Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167915.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_18, 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: 20765110
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 90000 characters in sequence are not A, C, G, or T
File 62 of 117
Found at i:13660027 original size:58 final size:58
Alignment explanation
Indices: 13659957--13660290 Score: 378
Period size: 58 Copynumber: 5.8 Consensus size: 58
13659947 TGCTTTTAAT
* *
13659957 TTTTTCTCAAAAATATTTTTTAAAAAATTTATTTTTAAGAAAAATTGATACTTTCAAC
1 TTTTTCTTAAAAATATTTTTTAAAAAATTTATTTTCAAGAAAAATTGATACTTTCAAC
* *
13660015 TTTTTCTTAAAAATATATTTTTTAAAAAGTTTATTTTCAAGGAAAATTGATACTTTCAAC
1 TTTTTCTT-AAAA-ATATTTTTTAAAAAATTTATTTTCAAGAAAAATTGATACTTTCAAC
* * *
13660075 TTTTACTAAAAAATATTTTTTTAGAAAA-TTATTTTCAA-AGAAAATTGATACTTTCAA-
1 TTTTTCTTAAAAATA-TTTTTTAAAAAATTTATTTTCAAGA-AAAATTGATACTTTCAAC
* * * * *
13660132 TTTTTCCTTGAAAATATTTTTTAGAAAACTTATTTTCAAGGAAAATTAATACTTTCAAC
1 TTTTT-CTTAAAAATATTTTTTAAAAAATTTATTTTCAAGAAAAATTGATACTTTCAAC
* * * * *
13660191 TTTTTCTTAAAACTATTTTTTTAGAAAA-TCATTTTCAAGGAAAATTGATATTTTCAAC
1 TTTTTCTTAAAAATA-TTTTTTAAAAAATTTATTTTCAAGAAAAATTGATACTTTCAAC
* *
13660249 TTTTT-TTCAAAAATATTTTTT-AGAATTTTATTTT-AA-AAAAAT
1 TTTTTCTT-AAAAATATTTTTTAAAAAATTTATTTTCAAGAAAAAT
13660291 CATTAAAAAA
Statistics
Matches: 240, Mismatches: 25, Indels: 25
0.83 0.09 0.09
Matches are distributed among these distances:
55 5 0.02
56 4 0.02
57 30 0.12
58 117 0.49
59 35 0.15
60 49 0.20
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.47
Consensus pattern (58 bp):
TTTTTCTTAAAAATATTTTTTAAAAAATTTATTTTCAAGAAAAATTGATACTTTCAAC
Found at i:13660296 original size:116 final size:115
Alignment explanation
Indices: 13659957--13660282 Score: 433
Period size: 116 Copynumber: 2.8 Consensus size: 115
13659947 TGCTTTTAAT
* * * *
13659957 TTTTTCTCAAAAATA-TTTTTTAAAAAATTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTC
1 TTTTTCTAAAAAATATTTTTTTAGAAAA-TTATTTTCAAGGAAAATTGATACTTTCAACTTTTTC
* *
13660021 TTAAAAATATATTTTTTAAAAAGTTTATTTTCAAGGAAAATTGATACTTTCAAC
65 TT-AAAA-ATATTTTTTAGAAA-TTTATTTTCAAGGAAAATTAATACTTTCAAC
* *
13660075 TTTTACTAAAAAATATTTTTTTAGAAAATTATTTTCAAAGAAAATTGATACTTTCAA-TTTTTCC
1 TTTTTCTAAAAAATATTTTTTTAGAAAATTATTTTCAAGGAAAATTGATACTTTCAACTTTTT-C
* *
13660139 TTGAAAATATTTTTTAGAAAACTTATTTTCAAGGAAAATTAATACTTTCAAC
65 TTAAAAATATTTTTTAG-AAATTTATTTTCAAGGAAAATTAATACTTTCAAC
* * * *
13660191 TTTTTCTTAAAACTATTTTTTTAGAAAATCATTTTCAAGGAAAATTGATATTTTCAACTTTTT-T
1 TTTTTCTAAAAAATATTTTTTTAGAAAATTATTTTCAAGGAAAATTGATACTTTCAACTTTTTCT
*
13660255 TCAAAAATATTTTTTAGAATTTTATTTT
66 T-AAAAATATTTTTTAGAAATTTATTTT
13660283 AAAAAAATCA
Statistics
Matches: 184, Mismatches: 19, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
115 11 0.06
116 104 0.57
117 16 0.09
118 42 0.23
119 11 0.06
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.48
Consensus pattern (115 bp):
TTTTTCTAAAAAATATTTTTTTAGAAAATTATTTTCAAGGAAAATTGATACTTTCAACTTTTTCT
TAAAAATATTTTTTAGAAATTTATTTTCAAGGAAAATTAATACTTTCAAC
Found at i:13660308 original size:5 final size:5
Alignment explanation
Indices: 13660298--13660345 Score: 55
Period size: 5 Copynumber: 9.6 Consensus size: 5
13660288 AATCATTAAA
*
13660298 AAAAT AAAAT AAAAT AAAAAT AAGAAT AAAA- AATA- AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT -AAAAT AA-AAT AAAAT AAAAT AAAAT AAAAT AAA
13660346 GAATACCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
4 6 0.16
5 22 0.58
6 10 0.26
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:13660317 original size:6 final size:6
Alignment explanation
Indices: 13660297--13660350 Score: 60
Period size: 6 Copynumber: 9.2 Consensus size: 6
13660287 AAATCATTAA
*
13660297 AAAAAT -AAAAT -AAAAT AAAAAT AAGAAT AAAAAAT AAAAAT -AAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT -AAAAAT AAAAAT AAAAAT
13660343 AAAGAAT A
1 AAA-AAT A
13660351 CCAAATAATT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
5 15 0.36
6 18 0.43
7 9 0.21
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:13660347 original size:25 final size:24
Alignment explanation
Indices: 13660303--13660350 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
13660293 TTAAAAAAAT
13660303 AAAATAAAATAAAAATAAGAATAA
1 AAAATAAAATAAAAATAAGAATAA
13660327 AAAATAAAA-ATAAAATAAAGAATA
1 AAAATAAAATA-AAAAT-AAGAATA
13660351 CCAAATAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 1 0.05
24 14 0.64
25 7 0.32
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (24 bp):
AAAATAAAATAAAAATAAGAATAA
Found at i:13660358 original size:19 final size:17
Alignment explanation
Indices: 13660297--13660350 Score: 74
Period size: 19 Copynumber: 3.1 Consensus size: 17
13660287 AAATCATTAA
13660297 AAAAATAAAAT-AAAAT
1 AAAAATAAAATAAAAAT
13660313 AAAAATAAGAATAAAAAAT
1 AAAAATAA-AAT-AAAAAT
13660332 AAAAATAAAATAAAGAAT
1 AAAAATAAAATAAA-AAT
13660350 A
1 A
13660351 CCAAATAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
16 8 0.24
17 6 0.18
18 7 0.21
19 13 0.38
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.17
Consensus pattern (17 bp):
AAAAATAAAATAAAAAT
Found at i:13660358 original size:25 final size:25
Alignment explanation
Indices: 13660303--13660350 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
13660293 TTAAAAAAAT
13660303 AAAAT-AAAATAAAAATAAGAATAA
1 AAAATAAAAATAAAAATAAGAATAA
13660327 AAAATAAAAAT-AAAATAAAGAATA
1 AAAATAAAAATAAAAAT-AAGAATA
13660351 CCAAATAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (25 bp):
AAAATAAAAATAAAAATAAGAATAA
Found at i:13661094 original size:26 final size:26
Alignment explanation
Indices: 13661065--13661162 Score: 114
Period size: 26 Copynumber: 3.8 Consensus size: 26
13661055 ATCAAGAAAA
13661065 AGATAAAATAAAAAATATATATTAAT
1 AGATAAAATAAAAAATATATATTAAT
* *
13661091 AGATAAAATATAAAATTTATATTAAT
1 AGATAAAATAAAAAATATATATTAAT
*
13661117 AGAT-AAAT--AAAA-ATACATTAAT
1 AGATAAAATAAAAAATATATATTAAT
*
13661139 AGATTAATAATAAAAACTATATAT
1 AGA-TAA-AATAAAAAATATATAT
13661163 ATATTGATAA
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
22 11 0.18
23 5 0.08
24 1 0.02
25 7 0.12
26 28 0.47
27 3 0.05
28 5 0.08
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (26 bp):
AGATAAAATAAAAAATATATATTAAT
Found at i:13661138 original size:22 final size:22
Alignment explanation
Indices: 13661072--13661176 Score: 86
Period size: 25 Copynumber: 4.4 Consensus size: 22
13661062 AAAAGATAAA
*
13661072 ATAAA-AAATATATATTAATAG
1 ATAAATAAAAATATATTAATAG
13661093 ATAAAATATAAAATTTATATTAATAG
1 AT-AAATA-AAAA--TATATTAATAG
*
13661119 ATAAATAAAAATACATTAATAG
1 ATAAATAAAAATATATTAATAG
*
13661141 ATTAATAATAAAAACTATATATATATTG
1 A-T-A-AATAAAAA-TATAT-TA-ATAG
13661169 ATAAATAA
1 ATAAATAA
13661177 TAAAAATTAA
Statistics
Matches: 69, Mismatches: 4, Indels: 18
0.76 0.04 0.20
Matches are distributed among these distances:
21 2 0.03
22 14 0.20
23 2 0.03
24 8 0.12
25 18 0.26
26 18 0.26
27 3 0.04
28 4 0.06
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (22 bp):
ATAAATAAAAATATATTAATAG
Found at i:13661142 original size:48 final size:50
Alignment explanation
Indices: 13661072--13661176 Score: 121
Period size: 50 Copynumber: 2.2 Consensus size: 50
13661062 AAAAGATAAA
* * *
13661072 ATAAA-AAATATATATTAATAGA-TAA-AATATAAAA-TTTATAT-TAATAG
1 ATAAATAAAAATACATTAATAGATTAATAATA-AAAACTATATATAT-ATAG
*
13661119 ATAAATAAAAATACATTAATAGATTAATAATAAAAACTATATATATATTG
1 ATAAATAAAAATACATTAATAGATTAATAATAAAAACTATATATATATAG
13661169 ATAAATAA
1 ATAAATAA
13661177 TAAAAATTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
47 5 0.10
48 15 0.31
49 7 0.14
50 21 0.43
51 1 0.02
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (50 bp):
ATAAATAAAAATACATTAATAGATTAATAATAAAAACTATATATATATAG
Found at i:13661438 original size:41 final size:41
Alignment explanation
Indices: 13661393--13661489 Score: 133
Period size: 41 Copynumber: 2.4 Consensus size: 41
13661383 AGGCTCAATG
* * *
13661393 ACTTTGGAAAATAAATAACTCTTCT-AATCAAAGGCAACAGA
1 ACTTTGAAAAATAAATAACTCATCTAAAT-AAAGGCAACAAA
* *
13661434 ACTTTGAAAAATAAATAGCTCATCTAAATAGAGGCAACAAA
1 ACTTTGAAAAATAAATAACTCATCTAAATAAAGGCAACAAA
13661475 ACTTTGAAAAATAAA
1 ACTTTGAAAAATAAA
13661490 ATACTCCTTG
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
41 47 0.94
42 3 0.06
ACGTcount: A:0.51, C:0.14, G:0.11, T:0.24
Consensus pattern (41 bp):
ACTTTGAAAAATAAATAACTCATCTAAATAAAGGCAACAAA
Found at i:13673211 original size:58 final size:58
Alignment explanation
Indices: 13673146--13673370 Score: 296
Period size: 58 Copynumber: 3.9 Consensus size: 58
13673136 TTTCGAGATG
*
13673146 CTTTCAACTTTTCCTCAAAAATATTTTTTAAAAATTTTATTTTGAAGAAAAATTGATA
1 CTTTCAACTTTTCCTCAAAAATATTTTTTAAAAATTTTATTTTCAAGAAAAATTGATA
** * *
13673204 CTTTCAACTTTTTTTTAAAAATATATTTTTTAAAAATTTTATTTTCAAGAAAAATTAATA
1 CTTTCAAC-TTTTCCTCAAAA-ATATTTTTTAAAAATTTTATTTTCAAGAAAAATTGATA
* * *
13673264 CTTTTAACTTTTCTTCAAAAATATTTTTTTAGAAAA--TTATTTTCAAGAAAATTTGATA
1 CTTTCAACTTTTCCTCAAAAATA-TTTTTTA-AAAATTTTATTTTCAAGAAAAATTGATA
* *
13673322 CTTTTAACTTTTCCTCAAAAATATTTTTT-AGAATTTTATTTT-AAGAAAA
1 CTTTCAACTTTTCCTCAAAAATATTTTTTAAAAATTTTATTTTCAAGAAAA
13673371 TCATTAAGAA
Statistics
Matches: 149, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
55 3 0.02
56 7 0.05
57 13 0.09
58 53 0.36
59 26 0.17
60 47 0.32
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.48
Consensus pattern (58 bp):
CTTTCAACTTTTCCTCAAAAATATTTTTTAAAAATTTTATTTTCAAGAAAAATTGATA
Found at i:13673245 original size:60 final size:59
Alignment explanation
Indices: 13673162--13673370 Score: 259
Period size: 60 Copynumber: 3.6 Consensus size: 59
13673152 ACTTTTCCTC
* *
13673162 AAAAATATTTTTTAAAAATTTTATTTTGAAGAAAAATTGATACTTTCAACTTTTTTTTA
1 AAAAATATTTTTTAAAAATTTTATTTTCAAGAAAAATTGATACTTTTAACTTTTTTTTA
* * *
13673221 AAAATATATTTTTTAAAAATTTTATTTTCAAGAAAAATTAATACTTTTAAC-TTTTCTTC
1 AAAA-ATATTTTTTAAAAATTTTATTTTCAAGAAAAATTGATACTTTTAACTTTTTTTTA
* ** *
13673280 AAAAATATTTTTTTAGAAAA--TTATTTTCAAGAAAATTTGATACTTTTAAC-TTTTCCTC
1 AAAAATA-TTTTTTA-AAAATTTTATTTTCAAGAAAAATTGATACTTTTAACTTTTTTTTA
*
13673338 AAAAATATTTTTT-AGAATTTTATTTT-AAGAAAA
1 AAAAATATTTTTTAAAAATTTTATTTTCAAGAAAA
13673371 TCATTAAGAA
Statistics
Matches: 136, Mismatches: 9, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
55 3 0.02
56 7 0.05
57 13 0.10
58 45 0.33
59 21 0.15
60 47 0.35
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (59 bp):
AAAAATATTTTTTAAAAATTTTATTTTCAAGAAAAATTGATACTTTTAACTTTTTTTTA
Found at i:13673286 original size:118 final size:114
Alignment explanation
Indices: 13673146--13673370 Score: 301
Period size: 118 Copynumber: 1.9 Consensus size: 114
13673136 TTTCGAGATG
*
13673146 CTTTCAACTTTTCCTCAAAAATA-TTTTTTA-AAAATTTTATTTTGAAGAAAAATTGATACTTTC
1 CTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAA--TTATTTTCAAGAAAAATTGATACTTTC
**
13673209 AACTTTTTTTTAAAAATATATTTTTTAAAAATTTTATTTTCAAGAAAAATTAATA
64 AAC-TTTTCCTAAAAA-ATATTTTTT-AAAATTTTATTTT-AAGAAAAATTAATA
* * * *
13673264 CTTTTAACTTTTCTTCAAAAATATTTTTTTAGAAAATTATTTTCAAGAAAATTTGATACTTTTAA
1 CTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAATTATTTTCAAGAAAAATTGATACTTTCAA
* *
13673329 CTTTTCCTCAAAAATATTTTTTAGAATTTTATTTTAAGAAAA
66 CTTTTCCTAAAAAATATTTTTTAAAATTTTATTTTAAGAAAA
13673371 TCATTAAGAA
Statistics
Matches: 96, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
114 7 0.07
115 12 0.12
116 9 0.09
117 9 0.09
118 48 0.50
119 7 0.07
120 4 0.04
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.48
Consensus pattern (114 bp):
CTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAATTATTTTCAAGAAAAATTGATACTTTCAA
CTTTTCCTAAAAAATATTTTTTAAAATTTTATTTTAAGAAAAATTAATA
Found at i:13673399 original size:19 final size:18
Alignment explanation
Indices: 13673375--13673414 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
13673365 AGAAAATCAT
13673375 TAAGAAAAATAAATAAAAA
1 TAAGAAAAA-AAATAAAAA
* *
13673394 TAAGAATAAAAATTAAAA
1 TAAGAAAAAAAATAAAAA
13673412 TAA
1 TAA
13673415 AATAAGGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (18 bp):
TAAGAAAAAAAATAAAAA
Found at i:13673401 original size:12 final size:12
Alignment explanation
Indices: 13673386--13673504 Score: 82
Period size: 12 Copynumber: 9.7 Consensus size: 12
13673376 AAGAAAAATA
*
13673386 AATAAAAATAAG
1 AATAAAAATAAT
13673398 AATAAAAATTAA-
1 AATAAAAA-TAAT
*
13673410 AAT-AAAATAAGG
1 AATAAAAATAA-T
*
13673422 AATACCAAATAAT
1 AATA-AAAATAAT
**
13673435 TCTAATATAATAAT
1 AATAA-A-AATAAT
*
13673449 AATAATAATAAT
1 AATAAAAATAAT
*
13673461 AATAATAATAAT
1 AATAAAAATAAT
*
13673473 AATAATAATAA-
1 AATAAAAATAAT
*
13673484 AAGAAATAATAAT
1 AATAAA-AATAAT
13673497 AATAAAAA
1 AATAAAAA
13673505 AAGAAAAAAA
Statistics
Matches: 87, Mismatches: 11, Indels: 18
0.75 0.09 0.16
Matches are distributed among these distances:
10 3 0.03
11 8 0.09
12 50 0.57
13 11 0.13
14 15 0.17
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (12 bp):
AATAAAAATAAT
Found at i:13673449 original size:3 final size:3
Alignment explanation
Indices: 13673437--13673501 Score: 98
Period size: 3 Copynumber: 22.0 Consensus size: 3
13673427 CAAATAATTC
13673437 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
13673484 -AA GAAA TAA TAA TAA TAA
1 TAA -TAA TAA TAA TAA TAA
13673502 AAAAAGAAAA
Statistics
Matches: 58, Mismatches: 1, Indels: 6
0.89 0.02 0.09
Matches are distributed among these distances:
2 4 0.07
3 52 0.90
4 2 0.03
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:13673506 original size:21 final size:21
Alignment explanation
Indices: 13673446--13673510 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
13673436 CTAATATAAT
* *
13673446 AATAATAATAATAATAATAA-T
1 AATAATAATAATAA-AAAAAGA
*
13673467 AATAATAATAATAATAAAAGA
1 AATAATAATAATAAAAAAAGA
13673488 AATAATAATAATAAAAAAAGA
1 AATAATAATAATAAAAAAAGA
13673509 AA
1 AA
13673511 AAAAAACCTT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 3 0.08
21 36 0.92
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (21 bp):
AATAATAATAATAAAAAAAGA
Found at i:13674218 original size:22 final size:22
Alignment explanation
Indices: 13674177--13674232 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
13674167 AAAAGATAAA
* *
13674177 ATAAA-AAATATATATTAATAG
1 ATAAATAAAAATACATTAATAG
13674198 ATAAATAAAAATACATTAATAG
1 ATAAATAAAAATACATTAATAG
*
13674220 ATAAATAATAATA
1 ATAAATAAAAATA
13674233 AAAAATATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
21 5 0.16
22 26 0.84
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (22 bp):
ATAAATAAAAATACATTAATAG
Found at i:13674226 original size:8 final size:7
Alignment explanation
Indices: 13674193--13674286 Score: 56
Period size: 6 Copynumber: 13.3 Consensus size: 7
13674183 AATATATATT
13674193 AATAGATA
1 AATA-ATA
13674201 AATAA-A
1 AATAATA
*
13674207 AATACATT
1 AATA-ATA
13674215 AATAGATA
1 AATA-ATA
13674223 AATAAT-
1 AATAATA
*
13674229 AATAAAA
1 AATAATA
13674236 AAT-ATA
1 AATAATA
*
13674242 TATTAATA
1 -AATAATA
13674250 AATAATAA
1 AATAAT-A
13674258 AATAAAATA
1 AAT--AATA
13674267 AATAA-A
1 AATAATA
13674273 AAT-ATA
1 AATAATA
13674279 AAT-ATA
1 AATAATA
13674285 AA
1 AA
13674287 ATATAAAATG
Statistics
Matches: 70, Mismatches: 7, Indels: 20
0.72 0.07 0.21
Matches are distributed among these distances:
5 1 0.01
6 25 0.36
7 16 0.23
8 21 0.30
9 4 0.06
10 3 0.04
ACGTcount: A:0.69, C:0.01, G:0.02, T:0.28
Consensus pattern (7 bp):
AATAATA
Found at i:13674270 original size:31 final size:32
Alignment explanation
Indices: 13674192--13674270 Score: 92
Period size: 31 Copynumber: 2.5 Consensus size: 32
13674182 AAATATATAT
* *
13674192 TAATAGATAAATAAAAATACATTAATAGATAAA
1 TAATA-ATAAATAAATATACATTAATAAATAAA
*
13674225 TAATAATAAA-AAATATATATTAATAAAT-AA
1 TAATAATAAATAAATATACATTAATAAATAAA
13674255 TAA-AATAAAATAAATA
1 TAATAAT-AAATAAATA
13674271 AAAATATAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
29 3 0.07
30 8 0.20
31 20 0.49
32 5 0.12
33 5 0.12
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (32 bp):
TAATAATAAATAAATATACATTAATAAATAAA
Found at i:13674276 original size:27 final size:27
Alignment explanation
Indices: 13674220--13674289 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
13674210 ACATTAATAG
* **
13674220 ATAAATAATAATAA-AAAATATATATTA
1 ATAAATAATAA-AATAAAATAAATAAAA
13674247 ATAAATAATAAAATAAAATAAATAAAA
1 ATAAATAATAAAATAAAATAAATAAAA
13674274 ATATAA-ATATAAAATA
1 ATA-AATA-ATAAAATA
13674290 TAAAATGAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
26 2 0.05
27 25 0.68
28 10 0.27
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (27 bp):
ATAAATAATAAAATAAAATAAATAAAA
Found at i:13674279 original size:22 final size:22
Alignment explanation
Indices: 13674172--13674289 Score: 73
Period size: 22 Copynumber: 5.4 Consensus size: 22
13674162 AAAGAAAAAG
* *
13674172 ATAAAATAAA-AAATATATATTA
1 ATAAAATAAATAAAAATATA-AA
* * *
13674194 AT-AGATAAATAAAAATACATTA
1 ATAAAATAAATAAAAATATA-AA
* * *
13674216 AT-AGATAAATAATAATAAAAA
1 ATAAAATAAATAAAAATATAAA
* * *
13674237 ATATATATTAATAAATA-ATAAA
1 ATA-AAATAAATAAAAATATAAA
13674259 ATAAAATAAATAAAAATATAAA
1 ATAAAATAAATAAAAATATAAA
13674281 TATAAAATA
1 -ATAAAATA
13674290 TAAAATGAAC
Statistics
Matches: 77, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
21 19 0.25
22 41 0.53
23 17 0.22
ACGTcount: A:0.69, C:0.01, G:0.02, T:0.29
Consensus pattern (22 bp):
ATAAAATAAATAAAAATATAAA
Found at i:13674281 original size:6 final size:6
Alignment explanation
Indices: 13674247--13674293 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
13674237 ATATATATTA
*
13674247 ATAAAT AATAAA- ATAAA- ATAAAT AAAAAT ATAAAT ATAAAAT ATAAA
1 ATAAAT -ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT AT-AAAT ATAAA
13674294 ATGAACTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
5 10 0.28
6 15 0.42
7 11 0.31
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (6 bp):
ATAAAT
Found at i:13674290 original size:13 final size:12
Alignment explanation
Indices: 13674175--13674293 Score: 55
Period size: 12 Copynumber: 9.2 Consensus size: 12
13674165 GAAAAAGATA
13674175 AAATAAAAAATAT
1 AAAT-AAAAATAT
* * * *
13674188 ATATTAATAGAT
1 AAATAAAAATAT
13674200 AAATAAAAATACAT
1 AAATAAAAAT--AT
*
13674214 TAATAGATAAATA-
1 AAATA-A-AAATAT
13674227 ATAATAAAAAATAT
1 A-AAT-AAAAATAT
*
13674241 ATATTAATAAATAAT
1 A-AATAA-AAAT-AT
*
13674256 AAA-ATAAA-AT
1 AAATAAAAATAT
13674266 AAATAAAAATAT
1 AAATAAAAATAT
13674278 AAATATAAAATAT
1 AAATA-AAAATAT
13674291 AAA
1 AAA
13674294 ATGAACTTAT
Statistics
Matches: 80, Mismatches: 14, Indels: 24
0.68 0.12 0.20
Matches are distributed among these distances:
10 5 0.06
11 4 0.05
12 21 0.26
13 21 0.26
14 20 0.25
15 5 0.06
16 4 0.05
ACGTcount: A:0.69, C:0.01, G:0.02, T:0.29
Consensus pattern (12 bp):
AAATAAAAATAT
Found at i:13678501 original size:19 final size:19
Alignment explanation
Indices: 13678467--13678519 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
13678457 TATTAGTTCT
13678467 AATTAATTTA--AAAT-AA
1 AATTAATTTATTAAATAAA
*
13678483 AATTTATATTATTAAATAAA
1 AATTAAT-TTATTAAATAAA
13678503 AATTAATTTATTAAATA
1 AATTAATTTATTAAATA
13678520 TTTATAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 6 0.19
17 3 0.10
19 14 0.45
20 8 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
AATTAATTTATTAAATAAA
Found at i:13680402 original size:18 final size:19
Alignment explanation
Indices: 13680366--13680421 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
13680356 TAAGTGAAAC
*
13680366 TCCTATGTGAAACCCTAAA
1 TCCTAGGTGAAACCCTAAA
13680385 TCCTAGGTGAAA-CCTAAA
1 TCCTAGGTGAAACCCTAAA
* * *
13680403 ACCTTGAATGAAACCCTAA
1 TCCTAG-GTGAAACCCTAA
13680422 GTGAAACCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
18 10 0.32
19 16 0.52
20 5 0.16
ACGTcount: A:0.39, C:0.25, G:0.12, T:0.23
Consensus pattern (19 bp):
TCCTAGGTGAAACCCTAAA
Found at i:13683181 original size:6 final size:6
Alignment explanation
Indices: 13683154--13683254 Score: 62
Period size: 6 Copynumber: 15.7 Consensus size: 6
13683144 TAATATTGAT
* * *
13683154 AAAT-A AAATAA AAATGA GAATAA AAATAAA AAACTAA AAAAAGGA AAATTATA
1 AAATAA AAATAA AAATAA AAATAA AAAT-AA AAA-TAA AAATA--A AAA-TA-A
* *
13683207 AAAT-A AAATCAAA AAATAA AAATAAA AAATAA AAAGAA AAAGAA AAAT
1 AAATAA AAAT--AA AAATAA AAAT-AA AAATAA AAATAA AAATAA AAAT
13683255 CTATGATCGG
Statistics
Matches: 77, Mismatches: 9, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
5 9 0.12
6 36 0.47
7 17 0.22
8 14 0.18
9 1 0.01
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:13683227 original size:7 final size:7
Alignment explanation
Indices: 13683175--13683241 Score: 52
Period size: 7 Copynumber: 9.6 Consensus size: 7
13683165 AAATGAGAAT
13683175 AAAAATA
1 AAAAATA
13683182 AAAAACTA
1 AAAAA-TA
13683190 AAAAA-A
1 AAAAATA
*
13683196 GGAAAATTA
1 --AAAAATA
*
13683205 TAAAAT-
1 AAAAATA
13683211 -AAAATCA
1 AAAAAT-A
13683218 AAAAAT-
1 AAAAATA
13683224 AAAAATA
1 AAAAATA
13683231 AAAAATA
1 AAAAATA
13683238 AAAA
1 AAAA
13683242 GAAAAAGAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
5 5 0.10
6 7 0.14
7 20 0.41
8 16 0.33
9 1 0.02
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (7 bp):
AAAAATA
Found at i:13683241 original size:13 final size:13
Alignment explanation
Indices: 13683154--13683247 Score: 63
Period size: 13 Copynumber: 7.2 Consensus size: 13
13683144 TAATATTGAT
13683154 AAAT-AAAAT-AA
1 AAATAAAAATAAA
* *
13683165 AAATGAGAAT-AA
1 AAATAAAAATAAA
13683177 AAATAAAAAACTAAA
1 AAAT-AAAAA-TAAA
*
13683192 AAA-AGGAAAATTATA
1 AAATA--AAAA-TAAA
13683207 AAAT-AAAATCAAA
1 AAATAAAAAT-AAA
13683220 AAATAAAAATAAA
1 AAATAAAAATAAA
*
13683233 AAATAAAAAGAAA
1 AAATAAAAATAAA
13683246 AA
1 AA
13683248 GAAAAATCTA
Statistics
Matches: 67, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
11 4 0.06
12 11 0.16
13 31 0.46
14 6 0.09
15 15 0.22
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.15
Consensus pattern (13 bp):
AAATAAAAATAAA
Found at i:13683864 original size:20 final size:20
Alignment explanation
Indices: 13683839--13683878 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
13683829 ATTTATAAGT
13683839 TGTTTTGATAAAAAATTTGA
1 TGTTTTGATAAAAAATTTGA
*
13683859 TGTTTTGATAGAAAATTTGA
1 TGTTTTGATAAAAAATTTGA
13683879 GAATCAGACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (20 bp):
TGTTTTGATAAAAAATTTGA
Found at i:13684135 original size:3 final size:3
Alignment explanation
Indices: 13684097--13684375 Score: 258
Period size: 3 Copynumber: 95.0 Consensus size: 3
13684087 GGAAAGAAAT
* * * *
13684097 ATA AAA ATA A-A ATA AAA ATA AAA ATA A-A GCTA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
* * *
13684141 ATAA ATA ATA CTA ATA ATA ATC ATA ATA ATA ATG ATA ATA ATA AT-
1 AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
13684186 ATA AT- ATA AT- ATA AT- ATA AT- ATA AT- ATA CT- ATA ATA AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
13684227 ATA CTA GTA ATA ATA ACA ATA ACA ATA ATA ATAA ATAA ATAA ATA ATAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A AT-A AT-A ATA AT-A
* * * * * *
13684276 ATA ATA CTA CTA A-A A-A ATA ATA ATA GTA ATA GTA CTA GTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
13684322 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
13684370 ATA ATA
1 ATA ATA
13684376 CACATAAAAA
Statistics
Matches: 230, Mismatches: 31, Indels: 30
0.79 0.11 0.10
Matches are distributed among these distances:
2 22 0.10
3 190 0.83
4 18 0.08
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:13684695 original size:113 final size:111
Alignment explanation
Indices: 13684565--13684893 Score: 254
Period size: 111 Copynumber: 2.9 Consensus size: 111
13684555 AAGTGATCTT
* * *
13684565 GACTGAGCTGAGATCAAACGACTAGGATTGAACCACAAGTCTAAAAAAAATGATCTGGACTAAGC
1 GACTGAGCTGAGATCAAACGACTAAGATTGAACCACAAGTCT--AAAAAACGATCTAGACTAAGC
* * *
13684630 CAATATTGAATGACC-GAAACTAAATCGTAAGTCTGAAAAATCGACTTG
64 CAAGATTGAATGACCAG-AACTAAATCATAAGTATGAAAAATCGACTTG
* * * * * *
13684678 GACTGAG-TCGAGGTCAAATGATTAAGATTGAACTACAAGTCTGAAAAACGATCTAGACTAAGTC
1 GACTGAGCT-GAGATCAAACGACTAAGATTGAACCACAAGTCTAAAAAACGATCTAGACTAAGCC
* * * *
13684742 GAGATTGAATGACCAGGATTAAATCATAAGTATGAAAAAT-GA-TCTA
65 AAGATTGAATGACCAGAACTAAATCATAAGTATGAAAAATCGACT-TG
** * * * * * * * * * *
13684788 GACCAAGCCGAGATCAAATGACTAGGATTAAACTAAAAGTTTGGAAAAAACAATCTAGATTTAGC
1 GACTGAGCTGAGATCAAACGACTAAGATTGAACCACAAGTCT--AAAAAACGATCTAGACTAAGC
** * * *
13684853 CAAGATCAAATGACCAGGACT-AACCTATAAGTCTGAAAAAT
64 CAAGATTGAATGACCAGAACTAAATC-ATAAGTATGAAAAAT
13684894 TGAATTGGGT
Statistics
Matches: 173, Mismatches: 36, Indels: 15
0.77 0.16 0.07
Matches are distributed among these distances:
109 1 0.01
110 35 0.20
111 53 0.31
112 49 0.28
113 35 0.20
ACGTcount: A:0.43, C:0.16, G:0.19, T:0.22
Consensus pattern (111 bp):
GACTGAGCTGAGATCAAACGACTAAGATTGAACCACAAGTCTAAAAAACGATCTAGACTAAGCCA
AGATTGAATGACCAGAACTAAATCATAAGTATGAAAAATCGACTTG
Found at i:13684778 original size:55 final size:55
Alignment explanation
Indices: 13684714--13684871 Score: 156
Period size: 55 Copynumber: 2.8 Consensus size: 55
13684704 ATTGAACTAC
* * * **
13684714 AAGTCTGAAAAACGATCTAGACTAAGTCGAGATTGAATGACCAGGATTAAATCAT
1 AAGTATGAAAAACGATCTAGACCAAGCCGAGATCAAATGACCAGGATTAAATCAT
* * *
13684769 AAGTATGAAAAATGATCTAGACCAAGCCGAGATCAAATGACTAGGATTAAA-CTAA
1 AAGTATGAAAAACGATCTAGACCAAGCCGAGATCAAATGACCAGGATTAAATC-AT
* * *** *
13684824 AAGTTTGGAAAAAACAATCTAGATTTAGCCAAGATCAAATGACCAGGA
1 AAGTAT-G-AAAAACGATCTAGACCAAGCCGAGATCAAATGACCAGGA
13684872 CTAACCTATA
Statistics
Matches: 84, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 1 0.01
55 50 0.60
56 1 0.01
57 32 0.38
ACGTcount: A:0.45, C:0.15, G:0.19, T:0.22
Consensus pattern (55 bp):
AAGTATGAAAAACGATCTAGACCAAGCCGAGATCAAATGACCAGGATTAAATCAT
Found at i:13685407 original size:18 final size:18
Alignment explanation
Indices: 13685373--13685407 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
13685363 TCTCTTATGA
13685373 CATTACTCAATTATTAAT
1 CATTACTCAATTATTAAT
13685391 CATTATCTCAATT-TTAA
1 CATTA-CTCAATTATTAA
13685408 AATATGAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.46
Consensus pattern (18 bp):
CATTACTCAATTATTAAT
Found at i:13689246 original size:5 final size:5
Alignment explanation
Indices: 13689205--13689239 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
13689195 AAATATGGAT
13689205 AAATA AAATA AAATA AAATA AAATA GAAATCA AAA
1 AAATA AAATA AAATA AAATA AAATA -AAAT-A AAA
13689240 AATAAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 20 0.71
6 7 0.25
7 1 0.04
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.17
Consensus pattern (5 bp):
AAATA
Found at i:13690163 original size:5 final size:5
Alignment explanation
Indices: 13690148--13690201 Score: 63
Period size: 5 Copynumber: 10.8 Consensus size: 5
13690138 ATATAACAAC
* * * * *
13690148 AATAT AGTAT AATAT AACAT AATAT AATAT GATAT AATAG AATAT AATAG
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
13690198 AATA
1 AATA
13690202 GAAAATGAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.33
Consensus pattern (5 bp):
AATAT
Found at i:13690191 original size:20 final size:20
Alignment explanation
Indices: 13690137--13690201 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
13690127 AAAAAATGAA
* *
13690137 AATATAACAACAATATAGTAT
1 AATATAAC-AGAATATAATAT
*
13690158 AATATAACATAATATAATAT
1 AATATAACAGAATATAATAT
* * *
13690178 GATATAATAGAATATAATAG
1 AATATAACAGAATATAATAT
13690198 AATA
1 AATA
13690202 GAAAATGAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
20 29 0.78
21 8 0.22
ACGTcount: A:0.58, C:0.05, G:0.06, T:0.31
Consensus pattern (20 bp):
AATATAACAGAATATAATAT
Found at i:13690244 original size:3 final size:3
Alignment explanation
Indices: 13690223--13690288 Score: 114
Period size: 3 Copynumber: 22.0 Consensus size: 3
13690213 AGAAAAAGAA
* *
13690223 AAT AAT GAT AAT GAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
13690271 AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT
13690289 TGGACCTAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:13690694 original size:118 final size:119
Alignment explanation
Indices: 13690540--13691059 Score: 542
Period size: 118 Copynumber: 4.4 Consensus size: 119
13690530 TATCAAAATG
* * * * * *
13690540 AAACCATGAATTATTAGAGATGATCTAGATTGAGCCAAGATTAAGTGACCGGGACAAAACCATAA
1 AAACCATGAATCATCAGAGATGATCTGGATTAAGCCAAGATCAAGTGACCGGGACAAAACCACAA
*
13690605 GCCAAAAT-AAGTGACCAGGACCAAGTTGAGGTCGAAAATAAATGATTA-GAGCA
66 GCCAAAATAAAGTGACCAGGACCAAGTCGAGGTCGAAAATAAATGATTAGGA-CA
* * * **
13690658 AAACCAAGAATCATCAGAGATGATTTGGAGTAAGCCAAGATCAAGTGACCTAGACAAAACCACAA
1 AAACCATGAATCATCAGAGATGATCTGGATTAAGCCAAGATCAAGTGACCGGGACAAAACCACAA
** * * *
13690723 GCCAAAATAAAGCAACCAGGATCGAGTCGAGGTCG-AAATAAATGATCAGGACA
66 GCCAAAATAAAGTGACCAGGACCAAGTCGAGGTCGAAAATAAATGATTAGGACA
* * * * * * * * *
13690776 GAACCATGAATCATCAAAGATGATATGGATTGAGCTAAGATCAAGCGACCAGGATAAAACCATAA
1 AAACCATGAATCATCAGAGATGATCTGGATTAAGCCAAGATCAAGTGACCGGGACAAAACCACAA
* * * * * *
13690841 GCCTAAAATAAAATGACCGGGACCTAGTCAAGGTTGAAAATAAATGATTGGGACA
66 GCC-AAAATAAAGTGACCAGGACCAAGTCGAGGTCGAAAATAAATGATTAGGACA
* * * *
13690896 AAACCATGAATCATCAGAGATGATCTGGACTAAGTCAAGACCAAGTGACTGGGACAAAACCACAA
1 AAACCATGAATCATCAGAGATGATCTGGATTAAGCCAAGATCAAGTGACCGGGACAAAACCACAA
* ** *** * ** *
13690961 GCCAAAATAAAGCGACCAAAATTGAGTCAAGGTAAAAAATAAATGATTATGACA
66 GCCAAAATAAAGTGACCAGGACCAAGTCGAGGTCGAAAATAAATGATTAGGACA
* * * * *
13691015 GAACCACGAATCAACCGAGATGATCTGGATTGAGCCAAGATCAAG
1 AAACCATGAATCATCAGAGATGATCTGGATTAAGCCAAGATCAAG
13691060 CGATAAATAA
Statistics
Matches: 326, Mismatches: 72, Indels: 7
0.80 0.18 0.02
Matches are distributed among these distances:
118 132 0.40
119 123 0.38
120 71 0.22
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.17
Consensus pattern (119 bp):
AAACCATGAATCATCAGAGATGATCTGGATTAAGCCAAGATCAAGTGACCGGGACAAAACCACAA
GCCAAAATAAAGTGACCAGGACCAAGTCGAGGTCGAAAATAAATGATTAGGACA
Found at i:13690957 original size:238 final size:237
Alignment explanation
Indices: 13690541--13691062 Score: 672
Period size: 238 Copynumber: 2.2 Consensus size: 237
13690531 ATCAAAATGA
* * * * * *
13690541 AACCATGAATTATTAGAGATGATCTAGATTGAGCCAAGATTAAGTGACCGGGACAAAACCATAAG
1 AACCATGAATCATCAGAGATGATCTGGATTGAGCCAAGATCAAGCGACCAGGACAAAACCATAAG
* **
13690606 CCAAAATAAGTGACCAGGACCAAGTTGAGGTCGAAAATAAATGATTAGAGCAAAACCAAGAATCA
66 CCAAAATAAATGACCAGGACCAAGTCAAGGTCGAAAATAAATGATTAGAGCAAAACCAAGAATCA
* * *
13690671 TCAGAGATGATTTGGAGTAAGCCAAGATCAAGTGACCTAGACAAAACCACAAGCCAAAATAAAGC
131 TCAGAGATGATCTGGACTAAGCCAAGACCAAGTGACCTAGACAAAACCACAAGCCAAAATAAAGC
** * **
13690736 AACCAGGATCGAGTCGAGGT-CGAAATAAATGATCAGGACAG
196 AACCAAAATCGAGTCAAGGTAAAAAATAAATGATCAGGACAG
* * * *
13690777 AACCATGAATCATCAAAGATGATATGGATTGAGCTAAGATCAAGCGACCAGGATAAAACCATAAG
1 AACCATGAATCATCAGAGATGATCTGGATTGAGCCAAGATCAAGCGACCAGGACAAAACCATAAG
* * * * *
13690842 CCTAAAATAAAATGACCGGGACCTAGTCAAGGTTGAAAATAAATGATT-GGGACAAAACCATGAA
66 CC-AAAAT-AAATGACCAGGACCAAGTCAAGGTCGAAAATAAATGATTAGAG-CAAAACCAAGAA
* *
13690906 TCATCAGAGATGATCTGGACTAAGTCAAGACCAAGTGA-CTGGGACAAAACCACAAGCCAAAATA
128 TCATCAGAGATGATCTGGACTAAGCCAAGACCAAGTGACCT-AGACAAAACCACAAGCCAAAATA
* * * *
13690970 AAGCGACCAAAATTGAGTCAAGGTAAAAAATAAATGATTATGACAG
192 AAGCAACCAAAATCGAGTCAAGGTAAAAAATAAATGATCAGGACAG
* * *
13691016 AACCACGAATCAACCGAGATGATCTGGATTGAGCCAAGATCAAGCGA
1 AACCATGAATCATCAGAGATGATCTGGATTGAGCCAAGATCAAGCGA
13691063 TAAATAAAGT
Statistics
Matches: 243, Mismatches: 38, Indels: 7
0.84 0.13 0.02
Matches are distributed among these distances:
236 57 0.23
237 9 0.04
238 119 0.49
239 58 0.24
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.17
Consensus pattern (237 bp):
AACCATGAATCATCAGAGATGATCTGGATTGAGCCAAGATCAAGCGACCAGGACAAAACCATAAG
CCAAAATAAATGACCAGGACCAAGTCAAGGTCGAAAATAAATGATTAGAGCAAAACCAAGAATCA
TCAGAGATGATCTGGACTAAGCCAAGACCAAGTGACCTAGACAAAACCACAAGCCAAAATAAAGC
AACCAAAATCGAGTCAAGGTAAAAAATAAATGATCAGGACAG
Found at i:13691275 original size:172 final size:172
Alignment explanation
Indices: 13690989--13691332 Score: 589
Period size: 172 Copynumber: 2.0 Consensus size: 172
13690979 AAATTGAGTC
*
13690989 AAGGTAAAAAATAAATGATTATGACAGAACCACGAATCAACCGAGATGATCTGGATTGAGCCAAG
1 AAGGTAAAAAATAAATGATTAGGACAGAACCACGAATCAACCGAGATGATCTGGATTGAGCCAAG
*
13691054 ATCAAGCGATAAATAAAGTGATCAAGACCCAATCAAGGTCAAAAATAAATGATCAAGATAAAACT
66 ATCAAGCGATAAATAAAGTGACCAAGACCCAATCAAGGTCAAAAATAAATGATCAAGATAAAACT
* **
13691119 ATGAATTATCAGAGATAATTTCGACTAAGCCAAGATCAAATG
131 ACGAATTATCAGAGATAATTTAAACTAAGCCAAGATCAAATG
*
13691161 AAGGTAAAAAATAAATGATTAGGACTGAACCACGAATCAACCGAGATGATCTGGATTGAGCCAAG
1 AAGGTAAAAAATAAATGATTAGGACAGAACCACGAATCAACCGAGATGATCTGGATTGAGCCAAG
* * ** *
13691226 ATCAAGCGATAAATAAAGTGACCAAGACCCAATCGAGGTTAAAAATAAATGATCGGGATGAAACT
66 ATCAAGCGATAAATAAAGTGACCAAGACCCAATCAAGGTCAAAAATAAATGATCAAGATAAAACT
13691291 ACGAATTATCAGAGATAATTTAAACTAAGCCAAGATCAAATG
131 ACGAATTATCAGAGATAATTTAAACTAAGCCAAGATCAAATG
13691333 GGCAATTAAT
Statistics
Matches: 161, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
172 161 1.00
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.20
Consensus pattern (172 bp):
AAGGTAAAAAATAAATGATTAGGACAGAACCACGAATCAACCGAGATGATCTGGATTGAGCCAAG
ATCAAGCGATAAATAAAGTGACCAAGACCCAATCAAGGTCAAAAATAAATGATCAAGATAAAACT
ACGAATTATCAGAGATAATTTAAACTAAGCCAAGATCAAATG
Found at i:13695312 original size:19 final size:19
Alignment explanation
Indices: 13695290--13695327 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
13695280 ACTTTTTAAA
13695290 TTTCTCTTTGATTTTCAAT
1 TTTCTCTTTGATTTTCAAT
13695309 TTTCTCTTTGATTTTCAAT
1 TTTCTCTTTGATTTTCAAT
13695328 AGCATTTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.05, T:0.63
Consensus pattern (19 bp):
TTTCTCTTTGATTTTCAAT
Found at i:13697151 original size:16 final size:15
Alignment explanation
Indices: 13697130--13697159 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
13697120 TCTTTGGGAT
13697130 TTTTTATTTAGTTTAC
1 TTTTTATTTA-TTTAC
13697146 TTTTTATTTATTTA
1 TTTTTATTTATTTA
13697160 TTCAAAGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.73
Consensus pattern (15 bp):
TTTTTATTTATTTAC
Found at i:13703791 original size:14 final size:14
Alignment explanation
Indices: 13703772--13703800 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
13703762 TATATATATT
13703772 TTTGTAATGGATTA
1 TTTGTAATGGATTA
13703786 TTTGTAATGGATTA
1 TTTGTAATGGATTA
13703800 T
1 T
13703801 CCTATGCGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (14 bp):
TTTGTAATGGATTA
Found at i:13704149 original size:126 final size:126
Alignment explanation
Indices: 13703919--13704152 Score: 326
Period size: 126 Copynumber: 1.9 Consensus size: 126
13703909 AAAATTATGA
* ** *
13703919 AACAGATTCTTGAAGGTGTTTTTGATCAAAAGTGCCTTCAATAATCCAATCAATAAATTTTTAGG
1 AACAGATTCTTGAAGGTGTTTTTGACCAAAAGCACCTTCAATAATCCAAACAATAAATTTTTAGG
* * *
13703984 TGGGATTATAGAAGATGATTTTTGTCAAAAATATCTTCAATAATCCAAACAAAAAAATTGG
66 TGGGATTATAGAAGACGATTTTCGTCAAAAACATCTTCAATAATCCAAACAAAAAAATTGG
* * *
13704045 AACAGATTCTTGAAGGTGTTTTTGGCCCAAAGCACCTTTAATAATCCAAACAATAAATTTTTAGG
1 AACAGATTCTTGAAGGTGTTTTTGACCAAAAGCACCTTCAATAATCCAAACAATAAATTTTTAGG
* * * *
13704110 TGGGATTATTGAAGGCGGTTTTCGTCACAAACA-CATTCAATAA
66 TGGGATTATAGAAGACGATTTTCGTCAAAAACATC-TTCAATAA
13704153 CATTTTGTTA
Statistics
Matches: 93, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
125 1 0.01
126 92 0.99
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.32
Consensus pattern (126 bp):
AACAGATTCTTGAAGGTGTTTTTGACCAAAAGCACCTTCAATAATCCAAACAATAAATTTTTAGG
TGGGATTATAGAAGACGATTTTCGTCAAAAACATCTTCAATAATCCAAACAAAAAAATTGG
Found at i:13707495 original size:28 final size:28
Alignment explanation
Indices: 13707425--13707495 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
13707415 ACCATTCAGC
* * *
13707425 ATACTATTTAGCATACCAATATCATACA
1 ATACTATTTAGCAAAACAATATCACACA
* * * *
13707453 TTACCATTCAACAAAACAATATCACACA
1 ATACTATTTAGCAAAACAATATCACACA
13707481 ATACTATTTAGCAAA
1 ATACTATTTAGCAAA
13707496 CCATAATATT
Statistics
Matches: 32, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.46, C:0.23, G:0.03, T:0.28
Consensus pattern (28 bp):
ATACTATTTAGCAAAACAATATCACACA
Found at i:13710516 original size:21 final size:21
Alignment explanation
Indices: 13710491--13710531 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
13710481 ATTACGTAAA
13710491 TTGGTGATATTGATACTCAAG
1 TTGGTGATATTGATACTCAAG
* *
13710512 TTGGTGATCTTGATATTCAA
1 TTGGTGATATTGATACTCAA
13710532 AGTGATGAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (21 bp):
TTGGTGATATTGATACTCAAG
Found at i:13711705 original size:56 final size:56
Alignment explanation
Indices: 13711617--13711731 Score: 194
Period size: 56 Copynumber: 2.1 Consensus size: 56
13711607 TATGTTTTTT
*
13711617 TTCCATCATGACTCAATTGAATCATTTTGTACGTAAGTTTTCTTACAAAGAAATAA
1 TTCCATCATGACTCAATTGAATCATTTCGTACGTAAGTTTTCTTACAAAGAAATAA
* * *
13711673 TTCCATCGTGACTCAATTGAATCATTTCGTACGTAAGTTTTCTTGCAAGGAAATAA
1 TTCCATCATGACTCAATTGAATCATTTCGTACGTAAGTTTTCTTACAAAGAAATAA
13711729 TTC
1 TTC
13711732 ATTCCATTAA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.37
Consensus pattern (56 bp):
TTCCATCATGACTCAATTGAATCATTTCGTACGTAAGTTTTCTTACAAAGAAATAA
Found at i:13716106 original size:23 final size:23
Alignment explanation
Indices: 13716077--13716123 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
13716067 TATATCTATA
13716077 TATATATAGTAATAAGTAAATTT
1 TATATATAGTAATAAGTAAATTT
* * *
13716100 TATATATGGTAATATGTAACTTT
1 TATATATAGTAATAAGTAAATTT
13716123 T
1 T
13716124 TTATGAAAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.47
Consensus pattern (23 bp):
TATATATAGTAATAAGTAAATTT
Found at i:13719601 original size:17 final size:17
Alignment explanation
Indices: 13719582--13719613 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
13719572 GCATGCAAAA
13719582 AAAAATAGAAA-GAAAT
1 AAAAATAGAAATGAAAT
13719598 AAAAATAGAAATGAAA
1 AAAAATAGAAATGAAA
13719614 GCAAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (17 bp):
AAAAATAGAAATGAAAT
Found at i:13719619 original size:17 final size:17
Alignment explanation
Indices: 13719582--13719637 Score: 62
Period size: 17 Copynumber: 3.3 Consensus size: 17
13719572 GCATGCAAAA
*
13719582 AAAAATAGAAA-GAAAT
1 AAAAATAGAAATGAAAG
13719598 AAAAATAGAAATGAAAG
1 AAAAATAGAAATGAAAG
*
13719615 CAAAAA-AAAAATGAAAAG
1 -AAAAATAGAAATG-AAAG
13719633 AAAAA
1 AAAAA
13719638 CATGCTTGGG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
16 11 0.31
17 15 0.43
18 9 0.26
ACGTcount: A:0.77, C:0.02, G:0.12, T:0.09
Consensus pattern (17 bp):
AAAAATAGAAATGAAAG
Found at i:13721052 original size:59 final size:58
Alignment explanation
Indices: 13720977--13721122 Score: 215
Period size: 59 Copynumber: 2.5 Consensus size: 58
13720967 TGGTTATAAG
* *
13720977 TTTGTTTAAATTTGTTTGGGTTTTGGTTACCAATTTGTTGAGTTTTTGTTGGTTATT-TA
1 TTTGTTGAAATTTGTTTGGGTTTTGGTTACCAATTTGTTGAG-TTTTGTTGATT-TTATA
*
13721036 TTTGTTGAAATTTGTTT-AGTTTATGGTTACCAATTTGTTGAGTTTTGTTGATTTTATA
1 TTTGTTGAAATTTGTTTGGGTTT-TGGTTACCAATTTGTTGAGTTTTGTTGATTTTATA
*
13721094 TTTGTTGAAATTTGTATGGGTTTTGGTTA
1 TTTGTTGAAATTTGTTTGGGTTTTGGTTA
13721123 TTATATTTAT
Statistics
Matches: 79, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
57 2 0.03
58 38 0.48
59 39 0.49
ACGTcount: A:0.18, C:0.03, G:0.22, T:0.58
Consensus pattern (58 bp):
TTTGTTGAAATTTGTTTGGGTTTTGGTTACCAATTTGTTGAGTTTTGTTGATTTTATA
Found at i:13721121 original size:58 final size:58
Alignment explanation
Indices: 13720977--13721122 Score: 206
Period size: 58 Copynumber: 2.5 Consensus size: 58
13720967 TGGTTATAAG
* *
13720977 TTTGTTTAAATTTGTTTGGGTTTTGGTTACCAATTTGTTGAGTTTTTGTTGGTTATTTA
1 TTTGTTGAAATTTG-TTGGGTTTTGGTTACCAATTTGTTGAGTTTTTGTTGATTATTTA
**
13721036 TTTGTTGAAATTTGTTTAGTTTATGGTTACCAATTTGTTGAG-TTTTGTTGATT-TTATA
1 TTTGTTGAAATTTGTTGGGTTT-TGGTTACCAATTTGTTGAGTTTTTGTTGATTATT-TA
13721094 TTTGTTGAAATTTGTATGGGTTTTGGTTA
1 TTTGTTGAAATTTGT-TGGGTTTTGGTTA
13721123 TTATATTTAT
Statistics
Matches: 78, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
57 2 0.03
58 39 0.50
59 37 0.47
ACGTcount: A:0.18, C:0.03, G:0.22, T:0.58
Consensus pattern (58 bp):
TTTGTTGAAATTTGTTGGGTTTTGGTTACCAATTTGTTGAGTTTTTGTTGATTATTTA
Found at i:13728585 original size:21 final size:21
Alignment explanation
Indices: 13728551--13728590 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
13728541 TTAACTAACA
* *
13728551 AATTTTCACTATTATCGATAG
1 AATTTTCACCATTACCGATAG
*
13728572 AATTTTGACCATTACCGAT
1 AATTTTCACCATTACCGAT
13728591 GAAAAAAAAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (21 bp):
AATTTTCACCATTACCGATAG
Found at i:13729781 original size:32 final size:32
Alignment explanation
Indices: 13729703--13729781 Score: 88
Period size: 32 Copynumber: 2.5 Consensus size: 32
13729693 ATTTTGAAAT
13729703 CATTTTTAACCTTGGCTCAATCTAGTCATATC
1 CATTTTTAACCTTGGCTCAATCTAGTCATATC
* * * *
13729735 CATCTTTGAA-CTTGGGTCAATCTAGTCATCTT
1 CAT-TTTTAACCTTGGCTCAATCTAGTCATATC
* *
13729767 TATTTTTTACCTTGG
1 CATTTTTAACCTTGG
13729782 TTTAATCAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
31 4 0.11
32 29 0.76
33 5 0.13
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.44
Consensus pattern (32 bp):
CATTTTTAACCTTGGCTCAATCTAGTCATATC
Found at i:13730049 original size:32 final size:32
Alignment explanation
Indices: 13729939--13730083 Score: 130
Period size: 32 Copynumber: 4.5 Consensus size: 32
13729929 GCTCAGTCTG
* * * **
13729939 ATCACTTTTATTCTTAATCTAGGTTCAATCTG
1 ATCACTTTTATTTTTTATCTTGGTTCAATCCA
* ** * *
13729971 ATCACTTTCATTTTCGATGTTGACTT-AATCCA
1 ATCACTTTTATTTTTTATCTTG-GTTCAATCCA
13730003 ATCACTTTTATTTTTTATCTTGGTTCAATCCA
1 ATCACTTTTATTTTTTATCTTGGTTCAATCCA
* * *
13730035 ATCACTTTTATTTTTTACCTTGATTCAATCCG
1 ATCACTTTTATTTTTTATCTTGGTTCAATCCA
* * *
13730067 GTCACCTTAATTTTTTA
1 ATCACTTTTATTTTTTA
13730084 CGTTAGTTCA
Statistics
Matches: 91, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
31 2 0.02
32 87 0.96
33 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.08, T:0.49
Consensus pattern (32 bp):
ATCACTTTTATTTTTTATCTTGGTTCAATCCA
Found at i:13730065 original size:64 final size:64
Alignment explanation
Indices: 13729939--13730248 Score: 225
Period size: 64 Copynumber: 4.8 Consensus size: 64
13729929 GCTCAGTCTG
* * * ** **
13729939 ATCACTTTTATTCTTAATCTAGGTTCAATCTGATCACTTTCATTTTCGATGTTGACTTAATCCA
1 ATCACTTTTATTTTTTATCTTGGTTCAATCTGATCACTTTCATTTTTTACCTTGACTTAATCCA
** * *
13730003 ATCACTTTTATTTTTTATCTTGGTTCAATCCAATCACTTTTATTTTTTACCTTGA-TTCAATCCG
1 ATCACTTTTATTTTTTATCTTGGTTCAATCTGATCACTTTCATTTTTTACCTTGACTT-AATCCA
* * * * * * ** * * * *
13730067 GTCACCTTAATTTTTTA-CGTTAGTTCAATTTGGTCACTTTTGTTTTTAACCTTAACTTAGTCTA
1 ATCACTTTTATTTTTTATC-TTGGTTCAATCTGATCACTTTCATTTTTTACCTTGACTTAATCCA
* * * * * * *
13730131 GTCACTTTTATTTTTTACCTCGGTTCAATCTGATCACGTTCATTTTTTACCTT-AGCTCAGTCCG
1 ATCACTTTTATTTTTTATCTTGGTTCAATCTGATCACTTTCATTTTTTACCTTGA-CTTAATCCA
* * * * *
13730195 ATCACCTTTATTTTTTACCTCT-GTTTAATCTGGTCATCTTT-TTTTTTTACCTTG
1 ATCACTTTTATTTTTTATCT-TGGTTCAATCTGATCA-CTTTCATTTTTTACCTTG
13730249 GCTCAGTTCG
Statistics
Matches: 193, Mismatches: 45, Indels: 15
0.76 0.18 0.06
Matches are distributed among these distances:
63 4 0.02
64 183 0.95
65 6 0.03
ACGTcount: A:0.20, C:0.21, G:0.09, T:0.50
Consensus pattern (64 bp):
ATCACTTTTATTTTTTATCTTGGTTCAATCTGATCACTTTCATTTTTTACCTTGACTTAATCCA
Found at i:13730084 original size:32 final size:32
Alignment explanation
Indices: 13730004--13730248 Score: 156
Period size: 32 Copynumber: 7.7 Consensus size: 32
13729994 CTTAATCCAA
* * * ***
13730004 TCACTTTTATTTTTTATCTTGGTTCAATCCAA
1 TCACCTTTATTTTTTACCTTGATTCAATCTGG
* *
13730036 TCACTTTTATTTTTTACCTTGATTCAATCCGG
1 TCACCTTTATTTTTTACCTTGATTCAATCTGG
* * *
13730068 TCACCTTAATTTTTTACGTT-AGTTCAATTTGG
1 TCACCTTTATTTTTTACCTTGA-TTCAATCTGG
* * * * * *
13730100 TCACTTTTGTTTTTAACCTTAACTT-AGTCTAG
1 TCACCTTTATTTTTTACCTTGA-TTCAATCTGG
* * * *
13730132 TCACTTTTATTTTTTACCTCGGTTCAATCTGA
1 TCACCTTTATTTTTTACCTTGATTCAATCTGG
* * * * * *
13730164 TCACGTTCATTTTTTACCTT-AGCTCAGTCCGA
1 TCACCTTTATTTTTTACCTTGA-TTCAATCTGG
*
13730196 TCACCTTTATTTTTTACCTCTG-TTTAATCTGG
1 TCACCTTTATTTTTTACCT-TGATTCAATCTGG
* *
13730228 TCATCTTTTTTTTTTACCTTG
1 TCACCTTTATTTTTTACCTTG
13730249 GCTCAGTTCG
Statistics
Matches: 165, Mismatches: 42, Indels: 13
0.75 0.19 0.06
Matches are distributed among these distances:
31 5 0.03
32 156 0.95
33 4 0.02
ACGTcount: A:0.19, C:0.21, G:0.09, T:0.51
Consensus pattern (32 bp):
TCACCTTTATTTTTTACCTTGATTCAATCTGG
Found at i:13730104 original size:128 final size:128
Alignment explanation
Indices: 13729961--13730212 Score: 290
Period size: 128 Copynumber: 2.0 Consensus size: 128
13729951 CTTAATCTAG
* ** * * *
13729961 GTTCAATCTGATCACTTTCATTTTCGATGTTGACTTAATCCAATCACTTTTATTTTTTATCTTGG
1 GTTCAATCTGATCACTTTCATTTTCAACCTTAACTTAATCCAATCACTTTTATTTTTTACCTCGG
* * * *
13730026 TTCAATCCAATCACTTTTATTTTTTACCTT-GATTCAATCCGGTCACCTTAATTTTTTACGTTA
66 TTCAATCCAATCACGTTCATTTTTTACCTTAG-CTCAATCCGATCACCTTAATTTTTTACGTTA
* * ** * * * *
13730089 GTTCAATTTGGTCACTTTTGTTTTTAACCTTAACTTAGTCTAGTCACTTTTATTTTTTACCTCGG
1 GTTCAATCTGATCACTTTCATTTTCAACCTTAACTTAATCCAATCACTTTTATTTTTTACCTCGG
** * *
13730154 TTCAATCTGATCACGTTCATTTTTTACCTTAGCTCAGTCCGATCACCTTTATTTTTTAC
66 TTCAATCCAATCACGTTCATTTTTTACCTTAGCTCAATCCGATCACCTTAATTTTTTAC
13730213 CTCTGTTTAA
Statistics
Matches: 101, Mismatches: 22, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
128 100 0.99
129 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.10, T:0.48
Consensus pattern (128 bp):
GTTCAATCTGATCACTTTCATTTTCAACCTTAACTTAATCCAATCACTTTTATTTTTTACCTCGG
TTCAATCCAATCACGTTCATTTTTTACCTTAGCTCAATCCGATCACCTTAATTTTTTACGTTA
Found at i:13730209 original size:96 final size:96
Alignment explanation
Indices: 13730036--13730214 Score: 223
Period size: 96 Copynumber: 1.9 Consensus size: 96
13730026 TTCAATCCAA
* * * * ** *
13730036 TCACTTTTATTTTTTACCTTGATTCAATCCGGTCACCTTAATTTTTTACGTTAGTTCAATTTGGT
1 TCACTTTTATTTTTTACCTCGATTCAATCCGATCACCTTAATTTTTTACCTTAGCTCAATCCGAT
* *
13730101 CACTTTTGTTTTTAACCTTAACTTAGTCTAG
66 CACCTTTATTTTTAACCTTAACTTAGTCTAG
* * * * *
13730132 TCACTTTTATTTTTTACCTCGGTTCAATCTGATCACGTTCATTTTTTACCTTAGCTCAGTCCGAT
1 TCACTTTTATTTTTTACCTCGATTCAATCCGATCACCTTAATTTTTTACCTTAGCTCAATCCGAT
*
13730197 CACCTTTATTTTTTACCT
66 CACCTTTATTTTTAACCT
13730215 CTGTTTAATC
Statistics
Matches: 68, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
96 68 1.00
ACGTcount: A:0.20, C:0.22, G:0.09, T:0.49
Consensus pattern (96 bp):
TCACTTTTATTTTTTACCTCGATTCAATCCGATCACCTTAATTTTTTACCTTAGCTCAATCCGAT
CACCTTTATTTTTAACCTTAACTTAGTCTAG
Found at i:13730455 original size:32 final size:32
Alignment explanation
Indices: 13730419--13730521 Score: 88
Period size: 32 Copynumber: 3.3 Consensus size: 32
13730409 CCCAAATTAT
* * * *
13730419 ATTTTGTTTTTTACTTCGATTAAGA-TCAAGTC
1 ATTTTGTTTATGACTTCAACTAAGACT-AAGTC
13730451 ATTTTGTTTATGACTTCAACTAAGACTAAGTC
1 ATTTTGTTTATGACTTCAACTAAGACTAAGTC
*** *
13730483 ATTTT-TTTCA--ACTTTGGCTAAGACAAAGTC
1 ATTTTGTTT-ATGACTTCAACTAAGACTAAGTC
13730513 ATTTTGTTT
1 ATTTTGTTT
13730522 TTTGGCTTTG
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
30 21 0.35
31 6 0.10
32 32 0.53
33 1 0.02
ACGTcount: A:0.27, C:0.14, G:0.13, T:0.47
Consensus pattern (32 bp):
ATTTTGTTTATGACTTCAACTAAGACTAAGTC
Found at i:13731829 original size:60 final size:59
Alignment explanation
Indices: 13731748--13731862 Score: 158
Period size: 60 Copynumber: 1.9 Consensus size: 59
13731738 TTTATTGAAC
* *
13731748 AATTTATTTTAAAAATATGAACCTTCCAATATGTTGGTAAGATTCAATTTCTATTCAAA
1 AATTTATTTTAAAAATATGAACCCTCCAACATGTTGGTAAGATTCAATTTCTATTCAAA
* * * * *
13731807 AATTTATTTTTAGAAATTTGAACCCTCCAACATGTTGGTAAGGTTCATTTTTTATT
1 AATTTA-TTTTAAAAATATGAACCCTCCAACATGTTGGTAAGATTCAATTTCTATT
13731863 TGCTTAAAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
59 6 0.12
60 42 0.88
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.43
Consensus pattern (59 bp):
AATTTATTTTAAAAATATGAACCCTCCAACATGTTGGTAAGATTCAATTTCTATTCAAA
Found at i:13734400 original size:198 final size:198
Alignment explanation
Indices: 13734062--13734455 Score: 700
Period size: 198 Copynumber: 2.0 Consensus size: 198
13734052 TGGCATAGAG
* *
13734062 CTGCTCTCTCCTTGGCAAGTTGTTTGTCTTCTTTTCACTCTAAATCCTTAGTTTTACTTGTTTAC
1 CTGCTCTCTCCTTGGCAAGTTGTTTGTCTTCTTTTCAATATAAATCCTTAGTTTTACTTGTTTAC
13734127 TTGTTGAATCTTGCTTGATCCAGTTAATTTCTTCACATTTTATTAGCTGTTTGGGTCAAAATTAT
66 TTGTTGAATCTTGCTTGATCCAGTTAATTTCTTCACATTTTATTAGCTGTTTGGGTCAAAATTAT
*
13734192 TGAATATATTTTGCTTGTGCTTAGTTGTGTACTGTTTGGTTTCCCAGCTTACTAAGCT-AGTTTC
131 TGAATATATTTTGCTTGTGCTTAGTTGTGTACTATTTGGTTTCCCAGCTTACTAAGCTGA-TTTC
13734256 CTCA
195 CTCA
13734260 CTGCTCTCTCCTTGGCAAGTTGTTTGTCTTCTTTTCAATATAAATCCTTAGTTTTACTTGTTTAC
1 CTGCTCTCTCCTTGGCAAGTTGTTTGTCTTCTTTTCAATATAAATCCTTAGTTTTACTTGTTTAC
* * * *
13734325 TTGTTGAATCTTGCTTGTTCCAGTTCATTTCTTTACATTTTATTAGCTGTTTGGGTCAAAATTGT
66 TTGTTGAATCTTGCTTGATCCAGTTAATTTCTTCACATTTTATTAGCTGTTTGGGTCAAAATTAT
*
13734390 TGAATATATTTTGCTTGTGCTTAGTTGTGTACTATTTGGTTTCCTAGCTTACTAAGCTGATTTCC
131 TGAATATATTTTGCTTGTGCTTAGTTGTGTACTATTTGGTTTCCCAGCTTACTAAGCTGATTTCC
13734455 T
196 T
13734456 TGTTAATTTC
Statistics
Matches: 187, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
198 186 0.99
199 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (198 bp):
CTGCTCTCTCCTTGGCAAGTTGTTTGTCTTCTTTTCAATATAAATCCTTAGTTTTACTTGTTTAC
TTGTTGAATCTTGCTTGATCCAGTTAATTTCTTCACATTTTATTAGCTGTTTGGGTCAAAATTAT
TGAATATATTTTGCTTGTGCTTAGTTGTGTACTATTTGGTTTCCCAGCTTACTAAGCTGATTTCC
TCA
Found at i:13735881 original size:11 final size:11
Alignment explanation
Indices: 13735867--13735922 Score: 53
Period size: 11 Copynumber: 4.9 Consensus size: 11
13735857 AAAATAAATG
13735867 AGATAAAATAA
1 AGATAAAATAA
13735878 AGATAAAATAA
1 AGATAAAATAA
13735889 A-AGTAAAAGTAA
1 AGA-TAAAA-TAA
13735901 A-ATAAAGAATAA
1 AGAT-AA-AATAA
*
13735913 AGTTAAAATA
1 AGATAAAATA
13735923 GAATAAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
10 1 0.03
11 22 0.56
12 13 0.33
13 3 0.08
ACGTcount: A:0.70, C:0.00, G:0.11, T:0.20
Consensus pattern (11 bp):
AGATAAAATAA
Found at i:13735890 original size:16 final size:16
Alignment explanation
Indices: 13735869--13735934 Score: 62
Period size: 16 Copynumber: 3.9 Consensus size: 16
13735859 AATAAATGAG
13735869 ATAAAATAAAGATAAA
1 ATAAAATAAAGATAAA
13735885 ATAAAAGTAAA-AGTAAA
1 ATAAAA-TAAAGA-TAAA
*
13735902 ATAAAGAATAAAGTTAAA
1 AT-AA-AATAAAGATAAA
* *
13735920 ATAGAATAAAAATAA
1 ATAAAATAAAGATAA
13735935 GGATATATAC
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
16 16 0.39
17 11 0.27
18 12 0.29
19 2 0.05
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (16 bp):
ATAAAATAAAGATAAA
Found at i:13735914 original size:17 final size:17
Alignment explanation
Indices: 13735871--13735922 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
13735861 TAAATGAGAT
13735871 AAAATAAAGATAAAATA
1 AAAATAAAGATAAAATA
*
13735888 AAAGTAAA-AGTAAAATA
1 AAAATAAAGA-TAAAATA
*
13735905 AAGAATAAAGTTAAAATA
1 AA-AATAAAGATAAAATA
13735923 GAATAAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 1 0.03
17 16 0.55
18 12 0.41
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (17 bp):
AAAATAAAGATAAAATA
Found at i:13738801 original size:28 final size:24
Alignment explanation
Indices: 13738732--13738785 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
13738722 ACAAAGTAAA
*
13738732 GCATGTAATACGTGTAGGTAGAAC
1 GCATGTAATGCGTGTAGGTAGAAC
*
13738756 GCATGTAATGCGTGTAGGTAGAGC
1 GCATGTAATGCGTGTAGGTAGAAC
13738780 GCATGT
1 GCATGT
13738786 TTAGGTGCGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.28, C:0.13, G:0.33, T:0.26
Consensus pattern (24 bp):
GCATGTAATGCGTGTAGGTAGAAC
Found at i:13744733 original size:16 final size:16
Alignment explanation
Indices: 13744712--13744746 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
13744702 CTGAAAATAC
*
13744712 CAATAAAGAGATGCCT
1 CAATAAAAAGATGCCT
13744728 CAATAAAAAGATGCCT
1 CAATAAAAAGATGCCT
13744744 CAA
1 CAA
13744747 GCCTTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.49, C:0.20, G:0.14, T:0.17
Consensus pattern (16 bp):
CAATAAAAAGATGCCT
Found at i:13746431 original size:84 final size:81
Alignment explanation
Indices: 13746290--13746524 Score: 280
Period size: 84 Copynumber: 2.8 Consensus size: 81
13746280 AATTATCTTT
13746290 TAAAATATAAAA-AATTATTTAAGG-TGTTTCTATACA-AAAGCCTTAAATAATCTTTTTATAAT
1 TAAAATATAAAATAATTATTTAAGGCT-TTTCTATACAGAAAGCCTTAAATAATCTTTTTATAA-
*
13746352 AATATTAATCTTAAATCC-
64 AATATTAAACTTAAA-CCA
* * *
13746370 TAAAATATAAAATGATTATTTAAGGCATTTTCTGTACAGAAATGCCTTAAATAATCCTTTTATAA
1 TAAAATATAAAATAATTATTTAAGGC-TTTTCTATACAGAAA-GCCTTAAATAATCTTTTTATAA
13746435 AATTATTAAACTTAAACCA
64 AA-TATTAAACTTAAACCA
* * ** *
13746454 TAAAATATAAAATAATTATTTAAGGCTTTTTTTTTACAGAGCCGTCTTAAATAATCTTTTTATGA
1 TAAAATATAAAATAATTATTTAAGGC-TTTTCTATACAGA-AAGCCTTAAATAATCTTTTTAT-A
13746519 AAATAT
63 AAATAT
13746525 AAAATGATTA
Statistics
Matches: 134, Mismatches: 12, Indels: 14
0.84 0.08 0.09
Matches are distributed among these distances:
80 12 0.09
81 11 0.08
82 9 0.07
83 8 0.06
84 90 0.67
85 4 0.03
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (81 bp):
TAAAATATAAAATAATTATTTAAGGCTTTTCTATACAGAAAGCCTTAAATAATCTTTTTATAAAA
TATTAAACTTAAACCA
Found at i:13746528 original size:63 final size:62
Alignment explanation
Indices: 13746455--13746775 Score: 217
Period size: 63 Copynumber: 5.1 Consensus size: 62
13746445 CTTAAACCAT
* * * *
13746455 AAAATATAAAATAATTATTTAAGGCTTTTTTTTTACAGAGCCGTCTTAAATAATCTTTTTATG
1 AAAATATAAAATAATTATTTAAGGCTTTTTATATACAAAG-CGTCTTAAATAATCTTTTTATA
* * *** * * * *
13746518 AAAATATAAAATGATTATTTAAGACGTTTCGGTACAAAAATGC--CTTAAATAATTTTTTTGTA
1 AAAATATAAAATAATTATTTAAGGC-TTTTTATATACAAA-GCGTCTTAAATAATCTTTTTATA
* *
13746580 AAAATATAAAAAAATTTATTTAAGGCATTTTCTATATATAAATGC-T-TTAAATAATCTTTTTAT
1 AAAATATAAAATAA-TTATTTAAGGC-TTTT-TATATACAAA-GCGTCTTAAATAATCTTTTTAT
13746643 A
62 A
* * * * ** * * **
13746644 AAAATATAAAATGATTATTTAAGACGTTTCA-ATACAAAAATGCCTTAAATAATCCTTTCGTA
1 AAAATATAAAATAATTATTTAAGGCTTTTTATATAC-AAAGCGTCTTAAATAATCTTTTTATA
* * * *
13746706 AAAATATAAAAAAATTATTTAAAGTGTTTTCTGTACATA-AATGC-T-TTAAATAATCTTTTTAT
1 AAAATATAAAATAATTATTT-AAG-GCTTT-T-TATATACAAAGCGTCTTAAATAATCTTTTTAT
13746768 A
62 A
13746769 AAAATAT
1 AAAATAT
13746776 TAAGCCTAAA
Statistics
Matches: 197, Mismatches: 48, Indels: 26
0.73 0.18 0.10
Matches are distributed among these distances:
60 3 0.02
61 4 0.02
62 64 0.32
63 71 0.36
64 47 0.24
65 4 0.02
66 1 0.01
67 3 0.02
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.40
Consensus pattern (62 bp):
AAAATATAAAATAATTATTTAAGGCTTTTTATATACAAAGCGTCTTAAATAATCTTTTTATA
Found at i:13746586 original size:62 final size:62
Alignment explanation
Indices: 13746499--13746775 Score: 313
Period size: 62 Copynumber: 4.4 Consensus size: 62
13746489 ACAGAGCCGT
* ** **
13746499 CTTAAATAATCTTTTTATGAAAATATAAAATGATTATTTAAGACGTTTCGGTACAAAAATGC
1 CTTAAATAATCTTTTTATAAAAATATAAAAAAATTATTTAAGACGTTTCTATACAAAAATGC
* * * * * *
13746561 CTTAAATAATTTTTTTGTAAAAATATAAAAAAATTTATTTAAGGCATTTTCTATATATAAATGC
1 CTTAAATAATCTTTTTATAAAAATATAAAAAAA-TTATTTAAGAC-GTTTCTATACAAAAATGC
* ** *
13746625 TTTAAATAATCTTTTTATAAAAATATAAAATGATTATTTAAGACGTTTCAATACAAAAATGC
1 CTTAAATAATCTTTTTATAAAAATATAAAAAAATTATTTAAGACGTTTCTATACAAAAATGC
* ** * * *
13746687 CTTAAATAATCCTTTCGTAAAAATATAAAAAAATTATTTAA-AGTGTTTTCTGTACATAAATGC
1 CTTAAATAATCTTTTTATAAAAATATAAAAAAATTATTTAAGA-CG-TTTCTATACAAAAATGC
*
13746750 TTTAAATAATCTTTTTATAAAAATAT
1 CTTAAATAATCTTTTTATAAAAATAT
13746776 TAAGCCTAAA
Statistics
Matches: 176, Mismatches: 35, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
61 1 0.01
62 78 0.44
63 56 0.32
64 41 0.23
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.40
Consensus pattern (62 bp):
CTTAAATAATCTTTTTATAAAAATATAAAAAAATTATTTAAGACGTTTCTATACAAAAATGC
Found at i:13746630 original size:126 final size:125
Alignment explanation
Indices: 13746500--13746775 Score: 444
Period size: 126 Copynumber: 2.2 Consensus size: 125
13746490 CAGAGCCGTC
* **
13746500 TTAAATAATCTTTTTATGAAAATATAAAATGATTATTTAAGACGTTTCGGTACAAAAATGCCTTA
1 TTAAATAATCTTTTTATAAAAATATAAAATGATTATTTAAGACGTTTCAATACAAAAATGCCTTA
** * * *
13746565 AATAATTTTTTTGTAAAAATATAAAAAAATTTATTTAAGGCATTTTCTATATATAAATGCT
66 AATAATCCTTTCGTAAAAATATAAAAAAA-TTATTTAAAGCATTTTCTATACATAAATGCT
13746626 TTAAATAATCTTTTTATAAAAATATAAAATGATTATTTAAGACGTTTCAATACAAAAATGCCTTA
1 TTAAATAATCTTTTTATAAAAATATAAAATGATTATTTAAGACGTTTCAATACAAAAATGCCTTA
** *
13746691 AATAATCCTTTCGTAAAAATATAAAAAAATTATTTAAAGTGTTTTCTGTACATAAATGCT
66 AATAATCCTTTCGTAAAAATATAAAAAAATTATTTAAAGCATTTTCTATACATAAATGCT
13746751 TTAAATAATCTTTTTATAAAAATAT
1 TTAAATAATCTTTTTATAAAAATAT
13746776 TAAGCCTAAA
Statistics
Matches: 139, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
125 51 0.37
126 88 0.63
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.41
Consensus pattern (125 bp):
TTAAATAATCTTTTTATAAAAATATAAAATGATTATTTAAGACGTTTCAATACAAAAATGCCTTA
AATAATCCTTTCGTAAAAATATAAAAAAATTATTTAAAGCATTTTCTATACATAAATGCT
Found at i:13751286 original size:25 final size:25
Alignment explanation
Indices: 13751252--13751306 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 25
13751242 TTTTGTATAT
13751252 AAAAATTAATAATAAT-AAACAATA
1 AAAAATTAATAATAATAAAACAATA
*
13751276 AAAAATATAATAATAATAAAAGAATA
1 AAAAAT-TAATAATAATAAAACAATA
13751302 AAAAA
1 AAAAA
13751307 AGAAAGAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 6 0.21
25 10 0.36
26 12 0.43
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (25 bp):
AAAAATTAATAATAATAAAACAATA
Found at i:13751287 original size:19 final size:19
Alignment explanation
Indices: 13751263--13751301 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
13751253 AAAATTAATA
13751263 ATAATAAACAATAAAA-AAT
1 ATAAT-AACAATAAAAGAAT
*
13751282 ATAATAATAATAAAAGAAT
1 ATAATAACAATAAAAGAAT
13751301 A
1 A
13751302 AAAAAAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (19 bp):
ATAATAACAATAAAAGAAT
Found at i:13752442 original size:16 final size:17
Alignment explanation
Indices: 13752418--13752464 Score: 60
Period size: 19 Copynumber: 2.7 Consensus size: 17
13752408 CAAAATATAT
*
13752418 ATAAGAATATTT-TTAA
1 ATAAAAATATTTCTTAA
13752434 ATAAAAATAATATTCTTAA
1 ATAAAAAT-AT-TTCTTAA
13752453 ATAAAAATATTT
1 ATAAAAATATTT
13752465 ATTGGGGCTC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 7 0.26
17 4 0.15
18 4 0.15
19 12 0.44
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (17 bp):
ATAAAAATATTTCTTAA
Found at i:13752447 original size:19 final size:19
Alignment explanation
Indices: 13752423--13752461 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
13752413 TATATATAAG
*
13752423 AATATTTTTAAATAAAAAT
1 AATATTCTTAAATAAAAAT
13752442 AATATTCTTAAATAAAAAT
1 AATATTCTTAAATAAAAAT
13752461 A
1 A
13752462 TTTATTGGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
AATATTCTTAAATAAAAAT
Found at i:13752872 original size:22 final size:21
Alignment explanation
Indices: 13752826--13752872 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
13752816 CTCAACTCTA
*
13752826 TTTTTATAAATTAAAATTATT
1 TTTTTATAAATTAAAATTATG
*
13752847 TTTTTAATAAATTTTAAATT-TG
1 TTTTT-ATAAA-TTAAAATTATG
13752869 TTTT
1 TTTT
13752873 ATTATTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 5 0.23
22 10 0.45
23 7 0.32
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (21 bp):
TTTTTATAAATTAAAATTATG
Found at i:13755078 original size:12 final size:12
Alignment explanation
Indices: 13755061--13755085 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13755051 CATACATACA
13755061 TATATATATATG
1 TATATATATATG
13755073 TATATATATATG
1 TATATATATATG
13755085 T
1 T
13755086 GTGTGTGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TATATATATATG
Found at i:13765089 original size:24 final size:24
Alignment explanation
Indices: 13765062--13765112 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
13765052 TCTTCCTTCA
*
13765062 TTCTTTTATTATCTTCT-TTTATTT
1 TTCTTTTATTATCATCTATTT-TTT
*
13765086 TTCTTTTATTTTCATCTATTTTTT
1 TTCTTTTATTATCATCTATTTTTT
13765110 TTC
1 TTC
13765113 AACTCTTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 21 0.88
25 3 0.12
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.75
Consensus pattern (24 bp):
TTCTTTTATTATCATCTATTTTTT
Found at i:13765091 original size:11 final size:11
Alignment explanation
Indices: 13765062--13765097 Score: 54
Period size: 11 Copynumber: 3.1 Consensus size: 11
13765052 TCTTCCTTCA
13765062 TTCTTTTATTAT
1 TTCTTTTATT-T
13765074 CTTCTTTTATTT
1 -TTCTTTTATTT
13765086 TTCTTTTATTT
1 TTCTTTTATTT
13765097 T
1 T
13765098 CATCTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 12 0.52
12 1 0.04
13 10 0.43
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (11 bp):
TTCTTTTATTT
Found at i:13776821 original size:32 final size:31
Alignment explanation
Indices: 13776774--13776833 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
13776764 ATTAACAAAG
13776774 AAAGATAAAGTTAGAAAAGAGAAAGATAAAAT
1 AAAGATAAAGTTAG-AAAGAGAAAGATAAAAT
*
13776806 AAAGATAAA-TCTAGAAAGATAAAGATAA
1 AAAGATAAAGT-TAGAAAGAGAAAGATAA
13776834 GAGAATGGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 14 0.54
32 12 0.46
ACGTcount: A:0.65, C:0.02, G:0.17, T:0.17
Consensus pattern (31 bp):
AAAGATAAAGTTAGAAAGAGAAAGATAAAAT
Found at i:13777775 original size:20 final size:20
Alignment explanation
Indices: 13777750--13777788 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
13777740 AATTTAAGAA
13777750 AAATTATAATTATATTCAAG
1 AAATTATAATTATATTCAAG
*
13777770 AAATTATTATTATATTCAA
1 AAATTATAATTATATTCAA
13777789 ATATTAGACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.44
Consensus pattern (20 bp):
AAATTATAATTATATTCAAG
Found at i:13778392 original size:6 final size:6
Alignment explanation
Indices: 13778381--13778443 Score: 99
Period size: 6 Copynumber: 10.5 Consensus size: 6
13778371 TTGTAATGAC
* *
13778381 ATTAGT ATTAGT ATTAGT ATTAGT ATTAGC ATTAGT ATTAGT ATTAGC
1 ATTAGT ATTAGT ATTAGT ATTAGT ATTAGT ATTAGT ATTAGT ATTAGT
*
13778429 ATTAGT ATTATT ATT
1 ATTAGT ATTAGT ATT
13778444 TAAAGATTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 52 1.00
ACGTcount: A:0.33, C:0.03, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTAGT
Found at i:13778655 original size:21 final size:22
Alignment explanation
Indices: 13778606--13778655 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
13778596 ATTGTATTTA
13778606 TTTTTTA-ATATAAATTATAAT
1 TTTTTTATATATAAATTATAAT
** *
13778627 TTAATTATATATAAA-TGTAAT
1 TTTTTTATATATAAATTATAAT
13778648 TTTTTTAT
1 TTTTTTAT
13778656 TAAATTAAGG
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
TTTTTTATATATAAATTATAAT
Found at i:13780640 original size:52 final size:52
Alignment explanation
Indices: 13780554--13780710 Score: 210
Period size: 52 Copynumber: 3.0 Consensus size: 52
13780544 TATAACCATA
* * *
13780554 CAAACTTG-CTCATTAAGAATCCCTCTCCTCTTAGAACTCTTCTCCTGTAAGT
1 CAAACTTGCCT-ATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
* *
13780606 CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
* **
13780658 CAAACTTACCTATTAAGAATCCTCTTT-CTCTTAGAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATCC-CTTTCCTCTTAGAATTCTTCTCCTGCAAGT
13780710 C
1 C
13780711 TTCTTGTCCA
Statistics
Matches: 95, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
52 89 0.94
53 6 0.06
ACGTcount: A:0.25, C:0.27, G:0.09, T:0.39
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
Found at i:13780766 original size:11 final size:11
Alignment explanation
Indices: 13780735--13780766 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
13780725 GCAATATCTG
*
13780735 ACAAATCTCAA
1 ACAAATCTCTA
13780746 ACAAATCTCTA
1 ACAAATCTCTA
13780757 ACAAATCTCT
1 ACAAATCTCT
13780767 TATGGGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (11 bp):
ACAAATCTCTA
Found at i:13785061 original size:8 final size:8
Alignment explanation
Indices: 13785039--13785069 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
13785029 TTTCATAAAC
13785039 TAAATATT
1 TAAATATT
13785047 ATAAATATT
1 -TAAATATT
13785056 TAAATATT
1 TAAATATT
13785064 TAAATA
1 TAAATA
13785070 CAAAACCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (8 bp):
TAAATATT
Found at i:13789776 original size:2 final size:2
Alignment explanation
Indices: 13789769--13789794 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13789759 GGATTTGGGG
13789769 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
13789795 AAAAAAAGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:13790796 original size:24 final size:24
Alignment explanation
Indices: 13790769--13790833 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 24
13790759 TGATACGATA
13790769 TAAAAATAATATAAATAAAAAATT
1 TAAAAATAATATAAATAAAAAATT
* *
13790793 TAAAAATAATA-AAATTTAAAATTT
1 TAAAAATAATATAAA-TAAAAAATT
*
13790817 TATAAA-AATCATAAATA
1 TAAAAATAAT-ATAAATA
13790834 TGTTGAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
23 6 0.18
24 25 0.74
25 3 0.09
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (24 bp):
TAAAAATAATATAAATAAAAAATT
Found at i:13790799 original size:15 final size:16
Alignment explanation
Indices: 13790781--13790813 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
13790771 AAAATAATAT
13790781 AAATAA-AAAATTTAA
1 AAATAATAAAATTTAA
13790796 AAATAATAAAATTTAA
1 AAATAATAAAATTTAA
13790812 AA
1 AA
13790814 TTTTATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
AAATAATAAAATTTAA
Found at i:13791676 original size:15 final size:14
Alignment explanation
Indices: 13791640--13791682 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
13791630 CGTTTTTATC
13791640 ATTATTTTTCTAAA
1 ATTATTTTTCTAAA
* * *
13791654 CTTTTTTTTGTCAAA
1 ATTATTTTTCT-AAA
13791669 ATTATTTTTCTAAA
1 ATTATTTTTCTAAA
13791683 CCTTTTTAGT
Statistics
Matches: 22, Mismatches: 6, Indels: 2
0.73 0.20 0.07
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.58
Consensus pattern (14 bp):
ATTATTTTTCTAAA
Found at i:13792031 original size:9 final size:9
Alignment explanation
Indices: 13792005--13792039 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
13791995 TTTTTTTCCT
13792005 TTTTTTAAA
1 TTTTTTAAA
* *
13792014 CTTTATAAA
1 TTTTTTAAA
13792023 TTTTTTAAA
1 TTTTTTAAA
13792032 TTTTTTAA
1 TTTTTTAA
13792040 TGTTAAACTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:13792284 original size:17 final size:15
Alignment explanation
Indices: 13792264--13792305 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 15
13792254 GTATATATGT
13792264 ATTATATTAATAAAGTA
1 ATTAT-TTAATAAA-TA
*
13792281 ATTATTTAA-AGATA
1 ATTATTTAATAAATA
13792295 ATTATTTAATA
1 ATTATTTAATA
13792306 CCTTAATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 11 0.48
15 3 0.13
16 4 0.17
17 5 0.22
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (15 bp):
ATTATTTAATAAATA
Found at i:13792298 original size:14 final size:13
Alignment explanation
Indices: 13792274--13792303 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
13792264 ATTATATTAA
13792274 TAAAGTAATTATT
1 TAAAGTAATTATT
13792287 TAAAGATAATTATT
1 TAAAG-TAATTATT
13792301 TAA
1 TAA
13792304 TACCTTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (13 bp):
TAAAGTAATTATT
Found at i:13792635 original size:25 final size:25
Alignment explanation
Indices: 13792607--13792688 Score: 60
Period size: 25 Copynumber: 3.1 Consensus size: 25
13792597 TGAGTATATA
13792607 TAAAATTATATTTTAATTATTTATT
1 TAAAATTATATTTTAATTATTTATT
* * *
13792632 TAAATTTA-AATTTATATAATTCTATT
1 TAAAATTATATTTTA-ATTATT-TATT
*
13792658 AATAAAATTAT-TATTTAATGTATTAATT
1 --TAAAATTATAT-TTTAAT-TATTTATT
13792686 TAA
1 TAA
13792689 TAAAATACTA
Statistics
Matches: 43, Mismatches: 7, Indels: 13
0.68 0.11 0.21
Matches are distributed among these distances:
24 5 0.12
25 12 0.28
26 7 0.16
28 12 0.28
29 7 0.16
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (25 bp):
TAAAATTATATTTTAATTATTTATT
Found at i:13796089 original size:8 final size:8
Alignment explanation
Indices: 13796072--13796104 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
13796062 AAATATTTAC
13796072 TATT-AAA
1 TATTAAAA
13796079 TATTAAAA
1 TATTAAAA
13796087 TATTAAAA
1 TATTAAAA
13796095 TATTAAAA
1 TATTAAAA
13796103 TA
1 TA
13796105 AAATGTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 4 0.16
8 21 0.84
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
TATTAAAA
Found at i:13796097 original size:16 final size:15
Alignment explanation
Indices: 13796072--13796212 Score: 58
Period size: 16 Copynumber: 9.1 Consensus size: 15
13796062 AAATATTTAC
13796072 TATTAAATATTAAAA
1 TATTAAATATTAAAA
13796087 TATTAAAATATTAAAA
1 TATT-AAATATTAAAA
* * *
13796103 TA--AAATGTT-TAT
1 TATTAAATATTAAAA
*
13796115 TATAAAATATTGAAAAA
1 TATTAAATATT--AAAA
* * *
13796132 TATTTATTCTTAAAA
1 TATTAAATATTAAAA
* *
13796147 TATGGAAATTATT-TAA
1 TAT-TAAA-TATTAAAA
13796163 TATTAAAATATTGAAAA
1 TATT-AAATATT-AAAA
* * *
13796180 TATTTACTACT-AAA
1 TATTAAATATTAAAA
13796194 TAATTAAAATATTAAAA
1 T-ATT-AAATATTAAAA
13796211 TA
1 TA
13796213 AATATTTAGA
Statistics
Matches: 89, Mismatches: 23, Indels: 27
0.64 0.17 0.19
Matches are distributed among these distances:
12 3 0.03
13 6 0.07
14 10 0.11
15 18 0.20
16 31 0.35
17 21 0.24
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (15 bp):
TATTAAATATTAAAA
Found at i:13796137 original size:24 final size:23
Alignment explanation
Indices: 13796062--13796206 Score: 95
Period size: 24 Copynumber: 6.3 Consensus size: 23
13796052 GTTTAATGAG
* *
13796062 AAATATTTACTATTAAATATT-A
1 AAATATTTATTATAAAATATTGA
* * *
13796084 AAATATTAAAATATTAAA-A-T-A
1 AAATATT-TATTATAAAATATTGA
*
13796105 AAATGTTTATTATAAAATATTGAA
1 AAATATTTATTATAAAATATTG-A
* *
13796129 AAATATTTATTCTTAAAATATGGA
1 AAATATTTATT-ATAAAATATTGA
* *
13796153 AATTATTTAATATTAAAATATTGA
1 AAATATTTATTA-TAAAATATTGA
*
13796177 AAATATTTACTACT-AAATAATT-A
1 AAATATTTATTA-TAAAAT-ATTGA
13796200 AAATATT
1 AAATATT
13796207 AAAATAAATA
Statistics
Matches: 99, Mismatches: 16, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
20 7 0.07
21 9 0.09
22 9 0.09
23 20 0.20
24 45 0.45
25 9 0.09
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.41
Consensus pattern (23 bp):
AAATATTTATTATAAAATATTGA
Found at i:13796270 original size:25 final size:25
Alignment explanation
Indices: 13796198--13796270 Score: 62
Period size: 23 Copynumber: 3.0 Consensus size: 25
13796188 ACTAAATAAT
* *
13796198 TAAAATATTAAAATAAATATTTA-GAA
1 TAAAATATT-AAA-AACTATTTATTAA
* * *
13796224 TAAAATATT--CAACTAATAATTAA
1 TAAAATATTAAAAACTATTTATTAA
13796247 TAAAATATTAAAAACTATTTATTA
1 TAAAATATTAAAAACTATTTATTA
13796271 CTAAGATAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
22 6 0.17
23 11 0.31
25 10 0.28
26 9 0.25
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.37
Consensus pattern (25 bp):
TAAAATATTAAAAACTATTTATTAA
Found at i:13796305 original size:11 final size:10
Alignment explanation
Indices: 13796280--13796317 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
13796270 ACTAAGATAA
*
13796280 TAATAATA-A
1 TAATAATATT
13796289 TAATAATATTT
1 TAATAATA-TT
13796300 TAATAATATT
1 TAATAATATT
13796310 TAATAATA
1 TAATAATA
13796318 AATTATTATG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
9 8 0.31
10 10 0.38
11 8 0.31
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (10 bp):
TAATAATATT
Found at i:13796418 original size:16 final size:17
Alignment explanation
Indices: 13796382--13796418 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
13796372 ATTATATTAA
13796382 TATTGAAAATATTATTT
1 TATTGAAAATATTATTT
13796399 TATTG-AAAT-TTATTT
1 TATTGAAAATATTATTT
13796414 CTATT
1 -TATT
13796419 AATATAAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 6 0.32
16 8 0.42
17 5 0.26
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (17 bp):
TATTGAAAATATTATTT
Found at i:13811277 original size:60 final size:58
Alignment explanation
Indices: 13811083--13811475 Score: 496
Period size: 60 Copynumber: 6.7 Consensus size: 58
13811073 TTGTGTAGGA
* *
13811083 AAAATTGATACTTTCAATTTTTCCCCAAAAATATTTTTTTG-AAATTTATTTTTTTAAA-
1 AAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTTGAAAATTTA--TTTTTAAAG
13811141 AAAATTGATACTTTCAACTTTTC-CCTAAAAATA-TTTTTTGAAAATTTATTTTTAAAG
1 AAAATTGATACTTTCAACTTTTCTCC-AAAAATATTTTTTTGAAAATTTATTTTTAAAG
* *
13811198 AAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTTGGAAATTTTGATTTTCAAAG
1 AAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTT-GAAAATTT-ATTTTTAAAG
* *
13811258 AAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTTTGAAAATTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCTCCAAAAATA-TTTTTTTGAAAA-TTT-ATTTTTAAAG
** *
13811319 AAAATTGATACTTTCAACTTTT-TCTCAAAAATCCTTTTTTGAAAATTTACTTTT-AAG
1 AAAATTGATACTTTCAACTTTTCTC-CAAAAATATTTTTTTGAAAATTTATTTTTAAAG
* * *
13811376 AAAAATTGATACTTTCAATTTTTC-CTCAAAAACTCTTTTTTTTGAAAATTTATTTTTAAGG
1 -AAAATTGATACTTTCAACTTTTCTC-CAAAAA-T-ATTTTTTTGAAAATTTATTTTTAAAG
13811437 AAAATTGATACTTTCAACTTTT-TCCCAAAAATATTTTTT
1 AAAATTGATACTTTCAACTTTTCT-CCAAAAATATTTTTT
13811476 GATTTTTATT
Statistics
Matches: 301, Mismatches: 17, Indels: 34
0.86 0.05 0.10
Matches are distributed among these distances:
56 8 0.03
57 41 0.14
58 83 0.28
59 12 0.04
60 105 0.35
61 52 0.17
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.47
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTTGAAAATTTATTTTTAAAG
Found at i:13811442 original size:179 final size:176
Alignment explanation
Indices: 13811083--13811475 Score: 530
Period size: 179 Copynumber: 2.2 Consensus size: 176
13811073 TTGTGTAGGA
* * * *
13811083 AAAATTGATACTTTCAATTTTTCCCCAAAAATA-TTTTTTTGAAATTTATTTTTTTAAAAAAATT
1 AAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTTTGAAATTTATATTTTCAAAAAAATT
*
13811147 GATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAAATTTATTTTTAAAGAAAATTGATACTTT
66 GATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAAATTTACTTTTAAAGAAAATTGATACTTT
*
13811212 CAACTTTTCTCCAAAAATATTTTTTTGGAAATTTTGATTTTCAAAG
131 CAACTTTTCTCCAAAAATATTTTTTTGGAAAATTTGATTTTCAAAG
*
13811258 AAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTTTGAAAATTT-TGATTTTCAAGGAAA
1 AAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTTTG-AAATTTAT-ATTTTCAA-AAAA
* *
13811322 ATTGATACTTTCAACTTTT-TCTCAAAAATCCTTTTTTGAAAATTTACTTTT-AAGAAAAATTGA
63 ATTGATACTTTCAACTTTTCCCT-AAAAAT-ATTTTTTGAAAATTTACTTTTAAAG-AAAATTGA
* * * * *
13811385 TACTTTCAATTTTTC-CTCAAAAACTCTTTTTTTTGAAAATTT-ATTTTTAAGG
125 TACTTTCAACTTTTCTC-CAAAAA-TATTTTTTTGGAAAATTTGATTTTCAAAG
13811437 AAAATTGATACTTTCAACTTTT-TCCCAAAAATATTTTTT
1 AAAATTGATACTTTCAACTTTTCT-CCAAAAATATTTTTT
13811476 GATTTTTATT
Statistics
Matches: 194, Mismatches: 14, Indels: 16
0.87 0.06 0.07
Matches are distributed among these distances:
175 31 0.16
176 9 0.05
177 14 0.07
178 33 0.17
179 92 0.47
180 15 0.08
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.47
Consensus pattern (176 bp):
AAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTTTGAAATTTATATTTTCAAAAAAATT
GATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAAATTTACTTTTAAAGAAAATTGATACTTT
CAACTTTTCTCCAAAAATATTTTTTTGGAAAATTTGATTTTCAAAG
Found at i:13811501 original size:5 final size:5
Alignment explanation
Indices: 13811491--13811580 Score: 53
Period size: 5 Copynumber: 17.6 Consensus size: 5
13811481 TTATTTAAAG
*
13811491 AAAAT AAAAT AAAAT AAAAGT GAAAAT -AAA- AAAAT AAAGA- AAAGT
1 AAAAT AAAAT AAAAT AAAA-T -AAAAT AAAAT AAAAT AAA-AT AAAAT
* * * *
13811536 AAAACA AAAAT AAAAAT AAGAT AAAGAT AAAA- AATAT TAAAT AAA
1 AAAA-T AAAAT -AAAAT AAAAT AAA-AT AAAAT AAAAT AAAAT AAA
13811581 TCTAATCTAA
Statistics
Matches: 65, Mismatches: 10, Indels: 20
0.68 0.11 0.21
Matches are distributed among these distances:
4 9 0.14
5 35 0.54
6 17 0.26
7 4 0.06
ACGTcount: A:0.76, C:0.01, G:0.07, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:13811533 original size:24 final size:24
Alignment explanation
Indices: 13811496--13811545 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
13811486 TAAAGAAAAT
* *
13811496 AAAATAAAATAAAAGTGAAAATAAA
1 AAAATAAAAGAAAAGT-AAAACAAA
13811521 AAAAT-AAAGAAAAGTAAAACAAA
1 AAAATAAAAGAAAAGTAAAACAAA
13811544 AA
1 AA
13811546 TAAAAATAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 9 0.39
24 9 0.39
25 5 0.22
ACGTcount: A:0.78, C:0.02, G:0.08, T:0.12
Consensus pattern (24 bp):
AAAATAAAAGAAAAGTAAAACAAA
Found at i:13811550 original size:17 final size:16
Alignment explanation
Indices: 13811491--13811550 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
13811481 TTATTTAAAG
*
13811491 AAAATAAAATAAAATA
1 AAAATAAAATAAAAAA
*
13811507 AAAGTGAAAATAAAAAA
1 AAAAT-AAAATAAAAAA
* *
13811524 ATAAAGAAAAGTAAAACA
1 A-AAATAAAA-TAAAAAA
13811542 AAAATAAAA
1 AAAATAAAA
13811551 ATAAGATAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
16 4 0.11
17 22 0.63
18 9 0.26
ACGTcount: A:0.78, C:0.02, G:0.07, T:0.13
Consensus pattern (16 bp):
AAAATAAAATAAAAAA
Found at i:13811625 original size:21 final size:20
Alignment explanation
Indices: 13811592--13811632 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
13811582 CTAATCTAAT
*
13811592 AAATAAAAAATAAATAAAAC
1 AAATAAAAAATAAAAAAAAC
13811612 AAATAAACAAATAAAAAAAAC
1 AAATAAA-AAATAAAAAAAAC
13811633 TCCAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.12
Consensus pattern (20 bp):
AAATAAAAAATAAAAAAAAC
Found at i:13811993 original size:20 final size:20
Alignment explanation
Indices: 13811970--13812031 Score: 106
Period size: 20 Copynumber: 3.1 Consensus size: 20
13811960 AAATTTTTGT
* *
13811970 CGGATTCTGGAAAATATCAC
1 CGGAATCTGGAAAATTTCAC
13811990 CGGAATCTGGAAAATTTCAC
1 CGGAATCTGGAAAATTTCAC
13812010 CGGAATCTGGAAAATTTCAC
1 CGGAATCTGGAAAATTTCAC
13812030 CG
1 CG
13812032 AAAGTTCATC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (20 bp):
CGGAATCTGGAAAATTTCAC
Found at i:13812502 original size:3 final size:3
Alignment explanation
Indices: 13812494--13812521 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
13812484 TAAAACAAAA
13812494 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
13812522 CAATAATCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:13812667 original size:19 final size:21
Alignment explanation
Indices: 13812643--13812692 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 21
13812633 GAAAAAAAGA
13812643 ATAATAAATAAAT-TATAA-T
1 ATAATAAATAAATATATAACT
13812662 ATAAT-AATAAATATATAACT
1 ATAATAAATAAATATATAACT
13812682 AT-ATAAATAAA
1 ATAATAAATAAA
13812693 ATACATATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 7 0.25
19 12 0.43
20 9 0.32
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (21 bp):
ATAATAAATAAATATATAACT
Found at i:13812674 original size:12 final size:11
Alignment explanation
Indices: 13812642--13812769 Score: 69
Period size: 10 Copynumber: 12.1 Consensus size: 11
13812632 AGAAAAAAAG
13812642 AATAATAAATA
1 AATAATAAATA
*
13812653 AATTAT-AATA
1 AATAATAAATA
13812663 TAATAATAAATA
1 -AATAATAAATA
* *
13812675 TATAACTATATA
1 AATAA-TAAATA
13812687 AAT-A-AAATA
1 AATAATAAATA
*
13812696 CAT-ATAAA-A
1 AATAATAAATA
* *
13812705 ATTAACAAA-A
1 AATAATAAATA
13812715 AA-AATAAATA
1 AATAATAAATA
13812725 AATAA-AAATA
1 AATAATAAATA
*
13812735 TACATATATTAATA
1 -A-ATA-ATAAATA
*
13812749 CATAAT-AAT-
1 AATAATAAATA
13812758 AATAATAAATA
1 AATAATAAATA
13812769 A
1 A
13812770 TAAAATACAT
Statistics
Matches: 89, Mismatches: 15, Indels: 26
0.68 0.12 0.20
Matches are distributed among these distances:
9 19 0.21
10 27 0.30
11 21 0.24
12 17 0.19
13 1 0.01
14 4 0.04
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (11 bp):
AATAATAAATA
Found at i:13812685 original size:22 final size:22
Alignment explanation
Indices: 13812642--13812781 Score: 62
Period size: 22 Copynumber: 6.2 Consensus size: 22
13812632 AGAAAAAAAG
*
13812642 AATAATAAATAAATTATAATAT
1 AATAATAAATAAATAATAATAT
*
13812664 AATAATAAATATATAACT-ATAT
1 AATAATAAATAAATAA-TAATAT
*
13812686 -A-AATAAAATACATATAAAAAT-T
1 AATAAT-AAATA-A-ATAATAATAT
*
13812708 AACAA-AAA-AAATAAATAA-AT
1 AATAATAAATAAAT-AATAATAT
* *
13812728 AAAAATATACATATATTAATACATAAT
1 AATAATA-A-ATA-AATAATA-AT-AT
*
13812755 AATAAT-AATAAATAATAAAAT
1 AATAATAAATAAATAATAATAT
13812776 ACATAA
1 A-ATAA
13812782 AATACAAAAG
Statistics
Matches: 90, Mismatches: 10, Indels: 36
0.66 0.07 0.26
Matches are distributed among these distances:
19 2 0.02
20 13 0.14
21 11 0.12
22 28 0.31
23 15 0.17
24 10 0.11
25 4 0.04
27 7 0.08
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.29
Consensus pattern (22 bp):
AATAATAAATAAATAATAATAT
Found at i:13812764 original size:9 final size:10
Alignment explanation
Indices: 13812734--13812787 Score: 53
Period size: 9 Copynumber: 5.5 Consensus size: 10
13812724 AAATAAAAAT
13812734 ATACATATATTA
1 ATACATA-A-TA
13812746 ATACATAATA
1 ATACATAATA
13812756 ATA-ATAATAA
1 ATACATAAT-A
13812766 ATA-ATAA-A
1 ATACATAATA
13812774 ATACATAA-A
1 ATACATAATA
13812783 ATACA
1 ATACA
13812788 AAAGAAAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
8 4 0.10
9 15 0.38
10 13 0.32
11 1 0.03
12 7 0.17
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (10 bp):
ATACATAATA
Found at i:13812769 original size:16 final size:16
Alignment explanation
Indices: 13812642--13812782 Score: 61
Period size: 16 Copynumber: 8.8 Consensus size: 16
13812632 AGAAAAAAAG
*
13812642 AATAATAAATAAATTAT
1 AATAAT-AATAAATAAT
13812659 AAT-ATAAT-AATAAAT
1 AATAATAATAAAT-AAT
13812674 ATATAACTATATAAATAA-
1 A-ATAA-TA-ATAAATAAT
13812692 AATACAT-ATAAA-AAT
1 AATA-ATAATAAATAAT
* *
13812707 --TAACAA-AAAAAAT
1 AATAATAATAAATAAT
13812720 AAATAAATAA-AAAT-AT
1 -AAT-AATAATAAATAAT
*
13812736 ACATATATTAATACATAAT
1 A-ATA-A-TAATAAATAAT
13812755 AATAATAATAAATAAT
1 AATAATAATAAATAAT
13812771 AA-AATACATAAA
1 AATAATA-ATAAA
13812783 ATACAAAAGA
Statistics
Matches: 98, Mismatches: 6, Indels: 41
0.68 0.04 0.28
Matches are distributed among these distances:
12 4 0.04
13 6 0.06
14 5 0.05
15 17 0.17
16 27 0.28
17 19 0.19
18 10 0.10
19 7 0.07
20 3 0.03
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (16 bp):
AATAATAATAAATAAT
Found at i:13814531 original size:16 final size:16
Alignment explanation
Indices: 13814510--13814540 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13814500 AAACATTAAA
13814510 TTTAATTTTTCAATAT
1 TTTAATTTTTCAATAT
*
13814526 TTTAATTTTTTAATA
1 TTTAATTTTTCAATA
13814541 ACCTTTTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTAATTTTTCAATAT
Found at i:13815989 original size:12 final size:12
Alignment explanation
Indices: 13815948--13816062 Score: 52
Period size: 12 Copynumber: 10.3 Consensus size: 12
13815938 AAATTAATAA
13815948 ATAATTA-AAA-
1 ATAATTATAAAT
*
13815958 ATTATT-TAAAT
1 ATAATTATAAAT
* *
13815969 ATAAATATAATT
1 ATAATTATAAAT
13815981 ATAATTATAAA-
1 ATAATTATAAAT
* *
13815992 A-AATTCT-TAT
1 ATAATTATAAAT
*
13816002 AAAATTATAAAT
1 ATAATTATAAAT
* * *
13816014 ATTATTAAACAAA
1 ATAATTATA-AAT
13816027 ATAA-TATAAAT
1 ATAATTATAAAT
*
13816038 -CAATT-TAAAT
1 ATAATTATAAAT
*
13816048 ATAAATATAAA-
1 ATAATTATAAAT
13816059 ATAA
1 ATAA
13816063 AAAAATTAAA
Statistics
Matches: 75, Mismatches: 20, Indels: 19
0.66 0.18 0.17
Matches are distributed among these distances:
9 1 0.01
10 21 0.28
11 20 0.27
12 28 0.37
13 5 0.07
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (12 bp):
ATAATTATAAAT
Found at i:13816078 original size:25 final size:25
Alignment explanation
Indices: 13816050--13816100 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
13816040 ATTTAAATAT
13816050 AAATATA-AAATAAAAA-AATTAAAAA
1 AAATATAGAAA-AAAAATAA-TAAAAA
*
13816075 AAATTTAGAAAAAAAATAATAAAAA
1 AAATATAGAAAAAAAATAATAAAAA
13816100 A
1 A
13816101 GGGTATCATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (25 bp):
AAATATAGAAAAAAAATAATAAAAA
Found at i:13827411 original size:11 final size:11
Alignment explanation
Indices: 13827397--13827426 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
13827387 TTTAAAACTC
13827397 ATTCGTTTATT
1 ATTCGTTTATT
*
13827408 ATTCATTTATT
1 ATTCGTTTATT
13827419 ATTCGTTT
1 ATTCGTTT
13827427 GCTATTCATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.20, C:0.10, G:0.07, T:0.63
Consensus pattern (11 bp):
ATTCGTTTATT
Found at i:13827425 original size:22 final size:22
Alignment explanation
Indices: 13827397--13827438 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
13827387 TTTAAAACTC
*
13827397 ATTCGTTTATTATTCATTTATT
1 ATTCGTTTACTATTCATTTATT
*
13827419 ATTCGTTTGCTATTCATTTA
1 ATTCGTTTACTATTCATTTA
13827439 CAAATACTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.12, G:0.07, T:0.60
Consensus pattern (22 bp):
ATTCGTTTACTATTCATTTATT
Done.