Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold167
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: 4199719
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.33
Warning! 197959 characters in sequence are not A, C, G, or T
File 18 of 22
Found at i:2960335 original size:19 final size:20
Alignment explanation
Indices: 2960293--2960335 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
2960283 CGGATTATTT
* *
2960293 GTTTTGTTTTGATTTAGTTA
1 GTTTTATTTTGAGTTAGTTA
2960313 -TTTTATTTTGAGTTAG-TA
1 GTTTTATTTTGAGTTAGTTA
2960331 GTTTT
1 GTTTT
2960336 GTTTGCTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.16, C:0.00, G:0.19, T:0.65
Consensus pattern (20 bp):
GTTTTATTTTGAGTTAGTTA
Found at i:2961842 original size:2 final size:2
Alignment explanation
Indices: 2961830--2961864 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
2961820 AAAACTTAAT
2961830 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2961865 GAACTTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2966791 original size:54 final size:54
Alignment explanation
Indices: 2966709--2966814 Score: 176
Period size: 54 Copynumber: 2.0 Consensus size: 54
2966699 CCATATTAAT
* * *
2966709 TGCTTGCCAAGGCTTGTATTACTATATGCATATATCTATAAATATATATATACA
1 TGCTTGCCAAGACTTGTATCACTATATGCATATATATATAAATATATATATACA
*
2966763 TGCTTGCCAAGACTTGTATCACTATATGCATATATATATATATATATATATA
1 TGCTTGCCAAGACTTGTATCACTATATGCATATATATATAAATATATATATA
2966815 TATAAGTACT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (54 bp):
TGCTTGCCAAGACTTGTATCACTATATGCATATATATATAAATATATATATACA
Found at i:2966799 original size:2 final size:2
Alignment explanation
Indices: 2966792--2966818 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2966782 CACTATATGC
2966792 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2966819 AGTACTATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2971320 original size:113 final size:113
Alignment explanation
Indices: 2971122--2971350 Score: 354
Period size: 113 Copynumber: 2.0 Consensus size: 113
2971112 CAAAGGTTGA
* *
2971122 TTTTGTCTATTAATTAAATGTTGACTCATGCAGTCATACTTGTATAGTTGTGTTTGTTATTTTAG
1 TTTTGTCTATAAACTAAATGTTGACTCATGCAGTCATACTTGTATAGTTGTGTTTGTTATTTTAG
*
2971187 ACTTTATTAATCAAGAGCTCTTCTTATTCCTTC-TGAAAACCG-TAAGAG
66 ACTTTATTAATCAAGAGCTCTCCTTATTCC-TCGTGAAAA-CGTTAAGAG
* *
2971235 TTTTGTCTATAAACTAAATGTTGACTCATTCAGTCATACTTGTATAGTTGTGTTTGTTATTTTGG
1 TTTTGTCTATAAACTAAATGTTGACTCATGCAGTCATACTTGTATAGTTGTGTTTGTTATTTTAG
* **
2971300 ACTTTGTTAATGGAGAGCTCTCCTTATTCCTCGTGAAAACGTTAAGAG
66 ACTTTATTAATCAAGAGCTCTCCTTATTCCTCGTGAAAACGTTAAGAG
2971348 TTT
1 TTT
2971351 AAATGCAATA
Statistics
Matches: 106, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
112 4 0.04
113 102 0.96
ACGTcount: A:0.25, C:0.14, G:0.17, T:0.44
Consensus pattern (113 bp):
TTTTGTCTATAAACTAAATGTTGACTCATGCAGTCATACTTGTATAGTTGTGTTTGTTATTTTAG
ACTTTATTAATCAAGAGCTCTCCTTATTCCTCGTGAAAACGTTAAGAG
Found at i:2974214 original size:13 final size:13
Alignment explanation
Indices: 2974196--2974220 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2974186 CATAAAATGT
2974196 TGTATCGATACAA
1 TGTATCGATACAA
2974209 TGTATCGATACA
1 TGTATCGATACA
2974221 TATTTTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2974218 original size:33 final size:33
Alignment explanation
Indices: 2974176--2974245 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
2974166 TTCAACGATT
*
2974176 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTATATCGATACAA
*** *
2974209 TGTATCGATACATATTTTTTTATATCGATACAA
1 TGTATCGATACATAAAATGTTATATCGATACAA
2974242 TGTA
1 TGTA
2974246 AGCTACTGCC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTATATCGATACAA
Found at i:2974283 original size:13 final size:13
Alignment explanation
Indices: 2974265--2974289 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2974255 CAAAAAAAAA
2974265 TGTATCGATACAT
1 TGTATCGATACAT
2974278 TGTATCGATACA
1 TGTATCGATACA
2974290 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2978847 original size:2 final size:2
Alignment explanation
Indices: 2978840--2978874 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2978830 ATTGGTAATA
2978840 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
2978875 AATTGTAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2979383 original size:12 final size:12
Alignment explanation
Indices: 2979366--2979390 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2979356 GTGATCTGTA
2979366 TAAATTAAATTT
1 TAAATTAAATTT
2979378 TAAATTAAATTT
1 TAAATTAAATTT
2979390 T
1 T
2979391 TATAAATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAAATTAAATTT
Found at i:2980519 original size:14 final size:14
Alignment explanation
Indices: 2980496--2980528 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
2980486 ATTAACGATC
2980496 ATCT-TTAAATTTA
1 ATCTATTAAATTTA
2980509 ATCTATTAAATTTA
1 ATCTATTAAATTTA
2980523 ATCTAT
1 ATCTAT
2980529 GTCAAACACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (14 bp):
ATCTATTAAATTTA
Found at i:2980678 original size:2 final size:2
Alignment explanation
Indices: 2980661--2980709 Score: 82
Period size: 2 Copynumber: 25.0 Consensus size: 2
2980651 AAATTTTAAA
*
2980661 AT AT -T AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2980702 AT AT AT AT
1 AT AT AT AT
2980710 GTTAAAAGAC
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:2985907 original size:15 final size:16
Alignment explanation
Indices: 2985882--2985917 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
2985872 TATCAATATA
2985882 AATTATAATTTAAATT
1 AATTATAATTTAAATT
2985898 AATT-TAATTTAAATT
1 AATTATAATTTAAATT
2985913 -ATTAT
1 AATTAT
2985918 TATAAAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 3 0.16
15 12 0.63
16 4 0.21
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AATTATAATTTAAATT
Found at i:2989516 original size:28 final size:29
Alignment explanation
Indices: 2989453--2989516 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 29
2989443 TTGCTATCAT
* * *
2989453 TTCAAAAGTATAATAACTAAGATACTAAC
1 TTCAATAGTATAAGAACTAAAATACTAAC
*
2989482 TTTAATAGTAT-AGAACTAAAATACTCAA-
1 TTCAATAGTATAAGAACTAAAATACT-AAC
2989510 TTCAATA
1 TTCAATA
2989517 TAGTACAGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
28 18 0.62
29 11 0.38
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.31
Consensus pattern (29 bp):
TTCAATAGTATAAGAACTAAAATACTAAC
Found at i:2992193 original size:24 final size:23
Alignment explanation
Indices: 2992166--2992213 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
2992156 TTAAAAAATA
*
2992166 AAATAT-AAAAATATAATTTTTTTT
1 AAATATGAAAAA-A-AATTATTTTT
2992190 AAATATGAAAAAAAATTATTTTT
1 AAATATGAAAAAAAATTATTTTT
2992213 A
1 A
2992214 TGTTTAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 10 0.45
24 7 0.32
25 5 0.23
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (23 bp):
AAATATGAAAAAAAATTATTTTT
Found at i:2997163 original size:24 final size:24
Alignment explanation
Indices: 2997130--2997183 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
2997120 ATTAAAAATA
*
2997130 ATTAAAATTTTATATTATAAATTT
1 ATTAATATTTTATATTATAAATTT
* **
2997154 ATTAATATTTTATTTTATATTTTT
1 ATTAATATTTTATATTATAAATTT
2997178 ATTAAT
1 ATTAAT
2997184 TTATAATTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
ATTAATATTTTATATTATAAATTT
Found at i:2997185 original size:22 final size:23
Alignment explanation
Indices: 2997134--2997199 Score: 64
Period size: 24 Copynumber: 2.9 Consensus size: 23
2997124 AAAATAATTA
* **
2997134 AAATTTTATATTATAAATTTATT
1 AAATTTTATTTTATATTTTTATT
2997157 AATATTTTATTTTATATTTTTATT
1 AA-ATTTTATTTTATATTTTTATT
*
2997181 -AATTTATAATTTA-ATTTTT
1 AAATTT-TATTTTATATTTTT
2997200 TAAAATATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 10 0.27
23 9 0.24
24 18 0.49
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
AAATTTTATTTTATATTTTTATT
Found at i:2997208 original size:20 final size:20
Alignment explanation
Indices: 2997185--2997229 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
2997175 TTTATTAATT
* * *
2997185 TATAATTTAATTTTTTAAAA
1 TATAATATAAATTATTAAAA
*
2997205 TATAATATAAATTATTAATA
1 TATAATATAAATTATTAAAA
2997225 TATAA
1 TATAA
2997230 ATTAGGTTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TATAATATAAATTATTAAAA
Found at i:2998000 original size:21 final size:21
Alignment explanation
Indices: 2997976--2998017 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2997966 TACTTAATTT
*
2997976 TTTATTTGATATATTTTAAAA
1 TTTATTTGAAATATTTTAAAA
* *
2997997 TTTATTTTAAATTTTTTAAAA
1 TTTATTTGAAATATTTTAAAA
2998018 ATATTTTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TTTATTTGAAATATTTTAAAA
Found at i:2998022 original size:20 final size:21
Alignment explanation
Indices: 2997989--2998027 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
2997979 ATTTGATATA
*
2997989 TTTTAAAATTTATTTTAAATT
1 TTTTAAAATATATTTTAAATT
2998010 TTTTAAAA-ATATTTTAAA
1 TTTTAAAATATATTTTAAA
2998028 AAATTTTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTTAAAATATATTTTAAATT
Found at i:2998033 original size:10 final size:11
Alignment explanation
Indices: 2997986--2998035 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
2997976 TTTATTTGAT
2997986 ATATTTTAAAA
1 ATATTTTAAAA
*
2997997 TTTATTTT--AA
1 -ATATTTTAAAA
*
2998007 ATTTTTTAAAA
1 ATATTTTAAAA
2998018 ATATTTTAAAA
1 ATATTTTAAAA
2998029 A-ATTTTA
1 ATATTTTA
2998036 TCTAATATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
9 5 0.16
10 8 0.25
11 13 0.41
12 6 0.19
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
ATATTTTAAAA
Found at i:2998717 original size:19 final size:20
Alignment explanation
Indices: 2998674--2998722 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
2998664 ACTAAAAATT
*
2998674 TTAATATTAATATAAATAAA
1 TTAATATTTATATAAATAAA
* *
2998694 ATAATATTTAT-TAATTAAA
1 TTAATATTTATATAAATAAA
2998713 TTAATATTTA
1 TTAATATTTA
2998723 AAATAATTCG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TTAATATTTATATAAATAAA
Found at i:2999473 original size:20 final size:20
Alignment explanation
Indices: 2999448--2999513 Score: 53
Period size: 20 Copynumber: 3.1 Consensus size: 20
2999438 ATAAAATTAA
2999448 AAAATTGTATTAATTAAATT
1 AAAATTGTATTAATTAAATT
** *
2999468 AAAATT-TAAAATATTATATTT
1 AAAATTGTATTA-ATTA-AATT
*
2999489 AAAATTTGAATTAAATTAAATT
1 AAAA-TTGTATT-AATTAAATT
2999511 AAA
1 AAA
2999514 CTTATCAAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 8
0.69 0.14 0.16
Matches are distributed among these distances:
19 3 0.09
20 10 0.29
21 7 0.21
22 8 0.24
23 5 0.15
24 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (20 bp):
AAAATTGTATTAATTAAATT
Found at i:2999476 original size:29 final size:29
Alignment explanation
Indices: 2999432--2999487 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
2999422 TAGATATCTT
*
2999432 TTAAATATAAAATTAAAAAATTGTATTAA
1 TTAAATATAAAATTAAAAAATTATATTAA
*
2999461 TTAAAT-TAAAATTTAAAATATTATATT
1 TTAAATATAAAA-TTAAAAAATTATATT
2999488 TAAAATTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 5 0.21
29 19 0.79
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (29 bp):
TTAAATATAAAATTAAAAAATTATATTAA
Found at i:3009779 original size:19 final size:20
Alignment explanation
Indices: 3009755--3009807 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
3009745 ATAATTACAT
3009755 AAATATATAAAATTA-ATTA
1 AAATATATAAAATTATATTA
*
3009774 AAATATAATAAAAATATATTA
1 AAATAT-ATAAAATTATATTA
3009795 AAATGATA-AAAAT
1 AAAT-ATATAAAAT
3009808 AAATATGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 6 0.21
20 12 0.41
21 9 0.31
22 2 0.07
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (20 bp):
AAATATATAAAATTATATTA
Found at i:3009794 original size:21 final size:21
Alignment explanation
Indices: 3009755--3009836 Score: 69
Period size: 22 Copynumber: 3.9 Consensus size: 21
3009745 ATAATTACAT
*
3009755 AAATAT-ATAAAATTA-ATTA
1 AAATATAATAAAAATATATTA
3009774 AAATATAATAAAAATATATTA
1 AAATATAATAAAAATATATTA
* * *
3009795 AAATGATAAAAATAAATATGTTT
1 AAAT-ATAATAA-AAATATATTA
* *
3009818 ATATATAATATTAAATATA
1 AAATATAATA-AAAATATA
3009837 ATATAATAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
19 6 0.12
20 8 0.16
21 8 0.16
22 17 0.34
23 11 0.22
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (21 bp):
AAATATAATAAAAATATATTA
Found at i:3009846 original size:14 final size:13
Alignment explanation
Indices: 3009820--3009859 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
3009810 ATATGTTTAT
3009820 ATATAATAT-TAA
1 ATATAATATATAA
3009832 ATATAATATAATAA
1 ATATAATAT-ATAA
3009846 A-A-AATATATAA
1 ATATAATATATAA
3009857 ATA
1 ATA
3009860 AGTGTACGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 5 0.20
12 15 0.60
13 1 0.04
14 4 0.16
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
ATATAATATATAA
Found at i:3009850 original size:17 final size:17
Alignment explanation
Indices: 3009820--3009853 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
3009810 ATATGTTTAT
**
3009820 ATATAATATTAAATATA
1 ATATAATAAAAAATATA
3009837 ATATAATAAAAAATATA
1 ATATAATAAAAAATATA
3009854 TAAATAAGTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
ATATAATAAAAAATATA
Found at i:3010049 original size:20 final size:18
Alignment explanation
Indices: 3010007--3010042 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
3009997 ACACAATTAA
3010007 ATAATAAAAAAAATAAAT
1 ATAATAAAAAAAATAAAT
*
3010025 ATAATATAAAATAATAAA
1 ATAATA-AAAAAAATAAA
3010043 ATTTAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (18 bp):
ATAATAAAAAAAATAAAT
Found at i:3010080 original size:19 final size:19
Alignment explanation
Indices: 3010039--3010082 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
3010029 TATAAAATAA
* **
3010039 TAAAATTTAATTAATTTTT
1 TAAAATTTAATTAATATAG
3010058 TAAAATTTAATTAATATAG
1 TAAAATTTAATTAATATAG
3010077 TAAAAT
1 TAAAAT
3010083 ATATAAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
TAAAATTTAATTAATATAG
Found at i:3013134 original size:23 final size:23
Alignment explanation
Indices: 3013103--3013146 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
3013093 ACACCATTTG
*
3013103 AAGGTTTTTATCTTTCATGACCT
1 AAGGATTTTATCTTTCATGACCT
* *
3013126 AAGGATTTTATTTTTCTTGAC
1 AAGGATTTTATCTTTCATGAC
3013147 TCGTTTAGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.23, C:0.14, G:0.14, T:0.50
Consensus pattern (23 bp):
AAGGATTTTATCTTTCATGACCT
Found at i:3015135 original size:27 final size:27
Alignment explanation
Indices: 3015095--3015149 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
3015085 ATGGAGAAAG
*
3015095 TTTTTATCCTTTTTGCACAACCTTGAA
1 TTTTTATCCATTTTGCACAACCTTGAA
3015122 TTTTTATCCATTTTGCACAACCTTGAA
1 TTTTTATCCATTTTGCACAACCTTGAA
3015149 T
1 T
3015150 AACAGCAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.24, C:0.22, G:0.07, T:0.47
Consensus pattern (27 bp):
TTTTTATCCATTTTGCACAACCTTGAA
Found at i:3025727 original size:12 final size:12
Alignment explanation
Indices: 3025706--3025740 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
3025696 CTGCGGGTGA
3025706 AGAA-AAGAAAG
1 AGAAGAAGAAAG
*
3025717 AGAAGAAGAAAA
1 AGAAGAAGAAAG
3025729 AGAAGAAGAAAG
1 AGAAGAAGAAAG
3025741 CTGATCAGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 4 0.19
12 17 0.81
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (12 bp):
AGAAGAAGAAAG
Found at i:3027376 original size:14 final size:14
Alignment explanation
Indices: 3027344--3027392 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
3027334 AAATATGAGT
3027344 ATATATATAACATAA
1 ATATATAT-ACATAA
*
3027359 ATATATATACATAC
1 ATATATATACATAA
*
3027373 ATATATATAGATAA
1 ATATATATACATAA
*
3027387 TTATAT
1 ATATAT
3027393 TTTTATATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 22 0.73
15 8 0.27
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (14 bp):
ATATATATACATAA
Found at i:3027748 original size:12 final size:13
Alignment explanation
Indices: 3027731--3027760 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
3027721 TTTATGTATT
3027731 AAAAATTTT-TTA
1 AAAAATTTTGTTA
3027743 AAAAATTTTGTTA
1 AAAAATTTTGTTA
3027756 AAAAA
1 AAAAA
3027761 ATAAAGCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (13 bp):
AAAAATTTTGTTA
Found at i:3028551 original size:16 final size:16
Alignment explanation
Indices: 3028532--3028593 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
3028522 GAGATAAATA
3028532 TAAAAATATAATATTT
1 TAAAAATATAATATTT
* *
3028548 TAAATATATAAAATTT
1 TAAAAATATAATATTT
*
3028564 TTAAAAT-TAAATATATT
1 TAAAAATAT-AATAT-TT
*
3028581 CTAATAATATAAT
1 -TAAAAATATAAT
3028594 TAATAAATAT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
15 1 0.03
16 23 0.66
17 2 0.06
18 8 0.23
19 1 0.03
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TAAAAATATAATATTT
Found at i:3028619 original size:13 final size:13
Alignment explanation
Indices: 3028571--3028627 Score: 62
Period size: 13 Copynumber: 4.4 Consensus size: 13
3028561 TTTTTAAAAT
*
3028571 TAAATATATTCTAA
1 TAAATAT-TTTTAA
**
3028585 T-AATATAATTAA
1 TAAATATTTTTAA
3028597 TAAATATTTTTAA
1 TAAATATTTTTAA
*
3028610 TAAATATTTTAAA
1 TAAATATTTTTAA
3028623 TAAAT
1 TAAAT
3028628 CAATCGATCT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
12 4 0.11
13 31 0.86
14 1 0.03
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (13 bp):
TAAATATTTTTAA
Found at i:3028622 original size:22 final size:26
Alignment explanation
Indices: 3028569--3028624 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
3028559 AATTTTTAAA
3028569 ATTAAATATATTCTAATAATATAATT
1 ATTAAATATATTCTAATAATATAATT
* *
3028595 AATAAATAT-TTTTAATAA-AT-ATT
1 ATTAAATATATTCTAATAATATAATT
3028618 -TTAAATA
1 ATTAAATA
3028625 AATCAATCGA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 6 0.22
23 3 0.11
24 2 0.07
25 8 0.30
26 8 0.30
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (26 bp):
ATTAAATATATTCTAATAATATAATT
Found at i:3028729 original size:20 final size:21
Alignment explanation
Indices: 3028704--3028762 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 21
3028694 ATATAATACT
*
3028704 AATAATTTAATAT-TATTTTA
1 AATAATTTAATATAAATTTTA
3028724 AATAA--TAATATCAAATTTTA
1 AATAATTTAATAT-AAATTTTA
*
3028744 AATTAATTTAATTTAAATT
1 AA-TAATTTAATATAAATT
3028763 AAAAAAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
18 6 0.19
20 13 0.41
21 3 0.09
22 5 0.16
23 5 0.16
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
AATAATTTAATATAAATTTTA
Found at i:3029081 original size:7 final size:6
Alignment explanation
Indices: 3029060--3029094 Score: 61
Period size: 6 Copynumber: 5.7 Consensus size: 6
3029050 AATACTCAAG
3029060 TTTTCT TTTTCT TTTTCT TTTTCTT TTTTCT TTTT
1 TTTTCT TTTTCT TTTTCT TTTTC-T TTTTCT TTTT
3029095 GAATAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTCT
Found at i:3029920 original size:2 final size:2
Alignment explanation
Indices: 3029913--3029944 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
3029903 TATTATCTAA
3029913 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
3029945 ATATATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:3035172 original size:30 final size:30
Alignment explanation
Indices: 3035128--3035205 Score: 86
Period size: 31 Copynumber: 2.6 Consensus size: 30
3035118 ATAATAGTTG
* * *
3035128 AATTAATAAAAAATTAATTTAATTTATCAAA
1 AATTAATAATAAATTAATTAAATTAAT-AAA
3035159 AA-TAATAATAAATTAAATTAAATTAATAAA
1 AATTAATAATAAATT-AATTAAATTAATAAA
* *
3035189 AATTAATTATATATTAA
1 AATTAATAATAAATTAA
3035206 AAATTTTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
30 18 0.45
31 22 0.55
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (30 bp):
AATTAATAATAAATTAATTAAATTAATAAA
Found at i:3035206 original size:18 final size:18
Alignment explanation
Indices: 3035185--3035264 Score: 53
Period size: 18 Copynumber: 4.5 Consensus size: 18
3035175 ATTAAATTAA
3035185 TAAAAATTAATTATATAT
1 TAAAAATTAATTATATAT
*
3035203 TAAAAATTTTATTGATA-AT
1 TAAAAA-TTAATT-ATATAT
* *
3035222 TAATGAATT-TTTA-AT-T
1 TAA-AAATTAATTATATAT
*
3035238 TATAAAA-TAATTTTATAT
1 TA-AAAATTAATTATATAT
3035256 TAAAAATTA
1 TAAAAATTA
3035265 TATATTTTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 18
0.66 0.08 0.25
Matches are distributed among these distances:
15 1 0.02
16 8 0.17
17 8 0.17
18 13 0.28
19 12 0.26
20 5 0.11
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
TAAAAATTAATTATATAT
Found at i:3038655 original size:2 final size:2
Alignment explanation
Indices: 3038648--3038672 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3038638 AAATTACTTT
3038648 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
3038673 TATTTTCGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3039370 original size:20 final size:20
Alignment explanation
Indices: 3039347--3039386 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
3039337 TAATATTTTT
3039347 TATTTAAAT-TTAATTATAAA
1 TATTTAAATATTAA-TATAAA
3039367 TATTTAAATATTAATATAAA
1 TATTTAAATATTAATATAAA
3039387 AATAAAGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TATTTAAATATTAATATAAA
Found at i:3040398 original size:21 final size:20
Alignment explanation
Indices: 3040342--3040400 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
3040332 ATGAGTTTTT
3040342 TTAA-ATTTACACTAACTAAAA
1 TTAATATTTACA-TAA-TAAAA
* *
3040363 TTACTATTTAAATAATAAAA
1 TTAATATTTACATAATAAAA
*
3040383 TTTAATTTTTACATAATA
1 -TTAATATTTACATAATA
3040401 CATATGTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
20 5 0.16
21 20 0.65
22 6 0.19
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.42
Consensus pattern (20 bp):
TTAATATTTACATAATAAAA
Found at i:3040796 original size:2 final size:2
Alignment explanation
Indices: 3040789--3040836 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
3040779 TATCACAAGC
3040789 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3040831 AT AT AT
1 AT AT AT
3040837 TTCAAAGTAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3041009 original size:2 final size:2
Alignment explanation
Indices: 3040996--3041055 Score: 59
Period size: 2 Copynumber: 30.5 Consensus size: 2
3040986 TAGATATCTG
* * * * *
3040996 AT AT AT AC AT AT AT GT AT AT AT AT AC AT AT AT GT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
3041038 AT AA AT AT -T AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
3041056 ATAAAACATA
Statistics
Matches: 45, Mismatches: 12, Indels: 2
0.76 0.20 0.03
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.43
Consensus pattern (2 bp):
AT
Found at i:3041019 original size:18 final size:18
Alignment explanation
Indices: 3040996--3041055 Score: 86
Period size: 18 Copynumber: 3.4 Consensus size: 18
3040986 TAGATATCTG
3040996 ATATATACATATATGTAT
1 ATATATACATATATGTAT
3041014 ATATATACATATATGTAT
1 ATATATACATATATGTAT
* * *
3041032 AAATATATAAATAT-TAT
1 ATATATACATATATGTAT
3041049 ATATATA
1 ATATATA
3041056 ATAAAACATA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
17 9 0.24
18 29 0.76
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.43
Consensus pattern (18 bp):
ATATATACATATATGTAT
Found at i:3041627 original size:2 final size:2
Alignment explanation
Indices: 3041620--3041648 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3041610 AAAGTAAAAC
3041620 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3041649 TACCACAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3042791 original size:18 final size:19
Alignment explanation
Indices: 3042768--3042820 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
3042758 TTTAAATAAA
3042768 TTTTAAATAAATAAAAT-T
1 TTTTAAATAAATAAAATAT
*
3042786 TTTTAAA-AAATTAAATAT
1 TTTTAAATAAATAAAATAT
* *
3042804 ATTTATATTAAATAAAA
1 TTTTA-AATAAATAAAA
3042821 CCAAATATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 8 0.29
18 12 0.43
19 1 0.04
20 7 0.25
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TTTTAAATAAATAAAATAT
Found at i:3052972 original size:17 final size:16
Alignment explanation
Indices: 3052946--3052985 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
3052936 GTTCATCATG
3052946 GATATGTGTCCATGCTT
1 GATATGTGT-CATGCTT
* *
3052963 TATATTTGTCATGCTT
1 GATATGTGTCATGCTT
3052979 GATATGT
1 GATATGT
3052986 AGCTAATGTT
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.20, C:0.12, G:0.20, T:0.47
Consensus pattern (16 bp):
GATATGTGTCATGCTT
Found at i:3057606 original size:13 final size:14
Alignment explanation
Indices: 3057580--3057608 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
3057570 GCTTATAATT
3057580 TTTAATTAAATTGA
1 TTTAATTAAATTGA
3057594 TTTAATT-AATTGA
1 TTTAATTAAATTGA
3057607 TT
1 TT
3057609 CTTAAAAATT
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:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (14 bp):
TTTAATTAAATTGA
Found at i:3059366 original size:18 final size:17
Alignment explanation
Indices: 3059345--3059378 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
3059335 TTAATTATTA
3059345 AGTTAAATTTAAATTAAG
1 AGTTAAATTT-AATTAAG
*
3059363 AGTTTAATTTAATTAA
1 AGTTAAATTTAATTAA
3059379 TTCATATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (17 bp):
AGTTAAATTTAATTAAG
Found at i:3061191 original size:21 final size:22
Alignment explanation
Indices: 3061156--3061197 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
3061146 TTGAATTTAT
* *
3061156 TAAATTAAATTAATTTTATAAA
1 TAAATTAAATAAATTTAATAAA
3061178 TAAA-TAAATAAATTTAATAA
1 TAAATTAAATAAATTTAATAA
3061198 TAATAATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TAAATTAAATAAATTTAATAAA
Found at i:3061215 original size:3 final size:3
Alignment explanation
Indices: 3061209--3061234 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
3061199 AATAATAATA
3061209 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
3061235 ATTCCCTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:3061456 original size:10 final size:10
Alignment explanation
Indices: 3061434--3061480 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
3061424 TGATAATTTA
3061434 AAATATGATAT
1 AAATAT-ATAT
3061445 AAATATATAT
1 AAATATATAT
3061455 AAATATAT-T
1 AAATATATAT
*
3061464 AAA-ATTTAT
1 AAATATATAT
3061473 ATAATATA
1 A-AATATA
3061481 AATTATTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
8 3 0.10
9 6 0.19
10 14 0.45
11 8 0.26
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (10 bp):
AAATATATAT
Found at i:3061495 original size:32 final size:35
Alignment explanation
Indices: 3061436--3061505 Score: 110
Period size: 32 Copynumber: 2.1 Consensus size: 35
3061426 ATAATTTAAA
*
3061436 ATATGATATAAATATATATAAATATATTAAAATTT
1 ATATAATATAAATATATATAAATATATTAAAATTT
3061471 ATATAATATAAAT-TAT-T-AATATATTAAAATTT
1 ATATAATATAAATATATATAAATATATTAAAATTT
3061503 ATA
1 ATA
3061506 ATTAAAAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 18 0.53
33 1 0.03
34 3 0.09
35 12 0.35
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (35 bp):
ATATAATATAAATATATATAAATATATTAAAATTT
Found at i:3061498 original size:16 final size:14
Alignment explanation
Indices: 3061456--3061512 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
3061446 AATATATATA
3061456 AATATATTAAAATT
1 AATATATTAAAATT
*
3061470 TATATAATATAAATTATT
1 AATAT-AT-TAAA--ATT
3061488 AATATATTAAAATT
1 AATATATTAAAATT
*
3061502 TATA-ATTAAAA
1 AATATATTAAAA
3061513 ATATTAATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
13 7 0.19
14 10 0.28
15 2 0.06
16 8 0.22
17 2 0.06
18 7 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AATATATTAAAATT
Found at i:3061518 original size:30 final size:32
Alignment explanation
Indices: 3061436--3061520 Score: 102
Period size: 32 Copynumber: 2.6 Consensus size: 32
3061426 ATAATTTAAA
*
3061436 ATATGATATAAATATATATAAATATATTAAAATTT
1 ATATAATATAAA-ATAT-T-AATATATTAAAATTT
*
3061471 ATATAATATAAATTATTAATATATTAAAATTT
1 ATATAATATAAAATATTAATATATTAAAATTT
*
3061503 ATA-ATTA-AAAATATTAAT
1 ATATAATATAAAATATTAAT
3061521 TAGTATTTAC
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
30 10 0.22
31 3 0.07
32 18 0.39
33 1 0.02
34 3 0.07
35 11 0.24
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (32 bp):
ATATAATATAAAATATTAATATATTAAAATTT
Found at i:3061590 original size:33 final size:35
Alignment explanation
Indices: 3061550--3061614 Score: 98
Period size: 33 Copynumber: 1.9 Consensus size: 35
3061540 TTAAAATAAT
3061550 ATTTAATAAAAAT-TAAATT-AATAATTTTTTTTA
1 ATTTAATAAAAATATAAATTAAATAATTTTTTTTA
* *
3061583 ATTTAATAAAAGTATATATTAAATAATTTTTT
1 ATTTAATAAAAATATAAATTAAATAATTTTTT
3061615 AAATTAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 12 0.43
34 5 0.18
35 11 0.39
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (35 bp):
ATTTAATAAAAATATAAATTAAATAATTTTTTTTA
Found at i:3061615 original size:33 final size:32
Alignment explanation
Indices: 3061550--3061624 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 32
3061540 TTAAAATAAT
3061550 ATTTAATAAAAATTAAATTAATAATTTTTTTTA
1 ATTTAATAAAAATTAAATTAATAA-TTTTTTTA
* *
3061583 ATTTAATAAAAGTATATATTAAATAA-TTTTTTA
1 ATTTAATAAAAAT-TAAATT-AATAATTTTTTTA
*
3061616 AATTAATAA
1 ATTTAATAA
3061625 TTAACATTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 27 0.73
34 5 0.14
35 5 0.14
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (32 bp):
ATTTAATAAAAATTAAATTAATAATTTTTTTA
Found at i:3061703 original size:21 final size:20
Alignment explanation
Indices: 3061663--3061711 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
3061653 ATATATTTAT
* *
3061663 TTATAATATTTTAAATATAA
1 TTATAATATGTAAAATATAA
3061683 TTATAATATGTAAATATATAA
1 TTATAATATGTAAA-ATATAA
*
3061704 ATATAATA
1 TTATAATA
3061712 AAATAGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
TTATAATATGTAAAATATAA
Found at i:3067584 original size:3 final size:3
Alignment explanation
Indices: 3067576--3067662 Score: 59
Period size: 3 Copynumber: 27.7 Consensus size: 3
3067566 GTGAAATCTC
* * * * * *
3067576 ATA ATA ATA ATA ATA ATTA TTA TTA TTA TTA AT- ATT ATT ATA ATA
1 ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
3067621 ATTA ATA ATA ATA ATAA ATAA ATAA ATA ATA AAA ATA ATA AT
1 A-TA ATA ATA ATA AT-A AT-A AT-A ATA ATA ATA ATA ATA AT
3067663 CTTTTGGATA
Statistics
Matches: 75, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
2 2 0.03
3 57 0.76
4 16 0.21
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
ATA
Found at i:3067646 original size:8 final size:7
Alignment explanation
Indices: 3067617--3067662 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
3067607 ATATTATTAT
*
3067617 AATAATT
1 AATAATA
3067624 AATAAT-
1 AATAATA
3067630 AATAATA
1 AATAATA
3067637 AATAAATA
1 AAT-AATA
3067645 AATAATA
1 AATAATA
3067652 AA-AAT-
1 AATAATA
3067657 AATAAT
1 AATAAT
3067663 CTTTTGGATA
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
5 2 0.06
6 12 0.33
7 15 0.42
8 7 0.19
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
AATAATA
Found at i:3068489 original size:15 final size:16
Alignment explanation
Indices: 3068440--3068503 Score: 53
Period size: 15 Copynumber: 4.1 Consensus size: 16
3068430 CTTAAAATAA
*
3068440 AAAATCATTTAAATTTT
1 AAAATAATTTAAA-TTT
* *
3068457 AGAAA-AAATTAAAATT
1 A-AAATAATTTAAATTT
3068473 AAAATAATTT-AATTT
1 AAAATAATTTAAATTT
*
3068488 -AAATTATTTAAATTT
1 AAAATAATTTAAATTT
3068503 A
1 A
3068504 TTTAAACTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
14 8 0.22
15 12 0.32
16 7 0.19
17 7 0.19
18 3 0.08
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (16 bp):
AAAATAATTTAAATTT
Found at i:3069601 original size:11 final size:12
Alignment explanation
Indices: 3069570--3069632 Score: 58
Period size: 12 Copynumber: 5.1 Consensus size: 12
3069560 ACTTTAGACA
*
3069570 AAAATAAAATAT
1 AAAATATAATAT
*
3069582 AAAAAATAAT-T
1 AAAATATAATAT
3069593 AAAATATAATAT
1 AAAATATAATAT
3069605 CAATAA-ATAATAT
1 -AA-AATATAATAT
3069618 AAATATATAAATAT
1 AAA-ATAT-AATAT
3069632 A
1 A
3069633 TTAAAATTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
11 11 0.26
12 12 0.29
13 11 0.26
14 8 0.19
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (12 bp):
AAAATATAATAT
Found at i:3069612 original size:24 final size:24
Alignment explanation
Indices: 3069570--3069632 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 24
3069560 ACTTTAGACA
*
3069570 AAAATAAAATATAAAAAATAAT-T
1 AAAATATAATATAAAAAATAATAT
*
3069593 AAAATATAATATCAATAAATAATAT
1 AAAATATAATAT-AAAAAATAATAT
3069618 AAATATATAAATATA
1 AAA-ATAT-AATATA
3069633 TTAAAATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 11 0.32
24 9 0.26
25 4 0.12
26 5 0.15
27 5 0.15
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (24 bp):
AAAATATAATATAAAAAATAATAT
Found at i:3069616 original size:13 final size:13
Alignment explanation
Indices: 3069577--3069632 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
3069567 ACAAAAATAA
3069577 AATATAAA-AAAT
1 AATATAAATAAAT
*
3069589 AAT-TAAA-ATAT
1 AATATAAATAAAT
*
3069600 AATATCAATAAAT
1 AATATAAATAAAT
*
3069613 AATATAAATATAT
1 AATATAAATAAAT
3069626 AAATATA
1 -AATATA
3069633 TTAAAATTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
11 10 0.28
12 6 0.17
13 14 0.39
14 6 0.17
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (13 bp):
AATATAAATAAAT
Found at i:3070650 original size:2 final size:2
Alignment explanation
Indices: 3070639--3070668 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
3070629 GAAATTAAAA
3070639 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3070669 CACAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3071049 original size:26 final size:26
Alignment explanation
Indices: 3070999--3071055 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
3070989 TAAAATTTTA
**
3070999 TTATA-TTAAATCATTTATATTATAT
1 TTATATTTAAATCATTTATACAATAT
*
3071024 TTATATTTAAATTATTTATACAATAT
1 TTATATTTAAATCATTTATACAATAT
*
3071050 ATATAT
1 TTATAT
3071056 ATATAAAACT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
25 5 0.19
26 22 0.81
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (26 bp):
TTATATTTAAATCATTTATACAATAT
Found at i:3071755 original size:17 final size:18
Alignment explanation
Indices: 3071727--3071760 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
3071717 CATAAAATAT
3071727 ATAAATATTAATATAAAA
1 ATAAATATTAATATAAAA
*
3071745 ATAAA-ATTAATTTAAA
1 ATAAATATTAATATAAA
3071761 CAAAATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
ATAAATATTAATATAAAA
Found at i:3071759 original size:22 final size:24
Alignment explanation
Indices: 3071709--3071759 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 24
3071699 TTTTAATTTA
3071709 AATTTAATCATAAAATATATAAAT
1 AATTTAATCATAAAATATATAAAT
3071733 -A-TTAAT-ATAAAA-ATA-AAATT
1 AATTTAATCATAAAATATATAAA-T
3071753 AATTTAA
1 AATTTAA
3071760 ACAAAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
19 3 0.12
20 4 0.17
21 7 0.29
22 9 0.38
23 1 0.04
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (24 bp):
AATTTAATCATAAAATATATAAAT
Found at i:3074421 original size:23 final size:22
Alignment explanation
Indices: 3074372--3074425 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
3074362 ATTCATCCGG
* *
3074372 ATATAATTTCAAAAAAATATTAA
1 ATATAAATT-AAAAAAATATAAA
3074395 ATATGAAATTAAAAAAAT-TAAA
1 ATAT-AAATTAAAAAAATATAAA
3074417 TATATAAAT
1 -ATATAAAT
3074426 ACATTTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 7 0.26
23 16 0.59
24 4 0.15
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (22 bp):
ATATAAATTAAAAAAATATAAA
Found at i:3084213 original size:93 final size:92
Alignment explanation
Indices: 3084055--3084239 Score: 343
Period size: 93 Copynumber: 2.0 Consensus size: 92
3084045 TAACTACAGT
3084055 CAAACCCAATAAGTTTAATAGTAGAAATAAAAAGAAGCTTCTGTCAAGTCTTACTTCTAATAAAG
1 CAAACCCAATAAGTTTAATAGTAGAAATAAAAAGAAGCTTCTGTCAAGTCTTACTTCTAATAAAG
*
3084120 AAATTTTAACAAATGCAACAGTATCAA
66 AAAGTTTAACAAATGCAACAGTATCAA
3084147 CAAACCCAATAAGTTTTAATAGTAGAAATAAAAAGAAGCTTCTGTCAAGTCTTACTTCTAATAAA
1 CAAACCCAATAAG-TTTAATAGTAGAAATAAAAAGAAGCTTCTGTCAAGTCTTACTTCTAATAAA
*
3084212 GAAAGTTTAACAAATGCAACAGTTTCAA
65 GAAAGTTTAACAAATGCAACAGTATCAA
3084240 TTTCCTGTTA
Statistics
Matches: 90, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
92 13 0.14
93 77 0.86
ACGTcount: A:0.46, C:0.15, G:0.11, T:0.28
Consensus pattern (92 bp):
CAAACCCAATAAGTTTAATAGTAGAAATAAAAAGAAGCTTCTGTCAAGTCTTACTTCTAATAAAG
AAAGTTTAACAAATGCAACAGTATCAA
Found at i:3084790 original size:2 final size:2
Alignment explanation
Indices: 3084783--3084812 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3084773 TAAAGCATGA
3084783 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3084813 GTATGCTCCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3085680 original size:2 final size:2
Alignment explanation
Indices: 3085673--3085697 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3085663 TGTTTTATAT
3085673 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
3085698 GAGCGATGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:3085917 original size:22 final size:21
Alignment explanation
Indices: 3085889--3085945 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
3085879 TCAAATCAAA
3085889 TAAAATAATTTTTTAATAATTT
1 TAAAATAATTTTTTAATAA-TT
** *
3085911 TAAAATAAAATTTTATTAATT
1 TAAAATAATTTTTTAATAATT
3085932 TATAAATATATTTT
1 TA-AAATA-ATTTT
3085946 ATTATTTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 4 0.14
22 21 0.75
23 3 0.11
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TAAAATAATTTTTTAATAATT
Found at i:3085944 original size:21 final size:21
Alignment explanation
Indices: 3085920--3085982 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
3085910 TTAAAATAAA
3085920 ATTTTATTAATTTATAAATAT
1 ATTTTATTAATTTATAAATAT
*
3085941 ATTTTATT-ATTTATTATATTAT
1 ATTTTATTAATTTA-TA-AATAT
*
3085963 ATTTAATTAAATTTA-AAATA
1 ATTTTATT-AATTTATAAATA
3085983 AAATATTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
20 5 0.14
21 13 0.37
22 12 0.34
24 5 0.14
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTTTATTAATTTATAAATAT
Found at i:3086022 original size:48 final size:47
Alignment explanation
Indices: 3085933--3086023 Score: 114
Period size: 46 Copynumber: 1.9 Consensus size: 47
3085923 TTATTAATTT
* *
3085933 ATAAATATATTTTATTATTTATTATATTATATTTAATTAAATTTAAA
1 ATAAATATATTTTATTATTTATTAAATAATATTTAATTAAATTTAAA
*
3085980 ATAAA-ATATTATTTTTA-TTATTAAATAATAATTTAAATTAAATT
1 ATAAATATATT-TTATTATTTATTAAATAAT-ATTT-AATTAAATT
3086024 CATAAAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
46 15 0.39
47 14 0.37
48 9 0.24
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (47 bp):
ATAAATATATTTTATTATTTATTAAATAATATTTAATTAAATTTAAA
Found at i:3086044 original size:27 final size:26
Alignment explanation
Indices: 3086010--3086060 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
3086000 TTAAATAATA
3086010 ATTTAAATTAAATTCATAAAAATTTT
1 ATTTAAATTAAATTCATAAAAATTTT
* * *
3086036 ATTTAAAATTTAATTTATACAAATT
1 ATTT-AAATTAAATTCATAAAAATT
3086061 AAAATTATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 4 0.19
27 17 0.81
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (26 bp):
ATTTAAATTAAATTCATAAAAATTTT
Found at i:3087128 original size:28 final size:28
Alignment explanation
Indices: 3087088--3087142 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
3087078 CTACATAAAC
*
3087088 CACAAATACGAATCTCAGTATATGCAAT
1 CACAAATACGAATCTCAGCATATGCAAT
3087116 CACAAATACGAATCTCAGCATATGCAA
1 CACAAATACGAATCTCAGCATATGCAA
3087143 CCACGTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.44, C:0.24, G:0.11, T:0.22
Consensus pattern (28 bp):
CACAAATACGAATCTCAGCATATGCAAT
Found at i:3089377 original size:25 final size:24
Alignment explanation
Indices: 3089349--3089408 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 24
3089339 ATTTTTACGT
*
3089349 TATAATTATATCT-ATATATTTTTAA
1 TATAATTATAT-TAAT-TATTTATAA
3089374 TATAATTATAATTAATTATTTATAA
1 TATAATTAT-ATTAATTATTTATAA
*
3089399 TATAAATATA
1 TATAATTATA
3089409 AAAATATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 1 0.03
25 26 0.84
26 4 0.13
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (24 bp):
TATAATTATATTAATTATTTATAA
Found at i:3089416 original size:23 final size:24
Alignment explanation
Indices: 3089364--3089424 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
3089354 TTATATCTAT
* *
3089364 ATATTTTTAATATAATTATAATTAA
1 ATATTTATAATATAAATATAA-TAA
*
3089389 TTATTTATAATATAAATATAA-AA
1 ATATTTATAATATAAATATAATAA
3089412 ATA-TTATACATAT
1 ATATTTATA-ATAT
3089425 TTATTAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
22 5 0.16
23 8 0.26
25 18 0.58
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
ATATTTATAATATAAATATAATAA
Found at i:3092223 original size:34 final size:34
Alignment explanation
Indices: 3092177--3092361 Score: 266
Period size: 34 Copynumber: 5.5 Consensus size: 34
3092167 GTAAAAACCA
*
3092177 CCATTTAATCAACAATGGCAACCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* *
3092211 CCATTTAGTCAACAATGGTAAACC-ACCAAATCAC
1 CCATTTAATCAACAATGGT-AACCTACCAAATCTC
*
3092245 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* *
3092279 CCATTTAATCAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* * *
3092313 CCATTTAGTCAACAATGGTAAACTACCAAATC-A
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
3092346 CCATTTAATCAACAAT
1 CCATTTAATCAACAAT
3092362 TCTCCCACTT
Statistics
Matches: 137, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
33 18 0.13
34 115 0.84
35 4 0.03
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.25
Consensus pattern (34 bp):
CCATTTAATCAACAATGGTAACCTACCAAATCTC
Found at i:3092319 original size:102 final size:101
Alignment explanation
Indices: 3092177--3092361 Score: 325
Period size: 102 Copynumber: 1.8 Consensus size: 101
3092167 GTAAAAACCA
3092177 CCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAACCACCAAAT
1 CCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAACCACCAAAT
3092242 CACCCATTTAATCAACAATGGTAAGCTACCAAATCTC
66 CA-CCATTTAATCAACAATGGTAAGCTACCAAATCTC
* * * *
3092279 CCATTTAATCAACAATGGTAAGCTACCAAATTTCCCATTTAGTCAACAATGGTAAACTACCAAAT
1 CCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAACCACCAAAT
3092344 CACCATTTAATCAACAAT
66 CACCATTTAATCAACAAT
3092362 TCTCCCACTT
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
101 16 0.20
102 63 0.80
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.25
Consensus pattern (101 bp):
CCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAACCACCAAAT
CACCATTTAATCAACAATGGTAAGCTACCAAATCTC
Found at i:3096454 original size:19 final size:19
Alignment explanation
Indices: 3096427--3096489 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 19
3096417 TCACGTGTAC
* *
3096427 AGTAACCGTATACTTGAAT
1 AGTACCCGTATACGTGAAT
3096446 AGTACCCGTATACGTGAAT
1 AGTACCCGTATACGTGAAT
**
3096465 AGTACCTATATACGTGAAT
1 AGTACCCGTATACGTGAAT
3096484 AGTACC
1 AGTACC
3096490 TCGACAACCA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (19 bp):
AGTACCCGTATACGTGAAT
Found at i:3096837 original size:34 final size:34
Alignment explanation
Indices: 3096791--3096973 Score: 262
Period size: 34 Copynumber: 5.4 Consensus size: 34
3096781 GTAAAAACCA
*
3096791 CCATTTAATCAACAATGGCAACCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* *
3096825 CCATTTAGTCAACAATGGTAAACC-ACCAAATCAC
1 CCATTTAATCAACAATGGT-AACCTACCAAATCTC
*
3096859 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* *
3096893 CCATTTAATCAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* * *
3096927 CCATTTAGTCAACAATGGTAAACTACCAAATC-A
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
3096960 CCATTTAATCAACA
1 CCATTTAATCAACA
3096974 TGATACGAGT
Statistics
Matches: 135, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
33 16 0.12
34 115 0.85
35 4 0.03
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.25
Consensus pattern (34 bp):
CCATTTAATCAACAATGGTAACCTACCAAATCTC
Found at i:3096933 original size:102 final size:101
Alignment explanation
Indices: 3096791--3096973 Score: 321
Period size: 102 Copynumber: 1.8 Consensus size: 101
3096781 GTAAAAACCA
3096791 CCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAACCACCAAAT
1 CCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAACCACCAAAT
3096856 CACCCATTTAATCAACAATGGTAAGCTACCAAATCTC
66 CA-CCATTTAATCAACAATGGTAAGCTACCAAATCTC
* * * *
3096893 CCATTTAATCAACAATGGTAAGCTACCAAATTTCCCATTTAGTCAACAATGGTAAACTACCAAAT
1 CCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAACCACCAAAT
3096958 CACCATTTAATCAACA
66 CACCATTTAATCAACA
3096974 TGATACGAGT
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
101 14 0.18
102 63 0.82
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.25
Consensus pattern (101 bp):
CCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAACCACCAAAT
CACCATTTAATCAACAATGGTAAGCTACCAAATCTC
Found at i:3106785 original size:2 final size:2
Alignment explanation
Indices: 3106778--3106806 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3106768 TGGTTTTCAG
3106778 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
3106807 AGTGTGCCCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:3109651 original size:40 final size:39
Alignment explanation
Indices: 3109570--3109651 Score: 98
Period size: 38 Copynumber: 2.1 Consensus size: 39
3109560 ATTATATTTA
3109570 AATTTTATTATATATATATATTAATATAAAATAATTTTT
1 AATTTTATTATATATATATATTAATATAAAATAATTTTT
*
3109609 AATTTT-TTA-ATAT-TATCTTAAATAATAAAATAAAATTTTT
1 AATTTTATTATATATATATATT-AAT-ATAAAAT--AATTTTT
3109649 AAT
1 AAT
3109652 CAAGACTAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
36 5 0.13
37 7 0.18
38 10 0.26
39 6 0.16
40 10 0.26
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (39 bp):
AATTTTATTATATATATATATTAATATAAAATAATTTTT
Found at i:3109788 original size:11 final size:12
Alignment explanation
Indices: 3109772--3109801 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
3109762 ATCCAACTAC
3109772 TATATTTTTA-T
1 TATATTTTTATT
3109783 TATATTTTTATT
1 TATATTTTTATT
3109795 TATATTT
1 TATATTT
3109802 ACAAAATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TATATTTTTATT
Found at i:3114570 original size:16 final size:16
Alignment explanation
Indices: 3114549--3114580 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
3114539 TCACTTATAG
*
3114549 TATATATATTCTTGTA
1 TATATATATTCATGTA
3114565 TATATATATTCATGTA
1 TATATATATTCATGTA
3114581 ACATATGCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.53
Consensus pattern (16 bp):
TATATATATTCATGTA
Found at i:3114852 original size:15 final size:15
Alignment explanation
Indices: 3114832--3114862 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3114822 GAGCAGTCAT
3114832 ATTCTGCCTATAGAG
1 ATTCTGCCTATAGAG
*
3114847 ATTCTGCCTGTAGAG
1 ATTCTGCCTATAGAG
3114862 A
1 A
3114863 AATGATATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (15 bp):
ATTCTGCCTATAGAG
Found at i:3118505 original size:3 final size:3
Alignment explanation
Indices: 3118497--3118535 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
3118487 GATATAGAGA
*
3118497 AAG AAG AAG AAG -AG TA- AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
3118536 AAAAAAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
2 3 0.09
3 30 0.91
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.03
Consensus pattern (3 bp):
AAG
Found at i:3118517 original size:16 final size:15
Alignment explanation
Indices: 3118492--3118535 Score: 63
Period size: 16 Copynumber: 2.9 Consensus size: 15
3118482 TACGAGATAT
3118492 AGAGAAAGAAGAAGA
1 AGAGAAAGAAGAAGA
3118507 AGAGTAAAGAAGAAGA
1 AGAG-AAAGAAGAAGA
3118523 AGA-AGAAGAAGAA
1 AGAGA-AAGAAGAA
3118536 AAAAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 1 0.04
15 12 0.44
16 14 0.52
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.02
Consensus pattern (15 bp):
AGAGAAAGAAGAAGA
Found at i:3119140 original size:2 final size:2
Alignment explanation
Indices: 3119133--3119157 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3119123 GTAGTAAGAT
3119133 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
3119158 GTTATAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3119316 original size:21 final size:21
Alignment explanation
Indices: 3119282--3119321 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
3119272 TATTTTTATT
3119282 TAAATTTAATTATAAAATATA
1 TAAATTTAATTATAAAATATA
3119303 TAAATATTAA-TATAAAATA
1 TAAAT-TTAATTATAAAATA
3119322 ATTTTTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATTTAATTATAAAATATA
Found at i:3119678 original size:14 final size:14
Alignment explanation
Indices: 3119651--3119696 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
3119641 AATTTTTAAA
3119651 AAATTATATATATTT
1 AAATTAT-TATATTT
3119666 AAATTATTATATTT
1 AAATTATTATATTT
*
3119680 TAA-TATTTATATTT
1 AAATTA-TTATATTT
3119694 AAA
1 AAA
3119697 AATATTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 2 0.07
14 19 0.68
15 7 0.25
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
AAATTATTATATTT
Found at i:3119712 original size:38 final size:41
Alignment explanation
Indices: 3119658--3119739 Score: 100
Period size: 39 Copynumber: 2.1 Consensus size: 41
3119648 AAAAAATTAT
* **
3119658 ATATATTTAAATTATT-ATATTTTAATATTTAT-ATTTAAAA
1 ATATATTTAAATTATTAATA-TTAAATATAAATAATTTAAAA
3119698 ATAT-TTTAAA-TATTAATATTAAATATAAATAATTTAAAA
1 ATATATTTAAATTATTAATATTAAATATAAATAATTTAAAA
3119737 ATA
1 ATA
3119740 AAAAATTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
38 13 0.35
39 20 0.54
40 4 0.11
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (41 bp):
ATATATTTAAATTATTAATATTAAATATAAATAATTTAAAA
Found at i:3119717 original size:15 final size:15
Alignment explanation
Indices: 3119639--3119735 Score: 52
Period size: 13 Copynumber: 6.9 Consensus size: 15
3119629 ATAAATATAT
*
3119639 TTAAT-TTTTAAAAAA
1 TTAATATTTT-AAATA
3119654 TTATATATATTTAAATTA
1 TTA-ATAT-TTTAAA-TA
3119672 TT-ATATTTT-AATA
1 TTAATATTTTAAATA
*
3119685 TTTATA-TTT-AA-A
1 TTAATATTTTAAATA
3119697 --AATATTTTAAATA
1 TTAATATTTTAAATA
3119710 TTAATA--TTAAATA
1 TTAATATTTTAAATA
* *
3119723 TAAATAATTTAAA
1 TTAATATTTTAAA
3119736 AATAAAAAAT
Statistics
Matches: 67, Mismatches: 3, Indels: 24
0.71 0.03 0.26
Matches are distributed among these distances:
10 3 0.04
11 3 0.04
12 3 0.04
13 22 0.33
14 5 0.07
15 15 0.22
16 6 0.09
17 4 0.06
18 6 0.09
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TTAATATTTTAAATA
Found at i:3119740 original size:15 final size:15
Alignment explanation
Indices: 3119711--3119760 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 15
3119701 TTTTAAATAT
*
3119711 TAATATTAAATATAAA
1 TAAT-TTAAAAATAAA
3119727 TAATTTAAAAATAAA
1 TAATTTAAAAATAAA
*
3119742 AAATTTAATAACATAAA
1 TAATTTAA-AA-ATAAA
3119759 TA
1 TA
3119761 TAATAATATC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
15 17 0.59
16 6 0.21
17 6 0.21
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (15 bp):
TAATTTAAAAATAAA
Found at i:3119764 original size:14 final size:15
Alignment explanation
Indices: 3119742--3119783 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
3119732 TAAAAATAAA
*
3119742 AAATTTAATAA-CAT
1 AAATATAATAATCAT
3119756 AAATATAATAATATCAT
1 AAATATAAT-A-ATCAT
3119773 AAATATAATAA
1 AAATATAATAA
3119784 AAATTAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 8 0.33
15 2 0.08
16 2 0.08
17 12 0.50
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATATAATAATCAT
Found at i:3119767 original size:17 final size:17
Alignment explanation
Indices: 3119747--3119783 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
3119737 ATAAAAAATT
3119747 TAATAACATAAATATAA
1 TAATAACATAAATATAA
*
3119764 TAATATCATAAATATAA
1 TAATAACATAAATATAA
3119781 TAA
1 TAA
3119784 AAATTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (17 bp):
TAATAACATAAATATAA
Found at i:3120499 original size:2 final size:2
Alignment explanation
Indices: 3120492--3120520 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3120482 TGATTAAAAT
3120492 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
3120521 TTGGAAACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:3123118 original size:11 final size:11
Alignment explanation
Indices: 3123102--3123135 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
3123092 AAATATTTTA
*
3123102 AATATAATTAT
1 AATATAAATAT
*
3123113 AATATAAAAAT
1 AATATAAATAT
3123124 AATATAAATAT
1 AATATAAATAT
3123135 A
1 A
3123136 TAAATTATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AATATAAATAT
Found at i:3123125 original size:17 final size:17
Alignment explanation
Indices: 3123049--3123145 Score: 60
Period size: 17 Copynumber: 5.8 Consensus size: 17
3123039 TTTGATAATT
3123049 TATATAAAATAATTATTAA
1 TATA-AAAATAATTA-TAA
**
3123068 TATATTAA-AATT-T-A
1 TATAAAAATAATTATAA
* *
3123082 TATAAAAATAA-AATAT
1 TATAAAAATAATTATAA
* *
3123098 TTTAAATATAATTATAA
1 TATAAAAATAATTATAA
3123115 TATAAAAATAA-TATAAA
1 TATAAAAATAATTAT-AA
* *
3123132 TATATAAATTATTA
1 TATAAAAATAATTA
3123146 AGTTATAGGT
Statistics
Matches: 58, Mismatches: 14, Indels: 13
0.68 0.16 0.15
Matches are distributed among these distances:
14 7 0.12
15 4 0.07
16 12 0.21
17 27 0.47
18 4 0.07
19 4 0.07
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TATAAAAATAATTATAA
Found at i:3123142 original size:31 final size:30
Alignment explanation
Indices: 3123045--3123143 Score: 78
Period size: 31 Copynumber: 3.2 Consensus size: 30
3123035 ATTTTTTGAT
*
3123045 AATT-TATAT-AAAATAATTATTAATATATTAA
1 AATTATATATAAAAATAA-TATAAATATA-T-A
* ** *
3123076 AATT-TATATAAAAATAAAATATTTTAAATA
1 AATTATATATAAAAATAATATA-AATATATA
3123106 TAATTATAATATAAAAATAATATAAATATATA
1 -AATTAT-ATATAAAAATAATATAAATATATA
3123138 AATTAT
1 AATTAT
3123144 TAAGTTATAG
Statistics
Matches: 54, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
30 1 0.02
31 22 0.41
32 16 0.30
33 15 0.28
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (30 bp):
AATTATATATAAAAATAATATAAATATATA
Found at i:3131379 original size:20 final size:20
Alignment explanation
Indices: 3131354--3131391 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
3131344 TTAGCCCAAT
*
3131354 TCAATGTAGAAGAGTTCAAA
1 TCAATGTAAAAGAGTTCAAA
3131374 TCAATGTAAAAGAGTTCA
1 TCAATGTAAAAGAGTTCA
3131392 TTTTTAATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.11, G:0.18, T:0.26
Consensus pattern (20 bp):
TCAATGTAAAAGAGTTCAAA
Found at i:3131535 original size:2 final size:2
Alignment explanation
Indices: 3131528--3131559 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
3131518 CTTTAAGTCT
3131528 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
3131560 CCTTACATGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:3138382 original size:20 final size:19
Alignment explanation
Indices: 3138348--3138386 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
3138338 TTAAATAATT
* *
3138348 TAAATTTATTTAAATTAAAA
1 TAAATTTA-ATAAAATAAAA
3138368 TAAATTTAATAAAATAAAA
1 TAAATTTAATAAAATAAAA
3138387 AAAAAGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAATTTAATAAAATAAAA
Found at i:3138387 original size:20 final size:20
Alignment explanation
Indices: 3138348--3138387 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
3138338 TTAAATAATT
* * *
3138348 TAAATTTATTTAAATTAAAA
1 TAAATTTAATAAAATAAAAA
3138368 TAAATTTAATAAAATAAAAA
1 TAAATTTAATAAAATAAAAA
3138388 AAAAGAAATC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TAAATTTAATAAAATAAAAA
Found at i:3140198 original size:2 final size:2
Alignment explanation
Indices: 3140191--3140221 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3140181 GATATAATTC
3140191 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3140222 GTAAAAACTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3143173 original size:20 final size:20
Alignment explanation
Indices: 3143144--3143221 Score: 77
Period size: 20 Copynumber: 3.9 Consensus size: 20
3143134 AATTATTTTA
* *
3143144 TATATTAATTATTAAAAAAT
1 TATATAAATTAATAAAAAAT
*
3143164 TATATAAATTAATAAAATAT
1 TATATAAATTAATAAAAAAT
* *
3143184 TATATATATTTAT-AAAAAT
1 TATATAAATTAATAAAAAAT
* *
3143203 ATATTTAAAATAATAAAAA
1 -TATATAAATTAATAAAAA
3143222 TAATAAACGA
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
19 5 0.11
20 37 0.80
21 4 0.09
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TATATAAATTAATAAAAAAT
Found at i:3143188 original size:40 final size:40
Alignment explanation
Indices: 3143141--3143220 Score: 99
Period size: 40 Copynumber: 1.9 Consensus size: 40
3143131 TATAATTATT
*
3143141 TTATATATTAATTATTAAAAA-ATTATATAAATTAATAAAATA
1 TTATATA-TAATTA-TAAAAATA-TATATAAAATAATAAAATA
* *
3143183 TTATATATATTTATAAAAATATATTTAAAATAATAAAA
1 TTATATATAATTATAAAAATATATATAAAATAATAAAA
3143221 ATAATAAACG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 21 0.62
41 6 0.18
42 7 0.21
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (40 bp):
TTATATATAATTATAAAAATATATATAAAATAATAAAATA
Found at i:3151104 original size:170 final size:170
Alignment explanation
Indices: 3150820--3151160 Score: 551
Period size: 170 Copynumber: 2.0 Consensus size: 170
3150810 AAACTTTTTG
** * *
3150820 GACAAATCTTGCTAGAATTTCTGGTGTAAAACCAAATGTTCATGGACTATGATCAACTTTTTCCG
1 GACAAATCTTAATAGAATTTCTGGTATAAAACCAAATGTCCATGGACTATGATCAACTTTTTCCG
3150885 ATGATACTATGTTCCATCGACTTCAGGTTCAACTCTTTGGTCATTAAAAACC-AGAAGTCCAAGA
66 ATGATACTATGTTCCATCGACTTCAGGTTCAACTCTTTGGTCATTAAAAACCGA-AAGTCCAAGA
3150949 TTTTCCAGGAAATTTCCGGTTGGTAAACTAAATTACTTGAT
130 TTTTCCAGGAAATTTCCGGTTGGTAAACTAAATTACTTGAT
* * * *
3150990 GACAAATCTTAATCGAATTTCTGGTATAACACCAAATGTCCATTGACTATGATCAACTTTTTCGG
1 GACAAATCTTAATAGAATTTCTGGTATAAAACCAAATGTCCATGGACTATGATCAACTTTTTCCG
* *
3151055 ATGATACTATGTTCCATTGACTTC-GAGTTCAACTCTTTGGTCGTTAAAAACCGAAAGTCCAAGA
66 ATGATACTATGTTCCATCGACTTCAG-GTTCAACTCTTTGGTCATTAAAAACCGAAAGTCCAAGA
*
3151119 TTTTCCAGGAATTTTCCGGTTGGTAAACTAAATTACTTGAT
130 TTTTCCAGGAAATTTCCGGTTGGTAAACTAAATTACTTGAT
3151160 G
1 G
3151161 CCAACACATT
Statistics
Matches: 158, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
169 1 0.01
170 156 0.99
171 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (170 bp):
GACAAATCTTAATAGAATTTCTGGTATAAAACCAAATGTCCATGGACTATGATCAACTTTTTCCG
ATGATACTATGTTCCATCGACTTCAGGTTCAACTCTTTGGTCATTAAAAACCGAAAGTCCAAGAT
TTTCCAGGAAATTTCCGGTTGGTAAACTAAATTACTTGAT
Found at i:3154871 original size:12 final size:12
Alignment explanation
Indices: 3154854--3154888 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
3154844 GGGCTTTGGT
*
3154854 CGTGGTGGTGGA
1 CGTGGTGGCGGA
3154866 CGTGGTGGCGGA
1 CGTGGTGGCGGA
3154878 CGTGGTGGCGG
1 CGTGGTGGCGG
3154889 TGGTTTCCGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.06, C:0.14, G:0.60, T:0.20
Consensus pattern (12 bp):
CGTGGTGGCGGA
Found at i:3156566 original size:16 final size:16
Alignment explanation
Indices: 3156541--3156580 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
3156531 TCAGTACGTA
3156541 TTATTAAATT-AGAGAT
1 TTATTAAATTGAG-GAT
*
3156557 TTATTGAATTGAGGAT
1 TTATTAAATTGAGGAT
3156573 TTATTAAA
1 TTATTAAA
3156581 CTGATAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 19 0.90
17 2 0.10
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (16 bp):
TTATTAAATTGAGGAT
Found at i:3160460 original size:20 final size:20
Alignment explanation
Indices: 3160423--3160465 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
3160413 CGGATATGTA
*
3160423 TTTCAATATCTTTAAATT-T
1 TTTCAATATATTTAAATTAT
*
3160442 TTTCATATATATTTGAATTAT
1 TTTCA-ATATATTTAAATTAT
3160463 TTT
1 TTT
3160466 GAACATATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 11 0.55
21 4 0.20
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.60
Consensus pattern (20 bp):
TTTCAATATATTTAAATTAT
Found at i:3163494 original size:14 final size:15
Alignment explanation
Indices: 3163470--3163508 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 15
3163460 CTGATATTCG
3163470 TAAAAATATAAAATT-
1 TAAAAA-ATAAAATTA
3163485 TAAAAAATAAAATTAA
1 TAAAAAATAAAATT-A
3163501 TAAAAAAT
1 TAAAAAAT
3163509 TAAGGTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.36
15 6 0.27
16 8 0.36
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAAAAATAAAATTA
Done.