Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 15077257
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 47 of 62
Found at i:10462297 original size:21 final size:22
Alignment explanation
Indices: 10462268--10462315 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
10462258 CACATCAGTA
* *
10462268 AATACTTATTTTTTA-TTAATT
1 AATAATTATTTTTTACTAAATT
10462289 AATAATTATTTTTTACTAAATT
1 AATAATTATTTTTTACTAAATT
10462311 AATAA
1 AATAA
10462316 CAAATAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (22 bp):
AATAATTATTTTTTACTAAATT
Found at i:10462720 original size:24 final size:25
Alignment explanation
Indices: 10462688--10462747 Score: 72
Period size: 24 Copynumber: 2.4 Consensus size: 25
10462678 TCTAATTGCA
*
10462688 AATATTTTTTATAATTTAATCT-TTT
1 AATATTTTTTACAATTTAAT-TATTT
10462713 AATA-TTTTTACAATTTAATTATTT
1 AATATTTTTTACAATTTAATTATTT
10462737 AAT-TTTATTTA
1 AATATTT-TTTA
10462748 ATATAGTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
23 1 0.03
24 22 0.71
25 8 0.26
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (25 bp):
AATATTTTTTACAATTTAATTATTT
Found at i:10471799 original size:8 final size:8
Alignment explanation
Indices: 10471786--10471839 Score: 54
Period size: 8 Copynumber: 6.5 Consensus size: 8
10471776 TGAACCCTGA
10471786 AAAAAAAG
1 AAAAAAAG
*
10471794 AAAAAAAT
1 AAAAAAAG
10471802 AAAATAAATG
1 AAAA-AAA-G
**
10471812 AATGAAAG
1 AAAAAAAG
*
10471820 AAAGAAAG
1 AAAAAAAG
10471828 AAAAAAAG
1 AAAAAAAG
10471836 AAAA
1 AAAA
10471840 GGAAATAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
8 30 0.79
9 6 0.16
10 2 0.05
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (8 bp):
AAAAAAAG
Found at i:10472185 original size:35 final size:34
Alignment explanation
Indices: 10472121--10472282 Score: 153
Period size: 35 Copynumber: 4.4 Consensus size: 34
10472111 ATTAAAATCA
* * *
10472121 TATATTATATATATTTTATAAAAATGTTTTTAGAAC
1 TATATTATATATA-TTT-CAAAAATGTTTTCAAAAC
* *
10472157 TATTTTATATATACTTTCAAAAACGTTTTCAAAAC
1 TATATTATATATA-TTTCAAAAATGTTTTCAAAAC
10472192 TATATTATATATATTTCAAAAATGTTTTCAAAAAAAC
1 TATATTATATATATTTCAAAAATGTTTTC---AAAAC
**
10472229 TATATATTATATATATGTTTTTAAAATGTTTTCAAAAC
1 --TATATTATATATA--TTTCAAAAATGTTTTCAAAAC
10472267 TATATATTATATATAT
1 --TATATTATATATAT
10472283 ATATATTTTT
Statistics
Matches: 109, Mismatches: 10, Indels: 14
0.82 0.08 0.11
Matches are distributed among these distances:
34 15 0.14
35 26 0.24
36 16 0.15
37 5 0.05
38 20 0.18
39 13 0.12
41 14 0.13
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.47
Consensus pattern (34 bp):
TATATTATATATATTTCAAAAATGTTTTCAAAAC
Found at i:10472275 original size:38 final size:37
Alignment explanation
Indices: 10472120--10472482 Score: 391
Period size: 38 Copynumber: 9.6 Consensus size: 37
10472110 AATTAAAATC
* * *
10472120 ATATATTATATATATTTTATAAAAATGTTTTTAGAACT
1 ATATATTATATATATTTT-CAAAAATGTTTTCAAAACT
* *
10472158 AT-T-TTATATATACTTTCAAAAACGTTTTCAAAAC-
1 ATATATTATATATATTTTCAAAAATGTTTTCAAAACT
10472192 -TATATTATATATA-TTTCAAAAATGTTTTCAAAAAAACT
1 ATATATTATATATATTTTCAAAAATGTTTTC---AAAACT
**
10472230 ATATATTATATATATGTTTTTAAAATGTTTTCAAAACTATAT
1 ATATATTATATATAT-TTTCAAAAATGTTTTCAAAAC----T
* *
10472272 ATTATATATATATATATTTTTTAAAAAAGTTTTCAAAACT
1 A-TATAT-TATATATA-TTTTCAAAAATGTTTTCAAAACT
* *
10472312 ATATA--ATATGTATTTT-AAAAATATTTTCAAAACT
1 ATATATTATATATATTTTCAAAAATGTTTTCAAAACT
*
10472346 ATATATTATATATATTTTCAAAAATGTTTTCAAAAACA
1 ATATATTATATATATTTTCAAAAATGTTTTC-AAAACT
* *
10472384 AGATAATATATATATTTTCAAAAATGTTTTCAAAAACT
1 ATATATTATATATATTTTCAAAAATGTTTTC-AAAACT
* *
10472422 ATATAATATATATATATTCAAAAATGTTTTCAAAACT
1 ATATATTATATATATTTTCAAAAATGTTTTCAAAACT
*
10472459 ATATAATATATATATTTTCAAAAA
1 ATATATTATATATATTTTCAAAAA
10472483 CCGATTTTTA
Statistics
Matches: 283, Mismatches: 22, Indels: 41
0.82 0.06 0.12
Matches are distributed among these distances:
33 1 0.00
34 37 0.13
35 27 0.10
36 28 0.10
37 46 0.16
38 76 0.27
39 17 0.06
40 2 0.01
41 14 0.05
42 2 0.01
43 5 0.02
44 27 0.10
45 1 0.00
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (37 bp):
ATATATTATATATATTTTCAAAAATGTTTTCAAAACT
Found at i:10472304 original size:44 final size:44
Alignment explanation
Indices: 10472192--10472316 Score: 154
Period size: 44 Copynumber: 2.9 Consensus size: 44
10472182 TTTTCAAAAC
* *
10472192 TATAT-TATATATATTTCAAAAATGTTTTCAAAA--A-A-ACTA
1 TATATATATATATTTTTTAAAAATGTTTTCAAAACTATATACTA
*
10472231 TATATTATATATATGTTTTT-AAAATGTTTTCAAAACTATATATTA
1 TATA-TATATATAT-TTTTTAAAAATGTTTTCAAAACTATATACTA
*
10472276 TATATATATATATTTTTTAAAAAAGTTTTCAAAACTATATA
1 TATATATATATATTTTTTAAAAATGTTTTCAAAACTATATA
10472317 ATATGTATTT
Statistics
Matches: 74, Mismatches: 4, Indels: 11
0.83 0.04 0.12
Matches are distributed among these distances:
39 4 0.05
40 1 0.01
41 22 0.30
42 3 0.04
43 6 0.08
44 31 0.42
45 7 0.09
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (44 bp):
TATATATATATATTTTTTAAAAATGTTTTCAAAACTATATACTA
Found at i:10472338 original size:11 final size:12
Alignment explanation
Indices: 10472322--10472381 Score: 52
Period size: 12 Copynumber: 5.0 Consensus size: 12
10472312 ATATAATATG
10472322 TATTTT-AAAAA
1 TATTTTCAAAAA
10472333 TATTTTCAAAACTA
1 TATTTTCAAAA--A
* * *
10472347 TATATT-ATATA
1 TATTTTCAAAAA
10472358 TATTTTCAAAAA
1 TATTTTCAAAAA
*
10472370 TGTTTTCAAAAA
1 TATTTTCAAAAA
10472382 CAAGATAATA
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
11 12 0.32
12 18 0.47
13 2 0.05
14 6 0.16
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.45
Consensus pattern (12 bp):
TATTTTCAAAAA
Found at i:10472394 original size:154 final size:151
Alignment explanation
Indices: 10472120--10472470 Score: 434
Period size: 154 Copynumber: 2.3 Consensus size: 151
10472110 AATTAAAATC
* * * * * *
10472120 ATATAT-TATATATATTTTATAAAAATGTTTTTAGAACTATTTTATATATACTTTCAAAAACGTT
1 ATATATATATATATATTTTTTAAAAATGTTTTCAAAACTATATAATATATACTTTCAAAAACATT
*
10472184 TTCAAAACTATATTATATATATTTCAAAAATGTTTTCAAAAAAACTATATATTATATATATGTTT
66 TTCAAAACTATATTATATATATTTCAAAAATGTTTTCAAAAAAACGATATATTATATATAT-TTT
**
10472249 TTAAAATGTTTTC-AAAACTATAT
130 CAAAAATGTTTTCAAAAAC--TAT
* * * *
10472272 ATTATATATATATATATTTTTTAAAAAAGTTTTCAAAACTATATAATATGTA-TTTTAAAAATAT
1 A-TATATATATATATATTTTTTAAAAATGTTTTCAAAACTATATAATATATACTTTCAAAAACAT
10472336 TTTCAAAACTATATATTATATATATTTTCAAAAATGTTTTCAAAAACAA-GATA-A-TATATATA
65 TTTCAAAAC--TATATTATATATA-TTTCAAAAATGTTTTCAAAAA-AACGATATATTATATATA
10472398 TTTTCAAAAATGTTTTCAAAAACTAT
126 TTTTCAAAAATGTTTTCAAAAACTAT
*
10472424 ATA-ATATATATATA---TTCAAAAATGTTTTCAAAACTATATAATATATA
1 ATATATATATATATATTTTTTAAAAATGTTTTCAAAACTATATAATATATA
10472471 TATTTTCAAA
Statistics
Matches: 176, Mismatches: 16, Indels: 19
0.83 0.08 0.09
Matches are distributed among these distances:
147 30 0.17
150 11 0.06
151 2 0.01
152 5 0.03
153 37 0.21
154 51 0.29
155 14 0.08
156 24 0.14
157 2 0.01
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (151 bp):
ATATATATATATATATTTTTTAAAAATGTTTTCAAAACTATATAATATATACTTTCAAAAACATT
TTCAAAACTATATTATATATATTTCAAAAATGTTTTCAAAAAAACGATATATTATATATATTTTC
AAAAATGTTTTCAAAAACTAT
Found at i:10472434 original size:76 final size:74
Alignment explanation
Indices: 10472274--10472482 Score: 282
Period size: 75 Copynumber: 2.8 Consensus size: 74
10472264 AACTATATAT
* * * * *
10472274 TATAT-ATATATATATTTTTTAAAAAAGTTTTCAAAACTATAT-A-ATATGTATTTT-AAAAATA
1 TATATAATATATATA-TTTTCAAAAATGTTTTCAAAACAATATAATATATATATTTTCAAAAATG
10472335 TTTTCAAAAC
65 TTTTCAAAAC
* *
10472345 TATATATTATATATATTTTCAAAAATGTTTTCAAAAACAAGATAATATATATATTTTCAAAAATG
1 TATATAATATATATATTTTCAAAAATGTTTTC-AAAACAATATAATATATATATTTTCAAAAATG
10472410 TTTTCAAAAAC
65 TTTTC-AAAAC
* *
10472421 TATATAATATATATATATTCAAAAATGTTTTCAAAACTATATAATATATATATTTTCAAAAA
1 TATATAATATATATATTTTCAAAAATGTTTTCAAAACAATATAATATATATATTTTCAAAAA
10472483 CCGATTTTTA
Statistics
Matches: 121, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
71 20 0.17
72 16 0.13
73 1 0.01
74 10 0.08
75 39 0.32
76 35 0.29
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.43
Consensus pattern (74 bp):
TATATAATATATATATTTTCAAAAATGTTTTCAAAACAATATAATATATATATTTTCAAAAATGT
TTTCAAAAC
Found at i:10472516 original size:38 final size:38
Alignment explanation
Indices: 10472453--10472547 Score: 120
Period size: 38 Copynumber: 2.4 Consensus size: 38
10472443 AAATGTTTTC
**
10472453 AAAACTATATAATATATATATTTTCAAAAACCGATTTT-TA
1 AAAACTATAT-AT-TATATGCTTTCAAAAACC-ATTTTCTA
* *
10472493 AAAAGTATGTATTATATGCTTTCAAAAACCATTTTCTA
1 AAAACTATATATTATATGCTTTCAAAAACCATTTTCTA
10472531 AAAACTATATATTATAT
1 AAAACTATATATTATAT
10472548 TTCAAAAATA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
37 5 0.10
38 33 0.69
39 2 0.04
40 8 0.17
ACGTcount: A:0.45, C:0.11, G:0.04, T:0.40
Consensus pattern (38 bp):
AAAACTATATATTATATGCTTTCAAAAACCATTTTCTA
Found at i:10482192 original size:19 final size:20
Alignment explanation
Indices: 10482168--10482214 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
10482158 TAGTCCAGTT
10482168 TCGATACTCAAGGGT-G-GTA
1 TCGATACT-AAGGGTAGAGTA
10482187 TCGATACTAAGGGTAGAGTA
1 TCGATACTAAGGGTAGAGTA
*
10482207 TTGATACT
1 TCGATACT
10482215 GATGCATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 6 0.24
19 9 0.36
20 10 0.40
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.30
Consensus pattern (20 bp):
TCGATACTAAGGGTAGAGTA
Found at i:10482304 original size:20 final size:20
Alignment explanation
Indices: 10482279--10482318 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
10482269 TCGATACCCA
*
10482279 CCCATATGAGTATCCATACT
1 CCCATAAGAGTATCCATACT
* *
10482299 CCCATAAGGGTATCGATACT
1 CCCATAAGAGTATCCATACT
10482319 GAAGGTTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (20 bp):
CCCATAAGAGTATCCATACT
Found at i:10484460 original size:14 final size:14
Alignment explanation
Indices: 10484441--10484481 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
10484431 TTTCGATTAT
10484441 GTTCGTTTATGTTC
1 GTTCGTTTATGTTC
10484455 GTTCGTTTATGTTC
1 GTTCGTTTATGTTC
* *
10484469 TTTCATTTATGTT
1 GTTCGTTTATGTT
10484482 TAACCCAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.10, C:0.12, G:0.17, T:0.61
Consensus pattern (14 bp):
GTTCGTTTATGTTC
Found at i:10485420 original size:10 final size:10
Alignment explanation
Indices: 10485402--10485476 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
10485392 GGGTCTCCAA
*
10485402 CGTTGATGTT
1 CGTTTATGTT
10485412 CGTTTATGTT
1 CGTTTATGTT
10485422 CGTGTTCAT-TT
1 CGT-TT-ATGTT
* *
10485433 ATGTTCATGTT
1 -CGTTTATGTT
10485444 CGTTTATGTT
1 CGTTTATGTT
10485454 CG----TGTT
1 CGTTTATGTT
10485460 CGTTTATGTT
1 CGTTTATGTT
10485470 CGTTTAT
1 CGTTTAT
10485477 TTATTAAATG
Statistics
Matches: 52, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
6 6 0.12
10 35 0.67
11 7 0.13
12 4 0.08
ACGTcount: A:0.11, C:0.12, G:0.21, T:0.56
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:10485433 original size:16 final size:16
Alignment explanation
Indices: 10485408--10485472 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
10485398 CCAACGTTGA
10485408 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
* *
10485424 TGTTCATTTATGTTCA
1 TGTTCGTTTATGTTCG
10485440 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
10485456 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
10485472 T
1 T
10485473 TTATTTATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.09, C:0.12, G:0.22, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:10486605 original size:5 final size:5
Alignment explanation
Indices: 10486595--10486627 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
10486585 AATTAATTAT
*
10486595 TATCA TATCA TATCA TATCA TATTA -ATCA TATC
1 TATCA TATCA TATCA TATCA TATCA TATCA TATC
10486628 CTTTCATCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
4 3 0.12
5 22 0.88
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.42
Consensus pattern (5 bp):
TATCA
Found at i:10488362 original size:3 final size:3
Alignment explanation
Indices: 10488354--10488434 Score: 108
Period size: 3 Copynumber: 26.3 Consensus size: 3
10488344 TTTTCCATAG
* *
10488354 TAT TAT TAT TAT AAT AAT TAT TAT TAT TAT TAT TAT TAT TATT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT
* *
10488400 TAT TAT TAA TAT TAA TAT TAT ATAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT T
10488435 TAATAAATAA
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
3 64 0.91
4 6 0.09
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:10488447 original size:28 final size:27
Alignment explanation
Indices: 10488371--10488443 Score: 82
Period size: 28 Copynumber: 2.7 Consensus size: 27
10488361 ATTATAATAA
*
10488371 TTATTATTATT-AT-TATTATTATTAT
1 TTATTATTATTAATATAATATTATTAT
10488396 TTATTATTATTAATATTAATATTA-TAT
1 TTATTATTATTAATA-TAATATTATTAT
10488423 ATTATTATTATTTAATA-AATA
1 -TTATTATTA-TTAATATAATA
10488444 ATTACAAAAC
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
25 11 0.26
26 2 0.05
27 7 0.17
28 16 0.38
29 6 0.14
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (27 bp):
TTATTATTATTAATATAATATTATTAT
Found at i:10488886 original size:29 final size:30
Alignment explanation
Indices: 10488811--10488887 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 30
10488801 TGGATCCTGC
*
10488811 AAAACAAAAAAAAAGG-A-CGACGACAGAA
1 AAAACAAAAAAAGAGGAAGCGACGACAGAA
* *
10488839 AAAAAAAGAAAAAGA-GAAGGGA-GACAGAA
1 AAAACAA-AAAAAGAGGAAGCGACGACAGAA
10488868 AAAACAAAAAAAGAGGAAGC
1 AAAACAAAAAAAGAGGAAGC
10488888 AACTAACGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
28 14 0.35
29 24 0.60
30 2 0.05
ACGTcount: A:0.69, C:0.09, G:0.22, T:0.00
Consensus pattern (30 bp):
AAAACAAAAAAAGAGGAAGCGACGACAGAA
Found at i:10489822 original size:32 final size:33
Alignment explanation
Indices: 10489776--10489844 Score: 79
Period size: 32 Copynumber: 2.1 Consensus size: 33
10489766 TATCTTAGTC
*
10489776 TTATAAATATATTTATATCAAATATTAT-AAAAA
1 TTATAAATATATTTAAATC-AATATTATGAAAAA
* * *
10489809 TTAT-AATTTATTTAAATCATTTTTATGAAAAA
1 TTATAAATATATTTAAATCAATATTATGAAAAA
10489841 TTAT
1 TTAT
10489845 TATATTTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
31 6 0.19
32 21 0.68
33 4 0.13
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (33 bp):
TTATAAATATATTTAAATCAATATTATGAAAAA
Found at i:10497485 original size:114 final size:114
Alignment explanation
Indices: 10497282--10497494 Score: 399
Period size: 114 Copynumber: 1.9 Consensus size: 114
10497272 AAGTGTCATG
*
10497282 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
10497347 TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTAAAATATGAATT
66 TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTAAAATATGAATT
*
10497396 TGCTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
*
10497461 TGGTTTGGTATGAACCCCAGAACCAATCATTGGA
66 TGGTTTGGTATGAACCCCAAAACCAATCATTGGA
10497495 ATTGAAAGGT
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
114 96 1.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.32
Consensus pattern (114 bp):
TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTAAAATATGAATT
Found at i:10500956 original size:76 final size:76
Alignment explanation
Indices: 10500830--10501098 Score: 438
Period size: 76 Copynumber: 3.6 Consensus size: 76
10500820 ATTTCCCACG
10500830 TCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
1 TCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
10500895 CCTCAGGGTCA
66 CCTCAGGGTCA
* * *
10500906 TCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTTAAAG
1 TCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
*
10500971 CCTTAGGGTCA
66 CCTCAGGGTCA
10500982 TCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA-
1 TCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
10501046 CCTTC-GGGTCA
66 CC-TCAGGGTCA
* * *
10501057 TCTGTAAGCCCTTCAGTGCATGATGTTTTC--AAAGCCTTCGGG
1 TCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGG
10501099 TCATCCGTAA
Statistics
Matches: 181, Mismatches: 11, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
73 12 0.07
75 35 0.19
76 134 0.74
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (76 bp):
TCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
CCTCAGGGTCA
Found at i:10501081 original size:44 final size:45
Alignment explanation
Indices: 10501033--10501134 Score: 170
Period size: 45 Copynumber: 2.3 Consensus size: 45
10501023 GGGAGCTTTT
* *
10501033 TGATGTTTTCAAA-CCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGCCCTGCAGTGCA
10501077 TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGCCCTGCAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGCCCTGCAGTGCA
*
10501122 GGATGTTTTCAAA
1 TGATGTTTTCAAA
10501135 AAGCCTTCAA
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 13 0.24
45 41 0.76
ACGTcount: A:0.22, C:0.24, G:0.23, T:0.32
Consensus pattern (45 bp):
TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGCCCTGCAGTGCA
Found at i:10501109 original size:120 final size:121
Alignment explanation
Indices: 10500957--10501222 Score: 390
Period size: 120 Copynumber: 2.2 Consensus size: 121
10500947 GGGAGCTTTT
* * * * *
10500957 TGATGTTTTTAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTT
1 TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGCCCTACAGTGCAGGATGTTTCCAAAAAGCCTT
** * *
10501022 CGGGAGCTTTTTGAT-GTTTTCAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
66 CAAGAGCTTTTTGATAGTTTTAAAACCTTCAGGTCATCTGTAAGCCCTTCAGTGCA
* *
10501077 TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGCCCTGCAGTGCAGGATGTTTTCAAAAAGCCTT
1 TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGCCCTACAGTGCAGGATGTTTCCAAAAAGCCTT
*
10501142 CAAGAGCTTTTTGATATTTTTAAAACCTTCAGGTCATCTGTAAGCCCTTCAGTGCA
66 CAAGAGCTTTTTGATAGTTTTAAAACCTTCAGGTCATCTGTAAGCCCTTCAGTGCA
10501198 TGATGTTTTCCAAAAAGCCTTCGGG
1 TGATGTTTT-C--AAAGCCTTCGGG
10501223 AGCTTTTTGA
Statistics
Matches: 130, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
120 71 0.55
121 46 0.35
122 1 0.01
124 12 0.09
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (121 bp):
TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGCCCTACAGTGCAGGATGTTTCCAAAAAGCCTT
CAAGAGCTTTTTGATAGTTTTAAAACCTTCAGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:10501185 original size:76 final size:77
Alignment explanation
Indices: 10501077--10501660 Score: 882
Period size: 76 Copynumber: 7.7 Consensus size: 77
10501067 CTTCAGTGCA
* * * * *
10501077 TGATGTTTTCAAAGCCTTC-GGGTCATCCGTAAGCCCTGCAGTGCAGGATGTTTTCAAAAAGCCT
1 TGATGTTTTCAAAGCCTTCAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCT
**
10501141 TCAAGAGCTTTT
66 TCGGGAGCTTTT
* * * * *
10501153 TGATATTTTTAAAACCTTCA-GGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCCAAAAAGCC
1 TGATGTTTTCAAAGCCTTCAGGGTCATCTGTAAGTCCTACAGTGCATGATG-TTTCCAAAAAGCC
10501217 TTCGGGAGCTTTT
65 TTCGGGAGCTTTT
*
10501230 TGATGTTTT-AAAGCCTTC-GGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCT
1 TGATGTTTTCAAAGCCTTCAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCT
10501293 TCGGGAGCTTTT
66 TCGGGAGCTTTT
*
10501305 TGATGTTTTCAAAGCC-TCAGGGTCGTCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCT
1 TGATGTTTTCAAAGCCTTCAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCT
10501369 TCGGGAGCTTTT
66 TCGGGAGCTTTT
* *
10501381 TGATGTTCTCAAAGCC-TCAGGGTCGTCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCT
1 TGATGTTTTCAAAGCCTTCAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCT
10501445 TCGGGAGCTTTT
66 TCGGGAGCTTTT
*
10501457 TGATGTTTTCAAAGCC-TCAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCT
1 TGATGTTTTCAAAGCCTTCAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCT
*
10501521 TTGGGAGCTTTT
66 TCGGGAGCTTTT
* *
10501533 TGATGTTTTTAAAGCCTT-AGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAATCCT
1 TGATGTTTTCAAAGCCTTCAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCT
10501597 TCGGGAGCTTTT
66 TCGGGAGCTTTT
* * *
10501609 TGATGTTTTCAAA-CCTTC-GAGTCATCTGTAAGCCCTTCAGTGCATGATGTTT
1 TGATGTTTTCAAAGCCTTCAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTT
10501661 TCAACATTTC
Statistics
Matches: 473, Mismatches: 28, Indels: 15
0.92 0.05 0.03
Matches are distributed among these distances:
75 72 0.15
76 369 0.78
77 32 0.07
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.34
Consensus pattern (77 bp):
TGATGTTTTCAAAGCCTTCAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCT
TCGGGAGCTTTT
Found at i:10501800 original size:3 final size:3
Alignment explanation
Indices: 10501792--10501909 Score: 164
Period size: 3 Copynumber: 38.7 Consensus size: 3
10501782 TCATTTAAAT
** *
10501792 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TTA GTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
10501840 TTA TTA TTA TAA TTA TTA TTA TTA TTA TTA TTTA TTA TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
*
10501886 TTA ATA TTA TATA TTA TTA TTA TT
1 TTA TTA TTA T-TA TTA TTA TTA TT
10501910 TAATAAATAA
Statistics
Matches: 101, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
3 95 0.94
4 6 0.06
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:10503631 original size:139 final size:138
Alignment explanation
Indices: 10503349--10503627 Score: 298
Period size: 139 Copynumber: 2.0 Consensus size: 138
10503339 TTTTAATATT
**
10503349 TATTTATTAATATCGAAGAAAAGAACTGTCTTAAAGCACCTAGAAGTTCTTTTCTGATATTCTTA
1 TATTTATTAATATCGAAGAAAAGAACTGTCTTAAAGCACCTAGAAGCCCTTTTCTGATATTCTTA
* * * * * ** *
10503414 AATAAATAAATATCTTGTTTTTTTATAAATTATATATTAATTATTTTTTAGAAAAAAATGTTTTT
66 AATAAATAAATATCTTATATATTAATAAATTATATATTAA-TATTATTTAGAAAAAAATGAATTA
* * *
10503479 TTAGTTATT
130 TGAATTATA
*
10503488 TATTTATTAATATCGAAGAAAAGAGCTGTCTTAAAGCACCTAGAAGCCCTTTTCTGATATT-TCT
1 TATTTATTAATATCGAAGAAAAGAACTGTCTTAAAGCACCTAGAAGCCCTTTTCTGATATTCT-T
* * * * *
10503552 AAATAAATAAATATTTTATACATATTAATATATTTTCT-TTAA-ATTATTT-GAAATAACAT-AA
65 AAATAAATAAATATCTTAT--ATATTAATAAATTATATATTAATATTATTTAGAAA-AAAATGAA
*
10503613 TTATGAATTAAA
127 TTATGAATTATA
10503625 TAT
1 TAT
10503628 ATTTTGAATT
Statistics
Matches: 116, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
137 14 0.12
138 11 0.09
139 76 0.66
140 4 0.03
141 11 0.09
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.44
Consensus pattern (138 bp):
TATTTATTAATATCGAAGAAAAGAACTGTCTTAAAGCACCTAGAAGCCCTTTTCTGATATTCTTA
AATAAATAAATATCTTATATATTAATAAATTATATATTAATATTATTTAGAAAAAAATGAATTAT
GAATTATA
Found at i:10508071 original size:11 final size:11
Alignment explanation
Indices: 10508051--10508091 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
10508041 TGCTGGAAAC
*
10508051 AAGATAAAAAT
1 AAGATAAAAAA
* *
10508062 AAGATTAAAAC
1 AAGATAAAAAA
10508073 AAGATAAAAAA
1 AAGATAAAAAA
10508084 AAGATAAA
1 AAGATAAA
10508092 TGAATTGCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.73, C:0.02, G:0.10, T:0.15
Consensus pattern (11 bp):
AAGATAAAAAA
Found at i:10508075 original size:22 final size:22
Alignment explanation
Indices: 10508047--10508088 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
10508037 TTGGTGCTGG
*
10508047 AAACAAGATAAAAATAAGATTA
1 AAACAAGATAAAAAAAAGATTA
10508069 AAACAAGATAAAAAAAAGAT
1 AAACAAGATAAAAAAAAGAT
10508089 AAATGAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.71, C:0.05, G:0.10, T:0.14
Consensus pattern (22 bp):
AAACAAGATAAAAAAAAGATTA
Found at i:10508597 original size:25 final size:22
Alignment explanation
Indices: 10508568--10508613 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
10508558 TTTTTAACCC
10508568 AATCTTAATTCCTAATAAAATAATA
1 AATC-TAA-TCCTAA-AAAATAATA
*
10508593 AATCTAATCCTAAAAGATAAT
1 AATCTAATCCTAAAAAATAAT
10508614 GCATCATCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 7 0.35
23 6 0.30
24 3 0.15
25 4 0.20
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.33
Consensus pattern (22 bp):
AATCTAATCCTAAAAAATAATA
Found at i:10512275 original size:9 final size:10
Alignment explanation
Indices: 10512249--10512275 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
10512239 CCTTCGTTTA
10512249 AAATTTTTTG
1 AAATTTTTTG
10512259 AAATTTTTTG
1 AAATTTTTTG
10512269 AAATTTT
1 AAATTTT
10512276 AGCTTTTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.59
Consensus pattern (10 bp):
AAATTTTTTG
Found at i:10512303 original size:8 final size:8
Alignment explanation
Indices: 10512292--10512331 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
10512282 TTTGGCCTTT
10512292 TTTTTTTG
1 TTTTTTTG
10512300 TTTTTTAT-
1 TTTTTT-TG
*
10512308 TGTTTTTG
1 TTTTTTTG
10512316 TTTTTTTG
1 TTTTTTTG
10512324 TTTTTTTG
1 TTTTTTTG
10512332 AAAAAATAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 1 0.04
8 26 0.93
9 1 0.04
ACGTcount: A:0.03, C:0.00, G:0.12, T:0.85
Consensus pattern (8 bp):
TTTTTTTG
Found at i:10512672 original size:11 final size:11
Alignment explanation
Indices: 10512652--10512692 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
10512642 TGCTGGAAAC
10512652 AAGATAAAAAT
1 AAGATAAAAAT
*
10512663 AAGATTAAAAT
1 AAGATAAAAAT
10512674 AAGATAAAGAA-
1 AAGATAAA-AAT
10512685 AAGATAAA
1 AAGATAAA
10512693 TGAATTGCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 25 0.93
12 2 0.07
ACGTcount: A:0.71, C:0.00, G:0.12, T:0.17
Consensus pattern (11 bp):
AAGATAAAAAT
Found at i:10520345 original size:14 final size:16
Alignment explanation
Indices: 10520316--10520347 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
10520306 TGTTCGTGAA
10520316 CGTTCGATTATATGTT
1 CGTTCGATTATATGTT
10520332 CGTTC-ATT-TATGTT
1 CGTTCGATTATATGTT
10520346 CG
1 CG
10520348 AGCTGAGGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 3 0.19
16 5 0.31
ACGTcount: A:0.16, C:0.16, G:0.19, T:0.50
Consensus pattern (16 bp):
CGTTCGATTATATGTT
Found at i:10521326 original size:49 final size:49
Alignment explanation
Indices: 10521211--10521333 Score: 174
Period size: 49 Copynumber: 2.5 Consensus size: 49
10521201 GAGTCATAGG
* * *
10521211 TGCATTTCGGCATAAAATGTGCCACAAATGAAATTTAAATGCATAACGG
1 TGCATTTCGGCATAAAAGGTGCCACAAATGAAAGTTAAATGCATAACGA
* * * * *
10521260 TGGATTTTGACAAAAAAGGTACCACAAATGAAAGTTAAATGCATAACGA
1 TGCATTTCGGCATAAAAGGTGCCACAAATGAAAGTTAAATGCATAACGA
10521309 TGCATTTCGGCATAAAAGGTGCCAC
1 TGCATTTCGGCATAAAAGGTGCCAC
10521334 TCATGGTATT
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
49 61 1.00
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (49 bp):
TGCATTTCGGCATAAAAGGTGCCACAAATGAAAGTTAAATGCATAACGA
Found at i:10533952 original size:20 final size:20
Alignment explanation
Indices: 10533929--10533970 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
10533919 CGTTAGCCCT
10533929 TTGGTTAGGTTGTTAAGCTG
1 TTGGTTAGGTTGTTAAGCTG
10533949 TTGGTTAGGTTGTTAAGCTG
1 TTGGTTAGGTTGTTAAGCTG
10533969 TT
1 TT
10533971 AGAGTTGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.14, C:0.05, G:0.33, T:0.48
Consensus pattern (20 bp):
TTGGTTAGGTTGTTAAGCTG
Found at i:10539120 original size:14 final size:14
Alignment explanation
Indices: 10539103--10539140 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
10539093 TTTATTAAGA
10539103 AAATATTATTTTTT
1 AAATATTATTTTTT
* *
10539117 AAATA-AACTTTTT
1 AAATATTATTTTTT
10539130 AAATATTATTT
1 AAATATTATTT
10539141 ACCTAAATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 2
0.76 0.16 0.08
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (14 bp):
AAATATTATTTTTT
Found at i:10540011 original size:124 final size:124
Alignment explanation
Indices: 10539872--10540115 Score: 443
Period size: 124 Copynumber: 2.0 Consensus size: 124
10539862 TCTAAAAAAT
* * *
10539872 AAATAAATTTAAAACCATCTTTTTATAATAGGCATATAAATGTATATGAATCTTTGTAATATTTA
1 AAATAAATTTAAAACCATCTTTTGATAATAGGCACATAAATGTATATGAATCTTTGCAATATTTA
* *
10539937 CTAATATGTGTGTGTATATATATACCTTTATTTCCTTTAGCTATTGTAATTTTTTTTAA
66 CTAATATGTGTGTGTATATATATACATTTATTTCCTTTAGCTATTGCAATTTTTTTTAA
10539996 AAATAAATTTAAAACCATCTTTTGATAATAGGCACATAAATGTATATGAATCTTTGCAATATTTA
1 AAATAAATTTAAAACCATCTTTTGATAATAGGCACATAAATGTATATGAATCTTTGCAATATTTA
10540061 CTAATATGTGTGTGTATATATATACATTTATTTCCTTTAGCTATTGCAATTTTTT
66 CTAATATGTGTGTGTATATATATACATTTATTTCCTTTAGCTATTGCAATTTTTT
10540116 ACACAAATAA
Statistics
Matches: 115, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
124 115 1.00
ACGTcount: A:0.35, C:0.10, G:0.09, T:0.46
Consensus pattern (124 bp):
AAATAAATTTAAAACCATCTTTTGATAATAGGCACATAAATGTATATGAATCTTTGCAATATTTA
CTAATATGTGTGTGTATATATATACATTTATTTCCTTTAGCTATTGCAATTTTTTTTAA
Found at i:10541039 original size:20 final size:20
Alignment explanation
Indices: 10541011--10541050 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
10541001 TTTAGTGATC
*
10541011 ATTTTATAATAATTTAATAA
1 ATTTAATAATAATTTAATAA
* *
10541031 ATTTAATAATTATTTTATAA
1 ATTTAATAATAATTTAATAA
10541051 TATGTAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTTAATAATAATTTAATAA
Found at i:10541060 original size:28 final size:32
Alignment explanation
Indices: 10541011--10541071 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 32
10541001 TTTAGTGATC
*
10541011 ATTTTATAATAATTTAATAAATTT-AATAATT
1 ATTTTATAATAATGTAATAAATTTGAATAATT
*
10541042 ATTTTATAAT-ATGT-A-AAATTTGATTAATT
1 ATTTTATAATAATGTAATAAATTTGAATAATT
10541071 A
1 A
10541072 ATATGAATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 6 0.22
29 8 0.30
30 3 0.11
31 10 0.37
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (32 bp):
ATTTTATAATAATGTAATAAATTTGAATAATT
Found at i:10548825 original size:45 final size:45
Alignment explanation
Indices: 10548756--10548954 Score: 274
Period size: 45 Copynumber: 4.4 Consensus size: 45
10548746 ACATTTTTAT
** *
10548756 TTATGGCATCATTTCATGATGATAATGCACCCCTATGCATTTCAA
1 TTATGGCATCATTTCATGCCGATAATGCACCCATATGCATTTCAA
*
10548801 TTATGGCATCATTTCATGCCGATAATGCACCTATATGCATTTCAA
1 TTATGGCATCATTTCATGCCGATAATGCACCCATATGCATTTCAA
* * **
10548846 TTATGACAACCGTTCATGCCGATAATGCACCCATATGCATTTCAA
1 TTATGGCATCATTTCATGCCGATAATGCACCCATATGCATTTCAA
** *
10548891 TTATGGCAT-ATTTTCATGTTGATAATGCACCCATGTGCATTTCAA
1 TTATGGCATCA-TTTCATGCCGATAATGCACCCATATGCATTTCAA
*
10548936 TTATGACATCATTTCATGC
1 TTATGGCATCATTTCATGC
10548955 ATTTTATACA
Statistics
Matches: 134, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
45 133 0.99
46 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.36
Consensus pattern (45 bp):
TTATGGCATCATTTCATGCCGATAATGCACCCATATGCATTTCAA
Found at i:10548977 original size:45 final size:45
Alignment explanation
Indices: 10548928--10549156 Score: 334
Period size: 45 Copynumber: 5.1 Consensus size: 45
10548918 CACCCATGTG
* *
10548928 CATTTCAATTATGACATCATTTCATGCATTTTATACACTATTATA
1 CATTTCATTTATGACATCCTTTCATGCATTTTATACACTATTATA
* * *
10548973 CATTTCATTTATGGCATCCTGTCATACATTTTATACACTATTATA
1 CATTTCATTTATGACATCCTTTCATGCATTTTATACACTATTATA
* *
10549018 CATTTTATTTATGACATCCTTTTATGGC-TTTTATACACTATTATA
1 CATTTCATTTATGACATCCTTTCAT-GCATTTTATACACTATTATA
** *
10549063 CATTTCATTTATGACATCCTTTCATGTTTTTTATACAATATTATA
1 CATTTCATTTATGACATCCTTTCATGCATTTTATACACTATTATA
* *
10549108 CATTTCATTTATGGCATCCTTTCATGCCTTTTATACACTATTATA
1 CATTTCATTTATGACATCCTTTCATGCATTTTATACACTATTATA
10549153 CATT
1 CATT
10549157 GTTTTACATA
Statistics
Matches: 164, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
44 1 0.01
45 162 0.99
46 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.06, T:0.48
Consensus pattern (45 bp):
CATTTCATTTATGACATCCTTTCATGCATTTTATACACTATTATA
Found at i:10548977 original size:90 final size:90
Alignment explanation
Indices: 10548768--10548990 Score: 236
Period size: 90 Copynumber: 2.5 Consensus size: 90
10548758 ATGGCATCAT
* * *
10548768 TTCATG-ATGATAATGCACCCCTATGCATTTCAATTATGGCATCATTTCATGCCGATAATGCACC
1 TTCATGCA-GATAATACACCCATATACATTTCAATTATGGCATCATTTCATGCCGATAATGCACC
* *
10548832 TATATGCATTTCAATTATGACAACCG
65 CATATGCATTTCAATTATGACAACAG
* * * **
10548858 TTCATGCCGATAATGCACCCATATGCATTTCAATTATGGCAT-ATTTTCATGTTGATAATGCACC
1 TTCATGCAGATAATACACCCATATACATTTCAATTATGGCATCA-TTTCATGCCGATAATGCACC
* * *
10548922 CATGTGCATTTCAATTATGACATCAT
65 CATATGCATTTCAATTATGACAACAG
** * * *
10548948 TTCATGCATTTTATACA-CTATTATACATTTCATTTATGGCATC
1 TTCATGCAGATAATACACCCA-TATACATTTCAATTATGGCATC
10548991 CTGTCATACA
Statistics
Matches: 112, Mismatches: 17, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
89 3 0.03
90 109 0.97
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (90 bp):
TTCATGCAGATAATACACCCATATACATTTCAATTATGGCATCATTTCATGCCGATAATGCACCC
ATATGCATTTCAATTATGACAACAG
Found at i:10549022 original size:135 final size:136
Alignment explanation
Indices: 10548741--10549156 Score: 391
Period size: 135 Copynumber: 3.1 Consensus size: 136
10548731 ATAATGCACC
* *
10548741 ATTATACATTTTTATTTATGGCATCA-TTTCATGATGATAATGCACCCCTATGCATTTCAATTAT
1 ATTATACA-TTTTATTTATGGCATCATTTTCATGTTGATAATGCACCCATATGCATTTCAATTAT
* *** * * * * * * **
10548805 GGCATCATTTCATGCCGATAATGCACCTA-TATGCATTTCAATTATGACAACC-GTTCATGCCGA
65 GACATCATTTCATGCATTTTATACA-CTATTATACATTTCATTTATGGCATCCTG-TCATGCCTT
* * *
10548868 TAATGCACCC
128 TTATACA-CT
* * * *
10548878 A-TATGCATTTCAATTATGGCAT-ATTTTCATGTTGATAATGCACCCATGTGCATTTCAATTATG
1 ATTATACATTTTATTTATGGCATCATTTTCATGTTGATAATGCACCCATATGCATTTCAATTATG
* *
10548941 ACATCATTTCATGCATTTTATACACTATTATACATTTCATTTATGGCATCCTGTCATACATTTTA
66 ACATCATTTCATGCATTTTATACACTATTATACATTTCATTTATGGCATCCTGTCATGCCTTTTA
10549006 TACACT
131 TACACT
* * * * * * *
10549012 ATTATACATTTTATTTATGACATCCTTTT-ATGGCTT--TTATACA-CTATTATACATTTCATTT
1 ATTATACATTTTATTTATGGCATCATTTTCAT-G-TTGATAATGCACCCA-TATGCATTTCAATT
* ** * *
10549073 ATGACATCCTTTCATGTTTTTTATACAATATTATACATTTCATTTATGGCATCCTTTCATGCCTT
63 ATGACATCATTTCATGCATTTTATACACTATTATACATTTCATTTATGGCATCCTGTCATGCCTT
10549138 TTATACACT
128 TTATACACT
10549147 ATTATACATT
1 ATTATACATT
10549157 GTTTTACATA
Statistics
Matches: 230, Mismatches: 41, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
134 8 0.03
135 208 0.90
136 11 0.05
137 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.09, T:0.43
Consensus pattern (136 bp):
ATTATACATTTTATTTATGGCATCATTTTCATGTTGATAATGCACCCATATGCATTTCAATTATG
ACATCATTTCATGCATTTTATACACTATTATACATTTCATTTATGGCATCCTGTCATGCCTTTTA
TACACT
Found at i:10549271 original size:81 final size:81
Alignment explanation
Indices: 10549170--10550136 Score: 1436
Period size: 81 Copynumber: 12.1 Consensus size: 81
10549160 TTACATATAG
* * * *
10549170 TCTTTTACTTAAAGGCATTTAACATTTCATCTAACTGGCATGATTGACACATTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
*
10549235 ACAGCTAGACCATTAA
66 ACAGCTAGGCCATTAA
* * *
10549251 TCTTTTACTTAAAAGTATTTAACCTTTCATCTAACTAGCATGATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
*
10549316 ACAGCTAGGCTATTAA
66 ACAGCTAGGCCATTAA
* * * *
10549332 TCTTTTACTCAAAGGAATTTAACC-TTCATCTAATTGGTATGATTGACACCTTTCTGTCAAATAC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
10549396 ACAGC-AGGCCATTAA
66 ACAGCTAGGCCATTAA
* * *
10549411 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGACATGA-T-AC-CCATTATGTCAAATG-
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
10549472 -CAG--A--CCATTAA
66 ACAGCTAGGCCATTAA
* * *
10549483 TCTTTTACTTAAAAGTATTTAACCTTTCATCTAACTAGCATGATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
*
10549548 ACAGCTAGGCTATTAA
66 ACAGCTAGGCCATTAA
* * * *
10549564 TCTTTTACTCAAAGGAATTTAACCTTTCATCTAATTGGTATGATTGACACCTTTCTGTCAAATAC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
10549629 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * *
10549645 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGACATGATTGACACCATTATGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
*
10549710 ATAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* *
10549726 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAAGTGGCATGATTGACACCTCTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
10549791 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * *
10549807 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGACATGATTGACACCTTTCTATCAAATAC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
** *
10549872 ACAAATAGACCATTAA
66 ACAGCTAGGCCATTAA
* *
10549888 TCTTTTACTTAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACATTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
*
10549953 ACAGCTAGGCCGTTAA
66 ACAGCTAGGCCATTAA
* * * * *
10549969 TCTTATACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACTTTTATATCAAATGT
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
*
10550034 ACAACTAGGCCATTAA
66 ACAGCTAGGCCATTAA
10550050 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACT-GCATGATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
*
10550114 ACATCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
10550130 TCTTTTA
1 TCTTTTA
10550137 TATTAGAACA
Statistics
Matches: 794, Mismatches: 82, Indels: 21
0.89 0.09 0.02
Matches are distributed among these distances:
72 46 0.06
73 1 0.00
74 3 0.00
75 16 0.02
77 15 0.02
78 2 0.00
79 34 0.04
80 102 0.13
81 575 0.72
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.36
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
ACAGCTAGGCCATTAA
Found at i:10560763 original size:31 final size:29
Alignment explanation
Indices: 10560728--10560813 Score: 93
Period size: 31 Copynumber: 2.8 Consensus size: 29
10560718 GAGTCGAGGG
10560728 TTACCTATGTCTTTCGAGACATATGAACAA
1 TTACCTATGTCTTT-GAGACATATGAACAA
* * *
10560758 TTTACCTATGTCCTTAAGGACATATGGACAA
1 -TTACCTATGTCTTTGA-GACATATGAACAA
10560789 TTACCTATGTTCTTTG-GAACATATG
1 TTACCTATG-TCTTTGAG-ACATATG
10560814 GATAGGTCCT
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
29 1 0.02
30 17 0.36
31 29 0.62
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (29 bp):
TTACCTATGTCTTTGAGACATATGAACAA
Found at i:10565508 original size:15 final size:17
Alignment explanation
Indices: 10565483--10565515 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
10565473 CATGATCTAC
10565483 GTGATTACATG-TATAT
1 GTGATTACATGTTATAT
10565499 GTGA-TACATGTTATAT
1 GTGATTACATGTTATAT
10565515 G
1 G
10565516 ATATGAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.30, C:0.06, G:0.21, T:0.42
Consensus pattern (17 bp):
GTGATTACATGTTATAT
Found at i:10565711 original size:30 final size:30
Alignment explanation
Indices: 10565643--10565729 Score: 120
Period size: 31 Copynumber: 2.9 Consensus size: 30
10565633 AGAGTCGAGG
* *
10565643 GTTACCTATGTCTTTCGAGACATATGAACA
1 GTTACCTATGTCCTTCGGGACATATGAACA
*
10565673 GTTTACCTATGTCCTTAGGGACATATGAACA
1 G-TTACCTATGTCCTTCGGGACATATGAACA
* *
10565704 GTTACCTATGTTCTTCGGAACATATG
1 GTTACCTATGTCCTTCGGGACATATG
10565730 GATAGGTCCT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
30 23 0.46
31 27 0.54
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (30 bp):
GTTACCTATGTCCTTCGGGACATATGAACA
Found at i:10570458 original size:31 final size:30
Alignment explanation
Indices: 10570420--10570510 Score: 96
Period size: 31 Copynumber: 3.0 Consensus size: 30
10570410 GAGTCGAGGG
10570420 TTACCTATGTCTTTCGAGACATATGGATAGT
1 TTACCTATGTCTTTCG-GACATATGGATAGT
* ** *
10570451 TTACCTATGTCTTTAGGGACATATTAACA-T
1 TTACCTATGTCTTT-CGGACATATGGATAGT
10570481 TTACCTATGT-TCTTCGGAACATATGGATAG
1 TTACCTATGTCT-TTCGG-ACATATGGATAG
10570511 GTCCATTGGG
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
29 3 0.06
30 21 0.44
31 23 0.48
32 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.38
Consensus pattern (30 bp):
TTACCTATGTCTTTCGGACATATGGATAGT
Found at i:10572343 original size:21 final size:22
Alignment explanation
Indices: 10572312--10572352 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
10572302 AGGAATATTA
10572312 TTATTTCAAATTAATT-AAATAT
1 TTATTTCAAA-TAATTCAAATAT
10572334 TTATTT-AAATAATTCAAAT
1 TTATTTCAAATAATTCAAAT
10572353 TAAATACTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 7 0.39
22 6 0.33
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (22 bp):
TTATTTCAAATAATTCAAATAT
Found at i:10573704 original size:20 final size:21
Alignment explanation
Indices: 10573655--10573708 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 21
10573645 TACTGAAAGG
*
10573655 GGGTATCGATACCATAGTATT
1 GGGTATCGATACCATAGTATA
* *
10573676 GTAGTATCGATACCATGGTA-A
1 G-GGTATCGATACCATAGTATA
10573697 GGGTATCGATAC
1 GGGTATCGATAC
10573709 TAGGCAACAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 10 0.36
21 2 0.07
22 16 0.57
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (21 bp):
GGGTATCGATACCATAGTATA
Found at i:10573750 original size:95 final size:94
Alignment explanation
Indices: 10573581--10573804 Score: 258
Period size: 95 Copynumber: 2.4 Consensus size: 94
10573571 TACCAACAAG
*
10573581 GTAGTATCGATACCATGGTAAGGGTATCGATACCAAGAAACATCGAATCTAATTTTGGTATAGAT
1 GTAGTATCGATACCATGGTAAGGGTATCGATACTAAGAAACATCGAATCTAATTTTGGTATAGAT
*
10573646 ACTGAAAGGGGGTATCGA-TACCATAGTATT
66 ACTGAAA-GGGGTAT-GAGTACCATAGTATA
* * * *
10573676 GTAGTATCGATACCATGGTAAGGGTATCGATACTAGGCAACATTGAA-CTTAATTTTGGTATCGA
1 GTAGTATCGATACCATGGTAAGGGTATCGATACTAAGAAACATCGAATC-TAATTTTGGTATAGA
* *
10573740 TA-TCGTAAGGGGTATTAGTACCATAGTATA
65 TACT-GAAAGGGGTATGAGTACCATAGTATA
* * * * *
10573770 GAAGTATCGGTACTAGGGT-AGTAGTATCGATACTA
1 GTAGTATCGATACCATGGTAAG-GGTATCGATACTA
10573805 TAGAGCCAGA
Statistics
Matches: 112, Mismatches: 13, Indels: 9
0.84 0.10 0.07
Matches are distributed among these distances:
93 3 0.03
94 47 0.42
95 62 0.55
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (94 bp):
GTAGTATCGATACCATGGTAAGGGTATCGATACTAAGAAACATCGAATCTAATTTTGGTATAGAT
ACTGAAAGGGGTATGAGTACCATAGTATA
Found at i:10574207 original size:55 final size:55
Alignment explanation
Indices: 10574148--10574580 Score: 531
Period size: 55 Copynumber: 8.0 Consensus size: 55
10574138 TTGTGTGTAA
* * *
10574148 ATTCATGGAATTCATCAT-AGGTTGATGAATCACTGTACAGGCACTTCGTGTACAT
1 ATTCACGGAATTCATCATGA-GTTGATGAATCACCGTACAGGCACTTCGTGTGCAT
* * * *
10574203 ATTCACGGAATTCATCATGAGTTGATGAATCACCGTACAGACACTTTGTGTGAAA
1 ATTCACGGAATTCATCATGAGTTGATGAATCACCGTACAGGCACTTCGTGTGCAT
* * * *
10574258 ATTCACAGAACTCATCATGGGTTGATGAATCACTGTACAGGCACTTCGTGTGCAT
1 ATTCACGGAATTCATCATGAGTTGATGAATCACCGTACAGGCACTTCGTGTGCAT
* * *
10574313 ATTCACGGAATTCGTCATGAGTTGATGAATCACCGTACAGGCACTTCATGTTCAT
1 ATTCACGGAATTCATCATGAGTTGATGAATCACCGTACAGGCACTTCGTGTGCAT
**
10574368 ATTCACGGAATTCATCATGAGTTGATGAATCACCGTACAAACACTTCGTGTGCAT
1 ATTCACGGAATTCATCATGAGTTGATGAATCACCGTACAGGCACTTCGTGTGCAT
* ** * *
10574423 ATTCATGGAATTCATCATGAGTTGATGAATCATTGTACA--TAC-AC-T-T-CAT
1 ATTCACGGAATTCATCATGAGTTGATGAATCACCGTACAGGCACTTCGTGTGCAT
* * * *
10574472 ATTGACGGAATTCATCATGAGTTGATGAATCACCTTACATGAACTTCGTGTGCAT
1 ATTCACGGAATTCATCATGAGTTGATGAATCACCGTACAGGCACTTCGTGTGCAT
* * * *
10574527 ATTCACGAAATTTATCACGAGTTGATGAATCACCGTACATGCACCTT-GTGTGCA
1 ATTCACGGAATTCATCATGAGTTGATGAATCACCGTACAGGCA-CTTCGTGTGCA
10574581 ATGTGCAAAG
Statistics
Matches: 325, Mismatches: 45, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
49 37 0.11
50 1 0.00
51 3 0.01
52 2 0.01
53 3 0.01
54 1 0.00
55 274 0.84
56 4 0.01
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (55 bp):
ATTCACGGAATTCATCATGAGTTGATGAATCACCGTACAGGCACTTCGTGTGCAT
Found at i:10578327 original size:45 final size:45
Alignment explanation
Indices: 10578272--10578357 Score: 163
Period size: 45 Copynumber: 1.9 Consensus size: 45
10578262 AGATGTCAAA
*
10578272 ATTATTATAATGTGATTATTATTAAAAGGTTCTTAGTCAAGTATT
1 ATTATGATAATGTGATTATTATTAAAAGGTTCTTAGTCAAGTATT
10578317 ATTATGATAATGTGATTATTATTAAAAGGTTCTTAGTCAAG
1 ATTATGATAATGTGATTATTATTAAAAGGTTCTTAGTCAAG
10578358 ATTTAAACCG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.36, C:0.05, G:0.15, T:0.44
Consensus pattern (45 bp):
ATTATGATAATGTGATTATTATTAAAAGGTTCTTAGTCAAGTATT
Found at i:10590112 original size:38 final size:38
Alignment explanation
Indices: 10590060--10590155 Score: 115
Period size: 38 Copynumber: 2.6 Consensus size: 38
10590050 GACCCAGTGC
* * *
10590060 AAAAATATGTATCCTCCACCCAAACTCGA-CCTACCCA
1 AAAAATATATATCCTTCACCCAAACTAGACCCTACCCA
* *
10590097 AAAAATTATATATCCTTCA-TCTAACTAGACCCTACCCA
1 AAAAA-TATATATCCTTCACCCAAACTAGACCCTACCCA
*
10590135 AAAAATAAATATCCTTCACCC
1 AAAAATATATATCCTTCACCC
10590156 GATTCTGAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
37 24 0.49
38 25 0.51
ACGTcount: A:0.41, C:0.32, G:0.03, T:0.24
Consensus pattern (38 bp):
AAAAATATATATCCTTCACCCAAACTAGACCCTACCCA
Found at i:10594274 original size:14 final size:14
Alignment explanation
Indices: 10594256--10594289 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
10594246 ACCATAAATG
10594256 CTAAATCCTAAACC
1 CTAAATCCTAAACC
* *
10594270 TTAAACCCTAAACC
1 CTAAATCCTAAACC
10594284 CTAAAT
1 CTAAAT
10594290 AATACAAAAG
Statistics
Matches: 16, Mismatches: 4, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.44, C:0.32, G:0.00, T:0.24
Consensus pattern (14 bp):
CTAAATCCTAAACC
Found at i:10602600 original size:13 final size:14
Alignment explanation
Indices: 10602584--10602613 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
10602574 TTTAATTACG
10602584 AAAATTAAAA-TTA
1 AAAATTAAAATTTA
10602597 AAAATTAAAATTTA
1 AAAATTAAAATTTA
10602611 AAA
1 AAA
10602614 GCATTCTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AAAATTAAAATTTA
Found at i:10602765 original size:17 final size:17
Alignment explanation
Indices: 10602738--10602782 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
10602728 TAAAAAAGGG
* *
10602738 AAAAAAT-AAAATTATT
1 AAAAAATAAAAATAAAT
10602754 AAAAAATAAAAATAAAT
1 AAAAAATAAAAATAAAT
10602771 AAATAAATAAAA
1 AAA-AAATAAAA
10602783 CAAATTAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 7 0.28
17 10 0.40
18 8 0.32
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (17 bp):
AAAAAATAAAAATAAAT
Found at i:10602812 original size:10 final size:10
Alignment explanation
Indices: 10602797--10602826 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
10602787 TTAAGGGAAA
10602797 AATAAAAAAT
1 AATAAAAAAT
10602807 AATAAAAAAT
1 AATAAAAAAT
10602817 AATAATAAAA
1 AATAA-AAAA
10602827 ATATTAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.79
11 4 0.21
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (10 bp):
AATAAAAAAT
Found at i:10604198 original size:19 final size:20
Alignment explanation
Indices: 10604174--10604226 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
10604164 AAAATAATGA
10604174 TAATAATAATAT-TAAATAC
1 TAATAATAATATATAAATAC
*
10604193 TAATAATAATATAATATATAC
1 TAATAATAATAT-ATAAATAC
10604214 T-AT-ATAATATATA
1 TAATAATAATATATA
10604227 TGTTTGAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
18 3 0.10
19 19 0.61
20 2 0.06
21 7 0.23
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.40
Consensus pattern (20 bp):
TAATAATAATATATAAATAC
Found at i:10604198 original size:22 final size:22
Alignment explanation
Indices: 10604173--10604227 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
10604163 AAAAATAATG
*
10604173 ATAATAATAATATTAAATACTA-
1 ATAATAAT-ATAATAAATACTAT
*
10604195 ATAATAATATAATATATACTAT
1 ATAATAATATAATAAATACTAT
10604217 ATAATATATAT
1 ATAATA-ATAT
10604228 GTTTGAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 11 0.38
22 14 0.48
23 4 0.14
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (22 bp):
ATAATAATATAATAAATACTAT
Found at i:10604339 original size:33 final size:32
Alignment explanation
Indices: 10604284--10604348 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 32
10604274 CCAAAACTAT
10604284 ATATTATATAGTTTTCAAAAATGATTTTAAAA
1 ATATTATATAGTTTTCAAAAATGATTTTAAAA
* *
10604316 ATATTATATGAGTTTTCAGAAATGTTTTTAAAA
1 ATATTATAT-AGTTTTCAAAAATGATTTTAAAA
10604349 CTAACTATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 9 0.30
33 21 0.70
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (32 bp):
ATATTATATAGTTTTCAAAAATGATTTTAAAA
Found at i:10604402 original size:38 final size:38
Alignment explanation
Indices: 10604276--10604499 Score: 225
Period size: 38 Copynumber: 6.0 Consensus size: 38
10604266 AAAATTTTCC
*
10604276 AAAACTATATATTATAT-AGTTTTCAAAAATGATTTT-
1 AAAACTATATATTATATAAGTTTTCAAAAATGTTTTTA
* *
10604312 -AAA--A-ATATTATATGAGTTTTCAGAAATGTTTTTAA
1 AAAACTATATATTATATAAGTTTTCAAAAATGTTTTT-A
* *
10604347 AACTAACTATATATTATATAATTTTTCAAAAATGTTTTTT
1 AA--AACTATATATTATATAAGTTTTCAAAAATGTTTTTA
* * *
10604387 TAAACTATATATTATATAGGTTTTCAAAAATG-ATTTA
1 AAAACTATATATTATATAAGTTTTCAAAAATGTTTTTA
*
10604424 AAAACTATATATTATATATA-TTTGC-AAAATGTTTTTCA
1 AAAACTATATATTATATA-AGTTTTCAAAAATGTTTTT-A
*
10604462 AAAACTATATATTATATACA-TTTTCGAAAACTGTTTTT
1 AAAACTATATATTATATA-AGTTTTC-AAAAATGTTTTT
10604500 TGAAAAAACA
Statistics
Matches: 156, Mismatches: 18, Indels: 24
0.79 0.09 0.12
Matches are distributed among these distances:
32 9 0.06
33 18 0.12
35 3 0.02
36 7 0.04
37 27 0.17
38 54 0.35
40 12 0.08
41 26 0.17
ACGTcount: A:0.42, C:0.07, G:0.06, T:0.45
Consensus pattern (38 bp):
AAAACTATATATTATATAAGTTTTCAAAAATGTTTTTA
Found at i:10604474 original size:75 final size:75
Alignment explanation
Indices: 10604276--10604479 Score: 226
Period size: 75 Copynumber: 2.7 Consensus size: 75
10604266 AAAATTTTCC
* * *
10604276 AAAACTATATATTATATAGT-TTTCAAAAATGATTTTAAAAA-TAT-TA-TAT-GAGTTTTCAGA
1 AAAACTATATATTATATA-TATTTCAAAAATGTTTTTAAAAACTATATATTATATAGTTTTCAAA
*
10604336 AATGTTTTTAA
65 AATGTATTTAA
* **
10604347 AACTAACTATATATTATATAATTTTTCAAAAATGTTTTTTTAAACTATATATTATATAGGTTTTC
1 AA--AACTATATATTATAT-ATATTTCAAAAATGTTTTTAAAAACTATATATTATATA-GTTTTC
10604412 AAAAATG-ATTT-A
62 AAAAATGTATTTAA
10604424 AAAACTATATATTATATATATTTGC-AAAATGTTTTTCAAAAACTATATATTATATA
1 AAAACTATATATTATATATATTT-CAAAAATGTTTTT-AAAAACTATATATTATATA
10604480 CATTTTCGAA
Statistics
Matches: 113, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
71 2 0.02
73 16 0.14
74 35 0.31
75 36 0.32
76 2 0.02
77 6 0.05
78 4 0.04
79 12 0.11
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.45
Consensus pattern (75 bp):
AAAACTATATATTATATATATTTCAAAAATGTTTTTAAAAACTATATATTATATAGTTTTCAAAA
ATGTATTTAA
Found at i:10605359 original size:84 final size:81
Alignment explanation
Indices: 10605085--10605707 Score: 659
Period size: 84 Copynumber: 7.6 Consensus size: 81
10605075 TTGTTGGCAA
* * * * * * * *
10605085 ATAACCCTTCTTGCGTTAAGCTATGCTGCAAATGATGTTCCTTTGAGATGAGTATAAT-GAACTC
1 ATAACCCTTCTAGCCTTGAGTTATGCTACAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
*
10605149 GAAGGTCTTTG-GTAG
66 GAAGGTCTTTGTGCAG
* * * **
10605164 ATAGCCCTTCTTGCCTT-AATCTATGCTGTAAATGATGTGCC-TTGAGCTGAGTGTAATCGAACT
1 ATAACCCTTCTAGCCTTGAGT-TATGCTACAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACT
10605227 CGAAGGTCTTTG-GCAG
65 CGAAGGTCTTTGTGCAG
* * *
10605243 ATAACCCTTCTAGCCTTGAGCTATACTACAAATGATGTGCCATTGAGCTGAGTGTAATCGAACTC
1 ATAACCCTTCTAGCCTTGAGTTATGCTACAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
*
10605308 AAAGGTCTTTGGTTGACAG
66 GAAGGTCTTT-G-TG-CAG
* * ** * *
10605327 ATAACCCTTCTAGCCTTGAGTTATACTGCAAATGACATGCCTTTGAGCTGAGCGTAGTCGAACTC
1 ATAACCCTTCTAGCCTTGAGTTATGCTACAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
* *
10605392 GAAGGTTTTTTGTTGGTAG
66 GAAGG-TCTTTG-T-GCAG
* * * *
10605411 ATAACCCTTCTAGCCTTGAGTTATGCTACAAATGATATGCCTTTGAGCTGAGCGTAGTCAAACTC
1 ATAACCCTTCTAGCCTTGAGTTATGCTACAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
* *
10605476 GAAGGTATTTTGTTGGCAA
66 GAAGGT-CTTTG-T-GCAG
* * * * *
10605495 ATAGCCCTTCTAGCCTTGAGTTATGCTACAAATGATATTCCTTGGAGCTGAGTG-AAGTCAAACT
1 ATAACCCTTCTAGCCTTGAGTTATGCTACAAATGATGTGCCTTTGAGCTGAGTGTAA-TCGAACT
10605559 CGAAGGTCTTTG-GCAG
65 CGAAGGTCTTTGTGCAG
* * * *
10605575 ATAACCCATCTCGCCTTGAGTTATGCTACAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACT
1 ATAACCCTTCTAGCCTTGAGTTATGCTACAAATGATGTGCCTTTG-AGCTGAGTGTAATCGAACT
*
10605640 CGAGGGTCTTTG-GCAG
65 CGAAGGTCTTTGTGCAG
* * * *
10605656 ATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGGTGCCTTTCAGCTGA
1 ATAACCCTTCTAGCCTTGAGTTATGCTACAAATGAT-GTGCCTTTGAGCTGA
10605708 TCTGAACTAG
Statistics
Matches: 473, Mismatches: 56, Indels: 28
0.85 0.10 0.05
Matches are distributed among these distances:
78 15 0.03
79 85 0.18
80 74 0.16
81 69 0.15
82 8 0.02
83 7 0.01
84 210 0.44
85 5 0.01
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.31
Consensus pattern (81 bp):
ATAACCCTTCTAGCCTTGAGTTATGCTACAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
GAAGGTCTTTGTGCAG
Found at i:10606865 original size:100 final size:99
Alignment explanation
Indices: 10606667--10606906 Score: 319
Period size: 100 Copynumber: 2.4 Consensus size: 99
10606657 TGGTGTTTGG
* * * *
10606667 CCAATTTCTCTAGAGGGACAGCTCAA--TATCA-T-TATAGATATTATAATCACCTTTATTAGGC
1 CCAATTGCTCTAGAGGGACAACTCAAGCT-TTATTGTATAGATATTATAATCACCTTTATCAGGC
* *
10606728 TAGCTGAATATTATCCATAAAGTCGGGGCGTTTAA
65 TAGCTGAATATTATCCATAAAGCCGGGGCATTTAA
10606763 CCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATAGATATTATAATCACCTTTATCAGGCT
1 CCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATAGATATTATAATCACCTTTATCAGGC-
* *
10606828 TAGCTGAATCA-TATTCATAAAGCCGGGGTATTTAA
65 TAGCTGAAT-ATTATCCATAAAGCCGGGGCATTTAA
* * *
10606863 CCAATTGGTTTAGAGGGACAACTCAAGCTTTATTGTATATATAT
1 CCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATAGATAT
10606907 AATATTATAA
Statistics
Matches: 127, Mismatches: 11, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
96 24 0.19
97 2 0.02
98 2 0.02
99 28 0.22
100 70 0.55
101 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (99 bp):
CCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATAGATATTATAATCACCTTTATCAGGCT
AGCTGAATATTATCCATAAAGCCGGGGCATTTAA
Found at i:10610228 original size:8 final size:8
Alignment explanation
Indices: 10610207--10610360 Score: 73
Period size: 8 Copynumber: 18.2 Consensus size: 8
10610197 CTTAATAAAT
10610207 TAAAAGAAA
1 TAAAA-AAA
*
10610216 GAAAATAAA
1 TAAAA-AAA
10610225 -AAAAAAA
1 TAAAAAAA
*
10610232 TGGAAAAAAT
1 T--AAAAAAA
*
10610242 TAAAAAAT
1 TAAAAAAA
*
10610250 TAAAAAAT
1 TAAAAAAA
*
10610258 TAAAAAAT
1 TAAAAAAA
10610266 TAAAAAAA
1 TAAAAAAA
* **
10610274 GAAAATTA
1 TAAAAAAA
10610282 TAAAAAAA
1 TAAAAAAA
10610290 TAATAAATAAA
1 T-A-AAA-AAA
10610301 TAAAACAAA
1 TAAAA-AAA
*
10610310 TTAAAGGAAA
1 -TAAA-AAAA
*
10610320 -AATAAAA
1 TAAAAAAA
10610327 TAAAAAAA
1 TAAAAAAA
10610335 -AACAAAAA
1 TAA-AAAAA
*
10610343 -AAAACAA
1 TAAAAAAA
10610350 TAATAAAAA
1 TAA-AAAAA
10610359 TA
1 TA
10610361 TTAAATTAAC
Statistics
Matches: 116, Mismatches: 17, Indels: 24
0.74 0.11 0.15
Matches are distributed among these distances:
7 12 0.10
8 62 0.53
9 20 0.17
10 18 0.16
11 4 0.03
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (8 bp):
TAAAAAAA
Found at i:10610285 original size:24 final size:23
Alignment explanation
Indices: 10610222--10610314 Score: 77
Period size: 22 Copynumber: 4.0 Consensus size: 23
10610212 GAAAGAAAAT
*
10610222 AAAA-AAAAAATGGAAAAAATTAA
1 AAAATAAAAAAT-TAAAAAATTAA
10610245 AAAATTAAAAAATTAAAAAATTAA
1 AAAA-TAAAAAATTAAAAAATTAA
* *
10610269 AAAA-AGAAAATTATAAAA--AA
1 AAAATAAAAAATTAAAAAATTAA
* *
10610289 ATAATAAATAAATAAAACAAATTAA
1 AAAATAAA-AAATTAAA-AAATTAA
10610314 A
1 A
10610315 GGAAAAATAA
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
20 5 0.09
21 2 0.04
22 18 0.32
23 7 0.12
24 14 0.25
25 10 0.18
ACGTcount: A:0.76, C:0.01, G:0.03, T:0.19
Consensus pattern (23 bp):
AAAATAAAAAATTAAAAAATTAA
Found at i:10610305 original size:59 final size:59
Alignment explanation
Indices: 10610176--10610314 Score: 153
Period size: 59 Copynumber: 2.3 Consensus size: 59
10610166 ATGTTAGAGA
* * * *
10610176 AAATAAATAAATAAA-TAAATACTTAATAAATTAAAAGAAAGAAAATAAAAAAAAAATGG
1 AAATAAATAAACAAATTAAAAAATTAAAAAATTAAAAGAAAGAAAATAAAAAAAAAAT-G
10610235 AAA-AAATTAAA-AAATTAAAAAATTAAAAAATTAAAA-AAAGAAAATTATAAAAAAATAAT-
1 AAATAAA-TAAACAAATTAAAAAATTAAAAAATTAAAAGAAAGAAAA-TA-AAAAAAA-AATG
10610294 AAATAAATAAAACAAATTAAA
1 AAATAAAT-AAACAAATTAAA
10610315 GGAAAAATAA
Statistics
Matches: 69, Mismatches: 3, Indels: 14
0.80 0.03 0.16
Matches are distributed among these distances:
58 14 0.20
59 31 0.45
60 13 0.19
61 11 0.16
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.21
Consensus pattern (59 bp):
AAATAAATAAACAAATTAAAAAATTAAAAAATTAAAAGAAAGAAAATAAAAAAAAAATG
Found at i:10610396 original size:14 final size:14
Alignment explanation
Indices: 10610372--10610410 Score: 69
Period size: 14 Copynumber: 2.7 Consensus size: 14
10610362 TAAATTAACC
10610372 AAAAAATATAAAAGG
1 AAAAAA-ATAAAAGG
10610387 AAAAAAATAAAAGG
1 AAAAAAATAAAAGG
10610401 AAAAAAATAA
1 AAAAAAATAA
10610411 TAAGAGCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 18 0.75
15 6 0.25
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.10
Consensus pattern (14 bp):
AAAAAAATAAAAGG
Found at i:10611731 original size:3 final size:3
Alignment explanation
Indices: 10611711--10611772 Score: 56
Period size: 3 Copynumber: 20.3 Consensus size: 3
10611701 TAAATAAATA
* *
10611711 AAT AA- AAT AAT GAT AAT AAT AAT AATT AAT ACT AAT AAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT
*
10611755 AAT ATAT ACT ATAT AAT A
1 AAT A-AT AAT A-AT AAT A
10611773 TATATGTTTC
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
2 4 0.08
3 36 0.75
4 8 0.17
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:10611748 original size:16 final size:17
Alignment explanation
Indices: 10611727--10611758 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
10611717 ATAATGATAA
10611727 TAATAATAAT-TAATAC
1 TAATAATAATATAATAC
10611743 TAATAATAATATAATA
1 TAATAATAATATAATA
10611759 TATACTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
TAATAATAATATAATAC
Found at i:10611770 original size:19 final size:21
Alignment explanation
Indices: 10611723--10611777 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 21
10611713 TAAAATAATG
10611723 ATAATAATAATAATTAATACTA
1 ATAATAAT-ATAATTAATACTA
10611745 ATAATAATATAA-TATATACTA
1 ATAATAATATAATTA-ATACTA
10611766 TATAATATATAT
1 -ATAATA-ATAT
10611778 GTTTCAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
20 2 0.07
21 10 0.33
22 14 0.47
23 4 0.13
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (21 bp):
ATAATAATATAATTAATACTA
Found at i:10611916 original size:37 final size:36
Alignment explanation
Indices: 10611827--10612039 Score: 173
Period size: 37 Copynumber: 5.6 Consensus size: 36
10611817 AATTTTTTGT
* * *
10611827 AAAACTATATATTATATAGT-TTTAAAAAATGTTTATTT
1 AAAACTATATATTATATA-TATTTCAAAAACG-TT-TTA
* *
10611865 CAAACTATATATTATATA-AGGTTTCACAAACGTTTTA
1 AAAACTATATATTATATATA--TTTCAAAAACGTTTTA
10611902 AAAACTATATATTATATATTCATTTTCAAAATA--TTTTA
1 AAAACTATATATTATATA-T-A-TTTCAAAA-ACGTTTTA
* *
10611940 AAAGCTATATAATATATATATATTTCTAAAAACCGTTTTC
1 AAAACTATAT-AT-TATATATATTTC-AAAAA-CGTTTTA
* *
10611980 AAAACTATATATTATATATATTTTAAAAATGTTTTCA
1 AAAACTATATATTATATATATTTCAAAAACGTTTT-A
* *
10612017 AAAACTATATAATATATACATTT
1 AAAACTATATATTATATATATTT
10612040 TCGAAAACCA
Statistics
Matches: 145, Mismatches: 16, Indels: 29
0.76 0.08 0.15
Matches are distributed among these distances:
36 5 0.03
37 50 0.34
38 49 0.34
39 20 0.14
40 21 0.14
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (36 bp):
AAAACTATATATTATATATATTTCAAAAACGTTTTA
Found at i:10611948 original size:38 final size:38
Alignment explanation
Indices: 10611827--10612034 Score: 183
Period size: 38 Copynumber: 5.5 Consensus size: 38
10611817 AATTTTTTGT
* * **
10611827 AAAACTATATATTATATAGT-TTTAAAAAATGTTTATTT
1 AAAACTATATATTATATATTATTTTAAAAATGTTT-TCA
* *** * * *
10611865 CAAACTATATATTATATAAGGTTTCACAAACGTTTT-A
1 AAAACTATATATTATATATTATTTTAAAAATGTTTTCA
* *
10611902 AAAACTATATATTATATATTCATTTTCAAAATATTTT-A
1 AAAACTATATATTATATATT-ATTTTAAAAATGTTTTCA
* * *
10611940 AAAGCTATATAATATATATATATTTCTAAAAACCGTTTTC-
1 AAAACTATATATTATATAT-TATTT-TAAAAA-TGTTTTCA
10611980 AAAACTATATATTATATA-TATTTTAAAAATGTTTTCA
1 AAAACTATATATTATATATTATTTTAAAAATGTTTTCA
*
10612017 AAAACTATATAATATATA
1 AAAACTATATATTATATA
10612035 CATTTTCGAA
Statistics
Matches: 138, Mismatches: 25, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
36 6 0.04
37 40 0.29
38 55 0.40
39 17 0.12
40 20 0.14
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (38 bp):
AAAACTATATATTATATATTATTTTAAAAATGTTTTCA
Found at i:10614359 original size:16 final size:16
Alignment explanation
Indices: 10614334--10614376 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
10614324 ATGCTTGGCC
10614334 GAATAGTGCTTAAGTA
1 GAATAGTGCTTAAGTA
* * *
10614350 GAATAATGCTTAGGTC
1 GAATAGTGCTTAAGTA
10614366 GAATAGTGCTT
1 GAATAGTGCTT
10614377 GGTACCAAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.33, C:0.09, G:0.26, T:0.33
Consensus pattern (16 bp):
GAATAGTGCTTAAGTA
Found at i:10615525 original size:15 final size:15
Alignment explanation
Indices: 10615481--10615525 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
10615471 TCCTTTCACT
*
10615481 TATGCCTTTTC-AAA
1 TATGCATTTTCAAAA
*
10615495 TATACATCTTTCAAAA
1 TATGCAT-TTTCAAAA
10615511 TATGCATTTTCAAAA
1 TATGCATTTTCAAAA
10615526 AAAAAAAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 5 0.19
15 12 0.46
16 9 0.35
ACGTcount: A:0.38, C:0.18, G:0.04, T:0.40
Consensus pattern (15 bp):
TATGCATTTTCAAAA
Found at i:10634985 original size:55 final size:55
Alignment explanation
Indices: 10634926--10635228 Score: 349
Period size: 55 Copynumber: 5.5 Consensus size: 55
10634916 GTGTTTAATG
* *
10634926 AATGAGTTTATGAATTTTCGTATTGGCACTATGTGTGCAACCCCACGAAATTCAT
1 AATGAGTTTATGAATTTCCGTATTGACACTATGTGTGCAACCCCACGAAATTCAT
* *
10634981 AATGAGTTTATTAATTTCCGTATTGACACTATGTGTGCAACACCACGAAATTCAT
1 AATGAGTTTATGAATTTCCGTATTGACACTATGTGTGCAACCCCACGAAATTCAT
* * * *
10635036 AATGAGTTAATGAATTTCCGTATTGTCACTATATGTGCAGCCCCACGAAATTCAT
1 AATGAGTTTATGAATTTCCGTATTGACACTATGTGTGCAACCCCACGAAATTCAT
* * * *
10635091 AATGAGTTTATGAATTTCCTTATTGACACTATGTGTGCAA-CCTACGTAATTTAT
1 AATGAGTTTATGAATTTCCGTATTGACACTATGTGTGCAACCCCACGAAATTCAT
* ** * * * * * * * *
10635145 AATGAGTTTGTGAATGACTGTATCGACACTATATGTGC-ACCACAAGGATTTCAA
1 AATGAGTTTATGAATTTCCGTATTGACACTATGTGTGCAACCCCACGAAATTCAT
* * * *
10635199 AATGAGTTTGTCAATTTCCATATTGGCACT
1 AATGAGTTTATGAATTTCCGTATTGACACT
10635229 TAGGTGCAAA
Statistics
Matches: 208, Mismatches: 39, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
53 1 0.00
54 72 0.35
55 135 0.65
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (55 bp):
AATGAGTTTATGAATTTCCGTATTGACACTATGTGTGCAACCCCACGAAATTCAT
Found at i:10640596 original size:55 final size:55
Alignment explanation
Indices: 10640460--10640846 Score: 476
Period size: 55 Copynumber: 7.1 Consensus size: 55
10640450 ATGTATATGT
* **
10640460 TGAAATTTCTATATTGGCACTATGTGTGCAACCCCATAAAATTCATAATGAG-TTA
1 TGAATTTTC-ATATTGGCACTATGTGTGCAACCCCACGAAATTCATAATGAGTTTA
* * *
10640515 TGAATTTCCATATTGGAACTATGTGTGCAACCCCACAAAATTCATAATGAGTTTA
1 TGAATTTTCATATTGGCACTATGTGTGCAACCCCACGAAATTCATAATGAGTTTA
* *
10640570 TGAATTTTCATATTGGCACTATGTGTGCTACCCAACGAAATTCATAATGAGTTTA
1 TGAATTTTCATATTGGCACTATGTGTGCAACCCCACGAAATTCATAATGAGTTTA
* ** * * *
10640625 TTAATTTTTGTATTGGAACAATGTGTGCAACCCCACAAAATTCATAATGAGTTTA
1 TGAATTTTCATATTGGCACTATGTGTGCAACCCCACGAAATTCATAATGAGTTTA
* * *
10640680 TGAATTTTCGTATTGGCACTATGTGTGCAACACTACGAAATTCATAATGAG--TA
1 TGAATTTTCATATTGGCACTATGTGTGCAACCCCACGAAATTCATAATGAGTTTA
* * * * *
10640733 TGAATTTCCGTATTGTCACTATATGTGCAGCCCCACGAAATTCATAATGAGTTTA
1 TGAATTTTCATATTGGCACTATGTGTGCAACCCCACGAAATTCATAATGAGTTTA
* * * * * * *
10640788 TGAATTTCCTTATTGACACTATGTGTGCAA-CCTACGTAATTTATAATGAGTTTG
1 TGAATTTTCATATTGGCACTATGTGTGCAACCCCACGAAATTCATAATGAGTTTA
10640842 TGAAT
1 TGAAT
10640847 GACTGTATCG
Statistics
Matches: 291, Mismatches: 38, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
53 47 0.16
54 65 0.22
55 179 0.62
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (55 bp):
TGAATTTTCATATTGGCACTATGTGTGCAACCCCACGAAATTCATAATGAGTTTA
Found at i:10640904 original size:163 final size:163
Alignment explanation
Indices: 10640463--10640923 Score: 431
Period size: 163 Copynumber: 2.8 Consensus size: 163
10640453 TATATGTTGA
* * * * * *
10640463 AATTTCTATATTGGCACTATGTGTGCAACCCCATAAAATTCATAATGAG-TTATGAAT-TTCCAT
1 AATTTCTGTATTGGAACAATGTGTGCAACCCCACAAAATTCATAATGAGTTTATGAATACT-CGT
* * * * * *
10640526 ATTGGA-ACTATGTGTGCAACCCCACA-AAATTCATAATGAGTTTATGAATTTTCATATTGGCAC
65 A-TCGACACTATATGTGCAACACTA-AGAAATTCATAATGAGTTTGT-AATTTCCATATTGGCAC
* *
10640589 TATGTGTGCTACCCAACGAAATTCATAATGAGTTTATT
127 TATATGTGC-ACCCAACGAAATTCATAATGAGTTTATG
* **
10640627 AATTTTTGTATTGGAACAATGTGTGCAACCCCACAAAATTCATAATGAGTTTATGAATTTTCGTA
1 AATTTCTGTATTGGAACAATGTGTGCAACCCCACAAAATTCATAATGAGTTTATGAATACTCGTA
* * * * * * *
10640692 TTGGCACTATGTGTGCAACACTACGAAATTCATAATGAGTATG-AATTTCCGTATTGTCACTATA
66 TCGACACTATATGTGCAACACTAAGAAATTCATAATGAGTTTGTAATTTCCATATTGGCACTATA
*
10640756 TGTGCAGCCCCACGAAATTCATAATGAGTTTATG
131 TGTGCA-CCCAACGAAATTCATAATGAGTTTATG
* * ** * *
10640790 AATTTCCT-TATT-GACACTATGTGTGCAA-CCTACGTAATTTATAATGAGTTTGTGAATGACT-
1 AATTT-CTGTATTGGA-ACAATGTGTGCAACCCCACAAAATTCATAATGAGTTTATGAAT-ACTC
* * * *
10640851 GTATCGACACTATATGTGCACCAC-AAGGATTTCAAAATGAGTTTGTCAATTTCCATATTGGCAC
63 GTATCGACACTATATGTGCAACACTAAGAAATTCATAATGAGTTTGT-AATTTCCATATTGGCAC
*
10640915 T-TAGGTGCA
127 TATATGTGCA
10640924 AATTTATGTA
Statistics
Matches: 247, Mismatches: 40, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
161 16 0.06
162 54 0.22
163 85 0.34
164 47 0.19
165 43 0.17
166 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (163 bp):
AATTTCTGTATTGGAACAATGTGTGCAACCCCACAAAATTCATAATGAGTTTATGAATACTCGTA
TCGACACTATATGTGCAACACTAAGAAATTCATAATGAGTTTGTAATTTCCATATTGGCACTATA
TGTGCACCCAACGAAATTCATAATGAGTTTATG
Found at i:10646281 original size:55 final size:55
Alignment explanation
Indices: 10646145--10646553 Score: 531
Period size: 55 Copynumber: 7.5 Consensus size: 55
10646135 ATGTATATGT
* **
10646145 TGAAATTTCTATATTGGCACTATGTGTGCAACCCCATAAAATTCATAATGAG-TTA
1 TGAATTTTC-ATATTGGCACTATGTGTGCAACCCCACGAAATTCATAATGAGTTTA
* * *
10646200 TGAATTTCCATATTGGAACTATGTGTGCAACCCCACAAAATTCATAATGAGTTTA
1 TGAATTTTCATATTGGCACTATGTGTGCAACCCCACGAAATTCATAATGAGTTTA
* *
10646255 TGAATTTTCATATTGGCACTATGTGTGCTACCCAACGAAATTCATAATGAGTTTA
1 TGAATTTTCATATTGGCACTATGTGTGCAACCCCACGAAATTCATAATGAGTTTA
* ** * * *
10646310 TTAATTTTTGTATTGGAACAATGTGTGCAACCCCACAAAATTCATAATGAGTTTA
1 TGAATTTTCATATTGGCACTATGTGTGCAACCCCACGAAATTCATAATGAGTTTA
* * *
10646365 TGAATTTTCGTATTGGCACTATGTGTGCAACACTACGAAATTCATAATGAG--TA
1 TGAATTTTCATATTGGCACTATGTGTGCAACCCCACGAAATTCATAATGAGTTTA
* * *
10646418 TGAA-TTTCTGTATTGGCACTATATGTGTAACCCCACGAAATTCATAATGAGTTTA
1 TGAATTTTC-ATATTGGCACTATGTGTGCAACCCCACGAAATTCATAATGAGTTTA
* *
10646473 TGAATTTT-AGTATTGTCACTATGTGTGCAACCCCATGAAATTCATAATGAGTTTA
1 TGAATTTTCA-TATTGGCACTATGTGTGCAACCCCACGAAATTCATAATGAGTTTA
* * *
10646528 TGAATTTCCGTATTTGCACTATGTGT
1 TGAATTTTCATATTGGCACTATGTGT
10646554 TCAATATAAG
Statistics
Matches: 310, Mismatches: 37, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
52 4 0.01
53 44 0.14
54 40 0.13
55 219 0.71
56 3 0.01
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (55 bp):
TGAATTTTCATATTGGCACTATGTGTGCAACCCCACGAAATTCATAATGAGTTTA
Found at i:10646499 original size:163 final size:164
Alignment explanation
Indices: 10646148--10646553 Score: 588
Period size: 163 Copynumber: 2.5 Consensus size: 164
10646138 TATATGTTGA
*
10646148 AATTTCTA-TATTGGCACTATGTGTGCAACCCCATAAAATTCATAATGAG-TTATGAATTTCCAT
1 AATTT-TAGTATTGGCACTATGTGTGCAACCCCATAAAATTCATAATGAGTTTATGAATTTCCGT
* *
10646211 ATTGGAACTATGTGTGCAACCCCACAAAATTCATAATGAGTTTATGAATTTTCATATTGGCACTA
65 ATTGGCACTATGTGTGCAACACCACAAAATTCATAATGAG-TTATGAATTTTCATATTGGCACTA
* *
10646276 TGTGTGCTACCCAACGAAATTCATAATGAGTTTATT
129 TATGTGCTACCCAACGAAATTCATAATGAGTTTATG
* * * * *
10646312 AATTTTTGTATTGGAACAATGTGTGCAACCCCACAAAATTCATAATGAGTTTATGAATTTTCGTA
1 AATTTTAGTATTGGCACTATGTGTGCAACCCCATAAAATTCATAATGAGTTTATGAATTTCCGTA
* * *
10646377 TTGGCACTATGTGTGCAACACTACGAAATTCATAATGAG-TATGAA-TTTCTGTATTGGCACTAT
66 TTGGCACTATGTGTGCAACACCACAAAATTCATAATGAGTTATGAATTTTC-ATATTGGCACTAT
*
10646440 ATGTG-TAACCCCACGAAATTCATAATGAGTTTATG
130 ATGTGCT-ACCCAACGAAATTCATAATGAGTTTATG
* *
10646475 AATTTTAGTATTGTCACTATGTGTGCAACCCCATGAAATTCATAATGAGTTTATGAATTTCCGTA
1 AATTTTAGTATTGGCACTATGTGTGCAACCCCATAAAATTCATAATGAGTTTATGAATTTCCGTA
*
10646540 TTTGCACTATGTGT
66 TTGGCACTATGTGT
10646554 TCAATATAAG
Statistics
Matches: 216, Mismatches: 22, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
162 5 0.02
163 120 0.56
164 43 0.20
165 48 0.22
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (164 bp):
AATTTTAGTATTGGCACTATGTGTGCAACCCCATAAAATTCATAATGAGTTTATGAATTTCCGTA
TTGGCACTATGTGTGCAACACCACAAAATTCATAATGAGTTATGAATTTTCATATTGGCACTATA
TGTGCTACCCAACGAAATTCATAATGAGTTTATG
Found at i:10646632 original size:163 final size:162
Alignment explanation
Indices: 10646148--10646651 Score: 545
Period size: 163 Copynumber: 3.1 Consensus size: 162
10646138 TATATGTTGA
*
10646148 AATTTCTA-TATTGGCACTATGTGTGCAACCCCATAAAATTCATAATGAG-TTATGAATTTCCAT
1 AATTT-TAGTATTGGCACTATGTGTGCAACCCCATAAAATTCATAATGAGTTTATGAATTTCCGT
* * * *
10646211 ATTGGAACTATGTGTGCAACCCCACAA-AATTCATAATGAGTTTATGAATTTTCATATTGGCACT
65 ATTGGCACTATGTGTGCAA---CATAAGAATTCATAATGAGTTTATGAATTTCCGTATTGGCACT
* * *
10646275 ATGTGTGCTA-CCCAACGAAATTCATAATGAGTTTATT
127 ATATGTAC-ACCCCAA-GAAATTCATAATGAGTTTATG
* * * * *
10646312 AATTTTTGTATTGGAACAATGTGTGCAACCCCACAAAATTCATAATGAGTTTATGAATTTTCGTA
1 AATTTTAGTATTGGCACTATGTGTGCAACCCCATAAAATTCATAATGAGTTTATGAATTTCCGTA
* *
10646377 TTGGCACTATGTGTGCAACACTACGAAATTCATAATGAG--TATGAATTTCTGTATTGGCACTAT
66 TTGGCACTATGTGTGCAACA-TAAG-AATTCATAATGAGTTTATGAATTTCCGTATTGGCACTAT
*
10646440 ATGTGTA-ACCCCACGAAATTCATAATGAGTTTATG
129 A--TGTACACCCCAAGAAATTCATAATGAGTTTATG
* *
10646475 AATTTTAGTATTGTCACTATGTGTGCAACCCCATGAAATTCATAATGAGTTTATGAATTTCCGTA
1 AATTTTAGTATTGGCACTATGTGTGCAACCCCATAAAATTCATAATGAGTTTATGAATTTCCGTA
* * * * * *** **
10646540 TTTGCACTATGTGTTCAATATAAGTAATTCACAATGAGTTTGTGAACGACCGTATCAGCACTATA
66 TTGGCACTATGTGTGCAACATAAG-AATTCATAATGAGTTTATGAATTTCCGTATTGGCACTATA
* * * * *
10646605 TATACACCCCAAGGATTTCAAAATGAGTTTGTG
130 TGTACACCCCAAGAAATTCATAATGAGTTTATG
* *
10646638 AGTTTTCGTATTGG
1 AATTTTAGTATTGG
10646652 TACTTTGGTG
Statistics
Matches: 284, Mismatches: 45, Indels: 23
0.81 0.13 0.07
Matches are distributed among these distances:
162 20 0.07
163 153 0.54
164 65 0.23
165 46 0.16
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (162 bp):
AATTTTAGTATTGGCACTATGTGTGCAACCCCATAAAATTCATAATGAGTTTATGAATTTCCGTA
TTGGCACTATGTGTGCAACATAAGAATTCATAATGAGTTTATGAATTTCCGTATTGGCACTATAT
GTACACCCCAAGAAATTCATAATGAGTTTATG
Found at i:10656331 original size:11 final size:11
Alignment explanation
Indices: 10656315--10656343 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
10656305 CCATGCAATG
10656315 AAATGCAAAAT
1 AAATGCAAAAT
10656326 AAATGC-AAAT
1 AAATGCAAAAT
10656336 AAATGCAA
1 AAATGCAA
10656344 GTGAGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.62, C:0.10, G:0.10, T:0.17
Consensus pattern (11 bp):
AAATGCAAAAT
Found at i:10657844 original size:27 final size:27
Alignment explanation
Indices: 10657796--10657879 Score: 98
Period size: 27 Copynumber: 3.0 Consensus size: 27
10657786 CGGGAAAATG
10657796 AAGAAAGAAGTTAAAGAAATGAGAGAGAAA
1 AAGAAA-AAGTT-AA-AAATGAGAGAGAAA
* *
10657826 AAGAAAAA-TATACAAATGAAAGAGAAA
1 AAGAAAAAGT-TAAAAATGAGAGAGAAA
*
10657853 ATGAAAAAGTTAAAAATGAGAGAGAAA
1 AAGAAAAAGTTAAAAATGAGAGAGAAA
10657880 TGGGTGATAT
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
27 35 0.74
28 3 0.06
29 3 0.06
30 6 0.13
ACGTcount: A:0.65, C:0.01, G:0.21, T:0.12
Consensus pattern (27 bp):
AAGAAAAAGTTAAAAATGAGAGAGAAA
Found at i:10658163 original size:6 final size:6
Alignment explanation
Indices: 10658147--10658199 Score: 58
Period size: 6 Copynumber: 9.2 Consensus size: 6
10658137 AAAAATTATC
* *
10658147 TAAAA- TAAAAT TAAAAT TAAACT TAAAA- TAAAA- GAAAGAT TAAAAT
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAA-AT TAAAAT
10658193 TAAAAT T
1 TAAAAT T
10658200 TTATTTATGC
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
5 13 0.32
6 25 0.61
7 3 0.07
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (6 bp):
TAAAAT
Found at i:10658167 original size:17 final size:17
Alignment explanation
Indices: 10658147--10658198 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
10658137 AAAAATTATC
10658147 TAAAA-TAAAATTAAAA
1 TAAAATTAAAATTAAAA
*
10658163 TTAAACTTAAAA-TAAAA
1 -TAAAATTAAAATTAAAA
*
10658180 GAAAGATTAAAATTAAAA
1 TAAA-ATTAAAATTAAAA
10658198 T
1 T
10658199 TTTATTTATG
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
16 3 0.11
17 15 0.54
18 10 0.36
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (17 bp):
TAAAATTAAAATTAAAA
Found at i:10658173 original size:23 final size:23
Alignment explanation
Indices: 10658148--10658198 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
10658138 AAAATTATCT
* *
10658148 AAAATAAAATTAAA-ATTAAACTT
1 AAAATAAAA-GAAAGATTAAAATT
10658171 AAAATAAAAGAAAGATTAAAATT
1 AAAATAAAAGAAAGATTAAAATT
10658194 AAAAT
1 AAAAT
10658199 TTTATTTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 3 0.12
23 22 0.88
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (23 bp):
AAAATAAAAGAAAGATTAAAATT
Found at i:10682557 original size:20 final size:20
Alignment explanation
Indices: 10682510--10682557 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
10682500 TGCATCGACA
*
10682510 TTATATTCTCATTACCTTTC
1 TTATATTTTCATTACCTTTC
10682530 TTATATTTTCATTACCTTTC
1 TTATATTTTCATTACCTTTC
10682550 TTATATTT
1 TTATATTT
10682558 GATCATATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.21, C:0.19, G:0.00, T:0.60
Consensus pattern (20 bp):
TTATATTTTCATTACCTTTC
Found at i:10684602 original size:44 final size:43
Alignment explanation
Indices: 10684542--10684888 Score: 344
Period size: 44 Copynumber: 8.0 Consensus size: 43
10684532 AATGAGTGAT
* * *
10684542 ACCTTTTTGTCAATAATGTACCGTTATGCATTTTCATTTATGGA
1 ACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTAT-GA
** * *
10684586 ATATTTCTGCCAATAATGCACTGTTAAGCATTTTCATTTATGA
1 ACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGA
* * * *
10684629 CACCTTTCTGACAATAATGCACTGTTATGCATTTTCATTGATGGC
1 -ACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTAT-GA
* * * *
10684674 ACCTTTCTACCAATAATGCATCATTATGCATTTTCATTTATGGC
1 ACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTAT-GA
* * *
10684718 ACCTTT-TGGCTAATAATGTACTGTTATGCATTTTCATTTATGA
1 ACCTTTCT-GCCAATAATGCACCGTTATGCATTTTCATTTATGA
* *
10684761 CACCTTTATGCCAATAATACACCGTTATGCATTTTCATTTATGA
1 -ACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGA
* * *
10684805 CACATTT-T-CGTAAGTAATGCACCATTATGCATTTTCATTTATGA
1 -ACCTTTCTGC-CAA-TAATGCACCGTTATGCATTTTCATTTATGA
* *
10684849 TAACTTTCTACCAATAATGCA-C-TTATGCATTTTCATTTAT
1 -ACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTAT
10684889 TTTAGAGCAG
Statistics
Matches: 256, Mismatches: 38, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
42 19 0.07
43 8 0.03
44 223 0.87
45 5 0.02
46 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.42
Consensus pattern (43 bp):
ACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGA
Found at i:10684691 original size:88 final size:87
Alignment explanation
Indices: 10684546--10684888 Score: 390
Period size: 88 Copynumber: 3.9 Consensus size: 87
10684536 AGTGATACCT
* * ** *
10684546 TTTTGTCAATAATGTACCGTTATGCATTTTCATTTATGGA-ATATTTCTGCCAATAATGCACTGT
1 TTTTGACAATAATGCACCGTTATGCATTTTCATTTAT-GACACCTTTCTACCAATAATGCACTGT
*
10684610 TAAGCATTTTCATTTATGACACC
65 TATGCATTTTCATTTATGACACC
* * * *
10684633 TTTCTGACAATAATGCACTGTTATGCATTTTCATTGATGGCACCTTTCTACCAATAATGCA-TCA
1 TTT-TGACAATAATGCACCGTTATGCATTTTCATTTATGACACCTTTCTACCAATAATGCACT-G
*
10684697 TTATGCATTTTCATTTATGGCACC
64 TTATGCATTTTCATTTATGACACC
* * * * * * *
10684721 TTTTGGCTAATAATGTACTGTTATGCATTTTCATTTATGACACCTTTATGCCAATAATACACCGT
1 TTTTGAC-AATAATGCACCGTTATGCATTTTCATTTATGACACCTTTCTACCAATAATGCACTGT
*
10684786 TATGCATTTTCATTTATGACACA
65 TATGCATTTTCATTTATGACACC
* * * *
10684809 TTTTCGTA-AGTAATGCACCATTATGCATTTTCATTTATGATAACTTTCTACCAATAATGCAC--
1 TTTT-G-ACAATAATGCACCGTTATGCATTTTCATTTATGACACCTTTCTACCAATAATGCACTG
10684871 TTATGCATTTTCATTTAT
64 TTATGCATTTTCATTTAT
10684889 TTTAGAGCAG
Statistics
Matches: 217, Mismatches: 32, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
86 18 0.08
87 8 0.04
88 190 0.88
89 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.42
Consensus pattern (87 bp):
TTTTGACAATAATGCACCGTTATGCATTTTCATTTATGACACCTTTCTACCAATAATGCACTGTT
ATGCATTTTCATTTATGACACC
Found at i:10684714 original size:132 final size:131
Alignment explanation
Indices: 10684553--10684888 Score: 414
Period size: 132 Copynumber: 2.6 Consensus size: 131
10684543 CCTTTTTGTC
* * *
10684553 AATAATGTACCGTTATGCATTTTCATTTATGGAATATTTCTGCCAATAATGCACTGTTAAGCATT
1 AATAATGCACCATTATGCATTTTCATTTATGG-ATATTTCTGCCAATAATGCACTGTTATGCATT
* * * *
10684618 TTCATTTATGACACCTTTCTGACAATAATGCACTGTTATGCATTTTCATTGATGGCAC-CTTTC-
65 TTCATTTATGACACCTTTATGACAATAATACACCGTTATGCATTTTCATTGATGACACACTTTCG
10684681 TA
130 TA
* ** * *
10684683 CCAATAATGCATCATTATGCATTTTCATTTATGGCACCTTT-TGGCTAATAATGTACTGTTATGC
1 --AATAATGCACCATTATGCATTTTCATTTATGG-ATATTTCT-GCCAATAATGCACTGTTATGC
* * *
10684747 ATTTTCATTTATGACACCTTTATGCCAATAATACACCGTTATGCATTTTCATTTATGACACATTT
62 ATTTTCATTTATGACACCTTTATGACAATAATACACCGTTATGCATTTTCATTGATGACACACTT
10684812 TCGTA
127 TCGTA
* *
10684817 AGTAATGCACCATTATGCATTTTCATTTAT-GATAACTTTCTACCAATAATGCAC--TTATGCAT
1 AATAATGCACCATTATGCATTTTCATTTATGGAT-A-TTTCTGCCAATAATGCACTGTTATGCAT
10684879 TTTCATTTAT
64 TTTCATTTAT
10684889 TTTAGAGCAG
Statistics
Matches: 175, Mismatches: 23, Indels: 14
0.83 0.11 0.07
Matches are distributed among these distances:
130 19 0.11
131 2 0.01
132 147 0.84
133 5 0.03
134 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.42
Consensus pattern (131 bp):
AATAATGCACCATTATGCATTTTCATTTATGGATATTTCTGCCAATAATGCACTGTTATGCATTT
TCATTTATGACACCTTTATGACAATAATACACCGTTATGCATTTTCATTGATGACACACTTTCGT
A
Found at i:10684769 original size:25 final size:25
Alignment explanation
Indices: 10684740--10684807 Score: 67
Period size: 19 Copynumber: 3.0 Consensus size: 25
10684730 ATAATGTACT
10684740 GTTATGCATTTTCATTTATGACACC
1 GTTATGCATTTTCATTTATGACACC
* * *
10684765 TTTATGC-----CAATAAT-ACACC
1 GTTATGCATTTTCATTTATGACACC
10684784 GTTATGCATTTTCATTTATGACAC
1 GTTATGCATTTTCATTTATGACAC
10684808 ATTTTCGTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 12
0.63 0.12 0.24
Matches are distributed among these distances:
19 11 0.35
20 5 0.16
24 5 0.16
25 10 0.32
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (25 bp):
GTTATGCATTTTCATTTATGACACC
Found at i:10691314 original size:16 final size:16
Alignment explanation
Indices: 10691289--10691320 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10691279 TTAGAATTCA
10691289 CACCAACTTTCCCAAT
1 CACCAACTTTCCCAAT
*
10691305 CACCATCTTTCCCAAT
1 CACCAACTTTCCCAAT
10691321 TAATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.44, G:0.00, T:0.28
Consensus pattern (16 bp):
CACCAACTTTCCCAAT
Found at i:10693958 original size:17 final size:17
Alignment explanation
Indices: 10693936--10693979 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
10693926 TTGATGAAAA
10693936 TGAGTTGTCATTGACAT
1 TGAGTTGTCATTGACAT
10693953 TGAGTTGTCATTGACAT
1 TGAGTTGTCATTGACAT
* *
10693970 AGAGATGTCA
1 TGAGTTGTCA
10693980 GAATTGATAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.27, C:0.11, G:0.25, T:0.36
Consensus pattern (17 bp):
TGAGTTGTCATTGACAT
Found at i:10709309 original size:23 final size:20
Alignment explanation
Indices: 10709267--10709310 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 20
10709257 ATTGAAAATG
*
10709267 GATGAATTAAGCTTTAATTT
1 GATGAATTAAGCTTAAATTT
10709287 GATGTAATTATAGCCTTAAATTT
1 GATG-AATTA-AG-CTTAAATTT
10709310 G
1 G
10709311 TCCAAAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 4 0.20
21 5 0.25
22 2 0.10
23 9 0.45
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (20 bp):
GATGAATTAAGCTTAAATTT
Found at i:10709433 original size:391 final size:390
Alignment explanation
Indices: 10708704--10709456 Score: 1159
Period size: 391 Copynumber: 1.9 Consensus size: 390
10708694 GTTTATTATG
* *
10708704 CAAAAAGTTCTAAGTACAAATGCAATGGAGGTACCTATTTATAGTGTTGATAGGAACCATATAAA
1 CAAAAAGTTCTAAGTACAAATACAATAGAGGTACCTATTTATAGTGTTGATAGGAACCATATAAA
* * *
10708769 GAGTTTTTACAATTAAAATAAAACAATCACCTAAATGCAATTGAATTCAATTAAATGGCTTGTCA
66 GAGTTTTTACAATTAAAATAAAACAATCACCTAAATGAAATTGAATTCAATTAAACGACTTGTCA
*
10708834 TTCTTCTTATCCTTTGATGGTTGAACATGTAGATTGAAAATGGATGAATTAAGCTTTAATTTGAG
131 TTCTTCTTATCATTTGATGGTTGAACATGTAGATTGAAAATGGATGAATTAAGCTTTAATTTGAG
* * *
10708899 ATAATTCTAACCTTAAATTCATCTAAAAAGGAGCAGTGACTCTTGAGTTGCCCTATTTTGCTTGC
196 ATAATTATAACCTTAAATTCATCCAAAAAGGAGCAGTGACTCTTGAGCTGCCCTATTTTGCTTGC
* * *
10708964 AAATGGAAGAAAATAGGTTAAATGAAGTCATAGGATGAATGTGGACATCCTACATGTCTAAATCA
261 AAATGGAAGAAAAGAGGTTAAATAAAGTCATAGGATGAATGTGGACATCCTACATGTCCAAATCA
* *
10709029 GCTTGTTTCTTCAAATTCATTGCTGATTTCATCAATTTTTTTTGGTAAAAATTAAATAAAATCAG
326 ACTTGTCTCTTCAAATTCATTGCTGATTTCAT-AATTTTTTTTGGTAAAAATTAAATAAAATCAG
10709094 C
390 C
* * * *
10709095 CAAAAAGTTCTTAGTACAAATACAATAGAGGTACCTATTTATAGTGTTTATAGGTACCATATGAA
1 CAAAAAGTTCTAAGTACAAATACAATAGAGGTACCTATTTATAGTGTTGATAGGAACCATATAAA
*
10709160 GAGTTTTTACAATTAAAATAAAACAATCACCTAAATTAAATTGAATTCAATTAAACGACTTGTCA
66 GAGTTTTTACAATTAAAATAAAACAATCACCTAAATGAAATTGAATTCAATTAAACGACTTGTCA
* * *
10709225 TTCTTCTTATCATTTGTTGGTTGACCATGTTGATTGAAAATGGATGAATTAAGCTTTAATTTGAT
131 TTCTTCTTATCATTTGATGGTTGAACATGTAGATTGAAAATGGATGAATTAAGCTTTAATTTGA-
* ** ** * * *
10709290 G-TAATTATAGCCTTAAATTTGTCCAAAAAGGAGGGGTGATTCTTGGGCTGCCTTGATTTT-CTT
195 GATAATTATAACCTTAAATTCATCCAAAAAGGAGCAGTGACTCTTGAGCTGCCCT-ATTTTGCTT
* *
10709353 GCAAATGGAAGAAAAGAGGTTAAATAAAGTCATATGATGAATGTGGACATCTTACATGTCCAAAT
259 GCAAATGGAAGAAAAGAGGTTAAATAAAGTCATAGGATGAATGTGGACATCCTACATGTCCAAAT
* *
10709418 CAACTTGTCTCTTCAAATTCCTTGTTGATTTCATAATTT
324 CAACTTGTCTCTTCAAATTCATTGCTGATTTCATAATTT
10709457 AATATGGTGA
Statistics
Matches: 326, Mismatches: 34, Indels: 5
0.89 0.09 0.01
Matches are distributed among these distances:
390 5 0.02
391 315 0.97
392 6 0.02
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (390 bp):
CAAAAAGTTCTAAGTACAAATACAATAGAGGTACCTATTTATAGTGTTGATAGGAACCATATAAA
GAGTTTTTACAATTAAAATAAAACAATCACCTAAATGAAATTGAATTCAATTAAACGACTTGTCA
TTCTTCTTATCATTTGATGGTTGAACATGTAGATTGAAAATGGATGAATTAAGCTTTAATTTGAG
ATAATTATAACCTTAAATTCATCCAAAAAGGAGCAGTGACTCTTGAGCTGCCCTATTTTGCTTGC
AAATGGAAGAAAAGAGGTTAAATAAAGTCATAGGATGAATGTGGACATCCTACATGTCCAAATCA
ACTTGTCTCTTCAAATTCATTGCTGATTTCATAATTTTTTTTGGTAAAAATTAAATAAAATCAGC
Found at i:10709699 original size:24 final size:24
Alignment explanation
Indices: 10709679--10709727 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
10709669 AACCCTTGGT
10709679 TTGAATGATTAAATCAACCTTGAA
1 TTGAATGATTAAATCAACCTTGAA
* * *
10709703 TTGGATGATTACATCATCCTTGAA
1 TTGAATGATTAAATCAACCTTGAA
10709727 T
1 T
10709728 GATTTGAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (24 bp):
TTGAATGATTAAATCAACCTTGAA
Found at i:10710148 original size:18 final size:18
Alignment explanation
Indices: 10710109--10710151 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
10710099 TATAAAGAGC
* *
10710109 TAGTTT-AATTAATGAAC
1 TAGTTTAAATGAATGAAA
*
10710126 CAGTTTAAATGAATGAAA
1 TAGTTTAAATGAATGAAA
10710144 TAGTTTAA
1 TAGTTTAA
10710152 TTAGTCAACT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.44, C:0.05, G:0.14, T:0.37
Consensus pattern (18 bp):
TAGTTTAAATGAATGAAA
Found at i:10711717 original size:44 final size:44
Alignment explanation
Indices: 10711648--10711912 Score: 354
Period size: 44 Copynumber: 6.0 Consensus size: 44
10711638 TGTTACCGAA
* * *
10711648 ATAAATGAAAATGCATAAGGGTGCATTATTGGCATAAATGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* **
10711692 ATGAA-GAAAAATGCATAACAATGCATTATTGGCAGAAAGGTGCC
1 ATAAATG-AAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
*
10711736 ATAAATGAAAATGCATAACGGTGCATTATTGGTAGAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* * *
10711780 ATAAATGAAAATGAATAACGGTGCATTATTGGCATAAAGGTGCA
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* * * *
10711824 AT-AATCGAAAATTCATAACAGTGCATTATTGGCAGAAATGTGTC
1 ATAAAT-GAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* *
10711868 ATAAATGAAAATGTATAATGGTGCATTATTGGCAGAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
10711912 A
1 A
10711913 CTCATGGTAT
Statistics
Matches: 190, Mismatches: 27, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
43 4 0.02
44 182 0.96
45 4 0.02
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (44 bp):
ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
Found at i:10711758 original size:25 final size:24
Alignment explanation
Indices: 10711730--10711803 Score: 59
Period size: 25 Copynumber: 3.2 Consensus size: 24
10711720 TTGGCAGAAA
10711730 GGTGCCATAAATGAAAATGCATAAC
1 GGTGCCATAAATGAAAATG-ATAAC
* * **
10711755 GGTG-CATTATTG-GTA-GA-AA-
1 GGTGCCATAAATGAAAATGATAAC
10711774 GGTGCCATAAATGAAAATGAATAAC
1 GGTGCCATAAATGAAAATG-ATAAC
10711799 GGTGC
1 GGTGC
10711804 ATTATTGGCA
Statistics
Matches: 35, Mismatches: 8, Indels: 12
0.64 0.15 0.22
Matches are distributed among these distances:
19 4 0.11
20 8 0.23
21 2 0.06
22 2 0.06
23 2 0.06
24 8 0.23
25 9 0.26
ACGTcount: A:0.39, C:0.12, G:0.26, T:0.23
Consensus pattern (24 bp):
GGTGCCATAAATGAAAATGATAAC
Found at i:10711891 original size:132 final size:132
Alignment explanation
Indices: 10711648--10711912 Score: 399
Period size: 132 Copynumber: 2.0 Consensus size: 132
10711638 TGTTACCGAA
* * * *
10711648 ATAAATGAAAATGCATAAGGGTGCATTATTGGCATAAATGTGCCATGAAGAAAAATGCATAACAA
1 ATAAATGAAAATGAATAACGGTGCATTATTGGCATAAAGGTGCAATGAAGAAAAATGCATAACAA
*
10711713 TGCATTATTGGCAGAAAGGTGCCATAAATGAAAATGCATAACGGTGCATTATTGGTAGAAAGGTG
66 TGCATTATTGGCAGAAAGGTGCCATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTG
10711778 CC
131 CC
*
10711780 ATAAATGAAAATGAATAACGGTGCATTATTGGCATAAAGGTGCAAT-AATCG-AAAATTCATAAC
1 ATAAATGAAAATGAATAACGGTGCATTATTGGCATAAAGGTGCAATGAA--GAAAAATGCATAAC
* * * * *
10711843 AGTGCATTATTGGCAGAAATGTGTCATAAATGAAAATGTATAATGGTGCATTATTGGCAGAAAGG
64 AATGCATTATTGGCAGAAAGGTGCCATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGG
10711908 TGCC
129 TGCC
10711912 A
1 A
10711913 CTCATGGTAT
Statistics
Matches: 120, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
131 2 0.02
132 117 0.98
133 1 0.01
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (132 bp):
ATAAATGAAAATGAATAACGGTGCATTATTGGCATAAAGGTGCAATGAAGAAAAATGCATAACAA
TGCATTATTGGCAGAAAGGTGCCATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTG
CC
Found at i:10717801 original size:44 final size:44
Alignment explanation
Indices: 10717750--10717956 Score: 265
Period size: 44 Copynumber: 4.7 Consensus size: 44
10717740 TGTTACTAAA
* *
10717750 ATAAATGAAAATGCATAACGGCGCATTATTGACAGAAATGTACC
1 ATAAATGAAAATGCATAACGGTGCATTATTGACAGAAATGTGCC
* *
10717794 CTAAATGAAAATCCATAACGGTGCATTATTTGGA-AGAAATGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTA-TT-GACAGAAATGTGCC
* * * *
10717839 ATAAATGAAAATGTATAAAGGTGCATTATTGGCAGAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGACAGAAATGTGCC
* * * *
10717883 ATAAATGAAAAAGCATAACGGTGCATTATTGGCAAAAATGTTCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGACAGAAATGTGCC
*
10717927 ATAAATGAAAATGCATAATGGTGCA-TATTG
1 ATAAATGAAAATGCATAACGGTGCATTATTG
10717957 GCATAATGGT
Statistics
Matches: 142, Mismatches: 18, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
43 6 0.04
44 98 0.69
45 36 0.25
46 2 0.01
ACGTcount: A:0.42, C:0.13, G:0.20, T:0.26
Consensus pattern (44 bp):
ATAAATGAAAATGCATAACGGTGCATTATTGACAGAAATGTGCC
Found at i:10717865 original size:89 final size:88
Alignment explanation
Indices: 10717750--10717956 Score: 283
Period size: 89 Copynumber: 2.4 Consensus size: 88
10717740 TGTTACTAAA
* * * * *
10717750 ATAAATGAAAATGCATAACGGCGCATTATTGACAGAAATGTACCCTAAATGAAAATCCATAACGG
1 ATAAATGAAAATGCATAAAGGTGCATTATTGACAGAAAGGTACCATAAATGAAAAACCATAACGG
10717815 TGCATTATTTGG-AAGAAATGTGCC
66 TGCATTA-TTGGCAA-AAATGTGCC
* * * *
10717839 ATAAATGAAAATGTATAAAGGTGCATTATTGGCAGAAAGGTGCCATAAATGAAAAAGCATAACGG
1 ATAAATGAAAATGCATAAAGGTGCATTATTGACAGAAAGGTACCATAAATGAAAAACCATAACGG
*
10717904 TGCATTATTGGCAAAAATGTTCC
66 TGCATTATTGGCAAAAATGTGCC
*
10717927 ATAAATGAAAATGCATAATGGTGCA-TATTG
1 ATAAATGAAAATGCATAAAGGTGCATTATTG
10717957 GCATAATGGT
Statistics
Matches: 105, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
87 5 0.05
88 35 0.33
89 65 0.62
ACGTcount: A:0.42, C:0.13, G:0.20, T:0.26
Consensus pattern (88 bp):
ATAAATGAAAATGCATAAAGGTGCATTATTGACAGAAAGGTACCATAAATGAAAAACCATAACGG
TGCATTATTGGCAAAAATGTGCC
Found at i:10717953 original size:10 final size:10
Alignment explanation
Indices: 10717938--10717986 Score: 52
Period size: 9 Copynumber: 5.3 Consensus size: 10
10717928 TAAATGAAAA
10717938 TGCATAATGG
1 TGCATAATGG
*
10717948 TGCAT-ATTG
1 TGCATAATGG
10717957 -GCATAATGG
1 TGCATAATGG
*
10717966 TGCAT-ATTG
1 TGCATAATGG
10717975 -GCATAATGG
1 TGCATAATGG
10717984 TGC
1 TGC
10717987 CACTCATGGT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
8 8 0.26
9 12 0.39
10 11 0.35
ACGTcount: A:0.27, C:0.12, G:0.29, T:0.33
Consensus pattern (10 bp):
TGCATAATGG
Found at i:10717962 original size:18 final size:18
Alignment explanation
Indices: 10717939--10717986 Score: 96
Period size: 18 Copynumber: 2.7 Consensus size: 18
10717929 AAATGAAAAT
10717939 GCATAATGGTGCATATTG
1 GCATAATGGTGCATATTG
10717957 GCATAATGGTGCATATTG
1 GCATAATGGTGCATATTG
10717975 GCATAATGGTGC
1 GCATAATGGTGC
10717987 CACTCATGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.27, C:0.12, G:0.29, T:0.31
Consensus pattern (18 bp):
GCATAATGGTGCATATTG
Found at i:10741492 original size:3 final size:3
Alignment explanation
Indices: 10741484--10741558 Score: 73
Period size: 3 Copynumber: 25.0 Consensus size: 3
10741474 ATTTATTAAT
* * * * *
10741484 TTA TTA TTA TTA ATA TTA TAA TAA TTA TAA TTA TTA TAA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10741531 TATA TTA TTA -TA TATA TTA TTA TTA TTA
1 T-TA TTA TTA TTA T-TA TTA TTA TTA TTA
10741559 AAAAATAATT
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
2 4 0.07
3 50 0.83
4 6 0.10
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:10742131 original size:20 final size:20
Alignment explanation
Indices: 10742087--10742125 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10742077 TTCTATACTG
*
10742087 GAATTTAATGTTTGAATGTT
1 GAATTTAATGTTAGAATGTT
*
10742107 GAATTTGATGTTAGAATGT
1 GAATTTAATGTTAGAATGT
10742126 GAAATTGTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (20 bp):
GAATTTAATGTTAGAATGTT
Found at i:10743535 original size:17 final size:15
Alignment explanation
Indices: 10743503--10743544 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
10743493 TGAAAAGTTG
*
10743503 GATATATTGGTATAT
1 GATATATTGATATAT
10743518 GATATATTGATATTTAT
1 GATATATTGATA--TAT
10743535 GATA-ATTGAT
1 GATATATTGAT
10743545 TAACATATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 11 0.46
16 6 0.25
17 7 0.29
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.48
Consensus pattern (15 bp):
GATATATTGATATAT
Found at i:10768967 original size:12 final size:11
Alignment explanation
Indices: 10768950--10769000 Score: 57
Period size: 12 Copynumber: 4.4 Consensus size: 11
10768940 TTCGAAGAGG
10768950 TTTTATATTTAA
1 TTTTATA-TTAA
10768962 TTTTATATTATA
1 TTTTATATTA-A
* *
10768974 TTTGATTTTAA
1 TTTTATATTAA
10768985 TTTTCATATTAA
1 TTTT-ATATTAA
10768997 TTTT
1 TTTT
10769001 TTAAATAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 7 0.21
12 26 0.79
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (11 bp):
TTTTATATTAA
Found at i:10769017 original size:24 final size:28
Alignment explanation
Indices: 10768990--10769059 Score: 80
Period size: 26 Copynumber: 2.7 Consensus size: 28
10768980 TTTAATTTTC
10768990 ATATTAATTTTTTAA-A-TAAATTA-A-
1 ATATTAATTTTTTAATATTAAATTATAG
* *
10769014 ATATTAATTATTTAATATTATATTATAG
1 ATATTAATTTTTTAATATTAAATTATAG
10769042 ATATTAA--TTTTAATATTA
1 ATATTAATTTTTTAATATTA
10769060 TTTTTTTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
24 14 0.36
25 1 0.03
26 16 0.41
27 1 0.03
28 7 0.18
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (28 bp):
ATATTAATTTTTTAATATTAAATTATAG
Found at i:10769032 original size:14 final size:14
Alignment explanation
Indices: 10769013--10769103 Score: 54
Period size: 14 Copynumber: 6.9 Consensus size: 14
10769003 AAATAAATTA
10769013 AATATTAATTATTT
1 AATATTAATTATTT
10769027 AATATT-A-TATTAT
1 AATATTAATTATT-T
10769040 AGATATTAA-T-TTT
1 A-ATATTAATTATTT
* *
10769053 AATATTATTTTTTT
1 AATATTAATTATTT
*
10769067 AA-A-TAA--ATTA
1 AATATTAATTATTT
* *
10769077 AAAATTAATTTTTT
1 AATATTAATTATTT
10769091 AATATTATATTAT
1 AATATTA-ATTAT
10769104 AGATATTTAA
Statistics
Matches: 59, Mismatches: 8, Indels: 19
0.69 0.09 0.22
Matches are distributed among these distances:
10 4 0.07
11 1 0.02
12 15 0.25
13 7 0.12
14 26 0.44
15 6 0.10
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (14 bp):
AATATTAATTATTT
Found at i:10769059 original size:12 final size:12
Alignment explanation
Indices: 10768958--10769063 Score: 60
Period size: 12 Copynumber: 8.7 Consensus size: 12
10768948 GGTTTTATAT
10768958 TTAATTTT-ATA
1 TTAATTTTAATA
* *
10768969 TT-ATATTTGATT
1 TTAAT-TTTAATA
*
10768981 TTAATTTTCATA
1 TTAATTTTAATA
10768993 TTAATTTTTTAA-A
1 TTAA--TTTTAATA
* *
10769006 -TAAATTAAATA
1 TTAATTTTAATA
10769017 TTAATTATTTAATA
1 TTAA-T-TTTAATA
*
10769031 TTATATTATAGATA
1 TTA-ATTTTA-ATA
10769045 TTAATTTTAATA
1 TTAATTTTAATA
10769057 TT-ATTTT
1 TTAATTTT
10769064 TTTAAATAAA
Statistics
Matches: 74, Mismatches: 10, Indels: 22
0.70 0.09 0.21
Matches are distributed among these distances:
10 6 0.08
11 11 0.15
12 24 0.32
13 11 0.15
14 21 0.28
15 1 0.01
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.58
Consensus pattern (12 bp):
TTAATTTTAATA
Found at i:10769065 original size:64 final size:64
Alignment explanation
Indices: 10768961--10769160 Score: 235
Period size: 64 Copynumber: 3.1 Consensus size: 64
10768951 TTTATATTTA
* * * *
10768961 ATTTTATATTATATT-T-GATTTTAATTTTCATATTAATTTTTTAAATAAATTAAATATTAATT
1 ATTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAAAATTAATT
*
10769023 ATTTAATATTATATTATAGATATTAATTTTAATATTATTTTTTTAAATAAATTAAAAATTAATT
1 ATTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAAAATTAATT
* * * *
10769087 TTTTAATATTATATTATAGATATTTAATTTATATCATATAAATTATTTTATATATTATTAAAAA-
1 ATTTAATATTATATTATAGATA-TTAATTT-TA--ATATTAATT-TTTTAAATA-AATTAAAAAT
*
10769151 AAATT
60 TAATT
10769156 ATTTA
1 ATTTA
10769161 TTTTAATTAT
Statistics
Matches: 118, Mismatches: 12, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
62 14 0.12
63 1 0.01
64 63 0.53
65 7 0.06
66 2 0.02
68 7 0.06
69 16 0.14
70 8 0.07
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (64 bp):
ATTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAAAATTAATT
Found at i:10769664 original size:31 final size:31
Alignment explanation
Indices: 10769627--10769686 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
10769617 TAGTTGTATG
* *
10769627 AATTATTTAAATTTCAGTATTGTAAAACTAA
1 AATTATTTAAATCTCAGTATTGCAAAACTAA
*
10769658 AATTATTTAAATCTCATTATTGCAAAACT
1 AATTATTTAAATCTCAGTATTGCAAAACT
10769687 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.42
Consensus pattern (31 bp):
AATTATTTAAATCTCAGTATTGCAAAACTAA
Found at i:10772851 original size:19 final size:21
Alignment explanation
Indices: 10772827--10772866 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10772817 TTAAAGAATT
10772827 TTGATG-AACAA-TATCGATA
1 TTGATGCAACAAGTATCGATA
*
10772846 TTGATGCAATAAGTATCGATA
1 TTGATGCAACAAGTATCGATA
10772867 CTAACATGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 4 0.22
21 8 0.44
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (21 bp):
TTGATGCAACAAGTATCGATA
Found at i:10773471 original size:46 final size:45
Alignment explanation
Indices: 10773404--10773540 Score: 202
Period size: 46 Copynumber: 3.0 Consensus size: 45
10773394 AAATGAATGA
*
10773404 ACAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
1 ACAAATGAAAATGCATAACGGTGCATTATCGGTATGAAAGG-TGCC
* *
10773450 ACAAATGAAAATGCATAACGGTGCATTATTGATATGAAAGGGTGCC
1 ACAAATGAAAATGCATAACGGTGCATTATCGGTATGAAA-GGTGCC
* * *
10773496 ACAAATGAAAATGCATAACAGTGCATTAACGGTATAAAAGGTGCC
1 ACAAATGAAAATGCATAACGGTGCATTATCGGTATGAAAGGTGCC
10773541 CCTCATGGTA
Statistics
Matches: 82, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
45 6 0.07
46 74 0.90
47 2 0.02
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (45 bp):
ACAAATGAAAATGCATAACGGTGCATTATCGGTATGAAAGGTGCC
Found at i:10775004 original size:5 final size:5
Alignment explanation
Indices: 10774986--10775036 Score: 50
Period size: 5 Copynumber: 9.8 Consensus size: 5
10774976 TATGAAGAAA
* *
10774986 AAAAG AAAATAG AAAAG AAAAG AAAA- ATAAAA AAAAT AAAAG AAAAG
1 AAAAG -AAA-AG AAAAG AAAAG AAAAG A-AAAG AAAAG AAAAG AAAAG
10775033 AAAA
1 AAAA
10775037 ATACAAATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
4 1 0.03
5 30 0.75
6 7 0.17
7 2 0.05
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (5 bp):
AAAAG
Found at i:10775005 original size:20 final size:19
Alignment explanation
Indices: 10774980--10775037 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
10774970 ACTTTTTATG
10774980 AAGAAAAAAAGAAAATAGAA
1 AAGAAAAAAAGAAAATA-AA
*
10775000 AAG-AAAAGA-AAAATAAA
1 AAGAAAAAAAGAAAATAAA
*
10775017 AA-AAATAAAAGAAAAGAAA
1 AAGAAA-AAAAGAAAATAAA
10775036 AA
1 AA
10775038 TACAAATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
17 6 0.19
18 9 0.28
19 14 0.44
20 3 0.09
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.05
Consensus pattern (19 bp):
AAGAAAAAAAGAAAATAAA
Found at i:10775009 original size:25 final size:25
Alignment explanation
Indices: 10774980--10775053 Score: 87
Period size: 25 Copynumber: 2.9 Consensus size: 25
10774970 ACTTTTTATG
*
10774980 AAGAAAAA-AAGAAAATAGAAAAGAA
1 AAGAAAAATAA-AAAAAAGAAAAGAA
*
10775005 AAGAAAAATAAAAAAAATAAAAGAA
1 AAGAAAAATAAAAAAAAGAAAAGAA
* *
10775030 AAGAAAAATACAAATAAATAAAAG
1 AAGAAAAATA-AAAAAAAGAAAAG
10775054 TGAGGTTCAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
25 30 0.68
26 14 0.32
ACGTcount: A:0.80, C:0.01, G:0.11, T:0.08
Consensus pattern (25 bp):
AAGAAAAATAAAAAAAAGAAAAGAA
Done.