Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 109 of 228
Found at i:31779295 original size:177 final size:176
Alignment explanation
Indices: 31779004--31779333 Score: 444
Period size: 177 Copynumber: 1.9 Consensus size: 176
31778994 ATATTCAGTT
* * * *
31779004 TCTACACTTTAATTTTTACATAATTTAGACATCTGCCCGTTCTTTTTTCTTTTCTTTTGACATGA
1 TCTACACTTTAATTTTGACATAATTTAGACACCTGACCATTCTTTTTTCTTTTCTTTTGACATGA
* * *** *
31779069 AAAAATAATGGTTAAATTTCAGTTCTAACCCCTCTACCTTCTCAAGATTATATAAGAACGGTTAA
66 AAAAATAATGGCTAAATTTCAGGTCTAACCCAAATACCTTCTCAAGATTATATAAGAACGATTAA
* *
31779134 ATTTTAGTTTTGAGCCCTATATTTCACTCAAATTTAAAATTTAATC
131 ATTTCAGTGTTGAGCCCTATATTTCACTCAAATTTAAAATTTAATC
* * *
31779180 TCTATACTTTTATTTTGACATAATTTAGACACCTGACTATTCTTTTTTTCTTTTCTTTTGACATG
1 TCTACACTTTAATTTTGACATAATTTAGACACCTGACCATTC-TTTTTTCTTTTCTTTTGACATG
* * ** * * *
31779245 AGAAAATAATGGCTAAATTTCAGGTCTAATCCAAATATTTTTTTAAGATTATATAAGAATGATTA
65 AAAAAATAATGGCTAAATTTCAGGTCTAACCCAAATACCTTCTCAAGATTATATAAGAACGATTA
*
31779310 AATTTCAGTGTTGATCCCTATATT
130 AATTTCAGTGTTGAGCCCTATATT
31779334 CCAGTTGAAT
Statistics
Matches: 130, Mismatches: 23, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
176 35 0.27
177 95 0.73
ACGTcount: A:0.31, C:0.16, G:0.09, T:0.44
Consensus pattern (176 bp):
TCTACACTTTAATTTTGACATAATTTAGACACCTGACCATTCTTTTTTCTTTTCTTTTGACATGA
AAAAATAATGGCTAAATTTCAGGTCTAACCCAAATACCTTCTCAAGATTATATAAGAACGATTAA
ATTTCAGTGTTGAGCCCTATATTTCACTCAAATTTAAAATTTAATC
Found at i:31781555 original size:12 final size:12
Alignment explanation
Indices: 31781538--31781567 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
31781528 ACTTCATTTG
31781538 AATATTTTTATA
1 AATATTTTTATA
31781550 AATATTTTTATA
1 AATATTTTTATA
31781562 AATATT
1 AATATT
31781568 AGACTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
AATATTTTTATA
Found at i:31782667 original size:6 final size:6
Alignment explanation
Indices: 31782649--31782684 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
31782639 AGAAGTGAAT
* *
31782649 TTTTGC TTTTAC TTCTAC TTTTAC TTTTAC TTTTAC
1 TTTTAC TTTTAC TTTTAC TTTTAC TTTTAC TTTTAC
31782685 CAATTCTAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.14, C:0.19, G:0.03, T:0.64
Consensus pattern (6 bp):
TTTTAC
Found at i:31783070 original size:20 final size:20
Alignment explanation
Indices: 31783041--31783091 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
31783031 TAATATATAT
* *
31783041 AAATACATAAAT-ATTTTCAA
1 AAATATATAAATAAATTT-AA
31783061 AAATATAT-AATAAATTTAA
1 AAATATATAAATAAATTTAA
*
31783080 ATATATATAAAT
1 AAATATATAAAT
31783092 TATAAAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (20 bp):
AAATATATAAATAAATTTAA
Found at i:31783091 original size:16 final size:17
Alignment explanation
Indices: 31783061--31783106 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
31783051 ATATTTTCAA
31783061 AAATATATAATAAATT-T
1 AAATATAT-ATAAATTAT
31783078 AAATATATATAAATTAT
1 AAATATATATAAATTAT
*
31783095 AAAAAT-TATAAA
1 AAATATATATAAA
31783107 GATAAATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 13 0.48
17 14 0.52
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
AAATATATATAAATTAT
Found at i:31783115 original size:26 final size:25
Alignment explanation
Indices: 31783061--31783124 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 25
31783051 ATATTTTCAA
* *
31783061 AAATATATAATAAATTTAAATATATAT
1 AAAT-TATAA-AAATTTAAAGATAAAT
31783088 AAATTATAAAAATTATAAAGATAAAT
1 AAATTATAAAAATT-TAAAGATAAAT
31783114 AAA-TA-AAAAAT
1 AAATTATAAAAAT
31783125 AAAAAACATA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
24 6 0.18
25 7 0.21
26 17 0.50
27 4 0.12
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (25 bp):
AAATTATAAAAATTTAAAGATAAAT
Found at i:31783168 original size:16 final size:16
Alignment explanation
Indices: 31783147--31783185 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
31783137 CTTATATTAT
31783147 TCTTTTTTTTTCCTTC
1 TCTTTTTTTTTCCTTC
* * *
31783163 TCTTTTCTTTTCTTTT
1 TCTTTTTTTTTCCTTC
31783179 TCTTTTT
1 TCTTTTT
31783186 CCTAATTGAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (16 bp):
TCTTTTTTTTTCCTTC
Found at i:31795249 original size:23 final size:24
Alignment explanation
Indices: 31795207--31795252 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
31795197 GGGGATTATG
*
31795207 CAAAATATTTAAAAAAAATAAAAA
1 CAAAATATATAAAAAAAATAAAAA
*
31795231 CAAAATA-ATAAAAAGAATAAAA
1 CAAAATATATAAAAAAAATAAAA
31795253 TCTTAACTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.17
Consensus pattern (24 bp):
CAAAATATATAAAAAAAATAAAAA
Found at i:31808813 original size:15 final size:15
Alignment explanation
Indices: 31808793--31808822 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
31808783 CTATTCTCTG
31808793 GGCCCACCACCAAAC
1 GGCCCACCACCAAAC
31808808 GGCCCACCACCAAAC
1 GGCCCACCACCAAAC
31808823 AGACGTTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.53, G:0.13, T:0.00
Consensus pattern (15 bp):
GGCCCACCACCAAAC
Found at i:31809058 original size:17 final size:19
Alignment explanation
Indices: 31809036--31809080 Score: 67
Period size: 17 Copynumber: 2.5 Consensus size: 19
31809026 TACGGTACGC
31809036 TTCTTTTCTTTTC-ACA-T
1 TTCTTTTCTTTTCTACATT
*
31809053 TTCTTTTCTTTTCTCCATT
1 TTCTTTTCTTTTCTACATT
31809072 TTCTTTTCT
1 TTCTTTTCT
31809081 CCAGATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 13 0.52
18 2 0.08
19 10 0.40
ACGTcount: A:0.07, C:0.24, G:0.00, T:0.69
Consensus pattern (19 bp):
TTCTTTTCTTTTCTACATT
Found at i:31809075 original size:14 final size:14
Alignment explanation
Indices: 31809056--31809083 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
31809046 TTCACATTTC
31809056 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
31809070 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
31809084 GATTTCTGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.29, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTCTTTTCTCCA
Found at i:31809180 original size:17 final size:17
Alignment explanation
Indices: 31809154--31809187 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
31809144 GTAAAATCAA
31809154 TTTTGATTTTGATTTTG
1 TTTTGATTTTGATTTTG
* *
31809171 TTTTGCTTTTGCTTTTG
1 TTTTGATTTTGATTTTG
31809188 CTTGTGCTCA
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:0.06, C:0.06, G:0.18, T:0.71
Consensus pattern (17 bp):
TTTTGATTTTGATTTTG
Found at i:31809188 original size:6 final size:6
Alignment explanation
Indices: 31809154--31809195 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
31809144 GTAAAATCAA
* * *
31809154 TTTTGA TTTTGA TTTTG- TTTTGC TTTTGC TTTTGC TTGTGC T
1 TTTTGC TTTTGC TTTTGC TTTTGC TTTTGC TTTTGC TTTTGC T
31809196 CAAATCTGGA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
5 5 0.15
6 29 0.85
ACGTcount: A:0.05, C:0.10, G:0.19, T:0.67
Consensus pattern (6 bp):
TTTTGC
Found at i:31812268 original size:18 final size:17
Alignment explanation
Indices: 31812247--31812284 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
31812237 ATATTAAGAA
*
31812247 TTTTATTAAATTATATAT
1 TTTTACTAAATTATAT-T
31812265 TTTTACTAAATTATATT
1 TTTTACTAAATTATATT
31812282 TTT
1 TTT
31812285 AATAATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTACTAAATTATATT
Found at i:31812401 original size:16 final size:18
Alignment explanation
Indices: 31812370--31812522 Score: 74
Period size: 18 Copynumber: 8.8 Consensus size: 18
31812360 TATTAAGAAA
31812370 TTTATTAAATTATATATT
1 TTTATTAAATTATATATT
31812388 TTTATTAAA-T-TATA--
1 TTTATTAAATTATATATT
* *
31812402 TTTAAT-AATAAT-TATT
1 TTTATTAAATTATATATT
* * *
31812418 TTAAATTATATTATATAGT
1 TT-TATTAAATTATATATT
* * *
31812437 ATTA-TATATTAT-GA-T
1 TTTATTAAATTATATATT
**
31812452 TTTATTAAATTCATATAAG
1 TTTATTAAATT-ATATATT
** * *
31812471 AATATTTAATATTA-AGAAT
1 TTTA-TTAA-ATTATATATT
31812490 TTTATTAAATTATATATT
1 TTTATTAAATTATATATT
31812508 TTTATTAAATTATAT
1 TTTATTAAATTATAT
31812523 TTAATAATAA
Statistics
Matches: 99, Mismatches: 22, Indels: 28
0.66 0.15 0.19
Matches are distributed among these distances:
13 2 0.02
14 7 0.07
15 5 0.05
16 12 0.12
17 17 0.17
18 37 0.37
19 11 0.11
20 5 0.05
21 3 0.03
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (18 bp):
TTTATTAAATTATATATT
Found at i:31812461 original size:120 final size:120
Alignment explanation
Indices: 31812148--31812781 Score: 1089
Period size: 120 Copynumber: 5.3 Consensus size: 120
31812138 ATATTAAGAA
*
31812148 TTTTATTAAATTATATTTAAAAATAATTAAT-TTAAATTATATTTTATAGTATTATATATTATGA
1 TTTTATTAAATTATATTTAATAATAATT-ATGTTAAATTATATTTTATAGTATTATATATTATGA
*
31812212 TTTTATTAAATTC---TAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
65 TTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
* *
31812265 TTTTACTAAATTATATTTTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATG
1 TTTTATTAAATTATA--TTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATG
* *
31812330 ATTTTAGTAAATTCATTTAAGAATATTTAATATTAAGAAATTTATTAAATTATATAT
64 ATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
* *
31812387 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTATATAGTATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGAT
*
31812452 TTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
66 TTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
31812507 TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGAT
*
31812572 TTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
66 TTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
31812627 TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGAT
* *
31812692 TTTAGAAAATTCATATAAGGATATTTAATATTAAGAATTTTATTAAATTATATAT
66 TTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
*
31812747 ATTT-TTAAATTATATTTAATAATAATTATGTTAAA
1 TTTTATTAAATTATATTTAATAATAATTATGTTAAA
31812782 ATATGATTAA
Statistics
Matches: 496, Mismatches: 15, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
117 14 0.03
118 2 0.00
119 88 0.18
120 339 0.68
122 53 0.11
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (120 bp):
TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGAT
TTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
Found at i:31813206 original size:15 final size:15
Alignment explanation
Indices: 31813173--31813227 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 15
31813163 TTCTAAAATC
*
31813173 ATAAAATATAATACT-
1 ATAAAATATAAT-TTA
31813188 ATAAAATATAATTTA
1 ATAAAATATAATTTA
31813203 ATAAAAATATATAATTTA
1 AT--AAA-ATATAATTTA
31813221 ATAAAAT
1 ATAAAAT
31813228 TCTTAATATT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
14 1 0.03
15 16 0.46
16 3 0.09
17 3 0.09
18 12 0.34
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (15 bp):
ATAAAATATAATTTA
Found at i:31813209 original size:94 final size:94
Alignment explanation
Indices: 31813097--31813401 Score: 466
Period size: 94 Copynumber: 3.1 Consensus size: 94
31813087 AATTATTATT
* *
31813097 AAATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAAT
1 AAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAAT
* *
31813162 TTTCTAAAATCATAAAATATAATACTATA
66 TTACTAAAATCATAATATATAATACTATA
*
31813191 AAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATCTTCTTAAATGAAT
1 AAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAAT
31813256 TTACTAAAATCATAATATATAATACTATA
66 TTACTAAAATCATAATATATAATACTATA
31813285 AAATATAATTTAAAATAATAATTATTAAAAATATAATTTAATAAAATTCTTAATATTAAATATTC
1 AAATATAATTT--AATAA-AA--A-T----ATATAATTTAATAAAATTCTTAATATTAAATATTC
*
31813350 TTAAATGAATTTACTAAAATCATAATATATAACACTATA
56 TTAAATGAATTTACTAAAATCATAATATATAATACTATA
31813389 AAATATAATTTAA
1 AAATATAATTTAA
31813402 AATAATAATT
Statistics
Matches: 194, Mismatches: 7, Indels: 12
0.91 0.03 0.06
Matches are distributed among these distances:
94 100 0.52
96 5 0.03
97 2 0.01
99 1 0.01
100 1 0.01
102 2 0.01
104 83 0.43
ACGTcount: A:0.53, C:0.06, G:0.01, T:0.40
Consensus pattern (94 bp):
AAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAAT
TTACTAAAATCATAATATATAATACTATA
Found at i:31813239 original size:18 final size:18
Alignment explanation
Indices: 31813099--31813226 Score: 73
Period size: 18 Copynumber: 6.9 Consensus size: 18
31813089 TTATTATTAA
*
31813099 ATATAATTTAACAAAAAT
1 ATATAATTTAATAAAAAT
*
31813117 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAAAT
* ****
31813135 CT-TAATATTAAATATTCTT
1 ATATAAT-TT-AATAAAAAT
**
31813154 ATATGAATTTTCT-AAAAT
1 ATAT-AATTTAATAAAAAT
* *
31813172 CATAAAATATAATACTATAAA-
1 -ATATAATTTAATA--A-AAAT
31813193 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
31813211 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
31813227 TTCTTAATAT
Statistics
Matches: 81, Mismatches: 19, Indels: 20
0.68 0.16 0.17
Matches are distributed among these distances:
17 7 0.09
18 42 0.52
19 11 0.14
20 14 0.17
21 4 0.05
22 3 0.04
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.40
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:31813295 original size:38 final size:38
Alignment explanation
Indices: 31813253--31813400 Score: 122
Period size: 38 Copynumber: 4.2 Consensus size: 38
31813243 TTCTTAAATG
31813253 AATTTACTAAAATCATAATATATAATACTATAAAATAT
1 AATTTACTAAAATCATAATATATAATACTATAAAATAT
*
31813291 AA-TT--T-AAA--ATAATA-AT--TATTA-AAAATAT
1 AATTTACTAAAATCATAATATATAATACTATAAAATAT
* * * * * *
31813319 AATTTAATAAAATTCTTAATAT-TAAATATTCTTAAAT-G
1 AATTTACTAAAA-TCATAATATAT-AATACTATAAAATAT
*
31813357 AATTTACTAAAATCATAATATATAACACTATAAAATAT
1 AATTTACTAAAATCATAATATATAATACTATAAAATAT
31813395 AATTTA
1 AATTTA
31813401 AAATAATAAT
Statistics
Matches: 84, Mismatches: 12, Indels: 28
0.68 0.10 0.23
Matches are distributed among these distances:
28 9 0.11
29 6 0.07
31 3 0.04
32 9 0.11
34 3 0.04
35 7 0.08
37 19 0.23
38 24 0.29
39 4 0.05
ACGTcount: A:0.54, C:0.06, G:0.01, T:0.39
Consensus pattern (38 bp):
AATTTACTAAAATCATAATATATAATACTATAAAATAT
Found at i:31813315 original size:28 final size:28
Alignment explanation
Indices: 31813284--31813429 Score: 91
Period size: 28 Copynumber: 5.5 Consensus size: 28
31813274 ATAATACTAT
31813284 AAAATATAATTTAAAATAATAATTATTA
1 AAAATATAATTTAAAATAATAATTATTA
*
31813312 AAAATATAATTT--AATAA-AATTCTTA
1 AAAATATAATTTAAAATAATAATTATTA
* * * * *
31813337 ATATTAAATATTCTTAAATGAAT--TTACT-
1 AAAATATA-ATT-TAAAAT-AATAATTATTA
* * *
31813365 AAAATCATAA--T-ATATAA-CACTA-T-
1 AAAAT-ATAATTTAAAATAATAATTATTA
31813388 AAAATATAATTTAAAATAATAATTATTA
1 AAAATATAATTTAAAATAATAATTATTA
31813416 AAAATATAATTTAA
1 AAAATATAATTTAA
31813430 TAAAAATATA
Statistics
Matches: 89, Mismatches: 14, Indels: 30
0.67 0.11 0.23
Matches are distributed among these distances:
22 4 0.04
23 8 0.09
24 6 0.07
25 18 0.20
26 11 0.12
27 2 0.02
28 30 0.34
29 8 0.09
30 2 0.02
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (28 bp):
AAAATATAATTTAAAATAATAATTATTA
Found at i:31813320 original size:122 final size:122
Alignment explanation
Indices: 31813190--31813897 Score: 1027
Period size: 120 Copynumber: 6.0 Consensus size: 122
31813180 ATAATACTAT
*
31813190 AAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATCTTCTTAAATGAA
1 AAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAA
*
31813255 TTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATAATTATTA
66 TTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
* * * *
31813312 AAAATATAATTTAAT--AAA-AT-T--CTTAAT---A---TTAA-A-T-ATTCTT-A--AATGAA
1 AAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAA
* *
31813359 TTTACTAAAATCATAATATATAACACTATAAAATATAATTTAAAATAATAATTATTA
66 TTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
31813416 AAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAA
1 AAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAA
* *
31813481 TTTAATAAAATCATAATATATAACACTATAAAATATAATTTAAAATAATTATTATTA
66 TTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
31813538 AAAATATAATTTAGA-AAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTT--A-GA
1 AAAATATAATTTA-ATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGA
*
31813599 ATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAATTAATTATT-TT-
65 ATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
* *
31813655 TAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAA
1 AAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAA
*
31813720 TTTACTAAAATCATAATATATAATACCATAAAATATAATTTAAAATAATTATTATT-
66 TTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
* * *
31813776 -AAATATAATTTATTAAAAATATATAATTTAATAAAATTATTAATATTAAATATTCTTATATGAA
1 AAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAA
* * * * *
31813840 CTTACTATAACCATAATATATAATACTATAAAATATAATCTAAAATAATTATTCTTA
66 TTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
31813897 A
1 A
31813898 TATTAAATAT
Statistics
Matches: 536, Mismatches: 24, Indels: 52
0.88 0.04 0.08
Matches are distributed among these distances:
104 77 0.14
106 3 0.01
107 7 0.01
108 2 0.00
109 1 0.00
110 9 0.02
113 2 0.00
116 10 0.02
117 56 0.10
118 4 0.01
119 60 0.11
120 170 0.32
121 2 0.00
122 132 0.25
123 1 0.00
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (122 bp):
AAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAA
TTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
Found at i:31813408 original size:15 final size:14
Alignment explanation
Indices: 31813388--31813453 Score: 53
Period size: 15 Copynumber: 4.4 Consensus size: 14
31813378 ATAACACTAT
31813388 AAAATATAATTTAA
1 AAAATATAATTTAA
* *
31813402 AATA-ATAATTATTA
1 AAAATATAATT-TAA
31813416 AAAATATAATTTAATAA
1 AAAATATAA-TT--TAA
31813433 AAATATATAATTTAA
1 AAA-ATATAATTTAA
31813448 TAAAAT
1 -AAAAT
31813454 TCTTAATATT
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
13 6 0.14
14 8 0.19
15 9 0.21
16 5 0.12
17 8 0.19
18 6 0.14
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AAAATATAATTTAA
Found at i:31813421 original size:16 final size:16
Alignment explanation
Indices: 31813400--31813452 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 16
31813390 AATATAATTT
*
31813400 AAAATAATAATTATTA
1 AAAATAATAATTAATA
31813416 AAAAT-ATAATTTAATA
1 AAAATAATAA-TTAATA
31813432 AAAATATATAATTTAATA
1 AAAATA-ATAA-TTAATA
31813450 AAA
1 AAA
31813453 TTCTTAATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
15 4 0.12
16 15 0.45
18 14 0.42
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AAAATAATAATTAATA
Found at i:31813453 original size:33 final size:29
Alignment explanation
Indices: 31813385--31813453 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 29
31813375 TATATAACAC
* *
31813385 TATAAAATATAATTTAAAATAATAATTAT
1 TATAAAATATAATTTAAAAAAATAATAAT
31813414 TA-AAAATATAATTTAATAAAAATATATAATT
1 TATAAAATATAATTTAA-AAAAATA-ATAA-T
31813445 TAATAAAAT
1 T-ATAAAAT
31813454 TCTTAATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
28 14 0.42
29 8 0.24
30 3 0.09
31 2 0.06
32 1 0.03
33 5 0.15
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (29 bp):
TATAAAATATAATTTAAAAAAATAATAAT
Found at i:31813465 original size:18 final size:18
Alignment explanation
Indices: 31813415--31813452 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
31813405 AATAATTATT
31813415 AAAA-ATATAATTTAATA
1 AAAATATATAATTTAATA
31813432 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
31813450 AAA
1 AAA
31813453 TTCTTAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAATATATAATTTAATA
Found at i:31813708 original size:239 final size:238
Alignment explanation
Indices: 31813311--31813897 Score: 944
Period size: 239 Copynumber: 2.4 Consensus size: 238
31813301 AATAATTATT
31813311 AAAA-ATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTACTAAAATCATAA
1 AAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTT--ATGAATTTACTAAAATCATAA
* * *
31813375 TATATAACACTATAAAATATAATTTAAAATAATAATTATTAAAAATATAATTTAATAAAAATATA
64 TATATAATACTATAAAATATAATTTAAAATAATTATT-TT-TAAATATAATTTAATAAAAATATA
31813440 TAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTAATAAAATCATAATATATAAC
127 TAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTAATAAAATCATAATATATAAC
*
31813505 ACTATAAAATATAATTTAAAATAATTATTATTAAAAATATAATTTAGAA
192 ACCATAAAATATAATTTAAAATAATTATTATT--AAATATAATTTAGAA
31813554 AAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTA-GAATTTACTAAAATCATAATA
1 AAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATGAATTTACTAAAATCATAATA
*
31813618 TATAATACTATAAAATATAATTTAAATTAATTATTTTTAAATATAATTTAATAAAAATATATAAT
66 TATAATACTATAAAATATAATTTAAAATAATTATTTTTAAATATAATTTAATAAAAATATATAAT
* * *
31813683 TTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACCA
131 TTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTAATAAAATCATAATATATAACACCA
**
31813748 TAAAATATAATTTAAAATAATTATTATTAAATATAATTTATTA
196 TAAAATATAATTTAAAATAATTATTATTAAATATAATTTAGAA
* * * *
31813791 AAAATATATAATTTAATAAAATTATTAATATTAAATATTCTTATATGAACTTACTATAACCATAA
1 AAAATATATAATTTAATAAAATTCTTAATATTAAATATTC-T-TATGAATTTACTAAAATCATAA
* *
31813856 TATATAATACTATAAAATATAATCTAAAATAATTATTCTTAA
64 TATATAATACTATAAAATATAATTTAAAATAATTATTTTTAA
31813898 TATTAAATAT
Statistics
Matches: 323, Mismatches: 17, Indels: 11
0.92 0.05 0.03
Matches are distributed among these distances:
237 52 0.16
238 1 0.00
239 118 0.37
240 57 0.18
241 53 0.16
242 1 0.00
243 4 0.01
244 37 0.11
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (238 bp):
AAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATGAATTTACTAAAATCATAATA
TATAATACTATAAAATATAATTTAAAATAATTATTTTTAAATATAATTTAATAAAAATATATAAT
TTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTAATAAAATCATAATATATAACACCA
TAAAATATAATTTAAAATAATTATTATTAAATATAATTTAGAA
Found at i:31813824 original size:18 final size:18
Alignment explanation
Indices: 31813778--31813824 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
31813768 TTATTATTAA
*
31813778 ATATAATTTATTAAAAAT
1 ATATAATTTAATAAAAAT
*
31813796 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAAAT
31813814 AT-TAATATTAA
1 ATATAAT-TTAA
31813825 ATATTCTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 4 0.15
18 22 0.85
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:31813872 original size:79 final size:79
Alignment explanation
Indices: 31813791--31813955 Score: 230
Period size: 79 Copynumber: 2.1 Consensus size: 79
31813781 TAATTTATTA
* *
31813791 AAAATATATAATTTAATAA-AATTA-TTAATATTAAATATTCTTATATGAACTTACTATAACCAT
1 AAAATATATAATCTAA-AATAATTATTTAATATTAAATATTCTTATATGAACTTACTAAAACCAT
31813854 AATATATAATACTAT
65 AATATATAATACTAT
* *
31813869 -AAA-ATATAATCTAAAATAATTATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCA
1 AAAATATATAATCTAAAATAATTA-T-TTAATATTAAATATTCTTATATGAACTTACTAAAACCA
*
31813932 TAATATATAATACTGT
64 TAATATATAATACTAT
31813948 AAAATATA
1 AAAATATA
31813956 ATTTATAATC
Statistics
Matches: 76, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
75 2 0.03
76 15 0.20
77 3 0.04
79 50 0.66
80 3 0.04
81 3 0.04
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (79 bp):
AAAATATATAATCTAAAATAATTATTTAATATTAAATATTCTTATATGAACTTACTAAAACCATA
ATATATAATACTAT
Found at i:31813886 original size:59 final size:59
Alignment explanation
Indices: 31813335--31813886 Score: 268
Period size: 61 Copynumber: 9.2 Consensus size: 59
31813325 ATAAAATTCT
* * * * *
31813335 TAATATTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAACACTATAAAATA
1 TAATATAAAATATTCTTATATGAAATTACTATAATCATAATATATAATACTATAAAATA
* ** * * * * * * *
31813394 TAATTTAAAATAATAATTAT-TAAAAATATAATTTAATAAAAATATATAAT-TTAATAAAATTCT
1 TAATATAAAAT-ATTCTTATAT-GAAAT-TACTATAATCATAATATATAATACT-ATAAAA-T-A
* * * * * *
31813457 TAATATTAAATATTCTTAAATGAATTTAATAAAATCATAATATATAACACTATAAAATA
1 TAATATAAAATATTCTTATATGAAATTACTATAATCATAATATATAATACTATAAAATA
* * * * * * * *
31813516 TAATTTAAAATAATTATTAT-TAAAAATATAATTTAGA-AAAAATATATAAT-TTAATAAAATTC
1 TAATATAAAAT-ATTCTTATAT-GAAAT-TACTATA-ATCATAATATATAATACT-ATAAAA-T-
*
31813578 T
59 A
* * *
31813579 TAATATTAAATATTC-T-TA-GAATTTACTAAAATCATAATATATAATACTATAAAATA
1 TAATATAAAATATTCTTATATGAAATTACTATAATCATAATATATAATACTATAAAATA
* * * * * * * * * *
31813635 TAATTTAAATTAATTATT-T-TTAAATATAATTTAATAAAAATATATAAT-TTAATAAAATTCT
1 TAATATAAAAT-ATTCTTATATGAAAT-TACTATAATCATAATATATAATACT-ATAAAA-T-A
* * * *
31813696 TAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACCATAAAATA
1 TAATATAAAATATTCTTATATGAAATTACTATAATCATAATATATAATACTATAAAATA
* * * * * * * *
31813755 TAATTTAAAATAATTATTAT-T-AAATATAATTTATTAAAAATATATAAT-TTAATAAAATTA
1 TAATATAAAAT-ATTCTTATATGAAAT-TACTATAATCATAATATATAATACT-ATAAAA-TA
* * *
31813815 TTAATATTAAATATTCTTATATGAACTTACTATAACCATAATATATAATACTATAAAATA
1 -TAATATAAAATATTCTTATATGAAATTACTATAATCATAATATATAATACTATAAAATA
*
31813875 TAATCTAAAATA
1 TAATATAAAATA
31813887 ATTATTCTTA
Statistics
Matches: 351, Mismatches: 106, Indels: 72
0.66 0.20 0.14
Matches are distributed among these distances:
56 8 0.02
57 5 0.01
58 30 0.09
59 89 0.25
60 46 0.13
61 131 0.37
62 23 0.07
63 19 0.05
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (59 bp):
TAATATAAAATATTCTTATATGAAATTACTATAATCATAATATATAATACTATAAAATA
Found at i:31813983 original size:79 final size:79
Alignment explanation
Indices: 31813811--31813957 Score: 240
Period size: 79 Copynumber: 1.9 Consensus size: 79
31813801 ATTTAATAAA
*
31813811 ATTATTAATATTAAATATTCTTATATGAACTTACTATAACCATAATATATAATACTATAAAATAT
1 ATTATTAATATTAAATATTCTTATATGAACTTACTAAAACCATAATATATAATACTATAAAATAT
*
31813876 AATCTAAAATAATT
66 AATCTAAAATAACT
* * * *
31813890 ATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTGTAAAATAT
1 ATTATTAATATTAAATATTCTTATATGAACTTACTAAAACCATAATATATAATACTATAAAATAT
31813955 AAT
66 AAT
31813958 TTATAATCTA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
79 63 1.00
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.41
Consensus pattern (79 bp):
ATTATTAATATTAAATATTCTTATATGAACTTACTAAAACCATAATATATAATACTATAAAATAT
AATCTAAAATAACT
Found at i:31815410 original size:49 final size:49
Alignment explanation
Indices: 31815340--31815443 Score: 172
Period size: 49 Copynumber: 2.1 Consensus size: 49
31815330 AAAAAAAAAC
* * *
31815340 AAATTACAATTAAGTTTAATATCATGAATCAAAAGGTGAACACTTTACA
1 AAATTACAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTACA
*
31815389 AAATTACAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
1 AAATTACAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTACA
31815438 AAATTA
1 AAATTA
31815444 TAACACATGA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.48, C:0.13, G:0.08, T:0.31
Consensus pattern (49 bp):
AAATTACAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTACA
Found at i:31819173 original size:22 final size:21
Alignment explanation
Indices: 31819144--31819190 Score: 85
Period size: 22 Copynumber: 2.2 Consensus size: 21
31819134 CCAAATAAGA
31819144 AAATGATGGAAGAAGAAGCAG
1 AAATGATGGAAGAAGAAGCAG
31819165 AAATCGATGGAAGAAGAAGCAG
1 AAAT-GATGGAAGAAGAAGCAG
31819187 AAAT
1 AAAT
31819191 TACCTCTGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 4 0.16
22 21 0.84
ACGTcount: A:0.53, C:0.06, G:0.30, T:0.11
Consensus pattern (21 bp):
AAATGATGGAAGAAGAAGCAG
Found at i:31820133 original size:21 final size:21
Alignment explanation
Indices: 31820107--31820174 Score: 79
Period size: 21 Copynumber: 3.3 Consensus size: 21
31820097 TTTTTGAGAT
31820107 TTTTAACATTAAATTTTTATA
1 TTTTAACATTAAATTTTTATA
* *
31820128 TTTTAA-A-T-ATTTTTTGAGA
1 TTTTAACATTAAATTTTT-ATA
31820147 TTTTTAACATTAAATTTTTATA
1 -TTTTAACATTAAATTTTTATA
31820169 TTTTAA
1 TTTTAA
31820175 ATATTTTTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
18 6 0.16
19 3 0.08
20 7 0.18
21 13 0.34
22 3 0.08
23 6 0.16
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (21 bp):
TTTTAACATTAAATTTTTATA
Found at i:31820141 original size:41 final size:41
Alignment explanation
Indices: 31820096--31820184 Score: 178
Period size: 41 Copynumber: 2.2 Consensus size: 41
31820086 TAATTATAAT
31820096 TTTTTTGAGATTTTTAACATTAAATTTTTATATTTTAAATA
1 TTTTTTGAGATTTTTAACATTAAATTTTTATATTTTAAATA
31820137 TTTTTTGAGATTTTTAACATTAAATTTTTATATTTTAAATA
1 TTTTTTGAGATTTTTAACATTAAATTTTTATATTTTAAATA
31820178 TTTTTTG
1 TTTTTTG
31820185 TGTTGAAAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (41 bp):
TTTTTTGAGATTTTTAACATTAAATTTTTATATTTTAAATA
Found at i:31820307 original size:21 final size:21
Alignment explanation
Indices: 31820262--31820307 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
31820252 ATAATAAAAT
31820262 AATAATTTTATTTTTGTAATG
1 AATAATTTTATTTTTGTAATG
* *
31820283 -ATAATGTTTTTTTTTGT-GTG
1 AATAAT-TTTATTTTTGTAATG
31820303 AATAA
1 AATAA
31820308 AACAGTTTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (21 bp):
AATAATTTTATTTTTGTAATG
Found at i:31820427 original size:22 final size:22
Alignment explanation
Indices: 31820363--31820433 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
31820353 TAAGTGATAT
* *
31820363 TATTGTGTTTTGCATGCTTTTG
1 TATTGTGATTTGCATGTTTTTG
* * * *
31820385 TATATATTATTTTG-ATATTTTTT
1 TAT-TGTGA-TTTGCATGTTTTTG
31820408 TATTGTGATTTGCATGTTTTTG
1 TATTGTGATTTGCATGTTTTTG
31820430 TATT
1 TATT
31820434 ATATTTATGT
Statistics
Matches: 36, Mismatches: 10, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
21 4 0.11
22 17 0.47
23 11 0.31
24 4 0.11
ACGTcount: A:0.17, C:0.04, G:0.15, T:0.63
Consensus pattern (22 bp):
TATTGTGATTTGCATGTTTTTG
Found at i:31824767 original size:35 final size:36
Alignment explanation
Indices: 31824703--31824774 Score: 96
Period size: 35 Copynumber: 2.0 Consensus size: 36
31824693 ACAACCATTC
*
31824703 AACAAAACACAAAAAATACTATAACAATTCA-ACAA
1 AACAAAACACAAAAAATACTACAACAATTCACACAA
31824738 AACAAAACAC-AAAAATGACTACCAA-AATTCACACAA
1 AACAAAACACAAAAAAT-ACTA-CAACAATTCACACAA
31824774 A
1 A
31824775 TTGCCATAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
34 6 0.18
35 20 0.61
36 7 0.21
ACGTcount: A:0.64, C:0.22, G:0.01, T:0.12
Consensus pattern (36 bp):
AACAAAACACAAAAAATACTACAACAATTCACACAA
Found at i:31830555 original size:30 final size:30
Alignment explanation
Indices: 31830483--31830555 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
31830473 ATGTTTACAC
31830483 ATTCTATCAATTTGATCCTAAATATAAAAA
1 ATTCTATCAATTTGATCCTAAATATAAAAA
* * * *
31830513 ATTCAATAAATTTGA-CCTTAATATTTACAAA
1 ATTCTATCAATTTGATCC-TAA-ATATAAAAA
31830544 ATT-TATCAATTT
1 ATTCTATCAATTT
31830556 AGTACTAACT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
29 2 0.06
30 23 0.66
31 10 0.29
ACGTcount: A:0.44, C:0.12, G:0.03, T:0.41
Consensus pattern (30 bp):
ATTCTATCAATTTGATCCTAAATATAAAAA
Found at i:31830589 original size:8 final size:9
Alignment explanation
Indices: 31830566--31830599 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
31830556 AGTACTAACT
*
31830566 TTAAAAATT
1 TTAAAAATA
31830575 TTAAAAATA
1 TTAAAAATA
31830584 TTAAAAATA
1 TTAAAAATA
31830593 TTAAAAA
1 TTAAAAA
31830600 AAATCAGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
TTAAAAATA
Found at i:31834090 original size:5 final size:5
Alignment explanation
Indices: 31834082--31834109 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
31834072 AAAACATTTT
31834082 AAAGA AAAGA AAAGA AAAGA AAAGA AAA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAA
31834110 CTTAATCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:31844823 original size:51 final size:51
Alignment explanation
Indices: 31844747--31844849 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
31844737 TTGGGAAGCT
*
31844747 TGTGCATCACTTTTCTCTTGCTCATATGTCCATTGGGCTTATAATTCATCA
1 TGTGCATCACTTATCTCTTGCTCATATGTCCATTGGGCTTATAATTCATCA
31844798 TGTGCATCACTTATCTCTTGCTCATATGTCCATTGGGCTTATAATTCATCA
1 TGTGCATCACTTATCTCTTGCTCATATGTCCATTGGGCTTATAATTCATCA
31844849 T
1 T
31844850 CCTACAGACT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.43
Consensus pattern (51 bp):
TGTGCATCACTTATCTCTTGCTCATATGTCCATTGGGCTTATAATTCATCA
Found at i:31845876 original size:32 final size:32
Alignment explanation
Indices: 31845840--31845904 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
31845830 TGGGGAATTC
31845840 TTTGCTTCTGTTCTTTCATGGAGGACCAGTGT
1 TTTGCTTCTGTTCTTTCATGGAGGACCAGTGT
*
31845872 TTTGCTTCTGTTCTTTCATGGAGGACTAGTGT
1 TTTGCTTCTGTTCTTTCATGGAGGACCAGTGT
31845904 T
1 T
31845905 CTTTCATGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.12, C:0.17, G:0.25, T:0.46
Consensus pattern (32 bp):
TTTGCTTCTGTTCTTTCATGGAGGACCAGTGT
Found at i:31847465 original size:14 final size:15
Alignment explanation
Indices: 31847443--31847519 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
31847433 CAATCAAACA
31847443 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
31847457 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
31847472 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
31847492 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
31847506 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
31847520 ATTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:31847484 original size:20 final size:20
Alignment explanation
Indices: 31847459--31847498 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
31847449 AATATTTTCC
*
31847459 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
31847479 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
31847499 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:31847504 original size:34 final size:35
Alignment explanation
Indices: 31847447--31847513 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
31847437 CAAACACCAG
*
31847447 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
31847482 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
31847514 TATTTTATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:31848558 original size:34 final size:33
Alignment explanation
Indices: 31848506--31848582 Score: 129
Period size: 34 Copynumber: 2.3 Consensus size: 33
31848496 AATAACAGTT
31848506 CAGT-TCAGTTGGGCCTTAGCCCATTATAGTGA
1 CAGTATCAGTTGGGCCTTAGCCCATTATAGTGA
31848538 CAGTATCAGTGTGGGCCTTAGCCCATTATAGTGA
1 CAGTATCAGT-TGGGCCTTAGCCCATTATAGTGA
*
31848572 CAGTAACAGTT
1 CAGTATCAGTT
31848583 CAGACATGCA
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
32 4 0.10
33 6 0.14
34 32 0.76
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (33 bp):
CAGTATCAGTTGGGCCTTAGCCCATTATAGTGA
Found at i:31848910 original size:27 final size:27
Alignment explanation
Indices: 31848848--31848987 Score: 187
Period size: 27 Copynumber: 5.3 Consensus size: 27
31848838 ATAACATTAA
*
31848848 GCAT-ACAATCATTTTATAACATAG-G
1 GCATAACAGTCATTTTATAACATAGAG
*
31848873 GCATAATAGTCATTTTATAACATAGAG
1 GCATAACAGTCATTTTATAACATAGAG
31848900 GCATAACAGTCATTTTATAACATA-AGG
1 GCATAACAGTCATTTTATAACATAGA-G
* * *
31848927 GCATAACCGTTATTTTATAACATAGGG
1 GCATAACAGTCATTTTATAACATAGAG
* *
31848954 GCATAACCGTCATTTTATAACATAGGG
1 GCATAACAGTCATTTTATAACATAGAG
31848981 GCATAAC
1 GCATAAC
31848988 TATTATTTTA
Statistics
Matches: 104, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
25 4 0.04
26 19 0.18
27 81 0.78
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (27 bp):
GCATAACAGTCATTTTATAACATAGAG
Found at i:31848943 original size:54 final size:54
Alignment explanation
Indices: 31848848--31848999 Score: 211
Period size: 54 Copynumber: 2.9 Consensus size: 54
31848838 ATAACATTAA
* * *
31848848 GCAT-ACAATCATTTTATAACAT-AGGGCATAATAGTCATTTTATAACATAGAG
1 GCATAACAGTCATTTTATAACATAAGGGCATAACAGTTATTTTATAACATAGAG
* *
31848900 GCATAACAGTCATTTTATAACATAAGGGCATAACCGTTATTTTATAACATAGGG
1 GCATAACAGTCATTTTATAACATAAGGGCATAACAGTTATTTTATAACATAGAG
* *
31848954 GCATAACCGTCATTTTATAACATAGGGGCATAACTA-TTATTTTATA
1 GCATAACAGTCATTTTATAACATAAGGGCATAAC-AGTTATTTTATA
31849000 GCAATTTGGG
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
52 4 0.04
53 17 0.19
54 68 0.76
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (54 bp):
GCATAACAGTCATTTTATAACATAAGGGCATAACAGTTATTTTATAACATAGAG
Found at i:31849974 original size:33 final size:33
Alignment explanation
Indices: 31849932--31850033 Score: 134
Period size: 33 Copynumber: 3.1 Consensus size: 33
31849922 AGGTTTCGAT
* *
31849932 AAACGCAATGAATGGAGAGAAGCAATTTTCGGC
1 AAACTCAATGAATGGAGAGAAGTAATTTTCGGC
* * *
31849965 AAACTCAATGGATGG-GAAGAAGTAATATTCGAC
1 AAACTCAATGAATGGAG-AGAAGTAATTTTCGGC
*
31849998 AAACTCAATGAATAGAGAGAAGTAATTTTCGGC
1 AAACTCAATGAATGGAGAGAAGTAATTTTCGGC
31850031 AAA
1 AAA
31850034 GGGAACAACT
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
32 1 0.02
33 56 0.97
34 1 0.02
ACGTcount: A:0.43, C:0.13, G:0.24, T:0.21
Consensus pattern (33 bp):
AAACTCAATGAATGGAGAGAAGTAATTTTCGGC
Found at i:31854781 original size:13 final size:13
Alignment explanation
Indices: 31854763--31854793 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
31854753 TTATACTAAT
31854763 TTCTAAGTATAAA
1 TTCTAAGTATAAA
31854776 TTCTAAGTATAAA
1 TTCTAAGTATAAA
31854789 TTCTA
1 TTCTA
31854794 TTTTTTCGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.42
Consensus pattern (13 bp):
TTCTAAGTATAAA
Found at i:31855215 original size:10 final size:10
Alignment explanation
Indices: 31855200--31855228 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
31855190 AGTTCCCGAT
31855200 ATTCAATATC
1 ATTCAATATC
31855210 ATTCAATATC
1 ATTCAATATC
31855220 ATTCAATAT
1 ATTCAATAT
31855229 TGTCAACCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.41
Consensus pattern (10 bp):
ATTCAATATC
Found at i:31856831 original size:27 final size:27
Alignment explanation
Indices: 31856778--31856831 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
31856768 TTAGACTTCA
* * *
31856778 ATTAGATTTTTAAATTTTAGTTGAATT
1 ATTAGATGTTTAAATTTTAATTAAATT
31856805 ATTAGATGTTTATAA-TTTAATTAAATT
1 ATTAGATGTTTA-AATTTTAATTAAATT
31856832 TCAAGTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (27 bp):
ATTAGATGTTTAAATTTTAATTAAATT
Found at i:31857700 original size:17 final size:18
Alignment explanation
Indices: 31857664--31857701 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
31857654 CCAGTTCGTA
*
31857664 TTTTCCTAAAAACCTTTG
1 TTTTCCTAAAAACCTATG
*
31857682 TTTTCGTAAAAACC-ATG
1 TTTTCCTAAAAACCTATG
31857699 TTT
1 TTT
31857702 CCAGTCAACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (18 bp):
TTTTCCTAAAAACCTATG
Found at i:31861121 original size:21 final size:21
Alignment explanation
Indices: 31861095--31861139 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
31861085 AGTCTATTAC
*
31861095 ATGCTAAGTATGATATGTTAT
1 ATGCTAAGTATAATATGTTAT
*
31861116 ATGCTAAGTATAATTTGTTAT
1 ATGCTAAGTATAATATGTTAT
31861137 ATG
1 ATG
31861140 AAAAACATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.18, T:0.44
Consensus pattern (21 bp):
ATGCTAAGTATAATATGTTAT
Found at i:31861756 original size:20 final size:19
Alignment explanation
Indices: 31861720--31861759 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
31861710 ATTTGGGACA
**
31861720 ATTTTTGTTTTGGACTTTT
1 ATTTTTGTTTTAAACTTTT
31861739 ATTTTCTGTTTTAAACTTTT
1 ATTTT-TGTTTTAAACTTTT
31861759 A
1 A
31861760 ATCGTTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.17, C:0.07, G:0.10, T:0.65
Consensus pattern (19 bp):
ATTTTTGTTTTAAACTTTT
Found at i:31867591 original size:13 final size:13
Alignment explanation
Indices: 31867573--31867598 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31867563 TCCCAAAATT
31867573 AAAATTTTAAAAG
1 AAAATTTTAAAAG
31867586 AAAATTTTAAAAG
1 AAAATTTTAAAAG
31867599 GCCTTATTAC
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:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (13 bp):
AAAATTTTAAAAG
Found at i:31867882 original size:34 final size:33
Alignment explanation
Indices: 31867834--31867906 Score: 101
Period size: 34 Copynumber: 2.2 Consensus size: 33
31867824 ACAGTTCAAT
31867834 TCAGTTGGGCCTTAGCCCATTACAATGACAGTA
1 TCAGTTGGGCCTTAGCCCATTACAATGACAGTA
* * *
31867867 TCAGTGTGGGCCTTAGCCTATTACAGTGGCAGTA
1 TCAGT-TGGGCCTTAGCCCATTACAATGACAGTA
*
31867901 ACAGTT
1 TCAGTT
31867907 CAAATATGCA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 6 0.17
34 29 0.83
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.29
Consensus pattern (33 bp):
TCAGTTGGGCCTTAGCCCATTACAATGACAGTA
Found at i:31868217 original size:27 final size:27
Alignment explanation
Indices: 31868176--31868381 Score: 286
Period size: 27 Copynumber: 7.6 Consensus size: 27
31868166 CATTAAGCAC
*
31868176 ACAGTTATTTTATAACATAGGGGCATA
1 ACAGTCATTTTATAACATAGGGGCATA
* * * *
31868203 ATAGACATTTAATAACATAAGGGCATA
1 ACAGTCATTTTATAACATAGGGGCATA
31868230 ACAGTCATTTTATAACATAGGGGCATA
1 ACAGTCATTTTATAACATAGGGGCATA
* *
31868257 ATAGTCATTTTATAACATATGGGCATA
1 ACAGTCATTTTATAACATAGGGGCATA
*
31868284 GCAGTCATTTTATAACATAGGGGCATA
1 ACAGTCATTTTATAACATAGGGGCATA
* *
31868311 ACCGTTATTTTATAACATAGGGGCATA
1 ACAGTCATTTTATAACATAGGGGCATA
* *
31868338 ACTGTCATCTTATAACATAGGGGCATA
1 ACAGTCATTTTATAACATAGGGGCATA
* *
31868365 ACCGTTATTTTATAACA
1 ACAGTCATTTTATAACA
31868382 GGTTGGGGGT
Statistics
Matches: 156, Mismatches: 23, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 156 1.00
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (27 bp):
ACAGTCATTTTATAACATAGGGGCATA
Found at i:31875819 original size:27 final size:26
Alignment explanation
Indices: 31875780--31875919 Score: 183
Period size: 27 Copynumber: 5.3 Consensus size: 26
31875770 ATAACATTAA
*
31875780 GCAT-ACAGTCATTATATAACATAGG
1 GCATAACAGTCATTTTATAACATAGG
*
31875805 GACATAATAGTCATTTTATAACATAGG
1 G-CATAACAGTCATTTTATAACATAGG
*
31875832 GCCATAACAGTCATTTTATAATATAAGG
1 G-CATAACAGTCATTTTATAACAT-AGG
*
31875860 GCATAACCGTCATTTTATAACATAGG
1 GCATAACAGTCATTTTATAACATAGG
* *
31875886 GCATAATAGTTATTTTATAACATAGGG
1 GCATAACAGTCATTTTATAACATA-GG
31875913 GCATAAC
1 GCATAAC
31875920 TGTTATTTAA
Statistics
Matches: 100, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
25 1 0.01
26 27 0.27
27 68 0.68
28 4 0.04
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (26 bp):
GCATAACAGTCATTTTATAACATAGG
Found at i:31878119 original size:21 final size:20
Alignment explanation
Indices: 31878069--31878120 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
31878059 AGCTAAACAG
* *
31878069 AAACCCATAAGGTTGAACGG
1 AAACCCATAAGATTGAACGA
* **
31878089 AAGCTTATAAGAATTGAACGA
1 AAACCCATAAG-ATTGAACGA
31878110 AAACCCATAAG
1 AAACCCATAAG
31878121 GGTTAAACAG
Statistics
Matches: 23, Mismatches: 8, Indels: 1
0.72 0.25 0.03
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.46, C:0.17, G:0.19, T:0.17
Consensus pattern (20 bp):
AAACCCATAAGATTGAACGA
Found at i:31878227 original size:42 final size:41
Alignment explanation
Indices: 31878048--31878237 Score: 136
Period size: 42 Copynumber: 4.6 Consensus size: 41
31878038 GGCTGAATAG
* * * **
31878048 AAGCTCATGAGAGCTAAACAGAAACCCATAA-GGTTGAACGG
1 AAGCTCGTGAGAGCTGAACAGAAA-CCATAAGGGTTAAACAA
** * ** *
31878089 AAGCTTATAAGAATTGAAC-GAAAACCCATAAGGGTTAAACAG
1 AAGCTCGTGAGAGCTGAACAG-AAA-CCATAAGGGTTAAACAA
* *
31878131 AAG-TCGTGTGAGTTGAACAGAAACCTATAAGGGTTAAACAA
1 AAGCTCGTGAGAGCTGAACAGAAACC-ATAAGGGTTAAACAA
* * * *
31878172 AAGCTCAAT-AGAGCTGAACGGAAACTCATATGAGTTAAACAA
1 AAGCTC-GTGAGAGCTGAACAGAAAC-CATAAGGGTTAAACAA
*
31878214 AAGCTCGTGAGAGCTAAACAGAAA
1 AAGCTCGTGAGAGCTGAACAGAAA
31878238 GTAAACACAA
Statistics
Matches: 119, Mismatches: 22, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
40 3 0.03
41 55 0.46
42 59 0.50
43 2 0.02
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.18
Consensus pattern (41 bp):
AAGCTCGTGAGAGCTGAACAGAAACCATAAGGGTTAAACAA
Found at i:31881986 original size:27 final size:27
Alignment explanation
Indices: 31881956--31882160 Score: 189
Period size: 27 Copynumber: 7.6 Consensus size: 27
31881946 ATATTGAGCC
** *
31881956 CGCACACTCGGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
31881983 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
31882010 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
31882038 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
31882065 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * **
31882092 CGCACACTTAGTGCAACATATTCATTT
1 CGCACACTTAGTGCTACATAATCAACT
* *
31882119 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
31882146 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31882161 GTACAATTTA
Statistics
Matches: 155, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
27 130 0.84
28 25 0.16
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:31894388 original size:21 final size:22
Alignment explanation
Indices: 31894361--31894425 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 22
31894351 AAGAGCTCGA
31894361 AGGCTAAACAGAAGCTCATAAG
1 AGGCTAAACAGAAGCTCATAAG
* * *
31894383 A-GCTAACCAGAAACCCATAA-
1 AGGCTAAACAGAAGCTCATAAG
* * *
31894403 AGGTTGAACGGAAGCTCATAAG
1 AGGCTAAACAGAAGCTCATAAG
31894425 A
1 A
31894426 ACTGAAGAAA
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
20 1 0.03
21 29 0.91
22 2 0.06
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.14
Consensus pattern (22 bp):
AGGCTAAACAGAAGCTCATAAG
Found at i:31894481 original size:42 final size:42
Alignment explanation
Indices: 31894365--31894605 Score: 188
Period size: 42 Copynumber: 5.7 Consensus size: 42
31894355 GCTCGAAGGC
* * *
31894365 TAAACAGAAGCTC-ATAAGAGCT-AACCAGAAACCCATAAAGGT
1 TAAACAAAAGCTCAAT-AGAGCTGAA-CGGAAACCCATAAGGGT
* ** * * *
31894407 TGAACGGAAGCTC-ATAAGAACTGAA-GAAAAACCTATAAGGGT
1 TAAACAAAAGCTCAAT-AGAGCTGAACG-GAAACCCATAAGGGT
* * *
31894449 TAAACAGAAGCTCGAGT-GAGTTGAACGGAAACCCATAAGGGT
1 TAAACAAAAGCTC-AATAGAGCTGAACGGAAACCCATAAGGGT
* * *
31894491 TAAACAAAAGCTTAATAAAGCTGAACGGAAACCCATAAGGCT
1 TAAACAAAAGCTCAATAGAGCTGAACGGAAACCCATAAGGGT
* * * * *
31894533 TAAACAAAAGCTCAATGGAGCTGAACGAAAACTCATATGAGT
1 TAAACAAAAGCTCAATAGAGCTGAACGGAAACCCATAAGGGT
* *
31894575 TAAACAGAAGCTC-ATGAGAGCTAAACGGAAA
1 TAAACAAAAGCTCAAT-AGAGCTGAACGGAAA
31894606 GTAAACACAA
Statistics
Matches: 160, Mismatches: 32, Indels: 14
0.78 0.16 0.07
Matches are distributed among these distances:
41 4 0.03
42 152 0.95
43 3 0.02
44 1 0.01
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.16
Consensus pattern (42 bp):
TAAACAAAAGCTCAATAGAGCTGAACGGAAACCCATAAGGGT
Found at i:31894599 original size:21 final size:21
Alignment explanation
Indices: 31894533--31894600 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
31894523 CCATAAGGCT
*
31894533 TAAACAAAAGCTCAATG-GAGC
1 TAAACAGAAGCTC-ATGAGAGC
* * *
31894554 TGAAC-GAAAACTCAT-ATGAGT
1 TAAACAG-AAGCTCATGA-GAGC
31894575 TAAACAGAAGCTCATGAGAGC
1 TAAACAGAAGCTCATGAGAGC
31894596 TAAAC
1 TAAAC
31894601 GGAAAGTAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 10
0.67 0.13 0.19
Matches are distributed among these distances:
20 2 0.06
21 31 0.89
22 2 0.06
ACGTcount: A:0.46, C:0.18, G:0.19, T:0.18
Consensus pattern (21 bp):
TAAACAGAAGCTCATGAGAGC
Found at i:31899453 original size:18 final size:18
Alignment explanation
Indices: 31899427--31899464 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
31899417 AAGTTTATTA
*
31899427 AGTTCAAATTTGATTTTT
1 AGTTCAAATTGGATTTTT
*
31899445 AGTTTAAATTGGATTTTT
1 AGTTCAAATTGGATTTTT
31899463 AG
1 AG
31899465 AATTATGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.29, C:0.03, G:0.16, T:0.53
Consensus pattern (18 bp):
AGTTCAAATTGGATTTTT
Found at i:31899499 original size:14 final size:15
Alignment explanation
Indices: 31899480--31899519 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
31899470 TGTTTCATAC
*
31899480 TTTTAGATTTTAA-G
1 TTTTAGATTTAAATG
*
31899494 TTTTAGATTTAAATT
1 TTTTAGATTTAAATG
31899509 TTTTAGATTTA
1 TTTTAGATTTA
31899520 GATTTTAGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.30, C:0.00, G:0.10, T:0.60
Consensus pattern (15 bp):
TTTTAGATTTAAATG
Found at i:31899514 original size:15 final size:15
Alignment explanation
Indices: 31899480--31899525 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
31899470 TGTTTCATAC
* *
31899480 TTTTAGATTTTAA-G
1 TTTTAGATTTAAATT
31899494 TTTTAGATTTAAATT
1 TTTTAGATTTAAATT
*
31899509 TTTTAGATTTAGATT
1 TTTTAGATTTAAATT
31899524 TT
1 TT
31899526 AGGTAAATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTTAGATTTAAATT
Found at i:31913926 original size:12 final size:12
Alignment explanation
Indices: 31913902--31913951 Score: 52
Period size: 12 Copynumber: 4.4 Consensus size: 12
31913892 TTATATTATT
31913902 TTTAAA-AAA-A
1 TTTAAATAAATA
31913912 TTTAAATAAATA
1 TTTAAATAAATA
* *
31913924 TTTATATTAAT-
1 TTTAAATAAATA
*
31913935 TTTAATTAAATA
1 TTTAAATAAATA
31913947 TTTAA
1 TTTAA
31913952 TTATTTTATA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
10 6 0.19
11 11 0.34
12 15 0.47
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
TTTAAATAAATA
Found at i:31913944 original size:23 final size:21
Alignment explanation
Indices: 31913912--31913959 Score: 69
Period size: 23 Copynumber: 2.2 Consensus size: 21
31913902 TTTAAAAAAA
31913912 TTTAAATAAATATTTATATTAAT
1 TTTAAATAAATATTTA-ATT-AT
*
31913935 TTTAATTAAATATTTAATTAT
1 TTTAAATAAATATTTAATTAT
31913956 TTTA
1 TTTA
31913960 TATATAGTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 6 0.25
22 3 0.12
23 15 0.62
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTAAATAAATATTTAATTAT
Found at i:31913952 original size:12 final size:12
Alignment explanation
Indices: 31913911--31913954 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
31913901 TTTTAAAAAA
*
31913911 ATTTAAATAAAT
1 ATTTAATTAAAT
31913923 ATTTATATT-AAT
1 ATTTA-ATTAAAT
31913935 -TTTAATTAAAT
1 ATTTAATTAAAT
31913946 ATTTAATTA
1 ATTTAATTA
31913955 TTTTATATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 3 0.11
11 7 0.25
12 16 0.57
13 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
ATTTAATTAAAT
Found at i:31915409 original size:5 final size:5
Alignment explanation
Indices: 31915401--31915433 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
31915391 TGCCTTTTGT
31915401 TTTTA TTTTA TTTTA -TTTA TTATTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TT-TTA TTTTA TTT
31915434 CTCTTTCTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.15
5 17 0.65
6 5 0.19
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:31919394 original size:70 final size:70
Alignment explanation
Indices: 31919280--31919453 Score: 199
Period size: 70 Copynumber: 2.5 Consensus size: 70
31919270 TTCTTGGTGA
** ** * * * * *
31919280 GCACAACTATTGTCAGTTATCCGACTAGCGTTGGACACAATAATTTGTTGACTCATTCAACTAGT
1 GCACAACTATCATCAGTTATCTAACCAGCGCTGGCCGCAATAATTTGTCGACTCATTCAACTAGT
31919345 G-TCGG
66 GAT-GG
** *
31919350 GCACAACTATCAT-AGGTTATCTAACCAGCGCTGGCCGCAATAATTTGTCGACTTGTTCGACTAG
1 GCACAACTATCATCA-GTTATCTAACCAGCGCTGGCCGCAATAATTTGTCGACTCATTCAACTAG
31919414 TGATGG
65 TGATGG
*
31919420 GCACAACTATCATCAGTTATCTAACTAGCGCTGG
1 GCACAACTATCATCAGTTATCTAACCAGCGCTGG
31919454 ACACAATTTG
Statistics
Matches: 88, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
69 1 0.01
70 85 0.97
71 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (70 bp):
GCACAACTATCATCAGTTATCTAACCAGCGCTGGCCGCAATAATTTGTCGACTCATTCAACTAGT
GATGG
Found at i:31924171 original size:10 final size:10
Alignment explanation
Indices: 31924156--31924202 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
31924146 TAAAATGTTG
31924156 AATTTTAATT
1 AATTTTAATT
31924166 AATTTTATAATT
1 AA-TTT-TAATT
*
31924178 AATTTTGATT
1 AATTTTAATT
*
31924188 AATTTTGATT
1 AATTTTAATT
31924198 -ATTTT
1 AATTTT
31924203 CGATAGATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
9 5 0.15
10 16 0.47
11 6 0.18
12 7 0.21
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (10 bp):
AATTTTAATT
Found at i:31939113 original size:132 final size:132
Alignment explanation
Indices: 31938875--31939113 Score: 406
Period size: 132 Copynumber: 1.8 Consensus size: 132
31938865 AAGATAGCAG
* *
31938875 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACAGCAAATCTTATCTTTCCAAGATAGT
1 ATCTTATCTCCCTAAGCAGTAGTGGAACAGATCAAAGACAGAAAATCTTATCTTTCCAAGATAGT
* *
31938940 GGGAAGCAGATTTAAACCACCAGGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGACACT
66 GGGAAGCAGATTTAAACCACCAGGCCTTATCTCCCTAAGCAGCAGCGGAGTAGGTTGAAGACACT
31939005 AA
131 AA
* **
31939007 ATCTTATCTCCCTAAGCATTAGTGGAACAGATCAAAGATGGAAAATCTTATCTTTCCAAGATAGT
1 ATCTTATCTCCCTAAGCAGTAGTGGAACAGATCAAAGACAGAAAATCTTATCTTTCCAAGATAGT
*
31939072 GGGAAGCAGATTTAAGCCACCAGGCCTTATCTCCCTAAGCAG
66 GGGAAGCAGATTTAAACCACCAGGCCTTATCTCCCTAAGCAG
31939114 TAGTGGAGCA
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 99 1.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (132 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAACAGATCAAAGACAGAAAATCTTATCTTTCCAAGATAGT
GGGAAGCAGATTTAAACCACCAGGCCTTATCTCCCTAAGCAGCAGCGGAGTAGGTTGAAGACACT
AA
Found at i:31939119 original size:88 final size:88
Alignment explanation
Indices: 31939009--31939201 Score: 314
Period size: 88 Copynumber: 2.2 Consensus size: 88
31938999 GACACTAAAT
* *
31939009 CTTATCTCCCTAAGCATTAGTGGAACAGATCAAAGATGGAAAATCTTATCTTTCCAAGATAGTGG
1 CTTATCTCCCTAAGCAGTAGTGGAACAGATCAAAGACGGAAAATCTTATCTTTCCAAGATAGTGG
31939074 GAAGCAGATTTAAGCCACCAGGC
66 GAAGCAGATTTAAGCCACCAGGC
* * *
31939097 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCTAAGATAGTGG
1 CTTATCTCCCTAAGCAGTAGTGGAACAGATCAAAGACGGAAAATCTTATCTTTCCAAGATAGTGG
*
31939162 GAAGCATATTTAAGCCACCAGGC
66 GAAGCAGATTTAAGCCACCAGGC
* *
31939185 CTTGTCTCCCTGAGCAG
1 CTTATCTCCCTAAGCAG
31939202 CGGGGTAGGT
Statistics
Matches: 97, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 97 1.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.25
Consensus pattern (88 bp):
CTTATCTCCCTAAGCAGTAGTGGAACAGATCAAAGACGGAAAATCTTATCTTTCCAAGATAGTGG
GAAGCAGATTTAAGCCACCAGGC
Found at i:31939133 original size:132 final size:132
Alignment explanation
Indices: 31938875--31939147 Score: 395
Period size: 132 Copynumber: 2.1 Consensus size: 132
31938865 AAGATAGCAG
* *
31938875 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACAGCAAATCTTATCTTTCCAAGATAGT
1 ATCTTATCTCCCTAAGCAGTAGTGGAACAGATCAAAGACAGAAAATCTTATCTTTCCAAGATAGT
* * * * **
31938940 GGGAAGCAGATTTAAACCACCAGGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGAC-AC
66 GGGAAGCAGATTTAAACCACCAGGCCTTATCTCCCTAAGCAGCAGCGGAGCAGATCAAAGACGAC
31939004 TAA
131 -AA
* **
31939007 ATCTTATCTCCCTAAGCATTAGTGGAACAGATCAAAGATGGAAAATCTTATCTTTCCAAGATAGT
1 ATCTTATCTCCCTAAGCAGTAGTGGAACAGATCAAAGACAGAAAATCTTATCTTTCCAAGATAGT
* * * *
31939072 GGGAAGCAGATTTAAGCCACCAGGCCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGC
66 GGGAAGCAGATTTAAACCACCAGGCCTTATCTCCCTAAGCAGCAGCGGAGCAGATCAAAGACGAC
31939137 AA
131 AA
31939139 ATCTTATCT
1 ATCTTATCT
31939148 TTCTAAGATA
Statistics
Matches: 125, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
132 124 0.99
133 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (132 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAACAGATCAAAGACAGAAAATCTTATCTTTCCAAGATAGT
GGGAAGCAGATTTAAACCACCAGGCCTTATCTCCCTAAGCAGCAGCGGAGCAGATCAAAGACGAC
AA
Found at i:31939364 original size:217 final size:220
Alignment explanation
Indices: 31938872--31939337 Score: 717
Period size: 217 Copynumber: 2.1 Consensus size: 220
31938862 GTAAAGATAG
* * *
31938872 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACAGCAAATCTTATCTTTCCAAGAT
1 CAGACCTTATCTCCCTAAGCAGCAGCGGAGCAGATCAAAGACAGCAAATCTTATCTTTCCAAGAT
31938937 AGTGGGAAGCAGATTTAAACCACCAGGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGAC
66 AGTGGGAAGCAGATTTAAACCACCAGGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGAC
* * *
31939002 ACTAAATCTTATCTCCCTAAGCATTAGTGGAACAGATCAAAGATGGAAAATCTTATCTTTCCAAG
131 ACTAAATCTTATCTCCCTAAGCAGTAGTGGAACAGATCAAAGACGGAAAACCTTATCTTTCCAAG
31939067 ATAGTGGGAAGCAGATTTAAGCCAC
196 ATAGTGGGAAGCAGATTTAAGCCAC
* * * * *
31939092 CAGGCCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCTAAGAT
1 CAGACCTTATCTCCCTAAGCAGCAGCGGAGCAGATCAAAGACAGCAAATCTTATCTTTCCAAGAT
* * *
31939157 AGTGGGAAGCATATTTAAGCCACCAGGCCTTGTCTCCCTGAGCAGC-G-GG-GTAGGTTGAAGAT
66 AGTGGGAAGCAGATTTAAACCACCAGGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGAC
* * *
31939219 AGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAAACCTTATCTTTCCAAG
131 ACTAAATCTTATCTCCCTAAGCAGTAGTGGAACAGATCAAAGACGGAAAACCTTATCTTTCCAAG
31939284 ATAGTGGGAAGCAGATTTAAGCCAC
196 ATAGTGGGAAGCAGATTTAAGCCAC
*
31939309 C-GAACCTTGTCTCCCTGAA-CAGCAGCGGA
1 CAG-ACCTTATCTCCCT-AAGCAGCAGCGGA
31939338 TTAGGTTGAA
Statistics
Matches: 227, Mismatches: 17, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
216 1 0.00
217 116 0.51
218 4 0.02
219 1 0.00
220 105 0.46
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (220 bp):
CAGACCTTATCTCCCTAAGCAGCAGCGGAGCAGATCAAAGACAGCAAATCTTATCTTTCCAAGAT
AGTGGGAAGCAGATTTAAACCACCAGGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGAC
ACTAAATCTTATCTCCCTAAGCAGTAGTGGAACAGATCAAAGACGGAAAACCTTATCTTTCCAAG
ATAGTGGGAAGCAGATTTAAGCCAC
Found at i:31939393 original size:132 final size:131
Alignment explanation
Indices: 31939097--31939497 Score: 574
Period size: 132 Copynumber: 3.1 Consensus size: 131
31939087 GCCACCAGGC
* *
31939097 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCTAAGATAGTGG
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAAATCTTATCTTTCCAAGATAGTGG
* * *
31939162 GAAGCATATTTAAGCCACC-AGGCCTTGTCTCCCTG--AGCAGCGGGGTAGGTTGAAGATAGTAG
66 GAAGCAGATTTAAGCCACCGA-GCCTTGTCTCCCTGACAGCAGCGGAGTAGGTTGAAGATAGCAG
31939224 AT
130 AT
*
31939226 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAAACCTTATCTTTCCAAGATAGTGG
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAAATCTTATCTTTCCAAGATAGTGG
* *
31939291 GAAGCAGATTTAAGCCACCGAACCTTGTCTCCCTGAACAGCAGCGGATTAGGTTGAAGATAGCAG
66 GAAGCAGATTTAAGCCACCGAGCCTTGTCTCCCTG-ACAGCAGCGGAGTAGGTTGAAGATAGCAG
31939356 AT
130 AT
* * *
31939358 CTTATCTCCTTAAGCAGTAGTGGAGCAGATGAAAGACGGAAAATCTTATCTTTCCAGGATAGTGG
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAAATCTTATCTTTCCAAGATAGTGG
* * * * * * **
31939423 GAAGTAGATCTAAGCCACTGAGCCTTGTTTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTCCAG
66 GAAGCAGATTTAAGCCACCGAGCCTTGTCTCCCTGA-CAGCAGCGGAGTAGGTTGAAGATAGCAG
*
31939488 GT
130 AT
31939490 CTTATCTC
1 CTTATCTC
31939498 TCTGAAGTTG
Statistics
Matches: 244, Mismatches: 23, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
129 93 0.38
130 1 0.00
131 1 0.00
132 149 0.61
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (131 bp):
CTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAAATCTTATCTTTCCAAGATAGTGG
GAAGCAGATTTAAGCCACCGAGCCTTGTCTCCCTGACAGCAGCGGAGTAGGTTGAAGATAGCAGA
T
Found at i:31940332 original size:18 final size:21
Alignment explanation
Indices: 31940294--31940333 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
31940284 TCTGGTTTCC
31940294 TTTTTCTTCTTTCTCAGTTTT
1 TTTTTCTTCTTTCTCAGTTTT
31940315 TTTTTCTT-TTT-TCA-TTTT
1 TTTTTCTTCTTTCTCAGTTTT
31940333 T
1 T
31940334 ACATCTATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 3 0.16
20 3 0.16
21 8 0.42
ACGTcount: A:0.05, C:0.15, G:0.03, T:0.78
Consensus pattern (21 bp):
TTTTTCTTCTTTCTCAGTTTT
Found at i:31946314 original size:12 final size:12
Alignment explanation
Indices: 31946297--31946322 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
31946287 CATTCCGAAG
31946297 TATATATATACA
1 TATATATATACA
31946309 TATATATATACA
1 TATATATATACA
31946321 TA
1 TA
31946323 AGTATGCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:31946835 original size:27 final size:27
Alignment explanation
Indices: 31946804--31946981 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
31946794 TAAATTGTAC
31946804 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
31946831 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31946857 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
31946885 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
31946913 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31946940 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
31946967 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
31946982 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:31946918 original size:82 final size:81
Alignment explanation
Indices: 31946805--31946960 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
31946795 AAATTGTACA
* *
31946805 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
31946869 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
31946886 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
31946951 TGCGAGTTGA
65 TGCGAATTGA
31946961 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:31946972 original size:82 final size:81
Alignment explanation
Indices: 31946801--31946981 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
31946791 GATTAAATTG
* *
31946801 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
31946866 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
31946882 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
31946946 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
31946964 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
31946982 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:31952287 original size:25 final size:25
Alignment explanation
Indices: 31952242--31952292 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
31952232 ACTCTTCTCA
* *
31952242 TCTCTTCACTTCTCTCTCATTTTTC
1 TCTCTTCACTTCCCTCTCATTATTC
*
31952267 TCTCTTCATTTCCCT-TCCATTATTC
1 TCTCTTCACTTCCCTCT-CATTATTC
31952292 T
1 T
31952293 TCATTCCCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 1 0.05
25 21 0.95
ACGTcount: A:0.10, C:0.35, G:0.00, T:0.55
Consensus pattern (25 bp):
TCTCTTCACTTCCCTCTCATTATTC
Found at i:31969718 original size:40 final size:40
Alignment explanation
Indices: 31969634--31969857 Score: 285
Period size: 40 Copynumber: 5.6 Consensus size: 40
31969624 TCGAATGATG
* * * *
31969634 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
31969674 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31969714 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31969753 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31969793 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
31969834 -CCGGGCTATGTCCTGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTT
31969858 TAACGAGTAG
Statistics
Matches: 163, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 119 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:31969881 original size:119 final size:119
Alignment explanation
Indices: 31969634--31969856 Score: 281
Period size: 119 Copynumber: 1.9 Consensus size: 119
31969624 TCGAATGATG
* *
31969634 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* *
31969699 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGTACGAGTTACTAAA
* * * **
31969753 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * *
31969816 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCTGAAGGCATT
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
31969857 TTAACGAGTA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 3 0.03
119 68 0.76
120 18 0.20
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGTACGAGTTACTAAA
Found at i:31972156 original size:17 final size:18
Alignment explanation
Indices: 31972123--31972165 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
31972113 TTATTTACAA
31972123 TTTGTATGTGCTTTTATT
1 TTTGTATGTGCTTTTATT
*
31972141 TTTGTGTGTG-TTTTATT
1 TTTGTATGTGCTTTTATT
31972158 TTT-TATGT
1 TTTGTATGT
31972166 AGGTCACCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 4 0.17
17 10 0.43
18 9 0.39
ACGTcount: A:0.09, C:0.02, G:0.19, T:0.70
Consensus pattern (18 bp):
TTTGTATGTGCTTTTATT
Found at i:31977894 original size:37 final size:37
Alignment explanation
Indices: 31977844--31977922 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
31977834 TTATTACGAA
* * *
31977844 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
31977881 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
31977918 GTCTT
1 GTCTT
31977923 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:31978119 original size:47 final size:47
Alignment explanation
Indices: 31978041--31978399 Score: 583
Period size: 47 Copynumber: 7.5 Consensus size: 47
31978031 CCCTTCGGGA
* * * * * *
31978041 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
31978088 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31978135 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31978182 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31978231 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31978278 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31978327 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31978376 CTTATCACATATATACATTTTCAC
1 CTTATCACATATATACACTTTCAC
31978400 GTATACACAC
Statistics
Matches: 297, Mismatches: 11, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
47 154 0.52
49 143 0.48
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:31978215 original size:49 final size:49
Alignment explanation
Indices: 31978041--31978390 Score: 581
Period size: 49 Copynumber: 7.3 Consensus size: 49
31978031 CCCTTCGGGA
* * * * *
31978041 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
31978088 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31978135 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31978182 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31978231 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31978278 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31978327 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31978376 CTTATCACATATATA
1 CTTATCACATATATA
31978391 CATTTTCACG
Statistics
Matches: 288, Mismatches: 9, Indels: 10
0.94 0.03 0.03
Matches are distributed among these distances:
46 1 0.00
47 137 0.48
49 150 0.52
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:31978238 original size:96 final size:96
Alignment explanation
Indices: 31978041--31978390 Score: 596
Period size: 96 Copynumber: 3.6 Consensus size: 96
31978031 CCCTTCGGGA
* * * * * * * *
31978041 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
31978104 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
31978135 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
31978200 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
31978231 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
31978296 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
31978327 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
31978391 CATTTTCACG
Statistics
Matches: 244, Mismatches: 8, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
94 47 0.19
96 143 0.59
98 54 0.22
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:31981785 original size:23 final size:24
Alignment explanation
Indices: 31981741--31981785 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
31981731 AAAATCCTAC
*
31981741 CCATCCAGCCTCTACACACCATCT
1 CCATCCAACCTCTACACACCATCT
*
31981765 CCATCCAACC-CTACACTCCAT
1 CCATCCAACCTCTACACACCAT
31981786 GTGGGGATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.27, C:0.51, G:0.02, T:0.20
Consensus pattern (24 bp):
CCATCCAACCTCTACACACCATCT
Found at i:31988679 original size:26 final size:26
Alignment explanation
Indices: 31988643--31988698 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
31988633 CAGTAATTTT
*
31988643 AGAATATCATAACATATATTAGTTTC
1 AGAATATCATAACATATATCAGTTTC
* *
31988669 AGAATATCATAGCATGTATCAGTTTC
1 AGAATATCATAACATATATCAGTTTC
31988695 AGAA
1 AGAA
31988699 CACTTACAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.34
Consensus pattern (26 bp):
AGAATATCATAACATATATCAGTTTC
Found at i:31994858 original size:41 final size:41
Alignment explanation
Indices: 31994809--31994941 Score: 185
Period size: 41 Copynumber: 3.2 Consensus size: 41
31994799 TATAAATGAG
* *
31994809 CTTTAGCGGCATTTTTGAAGAGGTGCCACTAATGCTCGGGT
1 CTTTAGCGGCATTTTTGAAGAGGCGCCGCTAATGCTCGGGT
* * *
31994850 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGT
1 CTTTAGCGGCATTTTTGAAGAGGCGCCGCTAATGCTCGGGT
* * **
31994891 CTTTAGCGGCATTTTTGAAGAGGCACCGCTAATTCTCAAGT
1 CTTTAGCGGCATTTTTGAAGAGGCGCCGCTAATGCTCGGGT
31994932 CTTTAGCGGC
1 CTTTAGCGGC
31994942 GTTTCTTCAG
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 80 1.00
ACGTcount: A:0.20, C:0.22, G:0.27, T:0.31
Consensus pattern (41 bp):
CTTTAGCGGCATTTTTGAAGAGGCGCCGCTAATGCTCGGGT
Found at i:31994880 original size:80 final size:81
Alignment explanation
Indices: 31994772--31994980 Score: 217
Period size: 82 Copynumber: 2.6 Consensus size: 81
31994762 AAGATCGATA
* **
31994772 TTAGCAGCGATTTTTGAAAAACGCCGCT-ATAAAT-GAG-CTTTAGCGGCATTTTTGAAGAGGTG
1 TTAGCGGCG-TTTTTGAAAAACGCCGCTAAT-AATCGAGTCTTTAGCGGCATTTTTGAAGAGGCA
**
31994834 CCACTAATGCTCGGGTCT
64 CCACTAATGCTCAAGTCT
** *
31994852 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGTCTTTAGCGGCATTTTTGAAGAGGCAC
1 TTAGCGGCGTTTTTGAAAAA-CGCCGCTAATAATCGAGTCTTTAGCGGCATTTTTGAAGAGGCAC
* *
31994917 CGCTAATTCTCAAGTCT
65 CACTAATGCTCAAGTCT
* * * ** *
31994934 TTAGCGGCGTTTCTTCAGAAACGCCACTAATTTTCGGGTCTTTAGCG
1 TTAGCGGCGTTT-TTGAAAAACGCCGCTAATAATCGAGTCTTTAGCG
31994981 ACGTTTTTAA
Statistics
Matches: 109, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
79 11 0.10
80 16 0.15
81 4 0.04
82 72 0.66
83 6 0.06
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (81 bp):
TTAGCGGCGTTTTTGAAAAACGCCGCTAATAATCGAGTCTTTAGCGGCATTTTTGAAGAGGCACC
ACTAATGCTCAAGTCT
Found at i:31994964 original size:41 final size:40
Alignment explanation
Indices: 31994809--31994999 Score: 159
Period size: 41 Copynumber: 4.7 Consensus size: 40
31994799 TATAAATGAG
* ***
31994809 CTTTAGCGGCATTTTTGAAGAGGTGCCACTAATGCTCGGGT
1 CTTTAGCGGCGTTTTT-AAGAAACGCCACTAATGCTCGGGT
*
31994850 CTTTAGCGGCGTTTTTGAA-AAAGCGCCGCTAATGCTCGGGT
1 CTTTAGCGGCGTTTTT-AAGAAA-CGCCACTAATGCTCGGGT
* ** * * * **
31994891 CTTTAGCGGCATTTTTGAAGAGGCACCGCTAATTCTCAAGT
1 CTTTAGCGGCGTTTTT-AAGAAACGCCACTAATGCTCGGGT
* **
31994932 CTTTAGCGGCGTTTCTTCAGAAACGCCACTAATTTTCGGGT
1 CTTTAGCGGCGTTT-TTAAGAAACGCCACTAATGCTCGGGT
* *
31994973 CTTTAGCGACGTTTTTAAAAAAACGCC
1 CTTTAGCGGCGTTTTT-AAGAAACGCC
31995000 GTAAAAAATA
Statistics
Matches: 122, Mismatches: 24, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
40 3 0.02
41 116 0.95
42 3 0.02
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (40 bp):
CTTTAGCGGCGTTTTTAAGAAACGCCACTAATGCTCGGGT
Found at i:31994988 original size:82 final size:82
Alignment explanation
Indices: 31994809--31994980 Score: 229
Period size: 82 Copynumber: 2.1 Consensus size: 82
31994799 TATAAATGAG
** ** *
31994809 CTTTAGCGGCATTTTTGAAGAGGTGCCACTAATGCTCGGGTCTTTAGCGGCGTTTTTGAAAAAGC
1 CTTTAGCGGCATTTTTGAAGAGGCACCACTAATGCTCAAGTCTTTAGCGGCGTTTTTCAAAAAGC
*
31994874 GCCGCTAATGCTCGGGT
66 GCCACTAATGCTCGGGT
* * *
31994891 CTTTAGCGGCATTTTTGAAGAGGCACCGCTAATTCTCAAGTCTTTAGCGGCGTTTCTTCAGAAA-
1 CTTTAGCGGCATTTTTGAAGAGGCACCACTAATGCTCAAGTCTTTAGCGGCGTTT-TTCAAAAAG
**
31994955 CGCCACTAATTTTCGGGT
65 CGCCACTAATGCTCGGGT
31994973 CTTTAGCG
1 CTTTAGCG
31994981 ACGTTTTTAA
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
82 72 0.92
83 6 0.08
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.32
Consensus pattern (82 bp):
CTTTAGCGGCATTTTTGAAGAGGCACCACTAATGCTCAAGTCTTTAGCGGCGTTTTTCAAAAAGC
GCCACTAATGCTCGGGT
Found at i:32000219 original size:43 final size:43
Alignment explanation
Indices: 32000127--32000391 Score: 336
Period size: 43 Copynumber: 6.2 Consensus size: 43
32000117 AGATTATGTT
* ** * *
32000127 TTTAGCGGCGTTTTTGCTAGAAGCGCCGCTAAAGGT--TTGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTC
* ** *
32000168 TTTAGCGGCATTTGTGATAAAAGTGCCGCTAAAGGTCGTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTC
* *
32000211 TTTAGCGGCGCTTGTGGGAAAAGCGCCGCTAAACGTCGTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTC
* *
32000254 TTTAGCAGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTC
* * **
32000297 TTTAGCGGCGTTTATGGGGAAATTGCCGCTAAAGGTCGTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTC
* *
32000340 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTA
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTC
*
32000383 TTTCGCGGC
1 TTTAGCGGC
32000392 TTTTTTTTCT
Statistics
Matches: 193, Mismatches: 29, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
41 31 0.16
43 162 0.84
ACGTcount: A:0.19, C:0.19, G:0.33, T:0.29
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTC
Found at i:32000355 original size:129 final size:127
Alignment explanation
Indices: 32000147--32000381 Score: 371
Period size: 129 Copynumber: 1.8 Consensus size: 127
32000137 TTTTTGCTAG
* *
32000147 AAGCGCCGCTAAAGGTTTGTCTTTAGCGGCATTTGTGATAAAAGTGCCGCTAAAGGTCGTGGTCT
1 AAGCGCCGCTAAAGGTTTGTCTTTAGCGGCATTTATGAGAAAAGTGCCGCTAAAGGTCGTGGTCT
32000212 TTAGCGGCGCTTGTGGGAAAAGCGCCGCTAAACGTCGTGGTCTTTAGCAGCGTTTGTGGGAA
66 TTAGCGGCGCTTGTGGGAAAAGCGCCGCTAAACGTCGTGGTCTTTAGCAGCGTTTGTGGGAA
* * * *
32000274 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTATGGGGAAATTGCCGCTAAAGGTCGTGGT
1 AAGCGCCGCTAAAGGT-TT-GTCTTTAGCGGCATTTATGAGAAAAGTGCCGCTAAAGGTCGTGGT
* * *
32000339 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGT
64 CTTTAGCGGCGCTTGTGGGAAAAGCGCCGCTAAACGTCGTGGT
32000382 ATTTCGCGGC
Statistics
Matches: 97, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
127 16 0.16
128 2 0.02
129 79 0.81
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.28
Consensus pattern (127 bp):
AAGCGCCGCTAAAGGTTTGTCTTTAGCGGCATTTATGAGAAAAGTGCCGCTAAAGGTCGTGGTCT
TTAGCGGCGCTTGTGGGAAAAGCGCCGCTAAACGTCGTGGTCTTTAGCAGCGTTTGTGGGAA
Found at i:32001109 original size:14 final size:15
Alignment explanation
Indices: 32001090--32001129 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
32001080 TGTTTCATAC
*
32001090 TTTTAGATTTTAA-G
1 TTTTAGATTTAAATG
*
32001104 TTTTAGATTTAAATT
1 TTTTAGATTTAAATG
32001119 TTTTAGATTTA
1 TTTTAGATTTA
32001130 GATTTTAGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.30, C:0.00, G:0.10, T:0.60
Consensus pattern (15 bp):
TTTTAGATTTAAATG
Found at i:32001124 original size:15 final size:15
Alignment explanation
Indices: 32001090--32001135 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
32001080 TGTTTCATAC
* *
32001090 TTTTAGATTTTAA-G
1 TTTTAGATTTAAATT
32001104 TTTTAGATTTAAATT
1 TTTTAGATTTAAATT
*
32001119 TTTTAGATTTAGATT
1 TTTTAGATTTAAATT
32001134 TT
1 TT
32001136 AGGTAAATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTTAGATTTAAATT
Found at i:32002781 original size:62 final size:62
Alignment explanation
Indices: 32002684--32002821 Score: 199
Period size: 62 Copynumber: 2.2 Consensus size: 62
32002674 CCCCACACAT
* * *
32002684 GGCCTAGACACACACCTATGTGCCTAGTCCGTGTGACCAAAAATACAAACAGTGAGTTCCAC
1 GGCCTGGACACACACCTATGTGCCTAGTCCGTGTGACCAAAAATACAAACAGTAAGTTACAC
* *
32002746 GGCCTGGACACACGCCTATGT-CCTTAG-CCAGTGTGACCAAAAATACAAATAGTAAGTTACAC
1 GGCCTGGACACACACCTATGTGCC-TAGTCC-GTGTGACCAAAAATACAAACAGTAAGTTACAC
32002808 GGCCTGGACACACA
1 GGCCTGGACACACA
32002822 TCCGTTCGCT
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
61 4 0.06
62 64 0.94
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.19
Consensus pattern (62 bp):
GGCCTGGACACACACCTATGTGCCTAGTCCGTGTGACCAAAAATACAAACAGTAAGTTACAC
Found at i:32004377 original size:15 final size:15
Alignment explanation
Indices: 32004357--32004391 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
32004347 AAGATTGTTA
32004357 AAACTCTTCTAAAAG
1 AAACTCTTCTAAAAG
32004372 AAACTCTTCTAAAAG
1 AAACTCTTCTAAAAG
32004387 AAACT
1 AAACT
32004392 AAAGAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.49, C:0.20, G:0.06, T:0.26
Consensus pattern (15 bp):
AAACTCTTCTAAAAG
Found at i:32004808 original size:119 final size:119
Alignment explanation
Indices: 32004597--32004842 Score: 483
Period size: 119 Copynumber: 2.1 Consensus size: 119
32004587 TTGTTAACAT
*
32004597 AAAACTCGTAAATAACTTAAACTACTTAATAATTATTAAAAATTTGGAATAATAAAATAATAAAA
1 AAAACTCGTAAATAACTTAAACTACTTAAAAATTATTAAAAATTTGGAATAATAAAATAATAAAA
32004662 TAATAAGAGCTGATAAATACAATATTGGGCTCATATATAATAAAAATTAAGTCC
66 TAATAAGAGCTGATAAATACAATATTGGGCTCATATATAATAAAAATTAAGTCC
32004716 AAAACTCGTAAATAACTTAAACTACTTAAAAATTATTAAAAATTTGGAATAATAAAATAATAAAA
1 AAAACTCGTAAATAACTTAAACTACTTAAAAATTATTAAAAATTTGGAATAATAAAATAATAAAA
32004781 TAATAAGAGCTGATAAATACAATATTGGGCTCATATATAATAAAAATTAAGTCC
66 TAATAAGAGCTGATAAATACAATATTGGGCTCATATATAATAAAAATTAAGTCC
32004835 AAAACTCG
1 AAAACTCG
32004843 AATTAAAAGC
Statistics
Matches: 126, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
119 126 1.00
ACGTcount: A:0.52, C:0.10, G:0.09, T:0.29
Consensus pattern (119 bp):
AAAACTCGTAAATAACTTAAACTACTTAAAAATTATTAAAAATTTGGAATAATAAAATAATAAAA
TAATAAGAGCTGATAAATACAATATTGGGCTCATATATAATAAAAATTAAGTCC
Found at i:32006624 original size:95 final size:95
Alignment explanation
Indices: 32006457--32006632 Score: 273
Period size: 95 Copynumber: 1.9 Consensus size: 95
32006447 TTACTTTCTT
* * *
32006457 CTCTAGTTGGATATTTAATTAGACATTGGAAACCCTTATGATCTTTTGAACTACACCAATAACAT
1 CTCTAGTTGAATATTTAATTAGACATTGGAAACCCTTATGATATTTTGAACTACACCAATAACAG
*
32006522 TGCACAAAAGCTGATATTTCAATCGTATTC
66 TGAACAAAAGCTGATATTTCAATCGTATTC
* *
32006552 CTCTATTTGAATATTTAATTGGACATTGGAAAGCCC-TATGATATTTTGAACTACACCAATAACA
1 CTCTAGTTGAATATTTAATTAGACATTGGAAA-CCCTTATGATATTTTGAACTACACCAATAACA
*
32006616 GTGAACAAAAGGTGATA
65 GTGAACAAAAGCTGATA
32006633 GCTCAATTGT
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
95 70 0.96
96 3 0.04
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (95 bp):
CTCTAGTTGAATATTTAATTAGACATTGGAAACCCTTATGATATTTTGAACTACACCAATAACAG
TGAACAAAAGCTGATATTTCAATCGTATTC
Found at i:32017985 original size:80 final size:80
Alignment explanation
Indices: 32017891--32018289 Score: 252
Period size: 80 Copynumber: 5.0 Consensus size: 80
32017881 AATTTCTCGT
* *
32017891 TTTGGAAA-CAAAATAAAAAATAGAATAAAATCTAG-TGAATGGCAAGAATAAATCCCGAAACAG
1 TTTGGAAATC-AAATAAAAAATAGAATAAAAT-TCGTTGAATGGCAGGAATAAATCCCGAAACAG
**
32017954 ATTTTATTTAATTCTTG
64 ATTTTATTTAATTCTCA
* * ** * *
32017971 TTTGGAAATCAAATAAAAAATGGAATAAAGTTCGTTGAGCGGCGGGAATAAATCCTGAAACAGAT
1 TTTGGAAATCAAATAAAAAATAGAATAAAATTCGTTGAATGGCAGGAATAAATCCCGAAACAGA-
32018036 TTTATTTAACTTTAATTCTCA
65 --T-TTT-A-TTTAATTCTCA
* *
32018057 TTTGGAAATAAAATAAAAAATAGAATAAAATTCGTTGAACT-G-AGGGAATAAATCCCGAAATAG
1 TTTGGAAATCAAATAAAAAATAGAATAAAATTCGTTGAA-TGGCA-GGAATAAATCCCGAAACAG
* * * *
32018120 ATTTTATTCACTTTTAA
64 ATTTTATTTAATTCTCA
* * * ** ** *
32018137 TTTGG-----AAAT--AAAATCGAATAAAATAT-GTTAAACGATAGGAATAAATTTCGAAACATA
1 TTTGGAAATCAAATAAAAAATAGAATAAAAT-TCGTTGAATGGCAGGAATAAATCCCGAAACAGA
* *
32018194 TTTTATTTAATTTTAA
65 TTTTATTTAATTCTCA
* * * *
32018210 TATTCGTTTAGAAAT-AAA-AAAATAA-AGAATAAAATTTGTTGAACGGCAGGAATAAATCTCAA
1 T-TT-G----GAAATCAAATAAAA-AATAGAATAAAATTCGTTGAATGGCAGGAATAAATCCCGA
*
32018272 AATAGATTTTATTTAATT
59 AACAGATTTTATTTAATT
32018290 TAAAATTTTA
Statistics
Matches: 252, Mismatches: 40, Indels: 50
0.74 0.12 0.15
Matches are distributed among these distances:
73 50 0.20
74 4 0.02
75 5 0.02
79 3 0.01
80 63 0.25
81 2 0.01
82 3 0.01
83 6 0.02
84 50 0.20
85 3 0.01
86 63 0.25
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.32
Consensus pattern (80 bp):
TTTGGAAATCAAATAAAAAATAGAATAAAATTCGTTGAATGGCAGGAATAAATCCCGAAACAGAT
TTTATTTAATTCTCA
Found at i:32018083 original size:86 final size:85
Alignment explanation
Indices: 32017826--32018292 Score: 343
Period size: 86 Copynumber: 5.7 Consensus size: 85
32017816 ATTAAATCAA
* * * *
32017826 AATAAAATTTGTTAAACGGCGAGAATAAATCCCGAAATAGATTTTATTTAATTTTAATTTCTCGT
1 AATAAAATTCGTTGAACGGCGAGAATAAATCCCGAAACAGATTTTATTTAA-TTTAA-TTCTC-A
*
32017891 TTTGGAAACAAAATAAAAAATAG
63 TTTGGAAATAAAATAAAAAATAG
* * * **
32017914 AATAAAATCTAG-TGAATGGCAAGAATAAATCCCGAAACAGA---T-TTT-ATTTAATTCTTGTT
1 AATAAAAT-TCGTTGAACGGCGAGAATAAATCCCGAAACAGATTTTATTTAATTTAATTCTCATT
* *
32017973 TGGAAATCAAATAAAAAATGG
65 TGGAAATAAAATAAAAAATAG
* * * *
32017994 AATAAAGTTCGTTGAGCGGCGGGAATAAATCCTGAAACAGATTTTATTTAACTTTAATTCTCATT
1 AATAAAATTCGTTGAACGGCGAGAATAAATCCCGAAACAGATTTTATTTAA-TTTAATTCTCATT
32018059 TGGAAATAAAATAAAAAATAG
65 TGGAAATAAAATAAAAAATAG
* * * * * * *
32018080 AATAAAATTCGTTGAACTGAGGGAATAAATCCCGAAATAGATTTTA-TTCA-CT--TT-TAATTT
1 AATAAAATTCGTTGAACGGCGAGAATAAATCCCGAAACAGATTTTATTTAATTTAATTCTCATTT
*
32018140 GG-----AAAT-AAA-ATCG
66 GGAAATAAAATAAAAAATAG
* ** ** *
32018153 AATAAAATAT-GTTAAAC-GATAGGAATAAATTTCGAAACATATTTTATTTAATTTTAATAT-TC
1 AATAAAAT-TCGTTGAACGGCGA-GAATAAATCCCGAAACAGATTTTATTTAA-TTTAAT-TCTC
* * *
32018215 GTTTAGAAATAAAA-AAATAA-AG
62 ATTTGGAAATAAAATAAAAAATAG
* * * *
32018237 AATAAAATTTGTTGAACGGC-AGGAATAAATCTCAAAATAGATTTTATTTAATTTAA
1 AATAAAATTCGTTGAACGGCGA-GAATAAATCCCGAAACAGATTTTATTTAATTTAA
32018293 AATTTTATTT
Statistics
Matches: 303, Mismatches: 51, Indels: 55
0.74 0.12 0.13
Matches are distributed among these distances:
72 2 0.01
73 37 0.12
74 7 0.02
75 4 0.01
76 1 0.00
78 1 0.00
79 8 0.03
80 58 0.19
81 6 0.02
82 5 0.02
83 9 0.03
84 53 0.17
85 7 0.02
86 70 0.23
88 33 0.11
89 2 0.01
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.33
Consensus pattern (85 bp):
AATAAAATTCGTTGAACGGCGAGAATAAATCCCGAAACAGATTTTATTTAATTTAATTCTCATTT
GGAAATAAAATAAAAAATAG
Found at i:32018124 original size:166 final size:159
Alignment explanation
Indices: 32017826--32018290 Score: 446
Period size: 166 Copynumber: 2.9 Consensus size: 159
32017816 ATTAAATCAA
* * * * *
32017826 AATAAAATTTGTTAAACGGCGAGAATAAATCCCGAAATAGATTTTATTTAATTTTAATTTCTCGT
1 AATAAAATATGTTAAACGGCGGGAATAAATCCTGAAACAGATTTTATTTAATTTTAA-TTCTC-A
* * *
32017891 TTTGGAAACAAAATAAAAAATAGAATAAAATCTAG-TGAA-TG-GCAAGAATAAATCCCGAAACA
64 TTTGGAAATAAAATAAAAAATAGAATAAAAT-TAGTTGAACTGAG--GGAATAAATCCCGAAATA
* *
32017953 GATTTTATTTAATTCTT-GTTTGGAAATCAAATAAAAAATGG
126 GATTTTATTTAATT-TTAATTTGG-----AAAT--AAAATCG
* * * *
32017994 AATAAAGT-TCGTTGAGCGGCGGGAATAAATCCTGAAACAGATTTTATTTAACTTTAATTCTCAT
1 AATAAAATAT-GTTAAACGGCGGGAATAAATCCTGAAACAGATTTTATTTAATTTTAATTCTCAT
*
32018058 TTGGAAATAAAATAAAAAATAGAATAAAATTCGTTGAACTGAGGGAATAAATCCCGAAATAGATT
65 TTGGAAATAAAATAAAAAATAGAATAAAATTAGTTGAACTGAGGGAATAAATCCCGAAATAGATT
* *
32018123 TTATTCACTTTTAATTTGGAAATAAAATCG
130 TTATTTAATTTTAATTTGGAAATAAAATCG
*** * * *
32018153 AATAAAATATGTTAAACGATAGGAATAAAT-TTCGAAACATATTTTATTTAATTTTAATAT-TCG
1 AATAAAATATGTTAAACGGCGGGAATAAATCCT-GAAACAGATTTTATTTAATTTTAAT-TCTCA
* * * * * *
32018216 TTTAGAAATAAAA-AAATAA-AGAATAAAATTTGTTGAACGGCA-GGAATAAATCTCAAAATAGA
64 TTTGGAAATAAAATAAAAAATAGAATAAAATTAGTTGAACTG-AGGGAATAAATCCCGAAATAGA
32018278 TTTTATTTAATTT
128 TTTTATTTAATTT
32018291 AAAATTTTAT
Statistics
Matches: 254, Mismatches: 34, Indels: 29
0.80 0.11 0.09
Matches are distributed among these distances:
157 48 0.19
158 7 0.03
159 65 0.26
160 2 0.01
161 4 0.02
165 4 0.02
166 67 0.26
167 8 0.03
168 49 0.19
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (159 bp):
AATAAAATATGTTAAACGGCGGGAATAAATCCTGAAACAGATTTTATTTAATTTTAATTCTCATT
TGGAAATAAAATAAAAAATAGAATAAAATTAGTTGAACTGAGGGAATAAATCCCGAAATAGATTT
TATTTAATTTTAATTTGGAAATAAAATCG
Found at i:32018975 original size:25 final size:25
Alignment explanation
Indices: 32018947--32018997 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
32018937 ATATTTATGG
* *
32018947 AAAGTCAAATATATGGGTATCAAAT
1 AAAGTCAAAGATATGAGTATCAAAT
32018972 AAAGTCAAAGATATGAGTATCAAAT
1 AAAGTCAAAGATATGAGTATCAAAT
32018997 A
1 A
32018998 TTGGAAAGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.51, C:0.08, G:0.16, T:0.25
Consensus pattern (25 bp):
AAAGTCAAAGATATGAGTATCAAAT
Found at i:32019006 original size:30 final size:30
Alignment explanation
Indices: 32018944--32019032 Score: 107
Period size: 30 Copynumber: 3.1 Consensus size: 30
32018934 TCCATATTTA
*
32018944 TGGAAAGTCAAATATATGGGTATC-AA-A-
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
32018971 T--AAAGTCAAAGATATGAGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
32018999 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
32019030 TGG
1 TGG
32019033 TATAAGAAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
25 19 0.37
26 2 0.04
27 2 0.04
28 1 0.02
30 20 0.38
31 8 0.15
ACGTcount: A:0.43, C:0.07, G:0.24, T:0.27
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:32023635 original size:25 final size:25
Alignment explanation
Indices: 32023601--32023651 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
32023591 ATATTTATGG
32023601 AAAGTCAAAGATATAGGTATCAAAT
1 AAAGTCAAAGATATAGGTATCAAAT
*
32023626 AAAGTCAAAGATATGGGTATCAAAT
1 AAAGTCAAAGATATAGGTATCAAAT
32023651 A
1 A
32023652 TTGGAAAGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.51, C:0.08, G:0.18, T:0.24
Consensus pattern (25 bp):
AAAGTCAAAGATATAGGTATCAAAT
Found at i:32023662 original size:30 final size:30
Alignment explanation
Indices: 32023598--32023686 Score: 116
Period size: 30 Copynumber: 3.1 Consensus size: 30
32023588 TCCATATTTA
*
32023598 TGGAAAGTCAAAGATATAGGTATC-AA-A-
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
32023625 T--AAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
32023653 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
32023684 TGG
1 TGG
32023687 TATAAGAAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 8
0.84 0.03 0.12
Matches are distributed among these distances:
25 20 0.37
26 2 0.04
27 2 0.04
28 1 0.02
30 21 0.39
31 8 0.15
ACGTcount: A:0.43, C:0.07, G:0.25, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:32028788 original size:18 final size:18
Alignment explanation
Indices: 32028750--32028785 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
32028740 TTATTATTTT
*
32028750 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
32028768 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
32028786 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:32028797 original size:31 final size:29
Alignment explanation
Indices: 32028760--32028825 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 29
32028750 TAAAATTTAC
*
32028760 TATTAAAATAA-AATTTAAATATTAAATAATT
1 TATTAAAATAATAAATT--ATATT-AATAATT
32028791 TATTAAAAATAATAAATTATATTAATAATT
1 TATT-AAAATAATAAATTATATTAATAATT
32028821 TATTA
1 TATTA
32028826 TATGACTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
29 1 0.03
30 11 0.34
31 9 0.28
32 7 0.22
33 4 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (29 bp):
TATTAAAATAATAAATTATATTAATAATT
Found at i:32028920 original size:10 final size:9
Alignment explanation
Indices: 32028891--32028916 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
32028881 ATTTTATATT
32028891 AATATTTTA
1 AATATTTTA
32028900 AATATTTTA
1 AATATTTTA
32028909 AATATTTT
1 AATATTTT
32028917 TAAAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
AATATTTTA
Found at i:32030147 original size:416 final size:416
Alignment explanation
Indices: 32029376--32030205 Score: 1624
Period size: 416 Copynumber: 2.0 Consensus size: 416
32029366 ATTGAGATTG
32029376 AGATTATGAATAACATGAATGGCTAATCCCTTATGGGAGATTAATGAGTGGATGGGGATGTGATT
1 AGATTATGAATAACATGAATGGCTAATCCCTTATGGGAGATTAATGAGTGGATGGGGATGTGATT
32029441 AACAGAGGATTTAGGGTTTCTCGAGAGGATTAGTTGGTATAGATTACGTGTTCTTAAACCACTAG
66 AACAGAGGATTTAGGGTTTCTCGAGAGGATTAGTTGGTATAGATTACGTGTTCTTAAACCACTAG
32029506 GCTTGACAACCATAGGAAGTTATCATAGGTTAGACGAGGTTGGGAGATAAGCCAAACTGAGTAAA
131 GCTTGACAACCATAGGAAGTTATCATAGGTTAGACGAGGTTGGGAGATAAGCCAAACTGAGTAAA
*
32029571 TTGTAGTTTATTCTGGTTGAGAAAATAAGGTCAAGAGATAAGCGAGTATCAACCGATCGATTAAT
196 TTGTAGTTTATTCTGGTTGAGAAAATAAGGTCAAGAGATAAGCGAGTATCAACCAATCGATTAAT
*
32029636 TAGTTAGAGGTCGGGAGGTAATAATTGGTTAATCAATAGCTAATCCACCCTAAAACCCTAATCTA
261 TAGTTAGAGGTCGGGAGGTAATAATTAGTTAATCAATAGCTAATCCACCCTAAAACCCTAATCTA
32029701 AAGATAATTACAAACCCTAAAGCGAGTTAATCTTCCTGATTGATTTATTGATTTAATTCATTTGT
326 AAGATAATTACAAACCCTAAAGCGAGTTAATCTTCCTGATTGATTTATTGATTTAATTCATTTGT
32029766 TTATTTTTCATATTTAATTATTTTTC
391 TTATTTTTCATATTTAATTATTTTTC
32029792 AGATTATGAATAACATGAATGGCTAATCCCTTATGGGAGATTAATGAGTGGATGGGGATGTGATT
1 AGATTATGAATAACATGAATGGCTAATCCCTTATGGGAGATTAATGAGTGGATGGGGATGTGATT
32029857 AACAGAGGATTTAGGGTTTCTCGAGAGGATTAGTTGGTATAGATTACGTGTTCTTAAACCACTAG
66 AACAGAGGATTTAGGGTTTCTCGAGAGGATTAGTTGGTATAGATTACGTGTTCTTAAACCACTAG
*
32029922 GCTTGACAACCATAGGAAGTTATCATAGGTTAGACGAGGTTGGGAGATAAGCCAAGCTGAGTAAA
131 GCTTGACAACCATAGGAAGTTATCATAGGTTAGACGAGGTTGGGAGATAAGCCAAACTGAGTAAA
32029987 TTGTAGTTTATTCTGGTTGAGAAAATAAGGTCAAGAGATAAGCGAGTATCAACCAATCGATTAAT
196 TTGTAGTTTATTCTGGTTGAGAAAATAAGGTCAAGAGATAAGCGAGTATCAACCAATCGATTAAT
32030052 TAGTTAGAGGTCGGGAGGTAATAATTAGTTAATCAATAGCTAATCCACCCTAAAACCCTAATCTA
261 TAGTTAGAGGTCGGGAGGTAATAATTAGTTAATCAATAGCTAATCCACCCTAAAACCCTAATCTA
*
32030117 AAGATAGTTACAAACCCTAAAGCGAGTTAATCTTCCTGATTGATTTATTGATTTAATTCATTTGT
326 AAGATAATTACAAACCCTAAAGCGAGTTAATCTTCCTGATTGATTTATTGATTTAATTCATTTGT
32030182 TTATTTTTCATATTTAATTATTTT
391 TTATTTTTCATATTTAATTATTTT
32030206 AGTTATTTAT
Statistics
Matches: 410, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
416 410 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.33
Consensus pattern (416 bp):
AGATTATGAATAACATGAATGGCTAATCCCTTATGGGAGATTAATGAGTGGATGGGGATGTGATT
AACAGAGGATTTAGGGTTTCTCGAGAGGATTAGTTGGTATAGATTACGTGTTCTTAAACCACTAG
GCTTGACAACCATAGGAAGTTATCATAGGTTAGACGAGGTTGGGAGATAAGCCAAACTGAGTAAA
TTGTAGTTTATTCTGGTTGAGAAAATAAGGTCAAGAGATAAGCGAGTATCAACCAATCGATTAAT
TAGTTAGAGGTCGGGAGGTAATAATTAGTTAATCAATAGCTAATCCACCCTAAAACCCTAATCTA
AAGATAATTACAAACCCTAAAGCGAGTTAATCTTCCTGATTGATTTATTGATTTAATTCATTTGT
TTATTTTTCATATTTAATTATTTTTC
Found at i:32040105 original size:21 final size:22
Alignment explanation
Indices: 32040062--32040112 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
32040052 GAGCCGTGCT
32040062 CATGTGAGATAGGCCACAAGAC
1 CATGTGAGATAGGCCACAAGAC
* * *
32040084 CATGTG-GATGGGTCACAGGAC
1 CATGTGAGATAGGCCACAAGAC
*
32040105 CGTGTGAG
1 CATGTGAG
32040113 CAAACCGTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.27, C:0.20, G:0.35, T:0.18
Consensus pattern (22 bp):
CATGTGAGATAGGCCACAAGAC
Found at i:32040894 original size:14 final size:15
Alignment explanation
Indices: 32040875--32040904 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
32040865 TGTATTTTTC
32040875 TTTTC-TTTTTCTTT
1 TTTTCTTTTTTCTTT
32040889 TTTTCTTTTTTCTTT
1 TTTTCTTTTTTCTTT
32040904 T
1 T
32040905 CGGTTATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTTCTTTTTTCTTT
Done.