Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 117 of 170
Found at i:35906204 original size:177 final size:175
Alignment explanation
Indices: 35905840--35906266 Score: 689
Period size: 177 Copynumber: 2.4 Consensus size: 175
35905830 ATTTTTTTTA
* * * *
35905840 ATTCAATTAATTTATAATTTATAA-TTTAA--ACTTTAATTAGTTATTATTTAATTAAAATCTAC
1 ATTCAATTAATTTTTAATTTA-AACTTTAATTA-TTTACTT-TTTATT-TTTAATTAAAATCTAT
* *
35905902 CTATTAAATTATTTCTTAATTTAAAATTTAATTAATTTTTTCCTTTTTATTTAAAATCTATTCAA
62 CTATTAAATTATTTCTTAATTTAAAATTTAATTAATTTTTCCCTTTTTAATTAAAATCTATTCAA
35905967 TTGTTTCATTATTTATACTTTAAATTGATATTTTAATTAAAATATATCT
127 TTGTTTCATTATTTATACTTTAAATTGATATTTTAATTAAAATATATCT
*
35906016 ATTCAATTAATTTTTAATTTAAACTTTAATTATTTACTTTTTATTTTGTAATTAAAATCTATATA
1 ATTCAATTAATTTTTAATTTAAACTTTAATTATTTACTTTTTATTTT-TAATTAAAATCTATCTA
35906081 TTAAATTATTTCTTAATTTAAAATTTAATTAATTTTTCCCTTTTTCAATTAAAATCTATTCAATT
65 TTAAATTATTTCTTAATTTAAAATTTAATTAATTTTTCCCTTTTT-AATTAAAATCTATTCAATT
* *
35906146 GTTTTATTATTTATACTTTAAATTGATATTTTAATTAAAATCTATCT
129 GTTTCATTATTTATACTTTAAATTGATATTTTAATTAAAATATATCT
35906193 ATTCAATTAATTTTTAATTTAAACTTTAATTATTTACTTTTTATTTTTTAATTAAAATCTATCTA
1 ATTCAATTAATTTTTAATTTAAACTTTAATTATTTACTTTTTA-TTTTTAATTAAAATCTATCTA
35906258 TTAAATTAT
65 TTAAATTAT
35906267 CTATTAAGAA
Statistics
Matches: 235, Mismatches: 10, Indels: 11
0.92 0.04 0.04
Matches are distributed among these distances:
175 4 0.02
176 89 0.38
177 137 0.58
178 5 0.02
ACGTcount: A:0.37, C:0.07, G:0.01, T:0.55
Consensus pattern (175 bp):
ATTCAATTAATTTTTAATTTAAACTTTAATTATTTACTTTTTATTTTTAATTAAAATCTATCTAT
TAAATTATTTCTTAATTTAAAATTTAATTAATTTTTCCCTTTTTAATTAAAATCTATTCAATTGT
TTCATTATTTATACTTTAAATTGATATTTTAATTAAAATATATCT
Found at i:35907860 original size:48 final size:48
Alignment explanation
Indices: 35907789--35907880 Score: 184
Period size: 48 Copynumber: 1.9 Consensus size: 48
35907779 ATGAGGACAC
35907789 AGGATTGAGATGTTATACGAACATCCACCGTAGTCTGGATTTTTGAGA
1 AGGATTGAGATGTTATACGAACATCCACCGTAGTCTGGATTTTTGAGA
35907837 AGGATTGAGATGTTATACGAACATCCACCGTAGTCTGGATTTTT
1 AGGATTGAGATGTTATACGAACATCCACCGTAGTCTGGATTTTT
35907881 AGGAGTTTAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (48 bp):
AGGATTGAGATGTTATACGAACATCCACCGTAGTCTGGATTTTTGAGA
Found at i:35912374 original size:13 final size:13
Alignment explanation
Indices: 35912356--35912383 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
35912346 TCAATCTTTT
35912356 AAGATTAGTTACC
1 AAGATTAGTTACC
35912369 AAGATTAGTTACC
1 AAGATTAGTTACC
35912382 AA
1 AA
35912384 ATATTAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (13 bp):
AAGATTAGTTACC
Found at i:35914208 original size:11 final size:11
Alignment explanation
Indices: 35914192--35914216 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
35914182 TAGTATCAGT
35914192 ATAATAGCAAA
1 ATAATAGCAAA
35914203 ATAATAGCAAA
1 ATAATAGCAAA
35914214 ATA
1 ATA
35914217 GTGAAAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.08, G:0.08, T:0.20
Consensus pattern (11 bp):
ATAATAGCAAA
Found at i:35918212 original size:48 final size:52
Alignment explanation
Indices: 35918142--35918240 Score: 118
Period size: 52 Copynumber: 2.0 Consensus size: 52
35918132 AATAATTATT
35918142 ATTTTAAATTATACAAATTCATA-AACT-A-T-AATCATATTAGTTATAATA
1 ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
* * **
35918190 ATTTTAAATTTTATTAAA-TCATATATTTAATTAAATCATATTAGTTATAAT
1 ATTTTAAATTATA-CAAATTCATATAACTAATTAAATCATATTAGTTATAAT
35918241 CATATATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
48 17 0.40
49 5 0.12
50 1 0.02
51 1 0.02
52 18 0.43
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.46
Consensus pattern (52 bp):
ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
Found at i:35918222 original size:17 final size:17
Alignment explanation
Indices: 35918197--35918230 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
35918187 ATAATTTTAA
*
35918197 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
35918214 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
35918231 TAGTTATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:35918247 original size:17 final size:16
Alignment explanation
Indices: 35918202--35918249 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
35918192 TTTAAATTTT
35918202 ATTAAATCATATATTTA
1 ATTAAATCATATA-TTA
35918219 ATTAAATC--ATATTA
1 ATTAAATCATATATTA
*
35918233 GTTATAATCATATATTA
1 ATTA-AATCATATATTA
35918250 TGATTTGAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 6 0.22
15 7 0.26
17 14 0.52
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (16 bp):
ATTAAATCATATATTA
Found at i:35918304 original size:54 final size:54
Alignment explanation
Indices: 35918246--35918424 Score: 137
Period size: 54 Copynumber: 3.1 Consensus size: 54
35918236 ATAATCATAT
35918246 ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
1 ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
* * * * * * * *
35918300 ATTATATATTTTAATTATATT-ATATTTAATAATAATTATGTTATTTTA-TATTTTACAGTATCA
1 ATTAT-GA-TTTGAGTAAATTCATA--TAAGAAT-ATTA-ATTA-TTAAGAATTTT--A-T-T-A
35918363 TA
54 -A
*
35918365 TATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
1 -ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
35918420 ATTAT
1 ATTAT
35918425 ATATTTTAAT
Statistics
Matches: 92, Mismatches: 17, Indels: 32
0.65 0.12 0.23
Matches are distributed among these distances:
54 10 0.11
55 5 0.05
56 10 0.11
57 7 0.08
58 5 0.05
59 9 0.10
60 6 0.07
61 9 0.10
62 5 0.05
63 7 0.08
64 10 0.11
65 4 0.04
66 5 0.05
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (54 bp):
ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
Found at i:35918307 original size:61 final size:61
Alignment explanation
Indices: 35918242--35918429 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 61
35918232 AGTTATAATC
35918242 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * * * * * *
35918303 ATATATTTTAATTAT-ATTATATTTA-ATAATAATTATGTTATT-TT-A-TATTTTA-CAGTATC
1 ATATATTATGATT-TGAGTAAATTCATATAAGAA-TAT-TAATTATTAAGAATTTTATTA-AATT
*
35918362 ATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
35918423 ATATATT
1 ATATATT
35918430 TTAATTAAAA
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
58 6 0.06
59 30 0.32
60 14 0.15
61 38 0.40
62 6 0.06
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:35918321 original size:18 final size:17
Alignment explanation
Indices: 35918290--35918324 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
35918280 ATTATTAAGA
35918290 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
35918307 ATTTTAATTATATTATAT
1 ATTTT-ATTAAATTATAT
35918325 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:35918363 original size:120 final size:120
Alignment explanation
Indices: 35918239--35918461 Score: 419
Period size: 120 Copynumber: 1.9 Consensus size: 120
35918229 ATTAGTTATA
35918239 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
1 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
* *
35918304 TATATTTTAATTATATTATATTTAATAATAATTATGTTATTTTATATTTTACAGT
66 TATATTTTAATTAAAATATATTTAATAATAATTATGTTATTTTATATTTTACAGT
*
35918359 ATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
1 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
35918424 TATATTTTAATTAAAATATATTTAATAATAATTATGTT
66 TATATTTTAATTAAAATATATTTAATAATAATTATGTT
35918462 TAAATATGAT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 100 1.00
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.49
Consensus pattern (120 bp):
ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
TATATTTTAATTAAAATATATTTAATAATAATTATGTTATTTTATATTTTACAGT
Found at i:35918438 original size:18 final size:17
Alignment explanation
Indices: 35918410--35918444 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
35918400 ATTATTAAGA
*
35918410 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
35918427 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
35918445 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:35918456 original size:54 final size:54
Alignment explanation
Indices: 35918273--35918458 Score: 142
Period size: 54 Copynumber: 3.2 Consensus size: 54
35918263 TTCATATAAG
* *
35918273 AATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATATTATATTT
1 AATAATAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAATTATATTT
* * * *
35918327 AATAATAATTATGT--TATTTTATATTTTACAGTATCATATATTATGGTTTGAGTAAATTCATAT
1 AATAATAATTAT-TAAGAATTT-TA--TTA-A--AT--TATA-TAT--TTTAATTAAATT-ATAT
**
35918390 AAG
53 -TT
* *
35918393 AATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTT
1 AATAATAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAATTATATTT
35918447 AATAATAATTAT
1 AATAATAATTAT
35918459 GTTTAAATAT
Statistics
Matches: 99, Mismatches: 17, Indels: 32
0.67 0.11 0.22
Matches are distributed among these distances:
53 4 0.04
54 24 0.24
55 5 0.05
56 12 0.12
57 1 0.01
58 3 0.03
59 6 0.06
61 6 0.06
62 3 0.03
63 1 0.01
64 12 0.12
65 5 0.05
66 13 0.13
67 4 0.04
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.51
Consensus pattern (54 bp):
AATAATAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAATTATATTT
Found at i:35918565 original size:144 final size:147
Alignment explanation
Indices: 35918398--35918669 Score: 487
Period size: 144 Copynumber: 1.9 Consensus size: 147
35918388 ATAAGAATAT
*
35918398 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
35918463 AAATATGATTAAATTATTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAA-AATAATTTA
66 AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTA
35918525 CCAAAACAAATTTCTGC
131 CCAAAACAAATTTCTGC
35918542 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
35918607 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAAT--ATAATCTTATTAAAATTTAAATAACAATAA
35918670 CAATAATCAT
Statistics
Matches: 121, Mismatches: 2, Indels: 5
0.95 0.02 0.04
Matches are distributed among these distances:
144 91 0.75
145 2 0.02
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTA
CCAAAACAAATTTCTGC
Found at i:35918582 original size:18 final size:17
Alignment explanation
Indices: 35918554--35918588 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
35918544 ATTATTAAGA
*
35918554 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
35918571 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
35918589 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:35918834 original size:45 final size:44
Alignment explanation
Indices: 35918735--35918844 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
35918725 TTCTCCATTA
*
35918735 TGCTATTACACCTCTATT--A-T--ATTCAACCAAACACAGTTT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAGATT
* * **
35918774 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACA-CAGATT
35918819 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
35918845 CCTCTAATCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
41 1 0.02
42 1 0.02
44 13 0.22
45 27 0.47
ACGTcount: A:0.31, C:0.27, G:0.05, T:0.36
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAGATT
Found at i:35918844 original size:16 final size:16
Alignment explanation
Indices: 35918823--35918855 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
35918813 TTGATTTGCT
*
35918823 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
35918839 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
35918855 A
1 A
35918856 ATCCAATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:35918865 original size:21 final size:21
Alignment explanation
Indices: 35918836--35918878 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
35918826 ACACCTCTAT
*
35918836 TCCATTACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
35918857 TCCAATACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
35918878 T
1 T
35918879 ACAGCGAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (21 bp):
TCCAATACACCTCTAATCCAA
Found at i:35920302 original size:15 final size:16
Alignment explanation
Indices: 35920282--35920316 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
35920272 GCCGCCAGTA
35920282 TAATGTG-TATTTTTT
1 TAATGTGTTATTTTTT
*
35920297 TAATGTGTTGTTTTTT
1 TAATGTGTTATTTTTT
35920313 TAAT
1 TAAT
35920317 TTAAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.20, C:0.00, G:0.14, T:0.66
Consensus pattern (16 bp):
TAATGTGTTATTTTTT
Found at i:35923460 original size:21 final size:19
Alignment explanation
Indices: 35923395--35923488 Score: 134
Period size: 19 Copynumber: 4.7 Consensus size: 19
35923385 AATCTTCAAG
*
35923395 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
35923414 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
35923433 GATATGCAATCTTAGATGT
1 GATATGCAATCTTAGATAT
35923452 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
35923473 GATATATGCAATCTTA
1 G--ATATGCAATCTTA
35923489 AAAGATATGA
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
19 37 0.53
21 33 0.47
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:35923470 original size:40 final size:38
Alignment explanation
Indices: 35923395--35923488 Score: 134
Period size: 40 Copynumber: 2.4 Consensus size: 38
35923385 AATCTTCAAG
*
35923395 GATATGTAATCTTAGATATGATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCTTAGATAT
*
35923433 GATATGCAATCTTAGATGTGATATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATG--ATATGCAATCTTAGATAT
35923473 GATATATGCAATCTTA
1 G--ATATGCAATCTTA
35923489 AAAGATATGA
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
38 18 0.36
40 19 0.38
42 13 0.26
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGCAATCTTAGATAT
Found at i:35923741 original size:23 final size:23
Alignment explanation
Indices: 35923697--35923741 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
35923687 TCTTATTTTG
* *
35923697 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
35923720 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
35923742 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:35923995 original size:12 final size:13
Alignment explanation
Indices: 35923972--35924000 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
35923962 TGTATCATTA
35923972 TTATTATTTATTT
1 TTATTATTTATTT
35923985 TTATT-TTTATTT
1 TTATTATTTATTT
35923997 TTAT
1 TTAT
35924001 ATTCATGCGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TTATTATTTATTT
Found at i:35924058 original size:23 final size:23
Alignment explanation
Indices: 35924029--35924090 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 23
35924019 TTTTTATGTA
*
35924029 ATATA-TATATAT-TGTTT-TAT
1 ATATAGTATACATATGTTTATAT
*
35924049 ATATAGTATACGTATGTTTATAT
1 ATATAGTATACATATGTTTATAT
** *
35924072 ATATTTTATACACATGTTT
1 ATATAGTATACATATGTTT
35924091 TTATTTTTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
20 5 0.15
21 5 0.15
22 5 0.15
23 18 0.55
ACGTcount: A:0.34, C:0.05, G:0.08, T:0.53
Consensus pattern (23 bp):
ATATAGTATACATATGTTTATAT
Found at i:35929588 original size:96 final size:92
Alignment explanation
Indices: 35929470--35929673 Score: 218
Period size: 93 Copynumber: 2.2 Consensus size: 92
35929460 GAAGCCATAA
** *
35929470 AAATAAAATATTATTTTTAAAAATTTTAAATTAAA-AAGCAACATACTAAAAAAAATCATATAG-
1 AAATAAAATATTATTTAAAAAAAATTTAAA--AAATAA-C-ACAT-CTAAAAAAAA-CATATAGA
* * *
35929533 TACACTGGTGGCG-TCATTTTATATGGCTCCACC
60 TACACTGGTGACGCT-ATTCTATATGACTCCACC
* * *
35929566 AAATAAAATATTATTTAAAAAAAATTTAAAAAATAACACATTTAAACAAAACATATAGAATATAC
1 AAATAAAATATTATTTAAAAAAAATTTAAAAAATAACACATCTAAAAAAAACATATAG-ATACAC
*
35929631 TGGTGACGCTATTCTATATGATTCCACC
65 TGGTGACGCTATTCTATATGACTCCACC
35929659 AAAT-AAATATTATTT
1 AAATAAAATATTATTT
35929674 TTTAAAATAA
Statistics
Matches: 94, Mismatches: 10, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
91 7 0.07
92 19 0.20
93 34 0.36
94 5 0.05
95 2 0.02
96 27 0.29
ACGTcount: A:0.48, C:0.12, G:0.07, T:0.32
Consensus pattern (92 bp):
AAATAAAATATTATTTAAAAAAAATTTAAAAAATAACACATCTAAAAAAAACATATAGATACACT
GGTGACGCTATTCTATATGACTCCACC
Found at i:35930799 original size:14 final size:14
Alignment explanation
Indices: 35930782--35930811 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
35930772 AATATCTAAC
35930782 TGTATAAGTTTGGA
1 TGTATAAGTTTGGA
35930796 TGTATAAGTTTGGA
1 TGTATAAGTTTGGA
35930810 TG
1 TG
35930812 CGCGGTGCGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.30, T:0.43
Consensus pattern (14 bp):
TGTATAAGTTTGGA
Found at i:35935504 original size:20 final size:19
Alignment explanation
Indices: 35935460--35935510 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 19
35935450 ATACATATTA
*
35935460 TCACTGTTCTTGATCTAAC
1 TCACTGTTCATGATCTAAC
35935479 TCCACTGTTCATGA-CTTAACC
1 T-CACTGTTCATGATC-TAA-C
*
35935500 TCACTATTCAT
1 TCACTGTTCAT
35935511 AGGATTGACA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 2 0.07
20 23 0.85
21 2 0.07
ACGTcount: A:0.24, C:0.29, G:0.08, T:0.39
Consensus pattern (19 bp):
TCACTGTTCATGATCTAAC
Found at i:35935679 original size:33 final size:33
Alignment explanation
Indices: 35935628--35935705 Score: 93
Period size: 33 Copynumber: 2.4 Consensus size: 33
35935618 AGCTGATACC
* *
35935628 GTGAGCTCCCTTCAACTCCTGCGGGCCGATATA
1 GTGAGCTCCCTTCAACTCCCGCGAGCCGATATA
* * **
35935661 GTGAGCTCTCTTCCACTCCCGCGAGCCGATACC
1 GTGAGCTCCCTTCAACTCCCGCGAGCCGATATA
*
35935694 GCGAGCTCCCTT
1 GTGAGCTCCCTT
35935706 TTCTTCTACC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.15, C:0.38, G:0.23, T:0.23
Consensus pattern (33 bp):
GTGAGCTCCCTTCAACTCCCGCGAGCCGATATA
Found at i:35937133 original size:29 final size:29
Alignment explanation
Indices: 35937089--35937155 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
35937079 GTCTTTGTTA
* * *
35937089 GACAATAGTTCGAGGTTGAATCTATGCTT
1 GACAATAGTTCGAGGTTAAATATATGCTC
** *
35937118 GACAATAGTTTTAGGTTAAATATGTGCTC
1 GACAATAGTTCGAGGTTAAATATATGCTC
35937147 GACAATAGT
1 GACAATAGT
35937156 GCATCTAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.34
Consensus pattern (29 bp):
GACAATAGTTCGAGGTTAAATATATGCTC
Found at i:35941929 original size:20 final size:20
Alignment explanation
Indices: 35941904--35941941 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
35941894 AATCTTTTCG
35941904 ATTCATTTCTACTTTGGACA
1 ATTCATTTCTACTTTGGACA
*
35941924 ATTCATTTCTGCTTTGGA
1 ATTCATTTCTACTTTGGA
35941942 TCGTTATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.47
Consensus pattern (20 bp):
ATTCATTTCTACTTTGGACA
Found at i:35949476 original size:39 final size:39
Alignment explanation
Indices: 35949433--35949612 Score: 229
Period size: 39 Copynumber: 4.6 Consensus size: 39
35949423 CACATTCACT
* *
35949433 TTTAAGCATATATCACATTA-TACATATAATTACATAATA
1 TTTAAGCATATATCACAATACT-CATATAATCACATAATA
* * * *
35949472 TTTAAACATATAACACAATACACATATAATTACATAATA
1 TTTAAGCATATATCACAATACTCATATAATCACATAATA
*
35949511 TTCAAGCATATATCACAATACTCATATAATCACATAA-A
1 TTTAAGCATATATCACAATACTCATATAATCACATAATA
* *
35949549 GTTCAAGCATATATCACAATACTCATATAATCACATAACA
1 -TTTAAGCATATATCACAATACTCATATAATCACATAATA
* *
35949589 TTTAAGCATATTTCATAATACTCA
1 TTTAAGCATATATCACAATACTCA
35949613 AAAACATGTT
Statistics
Matches: 126, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
38 1 0.01
39 124 0.98
40 1 0.01
ACGTcount: A:0.47, C:0.18, G:0.03, T:0.33
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACTCATATAATCACATAATA
Found at i:35952686 original size:27 final size:27
Alignment explanation
Indices: 35952656--35952707 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
35952646 TCACTATCAT
* *
35952656 GACAGATTATCCCATGTTTACTGTCCC
1 GACAGACTATCACATGTTTACTGTCCC
**
35952683 GACAGACTATCATGTGTTTACTGTC
1 GACAGACTATCACATGTTTACTGTC
35952708 TTGGCGAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (27 bp):
GACAGACTATCACATGTTTACTGTCCC
Found at i:35953150 original size:49 final size:49
Alignment explanation
Indices: 35953077--35953176 Score: 173
Period size: 49 Copynumber: 2.0 Consensus size: 49
35953067 CGGGCCACAA
*
35953077 GGCCCGGAGCTTCGAACATCACGTTTTGCATATAGCAACACCGTATTGT
1 GGCCCGGAGCTTCGAACATCACGTTTTGCATATAGCAACACCGTATGGT
* *
35953126 GGCCCGGAGCTTCGAACATTACGTTTTGCATATAGCAACATCGTATGGT
1 GGCCCGGAGCTTCGAACATCACGTTTTGCATATAGCAACACCGTATGGT
35953175 GG
1 GG
35953177 TATCTAACAG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (49 bp):
GGCCCGGAGCTTCGAACATCACGTTTTGCATATAGCAACACCGTATGGT
Found at i:35954616 original size:19 final size:20
Alignment explanation
Indices: 35954594--35954635 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
35954584 ATGGTATTGA
*
35954594 TACC-AAAGGAAAGTATAGG
1 TACCTAAAGAAAAGTATAGG
*
35954613 TACCTAAAGAAAAGTATTGG
1 TACCTAAAGAAAAGTATAGG
35954633 TAC
1 TAC
35954636 TTCAAACCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.45, C:0.12, G:0.21, T:0.21
Consensus pattern (20 bp):
TACCTAAAGAAAAGTATAGG
Found at i:35958668 original size:11 final size:12
Alignment explanation
Indices: 35958637--35958669 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
35958627 ATGTCAAGTG
35958637 AATTAATTCACA
1 AATTAATTCACA
*
35958649 AATTGATTCA-A
1 AATTAATTCACA
35958660 AATTAATTCA
1 AATTAATTCA
35958670 TCTTGGGTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.48, C:0.12, G:0.03, T:0.36
Consensus pattern (12 bp):
AATTAATTCACA
Found at i:35959004 original size:15 final size:15
Alignment explanation
Indices: 35958980--35959009 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
35958970 TATACATGCA
*
35958980 AAATATAAAAGACAT
1 AAATACAAAAGACAT
35958995 AAATACAAAAGACAT
1 AAATACAAAAGACAT
35959010 GACAATAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.10, G:0.07, T:0.17
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:35959781 original size:14 final size:14
Alignment explanation
Indices: 35959762--35959793 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
35959752 AATAAACACC
35959762 AAAAAATTATTTTA
1 AAAAAATTATTTTA
35959776 AAAAAATTATTTTA
1 AAAAAATTATTTTA
35959790 AAAA
1 AAAA
35959794 TATTTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AAAAAATTATTTTA
Found at i:35959792 original size:11 final size:11
Alignment explanation
Indices: 35959764--35959806 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 11
35959754 TAAACACCAA
35959764 AAAATTATTTT
1 AAAATTATTTT
35959775 AAAAAAATTATTTT
1 ---AAAATTATTTT
*
35959789 AAAAATATTTT
1 AAAATTATTTT
35959800 AAAATTA
1 AAAATTA
35959807 AAAAAAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
11 16 0.59
14 11 0.41
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AAAATTATTTT
Found at i:35964039 original size:36 final size:36
Alignment explanation
Indices: 35963984--35964052 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
35963974 ATATCTGTTG
* *
35963984 ATGTCCTGGGTCTACGAGAGCTGTATTATGATGGCA
1 ATGTCCTAGGTCTAAGAGAGCTGTATTATGATGGCA
*
35964020 ATGTCCTAGGTGTAAGAGAGCTGTATTATGATG
1 ATGTCCTAGGTCTAAGAGAGCTGTATTATGATG
35964053 ACAAGAATCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.25, C:0.13, G:0.30, T:0.32
Consensus pattern (36 bp):
ATGTCCTAGGTCTAAGAGAGCTGTATTATGATGGCA
Found at i:35974289 original size:13 final size:13
Alignment explanation
Indices: 35974255--35974292 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
35974245 TTACAAGACT
35974255 TGTTATAATTG-A
1 TGTTATAATTGAA
35974267 TAGTTA-AATTGAA
1 T-GTTATAATTGAA
35974280 TGTTATAATTGAA
1 TGTTATAATTGAA
35974293 AAATGTACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (13 bp):
TGTTATAATTGAA
Found at i:35975995 original size:73 final size:73
Alignment explanation
Indices: 35975876--35976023 Score: 287
Period size: 73 Copynumber: 2.0 Consensus size: 73
35975866 TTACATGAGA
35975876 TTTAAATAATTTAATACAATGATACATGAGATATAAATTGCAAAGATAATTTTCATTTCTATTTT
1 TTTAAATAATTTAATACAATGATACATGAGATATAAATTGCAAAGATAATTTTCATTTCTATTTT
*
35975941 TTGCTTCG
66 TTACTTCG
35975949 TTTAAATAATTTAATACAATGATACATGAGATATAAATTGCAAAGATAATTTTCATTTCTATTTT
1 TTTAAATAATTTAATACAATGATACATGAGATATAAATTGCAAAGATAATTTTCATTTCTATTTT
35976014 TTACTTCG
66 TTACTTCG
35976022 TT
1 TT
35976024 AAGATTCTAA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 74 1.00
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.45
Consensus pattern (73 bp):
TTTAAATAATTTAATACAATGATACATGAGATATAAATTGCAAAGATAATTTTCATTTCTATTTT
TTACTTCG
Found at i:35977862 original size:49 final size:49
Alignment explanation
Indices: 35977806--35977909 Score: 140
Period size: 49 Copynumber: 2.1 Consensus size: 49
35977796 TCATGTGTTA
* * **
35977806 TAATTTTATACAGTGTTGAGTTTTTGATTCATGATATTGAAA-TTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATT-AAACTTAATTT
*
35977855 TAATTTTATAAAGTGTTCCCCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
35977904 T-ATTTT
1 TAATTTT
35977910 GTTTTTTTTC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
48 8 0.16
49 41 0.84
ACGTcount: A:0.30, C:0.08, G:0.11, T:0.52
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
Found at i:35979602 original size:14 final size:15
Alignment explanation
Indices: 35979579--35979611 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
35979569 ATGTTTAAAT
*
35979579 TTTTTAATTTTTTAA
1 TTTTTAATTTTTGAA
35979594 TTTTT-ATTTTTGAA
1 TTTTTAATTTTTGAA
35979608 TTTT
1 TTTT
35979612 AAGAATAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (15 bp):
TTTTTAATTTTTGAA
Found at i:35979782 original size:37 final size:37
Alignment explanation
Indices: 35979719--35979902 Score: 95
Period size: 38 Copynumber: 4.7 Consensus size: 37
35979709 GTAGTATTAT
* *
35979719 ATATTATG-ATTTTAGTAAATTCATATAAGAATATTTA
1 ATATTAAGAATTTTATTAAATT-ATATAAGAATATTTA
**** *
35979756 ATATTAAGAATTTTATTAAATTATATATTTTTATTAAATT
1 ATATTAAGAATTTTATTAAATTATATAAGAATATT---TA
* * ***
35979796 ATATTTAATAATAATTATGTTAAAATTATAT-TTTATAGTATTA
1 ATA-TTAAGAAT--TT-TATT-AAATTATATAAGAATA-T-TTA
* *
35979839 TATATTATG-ATTTTAATAAATTCATATAAGAATATTTA
1 -ATATTAAGAATTTTATTAAATT-ATATAAGAATATTTA
*
35979877 ATATTAATAATTTTATTAAATTATAT
1 ATATTAAGAATTTTATTAAATTATAT
35979903 TTAATAATTA
Statistics
Matches: 111, Mismatches: 21, Indels: 30
0.69 0.13 0.19
Matches are distributed among these distances:
37 26 0.23
38 32 0.29
39 7 0.06
40 9 0.08
41 7 0.06
42 2 0.02
43 6 0.05
44 11 0.10
45 10 0.09
46 1 0.01
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (37 bp):
ATATTAAGAATTTTATTAAATTATATAAGAATATTTA
Found at i:35979929 original size:23 final size:22
Alignment explanation
Indices: 35979877--35979929 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
35979867 AGAATATTTA
* *
35979877 ATATTAATAATTTTATTAAATT
1 ATATTAATAATTATATTAAAAT
*
35979899 ATATTTAATAATTATGTTAAAAT
1 ATA-TTAATAATTATATTAAAAT
35979922 ATGATTAA
1 AT-ATTAA
35979930 ATTATTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 3 0.12
23 22 0.85
24 1 0.04
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (22 bp):
ATATTAATAATTATATTAAAAT
Found at i:35981857 original size:15 final size:15
Alignment explanation
Indices: 35981837--35981880 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
35981827 ATCATTTCTG
* *
35981837 CCATAGCCGCCACCT
1 CCATAGCCACCACCC
**
35981852 CCATAGTTACCACCC
1 CCATAGCCACCACCC
35981867 CCATAGCCACCACC
1 CCATAGCCACCACC
35981881 ACCACCATAG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.25, C:0.52, G:0.09, T:0.14
Consensus pattern (15 bp):
CCATAGCCACCACCC
Found at i:35985360 original size:2 final size:2
Alignment explanation
Indices: 35985353--35985393 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
35985343 TCTCCCCTTC
35985353 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
35985394 TTTAACTAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:35988078 original size:44 final size:44
Alignment explanation
Indices: 35988016--35988621 Score: 156
Period size: 44 Copynumber: 13.9 Consensus size: 44
35988006 AGATTTGCTA
* *
35988016 TCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCATT
1 TCTTTAGTCTGCCCCACTGCAACTTCAGGGAGATAAGATTCATT
* * * *
35988060 TATTTAGTCTACCCCACTGCAATTTCAAGGG-GATAAAACTTGC-TT
1 TCTTTAGTCTGCCCCACTGCAACTTC-AGGGAGATAAGA-TT-CATT
* * * * * * *
35988105 TCTTGAGTCTGCTCCACTGCAAATTCAAGTAGATAAGACT-ATCG
1 TCTTTAGTCTGCCCCACTGCAACTTCAGGGAGATAAGATTCAT-T
* * * * **
35988149 GCTTTAATCTGCCCCACTACAACTTCAGGGAGATAAGATTTGACA
1 TCTTTAGTCTGCCCCACTGCAACTTCAGGGAGATAAGA-TTCATT
* * * *
35988194 TCTTCAGTCTGCCTCACTACAACCTCA-GGAGGATAA-A-TC-TT
1 TCTTTAGTCTGCCCCACTGCAACTTCAGGGA-GATAAGATTCATT
* * * * *
35988235 GCTTACTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGACT-AGAT
1 TC-T--TTAGTCTGCCCCACTGCAACTTCAGGGAGATAAGATTCA-TT
* * * * * * *
35988282 AC--GA-CCTG-CTCTCTACAACTTCAGAGAGATAAGATT--TT
1 TCTTTAGTCTGCCCCACTGCAACTTCAGGGAGATAAGATTCATT
* * * *
35988320 CCATCTTCAATCTGCCTCACTGCAACTTTA-GGAGGATAAGACTT-ACTT
1 ---TCTTTAGTCTGCCCCACTGCAACTTCAGGGA-GATAAGA-TTCA-TT
* *
35988368 AC-TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA--C--T
1 TCTTTAGTCTGCCCCACTGCAACTTCAGGGAGATAAGATTCATT
*** ** * * * * **
35988407 GGATGGGATCTG-CTCTCTGCAACTTCAGAGAGATAAGATCCAAGG
1 TCTTTAG-TCTGCCCCACTGCAACTTCAGGGAGATAAGATTC-ATT
* * * *
35988452 T-TTTAAT-TCGCTCCACTGCAACTTCAGGGAGATAGGA-TCATCG
1 TCTTTAGTCT-GCCCCACTGCAACTTCAGGGAGATAAGATTCAT-T
* * * * *
35988495 GCTTTAATCTGCTCCACTGCCACTTCAAGGAGATAAGATTTGCCA--
1 TCTTTAGTCTGCCCCACTGCAACTTCAGGGAGATAAGA-TT--CATT
* ** * *
35988540 TCTTCAGTCTGCTTCACTGTAACTTCA-GGATGATAGGACTT-ACTT
1 TCTTTAGTCTGCCCCACTGCAACTTCAGGGA-GATAAGA-TTCA-TT
* *
35988585 AC-TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 TCTTTAGTCTGCCCCACTGCAACTTCAGGGAGATAAGA
35988622 CTAGATGCGA
Statistics
Matches: 410, Mismatches: 101, Indels: 102
0.67 0.16 0.17
Matches are distributed among these distances:
38 1 0.00
39 1 0.00
40 47 0.11
41 9 0.02
42 7 0.02
43 6 0.01
44 203 0.50
45 124 0.30
46 6 0.01
47 2 0.00
48 4 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (44 bp):
TCTTTAGTCTGCCCCACTGCAACTTCAGGGAGATAAGATTCATT
Found at i:35988140 original size:45 final size:44
Alignment explanation
Indices: 35988023--35988140 Score: 121
Period size: 45 Copynumber: 2.7 Consensus size: 44
35988013 CTATCTTTAA
* * * *
35988023 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTCATTTATTTAG
1 TCTGCTCCACTGCAAATTCAAGGAGATAAAATTCATTTATTGAG
* * * * *
35988067 TCTACCCCACTGCAATTTCAAGGGGATAAAACTTGC-TTTCTTGAG
1 TCTGCTCCACTGCAAATTCAAGGAGATAAAA-TT-CATTTATTGAG
*
35988112 TCTGCTCCACTGCAAATTCAAGTAGATAA
1 TCTGCTCCACTGCAAATTCAAGGAGATAA
35988141 GACTATCGGC
Statistics
Matches: 59, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
44 25 0.42
45 33 0.56
46 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (44 bp):
TCTGCTCCACTGCAAATTCAAGGAGATAAAATTCATTTATTGAG
Found at i:35988325 original size:129 final size:129
Alignment explanation
Indices: 35988165--35988445 Score: 420
Period size: 129 Copynumber: 2.2 Consensus size: 129
35988155 ATCTGCCCCA
* *
35988165 CTACAACTTCAGGGAGATAAGATTTGACATCTTCAGTCTGCCTCACTACAACCTCAGGAGGATAA
1 CTACAACTTCAGAGAGATAAGATTTGACATCTTCAATCTGCCTCACTACAACCTCAGGAGGATAA
*
35988230 -ATCTTGCTTACTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTAGATACGACCTGCTCT
66 GA-CTTACTTACTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTAGATACGACCTGCTCT
** * * *
35988294 CTACAACTTCAGAGAGATAAGATTTTCCATCTTCAATCTGCCTCACTGCAACTTTAGGAGGATAA
1 CTACAACTTCAGAGAGATAAGATTTGACATCTTCAATCTGCCTCACTACAACCTCAGGAGGATAA
* * ** *
35988359 GACTTACTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGGGATCTGCTCT
66 GACTTACTTACTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTAGATACGACCTGCTCT
*
35988423 CTGCAACTTCAGAGAGATAAGAT
1 CTACAACTTCAGAGAGATAAGAT
35988446 CCAAGGTTTT
Statistics
Matches: 137, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
129 136 0.99
130 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.28
Consensus pattern (129 bp):
CTACAACTTCAGAGAGATAAGATTTGACATCTTCAATCTGCCTCACTACAACCTCAGGAGGATAA
GACTTACTTACTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTAGATACGACCTGCTCT
Found at i:35988582 original size:217 final size:217
Alignment explanation
Indices: 35988297--35988933 Score: 972
Period size: 217 Copynumber: 2.9 Consensus size: 217
35988287 CTGCTCTCTA
* * * *
35988297 CAACTTC-AGAGAGATAAGATTTTCCATCTTCAATCTGCCTCACTGCAACTTTAGGAGGATAAGA
1 CAACTTCAAG-GAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGATGATAAGA
* *
35988361 CTTACTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGGGATCTGCTCTCTG
65 CTTACTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTG
35988426 CAACTTCAGAGAGATAAGATCCAAGGTTTTAAT-TCGCTCCACTGCAACTTCAGGGAGATAGGAT
130 CAACTTCAGAGAGATAAGATCCAAGGTTTTAATCT-GCTCCACTGCAACTTCAGGGAGATAGGAT
35988490 CATCGGCTTTAATCTGCTCCACTG
194 CATCGGCTTTAATCTGCTCCACTG
* * * *
35988514 CCACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCTTCACTGTAACTTCAGGATGATAGGAC
1 CAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGATGATAAGAC
35988579 TTACTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGC
66 TTACTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGC
* * * *
35988644 AAATTCAGAGAGATAAGATCCAAGGTTTTAATCTGCTCCACTGCAACTTTAGGGAGATAGCATTA
131 AACTTCAGAGAGATAAGATCCAAGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATCA
* * **
35988709 TCGGCTCTAATCTTCTTGACTG
196 TCGGCTTTAATCTGCTCCACTG
* *
35988731 CAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTACCTCACTGCAACTTCAGGATGATAAGAC
1 CAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGATGATAAGAC
** * * *
35988796 TTGTTTGCTTAGTCTTCTCTACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGC
66 TTACTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGC
* * * *
35988861 AACTTCAGAGAGATAAGGTCCAAGGTTTTAATCTGCTTCAATGCAACTTCAAGGAGATAGGATCA
131 AACTTCAGAGAGATAAGATCCAAGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATCA
*
35988926 TTGGCTTT
196 TCGGCTTT
35988934 CGATCTGTTC
Statistics
Matches: 379, Mismatches: 39, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
217 376 0.99
218 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (217 bp):
CAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGATGATAAGAC
TTACTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGC
AACTTCAGAGAGATAAGATCCAAGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATCA
TCGGCTTTAATCTGCTCCACTG
Found at i:35988701 original size:44 final size:44
Alignment explanation
Indices: 35988374--35988924 Score: 206
Period size: 44 Copynumber: 12.8 Consensus size: 44
35988364 ACTTACTTAG
* * ***
35988374 TCTGCTCCACTGCAACTTCAGGGAGATAAGA--C-TGGATGGGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCCAAGGTTTTAA
* *
35988415 TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCCAAGGTTTTAA
* * *
35988458 T-TCGCTCCACTGCAACTTCAGGGAGATAGGAT-CATCGGCTTTAA
1 TCT-GCTCCACTGCAACTTCAGGGAGATAAGATCCA-AGGTTTTAA
* * * *
35988502 TCTGCTCCACTGCCACTTCAAGGAGATAAGATTTGCC-A--TCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-CCAAGGT-TTTAA
* * * ** * *
35988547 TCTGCTTCACTGTAACTTCA-GGATGATAGGA-CTTA-CTTACTTAG
1 TCTGCTCCACTGCAACTTCAGGGA-GATAAGATCCAAGGTT--TTAA
* * ***
35988591 TCTGCTCCACTGCAACTTCAGGGAGATAAGA--CTA-GATGCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCCAAGGTTTTAA
* * *
35988632 TCTGCT-CTCTGCAAATTCAGAGAGATAAGATCCAAGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCCAAGGTTTTAA
* * * * *
35988675 TCTGCTCCACTGCAACTTTAGGGAGAT-AGCAT-TATCGGCTCTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAG-ATCCA-AGGTTTTAA
* ** * *
35988719 TCTTCTTGACTGCAACTTCAGGGAGATAAGATTTGCC-A--TCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-CCAAGGT-TTTAA
* ** * *
35988764 TCTAC-CTCACTGCAACTTCA-GGATGATAAGA--CTTGTTTGCTTAG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGATCCAAGGTT--TTAA
* * * * ***
35988808 TCTTCTCTACTGCAACTTCAGGGAGATAAGA--CTA-GATGCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCCAAGGTTTTAA
* * *
35988849 TCTGCT-CTCTGCAACTTCAGAGAGATAAGGTCCAAGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCCAAGGTTTTAA
* * * *
35988892 TCTGCTTCAATGCAACTTCAAGGAGATAGGATC
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATC
35988925 ATTGGCTTTC
Statistics
Matches: 376, Mismatches: 91, Indels: 83
0.68 0.17 0.15
Matches are distributed among these distances:
40 64 0.17
41 18 0.05
42 9 0.02
43 37 0.10
44 184 0.49
45 61 0.16
46 2 0.01
48 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATCCAAGGTTTTAA
Found at i:36001042 original size:12 final size:12
Alignment explanation
Indices: 36001025--36001049 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36001015 AATTTTAAAT
36001025 ATAAAAAAATAA
1 ATAAAAAAATAA
36001037 ATAAAAAAATAA
1 ATAAAAAAATAA
36001049 A
1 A
36001050 CTGGTGGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
ATAAAAAAATAA
Found at i:36001165 original size:31 final size:32
Alignment explanation
Indices: 36001127--36001189 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
36001117 AAATAAAGAA
*
36001127 AAACAAAT-AAAAAACAGAAAAATGACAAAAG
1 AAACAAATAAAAAAACAGAAAAAGGACAAAAG
36001158 AAACAAATAAAAAAACAGAAAAAGGACAAAAG
1 AAACAAATAAAAAAACAGAAAAAGGACAAAAG
36001190 GCGACAGGGG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 8 0.27
32 22 0.73
ACGTcount: A:0.75, C:0.10, G:0.11, T:0.05
Consensus pattern (32 bp):
AAACAAATAAAAAAACAGAAAAAGGACAAAAG
Found at i:36003080 original size:14 final size:14
Alignment explanation
Indices: 36003063--36003091 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
36003053 AATAAAAAGA
36003063 AGTGGAGAAAACTT
1 AGTGGAGAAAACTT
36003077 AGTGGAGAAAACTT
1 AGTGGAGAAAACTT
36003091 A
1 A
36003092 CACCCAAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.07, G:0.28, T:0.21
Consensus pattern (14 bp):
AGTGGAGAAAACTT
Found at i:36004811 original size:18 final size:17
Alignment explanation
Indices: 36004774--36004818 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
36004764 ACAGTGGAAT
36004774 AAAATAATTTAAACAAA
1 AAAATAATTTAAACAAA
* *
36004791 AAAATTATTTGAACAAAA
1 AAAATAATTTAAAC-AAA
36004809 AAAATAATTT
1 AAAATAATTT
36004819 TTCGAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.29
Consensus pattern (17 bp):
AAAATAATTTAAACAAA
Found at i:36007132 original size:26 final size:26
Alignment explanation
Indices: 36007103--36007154 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
36007093 TGAATTGAAG
36007103 ACTGATTATTCTTGATTGAATCATAT
1 ACTGATTATTCTTGATTGAATCATAT
36007129 ACTGATTATTCTTGATTGAATCATAT
1 ACTGATTATTCTTGATTGAATCATAT
36007155 TGATATGGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.46
Consensus pattern (26 bp):
ACTGATTATTCTTGATTGAATCATAT
Found at i:36013096 original size:63 final size:63
Alignment explanation
Indices: 36012997--36013154 Score: 244
Period size: 63 Copynumber: 2.5 Consensus size: 63
36012987 ATTTTGTGGG
* * **
36012997 TGCCATAGAGTCTTTCATCCATGGTATTACACTGATCCTTCATCCTGGTTTGCTATCATATAA
1 TGCCATAGAGTCTTTCATCCATGGTCTTACACTGATCCTCCATCCTGGCGTGCTATCATATAA
**
36013060 TGCCATAGAGTCTTTCATTTATGGTCTTACACTGATCCTCCATCCTGGCGTGCTATCATATAA
1 TGCCATAGAGTCTTTCATCCATGGTCTTACACTGATCCTCCATCCTGGCGTGCTATCATATAA
* *
36013123 TGTCATAAAGTCTTTCATCCATGGTCTTACAC
1 TGCCATAGAGTCTTTCATCCATGGTCTTACAC
36013155 ATTATACCTA
Statistics
Matches: 85, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
63 85 1.00
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (63 bp):
TGCCATAGAGTCTTTCATCCATGGTCTTACACTGATCCTCCATCCTGGCGTGCTATCATATAA
Found at i:36024530 original size:44 final size:44
Alignment explanation
Indices: 36024461--36024544 Score: 132
Period size: 44 Copynumber: 1.9 Consensus size: 44
36024451 ACTCTGTTTT
* * *
36024461 TAGTTTCCCACTTAAACTTTGATTAGTGTAGGTTATTTTAATAG
1 TAGTTTCCCACTTAAACTCTAATTAGTGTAGCTTATTTTAATAG
*
36024505 TAGTTTTCCACTTAAACTCTAATTAGTGTAGCTTATTTTA
1 TAGTTTCCCACTTAAACTCTAATTAGTGTAGCTTATTTTA
36024545 TTCTTATTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.46
Consensus pattern (44 bp):
TAGTTTCCCACTTAAACTCTAATTAGTGTAGCTTATTTTAATAG
Found at i:36026768 original size:19 final size:16
Alignment explanation
Indices: 36026730--36026761 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
36026720 ATATTGCAAC
36026730 TTAA-AAATGTTGTTG
1 TTAATAAATGTTGTTG
36026745 TTAATAAATGTTGTTG
1 TTAATAAATGTTGTTG
36026761 T
1 T
36026762 ATTTAATTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (16 bp):
TTAATAAATGTTGTTG
Found at i:36030626 original size:24 final size:24
Alignment explanation
Indices: 36030573--36030624 Score: 97
Period size: 23 Copynumber: 2.2 Consensus size: 24
36030563 AACTATTTAG
36030573 AATTTACTAAAATTTAAAAAATAT
1 AATTTACTAAAATTTAAAAAATAT
36030597 AATTTACTAAAA-TTAAAAAATAT
1 AATTTACTAAAATTTAAAAAATAT
36030620 AATTT
1 AATTT
36030625 TAATAATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 16 0.57
24 12 0.43
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (24 bp):
AATTTACTAAAATTTAAAAAATAT
Found at i:36030649 original size:18 final size:18
Alignment explanation
Indices: 36030608--36030649 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
36030598 ATTTACTAAA
*
36030608 ATTAAAAAATATAATTTT
1 ATTAATAAATATAATTTT
*
36030626 AATAATAAATATAAATTTT
1 ATTAATAAATAT-AATTTT
36030645 -TTAAT
1 ATTAAT
36030650 TTTATAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTAATAAATATAATTTT
Found at i:36030966 original size:9 final size:9
Alignment explanation
Indices: 36030937--36030980 Score: 52
Period size: 10 Copynumber: 4.6 Consensus size: 9
36030927 AATTTTATCT
*
36030937 ATTTCTATA
1 ATTTTTATA
36030946 TATTTTTAATA
1 -ATTTTT-ATA
36030957 ATTTTTATA
1 ATTTTTATA
36030966 ATTTTATATA
1 ATTTT-TATA
36030976 ATTTT
1 ATTTT
36030981 AAATAAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
9 8 0.26
10 20 0.65
11 3 0.10
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (9 bp):
ATTTTTATA
Found at i:36030969 original size:19 final size:20
Alignment explanation
Indices: 36030928--36030980 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
36030918 ACTCTATAAA
* *
36030928 ATTTTATCT-ATTTCTATAT
1 ATTTTATATAATTTTTATAT
36030947 ATTTT-TAATAATTTTTATA-
1 ATTTTAT-ATAATTTTTATAT
36030966 ATTTTATATAATTTT
1 ATTTTATATAATTTT
36030981 AAATAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
18 1 0.03
19 19 0.66
20 9 0.31
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (20 bp):
ATTTTATATAATTTTTATAT
Found at i:36031028 original size:29 final size:30
Alignment explanation
Indices: 36030923--36031028 Score: 94
Period size: 29 Copynumber: 3.6 Consensus size: 30
36030913 TTACGACTCT
* *
36030923 ATAAAATTTTATCTATTTCTATATATTTTTA
1 ATAAAATTTAAT-AATTTCTATATATTTTTA
* * *
36030954 AT-AATTTTTATAATTT-TATATAATTTTAA
1 ATAAAATTTAATAATTTCTATAT-ATTTTTA
*
36030983 ATAAAAATTAA-ATATTTCT-TATATTTTTA
1 ATAAAATTTAATA-ATTTCTATATATTTTTA
*
36031012 TTAAAATTTAATAATTT
1 ATAAAATTTAATAATTT
36031029 TATTTTATTT
Statistics
Matches: 61, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
28 5 0.08
29 32 0.52
30 21 0.34
31 3 0.05
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (30 bp):
ATAAAATTTAATAATTTCTATATATTTTTA
Found at i:36040601 original size:84 final size:84
Alignment explanation
Indices: 36040488--36040651 Score: 217
Period size: 84 Copynumber: 2.0 Consensus size: 84
36040478 CAACTAAATC
* * *
36040488 AAGCGAAAGACCCAAAAATAAAAGAAAAACTGTGA-AGGGAAGAGAATAATAAAAGGAATAAAGA
1 AAGCGAAAGACCCAAAAATAAAAGAAAAACTATGAGA-GGAAAAGAAGAATAAAAGGAATAAAGA
* *
36040552 ACAATGAAATACCATAAACG
65 AAAAAGAAATACCATAAACG
* *
36040572 AAGCGGAAGACCCAGAATAA-AAAAG-AAAACTATGAGAGTAAAAGAAGAATAAAAGGAATAAAG
1 AAGCGAAAGACCCA-AA-AATAAAAGAAAAACTATGAGAGGAAAAGAAGAATAAAAGGAATAAAG
36040635 AAAAAAGAAATACCATA
64 AAAAAAGAAATACCATA
36040652 TTGTGAGCCC
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
84 60 0.86
85 8 0.11
86 2 0.03
ACGTcount: A:0.61, C:0.10, G:0.19, T:0.10
Consensus pattern (84 bp):
AAGCGAAAGACCCAAAAATAAAAGAAAAACTATGAGAGGAAAAGAAGAATAAAAGGAATAAAGAA
AAAAGAAATACCATAAACG
Found at i:36050573 original size:41 final size:41
Alignment explanation
Indices: 36050496--36050575 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 41
36050486 GATGAATTAT
** *
36050496 ATCAGGCTTTGAGCCTAGAAGGTTTCATGTCAGTGTATTGA
1 ATCAGGCCCTGAGCCTAGAAGGTTTCATGCCAGTGTATTGA
* * *
36050537 ATCAGGCCCTGAGCCTAGTAGGTTTCGTGCCGGTGTATT
1 ATCAGGCCCTGAGCCTAGAAGGTTTCATGCCAGTGTATT
36050576 TGTTTCAGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.20, C:0.19, G:0.29, T:0.33
Consensus pattern (41 bp):
ATCAGGCCCTGAGCCTAGAAGGTTTCATGCCAGTGTATTGA
Found at i:36055441 original size:19 final size:19
Alignment explanation
Indices: 36055417--36055453 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
36055407 TATTTTAAAG
36055417 TTATTTAGATAAATAAATC
1 TTATTTAGATAAATAAATC
* *
36055436 TTATTTAGGTAGATAAAT
1 TTATTTAGATAAATAAAT
36055454 TTTAGAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.43
Consensus pattern (19 bp):
TTATTTAGATAAATAAATC
Found at i:36059296 original size:19 final size:19
Alignment explanation
Indices: 36059258--36059298 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
36059248 TATTTTAAAG
* **
36059258 TTATTTAGGTAGATTTATC
1 TTATTTAGGTAAATAAATC
36059277 TTATTTAGGTAAATAAATC
1 TTATTTAGGTAAATAAATC
36059296 TTA
1 TTA
36059299 GAATAAATCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.34, C:0.05, G:0.12, T:0.49
Consensus pattern (19 bp):
TTATTTAGGTAAATAAATC
Found at i:36059384 original size:41 final size:41
Alignment explanation
Indices: 36059336--36059417 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
36059326 ATATTTTATT
*
36059336 TTATGTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTCC
1 TTATGTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCC
36059377 TTATGTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCC
1 TTATGTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCC
36059418 CAATTAGGTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.30, C:0.05, G:0.16, T:0.49
Consensus pattern (41 bp):
TTATGTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCC
Found at i:36060410 original size:13 final size:13
Alignment explanation
Indices: 36060392--36060416 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36060382 AAAAAGAAAA
36060392 ACAAATTTTCTTC
1 ACAAATTTTCTTC
36060405 ACAAATTTTCTT
1 ACAAATTTTCTT
36060417 ACTAACTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (13 bp):
ACAAATTTTCTTC
Found at i:36063551 original size:2 final size:2
Alignment explanation
Indices: 36063544--36063568 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
36063534 GATTTCATTT
36063544 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
36063569 GCATCCCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:36071898 original size:30 final size:30
Alignment explanation
Indices: 36071862--36072019 Score: 237
Period size: 30 Copynumber: 5.3 Consensus size: 30
36071852 GACGCAAATA
36071862 GGGAGACCTGCTCCTGCTTCTTCGATTTCT
1 GGGAGACCTGCTCCTGCTTCTTCGATTTCT
* *
36071892 GGGAGACCTACTCCTGCTTCTTCGGTTTCT
1 GGGAGACCTGCTCCTGCTTCTTCGATTTCT
36071922 GGGAGACCTGCTCCTGCTTCTAT-GATTTCT
1 GGGAGACCTGCTCCTGCTTCT-TCGATTTCT
* *
36071952 AGGAGACCTGCTCCTGCTTCTACGATTTCT
1 GGGAGACCTGCTCCTGCTTCTTCGATTTCT
* * *
36071982 GGGAGACCTGCTTCTGCTTCTCCGGTTTCT
1 GGGAGACCTGCTCCTGCTTCTTCGATTTCT
36072012 GGGAGACC
1 GGGAGACC
36072020 AACTAAAACA
Statistics
Matches: 116, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
30 115 0.99
31 1 0.01
ACGTcount: A:0.12, C:0.29, G:0.25, T:0.34
Consensus pattern (30 bp):
GGGAGACCTGCTCCTGCTTCTTCGATTTCT
Found at i:36072954 original size:20 final size:22
Alignment explanation
Indices: 36072915--36072956 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
36072905 AATTCTAAAC
36072915 TTGCTAAACATACAACAGATAA
1 TTGCTAAACATACAACAGATAA
*
36072937 TTGC-AAAC-TACAAGAGATAA
1 TTGCTAAACATACAACAGATAA
36072957 AGAGTCGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
21 4 0.21
22 4 0.21
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (22 bp):
TTGCTAAACATACAACAGATAA
Found at i:36099222 original size:9 final size:9
Alignment explanation
Indices: 36099207--36099288 Score: 83
Period size: 9 Copynumber: 8.7 Consensus size: 9
36099197 TTTTGGTTAA
36099207 AAATTACCC
1 AAATTACCC
* *
36099216 GAATTACTC
1 AAATTACCC
*
36099225 GAATTACCC
1 AAATTACCC
36099234 AAATTACCC
1 AAATTACCC
36099243 GAAAATTACCC
1 --AAATTACCC
36099254 AAATTACCC
1 AAATTACCC
*
36099263 AAAAATTATCC
1 --AAATTACCC
36099274 AAATTACCC
1 AAATTACCC
*
36099283 GAATTA
1 AAATTA
36099289 AATCACTACA
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
9 45 0.73
11 17 0.27
ACGTcount: A:0.44, C:0.27, G:0.05, T:0.24
Consensus pattern (9 bp):
AAATTACCC
Found at i:36099251 original size:20 final size:20
Alignment explanation
Indices: 36099206--36099285 Score: 110
Period size: 20 Copynumber: 4.1 Consensus size: 20
36099196 TTTTTGGTTA
* *
36099206 AAAATTACCCGAATTACTCG
1 AAAATTACCCAAATTACCCG
36099226 --AATTACCCAAATTACCCG
1 AAAATTACCCAAATTACCCG
*
36099244 AAAATTACCCAAATTACCCA
1 AAAATTACCCAAATTACCCG
*
36099264 AAAATTATCCAAATTACCCG
1 AAAATTACCCAAATTACCCG
36099284 AA
1 AA
36099286 TTAAATCACT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
18 16 0.30
20 37 0.70
ACGTcount: A:0.45, C:0.28, G:0.05, T:0.23
Consensus pattern (20 bp):
AAAATTACCCAAATTACCCG
Found at i:36099287 original size:29 final size:29
Alignment explanation
Indices: 36099205--36099288 Score: 100
Period size: 29 Copynumber: 2.9 Consensus size: 29
36099195 ATTTTTGGTT
* *
36099205 AAAAATTACCCGAATTACTCGAATTACCC
1 AAAAATTACCCAAATTACCCGAATTACCC
*
36099234 --AAATTACCCGAAAATTACCCAAATTACCC
1 AAAAATTACCC--AAATTACCCGAATTACCC
*
36099263 AAAAATTATCCAAATTACCCGAATTA
1 AAAAATTACCCAAATTACCCGAATTA
36099289 AATCACTACA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
27 9 0.20
29 29 0.63
31 8 0.17
ACGTcount: A:0.45, C:0.26, G:0.05, T:0.24
Consensus pattern (29 bp):
AAAAATTACCCAAATTACCCGAATTACCC
Found at i:36099317 original size:17 final size:17
Alignment explanation
Indices: 36099284--36099392 Score: 69
Period size: 17 Copynumber: 6.1 Consensus size: 17
36099274 AAATTACCCG
*
36099284 AATT-AAATCACTACAT
1 AATTAAAATCATTACAT
*
36099300 AATTAAAAGCATTACAT
1 AATTAAAATCATTACAT
* *
36099317 AAATCTTTAAATCACTACAT
1 -AA--TTAAAATCATTACAT
36099337 AATTAAAA-CTATTACAT
1 AATTAAAATC-ATTACAT
** *
36099354 AAGTCTTTGAATCACTACAT
1 AA---TTAAAATCATTACAT
*
36099374 AATTAAAAACATTACAT
1 AATTAAAATCATTACAT
36099391 AA
1 AA
36099393 GTCTTGAATT
Statistics
Matches: 70, Mismatches: 14, Indels: 17
0.69 0.14 0.17
Matches are distributed among these distances:
16 5 0.07
17 36 0.51
18 2 0.03
19 2 0.03
20 24 0.34
21 1 0.01
ACGTcount: A:0.50, C:0.16, G:0.03, T:0.32
Consensus pattern (17 bp):
AATTAAAATCATTACAT
Found at i:36099332 original size:37 final size:36
Alignment explanation
Indices: 36099286--36099397 Score: 179
Period size: 37 Copynumber: 3.0 Consensus size: 36
36099276 ATTACCCGAA
*
36099286 TTAAATCACTACATAATTAAAAGCATTACATAAATCT
1 TTAAATCACTACATAATTAAAA-CATTACATAAGTCT
36099323 TTAAATCACTACATAATTAAAACTATTACATAAGTCT
1 TTAAATCACTACATAATTAAAAC-ATTACATAAGTCT
*
36099360 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTAAATCACTACATAATT-AAAACATTACATAAGTCT
36099397 T
1 T
36099398 GAATTAACAC
Statistics
Matches: 71, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
36 1 0.01
37 65 0.92
38 5 0.07
ACGTcount: A:0.46, C:0.16, G:0.04, T:0.34
Consensus pattern (36 bp):
TTAAATCACTACATAATTAAAACATTACATAAGTCT
Found at i:36099337 original size:20 final size:18
Alignment explanation
Indices: 36099286--36099338 Score: 54
Period size: 20 Copynumber: 2.9 Consensus size: 18
36099276 ATTACCCGAA
36099286 TTAAATCACTACAT-AAT
1 TTAAATCACTACATAAAT
* * *
36099303 TAAAAGCATTACATAAATCT
1 TTAAATCACTACATAAA--T
36099323 TTAAATCACTACATAA
1 TTAAATCACTACATAA
36099339 TTAAAACTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
17 11 0.41
18 2 0.07
20 14 0.52
ACGTcount: A:0.49, C:0.17, G:0.02, T:0.32
Consensus pattern (18 bp):
TTAAATCACTACATAAAT
Found at i:36102136 original size:11 final size:11
Alignment explanation
Indices: 36102120--36102147 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
36102110 GTGAAATTCG
36102120 TATTTATTATT
1 TATTTATTATT
36102131 TATTTATTATT
1 TATTTATTATT
36102142 TATTTA
1 TATTTA
36102148 ACAATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TATTTATTATT
Found at i:36102245 original size:15 final size:16
Alignment explanation
Indices: 36102212--36102250 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
36102202 GGGCCTTGAT
36102212 ATTATAATGATGAAAA
1 ATTATAATGATGAAAA
36102228 ATTATAATGATG-AAA
1 ATTATAATGATGAAAA
36102243 ATTATAAT
1 ATTATAAT
36102251 ATTAGTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.36
Consensus pattern (16 bp):
ATTATAATGATGAAAA
Found at i:36102460 original size:15 final size:15
Alignment explanation
Indices: 36102440--36102475 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
36102430 ATGTGTAAAG
36102440 AAATTTGTAAGTAAT
1 AAATTTGTAAGTAAT
*
36102455 AAATTTGTATGTAAT
1 AAATTTGTAAGTAAT
36102470 AAATTT
1 AAATTT
36102476 TTACTTACAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (15 bp):
AAATTTGTAAGTAAT
Found at i:36102544 original size:42 final size:43
Alignment explanation
Indices: 36102455--36102549 Score: 129
Period size: 42 Copynumber: 2.2 Consensus size: 43
36102445 TGTAAGTAAT
* *
36102455 AAATTTGTATGTAATAAATTTTTACTTACACTGGATATGTAAAG
1 AAATTTGTAAGTAATAAATTTATAC-TACACTGGATATGTAAAG
** *
36102499 AAATTTGTAAGTAATAAATTTATA-TATGCTGGATGTGTAAAG
1 AAATTTGTAAGTAATAAATTTATACTACACTGGATATGTAAAG
36102541 AAATTTGTA
1 AAATTTGTA
36102550 CACTGGATGT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 24 0.52
44 22 0.48
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.40
Consensus pattern (43 bp):
AAATTTGTAAGTAATAAATTTATACTACACTGGATATGTAAAG
Found at i:36102557 original size:25 final size:25
Alignment explanation
Indices: 36102527--36102574 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
36102517 TTTATATATG
36102527 CTGGATGTGTAAAGAAATTTGTACA
1 CTGGATGTGTAAAGAAATTTGTACA
36102552 CTGGATGTGTAAAGAAATTTGTA
1 CTGGATGTGTAAAGAAATTTGTA
36102575 AGTAATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.35, C:0.06, G:0.25, T:0.33
Consensus pattern (25 bp):
CTGGATGTGTAAAGAAATTTGTACA
Found at i:36107038 original size:30 final size:30
Alignment explanation
Indices: 36106998--36107065 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 30
36106988 CATGATCTAA
*
36106998 AAGCTTCTGAAGCTGAGCCTTTAGCTCCAT
1 AAGCTCCTGAAGCTGAGCCTTTAGCTCCAT
* *
36107028 AAGCTCCTGAATCTGAGCCTTTCGCTCCAT
1 AAGCTCCTGAAGCTGAGCCTTTAGCTCCAT
36107058 AAGCTCCT
1 AAGCTCCT
36107066 TTAGTGTCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.22, C:0.31, G:0.18, T:0.29
Consensus pattern (30 bp):
AAGCTCCTGAAGCTGAGCCTTTAGCTCCAT
Found at i:36111821 original size:18 final size:18
Alignment explanation
Indices: 36111800--36111838 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
36111790 TTTTAATTTT
* *
36111800 CTTTCATATAACACTTTA
1 CTTTCATAAAACACTTCA
36111818 CTTTCATAAAACACTTCA
1 CTTTCATAAAACACTTCA
36111836 CTT
1 CTT
36111839 AAATATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.41
Consensus pattern (18 bp):
CTTTCATAAAACACTTCA
Found at i:36112747 original size:23 final size:24
Alignment explanation
Indices: 36112708--36112753 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
36112698 CAAAACAGTG
36112708 AAAAAATAACAATAAAATAGCAAA
1 AAAAAATAACAATAAAATAGCAAA
36112732 AAAAAAGTAA-AA-AAAATAGCAA
1 AAAAAA-TAACAATAAAATAGCAA
36112754 GGAAAAGCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 10 0.48
24 8 0.38
25 3 0.14
ACGTcount: A:0.76, C:0.07, G:0.07, T:0.11
Consensus pattern (24 bp):
AAAAAATAACAATAAAATAGCAAA
Found at i:36112759 original size:23 final size:25
Alignment explanation
Indices: 36112707--36112759 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
36112697 ACAAAACAGT
36112707 GAAAAAATAACAATAAAATAGCAAA
1 GAAAAAATAACAATAAAATAGCAAA
*
36112732 -AAAAAAGTAA-AA-AAAATAGCAAG
1 GAAAAAA-TAACAATAAAATAGCAAA
36112755 GAAAA
1 GAAAA
36112760 GCAGTGGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 10 0.40
24 12 0.48
25 3 0.12
ACGTcount: A:0.74, C:0.06, G:0.11, T:0.09
Consensus pattern (25 bp):
GAAAAAATAACAATAAAATAGCAAA
Found at i:36114499 original size:15 final size:15
Alignment explanation
Indices: 36114481--36114531 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
36114471 CTGCTAAATT
36114481 TTTATAAGTGCCAAA
1 TTTATAAGTGCCAAA
* ***
36114496 TTTAT-ATTAAAAAA
1 TTTATAAGTGCCAAA
36114510 TATTATAAGTGCCAAA
1 T-TTATAAGTGCCAAA
36114526 TTTATA
1 TTTATA
36114532 TTAAAAAAAT
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
14 6 0.23
15 14 0.54
16 6 0.23
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (15 bp):
TTTATAAGTGCCAAA
Found at i:36114517 original size:30 final size:31
Alignment explanation
Indices: 36114482--36114544 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 31
36114472 TGCTAAATTT
36114482 TTATAAGTGCCAAATTTATATT-AAAAAATA
1 TTATAAGTGCCAAATTTATATTAAAAAAATA
36114512 TTATAAGTGCCAAATTTATATTAAAAAAATA
1 TTATAAGTGCCAAATTTATATTAAAAAAATA
36114543 TT
1 TT
36114545 TAGTAAATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 22 0.69
31 10 0.31
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.38
Consensus pattern (31 bp):
TTATAAGTGCCAAATTTATATTAAAAAAATA
Found at i:36116673 original size:50 final size:50
Alignment explanation
Indices: 36116549--36116797 Score: 275
Period size: 50 Copynumber: 4.8 Consensus size: 50
36116539 GATAATAACA
* * ** * *
36116549 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
36116600 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * * *
36116650 TGCCAACGTCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
36116700 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
36116755 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
36116798 TTACCCAAAT
Statistics
Matches: 168, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
49 1 0.01
50 90 0.54
51 33 0.20
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:36116725 original size:100 final size:104
Alignment explanation
Indices: 36116548--36116797 Score: 348
Period size: 100 Copynumber: 2.4 Consensus size: 104
36116538 TGATAATAAC
**
36116548 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
36116613 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* * *
36116650 -TGCCAACGTCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
36116713 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
36116755 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
36116798 TTACCCAAAT
Statistics
Matches: 131, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 35 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 39 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:36116913 original size:13 final size:13
Alignment explanation
Indices: 36116892--36116923 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
36116882 GCTTGGATCA
*
36116892 TCATCAAATAAAT
1 TCATAAAATAAAT
36116905 TCATAAAATAAAT
1 TCATAAAATAAAT
36116918 TCATAA
1 TCATAA
36116924 TTGTTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:36126030 original size:9 final size:9
Alignment explanation
Indices: 36126016--36126042 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
36126006 CAATACACGC
36126016 ATTTTCAAA
1 ATTTTCAAA
36126025 ATTTTCAAA
1 ATTTTCAAA
36126034 ATTTTCAAA
1 ATTTTCAAA
36126043 GTTCGTTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (9 bp):
ATTTTCAAA
Found at i:36126933 original size:26 final size:26
Alignment explanation
Indices: 36126885--36126937 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
36126875 CTAGTAAAGT
** *
36126885 AAGGTAGGCTTCTCTCTTAGAGTTCC
1 AAGGTAGGCAACTCCCTTAGAGTTCC
*
36126911 AAGGTAGGCAACTCCCTTGGAGTTCC
1 AAGGTAGGCAACTCCCTTAGAGTTCC
36126937 A
1 A
36126938 TCGCCATAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.28
Consensus pattern (26 bp):
AAGGTAGGCAACTCCCTTAGAGTTCC
Found at i:36127705 original size:7 final size:8
Alignment explanation
Indices: 36127688--36127721 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
36127678 GGACCAGTCC
36127688 AATTAAAA
1 AATTAAAA
36127696 AATT-AAA
1 AATTAAAA
36127703 AATTCAAAA
1 AATT-AAAA
36127712 AATTAAAA
1 AATTAAAA
36127720 AA
1 AA
36127722 CCTGGTTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 7 0.29
8 10 0.42
9 7 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (8 bp):
AATTAAAA
Found at i:36129877 original size:74 final size:72
Alignment explanation
Indices: 36129764--36129926 Score: 195
Period size: 74 Copynumber: 2.2 Consensus size: 72
36129754 AATCAGAAGA
* * *
36129764 TCTGCTTTTATTTTCTAAAGCTTATGTTTGGTGCTAAGTACAA-AGTAAAACATAAGTAACAAGT
1 TCTGTTTTTATTTTCTAAAGCTTATGTTTGGTGCAAAGTA-AAGA-AAAAACATAAGTAACAAGT
*
36129828 AACCCAAAAG
64 AACAC-AAAG
* * * *
36129838 TCTGTTTTTATCTTCTAAA-CTTTATTTTTTGTGCAAAGTAAAGAAAAAACCTAAGTAACAAGTA
1 TCTGTTTTTATTTTCTAAAGC-TTATGTTTGGTGCAAAGTAAAGAAAAAACATAAGTAACAAGTA
36129902 ACACAAAG
65 ACACAAAG
*
36129910 TCCGTTTTTATTTTCTA
1 TCTGTTTTTATTTTCTA
36129927 TTATTACAGA
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
72 19 0.25
73 24 0.31
74 34 0.44
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (72 bp):
TCTGTTTTTATTTTCTAAAGCTTATGTTTGGTGCAAAGTAAAGAAAAAACATAAGTAACAAGTAA
CACAAAG
Found at i:36130149 original size:161 final size:161
Alignment explanation
Indices: 36129884--36130205 Score: 617
Period size: 161 Copynumber: 2.0 Consensus size: 161
36129874 AGTAAAGAAA
*
36129884 AAACCTAAGTAACAAGTAACACAAAGTCCGTTTTTATTTTCTATTATTACAGATGAAAAGACGAG
1 AAACCTAAGTAACAAGTAACACAAAGTCCGTTTTTATTTTCTATTATTACAGATGAAAAGACAAG
*
36129949 CAAGATACAATAGCCAACCACACAAAGGCATGTCCATAGTTCAAAGACTAATTTCTTTGAGTGTG
66 CAAGATACAATAGCCAACCACACAAAGGCACGTCCATAGTTCAAAGACTAATTTCTTTGAGTGTG
36130014 CCTGGATGTTTGGAGGAACAGGGGGTGAGGT
131 CCTGGATGTTTGGAGGAACAGGGGGTGAGGT
36130045 AAACCTAAGTAACAAGTAACACAAAGTCCGTTTTTATTTTCTATTATTACAGATGAAAAGACAAG
1 AAACCTAAGTAACAAGTAACACAAAGTCCGTTTTTATTTTCTATTATTACAGATGAAAAGACAAG
36130110 CAAGATACAATAGCCAACCACACAAAGGCACGTCCATAGTTCAAAGACTAATTTCTTTGAGTGTG
66 CAAGATACAATAGCCAACCACACAAAGGCACGTCCATAGTTCAAAGACTAATTTCTTTGAGTGTG
*
36130175 CCTGGGTGTTTGGAGGAACAGGGGGTGAGGT
131 CCTGGATGTTTGGAGGAACAGGGGGTGAGGT
36130206 GAGGGCTTAG
Statistics
Matches: 158, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
161 158 1.00
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (161 bp):
AAACCTAAGTAACAAGTAACACAAAGTCCGTTTTTATTTTCTATTATTACAGATGAAAAGACAAG
CAAGATACAATAGCCAACCACACAAAGGCACGTCCATAGTTCAAAGACTAATTTCTTTGAGTGTG
CCTGGATGTTTGGAGGAACAGGGGGTGAGGT
Found at i:36132673 original size:66 final size:66
Alignment explanation
Indices: 36132566--36132700 Score: 216
Period size: 66 Copynumber: 2.0 Consensus size: 66
36132556 TGAGTGTCCA
* * * * *
36132566 AAAATTACATGAAGACCATCTCAACAAGTTTTGTGATTATCTCCAAAGAACATTACTTCCTATAA
1 AAAATTACATGAAAACAATCTCAACAAGTTTTGTGACTATCTCCAAAGAACATTAATTCCTACAA
36132631 C
66 C
*
36132632 AAAATTACATGAAAACAATCTCAACGAGTTTTGTGACTATCTCCAAAGAACATTAATTCCTACAA
1 AAAATTACATGAAAACAATCTCAACAAGTTTTGTGACTATCTCCAAAGAACATTAATTCCTACAA
36132697 C
66 C
36132698 AAA
1 AAA
36132701 CTTAAAAGGG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.28
Consensus pattern (66 bp):
AAAATTACATGAAAACAATCTCAACAAGTTTTGTGACTATCTCCAAAGAACATTAATTCCTACAA
C
Found at i:36138130 original size:38 final size:38
Alignment explanation
Indices: 36138085--36138157 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
36138075 GAGCTTGTTT
*
36138085 GAATGGTTGAATGAATGCATGTTTGGTTGTTGTTTGAG
1 GAATGGTTGAATGAATGCATGTTTGATTGTTGTTTGAG
36138123 GAATGGTTGAATGAATGCATGTTTGATTGTTGTTT
1 GAATGGTTGAATGAATGCATGTTTGATTGTTGTTT
36138158 AAGGTGTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.22, C:0.03, G:0.32, T:0.44
Consensus pattern (38 bp):
GAATGGTTGAATGAATGCATGTTTGATTGTTGTTTGAG
Found at i:36144589 original size:28 final size:29
Alignment explanation
Indices: 36144550--36144613 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
36144540 TAATAAACAT
*
36144550 TAAAAAATTATTTTAAAA-ATTAAAAAAA
1 TAAAAAAATATTTTAAAAGATTAAAAAAA
* *
36144578 TAAAAAAATATTTTAAAAGTATTTAAAAAT
1 TAAAAAAATATTTTAAAAG-ATTAAAAAAA
36144608 TAAAAA
1 TAAAAA
36144614 TAAAAATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 17 0.55
30 14 0.45
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (29 bp):
TAAAAAAATATTTTAAAAGATTAAAAAAA
Found at i:36147368 original size:42 final size:42
Alignment explanation
Indices: 36147309--36147390 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
36147299 ATGAGTTTCT
* * *
36147309 GTTTAACCCTAATGGGTTTCAGTTTAGCTCTTTTGAGCTTTA
1 GTTTAACCCTAACGGGTTTCAGTTCAGCTCTTATGAGCTTTA
*
36147351 GTTTAACTCCT-ACGGGTTTCCGTTCAGCTCTTATGAGCTT
1 GTTTAAC-CCTAACGGGTTTCAGTTCAGCTCTTATGAGCTT
36147391 CCGTTCAACC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 32 0.91
43 3 0.09
ACGTcount: A:0.17, C:0.21, G:0.20, T:0.43
Consensus pattern (42 bp):
GTTTAACCCTAACGGGTTTCAGTTCAGCTCTTATGAGCTTTA
Found at i:36147413 original size:21 final size:21
Alignment explanation
Indices: 36147364--36147416 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
36147354 TAACTCCTAC
* *
36147364 GGGTTTCCGTTCAGCTCTTAT
1 GGGTTTCCGTTCAACCCTTAT
* * *
36147385 GAGCTTCCGTTCAACCCTTGT
1 GGGTTTCCGTTCAACCCTTAT
36147406 GGGTTTCCGTT
1 GGGTTTCCGTT
36147417 TAGCATTTCT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.09, C:0.26, G:0.25, T:0.40
Consensus pattern (21 bp):
GGGTTTCCGTTCAACCCTTAT
Found at i:36148740 original size:55 final size:55
Alignment explanation
Indices: 36148656--36148766 Score: 213
Period size: 55 Copynumber: 2.0 Consensus size: 55
36148646 AATCTACAAG
*
36148656 AAACAACAAACACACACAAGTAAGCTTACAGAAAGCTTAGTAAGTTCATAGGCTC
1 AAACAACAAAAACACACAAGTAAGCTTACAGAAAGCTTAGTAAGTTCATAGGCTC
36148711 AAACAACAAAAACACACAAGTAAGCTTACAGAAAGCTTAGTAAGTTCATAGGCTC
1 AAACAACAAAAACACACAAGTAAGCTTACAGAAAGCTTAGTAAGTTCATAGGCTC
36148766 A
1 A
36148767 TAATAAAATC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.47, C:0.21, G:0.14, T:0.18
Consensus pattern (55 bp):
AAACAACAAAAACACACAAGTAAGCTTACAGAAAGCTTAGTAAGTTCATAGGCTC
Found at i:36149085 original size:46 final size:45
Alignment explanation
Indices: 36149018--36149149 Score: 174
Period size: 46 Copynumber: 2.9 Consensus size: 45
36149008 TATAACTCAA
* * *
36149018 TATGGTTTTCTTCACTGAAATATCATACCTACTTTTCACAAATCAG
1 TATGGTTTTCTT-ACTGAAATACCATACCTACGTTCCACAAATCAG
*
36149064 TATGGTTTTCGTTACTGAAATACCATACCTACGTTCCACAACTCAG
1 TATGGTTTTC-TTACTGAAATACCATACCTACGTTCCACAAATCAG
* * *
36149110 AATGGTTTTCTTTACTGAATTACCATACCTACATTCCACA
1 TATGGTTTTC-TTACTGAAATACCATACCTACGTTCCACA
36149150 CTTTGCCATG
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
46 75 0.97
47 2 0.03
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.36
Consensus pattern (45 bp):
TATGGTTTTCTTACTGAAATACCATACCTACGTTCCACAAATCAG
Found at i:36155397 original size:46 final size:45
Alignment explanation
Indices: 36155330--36155461 Score: 165
Period size: 46 Copynumber: 2.9 Consensus size: 45
36155320 TATAACTCAA
* * * *
36155330 TATGGTTTTCTTCACTGAAATATCATACCTACTTTTCACAAATCAG
1 TATGGTTTTCTT-ACTAAAATACCATACCTACGTTCCACAAATCAG
*
36155376 TATGGTTTTCGTTACTAAAATACCATACCTACGTTCCACAACTCAG
1 TATGGTTTTC-TTACTAAAATACCATACCTACGTTCCACAAATCAG
* * *
36155422 TATGGTTTTCTTTACTGAATTGCCATACCTACGTTCCACA
1 TATGGTTTTC-TTACTAAAATACCATACCTACGTTCCACA
36155462 CTTTGCCATG
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
46 74 0.97
47 2 0.03
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37
Consensus pattern (45 bp):
TATGGTTTTCTTACTAAAATACCATACCTACGTTCCACAAATCAG
Found at i:36161436 original size:42 final size:42
Alignment explanation
Indices: 36161346--36161446 Score: 123
Period size: 42 Copynumber: 2.4 Consensus size: 42
36161336 TTTAACCCTA
* * * *
36161346 ATGGGTTTCAGTTCAGCTCTTTTGAGCTTCAGTTTATCCTCT
1 ATGGGTTTCCGTTTAGCTCTTATGAGCTTCAGTTAATCCTCT
* *
36161388 ACGGGTTTCCGTTTAGCTCTTATGAGCTTCCGTTCAATCCT-T
1 ATGGGTTTCCGTTTAGCTCTTATGAGCTTCAGTT-AATCCTCT
*
36161430 GTGGGTTTCCGTTTAGC
1 ATGGGTTTCCGTTTAGC
36161447 ACTTCTGTGC
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
42 45 0.90
43 5 0.10
ACGTcount: A:0.13, C:0.23, G:0.22, T:0.43
Consensus pattern (42 bp):
ATGGGTTTCCGTTTAGCTCTTATGAGCTTCAGTTAATCCTCT
Found at i:36166136 original size:66 final size:66
Alignment explanation
Indices: 36166053--36166188 Score: 254
Period size: 66 Copynumber: 2.1 Consensus size: 66
36166043 CATATCTCTG
* *
36166053 ATTCCGGAGATAGTTTTGGGGCATAAGAAAGCTTAGGTAAATATTTTTTTCATTTTATTGTAATT
1 ATTCCAGAGATAGTTTTGGGGAATAAGAAAGCTTAGGTAAATATTTTTTTCATTTTATTGTAATT
36166118 T
66 T
36166119 ATTCCAGAGATAGTTTTGGGGAATAAGAAAGCTTAGGTAAATATTTTTTTCATTTTATTGTAATT
1 ATTCCAGAGATAGTTTTGGGGAATAAGAAAGCTTAGGTAAATATTTTTTTCATTTTATTGTAATT
36166184 T
66 T
36166185 ATTC
1 ATTC
36166189 TAATCCCTTT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 68 1.00
ACGTcount: A:0.30, C:0.07, G:0.18, T:0.44
Consensus pattern (66 bp):
ATTCCAGAGATAGTTTTGGGGAATAAGAAAGCTTAGGTAAATATTTTTTTCATTTTATTGTAATT
T
Found at i:36166790 original size:14 final size:14
Alignment explanation
Indices: 36166771--36166797 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
36166761 TTTTCAGATC
36166771 TTATTATTTTATTA
1 TTATTATTTTATTA
36166785 TTATTATTTTATT
1 TTATTATTTTATT
36166798 CCGAATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTATTATTTTATTA
Found at i:36171432 original size:207 final size:207
Alignment explanation
Indices: 36171077--36171473 Score: 474
Period size: 207 Copynumber: 1.9 Consensus size: 207
36171067 TTTTGTCTGT
* *
36171077 AAACCTTGATTGTATAGTTGAGAGCTTTGCTCTTGCTAACAGTTGTGGAGGTTGCGGCTCTTCAC
1 AAACCTTGATTGTACAGCTGAGAGCTTTGCTCTTGCTAACAGTTGTGGAGGTTGCGGCTCTTCAC
* ** * * * * * ** *
36171142 TTGTGAACCTTAATTTTTCAGTTGAGAGCTTTGCTCTCGCTAACTATTTTGGGGGTTGCGGCTCT
66 CTACGAACCTTAATTTTACAGCTGAGAGCTTTACTCTCACTAACTATTTTGGAGGTCACGACTCT
* * *
36171207 TCGCATGTGAACCTTGATTTTACAGCTGAGAGCTTTGCTTTCA-CTAACTGTTTTGGAGGTCGCG
131 TCGCATGTGAACCTTGATTTTACAGCTGAGAGCTTTACTCT-AGCTAACTGTTTTGAAGGTCGCG
36171271 GCTCTTCGCCTAC
195 GCTCTTCGCCTAC
* * * * * * **
36171284 AAACCTTGATTTTACAGCTGGGAGCTTTTCTCTTGCTAATTA-TTTTGGAGGTTGTGGCTCTTTG
1 AAACCTTGATTGTACAGCTGAGAGCTTTGCTCTTGCTAA-CAGTTGTGGAGGTTGCGGCTCTTCA
* * * * *
36171348 CCTACGAACCTTGATTTTACAGCTGGGAGTTTTACTCTCACTAATTGTTTTGGAGGTCACGACTC
65 CCTACGAACCTTAATTTTACAGCTGAGAGCTTTACTCTCACTAACTATTTTGGAGGTCACGACTC
* * *
36171413 TTCGCCTGTGAACCTTGATTTTACAGTTGGGAGCTTTACTCTAGCTAACTGTTTTGAAGGT
130 TTCGCATGTGAACCTTGATTTTACAGCTGAGAGCTTTACTCTAGCTAACTGTTTTGAAGGT
36171474 TGTGGATTTT
Statistics
Matches: 156, Mismatches: 32, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
206 1 0.01
207 154 0.99
208 1 0.01
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.38
Consensus pattern (207 bp):
AAACCTTGATTGTACAGCTGAGAGCTTTGCTCTTGCTAACAGTTGTGGAGGTTGCGGCTCTTCAC
CTACGAACCTTAATTTTACAGCTGAGAGCTTTACTCTCACTAACTATTTTGGAGGTCACGACTCT
TCGCATGTGAACCTTGATTTTACAGCTGAGAGCTTTACTCTAGCTAACTGTTTTGAAGGTCGCGG
CTCTTCGCCTAC
Found at i:36171476 original size:138 final size:138
Alignment explanation
Indices: 36171078--36171505 Score: 462
Period size: 138 Copynumber: 3.1 Consensus size: 138
36171068 TTTGTCTGTA
* * * * ** * * ** * * *
36171078 AACCTTGATTGTATAGTTGAGAGCTTTGCTCTTGCTAACAGTTGTGGAGGTTGCGGCTCTTCACT
1 AACCTTGATTTTACAGCTGAGAGCTTTACTCTCACTAACTGTTTTGGAGGTCACGACTCTTCGCC
* * * * * * *
36171143 TGTGAACCTTAATTTTTCAGTTGAGAGCTTTGCTCTCGCTAACTATTTTGGGGGTTGCGGCTCTT
66 TGTGAACCTTGATTTTACAGTTGGGAGCTTTACTCTAGCTAACTATTTTGGAGGTTGTGGCTCTT
* * *
36171208 CGCATGTG
131 TGCCTGCG
* * * *
36171216 AACCTTGATTTTACAGCTGAGAGCTTTGCTTTCACTAACTGTTTTGGAGGTCGCGGCTCTTCGCC
1 AACCTTGATTTTACAGCTGAGAGCTTTACTCTCACTAACTGTTTTGGAGGTCACGACTCTTCGCC
*** * * * *
36171281 TACAAACCTTGATTTTACAGCTGGGAGCTTTTCTCTTGCTAATTATTTTGGAGGTTGTGGCTCTT
66 TGTGAACCTTGATTTTACAGTTGGGAGCTTTACTCTAGCTAACTATTTTGGAGGTTGTGGCTCTT
*
36171346 TGCCTACG
131 TGCCTGCG
* * *
36171354 AACCTTGATTTTACAGCTGGGAGTTTTACTCTCACTAATTGTTTTGGAGGTCACGACTCTTCGCC
1 AACCTTGATTTTACAGCTGAGAGCTTTACTCTCACTAACTGTTTTGGAGGTCACGACTCTTCGCC
* * * *
36171419 TGTGAACCTTGATTTTACAGTTGGGAGCTTTACTCTAGCTAACTGTTTTGAAGGTTGTGGATTTT
66 TGTGAACCTTGATTTTACAGTTGGGAGCTTTACTCTAGCTAACTATTTTGGAGGTTGTGGCTCTT
36171484 TGCCTGCG
131 TGCCTGCG
36171492 AAGCC-TGATTTTAC
1 AA-CCTTGATTTTAC
36171506 CGGCTATAGT
Statistics
Matches: 243, Mismatches: 46, Indels: 2
0.84 0.16 0.01
Matches are distributed among these distances:
138 241 0.99
139 2 0.01
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.39
Consensus pattern (138 bp):
AACCTTGATTTTACAGCTGAGAGCTTTACTCTCACTAACTGTTTTGGAGGTCACGACTCTTCGCC
TGTGAACCTTGATTTTACAGTTGGGAGCTTTACTCTAGCTAACTATTTTGGAGGTTGTGGCTCTT
TGCCTGCG
Found at i:36171489 original size:69 final size:69
Alignment explanation
Indices: 36171073--36171475 Score: 405
Period size: 69 Copynumber: 5.8 Consensus size: 69
36171063 AAATTTTTGT
* * * * * * *
36171073 CTGTAAACCTTGATTGTATAGTTGAGAGCTTTGCTCTTGCTAACAGTTGTGGAGGTTGCGGCTCT
1 CTGTGAACCTTGATTTTACAGCTGAGAGCTTTGCTCTAGCTAACTGTTTTGGAGGTTGCGGCTCT
*
36171138 TCAC
66 TCGC
* * * * * * *
36171142 TTGTGAACCTTAATTTTTCAGTTGAGAGCTTTGCTCTCGCTAACTATTTTGGGGGTTGCGGCTCT
1 CTGTGAACCTTGATTTTACAGCTGAGAGCTTTGCTCTAGCTAACTGTTTTGGAGGTTGCGGCTCT
36171207 TCGC
66 TCGC
* * *
36171211 ATGTGAACCTTGATTTTACAGCTGAGAGCTTTGCTTTCA-CTAACTGTTTTGGAGGTCGCGGCTC
1 CTGTGAACCTTGATTTTACAGCTGAGAGCTTTGCTCT-AGCTAACTGTTTTGGAGGTTGCGGCTC
36171275 TTCGC
65 TTCGC
*** * * * * * *
36171280 CTACAAACCTTGATTTTACAGCTGGGAGCTTTTCTCTTGCTAATTATTTTGGAGGTTGTGGCTCT
1 CTGTGAACCTTGATTTTACAGCTGAGAGCTTTGCTCTAGCTAACTGTTTTGGAGGTTGCGGCTCT
*
36171345 TTGC
66 TCGC
** * * * * ** *
36171349 CTACGAACCTTGATTTTACAGCTGGGAGTTTTACTCTCA-CTAATTGTTTTGGAGGTCACGACTC
1 CTGTGAACCTTGATTTTACAGCTGAGAGCTTTGCTCT-AGCTAACTGTTTTGGAGGTTGCGGCTC
36171413 TTCGC
65 TTCGC
* * * *
36171418 CTGTGAACCTTGATTTTACAGTTGGGAGCTTTACTCTAGCTAACTGTTTTGAAGGTTG
1 CTGTGAACCTTGATTTTACAGCTGAGAGCTTTGCTCTAGCTAACTGTTTTGGAGGTTG
36171476 TGGATTTTTG
Statistics
Matches: 278, Mismatches: 52, Indels: 8
0.82 0.15 0.02
Matches are distributed among these distances:
68 1 0.00
69 277 1.00
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.38
Consensus pattern (69 bp):
CTGTGAACCTTGATTTTACAGCTGAGAGCTTTGCTCTAGCTAACTGTTTTGGAGGTTGCGGCTCT
TCGC
Found at i:36176419 original size:39 final size:39
Alignment explanation
Indices: 36176357--36176431 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
36176347 TGGACATAGC
* *
36176357 TTGCGACCTCGTTCCTGTGAGGCTTACGCGAACTCTTCT
1 TTGCGACCTCATTCCTGTAAGGCTTACGCGAACTCTTCT
* *
36176396 TTGCGACCTCATTCCT-TCAAGGCTTACTCGAGCTCT
1 TTGCGACCTCATTCCTGT-AAGGCTTACGCGAACTCT
36176432 CCTTGCGGGC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.03
39 30 0.97
ACGTcount: A:0.15, C:0.32, G:0.20, T:0.33
Consensus pattern (39 bp):
TTGCGACCTCATTCCTGTAAGGCTTACGCGAACTCTTCT
Found at i:36178557 original size:24 final size:23
Alignment explanation
Indices: 36178530--36178592 Score: 56
Period size: 24 Copynumber: 2.6 Consensus size: 23
36178520 TTTCTAAAAG
36178530 ATTTAGTTTTTATTAGCATAATAT
1 ATTTAGTTTTTATTAGCATAA-AT
* *
36178554 ATTTA-TAATTTATTAGTATAAAT
1 ATTTAGT-TTTTATTAGCATAAAT
*
36178577 ATCTTTGTTATTTATT
1 AT-TTAGTT-TTTATT
36178593 TCCATATTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
23 5 0.16
24 19 0.61
25 7 0.23
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.57
Consensus pattern (23 bp):
ATTTAGTTTTTATTAGCATAAAT
Found at i:36183377 original size:37 final size:39
Alignment explanation
Indices: 36183336--36183410 Score: 91
Period size: 38 Copynumber: 2.0 Consensus size: 39
36183326 TGAATATAAT
*
36183336 AAATATATATATA-TTTTTATATTTAAAA-ATATTTTTA
1 AAATATATATATATTTTTTATATTTAAAATACATTTTTA
* * * *
36183373 AAATATTTTTTTATTTTTTATTTTTAAAATACATTTTT
1 AAATATATATATATTTTTTATATTTAAAATACATTTTT
36183411 TTTATTTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
37 10 0.32
38 14 0.45
39 7 0.23
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (39 bp):
AAATATATATATATTTTTTATATTTAAAATACATTTTTA
Found at i:36183401 original size:26 final size:28
Alignment explanation
Indices: 36183365--36183419 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 28
36183355 TATTTAAAAA
36183365 TATTTTTAAAAT-A-TTTTTTTATTTTT
1 TATTTTTAAAATAATTTTTTTTATTTTT
36183391 TATTTTTAAAATACATTTTTTTTATTTTT
1 TATTTTTAAAATA-ATTTTTTTTATTTTT
36183420 AAAATTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 12 0.46
28 1 0.04
29 13 0.50
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (28 bp):
TATTTTTAAAATAATTTTTTTTATTTTT
Found at i:36183431 original size:22 final size:22
Alignment explanation
Indices: 36183365--36183431 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 22
36183355 TATTTAAAAA
36183365 TATTTTTAAAATATTTTTTTATTTTT
1 TATTTTT-AAA-A-TTTTTT-TTTTT
***
36183391 TATTTTTAAAATACATTTTTTT
1 TATTTTTAAAATTTTTTTTTTT
36183413 TATTTTTAAAATTTTTTTT
1 TATTTTTAAAATTTTTTTT
36183432 GGTGTTTATT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
22 21 0.60
23 3 0.09
24 1 0.03
25 3 0.09
26 7 0.20
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.70
Consensus pattern (22 bp):
TATTTTTAAAATTTTTTTTTTT
Found at i:36186425 original size:15 final size:15
Alignment explanation
Indices: 36186391--36186437 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
36186381 ATCAAAACAG
* *
36186391 TAAAACAAATAATAA
1 TAAAACTAATGATAA
36186406 T-AAACTAATGATAA
1 TAAAACTAATGATAA
36186420 TAAAACTAA-GAATAA
1 TAAAACTAATG-ATAA
36186435 TAA
1 TAA
36186438 GAGAAATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 13 0.46
15 15 0.54
ACGTcount: A:0.66, C:0.06, G:0.04, T:0.23
Consensus pattern (15 bp):
TAAAACTAATGATAA
Found at i:36186465 original size:19 final size:18
Alignment explanation
Indices: 36186441--36186486 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
36186431 ATAATAAGAG
*
36186441 AAATAAAACAACAAATAAT
1 AAATAAAA-AACAAAAAAT
*
36186460 AAATAAATAAAGAAAAAAT
1 AAATAAA-AAACAAAAAAT
36186479 AAATAAAA
1 AAATAAAA
36186487 GTAAGGGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 1 0.04
19 22 0.92
20 1 0.04
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.15
Consensus pattern (18 bp):
AAATAAAAAACAAAAAAT
Done.