 12684425--12684472 Score: 62
Period size: 14 Copynumber: 3.6 Consensus size: 13
12684415 TATGCGAGCC
*
12684425 TATGTTTT-CAAG
1 TATGTTTTATAAG
12684437 TATGTTTTATAAG
1 TATGTTTTATAAG
12684450 TATAGTTTTATAAG
1 TAT-GTTTTATAAG
12684464 CTATGTTTT
1 -TATGTTTT
12684473 TGCGATCTCC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 8 0.25
13 6 0.19
14 15 0.47
15 3 0.09
ACGTcount: A:0.27, C:0.04, G:0.15, T:0.54
Consensus pattern (13 bp):
TATGTTTTATAAG
Found at i:12685171 original size:17 final size:17
Alignment explanation
Indices: 12685149--12685191 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
12685139 ATGATGGCAA
12685149 TGGCGAGGTAGATGAAT
1 TGGCGAGGTAGATGAAT
*
12685166 TGGCGAGGTAGATGACT
1 TGGCGAGGTAGATGAAT
12685183 TGGCGAGGT
1 TGGCGAGGT
12685192 TCATCCCTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.23, C:0.09, G:0.44, T:0.23
Consensus pattern (17 bp):
TGGCGAGGTAGATGAAT
Found at i:12691202 original size:26 final size:26
Alignment explanation
Indices: 12691171--12691223 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
12691161 TTTTAAATAC
12691171 TTAAACAATTATATGCACGAGACCAG
1 TTAAACAATTATATGCACGAGACCAG
12691197 TTAAACAATTATATGCACGAGACCAG
1 TTAAACAATTATATGCACGAGACCAG
12691223 T
1 T
12691224 ACAAACCCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.25
Consensus pattern (26 bp):
TTAAACAATTATATGCACGAGACCAG
Found at i:12692572 original size:20 final size:20
Alignment explanation
Indices: 12692544--12692612 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 20
12692534 ATTAAATGAG
*
12692544 AAATTAAATCAATTTGATTA
1 AAATCAAATCAATTTGATTA
*
12692564 AAATCAAATCAAATTT-ATTG
1 AAATCAAATC-AATTTGATTA
* * *
12692584 GAATCAAATAAAATTGATTA
1 AAATCAAATCAATTTGATTA
*
12692604 GAATCAAAT
1 AAATCAAAT
12692613 AAAATCAGGA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
19 4 0.10
20 32 0.78
21 5 0.12
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.33
Consensus pattern (20 bp):
AAATCAAATCAATTTGATTA
Found at i:12692613 original size:20 final size:20
Alignment explanation
Indices: 12692557--12692617 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
12692547 TTAAATCAAT
* *
12692557 TTGATTAAAATCAAATCAAA
1 TTGATTAGAATCAAATAAAA
* *
12692577 TTTATTGGAATCAAATAAAA
1 TTGATTAGAATCAAATAAAA
12692597 TTGATTAGAATCAAATAAAA
1 TTGATTAGAATCAAATAAAA
12692617 T
1 T
12692618 CAGGAAATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.52, C:0.07, G:0.08, T:0.33
Consensus pattern (20 bp):
TTGATTAGAATCAAATAAAA
Found at i:12695602 original size:81 final size:80
Alignment explanation
Indices: 12695431--12695736 Score: 231
Period size: 81 Copynumber: 3.7 Consensus size: 80
12695421 AACAAAATCA
* * * * *
12695431 AAATAAAATTTGTTAAATGACGGAATAAATCCTGAAACAGAATTATTTAATTAATTCTTCATTTG
1 AAATAAAATCTGTTAAACGGCGGAATAAATCC-GAAACAG-ATTATTCAATTATTTCTTCATTTG
*
12695496 GAAATAAAATCAAAATC
64 GAAATAAAATCAAAAAC
* *
12695513 AAATAAAATCTGTTAAACGGCGGGAATAAATCTCGAAACAGTTTATTCAATTATTTC-TCGTTTG
1 AAATAAAATCTGTTAAACGGC-GGAATAAATC-CGAAACAGATTATTCAATTATTTCTTCATTTG
* *
12695577 GAAATAATATCAAAAAG
64 GAAATAAAATCAAAAAC
* ** * * * *
12695594 GAATAAAATCTGTCGAACGGCTGGACTAAATCCCAAAACAAATTATTCATTATTCAATTATTTCT
1 AAATAAAATCTGTTAAACGGC-GGAATAAAT-CCGAAACAGATTATTCA--ATT--ATT-TCT-T
* * *
12695659 CATTTGGAAACAAAATTAGAATA-
58 CATTTGGAAATAAAATCA-AAAAC
* * * *
12695682 GAATAAAATTTGTTAAACGACAGGATTAAATCCTGAAACAGATTA-TCAAATTATT
1 AAATAAAATCTGTTAAACGGC-GGAATAAATCC-GAAACAGATTATTC-AATTATT
12695737 AATTTTTATT
Statistics
Matches: 179, Mismatches: 32, Indels: 24
0.76 0.14 0.10
Matches are distributed among these distances:
81 59 0.33
82 32 0.18
83 20 0.11
84 4 0.02
85 3 0.02
86 4 0.02
87 4 0.02
88 50 0.28
89 3 0.02
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.31
Consensus pattern (80 bp):
AAATAAAATCTGTTAAACGGCGGAATAAATCCGAAACAGATTATTCAATTATTTCTTCATTTGGA
AATAAAATCAAAAAC
Found at i:12698140 original size:50 final size:50
Alignment explanation
Indices: 12698082--12698182 Score: 168
Period size: 50 Copynumber: 2.0 Consensus size: 50
12698072 TTTAAATGTG
* *
12698082 AAAATGTTAAATATTTCAT-GAAATTTAATTTGAGATTTCATTGGCATAAT
1 AAAATGTTAAATACTTCATAG-AATTGAATTTGAGATTTCATTGGCATAAT
12698132 AAAATGTTAAATACTTCATAGAATTGAATTTGAGATTTCATTGGCATAAT
1 AAAATGTTAAATACTTCATAGAATTGAATTTGAGATTTCATTGGCATAAT
12698182 A
1 A
12698183 TTGAATCTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
50 47 0.98
51 1 0.02
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.40
Consensus pattern (50 bp):
AAAATGTTAAATACTTCATAGAATTGAATTTGAGATTTCATTGGCATAAT
Found at i:12701049 original size:43 final size:43
Alignment explanation
Indices: 12700983--12701188 Score: 317
Period size: 43 Copynumber: 4.8 Consensus size: 43
12700973 CTAATGACAG
*
12700983 CGCCACTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAA
* *
12701026 CGCCGCTAAAGACCAAGGCCTTTAGCGGCGCTATTCCCACAAA
1 CGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAA
12701069 CGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAA
* * *
12701112 CGCCGCTAAAGACCAAGACCTTTAGCGACACTTTTCACACAAA
1 CGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAA
**
12701155 CGCCGCTATCGA--ATAGACCTTTAGCGGCGCTTTT
1 CGCCGCTAAAGACCA-AGACCTTTAGCGGCGCTTTT
12701189 TTGAAAACGC
Statistics
Matches: 150, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
41 1 0.01
42 18 0.12
43 131 0.87
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.20
Consensus pattern (43 bp):
CGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAA
Found at i:12703070 original size:10 final size:10
Alignment explanation
Indices: 12703055--12703085 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
12703045 CTAATAATGT
12703055 AAGTTAAGCA
1 AAGTTAAGCA
12703065 AAGTTAAGCA
1 AAGTTAAGCA
*
12703075 AAGTCAAGCA
1 AAGTTAAGCA
12703085 A
1 A
12703086 GTCCACCACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.52, C:0.13, G:0.19, T:0.16
Consensus pattern (10 bp):
AAGTTAAGCA
Found at i:12704836 original size:20 final size:20
Alignment explanation
Indices: 12704799--12704842 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 20
12704789 ATTGATTACC
*
12704799 TTTTATAAATTTTTATTTTATT
1 TTTTATAAA-TTTGA-TTTATT
12704821 TTTTATAAA-TTGATTTATT
1 TTTTATAAATTTGATTTATT
12704840 TTT
1 TTT
12704843 GCGGCGTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 9 0.43
20 3 0.14
22 9 0.43
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTTATAAATTTGATTTATT
Found at i:12705533 original size:7 final size:7
Alignment explanation
Indices: 12705521--12705584 Score: 51
Period size: 7 Copynumber: 9.0 Consensus size: 7
12705511 ACCCCTGAAT
12705521 CCTTAAA
1 CCTTAAA
12705528 CCTTAAA
1 CCTTAAA
*
12705535 TCCCT-AA
1 -CCTTAAA
12705542 CTCTTAAA
1 C-CTTAAA
*
12705550 CCCT-AA
1 CCTTAAA
* *
12705556 CATCTAAC
1 CCT-TAAA
12705564 CCTTAAA
1 CCTTAAA
12705571 CCTTAAA
1 CCTTAAA
12705578 CCTTAAA
1 CCTTAAA
12705585 TCCCAACCCT
Statistics
Matches: 44, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
6 4 0.09
7 31 0.70
8 9 0.20
ACGTcount: A:0.39, C:0.33, G:0.00, T:0.28
Consensus pattern (7 bp):
CCTTAAA
Found at i:12705568 original size:21 final size:21
Alignment explanation
Indices: 12705521--12705577 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
12705511 ACCCCTGAAT
*
12705521 CCTTAAACCTTAAATCCCTAAC
1 CCTTAAACCCTAAAT-CCTAAC
*
12705543 TCTTAAACCCTAACAT-CTAAC
1 CCTTAAACCCTAA-ATCCTAAC
*
12705564 CCTTAAACCTTAAA
1 CCTTAAACCCTAAA
12705578 CCTTAAATCC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 1 0.03
21 16 0.53
22 11 0.37
23 2 0.07
ACGTcount: A:0.39, C:0.33, G:0.00, T:0.28
Consensus pattern (21 bp):
CCTTAAACCCTAAATCCTAAC
Found at i:12705576 original size:28 final size:28
Alignment explanation
Indices: 12705544--12705600 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
12705534 ATCCCTAACT
*
12705544 CTTAAACCCTAACAT-CTAACCCTTAAAC
1 CTTAAACCCTAA-ATCCCAACCCTTAAAC
*
12705572 CTTAAACCTTAAATCCCAACCCTTAAAC
1 CTTAAACCCTAAATCCCAACCCTTAAAC
12705600 C
1 C
12705601 ATAATCGCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 2 0.08
28 24 0.92
ACGTcount: A:0.39, C:0.37, G:0.00, T:0.25
Consensus pattern (28 bp):
CTTAAACCCTAAATCCCAACCCTTAAAC
Found at i:12705862 original size:15 final size:15
Alignment explanation
Indices: 12705827--12705912 Score: 59
Period size: 15 Copynumber: 5.8 Consensus size: 15
12705817 CCCTAACTTT
**
12705827 TAACCCCTAACACGTC
1 TAACCCCTAA-ACCCC
12705843 TAACCCCTAAACCCC
1 TAACCCCTAAACCCC
* *
12705858 TAACCCTTTAACCCC
1 TAACCCCTAAACCCC
* * *
12705873 TAAACCTTAAATCCC
1 TAACCCCTAAACCCC
* *
12705888 -AACCCTTAAA-CCA
1 TAACCCCTAAACCCC
*
12705901 TAATCCCTAAAC
1 TAACCCCTAAAC
12705913 ACATACTCCC
Statistics
Matches: 57, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
13 2 0.04
14 17 0.30
15 28 0.49
16 10 0.18
ACGTcount: A:0.36, C:0.42, G:0.01, T:0.21
Consensus pattern (15 bp):
TAACCCCTAAACCCC
Found at i:12705873 original size:23 final size:24
Alignment explanation
Indices: 12705828--12705878 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 24
12705818 CCTAACTTTT
*
12705828 AACCCCTAACACGTCTAACCCCTA
1 AACCCCTAACACCTCTAACCCCTA
*
12705852 AACCCCTAAC-CCTTTAACCCCTA
1 AACCCCTAACACCTCTAACCCCTA
12705875 AACC
1 AACC
12705879 TTAAATCCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 15 0.60
24 10 0.40
ACGTcount: A:0.33, C:0.47, G:0.02, T:0.18
Consensus pattern (24 bp):
AACCCCTAACACCTCTAACCCCTA
Found at i:12705894 original size:14 final size:15
Alignment explanation
Indices: 12705842--12705899 Score: 73
Period size: 15 Copynumber: 3.9 Consensus size: 15
12705832 CCTAACACGT
*
12705842 CTAACCCCTAAACCC
1 CTAACCCTTAAACCC
*
12705857 CTAACCCTTTAACCC
1 CTAACCCTTAAACCC
* *
12705872 CTAAACCTTAAATCC
1 CTAACCCTTAAACCC
12705887 C-AACCCTTAAACC
1 CTAACCCTTAAACC
12705900 ATAATCCCTA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
14 10 0.28
15 26 0.72
ACGTcount: A:0.34, C:0.45, G:0.00, T:0.21
Consensus pattern (15 bp):
CTAACCCTTAAACCC
Found at i:12705897 original size:21 final size:20
Alignment explanation
Indices: 12705867--12705907 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
12705857 CTAACCCTTT
*
12705867 AACCCCTAAACCTTAAATCCC
1 AACCCCTAAACCAT-AATCCC
*
12705888 AACCCTTAAACCATAATCCC
1 AACCCCTAAACCATAATCCC
12705908 TAAACACATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.39, C:0.41, G:0.00, T:0.20
Consensus pattern (20 bp):
AACCCCTAAACCATAATCCC
Found at i:12705917 original size:15 final size:14
Alignment explanation
Indices: 12705894--12705941 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
12705884 TCCCAACCCT
12705894 TAAACCATAATCCC
1 TAAACCATAATCCC
*
12705908 TAAACACATACTCCC
1 TAAAC-CATAATCCC
* * *
12705923 TAAACTAAAAACCC
1 TAAACCATAATCCC
12705937 TAAAC
1 TAAAC
12705942 TATAGTGATA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
14 15 0.54
15 13 0.46
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.19
Consensus pattern (14 bp):
TAAACCATAATCCC
Found at i:12706272 original size:41 final size:41
Alignment explanation
Indices: 12706214--12706330 Score: 198
Period size: 41 Copynumber: 2.9 Consensus size: 41
12706204 TAAAATGTTT
* * * *
12706214 TTAGCGGCACTTGTTCAAAAACGCCGCTAAAGCCCTGAGCA
1 TTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACCAGAGCA
12706255 TTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACCAGAGCA
1 TTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACCAGAGCA
12706296 TTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACC
1 TTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACC
12706331 CATGACGTTA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 72 1.00
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (41 bp):
TTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACCAGAGCA
Found at i:12707642 original size:65 final size:65
Alignment explanation
Indices: 12707561--12707710 Score: 282
Period size: 65 Copynumber: 2.3 Consensus size: 65
12707551 AATCTATGTG
12707561 ATTTTTGGGAAATTAATTTTGATTAAGTAAAATTAAATTAATCAAATTAATTTAAATTAATATGA
1 ATTTTT-GGAAATTAATTTTGATTAAGTAAAATTAAATTAATCAAATTAATTTAAATTAATATGA
12707626 T
65 T
12707627 ATTTTTGGAAATTAATTTTGATTAAGTAAAATTAAATTAATCAAATTAATTTAAATTAATATGAT
1 ATTTTTGGAAATTAATTTTGATTAAGTAAAATTAAATTAATCAAATTAATTTAAATTAATATGAT
*
12707692 ATTTTTGAAAATTAATTTT
1 ATTTTTGGAAATTAATTTT
12707711 CAAGTCAGAC
Statistics
Matches: 83, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
65 77 0.93
66 6 0.07
ACGTcount: A:0.45, C:0.01, G:0.08, T:0.46
Consensus pattern (65 bp):
ATTTTTGGAAATTAATTTTGATTAAGTAAAATTAAATTAATCAAATTAATTTAAATTAATATGAT
Found at i:12708209 original size:61 final size:58
Alignment explanation
Indices: 12708144--12708255 Score: 170
Period size: 61 Copynumber: 1.9 Consensus size: 58
12708134 GTTATTGTAA
* * *
12708144 TATTAAATTTAATTTAATATTTATCTTGTAGATAAGTATTCTATTAATTTAATAGATTTAT
1 TATTAAATTTAATCTAATATTTATCTTGT---TAAGTATTATATTAATATAATAGATTTAT
12708205 TATTAAATTTAATCTAATATTTATCTTGTTAAGTATTATATTAATATAATA
1 TATTAAATTTAATCTAATATTTATCTTGTTAAGTATTATATTAATATAATA
12708256 TTAAAGTGAT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
58 20 0.42
61 28 0.58
ACGTcount: A:0.39, C:0.04, G:0.05, T:0.52
Consensus pattern (58 bp):
TATTAAATTTAATCTAATATTTATCTTGTTAAGTATTATATTAATATAATAGATTTAT
Found at i:12708268 original size:58 final size:58
Alignment explanation
Indices: 12708141--12708276 Score: 152
Period size: 58 Copynumber: 2.3 Consensus size: 58
12708131 GTGGTTATTG
* * *
12708141 TAAT-ATTAAATTTAATTTAATATTTATCTTGTAGATAAGTATTCTATTAATTTAATAGAT
1 TAATGATTAAATTTAATCTAATATTTATCTTGT--ATAAGTATTATATTAATATAATA-AT
* *
12708201 TTATTATTAAATTTAATCTAATATTTATCTTGT-TAAGTATTATATTAATATAAT-AT
1 TAATGATTAAATTTAATCTAATATTTATCTTGTATAAGTATTATATTAATATAATAAT
*
12708257 TAAAGTGATTAAGTTTAATC
1 T-AA-TGATTAAATTTAATC
12708277 ATAGTTGATC
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
56 3 0.05
57 1 0.02
58 32 0.48
60 3 0.05
61 27 0.41
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.50
Consensus pattern (58 bp):
TAATGATTAAATTTAATCTAATATTTATCTTGTATAAGTATTATATTAATATAATAAT
Found at i:12723590 original size:41 final size:41
Alignment explanation
Indices: 12723545--12723631 Score: 174
Period size: 41 Copynumber: 2.1 Consensus size: 41
12723535 ACTCTCACGA
12723545 TGCCACACTCAACAATCATCACACCTGGACCATGCAGAAAC
1 TGCCACACTCAACAATCATCACACCTGGACCATGCAGAAAC
12723586 TGCCACACTCAACAATCATCACACCTGGACCATGCAGAAAC
1 TGCCACACTCAACAATCATCACACCTGGACCATGCAGAAAC
12723627 TGCCA
1 TGCCA
12723632 AATACCTTCA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.36, C:0.37, G:0.13, T:0.15
Consensus pattern (41 bp):
TGCCACACTCAACAATCATCACACCTGGACCATGCAGAAAC
Found at i:12724452 original size:37 final size:37
Alignment explanation
Indices: 12724399--12724487 Score: 135
Period size: 37 Copynumber: 2.4 Consensus size: 37
12724389 TCCTGTAACA
* *
12724399 TCAAATCCAACAAAAAACTGCAAAAATAAATTATACT
1 TCAAATCCAACCAAAAACTGCAAAAATAAATGATACT
**
12724436 TCAAATCCAACCAAAAACTGCAAATCTAAATGATACT
1 TCAAATCCAACCAAAAACTGCAAAAATAAATGATACT
12724473 TCAAATCCAA-CAAAA
1 TCAAATCCAACCAAAA
12724488 GAAATATGTA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
36 5 0.10
37 43 0.90
ACGTcount: A:0.54, C:0.22, G:0.03, T:0.20
Consensus pattern (37 bp):
TCAAATCCAACCAAAAACTGCAAAAATAAATGATACT
Found at i:12731640 original size:51 final size:50
Alignment explanation
Indices: 12731572--12731766 Score: 223
Period size: 51 Copynumber: 3.9 Consensus size: 50
12731562 TAAGTGATAC
* * * *
12731572 CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-TATCAT
* * *
12731623 CCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA-AGCTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATATC-AT
* * * * *
12731674 CTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATATCA-T
*
12731724 CCGGTACACGTAGTAGCCTGGACATAGTACTACACACGTGACC
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACC
12731767 TAGCAACTTC
Statistics
Matches: 119, Mismatches: 21, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
49 1 0.01
50 42 0.35
51 74 0.62
52 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (50 bp):
CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATATCAT
Found at i:12731758 original size:101 final size:101
Alignment explanation
Indices: 12731580--12731764 Score: 309
Period size: 101 Copynumber: 1.8 Consensus size: 101
12731570 ACCCGGTTCA
* *
12731580 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCA-TATCATCCGATACACGTAGTAGCCTGCA
12731645 CATAGTACTACACACGTGATCGAAGCTATCTGGTACG
65 CATAGTACTACACACGTGATCGAAGCTATCTGGTACG
* *
12731682 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTAGCCTGGA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATATCA-TCCGATACACGTAGTAGCCTGCA
12731746 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
12731765 CCTAGCAACT
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
100 4 0.05
101 40 0.51
102 34 0.44
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATATCATCCGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAGCTATCTGGTACG
Found at i:12737219 original size:30 final size:30
Alignment explanation
Indices: 12737184--12737255 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 30
12737174 ACTTTTTTTT
*
12737184 AAAAAAGAACAA-AAATGAAAAGA-AAAAAGA
1 AAAAAAGAA-AAGAAAAGAAAA-ATAAAAAGA
12737214 AAAAAAGAAAAGAAAAGAAAAATAAAAAGA
1 AAAAAAGAAAAGAAAAGAAAAATAAAAAGA
12737244 AATAAAAGAAAA
1 AA-AAAAGAAAA
12737256 ATAAAAAGGA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
29 3 0.08
30 26 0.68
31 9 0.24
ACGTcount: A:0.82, C:0.01, G:0.12, T:0.04
Consensus pattern (30 bp):
AAAAAAGAAAAGAAAAGAAAAATAAAAAGA
Found at i:12737250 original size:21 final size:22
Alignment explanation
Indices: 12737194--12737263 Score: 92
Period size: 21 Copynumber: 3.3 Consensus size: 22
12737184 AAAAAAGAAC
*
12737194 AAAAATGAAAAGAAAA-AAGAA-
1 AAAAA-GAAAAGAAAAGAAAAAT
12737215 AAAAAGAAAAGAAAAGAAAAAT
1 AAAAAGAAAAGAAAAGAAAAAT
*
12737237 AAAAAG-AAATAAAAGAAAAAT
1 AAAAAGAAAAGAAAAGAAAAAT
12737258 AAAAAG
1 AAAAAG
12737264 GAGAGGCTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.22
21 29 0.64
22 6 0.13
ACGTcount: A:0.81, C:0.00, G:0.13, T:0.06
Consensus pattern (22 bp):
AAAAAGAAAAGAAAAGAAAAAT
Found at i:12738214 original size:44 final size:44
Alignment explanation
Indices: 12738147--12738585 Score: 244
Period size: 44 Copynumber: 9.7 Consensus size: 44
12738137 TATAGCAAAC
* *
12738147 CTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAGATACCAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAAT
* *
12738191 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACTAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAAT
* * * * * **
12738235 CCTATCTCCCTAAAGTTGTAGTGGAGC-GAATT-AAAACAATGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAG-ATTGAAGA-TACCAAT
* * * * * ** *
12738279 CCTATAC-CTCTGAGGTTGCAGTAGGTTAGATTAAATCT-ACCATAGCAAGT
1 CTTAT-CTCCCTGAAGTTGCAGT-GG--AG--CAGAT-TGAAGATACCAA-T
* * **
12738329 CTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGTGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CCAAT
* * * * **
12738374 CTTATTTCCCTAAAGTTGCCGTGGAACAGATTGAAGCTATAAATTACGGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG------A-TACCAAT
* * * * * * * * *
12738425 ATTATCTCTCTGAAGTTGCAATAGAGTAGA-T-CATAT-CAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAAT
* *
12738466 CTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAGATACCAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAAT
** * * *
12738510 CTTATCTCTTTGAAGTTACAGTGGAGCAGATTGAAGTTACTAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAAT
* *
12738554 CCTATCTCCCTGAAGTTGCAGTGGAGCGGATT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
12738586 AAAATAATGA
Statistics
Matches: 294, Mismatches: 77, Indels: 48
0.70 0.18 0.11
Matches are distributed among these distances:
41 25 0.09
42 2 0.01
43 7 0.02
44 155 0.53
45 42 0.14
46 2 0.01
47 4 0.01
49 9 0.03
50 21 0.07
51 25 0.09
52 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAAT
Found at i:12740557 original size:21 final size:21
Alignment explanation
Indices: 12740522--12740588 Score: 68
Period size: 24 Copynumber: 3.1 Consensus size: 21
12740512 TGATAAATCC
12740522 AAAATATT-A-GATAAATTTA
1 AAAATATTAATGATAAATTTA
12740541 AAAATATTAATGATAAATTTGA
1 AAAATATTAATGATAAATTT-A
*
12740563 AATAGATA-TACATGATCAATTTA
1 AA-A-ATATTA-ATGATAAATTTA
12740586 AAA
1 AAA
12740589 TAATGTTAAC
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
19 8 0.20
20 1 0.02
21 9 0.22
22 4 0.10
23 6 0.15
24 13 0.32
ACGTcount: A:0.55, C:0.03, G:0.07, T:0.34
Consensus pattern (21 bp):
AAAATATTAATGATAAATTTA
Found at i:12740577 original size:24 final size:22
Alignment explanation
Indices: 12740524--12740707 Score: 81
Period size: 23 Copynumber: 8.2 Consensus size: 22
12740514 ATAAATCCAA
12740524 AATATT-A-GATAAATTTAAA-
1 AATATTAATGATAAATTTAAAT
12740543 AATATTAATGATAAATTTGAAAT
1 AATATTAATGATAAATTT-AAAT
*
12740566 AGATA-TACATGATCAATTTAAAAT
1 A-ATATTA-ATGATAAATTT-AAAT
* ** *
12740590 AATGTTAACAATGAATTTAAAAT
1 AATATTAATGATAAATTT-AAAT
* * *
12740613 AATAATATTGATAAATTACAAAT
1 AATATTAATGATAAATT-TAAAT
** *
12740636 AATAAAAGATGATAAATGTAAAAT
1 AATATTA-ATGATAAAT-TTAAAT
* ** * * *
12740660 AATAATATACAATACACTTAGAT
1 AATATTA-ATGATAAATTTAAAT
**
12740683 AATATTAATGATTCATTT-AAT
1 AATATTAATGATAAATTTAAAT
12740704 AATA
1 AATA
12740708 ATAAGTATAA
Statistics
Matches: 125, Mismatches: 30, Indels: 18
0.72 0.17 0.10
Matches are distributed among these distances:
19 6 0.05
20 1 0.01
21 15 0.12
22 10 0.08
23 49 0.39
24 43 0.34
25 1 0.01
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.35
Consensus pattern (22 bp):
AATATTAATGATAAATTTAAAT
Found at i:12741538 original size:23 final size:22
Alignment explanation
Indices: 12741508--12741552 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
12741498 AAATTAAATC
12741508 TCTAAGATTACAAAATCTTATCT
1 TCTAAGATTAC-AAATCTTATCT
* *
12741531 TCTAAGATTGCATATCTTATCT
1 TCTAAGATTACAAATCTTATCT
12741553 AAGATTGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.33, C:0.18, G:0.07, T:0.42
Consensus pattern (22 bp):
TCTAAGATTACAAATCTTATCT
Found at i:12741555 original size:19 final size:19
Alignment explanation
Indices: 12741531--12741584 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
12741521 AATCTTATCT
*
12741531 TCTAAGATTGCATATCTTA
1 TCTAAGATTGCATATCATA
12741550 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
12741569 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
12741585 CTTGAAGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:12741728 original size:15 final size:14
Alignment explanation
Indices: 12741697--12741727 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
12741687 AGACTTGGAC
*
12741697 TTTGTTTTATTATT
1 TTTGGTTTATTATT
12741711 TTTGGTTTATTATT
1 TTTGGTTTATTATT
12741725 TTT
1 TTT
12741728 TTGTCAGCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.00, G:0.10, T:0.77
Consensus pattern (14 bp):
TTTGGTTTATTATT
Found at i:12741812 original size:15 final size:15
Alignment explanation
Indices: 12741792--12741820 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
12741782 CTTAGTTTTC
12741792 TTATTTCTTTTTTAT
1 TTATTTCTTTTTTAT
12741807 TTATTTCTTTTTTA
1 TTATTTCTTTTTTA
12741821 ATTTTTACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (15 bp):
TTATTTCTTTTTTAT
Found at i:12745601 original size:9 final size:9
Alignment explanation
Indices: 12745587--12745685 Score: 78
Period size: 9 Copynumber: 11.0 Consensus size: 9
12745577 TGTTTATTTA
12745587 TAAGTTATG
1 TAAGTTATG
12745596 TAAGTTATG
1 TAAGTTATG
* * *
12745605 ATATGCTATA
1 -TAAGTTATG
*
12745615 T-ATTTATG
1 TAAGTTATG
12745623 TAAGTTATG
1 TAAGTTATG
12745632 TAAGTTATG
1 TAAGTTATG
* *
12745641 -ATA-TAATA
1 TA-AGTTATG
*
12745649 TATATTTATG
1 TA-AGTTATG
12745659 TAAGTTATG
1 TAAGTTATG
12745668 TAAGTTATG
1 TAAGTTATG
*
12745677 CAAGTTATG
1 TAAGTTATG
12745686 ATCCAAAGTT
Statistics
Matches: 71, Mismatches: 14, Indels: 10
0.75 0.15 0.11
Matches are distributed among these distances:
8 8 0.11
9 52 0.73
10 11 0.15
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:12745632 original size:36 final size:36
Alignment explanation
Indices: 12745587--12745676 Score: 162
Period size: 36 Copynumber: 2.5 Consensus size: 36
12745577 TGTTTATTTA
**
12745587 TAAGTTATGTAAGTTATGATATGCTATATATTTATG
1 TAAGTTATGTAAGTTATGATATAATATATATTTATG
12745623 TAAGTTATGTAAGTTATGATATAATATATATTTATG
1 TAAGTTATGTAAGTTATGATATAATATATATTTATG
12745659 TAAGTTATGTAAGTTATG
1 TAAGTTATGTAAGTTATG
12745677 CAAGTTATGA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 52 1.00
ACGTcount: A:0.36, C:0.01, G:0.17, T:0.47
Consensus pattern (36 bp):
TAAGTTATGTAAGTTATGATATAATATATATTTATG
Found at i:12745755 original size:13 final size:13
Alignment explanation
Indices: 12745737--12745762 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12745727 TGATTATCAT
12745737 TTTTAAATTTTAA
1 TTTTAAATTTTAA
12745750 TTTTAAATTTTAA
1 TTTTAAATTTTAA
12745763 CCCTTTAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTTAAATTTTAA
Found at i:12747526 original size:13 final size:14
Alignment explanation
Indices: 12747500--12747528 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
12747490 ATAACAATTA
12747500 AAACATTGATTAAT
1 AAACATTGATTAAT
12747514 AAACATT-ATTAAT
1 AAACATTGATTAAT
12747527 AA
1 AA
12747529 CAATTTAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.34
Consensus pattern (14 bp):
AAACATTGATTAAT
Found at i:12749476 original size:19 final size:19
Alignment explanation
Indices: 12749439--12749477 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
12749429 TTCGGTGGGT
*
12749439 AAAAATTAAAAAAATTAAA
1 AAAAATTAAAAAAACTAAA
* *
12749458 AAAAATTAGAAGAACTAAA
1 AAAAATTAAAAAAACTAAA
12749477 A
1 A
12749478 CATTAATGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.18
Consensus pattern (19 bp):
AAAAATTAAAAAAACTAAA
Found at i:12749774 original size:49 final size:49
Alignment explanation
Indices: 12749721--12749867 Score: 169
Period size: 48 Copynumber: 3.0 Consensus size: 49
12749711 ATAAAAGCAC
*
12749721 AAGGGGCAGGATTTTGGGGTTTTCAAGCAACA-AAAAGACTGAGAAAAAA
1 AAGGGACAGGATTTTGGGGTTTTCAAGCAA-AGAAAAGACTGAGAAAAAA
*
12749770 AAGGGAC-GAGATTTTGGGGTTTT-AAGCAAAGAAAAGTCT-AGAAAAGAA
1 AAGGGACAG-GATTTTGGGGTTTTCAAGCAAAGAAAAGACTGAGAAAA-AA
* * * * *
12749818 AAGGGAAATGATTTTAGGG-TTTCAAGTAAAGAAAAGACTGAGAAAGAA
1 AAGGGACAGGATTTTGGGGTTTTCAAGCAAAGAAAAGACTGAGAAAAAA
12749866 AA
1 AA
12749868 TAATTCGTGT
Statistics
Matches: 84, Mismatches: 8, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
47 10 0.12
48 49 0.58
49 25 0.30
ACGTcount: A:0.46, C:0.07, G:0.28, T:0.20
Consensus pattern (49 bp):
AAGGGACAGGATTTTGGGGTTTTCAAGCAAAGAAAAGACTGAGAAAAAA
Found at i:12750049 original size:40 final size:40
Alignment explanation
Indices: 12749931--12750061 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
12749921 AAGTAAAAAC
** * * * * *
12749931 CCTTTTGCGGCATTTTTACCACAAACGCAGCTATTACTAA
1 CCTTTTGCGGTGTTTTTATCATAAACGCCGCTATTGCTTA
*
12749971 CCTTTTGCGGTGTTTTTATCATAAACACCGCTATTGCTTA
1 CCTTTTGCGGTGTTTTTATCATAAACGCCGCTATTGCTTA
* *
12750011 CCTTTTGTGGTGTTTTTATCATAAACGCCGCTACTGCTTTA
1 CCTTTTGCGGTGTTTTTATCATAAACGCCGCTATTGC-TTA
*
12750052 CCTATTGCGG
1 CCTTTTGCGG
12750062 CGATTTTCCG
Statistics
Matches: 77, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
40 66 0.86
41 11 0.14
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (40 bp):
CCTTTTGCGGTGTTTTTATCATAAACGCCGCTATTGCTTA
Found at i:12751942 original size:20 final size:21
Alignment explanation
Indices: 12751903--12751943 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
12751893 AAATTTTTTG
12751903 TTTGTCAAATTTGCTATATAAA
1 TTTGTCAAA-TTGCTATATAAA
*
12751925 TTTGTCAAA-TGTTATATAA
1 TTTGTCAAATTGCTATATAA
12751944 TTAGCTCTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.46
Consensus pattern (21 bp):
TTTGTCAAATTGCTATATAAA
Found at i:12752083 original size:15 final size:15
Alignment explanation
Indices: 12752063--12752096 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
12752053 TTCAATTACT
12752063 TTTAATTTAGT-TTAA
1 TTTAATTTA-TCTTAA
12752078 TTTAATTTATCTTAA
1 TTTAATTTATCTTAA
12752093 TTTA
1 TTTA
12752097 TTTTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 1 0.06
15 17 0.94
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (15 bp):
TTTAATTTATCTTAA
Found at i:12757136 original size:24 final size:24
Alignment explanation
Indices: 12757088--12757134 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
12757078 ACTGGTCATA
*
12757088 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGGAATATTTG
*
12757112 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAG-GAATATT
12757135 GGGATTTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (24 bp):
GAGAGAATTGAGGAGGAATATTTG
Found at i:12764644 original size:53 final size:56
Alignment explanation
Indices: 12764580--12764724 Score: 171
Period size: 53 Copynumber: 2.7 Consensus size: 56
12764570 AGCATCGATG
12764580 GGTAAAATGATCGAAATACCCTCGAT-GGGTAAAATGACT-AAAATA-CCCCATAA
1 GGTAAAATGATCGAAATACCCTCGATAGGGTAAAATGACTCAAAATACCCCCATAA
* * * *
12764633 GGTAAAATGATCGAAATACCCCCG-TAAGGTAGAAT-A-TCAAAATACCCCCATAG
1 GGTAAAATGATCGAAATACCCTCGATAGGGTAAAATGACTCAAAATACCCCCATAA
* *
12764686 GGTAAAATGATC-ATAGTACCCT-TATAGGGTAAAATGACT
1 GGTAAAATGATCGA-AATACCCTCGATAGGGTAAAATGACT
12764725 GTAATGCCCT
Statistics
Matches: 76, Mismatches: 9, Indels: 12
0.78 0.09 0.12
Matches are distributed among these distances:
51 1 0.01
52 9 0.12
53 64 0.84
54 1 0.01
55 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.22
Consensus pattern (56 bp):
GGTAAAATGATCGAAATACCCTCGATAGGGTAAAATGACTCAAAATACCCCCATAA
Found at i:12764649 original size:26 final size:27
Alignment explanation
Indices: 12764580--12764722 Score: 132
Period size: 27 Copynumber: 5.4 Consensus size: 27
12764570 AGCATCGATG
* * *
12764580 GGTAAAATGATCGAAATACCCTCGAT-G
1 GGTAAAATGATCAAAATACCC-CCATAA
12764607 GGTAAAATGA-CTAAAATA-CCCCATAA
1 GGTAAAATGATC-AAAATACCCCCATAA
* *
12764633 GGTAAAATGATCGAAATACCCCCGTAA
1 GGTAAAATGATCAAAATACCCCCATAA
* *
12764660 GGTAGAAT-ATCAAAATACCCCCATAG
1 GGTAAAATGATCAAAATACCCCCATAA
* * ** *
12764686 GGTAAAATGATCATAGTACCCTTATAG
1 GGTAAAATGATCAAAATACCCCCATAA
12764713 GGTAAAATGA
1 GGTAAAATGA
12764723 CTGTAATGCC
Statistics
Matches: 97, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
25 3 0.03
26 40 0.41
27 54 0.56
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.22
Consensus pattern (27 bp):
GGTAAAATGATCAAAATACCCCCATAA
Found at i:12764734 original size:27 final size:27
Alignment explanation
Indices: 12764673--12764788 Score: 117
Period size: 27 Copynumber: 4.3 Consensus size: 27
12764663 AGAATATCAA
** *
12764673 AATACCCCCATAGGGTAAAATGA-TCAT
1 AATACCCTTATAGGGTAAAATGACT-GT
*
12764700 AGTACCCTTATAGGGTAAAATGACTGT
1 AATACCCTTATAGGGTAAAATGACTGT
* *
12764727 AATGCCCTTGTAGGGTAAAATGACTGT
1 AATACCCTTATAGGGTAAAATGACTGT
* * * *
12764754 AATACCCCTGTAAGGTAAAATGACCGT
1 AATACCCTTATAGGGTAAAATGACTGT
*
12764781 AATGCCCT
1 AATACCCT
12764789 GGTGTGTAAA
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
27 74 0.99
28 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (27 bp):
AATACCCTTATAGGGTAAAATGACTGT
Found at i:12764899 original size:24 final size:24
Alignment explanation
Indices: 12764851--12764905 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
12764841 TGGTTAAATA
* *
12764851 ACTGATTTGTCTGTGTTTGGTATG
1 ACTGATTTGTCTATGTTTGGAATG
*
12764875 ATTGATTTGTCTATGATTT-GAATG
1 ACTGATTTGTCTATG-TTTGGAATG
12764899 ACTGATT
1 ACTGATT
12764906 CTAAGCATGG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.20, C:0.07, G:0.24, T:0.49
Consensus pattern (24 bp):
ACTGATTTGTCTATGTTTGGAATG
Found at i:12765098 original size:32 final size:32
Alignment explanation
Indices: 12765053--12765180 Score: 143
Period size: 32 Copynumber: 4.0 Consensus size: 32
12765043 GCTGTGAACC
* * *
12765053 TACTGATGACTTTGTGCCGATCATAGT-ACCGT
1 TACTGATGGCTTTGTGCCAATCATA-TCACTGT
*
12765085 TACTGATGGCTTTGTGCCAATCATTTCACTGT
1 TACTGATGGCTTTGTGCCAATCATATCACTGT
* *
12765117 TACTGATGG-TTGTGTGCCGATCATATCACTGC
1 TACTGATGGCTT-TGTGCCAATCATATCACTGT
* * *
12765149 TACTGATGGTTTTGTGCCAATCACATTACTGT
1 TACTGATGGCTTTGTGCCAATCATATCACTGT
12765181 GCTTATGGCT
Statistics
Matches: 82, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
31 3 0.04
32 77 0.94
33 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCAATCATATCACTGT
Found at i:12777371 original size:32 final size:32
Alignment explanation
Indices: 12777332--12777398 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
12777322 TATGATCCTC
12777332 GGTGGTCACATGTAACACTCCATATCCCATCT
1 GGTGGTCACATGTAACACTCCATATCCCATCT
12777364 GGTGGTCACATGTAACACTCCATATCCCATCT
1 GGTGGTCACATGTAACACTCCATATCCCATCT
12777396 GGT
1 GGT
12777399 TGCCCCAATC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (32 bp):
GGTGGTCACATGTAACACTCCATATCCCATCT
Found at i:12783666 original size:27 final size:28
Alignment explanation
Indices: 12783628--12783688 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
12783618 ATTGCAAACA
* *
12783628 TAGTTCGCC-AAAACTCATTTGTGAACT
1 TAGTTCGCCAAAAACACATTTGTGAACC
*
12783655 TAGTTCGCCAAAAACACATTTGTGAGCC
1 TAGTTCGCCAAAAACACATTTGTGAACC
12783683 TAGTTC
1 TAGTTC
12783689 ACCCCAACAC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 9 0.30
28 21 0.70
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (28 bp):
TAGTTCGCCAAAAACACATTTGTGAACC
Found at i:12788193 original size:20 final size:21
Alignment explanation
Indices: 12788157--12788195 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
12788147 AAAATTGTTT
*
12788157 GTCTAATCTAGGTCTAACCAA
1 GTCTAATCTAAGTCTAACCAA
12788178 GTCTAA-CTAAGTCTAACC
1 GTCTAATCTAAGTCTAACC
12788196 CATTCTGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (21 bp):
GTCTAATCTAAGTCTAACCAA
Found at i:12790197 original size:15 final size:15
Alignment explanation
Indices: 12790177--12790213 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
12790167 TGGTCCAAAT
12790177 TGGCCTCATTATTGG
1 TGGCCTCATTATTGG
12790192 TGGCCTCATTATTGG
1 TGGCCTCATTATTGG
*
12790207 CGGCCTC
1 TGGCCTC
12790214 GATAAAGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.11, C:0.27, G:0.27, T:0.35
Consensus pattern (15 bp):
TGGCCTCATTATTGG
Found at i:12796134 original size:22 final size:21
Alignment explanation
Indices: 12796104--12796159 Score: 53
Period size: 23 Copynumber: 2.6 Consensus size: 21
12796094 AGATTTCATA
*
12796104 TATTCTATTATTTGA-TTTCTAG
1 TATTTTATTATTT-ATTTTCT-G
12796126 TGA-TTTATTTATTTATTTTCTG
1 T-ATTTTA-TTATTTATTTTCTG
12796148 TATTTTATTATT
1 TATTTTATTATT
12796160 ATTAGTAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
21 6 0.21
22 11 0.38
23 12 0.41
ACGTcount: A:0.21, C:0.05, G:0.07, T:0.66
Consensus pattern (21 bp):
TATTTTATTATTTATTTTCTG
Found at i:12803768 original size:26 final size:26
Alignment explanation
Indices: 12803737--12803946 Score: 114
Period size: 29 Copynumber: 7.5 Consensus size: 26
12803727 CTTAAAAAAA
*
12803737 GCCTTTGTGGCTATCTCTGGAAGGAT
1 GCCTTTGTGGCTATCTCTGAAAGGAT
* *
12803763 GTCTTTGTGGTTATCTCTGAAAGGAT
1 GCCTTTGTGGCTATCTCTGAAAGGAT
* * *
12803789 GCCTTTGTGACTATCTCTATTAAAAGGAA
1 GCCTTTGTGGCTATCTC---TGAAAGGAT
* * * * *
12803818 GACATTGTGGCAATCTCTGTTAAAAAGAA
1 GCCTTTGTGGCTATCTCTG---AAAGGAT
* *
12803847 GCCTTTGTGGCAATCTCTGTTAAAAGGAA
1 GCCTTTGTGGCTATCTCTG---AAAGGAT
* * *
12803876 GCGTTTGTGGCTATCTCTTCTAAAAGGAA
1 GCCTTTGTGGCTA--TC-TCTGAAAGGAT
* * *
12803905 GCGTTTGTGGCTATCTCTTCTAAAAGGGT
1 GCCTTTGTGGCTA--TC-TCTGAAAGGAT
12803934 GCCTTTGTGGCTA
1 GCCTTTGTGGCTA
12803947 ACTTAGTTAA
Statistics
Matches: 152, Mismatches: 23, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
26 38 0.25
29 109 0.72
31 2 0.01
32 3 0.02
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.35
Consensus pattern (26 bp):
GCCTTTGTGGCTATCTCTGAAAGGAT
Found at i:12803825 original size:29 final size:28
Alignment explanation
Indices: 12803766--12803946 Score: 170
Period size: 29 Copynumber: 6.4 Consensus size: 28
12803756 GAAGGATGTC
* * * *
12803766 TTTGTGGTTATCTC--TGAAAGGATGCC
1 TTTGTGGCTATCTCTTTAAAAGGAAGCG
*
12803792 TTTGTGACTATCTCTATTAAAAGGAAGAC-
1 TTTGTGGCTATCTCT-TTAAAAGGAAG-CG
* * * *
12803821 ATTGTGGCAATCTCTGTTAAAAAGAAGCC
1 TTTGTGGCTATCTCT-TTAAAAGGAAGCG
*
12803850 TTTGTGGCAATCTCTGTTAAAAGGAAGCG
1 TTTGTGGCTATCTCT-TTAAAAGGAAGCG
12803879 TTTGTGGCTATCTCTTCTAAAAGGAAGCG
1 TTTGTGGCTATCTCTT-TAAAAGGAAGCG
** *
12803908 TTTGTGGCTATCTCTTCTAAAAGGGTGCC
1 TTTGTGGCTATCTCTT-TAAAAGGAAGCG
12803937 TTTGTGGCTA
1 TTTGTGGCTA
12803947 ACTTAGTTAA
Statistics
Matches: 133, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
26 12 0.09
28 2 0.02
29 118 0.89
30 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (28 bp):
TTTGTGGCTATCTCTTTAAAAGGAAGCG
Found at i:12803941 original size:58 final size:58
Alignment explanation
Indices: 12803735--12804001 Score: 198
Period size: 58 Copynumber: 4.7 Consensus size: 58
12803725 TTCTTAAAAA
** * * *
12803735 AAGCCTTTGTGGCTATCTC---TGGAAGGATGTCTTTGTGGTTATCTCTG---AAAGG
1 AAGCCTTTGTGGCTATCTCTATTAAAAGGAAGCCTTTGTGGCTATCTCTGTTAAAAGG
* * * * * *
12803787 ATGCCTTTGTGACTATCTCTATTAAAAGGAAGACATTGTGGCAATCTCTGTTAAAAAG
1 AAGCCTTTGTGGCTATCTCTATTAAAAGGAAGCCTTTGTGGCTATCTCTGTTAAAAGG
* * *
12803845 AAGCCTTTGTGGCAATCTCTGTTAAAAGGAAGCGTTTGTGGCTATCTCT-TCTAAAAGG
1 AAGCCTTTGTGGCTATCTCTATTAAAAGGAAGCCTTTGTGGCTATCTCTGT-TAAAAGG
* ** * *
12803903 AAGCGTTTGTGGCTATCTCT-TCTAAAAGGGTGCCTTTGTGGCTAACT-TAGTT-AAATG
1 AAGCCTTTGTGGCTATCTCTAT-TAAAAGGAAGCCTTTGTGGCTATCTCT-GTTAAAAGG
* * * *
12803960 AATGTC-TTGTGGC-AGACTCTATTAAAAGGATGTCTTTGTGGC
1 AA-GCCTTTGTGGCTA-TCTCTATTAAAAGGAAGCCTTTGTGGC
12804002 AAAACTCTAA
Statistics
Matches: 171, Mismatches: 31, Indels: 21
0.77 0.14 0.09
Matches are distributed among these distances:
52 17 0.10
55 21 0.12
56 1 0.01
57 38 0.22
58 93 0.54
59 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (58 bp):
AAGCCTTTGTGGCTATCTCTATTAAAAGGAAGCCTTTGTGGCTATCTCTGTTAAAAGG
Found at i:12803957 original size:87 final size:87
Alignment explanation
Indices: 12803782--12803944 Score: 206
Period size: 87 Copynumber: 1.9 Consensus size: 87
12803772 GTTATCTCTG
*
12803782 AAAGGATGCCTTTGTGACTATCTCTATTAAAAGGAAGACATTGTGGCAATCTCTGTTAAAAAGAA
1 AAAGGAAGCCTTTGTGACTATCTCTATTAAAAGGAAGACATTGTGGCAATCTCTGTTAAAAAGAA
12803847 GCCTTTGTGGCAATCTCTGTTA
66 GCCTTTGTGGCAATCTCTGTTA
* * * * *
12803869 AAAGGAAGCGTTTGTGGCTATCTCT-TCTAAAAGGAAG-CGTTTGTGGCTATCTCT-TCTAAAAG
1 AAAGGAAGCCTTTGTGACTATCTCTAT-TAAAAGGAAGAC-ATTGTGGCAATCTCTGT-TAAAAA
**
12803931 GGTGCCTTTGTGGC
63 GAAGCCTTTGTGGC
12803945 TAACTTAGTT
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
86 3 0.05
87 62 0.95
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.33
Consensus pattern (87 bp):
AAAGGAAGCCTTTGTGACTATCTCTATTAAAAGGAAGACATTGTGGCAATCTCTGTTAAAAAGAA
GCCTTTGTGGCAATCTCTGTTA
Found at i:12806870 original size:13 final size:13
Alignment explanation
Indices: 12806852--12806878 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
12806842 TATTCTTAAT
12806852 TTGGGACAATTTC
1 TTGGGACAATTTC
12806865 TTGGGACAATTTC
1 TTGGGACAATTTC
12806878 T
1 T
12806879 CTTAATTTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.41
Consensus pattern (13 bp):
TTGGGACAATTTC
Found at i:12807914 original size:33 final size:33
Alignment explanation
Indices: 12807872--12807937 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
12807862 TAATGGTTTT
12807872 GCCTTTACCAACGGATTCCTGAAACCTACTGGC
1 GCCTTTACCAACGGATTCCTGAAACCTACTGGC
*
12807905 GCCTTTACCAACGGATTCCTGAAACCTGCTGGC
1 GCCTTTACCAACGGATTCCTGAAACCTACTGGC
12807938 TAGCTATCGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.23, C:0.33, G:0.20, T:0.24
Consensus pattern (33 bp):
GCCTTTACCAACGGATTCCTGAAACCTACTGGC
Found at i:12808047 original size:26 final size:26
Alignment explanation
Indices: 12808006--12808134 Score: 93
Period size: 26 Copynumber: 4.9 Consensus size: 26
12807996 CATCTTGACG
*
12808006 GACTACCCCATTTTTATTGTCCTAGCA
1 GACTA-CCCATGTTTATTGTCCTAGCA
* ** *
12808033 GACTATCCATGTTTAACGTCCTGGC-
1 GACTACCCATGTTTATTGTCCTAGCA
* *
12808058 GAACTACCACAT-TTTGTTGTCCCAGCA
1 G-ACTACC-CATGTTTATTGTCCTAGCA
* ** *
12808085 GACTATCCATGTTTATCATCCT-GGA
1 GACTACCCATGTTTATTGTCCTAGCA
12808110 GGACTACCCTATGTTTATTGTCCTA
1 -GACTACCC-ATGTTTATTGTCCTA
12808135 AAAAACTCCG
Statistics
Matches: 75, Mismatches: 20, Indels: 13
0.69 0.19 0.12
Matches are distributed among these distances:
25 6 0.08
26 48 0.64
27 21 0.28
ACGTcount: A:0.22, C:0.27, G:0.16, T:0.35
Consensus pattern (26 bp):
GACTACCCATGTTTATTGTCCTAGCA
Found at i:12808086 original size:52 final size:53
Alignment explanation
Indices: 12808007--12808132 Score: 157
Period size: 52 Copynumber: 2.4 Consensus size: 53
12807997 ATCTTGACGG
* * * *
12808007 ACTACCCCATTTTTATTGTCCTAGCAGACTATCCATGTTTAACGTCCTGGCGA
1 ACTACCACATTTTTATTGTCCCAGCAGACTATCCATGTTTAACATCCTGGAGA
* * *
12808060 ACTACCACA-TTTTGTTGTCCCAGCAGACTATCCATGTTTATCATCCTGGAGG
1 ACTACCACATTTTTATTGTCCCAGCAGACTATCCATGTTTAACATCCTGGAGA
*
12808112 ACTACC-CTATGTTTATTGTCC
1 ACTACCAC-ATTTTTATTGTCC
12808133 TAAAAAACTC
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
51 1 0.02
52 44 0.71
53 17 0.27
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (53 bp):
ACTACCACATTTTTATTGTCCCAGCAGACTATCCATGTTTAACATCCTGGAGA
Found at i:12808858 original size:9 final size:9
Alignment explanation
Indices: 12808844--12808868 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
12808834 AGCATTATAA
12808844 ACATGCAAT
1 ACATGCAAT
12808853 ACATGCAAT
1 ACATGCAAT
12808862 ACATGCA
1 ACATGCA
12808869 TTTCAATAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.24, G:0.12, T:0.20
Consensus pattern (9 bp):
ACATGCAAT
Found at i:12811042 original size:115 final size:113
Alignment explanation
Indices: 12810581--12811108 Score: 420
Period size: 113 Copynumber: 4.6 Consensus size: 113
12810571 AGTAATAGTG
* * * * *
12810581 AAGCGCCGCAAACTATCTGAACCAAAACACATCGTTTTGGTCTTGATTTATACTACAACTAGTGG
1 AAGCGCCGCAAAATATCTGAACCAAAACGCATCGTTTTGGTCTTGATGTATACTAGAATTAGTGG
** * * * *
12810646 CGCATACGGTCAAACGCCGGTAAAGAATAGTATTAGCAGCGATTTGTGTC
66 CG-ATTTGGT-AAACGCCGCTAAAGCATAGTATTAGCGGCGATTTGTGAC
* * * * * * * * * *
12810696 TAGCGCCGCAAAATATCTTAACAAAAACGCAGCGTTGTGATCTTAATGTACA-TAAAATTAGTGA
1 AAGCGCCGCAAAATATCTGAACCAAAACGCATCGTTTTGGTCTTGATGTATACTAGAATTAGTGG
* * * * * *
12810760 CGCTTATGGTAAACTGCCGCGAAAG-ATATTAATAGCGGCGCTTTGTGAG
66 CGATT-TGGTAAAC-GCCGCTAAAGCATAGTATTAGCGGCGATTTGTGAC
* * * ** * * * *
12810809 AAGCGCCGCAAAATATATTAACCAAAATGCATAATTTCGGCCTCGATGTATAGTAGAATTAGTGG
1 AAGCGCCGCAAAATATCTGAACCAAAACGCATCGTTTTGGTCTTGATGTATACTAGAATTAGTGG
* * * * * *
12810874 CG-CTTAGTGAAACGCCGTTAAAGCATAGTATTAGCGGCGCTTGGAT-AA
66 CGATTTGGT-AAACGCCGCTAAAGCATAGTATTAGCGGCGATTTG-TGAC
* * * *
12810922 AAGCGCCACCAAATATCTGAACCAAAACGCATCGTTTTGGTCTTGATGTATACTTGATTTAGTGG
1 AAGCGCCGCAAAATATCTGAACCAAAACGCATCGTTTTGGTCTTGATGTATACTAGAATTAGTGG
12810987 CGATTTCGGTAAAACGCCGCTAAAGCATAGTATTAGCGGCGATTTGTTG-C
66 CGATTT-GGT-AAACGCCGCTAAAGCATAGTATTAGCGGCGATTTG-TGAC
* * * * * * * * *
12811037 TAGCGCCGCGACATACCAT-AAACAAAACGCAACGTTTTGGTCTTAATTTATACTAAAATTAGTG
1 AAGCGCCGCAAAATATC-TGAACCAAAACGCATCGTTTTGGTCTTGATGTATACTAGAATTAGTG
*
12811101 GCGCTTTG
65 GCGATTTG
12811109 TTGAAAGCGC
Statistics
Matches: 320, Mismatches: 83, Indels: 21
0.75 0.20 0.05
Matches are distributed among these distances:
112 11 0.03
113 138 0.43
114 38 0.12
115 132 0.41
116 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.27
Consensus pattern (113 bp):
AAGCGCCGCAAAATATCTGAACCAAAACGCATCGTTTTGGTCTTGATGTATACTAGAATTAGTGG
CGATTTGGTAAACGCCGCTAAAGCATAGTATTAGCGGCGATTTGTGAC
Found at i:12811353 original size:90 final size:89
Alignment explanation
Indices: 12811200--12811395 Score: 365
Period size: 90 Copynumber: 2.2 Consensus size: 89
12811190 AATCATATTT
12811200 GGTTTAGGTATAGGGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGT-TAGGGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
12811265 TTTAAAGTTTAGGGTTTACGATGTA
65 TTTAAAGTTTAGGGTTTACGATGTA
12811290 GGTTTAGAGTTAGGGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAG-GTTAGGGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
12811355 TTTAAAGTTTAGGGTTTACGATGTA
65 TTTAAAGTTTAGGGTTTACGATGTA
12811380 GGTTTAGGGTTAGGGT
1 GGTTTA-GGTTAGGGT
12811396 GTTAATTTAG
Statistics
Matches: 104, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
90 101 0.97
91 3 0.03
ACGTcount: A:0.27, C:0.03, G:0.28, T:0.43
Consensus pattern (89 bp):
GGTTTAGGTTAGGGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAGT
TTAAAGTTTAGGGTTTACGATGTA
Found at i:12811550 original size:7 final size:7
Alignment explanation
Indices: 12811540--12811616 Score: 55
Period size: 7 Copynumber: 10.3 Consensus size: 7
12811530 GGTTATTGGT
12811540 TTTAGGG
1 TTTAGGG
12811547 TTTAGGG
1 TTTAGGG
12811554 TTTAGGG
1 TTTAGGG
* *
12811561 TTTAACGA
1 TTT-AGGG
*
12811569 TTTAGCAGC
1 TTTAG--GG
* **
12811578 TTAAGAT
1 TTTAGGG
12811585 TTTAGGG
1 TTTAGGG
12811592 TTTAGAGG
1 TTTAG-GG
12811600 TTTAGAGG
1 TTTAG-GG
12811608 TTTAGGG
1 TTTAGGG
12811615 TT
1 TT
12811617 AAATCCCAAA
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
7 31 0.55
8 20 0.36
9 5 0.09
ACGTcount: A:0.22, C:0.04, G:0.32, T:0.42
Consensus pattern (7 bp):
TTTAGGG
Found at i:12811555 original size:15 final size:15
Alignment explanation
Indices: 12811537--12811616 Score: 56
Period size: 16 Copynumber: 5.3 Consensus size: 15
12811527 TCTGGTTATT
12811537 GGTTTTAGGGTTTAG
1 GGTTTTAGGGTTTAG
*
12811552 GG-TTTAGGGTTTAA
1 GGTTTTAGGGTTTAG
* * * * *
12811566 CGATTTAGCAGCTTAA
1 GGTTTTAG-GGTTTAG
*
12811582 GATTTTAGGGTTTAG
1 GGTTTTAGGGTTTAG
12811597 AGG-TTTAGAGGTTTAG
1 -GGTTTTAG-GGTTTAG
12811613 GGTT
1 GGTT
12811617 AAATCCCAAA
Statistics
Matches: 49, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
14 12 0.24
15 18 0.37
16 19 0.39
ACGTcount: A:0.21, C:0.04, G:0.34, T:0.41
Consensus pattern (15 bp):
GGTTTTAGGGTTTAG
Found at i:12812633 original size:22 final size:22
Alignment explanation
Indices: 12812607--12812653 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
12812597 ACTATTCCGA
*
12812607 TTAAATATGTAAGGCGTTTCTG
1 TTAAATAGGTAAGGCGTTTCTG
12812629 TTAAATAGGTAAGGCGTTTCTG
1 TTAAATAGGTAAGGCGTTTCTG
12812651 TTA
1 TTA
12812654 TTACAGCCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (22 bp):
TTAAATAGGTAAGGCGTTTCTG
Found at i:12813034 original size:36 final size:36
Alignment explanation
Indices: 12812992--12813107 Score: 105
Period size: 36 Copynumber: 3.2 Consensus size: 36
12812982 GTTATTATGT
12812992 TCTGAAATATGCTTTGGATTTGAAATAATTTCTGAG
1 TCTGAAATATGCTTTGGATTTGAAATAATTTCTGAG
* *** * * *
12813028 TCTGAAATA--ATTT-G-TTTTTTATTATGTTTTTATG
1 TCTGAAATATGCTTTGGATTTGAAATAAT-TTCTGA-G
*
12813062 TTCTGAAATATGCTTTGGATTTGAAATAATTTCTGGG
1 -TCTGAAATATGCTTTGGATTTGAAATAATTTCTGAG
12813099 TCTGAAATA
1 TCTGAAATA
12813108 ATTTGTTTTT
Statistics
Matches: 58, Mismatches: 15, Indels: 14
0.67 0.17 0.16
Matches are distributed among these distances:
32 7 0.12
33 5 0.09
34 4 0.07
35 9 0.16
36 18 0.31
37 4 0.07
38 4 0.07
39 7 0.12
ACGTcount: A:0.28, C:0.07, G:0.17, T:0.47
Consensus pattern (36 bp):
TCTGAAATATGCTTTGGATTTGAAATAATTTCTGAG
Found at i:12813061 original size:71 final size:71
Alignment explanation
Indices: 12812959--12813159 Score: 341
Period size: 71 Copynumber: 2.8 Consensus size: 71
12812949 TGAGTGGATT
12812959 TGAAATAATTTGTTTTTGATTATGTTATTATGTTCTGAAATATGCTTTGGATTTGAAATAATTTC
1 TGAAATAATTTGTTTTTGATTATGTTATTATGTTCTGAAATATGCTTTGGATTTGAAATAATTTC
12813024 TGAGTC
66 TGAGTC
* *
12813030 TGAAATAATTTGTTTTTTATTATGTTTTTATGTTCTGAAATATGCTTTGGATTTGAAATAATTTC
1 TGAAATAATTTGTTTTTGATTATGTTATTATGTTCTGAAATATGCTTTGGATTTGAAATAATTTC
*
12813095 TGGGTC
66 TGAGTC
* *
12813101 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAATTATGCTTTGG-TTCTGAAAT
1 TGAAATAATTTGTTTTTGATTATGTTATTATGTTCTGAAATATGCTTTGGATT-TGAAAT
12813160 CTGGATCTGG
Statistics
Matches: 123, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
70 2 0.02
71 121 0.98
ACGTcount: A:0.26, C:0.05, G:0.17, T:0.51
Consensus pattern (71 bp):
TGAAATAATTTGTTTTTGATTATGTTATTATGTTCTGAAATATGCTTTGGATTTGAAATAATTTC
TGAGTC
Done.