Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167926.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_19, 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: 20060819
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 113000 characters in sequence are not A, C, G, or T
File 20 of 117
Found at i:2290213 original size:24 final size:23
Alignment explanation
Indices: 2290186--2290244 Score: 57
Period size: 25 Copynumber: 2.4 Consensus size: 23
2290176 CTGGGCTTAA
2290186 TTTTTTTTATC-TAAATATTATGTT
1 TTTTTTTTATCTTAAATATT-T-TT
*
2290210 TTTTTATTTAATCTTTAATATTTTT
1 TTTTT-TTT-ATCTTAAATATTTTT
*
2290235 TTTTCTTTAT
1 TTTTTTTTAT
2290245 TAAGGGTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
23 2 0.07
24 8 0.27
25 9 0.30
26 4 0.13
27 7 0.23
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (23 bp):
TTTTTTTTATCTTAAATATTTTT
Found at i:2298455 original size:16 final size:16
Alignment explanation
Indices: 2298434--2298468 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
2298424 CATTTATCAA
* *
2298434 GAAAAATTATCAATTT
1 GAAAAATCAACAATTT
2298450 GAAAAATCAACAATTT
1 GAAAAATCAACAATTT
2298466 GAA
1 GAA
2298469 CTCAACCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.29
Consensus pattern (16 bp):
GAAAAATCAACAATTT
Found at i:2298959 original size:29 final size:30
Alignment explanation
Indices: 2298912--2298973 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
2298902 CACTTTTCTT
2298912 AAAAAAGCCAATATATTTTTA-TTATA-CC
1 AAAAAAGCCAATATATTTTTATTTATATCC
* *
2298940 AAAATAAGCCATTATTTTTTTATTTATATCC
1 AAAA-AAGCCAATATATTTTTATTTATATCC
2298971 AAA
1 AAA
2298974 TAAACTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 4 0.14
29 15 0.52
30 5 0.17
31 5 0.17
ACGTcount: A:0.44, C:0.13, G:0.03, T:0.40
Consensus pattern (30 bp):
AAAAAAGCCAATATATTTTTATTTATATCC
Found at i:2299050 original size:30 final size:30
Alignment explanation
Indices: 2299007--2299096 Score: 87
Period size: 30 Copynumber: 3.0 Consensus size: 30
2298997 ATTTATTTAT
**
2299007 ATTAAGGGTTTATTTAAGTACAAATTAAAA
1 ATTAAGGACTTATTTAAGTACAAATTAAAA
2299037 ATTAAGGACTTATTTGAATGT--AAA-TAAAA
1 ATTAAGGACTTATTT-AA-GTACAAATTAAAA
* *
2299066 AGGTTAAGTACTTATTTAAGAACAAATTAAA
1 A--TTAAGGACTTATTTAAGTACAAATTAAA
2299097 GTCTAAGGAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
29 7 0.14
30 18 0.37
31 18 0.37
32 6 0.12
ACGTcount: A:0.48, C:0.04, G:0.13, T:0.34
Consensus pattern (30 bp):
ATTAAGGACTTATTTAAGTACAAATTAAAA
Found at i:2302802 original size:19 final size:18
Alignment explanation
Indices: 2302764--2302803 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
2302754 TTTTAATTAT
*
2302764 AATATATTTTATTCATTA
1 AATATATTTTATTCAATA
*
2302782 AATATATTTTTTTGCAATA
1 AATATATTTTATT-CAATA
2302801 AAT
1 AAT
2302804 TTTCAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.53
Consensus pattern (18 bp):
AATATATTTTATTCAATA
Found at i:2302873 original size:30 final size:29
Alignment explanation
Indices: 2302837--2302919 Score: 105
Period size: 30 Copynumber: 2.8 Consensus size: 29
2302827 TACATTGCAT
*
2302837 TTTAAAAAATTAAGTAAAAAATT-ATATTTG
1 TTTAAAAAATTAAGTAAAAAATTCATA--TC
*
2302867 TTTAAAAAATTAAATAAAAAACTTCATATC
1 TTTAAAAAATTAAGTAAAAAA-TTCATATC
*
2302897 TTTAAAATATTAAGTAAAAAATT
1 TTTAAAAAATTAAGTAAAAAATT
2302920 TCAAATCATT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
29 2 0.04
30 40 0.85
31 2 0.04
32 3 0.06
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.37
Consensus pattern (29 bp):
TTTAAAAAATTAAGTAAAAAATTCATATC
Found at i:2302934 original size:29 final size:29
Alignment explanation
Indices: 2302875--2302936 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
2302865 TGTTTAAAAA
*
2302875 ATTAAATAAAAAACTTCATATCTTTAAAAT
1 ATTAAATAAAAAACTTCAAATCTTT-AAAT
* *
2302905 ATTAAGTAAAAAATTTCAAATCATTT-AAT
1 ATTAAATAAAAAACTTCAAATC-TTTAAAT
2302934 ATT
1 ATT
2302937 CTTTATTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 6 0.21
30 19 0.68
31 3 0.11
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.39
Consensus pattern (29 bp):
ATTAAATAAAAAACTTCAAATCTTTAAAT
Found at i:2303074 original size:20 final size:19
Alignment explanation
Indices: 2303038--2303082 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
2303028 TGAAAATATT
*
2303038 TTTTTGGATAGAAAATAAA
1 TTTTTGAATAGAAAATAAA
*
2303057 TTTTTGAATAGATTAATAAA
1 TTTTTGAATAGA-AAATAAA
2303077 TCTTTT
1 T-TTTT
2303083 TTTAAATGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 11 0.50
20 7 0.32
21 4 0.18
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.47
Consensus pattern (19 bp):
TTTTTGAATAGAAAATAAA
Found at i:2303124 original size:32 final size:30
Alignment explanation
Indices: 2303080--2303197 Score: 119
Period size: 31 Copynumber: 3.8 Consensus size: 30
2303070 TAATAAATCT
* *
2303080 TTTTTTAAATGATATGAAAATTTTTACTTAA
1 TTTTTAAAATGATATG-AAATTTTTATTTAA
* *
2303111 TATTTTAAAATGATATGAAGTTTTTATTTGAT
1 T-TTTTAAAATGATATGAAATTTTTATTT-AA
*** *
2303143 TTTTTAAACCAATATGGAATTTTTATTTAA
1 TTTTTAAAATGATATGAAATTTTTATTTAA
*
2303173 TTTTTAAAATGATATAGAATTTTTT
1 TTTTTAAAATGATAT-GAAATTTTT
2303198 TAAAGGGGTT
Statistics
Matches: 69, Mismatches: 15, Indels: 6
0.77 0.17 0.07
Matches are distributed among these distances:
30 13 0.19
31 40 0.58
32 16 0.23
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.53
Consensus pattern (30 bp):
TTTTTAAAATGATATGAAATTTTTATTTAA
Found at i:2303364 original size:16 final size:16
Alignment explanation
Indices: 2303343--2303380 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
2303333 AAAAAATTCA
2303343 ATTTTT-TTCTTTATTT
1 ATTTTTATT-TTTATTT
*
2303359 ATTTTTATTTTTCTTT
1 ATTTTTATTTTTATTT
2303375 ATTTTT
1 ATTTTT
2303381 CCTTTTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 18 0.90
17 2 0.10
ACGTcount: A:0.13, C:0.05, G:0.00, T:0.82
Consensus pattern (16 bp):
ATTTTTATTTTTATTT
Found at i:2303367 original size:10 final size:10
Alignment explanation
Indices: 2303346--2303398 Score: 63
Period size: 10 Copynumber: 5.1 Consensus size: 10
2303336 AAATTCAATT
2303346 TTTTTCTTTA
1 TTTTTCTTTA
2303356 TTTATT-TTTA
1 TTT-TTCTTTA
2303366 TTTTTCTTTA
1 TTTTTCTTTA
*
2303376 TTTTTCCTTTT
1 TTTTT-CTTTA
2303387 TTTCTTCTTTA
1 TTT-TTCTTTA
2303398 T
1 T
2303399 AAAATTTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
9 2 0.05
10 19 0.51
11 14 0.38
12 2 0.05
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTCTTTA
Found at i:2304443 original size:14 final size:14
Alignment explanation
Indices: 2304424--2304457 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
2304414 ATGTTTTAGT
2304424 AATTTTAAAATTTA
1 AATTTTAAAATTTA
*
2304438 AATTTTAACATTTA
1 AATTTTAAAATTTA
2304452 AATTTT
1 AATTTT
2304458 TAATTTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (14 bp):
AATTTTAAAATTTA
Found at i:2304450 original size:8 final size:7
Alignment explanation
Indices: 2304424--2304470 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
2304414 ATGTTTTAGT
2304424 AATTTTA
1 AATTTTA
*
2304431 AAATTTA
1 AATTTTA
2304438 AATTTTA
1 AATTTTA
2304445 ACA-TTTA
1 A-ATTTTA
2304452 AATTTTTA
1 AA-TTTTA
*
2304460 ATTTTTA
1 AATTTTA
2304467 AATT
1 AATT
2304471 ATAATTTCCT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
6 1 0.03
7 26 0.79
8 6 0.18
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (7 bp):
AATTTTA
Found at i:2304475 original size:14 final size:14
Alignment explanation
Indices: 2304424--2304477 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
2304414 ATGTTTTAGT
**
2304424 AATTTTAAAATTTA
1 AATTTTAATTTTTA
**
2304438 AATTTTAACATTTA
1 AATTTTAATTTTTA
2304452 AATTTTTAATTTTTA
1 AA-TTTTAATTTTTA
*
2304467 AATTATAATTT
1 AATTTTAATTT
2304478 CCTCTTAACA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
14 23 0.66
15 12 0.34
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (14 bp):
AATTTTAATTTTTA
Found at i:2306097 original size:21 final size:21
Alignment explanation
Indices: 2306073--2306114 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2306063 GAGAAGTTTC
*
2306073 ATATTCGGATTT-TTAGGATGA
1 ATATTAGGATTTATTA-GATGA
2306094 ATATTAGGATTTATTAGATGA
1 ATATTAGGATTTATTAGATGA
2306115 GGGAGATCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.43
Consensus pattern (21 bp):
ATATTAGGATTTATTAGATGA
Found at i:2307875 original size:20 final size:20
Alignment explanation
Indices: 2307849--2307895 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
2307839 ATTGATATGG
*
2307849 AATTTTTTTACTAAGATTTTA
1 AATTTTTTAACTAA-ATTTTA
*
2307870 AATTTTTTAACTTAATTTTA
1 AATTTTTTAACTAAATTTTA
2307890 AATTTT
1 AATTTT
2307896 GAATATCTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (20 bp):
AATTTTTTAACTAAATTTTA
Found at i:2309234 original size:3 final size:3
Alignment explanation
Indices: 2309228--2309278 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
2309218 TCAACAACAC
*
2309228 TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2309276 TAT
1 TAT
2309279 CATCAAAATT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:2311476 original size:6 final size:6
Alignment explanation
Indices: 2311448--2311494 Score: 71
Period size: 6 Copynumber: 8.2 Consensus size: 6
2311438 ATATGTGTTT
*
2311448 AATATA AA-ATA AATAT- TATATA AATATA AATATA AATATA AATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AATATA
2311494 A
1 A
2311495 CAAATATATC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
5 9 0.24
6 28 0.76
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
AATATA
Found at i:2311499 original size:27 final size:28
Alignment explanation
Indices: 2311448--2311502 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
2311438 ATATGTGTTT
*
2311448 AATATAAAATAAATATTATATAAATATA
1 AATATAAAATAAATATTATACAAATATA
2311476 AATATAAATATAAATA-TA-ACAAATATA
1 AATATAAA-ATAAATATTATACAAATATA
2311503 TCTTTAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 8 0.32
28 10 0.40
29 7 0.28
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (28 bp):
AATATAAAATAAATATTATACAAATATA
Found at i:2315255 original size:21 final size:21
Alignment explanation
Indices: 2315231--2315272 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2315221 GAGAAGTTTC
*
2315231 ATATTCGGATTT-TTAGGATGA
1 ATATTAGGATTTATTA-GATGA
2315252 ATATTAGGATTTATTAGATGA
1 ATATTAGGATTTATTAGATGA
2315273 GGGAGATCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.43
Consensus pattern (21 bp):
ATATTAGGATTTATTAGATGA
Found at i:2317031 original size:20 final size:19
Alignment explanation
Indices: 2317005--2317051 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
2316995 ATTGATATGG
*
2317005 AATTTTTTTACTAAGATTTT
1 AATTTTTTAACTAA-ATTTT
*
2317025 AAATTTTTTAACTTAATTTT
1 -AATTTTTTAACTAAATTTT
2317045 AATTTTT
1 AATTTTT
2317052 GAATATCTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 7 0.29
20 5 0.21
21 12 0.50
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (19 bp):
AATTTTTTAACTAAATTTT
Found at i:2318394 original size:3 final size:3
Alignment explanation
Indices: 2318388--2318438 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
2318378 TCAACAACAC
2318388 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2318436 TAT
1 TAT
2318439 CATCAAAATT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2320291 original size:11 final size:11
Alignment explanation
Indices: 2320277--2320316 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
2320267 ATATGTGTTT
2320277 AATATAAAATA
1 AATATAAAATA
* *
2320288 AATATTATATA
1 AATATAAAATA
2320299 AATATAAATATA
1 AATATAAA-ATA
2320311 AATATA
1 AATATA
2320317 GATATAACAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AATATAAAATA
Found at i:2320305 original size:6 final size:6
Alignment explanation
Indices: 2320277--2320323 Score: 62
Period size: 6 Copynumber: 8.2 Consensus size: 6
2320267 ATATGTGTTT
* *
2320277 AATATA AA-ATA AATAT- TATATA AATATA AATATA AATATA GATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AATATA
2320323 A
1 A
2320324 CAAATATATC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
5 9 0.26
6 26 0.74
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (6 bp):
AATATA
Found at i:2324310 original size:36 final size:35
Alignment explanation
Indices: 2324254--2324354 Score: 105
Period size: 36 Copynumber: 2.8 Consensus size: 35
2324244 CAACTTTAAA
* *
2324254 TTTATACATATATAACAAATCTTTGATTCTTTCTTT
1 TTTAAACATATATAATAAATCTTTGATTCTTT-TTT
* *
2324290 TTTACACATATATAGTAAATCTTTTG-TTCTTTTTT
1 TTTAAACATATATAATAAATC-TTTGATTCTTTTTT
* * *
2324325 TCTCAAACATATATAATACATTTTTGATTC
1 T-TTAAACATATATAATAAATCTTTGATTC
2324355 AGCAGATACT
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
35 8 0.15
36 42 0.78
37 4 0.07
ACGTcount: A:0.31, C:0.14, G:0.04, T:0.51
Consensus pattern (35 bp):
TTTAAACATATATAATAAATCTTTGATTCTTTTTT
Found at i:2325418 original size:16 final size:16
Alignment explanation
Indices: 2325397--2325431 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
2325387 CATTTATCAA
* *
2325397 GAAAAATCATCGATTT
1 GAAAAATCAACAATTT
2325413 GAAAAATCAACAATTT
1 GAAAAATCAACAATTT
2325429 GAA
1 GAA
2325432 CTTGACCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.26
Consensus pattern (16 bp):
GAAAAATCAACAATTT
Found at i:2326061 original size:30 final size:31
Alignment explanation
Indices: 2326027--2326106 Score: 76
Period size: 30 Copynumber: 2.6 Consensus size: 31
2326017 TCTTAAGGAT
*
2326027 TTATTTAGGTACAAATTAAAA-ATTAGAGAC
1 TTATTTAGGTACAAATTAAAAGATTAAAGAC
* * * *
2326057 TTATTT-GAATATAAA-TAAAAGGTTAAATAC
1 TTATTTAG-GTACAAATTAAAAGATTAAAGAC
*
2326087 TTATTTAAGTACAAATTAAA
1 TTATTTAGGTACAAATTAAA
2326107 GTCTAAGGAT
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
29 6 0.16
30 28 0.74
31 4 0.11
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.36
Consensus pattern (31 bp):
TTATTTAGGTACAAATTAAAAGATTAAAGAC
Found at i:2327123 original size:13 final size:13
Alignment explanation
Indices: 2327101--2327141 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
2327091 ATATCAAAAA
2327101 TTAAAA-ATAATT
1 TTAAAATATAATT
*
2327113 TTAAATTATAATT
1 TTAAAATATAATT
2327126 TTAAAATATAAATT
1 TTAAAATAT-AATT
2327140 TT
1 TT
2327142 TTTTAGATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 5 0.20
13 14 0.56
14 6 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
TTAAAATATAATT
Found at i:2327209 original size:13 final size:13
Alignment explanation
Indices: 2327191--2327220 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2327181 AAAAAAAGAA
*
2327191 ATAATTTTAAATT
1 ATAATTTTAAAAT
2327204 ATAATTTTAAAAT
1 ATAATTTTAAAAT
2327217 ATAA
1 ATAA
2327221 AAAAAGTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
ATAATTTTAAAAT
Found at i:2327210 original size:84 final size:85
Alignment explanation
Indices: 2327105--2327268 Score: 269
Period size: 85 Copynumber: 1.9 Consensus size: 85
2327095 CAAAAATTAA
****
2327105 AAATAATTTTAAATTATAATTTTAAAATAT-AAATTTTTTTTAGATGTTAAAAAATATATAATGT
1 AAATAATTTTAAATTATAATTTTAAAATATAAAAAAAGTTTTAGATGTTAAAAAATATATAAT-T
2327169 TT-GGATATCCAAAAAAAAAG
65 TTGGGATATCCAAAAAAAAAG
2327189 AAATAATTTTAAATTATAATTTTAAAATATAAAAAAAGTTTTAGATGTTAAAAAATATATAATTT
1 AAATAATTTTAAATTATAATTTTAAAATATAAAAAAAGTTTTAGATGTTAAAAAATATATAATTT
2327254 TGGGATATCCAAAAA
66 TGGGATATCCAAAAA
2327269 CAATTAAAAT
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
84 33 0.45
85 41 0.55
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.39
Consensus pattern (85 bp):
AAATAATTTTAAATTATAATTTTAAAATATAAAAAAAGTTTTAGATGTTAAAAAATATATAATTT
TGGGATATCCAAAAAAAAAG
Found at i:2328417 original size:265 final size:265
Alignment explanation
Indices: 2327944--2328472 Score: 828
Period size: 265 Copynumber: 2.0 Consensus size: 265
2327934 ATGACCCGTG
* *
2327944 ATTTTTTTCTCTACACTAGAGGATTTTTCATGTAATTCTTGTTGTGCTTTATTTTTTTAGCGTTG
1 ATTTTTTTCTCTACACTAGAGGATTTTTCATGTAAATCTTGTTGTGCTTTATTTTTTTAGCATTG
* * *
2328009 TTGATTGTTAATTGTTGTATATTACTATGGGTTTATTATGATATATTGCTTCTGCGTTATTGTGT
66 TTGATTATTAATTGTTGTATATTACTATGGGTTTATTACGATATATTGCTTCTACGTTATTGTGT
* *
2328074 TTATTGCTTCAGACCAAACAAGCGATATCAAAGCGAGATTATTTTGAGACATCAATATAGAAGTA
131 TTATTGCTTCAGACCAAACAAGCGATATCAAAGCGAGATTATTTTGAGACATCAATACAGAAGCA
2328139 GTCCAAGATAGAAGTAAATTATGTTTGAGATCATGGAATGTCATACAAGTTCTATGATAAAATTG
196 GTCCAAGATAGAAGTAAATTATGTTTGAGATCATGGAATGTCATACAAGTTCTATGATAAAATTG
2328204 ACAGT
261 ACAGT
* *
2328209 ATTTTTTTCTCTACACTAGAGGGTTTTTCATGTAAATCTTGTTGTGCTTTATTTTTTCT-GTATT
1 ATTTTTTTCTCTACACTAGAGGATTTTTCATGTAAATCTTGTTGTGCTTTATTTTTT-TAGCATT
* * *
2328273 GTTGATTATTAATTGTTGTCTATTACTATGGGTTTATTACGATATATTGCTTTTACGTTGTTGTG
65 GTTGATTATTAATTGTTGTATATTACTATGGGTTTATTACGATATATTGCTTCTACGTTATTGTG
* ** * * ** *
2328338 TTTATTGCTTTAGACCCTACAAGTGGTATCAGTGCGAGATTATTTTTAGACATCAATACAGAAGC
130 TTTATTGCTTCAGACCAAACAAGCGATATCAAAGCGAGATTATTTTGAGACATCAATACAGAAGC
* *
2328403 AG-CCTAAGATAGAAGTAAATTATGTTTGAGATCATGGAATGTGATACAGGTTCTATGATAAAAT
195 AGTCC-AAGATAGAAGTAAATTATGTTTGAGATCATGGAATGTCATACAAGTTCTATGATAAAAT
2328467 TGACAG
259 TGACAG
2328473 CATCAAATTA
Statistics
Matches: 240, Mismatches: 22, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
264 2 0.01
265 237 0.99
266 1 0.00
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.42
Consensus pattern (265 bp):
ATTTTTTTCTCTACACTAGAGGATTTTTCATGTAAATCTTGTTGTGCTTTATTTTTTTAGCATTG
TTGATTATTAATTGTTGTATATTACTATGGGTTTATTACGATATATTGCTTCTACGTTATTGTGT
TTATTGCTTCAGACCAAACAAGCGATATCAAAGCGAGATTATTTTGAGACATCAATACAGAAGCA
GTCCAAGATAGAAGTAAATTATGTTTGAGATCATGGAATGTCATACAAGTTCTATGATAAAATTG
ACAGT
Found at i:2333844 original size:29 final size:28
Alignment explanation
Indices: 2333781--2333860 Score: 83
Period size: 28 Copynumber: 2.9 Consensus size: 28
2333771 TATCCCGAAT
* *
2333781 TTTTTATATTTCAAATATATTTTATAAA
1 TTTTTAAATTTAAAATATATTTTATAAA
* * *
2333809 ATATTAAATTTAAAATAATATTTTATATA
1 TTTTTAAATTTAAAAT-ATATTTTATAAA
*
2333838 TTTTT-AA-TTATAATATATTTTAT
1 TTTTTAAATTTAAAATATATTTTAT
2333861 TCATGAAATA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
26 9 0.21
27 6 0.14
28 14 0.33
29 14 0.33
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.56
Consensus pattern (28 bp):
TTTTTAAATTTAAAATATATTTTATAAA
Found at i:2334255 original size:32 final size:30
Alignment explanation
Indices: 2334217--2334333 Score: 119
Period size: 32 Copynumber: 3.8 Consensus size: 30
2334207 TAATAAATCT
*
2334217 TTTTTAAAATGATATGAAAATTTTTACTTAA
1 TTTTTAAAATGATAT-AAAATTTTTATTTAA
* *
2334248 TATTTTAAAATGATATAAAGTTTTTTATTTTAT
1 T-TTTTAAAATGATATAAA-ATTTTTA-TTTAA
** **
2334281 TTTTTAAACCGATATGGAA-TTTTATTTAA
1 TTTTTAAAATGATATAAAATTTTTATTTAA
*
2334310 TTTTTAAAATGATATAGAATTTTT
1 TTTTTAAAATGATATAAAATTTTT
2334334 TTAAAAGGAG
Statistics
Matches: 70, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
29 20 0.29
30 9 0.13
31 4 0.06
32 33 0.47
33 4 0.06
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.52
Consensus pattern (30 bp):
TTTTTAAAATGATATAAAATTTTTATTTAA
Found at i:2341935 original size:18 final size:18
Alignment explanation
Indices: 2341912--2341949 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
2341902 GAAAATATTG
* *
2341912 GTATGAAAGTTTGATGAT
1 GTATGAAAATCTGATGAT
2341930 GTATGAAAATCTGATGAT
1 GTATGAAAATCTGATGAT
2341948 GT
1 GT
2341950 TTTGATATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.37
Consensus pattern (18 bp):
GTATGAAAATCTGATGAT
Found at i:2347868 original size:28 final size:26
Alignment explanation
Indices: 2347827--2347904 Score: 68
Period size: 28 Copynumber: 2.9 Consensus size: 26
2347817 ATCCCGAATT
* *
2347827 TTTATATTTCAAATATATTTTATAAAA
1 TTTAAATTTAAAATATATTTTAT-AAA
*
2347854 TATTAAATTTAAAATAATTATTTTATATA
1 T-TTAAATTTAAAAT-A-TATTTTATAAA
* *
2347883 TTTTAA-TTATAATATATTTTAT
1 TTTAAATTTAAAATATATTTTAT
2347905 TCATGAAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
25 8 0.19
26 1 0.02
27 7 0.16
28 15 0.35
29 4 0.09
30 8 0.19
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (26 bp):
TTTAAATTTAAAATATATTTTATAAA
Found at i:2348298 original size:32 final size:30
Alignment explanation
Indices: 2348260--2348376 Score: 119
Period size: 32 Copynumber: 3.8 Consensus size: 30
2348250 AATTAAATCT
*
2348260 TTTTTAAAATGATATGAAAATTTTTACTTAA
1 TTTTTAAAATGATAT-AAAATTTTTATTTAA
* *
2348291 TATTTTAAAATGATATAAAGTTTTTTATTTTAT
1 T-TTTTAAAATGATATAAA-ATTTTTA-TTTAA
** **
2348324 TTTTTAAACCGATATGGAA-TTTTATTTAA
1 TTTTTAAAATGATATAAAATTTTTATTTAA
*
2348353 TTTTTAAAATGATATAGAATTTTT
1 TTTTTAAAATGATATAAAATTTTT
2348377 TTAAAGGAGT
Statistics
Matches: 70, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
29 20 0.29
30 9 0.13
31 4 0.06
32 33 0.47
33 4 0.06
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.52
Consensus pattern (30 bp):
TTTTTAAAATGATATAAAATTTTTATTTAA
Found at i:2356054 original size:18 final size:18
Alignment explanation
Indices: 2356031--2356068 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
2356021 AGAAATATTG
* *
2356031 GTATGAAAATTTGATGAT
1 GTATGAAAATCTAATGAT
2356049 GTATGAAAATCTAATGAT
1 GTATGAAAATCTAATGAT
2356067 GT
1 GT
2356069 TTTGATATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.03, G:0.21, T:0.37
Consensus pattern (18 bp):
GTATGAAAATCTAATGAT
Found at i:2364200 original size:58 final size:56
Alignment explanation
Indices: 2364078--2364289 Score: 230
Period size: 61 Copynumber: 3.6 Consensus size: 56
2364068 GTACAGAGAG
* * *
2364078 AATTGATACTTTCAACTTTTCCTC-AAAATATTTTTTAAAAACTTTAATTTCGAGAAA
1 AATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTGAAAAC-TTATTTTCAAGAAA
* * *
2364135 AATTGATACTTTTAACTTTTCCTCAAAAATCCACTTTTGAAAACTTATTTTTAAGAAA
1 AATTGATACTTTCAACTTTTCCTCAAAAAT--ATTTTTGAAAACTTATTTTCAAGAAA
* * * *
2364193 AATTGATACTTTCAACTTTT-TTCCAAAAATATTTTTTTTTAGGAAGCTTATTTTCAAGGAA
1 AATTGATACTTTCAACTTTTCCT-CAAAAATA----TTTTT-GAAAACTTATTTTCAAGAAA
2364254 AATTGATACTTTCAACTTTTCCTCAAAAATATTTTT
1 AATTGATACTTTCAACTTTTCCTCAAAAATATTTTT
2364290 TTTAATTTTA
Statistics
Matches: 131, Mismatches: 14, Indels: 20
0.79 0.08 0.12
Matches are distributed among these distances:
56 1 0.01
57 29 0.22
58 42 0.32
59 9 0.07
60 5 0.04
61 44 0.34
62 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.06, T:0.44
Consensus pattern (56 bp):
AATTGATACTTTCAACTTTTCCTCAAAAATATTTTTGAAAACTTATTTTCAAGAAA
Found at i:2364334 original size:11 final size:11
Alignment explanation
Indices: 2364307--2364349 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
2364297 TTATTTAAAG
*
2364307 AAATAAAAGAAA
1 AAATAAAA-ATA
2364319 AAATAAAAATA
1 AAATAAAAATA
2364330 AAATAAAAATA
1 AAATAAAAATA
*
2364341 AGATAAAAA
1 AAATAAAAA
2364350 GTATTAAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
11 21 0.72
12 8 0.28
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.14
Consensus pattern (11 bp):
AAATAAAAATA
Found at i:2365317 original size:7 final size:8
Alignment explanation
Indices: 2365302--2365471 Score: 87
Period size: 8 Copynumber: 22.1 Consensus size: 8
2365292 TAAAAATAAT
*
2365302 AATAGATA
1 AATATATA
2365310 AAT-TAT-
1 AATATATA
2365316 AATATATA
1 AATATATA
*
2365324 AATAGATA
1 AATATATA
2365332 AATA-AT-
1 AATATATA
*
2365338 AATAAATA
1 AATATATA
*
2365346 CATATATA
1 AATATATA
2365354 TAATATATA
1 -AATATATA
*
2365363 AATAGATA
1 AATATATA
2365371 AATA-ATA
1 AATATATA
2365378 AATATATA
1 AATATATA
*
2365386 TAA-ATATT
1 -AATATATA
* *
2365394 AACAGATA
1 AATATATA
*
2365402 AA-AAAT-
1 AATATATA
2365408 AATA-AT-
1 AATATATA
2365414 AATA-ATA
1 AATATATA
2365421 AATATATA
1 AATATATA
*
2365429 TTAATAAATA
1 --AATATATA
2365439 GTAATA-ATA
1 --AATATATA
*
2365448 AATAAATA
1 AATATATA
2365456 AATA-ATA
1 AATATATA
*
2365463 AATACATA
1 AATATATA
2365471 A
1 A
2365472 GATACAAAAT
Statistics
Matches: 135, Mismatches: 12, Indels: 30
0.76 0.07 0.17
Matches are distributed among these distances:
6 17 0.13
7 37 0.27
8 57 0.42
9 12 0.09
10 12 0.09
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.32
Consensus pattern (8 bp):
AATATATA
Found at i:2365317 original size:14 final size:14
Alignment explanation
Indices: 2365295--2365463 Score: 82
Period size: 14 Copynumber: 11.6 Consensus size: 14
2365285 AGGTAAGTAA
2365295 AAATAATAATAGAT
1 AAATAATAATAGAT
* *
2365309 AAATTATAATATAT
1 AAATAATAATAGAT
2365323 AAATAGATAAATA-AT
1 AAATA-AT-AATAGAT
*
2365338 -AATAAATACATATAT
1 AAAT-AATA-ATAGAT
2365353 ATAATATATAAATAGAT
1 A-AATA-AT-AATAGAT
*
2365370 AAATAATAAATATATAT
1 AAATAAT--A-ATAGAT
* *
2365387 AAATATTAACAGAT
1 AAATAATAATAGAT
*
2365401 AAAAAATAATA-AT
1 AAATAATAATAGAT
*
2365414 -AATAATAA-ATAT
1 AAATAATAATAGAT
*
2365426 ATATTAATAAATAG-T
1 A-AATAAT-AATAGAT
*
2365441 -AATAATAAATAAAT
1 AAATAAT-AATAGAT
2365455 AAATAATAA
1 AAATAATAA
2365464 ATACATAAGA
Statistics
Matches: 121, Mismatches: 16, Indels: 36
0.70 0.09 0.21
Matches are distributed among these distances:
11 1 0.01
12 9 0.07
13 13 0.11
14 44 0.36
15 19 0.16
16 12 0.10
17 22 0.18
18 1 0.01
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (14 bp):
AAATAATAATAGAT
Found at i:2365345 original size:4 final size:4
Alignment explanation
Indices: 2365302--2365494 Score: 75
Period size: 4 Copynumber: 47.5 Consensus size: 4
2365292 TAAAAATAAT
* * * *
2365302 AATA GATA AATTA TAATA TATA AATA GATA AAT- AAT- AATA AATA CATA
1 AATA AATA AA-TA -AATA AATA AATA AATA AATA AATA AATA AATA AATA
* * * *
2365350 TATA TAATA TATA AATA GATA AAT- AATA AATA TATATA AATA TTAACA
1 AATA -AATA AATA AATA AATA AATA AATA AATA -A-ATA AATA --AATA
* *
2365398 GATA AA-A AAT- AAT- AAT- AAT- AATA AATA TATATT AATA AATA GTAAT-
1 AATA AATA AATA AATA AATA AATA AATA AATA -A-ATA AATA AATA --AATA
* *
2365444 AATA AATA AATA AAT- AATA AATA CATA AGATA CA-A AATAA AATAA AATA
1 AATA AATA AATA AATA AATA AATA AATA A-ATA AATA AAT-A AAT-A AATA
2365493 AA
1 AA
2365495 ATACAAAATA
Statistics
Matches: 146, Mismatches: 23, Indels: 40
0.70 0.11 0.19
Matches are distributed among these distances:
3 32 0.22
4 78 0.53
5 23 0.16
6 13 0.09
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (4 bp):
AATA
Found at i:2365353 original size:32 final size:32
Alignment explanation
Indices: 2365299--2365391 Score: 102
Period size: 32 Copynumber: 2.9 Consensus size: 32
2365289 AAGTAAAAAT
*
2365299 AATAATAGATAAAT-TATAATATATAAATAGATA
1 AATAATA-ATAAATAAAT-ATATATAAATAGATA
* *
2365332 AATAATAATAAATACATATATAT-AATATATA
1 AATAATAATAAATAAATATATATAAATAGATA
2365363 AATAGATAA-ATAATAAATATATATAAATA
1 AATA-ATAATA-AATAAATATATATAAATA
2365392 TTAACAGATA
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
31 12 0.23
32 28 0.53
33 13 0.25
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.33
Consensus pattern (32 bp):
AATAATAATAAATAAATATATATAAATAGATA
Found at i:2365356 original size:39 final size:40
Alignment explanation
Indices: 2365295--2365470 Score: 154
Period size: 39 Copynumber: 4.5 Consensus size: 40
2365285 AGGTAAGTAA
* *
2365295 AAATAATAATAGATA-A-AT-TA-TAATATATAAATAGAT
1 AAATAATAATAAATACATATATATTAATATATAAATAAAT
*
2365331 AAATAATAATAAATACATATATA-TAATATATAAATAGAT
1 AAATAATAATAAATACATATATATTAATATATAAATAAAT
* * * * *
2365370 AAATAATAA-ATATATATAAATATTAACAGATAAA-AAAT
1 AAATAATAATAAATACATATATATTAATATATAAATAAAT
*
2365408 -AATAATAAT-AATAAATATATATTAATAAATAGTAATAATAAAT
1 AAATAATAATAAATACATATATATTAAT--ATA-T-A-AATAAAT
2365451 AAATAAATAATAAATACATA
1 AAAT-AATAATAAATACATA
2365471 AGATACAAAA
Statistics
Matches: 113, Mismatches: 13, Indels: 18
0.78 0.09 0.12
Matches are distributed among these distances:
36 14 0.12
37 22 0.19
38 15 0.13
39 38 0.34
40 1 0.01
41 1 0.01
42 2 0.02
43 4 0.04
44 3 0.03
45 6 0.05
46 7 0.06
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.32
Consensus pattern (40 bp):
AAATAATAATAAATACATATATATTAATATATAAATAAAT
Found at i:2365451 original size:43 final size:44
Alignment explanation
Indices: 2365354--2365466 Score: 114
Period size: 43 Copynumber: 2.6 Consensus size: 44
2365344 TACATATATA
2365354 TAATATATAAATAGAT-A-AATAATAAATATATATAAATATTAACAG
1 TAATA-ATAAATA-ATAATAATAATAAATATATATAAATA-TAACAG
* * *
2365399 --ATAAAAAATAATAATAATAATAAATATATATTAATA-AATAG
1 TAATAATAAATAATAATAATAATAAATATATATAAATATAACAG
2365440 TAATAATAAAT-A-AATAAATAATAAATA
1 TAATAATAAATAATAAT-AATAATAAATA
2365467 CATAAGATAC
Statistics
Matches: 59, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
41 9 0.15
42 19 0.32
43 31 0.53
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.32
Consensus pattern (44 bp):
TAATAATAAATAATAATAATAATAAATATATATAAATATAACAG
Found at i:2365498 original size:22 final size:23
Alignment explanation
Indices: 2365468--2365515 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
2365458 TAATAAATAC
*
2365468 ATAAGATACAAAATA-AAATAAA
1 ATAAAATACAAAATAGAAATAAA
2365490 ATAAAATACAAAATATGAAATAAA
1 ATAAAATACAAAATA-GAAATAAA
2365514 AT
1 AT
2365516 GGGCCTACCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.61
24 9 0.39
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.21
Consensus pattern (23 bp):
ATAAAATACAAAATAGAAATAAA
Found at i:2365825 original size:80 final size:79
Alignment explanation
Indices: 2365733--2365948 Score: 289
Period size: 79 Copynumber: 2.8 Consensus size: 79
2365723 GACAAAGCTT
* * *
2365733 TTCTAATCAGAGGCTCGATGACTTTTGAAAATAAATAAACAAAGCTCCTCTAATCAGAGGCTTTT
1 TTCTAATAAGAGGCTCAACGACTTTTG-AAATAAATAAACAAAGCTCCTCTAATCAGAGGCTTTT
2365798 GAAAATAAACGGCTC
65 GAAAATAAACGGCTC
*
2365813 TTCTAATAAGAGGCTCTACGACTTTTGGAAAT-AATAAACAAAGCTCCTCTAATCAGAGGCTTTT
1 TTCTAATAAGAGGCTCAACGACTTTT-GAAATAAATAAACAAAGCTCCTCTAATCAGAGGCTTTT
* *
2365877 GGAAATAAACTGCTC
65 GAAAATAAACGGCTC
* * **
2365892 CTCTAATTAGAGGCTCAACGACTTTT-AAA-AAAT-AA-ATGGCTCCTCTAATCAGAGGCT
1 TTCTAATAAGAGGCTCAACGACTTTTGAAATAAATAAACAAAGCTCCTCTAATCAGAGGCT
2365949 CAACGACTTT
Statistics
Matches: 124, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
75 20 0.16
76 2 0.02
77 6 0.05
79 68 0.55
80 27 0.22
81 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.28
Consensus pattern (79 bp):
TTCTAATAAGAGGCTCAACGACTTTTGAAATAAATAAACAAAGCTCCTCTAATCAGAGGCTTTTG
AAAATAAACGGCTC
Found at i:2365934 original size:42 final size:41
Alignment explanation
Indices: 2365879--2366054 Score: 221
Period size: 42 Copynumber: 4.2 Consensus size: 41
2365869 AGGCTTTTGG
* *
2365879 AAATAAACTGCTCCTCTAATTAGAGGCTCAACGACTTTTAAA
1 AAATAAA-TGCTCCTCTAATCAGAGGCTCAACGACTTTGAAA
2365921 AAATAAATGGCTCCTCTAATCAGAGGCTCAACGACTTTGAAA
1 AAATAAAT-GCTCCTCTAATCAGAGGCTCAACGACTTTGAAA
* * *
2365963 TTAAATAAA-GCTCCTCTAAACAGAGGCTCAATGACTTTTG-GA
1 --AAATAAATGCTCCTCTAATCAGAGGCTCAACGAC-TTTGAAA
* *
2366005 AAATAAATGGCTCCTCTAATCAAAGGCTCAACAACTTTGAAA
1 AAATAAAT-GCTCCTCTAATCAGAGGCTCAACGACTTTGAAA
2366047 AAATAAAT
1 AAATAAAT
2366055 AAAGCTCTTT
Statistics
Matches: 117, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
40 7 0.06
41 5 0.04
42 94 0.80
43 4 0.03
44 7 0.06
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.26
Consensus pattern (41 bp):
AAATAAATGCTCCTCTAATCAGAGGCTCAACGACTTTGAAA
Found at i:2365988 original size:84 final size:85
Alignment explanation
Indices: 2365879--2366061 Score: 260
Period size: 84 Copynumber: 2.1 Consensus size: 85
2365869 AGGCTTTTGG
** *
2365879 AAATAAACTGCTCCTCTAATTAGAGGCTCAACGACTTTTAAAAAATAAATGGCTCCTCTAATCAG
1 AAATAAA--GCTCCTCTAAACAGAGGCTCAACGACTTTTAAAAAATAAATGGCTCCTCTAATCAA
* *
2365944 AGGCTCAACGACTTTG-AAATT
64 AGGCTCAACAACTTTGAAAAAT
* **
2365965 AAATAAAGCTCCTCTAAACAGAGGCTCAATGACTTTTGGAAAATAAATGGCTCCTCTAATCAAAG
1 AAATAAAGCTCCTCTAAACAGAGGCTCAACGACTTTTAAAAAATAAATGGCTCCTCTAATCAAAG
2366030 GCTCAACAACTTTGAAAAAAT
66 GCTCAACAACTTTG-AAAAAT
2366051 AAATAAAGCTC
1 AAATAAAGCTC
2366062 TTTGACAATC
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
84 65 0.75
86 22 0.25
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.26
Consensus pattern (85 bp):
AAATAAAGCTCCTCTAAACAGAGGCTCAACGACTTTTAAAAAATAAATGGCTCCTCTAATCAAAG
GCTCAACAACTTTGAAAAAT
Found at i:2367091 original size:29 final size:29
Alignment explanation
Indices: 2367059--2367121 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
2367049 TGAGTCCTCC
2367059 TTTTTCATTCACTTT-TTTTT-ATTTTCTTT
1 TTTTTCATT--CTTTCTTTTTCATTTTCTTT
*
2367088 TTTTTCATTTTTTCTTTTTCATTTTCTTT
1 TTTTTCATTCTTTCTTTTTCATTTTCTTT
2367117 TTTTT
1 TTTTT
2367122 TTCATTTTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 3 0.10
28 5 0.16
29 23 0.74
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.79
Consensus pattern (29 bp):
TTTTTCATTCTTTCTTTTTCATTTTCTTT
Found at i:2367100 original size:17 final size:17
Alignment explanation
Indices: 2367080--2367129 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
2367070 CTTTTTTTTA
2367080 TTTTCTTTTTTTTCATT
1 TTTTCTTTTTTTTCATT
2367097 TTTTC---TTTTTCATT
1 TTTTCTTTTTTTTCATT
2367111 TTCTT-TTTTTTTTCATT
1 TT-TTCTTTTTTTTCATT
2367128 TT
1 TT
2367130 CATTTTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
14 11 0.38
15 2 0.07
17 16 0.55
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTCTTTTTTTTCATT
Found at i:2367106 original size:23 final size:23
Alignment explanation
Indices: 2367066--2367137 Score: 67
Period size: 23 Copynumber: 3.0 Consensus size: 23
2367056 TCCTTTTTCA
*
2367066 TTCACTTTTTTTTATTTTCTTTTTT
1 TTCA-TTTTTTCT-TTTTCTTTTTT
2367091 TTCATTTTTTCTTTTTCATTTTCTT
1 TTCATTTTTTCTTTTTC-TTTT-TT
* *
2367116 TT--TTTTTTCATTTTCATTTTT
1 TTCATTTTTTCTTTTTCTTTTTT
2367137 T
1 T
2367138 AAGCATAGTT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
21 3 0.07
22 3 0.07
23 17 0.40
24 11 0.26
25 8 0.19
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.79
Consensus pattern (23 bp):
TTCATTTTTTCTTTTTCTTTTTT
Found at i:2367129 original size:29 final size:29
Alignment explanation
Indices: 2367073--2367136 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
2367063 TCATTCACTT
*
2367073 TTTTTTATTTTCTTTTTTTTCATTTTTTC-
1 TTTTTCATTTTCTTTTTTTTCA-TTTTTCA
2367102 TTTTTCATTTTCTTTTTTTTTTCA-TTTTCA
1 TTTTTCATTTTC--TTTTTTTTCATTTTTCA
2367132 TTTTT
1 TTTTT
2367137 TAAGCATAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
29 16 0.52
30 5 0.16
31 10 0.32
ACGTcount: A:0.08, C:0.11, G:0.00, T:0.81
Consensus pattern (29 bp):
TTTTTCATTTTCTTTTTTTTCATTTTTCA
Found at i:2367130 original size:17 final size:17
Alignment explanation
Indices: 2367071--2367137 Score: 74
Period size: 14 Copynumber: 4.2 Consensus size: 17
2367061 TTTCATTCAC
2367071 TTTTTTTT-ATTTTC--
1 TTTTTTTTCATTTTCTT
2367085 TTTTTTTTCA--TT-TT
1 TTTTTTTTCATTTTCTT
*
2367099 TTCTTTTTCATTTTCTT
1 TTTTTTTTCATTTTCTT
2367116 TTTTTTTTCATTTTCATT
1 TTTTTTTTCATTTTC-TT
2367134 TTTT
1 TTTT
2367138 AAGCATAGTT
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
13 2 0.05
14 17 0.39
15 1 0.02
16 2 0.05
17 16 0.36
18 6 0.14
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTTTCATTTTCTT
Found at i:2377627 original size:61 final size:61
Alignment explanation
Indices: 2377493--2377657 Score: 214
Period size: 61 Copynumber: 2.8 Consensus size: 61
2377483 TGCTTTTATA
* **
2377493 CAAGGAGAATTGATACTTTCAACTTTTTTCC-AAAATA---TTTTTTAGAAACTTTAATTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTAGAAACTTTAATTT
* * * *
2377550 CGAGAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTAGGAAGC-TTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTA-GAAACTTTAATTT
*
2377611 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTT
2377658 GAATTTTATT
Statistics
Matches: 93, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
57 26 0.28
58 6 0.06
61 57 0.61
62 4 0.04
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.44
Consensus pattern (61 bp):
CAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTAGAAACTTTAATTT
Found at i:2377693 original size:14 final size:14
Alignment explanation
Indices: 2377676--2377702 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2377666 TTTAAAGAAA
2377676 AAAATATAAAATAC
1 AAAATATAAAATAC
2377690 AAAATATAAAATA
1 AAAATATAAAATA
2377703 TAAATGAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (14 bp):
AAAATATAAAATAC
Found at i:2377728 original size:16 final size:16
Alignment explanation
Indices: 2377675--2377753 Score: 74
Period size: 16 Copynumber: 4.9 Consensus size: 16
2377665 ATTTAAAGAA
*
2377675 AAAAATATAAAATACA-
1 AAAAATA-AAAATAAAG
*
2377691 AAATATAAAATATAAATG
1 AAAAATAAAA-ATAAA-G
2377709 -AAAATAAAAATAAAG
1 AAAAATAAAAATAAAG
*
2377724 AAAAAT-AAAATAAAAT
1 AAAAATAAAAAT-AAAG
2377740 AAAAATAAAAATAA
1 AAAAATAAAAATAA
2377754 GATAAAAAGT
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
15 9 0.17
16 31 0.58
17 13 0.25
ACGTcount: A:0.77, C:0.01, G:0.03, T:0.19
Consensus pattern (16 bp):
AAAAATAAAAATAAAG
Found at i:2377733 original size:5 final size:5
Alignment explanation
Indices: 2377681--2377760 Score: 65
Period size: 5 Copynumber: 15.2 Consensus size: 5
2377671 AGAAAAAAAT
* *
2377681 ATAAA ATACA A-AAT ATAAA ATATAA ATGAAA ATAAAA ATAAA GA-AAA
1 ATAAA ATAAA ATAAA ATAAA ATA-AA AT-AAA AT-AAA ATAAA -ATAAA
*
2377728 ATAAA ATAAA ATAAAA ATAAAA ATAAG ATAAA A
1 ATAAA ATAAA AT-AAA AT-AAA ATAAA ATAAA A
2377761 AGTATTAAAC
Statistics
Matches: 62, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
4 3 0.05
5 33 0.53
6 25 0.40
7 1 0.02
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:2377760 original size:10 final size:11
Alignment explanation
Indices: 2377676--2377761 Score: 77
Period size: 11 Copynumber: 7.5 Consensus size: 11
2377666 TTTAAAGAAA
2377676 AAAATATAAAAT
1 AAAA-ATAAAAT
2377688 ACAAAATATAAAAT
1 --AAAA-ATAAAAT
*
2377702 ATAAATGAAAAT
1 AAAAAT-AAAAT
*
2377714 AAAAAT-AAAG
1 AAAAATAAAAT
2377724 AAAAATAAAAT
1 AAAAATAAAAT
2377735 -AAAATAAAAAT
1 AAAAAT-AAAAT
*
2377746 AAAAATAAGAT
1 AAAAATAAAAT
2377757 AAAAA
1 AAAAA
2377762 GTATTAAACA
Statistics
Matches: 63, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
10 14 0.22
11 19 0.30
12 18 0.29
14 12 0.19
ACGTcount: A:0.77, C:0.01, G:0.03, T:0.19
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:2377760 original size:16 final size:17
Alignment explanation
Indices: 2377690--2377761 Score: 78
Period size: 17 Copynumber: 4.3 Consensus size: 17
2377680 TATAAAATAC
2377690 AAAATATAAAATATAA-AT
1 AAAA-ATAAAA-ATAAGAT
* *
2377708 GAAAATAAAAATAA-AG
1 AAAAATAAAAATAAGAT
*
2377724 AAAAAT-AAAATAAAAT
1 AAAAATAAAAATAAGAT
2377740 AAAAATAAAAATAAGAT
1 AAAAATAAAAATAAGAT
2377757 AAAAA
1 AAAAA
2377762 GTATTAAACA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
15 7 0.15
16 17 0.36
17 20 0.43
18 3 0.06
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (17 bp):
AAAAATAAAAATAAGAT
Found at i:2377795 original size:3 final size:3
Alignment explanation
Indices: 2377787--2377834 Score: 80
Period size: 3 Copynumber: 16.0 Consensus size: 3
2377777 AATCTAATCA
2377787 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
2377832 AAT
1 AAT
2377835 GAAAAAAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
3 38 0.88
4 3 0.07
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2378699 original size:20 final size:20
Alignment explanation
Indices: 2378684--2378926 Score: 105
Period size: 22 Copynumber: 11.2 Consensus size: 20
2378674 AAAAAAATGT
* *
2378684 TAATAGATAATTAAAAGAAAA
1 TAATAGATAAATAAAA-ATAA
* *
2378705 TAATCAAATAAATAAAAATAT
1 TAAT-AGATAAATAAAAATAA
* *
2378726 TAACAGATAAGTAAAAATAA
1 TAATAGATAAATAAAAATAA
* *
2378746 TAATAGATAAATTATAATATA
1 TAATAGATAAATAAAAATA-A
* *
2378767 TAAATAGACAAATAATAATAAA
1 T-AATAGATAAATAAAAAT-AA
* *
2378789 TACATATATAATATATAAATAGA
1 TA-ATAGATAA-ATAAAAATA-A
*
2378812 TAAATA-ATAAATATATATAAATAT
1 T-AATAGAT-AA-ATA-A-AAATAA
* *
2378836 TAACAGATAAAAAAATAATAA
1 TAATAGATAAATAAA-AATAA
* * *
2378857 TAATACATATATTAATAAATAG
1 TAATAGATA-AATAA-AAATAA
2378879 TAATA-ATAAATAAATAAATAA
1 TAATAGATAAAT-AA-AAATAA
*
2378900 TAAATATATAAGATACAAAATAA
1 T-AATAGATAA-ATA-AAAATAA
2378923 -AATA
1 TAATA
2378927 AAATAAAATA
Statistics
Matches: 172, Mismatches: 30, Indels: 40
0.71 0.12 0.17
Matches are distributed among these distances:
20 31 0.18
21 40 0.23
22 54 0.31
23 35 0.20
24 7 0.04
25 5 0.03
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (20 bp):
TAATAGATAAATAAAAATAA
Found at i:2378735 original size:42 final size:40
Alignment explanation
Indices: 2378676--2378757 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 40
2378666 AAAAAAATAA
* * *
2378676 AAAAATGTTAATAGATAATTAAAAGAAAATAATCAAATAAAT
1 AAAAATATTAACAGATAAGTAAAA-AAAATAAT-AAATAAAT
* *
2378718 AAAAATATTAACAGATAAGTAAAAATAATAATAGATAAAT
1 AAAAATATTAACAGATAAGTAAAAAAAATAATAAATAAAT
2378758 TATAATATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
40 7 0.20
41 7 0.20
42 21 0.60
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (40 bp):
AAAAATATTAACAGATAAGTAAAAAAAATAATAAATAAAT
Found at i:2378762 original size:7 final size:8
Alignment explanation
Indices: 2378747--2378910 Score: 80
Period size: 8 Copynumber: 21.1 Consensus size: 8
2378737 TAAAAATAAT
*
2378747 AATAGATA
1 AATATATA
2378755 AAT-TAT-
1 AATATATA
2378761 AATATATA
1 AATATATA
* *
2378769 AATAGACA
1 AATATATA
2378777 AATA-AT-
1 AATATATA
*
2378783 AATAAATA
1 AATATATA
*
2378791 CATATAT-
1 AATATATA
2378798 AATATATA
1 AATATATA
*
2378806 AATAGATA
1 AATATATA
2378814 AATA-ATA
1 AATATATA
2378821 AATATATA
1 AATATATA
2378829 TAA-ATATTA
1 -AATATA-TA
* *
2378838 ACAGATAAA
1 A-ATATATA
*
2378847 AAAATA-A
1 AATATATA
2378854 TAATA-ATA
1 -AATATATA
* *
2378862 CATATATT
1 AATATATA
*
2378870 AATAAATA
1 AATATATA
2378878 GTAATA-ATA
1 --AATATATA
*
2378887 AATAAATA
1 AATATATA
2378895 AATA-ATA
1 AATATATA
2378902 AATATATA
1 AATATATA
2378910 A
1 A
2378911 GATACAAAAT
Statistics
Matches: 123, Mismatches: 16, Indels: 34
0.71 0.09 0.20
Matches are distributed among these distances:
6 7 0.06
7 37 0.30
8 62 0.50
9 10 0.08
10 7 0.06
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.31
Consensus pattern (8 bp):
AATATATA
Found at i:2378783 original size:19 final size:19
Alignment explanation
Indices: 2378759--2378820 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 19
2378749 TAGATAAATT
*
2378759 ATAATATATAAATAGACAA
1 ATAATATATAAATAGATAA
* *
2378778 ATAATA-ATAAATACATAT
1 ATAATATATAAATAGATAA
2378796 ATAATATATAAATAGATAA
1 ATAATATATAAATAGATAA
2378815 ATAATA
1 ATAATA
2378821 AATATATATA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
18 15 0.41
19 22 0.59
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (19 bp):
ATAATATATAAATAGATAA
Found at i:2378799 original size:15 final size:14
Alignment explanation
Indices: 2378703--2378910 Score: 97
Period size: 15 Copynumber: 14.1 Consensus size: 14
2378693 ATTAAAAGAA
2378703 AATAATCAAATAAAT
1 AATAAT-AAATAAAT
* * *
2378718 AAAAATATTAACAGAT
1 AATAATA--AATAAAT
2378734 AAGTAA-AAAT-AAT
1 AA-TAATAAATAAAT
2378747 AATAGATAAATTATAAT
1 AATA-ATAAA-TA-AAT
* *
2378764 ATATAAATAGACAAAT
1 A-AT-AATAAATAAAT
*
2378780 AATAATAAATACAT
1 AATAATAAATAAAT
*
2378794 ATATAATATATAAAT
1 A-ATAATAAATAAAT
2378809 AGATAA-ATAATAAAT
1 A-ATAATA-AATAAAT
*
2378824 -ATATATAAAT-ATT
1 AATA-ATAAATAAAT
* *
2378837 AACAGATAAAAAAAT
1 AATA-ATAAATAAAT
2378852 AATAAT-AATACATAT
1 AATAATAAATA-A-AT
* *
2378867 ATTAATAAAT-AGT
1 AATAATAAATAAAT
2378880 AATAATAAATAAAT
1 AATAATAAATAAAT
*
2378894 AAATAATAAATATAT
1 -AATAATAAATAAAT
2378909 AA
1 AA
2378911 GATACAAAAT
Statistics
Matches: 145, Mismatches: 27, Indels: 43
0.67 0.13 0.20
Matches are distributed among these distances:
12 2 0.01
13 23 0.16
14 35 0.24
15 56 0.39
16 15 0.10
17 7 0.05
18 6 0.04
19 1 0.01
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (14 bp):
AATAATAAATAAAT
Found at i:2378824 original size:4 final size:4
Alignment explanation
Indices: 2378747--2378938 Score: 62
Period size: 4 Copynumber: 47.5 Consensus size: 4
2378737 TAAAAATAAT
* * * * *
2378747 AATA GATA AATTA TAATA TATA AATA GACA AAT- AAT- AATA AATA CATA
1 AATA AATA AA-TA -AATA AATA AATA AATA AATA AATA AATA AATA AATA
* * * *
2378795 TAT- AATA TATA AATA GATA AAT- AATA AATA TATATA AATA TTAACA
1 AATA AATA AATA AATA AATA AATA AATA AATA -A-ATA AATA --AATA
* * * * *
2378841 GATA AAAA AAT- AAT- AAT- AATA CATA TATT AATA AATA GTAAT- AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA --AATA AATA
* *
2378887 AATA AATA AAT- AATA AATA TATA AGATA CA-A AATAA AATAA AATAA
1 AATA AATA AATA AATA AATA AATA A-ATA AATA AAT-A AAT-A AAT-A
2378933 AATA AA
1 AATA AA
2378939 ATACAAAATA
Statistics
Matches: 141, Mismatches: 30, Indels: 34
0.69 0.15 0.17
Matches are distributed among these distances:
3 28 0.20
4 79 0.56
5 23 0.16
6 11 0.08
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (4 bp):
AATA
Found at i:2378873 original size:21 final size:21
Alignment explanation
Indices: 2378703--2378938 Score: 62
Period size: 20 Copynumber: 10.8 Consensus size: 21
2378693 ATTAAAAGAA
2378703 AATAATCAAATAAATAAA-AAT
1 AATAAT-AAATAAATAAATAAT
* * * *
2378724 ATTAACAGATAAGTAAA-AAT
1 AATAATAAATAAATAAATAAT
* *
2378744 AATAATAGATAAAT-TATAAT
1 AATAATAAATAAATAAATAAT
* *
2378764 -AT-ATAAATAGACAAATAAT
1 AATAATAAATAAATAAATAAT
* *
2378783 AATAAATACATATAT-AATATAT
1 AAT-AATAAATAAATAAATA-AT
2378805 AAATAGATAAAT-AATAAAT-AT
1 -AATA-ATAAATAAATAAATAAT
* * *
2378826 ATATAAATATTAACAGATAAAAAAAT
1 A-AT-AATA--AATAAAT-AAATAAT
* *
2378852 AATAAT-AATACATATATTAAT
1 AATAATAAATAAATA-AATAAT
*
2378873 AAATAGTAATAATAAATAAATAAAT
1 -AATAAT-A-AATAAATAAAT-AAT
*
2378898 AATAAATATATAAGATACAA-AAT
1 AAT-AATAAATAA-ATA-AATAAT
2378921 AA-AATAAAATAAAATAAA
1 AATAAT-AAAT-AAATAAA
2378939 ATACAAAATA
Statistics
Matches: 158, Mismatches: 30, Indels: 54
0.65 0.12 0.22
Matches are distributed among these distances:
18 7 0.04
19 8 0.05
20 30 0.19
21 29 0.18
22 24 0.15
23 24 0.15
24 14 0.09
25 19 0.12
26 3 0.02
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.28
Consensus pattern (21 bp):
AATAATAAATAAATAAATAAT
Found at i:2378876 original size:43 final size:40
Alignment explanation
Indices: 2378805--2378909 Score: 115
Period size: 43 Copynumber: 2.5 Consensus size: 40
2378795 TATAATATAT
*
2378805 AAATAGATAAATAATAAATATATATAAATATTAACAGATAAAA
1 AAATA-AT-AATAATAAATATATATAAATAGTAACA-ATAAAA
* * *
2378848 AAATAATAATAATACATATATTAATAAATAGTAATAATAAAT
1 AAATAATAATAATAAATATA-T-ATAAATAGTAACAATAAAA
2378890 AAAT-A-AATAATAAATATATA
1 AAATAATAATAATAAATATATA
2378910 AGATACAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
38 1 0.02
39 1 0.02
40 12 0.22
41 13 0.24
42 12 0.22
43 16 0.29
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (40 bp):
AAATAATAATAATAAATATATATAAATAGTAACAATAAAA
Found at i:2378907 original size:111 final size:108
Alignment explanation
Indices: 2378695--2378927 Score: 269
Period size: 110 Copynumber: 2.1 Consensus size: 108
2378685 AATAGATAAT
2378695 TAAAAGAAAATAATCAAATAAATAAAAATATTAACAGATAAGTAAAAATAATAATAGATAAATTA
1 TAAAAGAAAATAATCAAATAAATAAAAATATTAACAGATAAG-AAAAATAATAATAGATAAATTA
* *
2378760 TAATATATAAATAGACAAATAATAATAAATACATATATAATATA
65 TAATAAATAAATAGACAAATAATAATAAATAAATATATAATATA
* * *
2378804 TAAATAGATAAATAAT-AAATATATATAAATATTAACAGATAA-AAAAATAATAATA-ATACATA
1 TAAA-AGA-AAATAATCAAATAAATAAAAATATTAACAGATAAGAAAAATAATAATAGATAAAT-
* *
2378866 TATTAATAAATAGTAATA-ATAAATAAATAA-ATAATAAATATATAAGATA
63 TA-TAATAAATA--AATAGACAAAT-AATAATA-AATAAATATATAATATA
* *
2378915 CAAAATAAAATAA
1 TAAAAGAAAATAA
2378928 AATAAAATAA
Statistics
Matches: 107, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
107 5 0.05
108 15 0.14
109 18 0.17
110 35 0.33
111 34 0.32
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.28
Consensus pattern (108 bp):
TAAAAGAAAATAATCAAATAAATAAAAATATTAACAGATAAGAAAAATAATAATAGATAAATTAT
AATAAATAAATAGACAAATAATAATAAATAAATATATAATATA
Found at i:2378926 original size:5 final size:5
Alignment explanation
Indices: 2378916--2378941 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
2378906 TATAAGATAC
2378916 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
2378942 CAAAATACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:2378932 original size:111 final size:108
Alignment explanation
Indices: 2378702--2378934 Score: 268
Period size: 104 Copynumber: 2.2 Consensus size: 108
2378692 AATTAAAAGA
2378702 AAATAATCAAATAAATAAAAATATTAACAGATAAGTAAAAATAATAATAGATAAATTATAATATA
1 AAATAAT-AAATAAATAAAAATATTAACAGATAAG-AAAAATAATAATAGATAAATTATAATATA
* *
2378767 TAAATAGACAAATAATAATAAATACATATATAATATATAAATAGAT
64 TAAATAGA-AAATAATAATAAATAAATATATAATATATAAATAAAT
* * * *
2378813 AAATAATAAATATATATAAATATTAACAGATAA-AAAAATAATAATA-ATACA-TATATTA-ATA
1 AAATAATAAATAAATAAAAATATTAACAGATAAGAAAAATAATAATAGATAAATTATAATATATA
* *
2378874 AATAG-TAATAATAAATAAATAAATA-ATAAATATATAAGATACA-
66 AATAGAAAATAAT-AATAAATAAATATAT-AATATATAA-ATAAAT
2378917 AAAT-A-AAATAAAATAAAA
1 AAATAATAAAT-AAATAAAA
2378935 TAAAATACAA
Statistics
Matches: 109, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
102 4 0.04
103 15 0.14
104 24 0.22
105 12 0.11
106 6 0.06
107 4 0.04
108 13 0.12
110 24 0.22
111 7 0.06
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.28
Consensus pattern (108 bp):
AAATAATAAATAAATAAAAATATTAACAGATAAGAAAAATAATAATAGATAAATTATAATATATA
AATAGAAAATAATAATAAATAAATATATAATATATAAATAAAT
Found at i:2378948 original size:7 final size:7
Alignment explanation
Indices: 2378936--2378962 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
2378926 AAAATAAAAT
2378936 AAAATAC
1 AAAATAC
2378943 AAAATAC
1 AAAATAC
2378950 AAAATAC
1 AAAATAC
2378957 AAAATA
1 AAAATA
2378963 AAATGGGCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAATAC
Found at i:2380036 original size:20 final size:20
Alignment explanation
Indices: 2380011--2380049 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2380001 TGAAAATTTG
*
2380011 ATGATGTTTTGATATTGATA
1 ATGATGCTTTGATATTGATA
2380031 ATGATGCTTTGATATTGAT
1 ATGATGCTTTGATATTGAT
2380050 GGATATATTG
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:0.28, C:0.03, G:0.21, T:0.49
Consensus pattern (20 bp):
ATGATGCTTTGATATTGATA
Found at i:2381634 original size:10 final size:10
Alignment explanation
Indices: 2381604--2381656 Score: 54
Period size: 10 Copynumber: 5.2 Consensus size: 10
2381594 AAAAAATCAA
2381604 ATTTTTCTTT
1 ATTTTTCTTT
*
2381614 AATTATT-TTT
1 -ATTTTTCTTT
2381624 ATTTTTCTTT
1 ATTTTTCTTT
*
2381634 ATTTTCCTTT
1 ATTTTTCTTT
*
2381644 TTTTCTTCTTT
1 ATTT-TTCTTT
2381655 AT
1 AT
2381657 AAAATATATT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
9 5 0.15
10 18 0.53
11 11 0.32
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.75
Consensus pattern (10 bp):
ATTTTTCTTT
Found at i:2381740 original size:20 final size:21
Alignment explanation
Indices: 2381717--2381755 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
2381707 AATATTTTTA
2381717 ATAGAAAATAA-ATTTTTTGG
1 ATAGAAAATAATATTTTTTGG
2381737 ATAGAAAATAATATTTTTT
1 ATAGAAAATAATATTTTTT
2381756 ATTATGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (21 bp):
ATAGAAAATAATATTTTTTGG
Found at i:2381753 original size:19 final size:19
Alignment explanation
Indices: 2381706--2381753 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
2381696 AAATTATATT
*
2381706 TAATATTTTTAATAGAAAA
1 TAATATTTTGAATAGAAAA
* *
2381725 TAAATTTTTTGGATAGAAAA
1 T-AATATTTTGAATAGAAAA
2381745 TAATATTTT
1 TAATATTTT
2381754 TTATTATGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (19 bp):
TAATATTTTGAATAGAAAA
Found at i:2385400 original size:28 final size:28
Alignment explanation
Indices: 2385338--2385405 Score: 66
Period size: 28 Copynumber: 2.4 Consensus size: 28
2385328 ATCTTAAAAT
* * *
2385338 TTTTTATATTTTAGATATATTTTATAAA
1 TTTTTAAATTTAAAATATATTTTATAAA
* *
2385366 ATATTAAATTTAAAATAGTATTTT-TAAA
1 TTTTTAAATTTAAAATA-TATTTTATAAA
2385394 TTTTTAATATTT
1 TTTTTAA-ATTT
2385406 TATTCATTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
28 21 0.68
29 10 0.32
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (28 bp):
TTTTTAAATTTAAAATATATTTTATAAA
Found at i:2385849 original size:19 final size:20
Alignment explanation
Indices: 2385812--2385859 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
2385802 AAAAAATCAA
2385812 TTTTTTCTTTAATTATTTT-
1 TTTTTTCTTTAATTATTTTC
2385831 TATTTTTCTTTAATT-TTTTC
1 T-TTTTTCTTTAATTATTTTC
2385851 TTTTTTCTT
1 TTTTTTCTT
2385860 CTTTATAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.12, C:0.08, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTTTCTTTAATTATTTTC
Found at i:2385850 original size:12 final size:11
Alignment explanation
Indices: 2385813--2385853 Score: 50
Period size: 12 Copynumber: 3.8 Consensus size: 11
2385803 AAAAATCAAT
2385813 TTTTTCTTTAA
1 TTTTTCTTTAA
*
2385824 TTATT-TTT-A
1 TTTTTCTTTAA
2385833 TTTTTCTTTAA
1 TTTTTCTTTAA
2385844 TTTTTTCTTT
1 -TTTTTCTTT
2385854 TTTCTTCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
9 5 0.20
10 6 0.24
11 5 0.20
12 9 0.36
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTTCTTTAA
Found at i:2387396 original size:3 final size:3
Alignment explanation
Indices: 2387390--2387437 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
2387380 TCAACAACAC
*
2387390 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2387438 CAAAATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:2388105 original size:16 final size:16
Alignment explanation
Indices: 2388081--2388111 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2388071 AAGGATTATT
2388081 AATTATTATATTTAAA
1 AATTATTATATTTAAA
*
2388097 AATTTTTATATTTAA
1 AATTATTATATTTAA
2388112 TGTTTTATTT
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:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
AATTATTATATTTAAA
Found at i:2388524 original size:2 final size:2
Alignment explanation
Indices: 2388517--2388546 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2388507 ATCATTTAAC
2388517 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2388547 ACTCAATACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2388611 original size:138 final size:139
Alignment explanation
Indices: 2388408--2388673 Score: 516
Period size: 138 Copynumber: 1.9 Consensus size: 139
2388398 ACGAAACAAG
2388408 ACTCAATACAGATTTCTTGATTAAAAAAAAAAAAAAAAAAAAACCAAACGACTCCTTCACATCAA
1 ACTCAATACAGATTTCTTGATTAAAAAAAAAAAAAAAAAAAAACCAAACGACTCCTTCACATCAA
2388473 ACCCCTAAATCAACGGCTGAGATTATCCGCAGCCATCATTTAACTATATATATATATATATATAT
66 ACCCCTAAATCAACGGCTGAGATTATCCGCAGCCATCATTTAACTATATATATATATATATATAT
2388538 ATATATATA
131 ATATATATA
*
2388547 ACTCAATACAGATTTCTTGATT-AGAAAAAAAAAAAAAAAAAACCAAACGACTCCTTCACATCAA
1 ACTCAATACAGATTTCTTGATTAAAAAAAAAAAAAAAAAAAAACCAAACGACTCCTTCACATCAA
2388611 ACCCCTAAATCAACGGCTGAGATTATCCGCAGCCATCATTTAACTATATATATATATATATAT
66 ACCCCTAAATCAACGGCTGAGATTATCCGCAGCCATCATTTAACTATATATATATATATATAT
2388674 GAACTAATAC
Statistics
Matches: 126, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
138 104 0.83
139 22 0.17
ACGTcount: A:0.46, C:0.20, G:0.07, T:0.27
Consensus pattern (139 bp):
ACTCAATACAGATTTCTTGATTAAAAAAAAAAAAAAAAAAAAACCAAACGACTCCTTCACATCAA
ACCCCTAAATCAACGGCTGAGATTATCCGCAGCCATCATTTAACTATATATATATATATATATAT
ATATATATA
Found at i:2391770 original size:30 final size:30
Alignment explanation
Indices: 2391736--2391794 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
2391726 AATAAAATAC
*
2391736 ATAA-TTATTTGTTATAATAACACATTAATT
1 ATAATTTATTTCTTA-AATAACACATTAATT
* *
2391766 ATAATTTTTTTCTTAAATATCACATTAAT
1 ATAATTTATTTCTTAAATAACACATTAAT
2391795 AAGTGTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.41, C:0.08, G:0.02, T:0.49
Consensus pattern (30 bp):
ATAATTTATTTCTTAAATAACACATTAATT
Found at i:2394855 original size:36 final size:37
Alignment explanation
Indices: 2394765--2394856 Score: 114
Period size: 37 Copynumber: 2.5 Consensus size: 37
2394755 TAAAGTTTAT
* * * *
2394765 ACATATATAATAAATCTTTTATTTTTTTCTTTTTTAC
1 ACATATATAATAAATCTTTTATTCTTTTCTTTCTCAA
* *
2394802 ACATATATAGTAAATCTTTTGTTCTTTT-TTTCTCAA
1 ACATATATAATAAATCTTTTATTCTTTTCTTTCTCAA
*
2394838 ACATATATAATACATCTTT
1 ACATATATAATAAATCTTT
2394857 GATTTAGCAT
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
36 22 0.47
37 25 0.53
ACGTcount: A:0.32, C:0.13, G:0.02, T:0.53
Consensus pattern (37 bp):
ACATATATAATAAATCTTTTATTCTTTTCTTTCTCAA
Found at i:2395439 original size:29 final size:31
Alignment explanation
Indices: 2395407--2395470 Score: 78
Period size: 29 Copynumber: 2.1 Consensus size: 31
2395397 CAAATTAGTA
*
2395407 ATATTTAAATTTTAAAATT-TT-TTAATATG
1 ATATTTAAATTATAAAATTATTATTAATATG
* *
2395436 ATATTTGAATTATAAATTTATTAATTAATATG
1 ATATTTAAATTATAAAATTATT-ATTAATATG
2395468 ATA
1 ATA
2395471 CTTATTCATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 16 0.55
30 2 0.07
32 11 0.38
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.52
Consensus pattern (31 bp):
ATATTTAAATTATAAAATTATTATTAATATG
Found at i:2396524 original size:30 final size:30
Alignment explanation
Indices: 2396470--2396545 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 30
2396460 ATTTATTTAT
*
2396470 ATTAAGGATTTATTTAGATATAAATTAAAA-
1 ATTAAGGACTTATTTAGATATAAA-TAAAAG
*
2396500 ATTAAGGACTTATTT-GAATGTAAATAAAAG
1 ATTAAGGACTTATTTAG-ATATAAATAAAAG
* *
2396530 GTTAAGTACTTATTTA
1 ATTAAGGACTTATTTA
2396546 AGTTCAAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
29 6 0.15
30 33 0.85
ACGTcount: A:0.45, C:0.03, G:0.13, T:0.39
Consensus pattern (30 bp):
ATTAAGGACTTATTTAGATATAAATAAAAG
Found at i:2399596 original size:28 final size:28
Alignment explanation
Indices: 2399559--2399625 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 28
2399549 TATATTAATT
2399559 AATATATTTATAATTCAAGAATCACATTA
1 AATAT-TTTATAATTCAAGAATCACATTA
* * * * * *
2399588 AATTTTTTAAAATTTAAGTATTATATTA
1 AATATTTTATAATTCAAGAATCACATTA
2399616 AATATTTTAT
1 AATATTTTAT
2399626 TATAATTTAA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
28 26 0.87
29 4 0.13
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (28 bp):
AATATTTTATAATTCAAGAATCACATTA
Found at i:2400152 original size:16 final size:16
Alignment explanation
Indices: 2400093--2400158 Score: 62
Period size: 16 Copynumber: 4.1 Consensus size: 16
2400083 TTTAAAATAA
2400093 TATTTTT-ATATATTT
1 TATTTTTAATATATTT
* *
2400108 TAATTATAATATATTT
1 TATTTTTAATATATTT
*
2400124 TATTCATTAAATATATTT
1 TATT--TTTAATATATTT
* *
2400142 TGTTTTTAATAGATTT
1 TATTTTTAATATATTT
2400158 T
1 T
2400159 CAAAATTCTT
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
15 5 0.12
16 22 0.55
18 13 0.32
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (16 bp):
TATTTTTAATATATTT
Found at i:2400208 original size:31 final size:32
Alignment explanation
Indices: 2400172--2400268 Score: 80
Period size: 31 Copynumber: 3.2 Consensus size: 32
2400162 AATTCTTTTG
2400172 AAAAATTACTTA-TCATTTTAAAAAATTAAGT
1 AAAAATTACTTATTCATTTTAAAAAATTAAGT
* * * *
2400203 AAAAATT-TTTACTGA-TTTAAAAAA-TAAAT
1 AAAAATTACTTATTCATTTTAAAAAATTAAGT
* *
2400232 AAAAA--ACTTCATTTCTTTTTAAAATATTAAGT
1 AAAAATTACTT-A-TTCATTTTAAAAAATTAAGT
2400264 AAAAA
1 AAAAA
2400269 ATTTCAAATA
Statistics
Matches: 51, Mismatches: 9, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
28 2 0.04
29 10 0.20
30 13 0.25
31 17 0.33
32 9 0.18
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (32 bp):
AAAAATTACTTATTCATTTTAAAAAATTAAGT
Found at i:2400735 original size:16 final size:17
Alignment explanation
Indices: 2400695--2400735 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
2400685 ATCAAATGCA
*
2400695 AAAAATATTTAACTAAT
1 AAAAATATATAACTAAT
*
2400712 -AAATTATATAAC-AAT
1 AAAAATATATAACTAAT
2400727 AAAAATATA
1 AAAAATATA
2400736 AAATTATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
15 3 0.15
16 17 0.85
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAAATATATAACTAAT
Found at i:2404324 original size:36 final size:36
Alignment explanation
Indices: 2404282--2404377 Score: 108
Period size: 36 Copynumber: 2.7 Consensus size: 36
2404272 TAAAGTTTAT
*
2404282 ACATATATAATAAATCTTTGATTCTTTCTTGTT-T-AC
1 ACATATATAATAAATCTTTGATTCTTT-TT-TTCTCAA
* *
2404318 ATATATATAGTAAATCTTTTG-TTCTTTTTTTCTCAA
1 ACATATATAATAAATC-TTTGATTCTTTTTTTCTCAA
*
2404354 ACATATATAATACATCTTTGATTC
1 ACATATATAATAAATCTTTGATTC
2404378 AGCATATACT
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
34 2 0.04
35 7 0.14
36 37 0.74
37 4 0.08
ACGTcount: A:0.31, C:0.14, G:0.05, T:0.50
Consensus pattern (36 bp):
ACATATATAATAAATCTTTGATTCTTTTTTTCTCAA
Found at i:2404799 original size:29 final size:27
Alignment explanation
Indices: 2404753--2404812 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 27
2404743 TACAAATTAG
* *
2404753 TAATATTTAAATTTTAAAATTTTTTAAT
1 TAATATTTAAATTAT-AAATTTATTAAT
2404781 ATAATATTTAAATTATAAATTTATTAAT
1 -TAATATTTAAATTATAAATTTATTAAT
2404809 TAAT
1 TAAT
2404813 GTGATACTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 4 0.14
28 11 0.38
29 14 0.48
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (27 bp):
TAATATTTAAATTATAAATTTATTAAT
Found at i:2405259 original size:16 final size:16
Alignment explanation
Indices: 2405238--2405272 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
2405228 CATTTATCAA
*
2405238 GAAAAATCATCAATTT
1 GAAAAATCAACAATTT
2405254 GAAAAATCAACAATTT
1 GAAAAATCAACAATTT
2405270 GAA
1 GAA
2405273 CTCAACCAAA
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:0.54, C:0.11, G:0.09, T:0.26
Consensus pattern (16 bp):
GAAAAATCAACAATTT
Found at i:2407267 original size:7 final size:6
Alignment explanation
Indices: 2407236--2407266 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
2407226 CCAACTTTAG
2407236 TAAAAA TAAAAAA TAAAAA TAAAAA TAAAAA
1 TAAAAA T-AAAAA TAAAAA TAAAAA TAAAAA
2407267 AGTCCACATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
TAAAAA
Found at i:2407908 original size:25 final size:25
Alignment explanation
Indices: 2407858--2407917 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 25
2407848 GAGATTAAAA
* * *
2407858 ATAA-TAATAAAATTTATTATAGTT
1 ATAATTAAAAAAAATTATTATAATT
*
2407882 ATAATTAAAAAAAATTATTGTAATT
1 ATAATTAAAAAAAATTATTATAATT
* *
2407907 ATGATTGAAAA
1 ATAATTAAAAA
2407918 TTTTTAATAA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
24 4 0.14
25 25 0.86
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (25 bp):
ATAATTAAAAAAAATTATTATAATT
Found at i:2410441 original size:189 final size:189
Alignment explanation
Indices: 2410121--2410506 Score: 763
Period size: 189 Copynumber: 2.0 Consensus size: 189
2410111 AAGTAAAGCA
2410121 AAAAGATGTAGACCTTGGAAATCAAGCTTTGGTACCAGAGAACATGGGTAAAAATATCGACAGAG
1 AAAAGATGTAGACCTTGGAAATCAAGCTTTGGTACCAGAGAACATGGGTAAAAATATCGACAGAG
2410186 GTCAGAACTCAAAAGGCCATAATAAGTCCATACATAGATTCAAGTCCAGAGATAAAGTGAAGTAT
66 GTCAGAACTCAAAAGGCCATAATAAGTCCATACATAGATTCAAGTCCAGAGATAAAGTGAAGTAT
2410251 TTTTATTGTGGTAAAACAGGTTAGATAAAACAACACTGTAAAATCTTGAAACAAGAGCG
131 TTTTATTGTGGTAAAACAGGTTAGATAAAACAACACTGTAAAATCTTGAAACAAGAGCG
2410310 AAAAGATGTAGACCTTGGAAATCAAGCTTTGGTACCAGAGAACATGGGTAAAAATATCGACAGAG
1 AAAAGATGTAGACCTTGGAAATCAAGCTTTGGTACCAGAGAACATGGGTAAAAATATCGACAGAG
2410375 GTCAGAACTCAAAAGGCCATAATAAGTCCATACATAGATTCAAGTCCAGAGATAAAGTGAAGTAT
66 GTCAGAACTCAAAAGGCCATAATAAGTCCATACATAGATTCAAGTCCAGAGATAAAGTGAAGTAT
*
2410440 TTTTATTGTGGTAAAACAGGTTATATAAAACAACACTGTAAAATCTTGAAACAAGAGCG
131 TTTTATTGTGGTAAAACAGGTTAGATAAAACAACACTGTAAAATCTTGAAACAAGAGCG
2410499 AAAAGATG
1 AAAAGATG
2410507 AAAAAAGTAA
Statistics
Matches: 196, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
189 196 1.00
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.23
Consensus pattern (189 bp):
AAAAGATGTAGACCTTGGAAATCAAGCTTTGGTACCAGAGAACATGGGTAAAAATATCGACAGAG
GTCAGAACTCAAAAGGCCATAATAAGTCCATACATAGATTCAAGTCCAGAGATAAAGTGAAGTAT
TTTTATTGTGGTAAAACAGGTTAGATAAAACAACACTGTAAAATCTTGAAACAAGAGCG
Found at i:2415146 original size:29 final size:28
Alignment explanation
Indices: 2415083--2415162 Score: 83
Period size: 28 Copynumber: 2.9 Consensus size: 28
2415073 TATCCTGAAT
* *
2415083 TTTTTATATTTCAAATATATTTTATAAA
1 TTTTTAAATTTAAAATATATTTTATAAA
* * *
2415111 ATATTAAATTTAAAATAATATTTTATATA
1 TTTTTAAATTTAAAAT-ATATTTTATAAA
*
2415140 TTTTT-AA-TTATAATATATTTTAT
1 TTTTTAAATTTAAAATATATTTTAT
2415163 TCATTAAATA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
26 9 0.21
27 6 0.14
28 14 0.33
29 14 0.33
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.56
Consensus pattern (28 bp):
TTTTTAAATTTAAAATATATTTTATAAA
Found at i:2415157 original size:17 final size:16
Alignment explanation
Indices: 2415135--2415179 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 16
2415125 ATAATATTTT
2415135 ATATATTTTTAATTATA
1 ATATATTTTTAATTA-A
*
2415152 ATATATTTTATTCATTAA
1 ATATA-TTT-TTAATTAA
2415170 ATATATTTTT
1 ATATATTTTT
2415180 TTTTGCAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 2 0.08
17 8 0.32
18 9 0.36
19 6 0.24
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (16 bp):
ATATATTTTTAATTAA
Found at i:2415260 original size:30 final size:30
Alignment explanation
Indices: 2415225--2415309 Score: 102
Period size: 31 Copynumber: 2.8 Consensus size: 30
2415215 TTACATAGCA
2415225 TTTTAAAAAAATAAGTAAAAATTTATAT-T
1 TTTTAAAAAAATAAGTAAAAATTTATATCT
*
2415254 TGTTTAAAAAAATAA-TAAAAAACTTCATATCT
1 T-TTTAAAAAAATAAGT-AAAAA-TTTATATCT
* *
2415286 TTTTAAAATATTAAGTAAAAATTT
1 TTTTAAAAAAATAAGTAAAAATTT
2415310 TCAAATCATT
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
29 2 0.04
30 20 0.43
31 22 0.47
32 3 0.06
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.40
Consensus pattern (30 bp):
TTTTAAAAAAATAAGTAAAAATTTATATCT
Found at i:2415566 original size:32 final size:31
Alignment explanation
Indices: 2415521--2415644 Score: 119
Period size: 32 Copynumber: 4.0 Consensus size: 31
2415511 TTAATAAATC
* *
2415521 TTTTTAAAAATGATATGAAAATTTCTACTTAA
1 TTTTT-AAAATGATATGAAAATTTTTATTTAA
** *
2415553 TATTTTAAAATGATATGAAGTTTTTTATTTTAT
1 T-TTTTAAAATGATATGAAAATTTTTA-TTTAA
** *
2415586 TTTTTAAACCGATATG-GAATTTTTATTTAA
1 TTTTTAAAATGATATGAAAATTTTTATTTAA
*
2415616 TTTTTAAAATGATAT-AGAATTTTT-TTTAA
1 TTTTTAAAATGATATGAAAATTTTTATTTAA
2415645 GGGGGTTTTC
Statistics
Matches: 76, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
29 5 0.07
30 25 0.33
31 6 0.08
32 32 0.42
33 8 0.11
ACGTcount: A:0.37, C:0.03, G:0.08, T:0.52
Consensus pattern (31 bp):
TTTTTAAAATGATATGAAAATTTTTATTTAA
Found at i:2415829 original size:11 final size:10
Alignment explanation
Indices: 2415790--2415842 Score: 54
Period size: 11 Copynumber: 5.1 Consensus size: 10
2415780 AAAATCAATT
2415790 TTTTTCTTTAA
1 TTTTTCTTT-A
*
2415801 TTATT-TTTA
1 TTTTTCTTTA
2415810 TTTTTCTTTA
1 TTTTTCTTTA
*
2415820 TTTTTCCTTTT
1 TTTTT-CTTTA
2415831 TTTCTTCTTTA
1 TTT-TTCTTTA
2415842 T
1 T
2415843 AGAATATATT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
9 5 0.14
10 12 0.34
11 16 0.46
12 2 0.06
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTTTCTTTA
Found at i:2415832 original size:19 final size:19
Alignment explanation
Indices: 2415788--2415836 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 19
2415778 AAAAAATCAA
2415788 TTTTTTTCTTTAATTATTT
1 TTTTTTTCTTTAATTATTT
2415807 TTATTTTTCTTT-ATT-TTT
1 TT-TTTTTCTTTAATTATTT
2415825 CCTTTTTTTCTT
1 --TTTTTTTCTT
2415837 CTTTATAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 3 0.11
19 13 0.48
20 11 0.41
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTTTTCTTTAATTATTT
Found at i:2420313 original size:30 final size:32
Alignment explanation
Indices: 2420260--2420359 Score: 104
Period size: 30 Copynumber: 3.2 Consensus size: 32
2420250 AATTCTTTTG
* *
2420260 AAAAAATTACATAGCAT-TTTAAAAAATTAAGT
1 AAAAAATT-CATATCTTGTTTAAAAAATTAAGT
*
2420292 AAAAAATT-ATAT-TTGTTTAAAAAATTAAAT
1 AAAAAATTCATATCTTGTTTAAAAAATTAAGT
*
2420322 AAAAAACTTCATATCTTG---AAAATATTAAGT
1 AAAAAA-TTCATATCTTGTTTAAAAAATTAAGT
2420352 AAAAAATT
1 AAAAAATT
2420360 TCAAATCATT
Statistics
Matches: 59, Mismatches: 5, Indels: 11
0.79 0.07 0.15
Matches are distributed among these distances:
29 3 0.05
30 39 0.66
31 2 0.03
32 12 0.20
33 3 0.05
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (32 bp):
AAAAAATTCATATCTTGTTTAAAAAATTAAGT
Found at i:2420555 original size:19 final size:20
Alignment explanation
Indices: 2420531--2420575 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
2420521 AAAATAGATT
*
2420531 TTTTTGGATAGA-AAATAAA
1 TTTTTGAATAGATAAATAAA
*
2420550 TTTTTGAATAGATTAATAAA
1 TTTTTGAATAGATAAATAAA
2420570 TCTTTT
1 T-TTTT
2420576 TTTAAATGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 11 0.50
20 7 0.32
21 4 0.18
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.47
Consensus pattern (20 bp):
TTTTTGAATAGATAAATAAA
Found at i:2420621 original size:32 final size:31
Alignment explanation
Indices: 2420573--2420691 Score: 100
Period size: 32 Copynumber: 3.8 Consensus size: 31
2420563 TAATAAATCT
* * * *
2420573 TTTTTTAAATGATATGACAATTTTTACTTAA
1 TTTTTAAAACGATATGAGAATTTTTATTTAA
* *
2420604 TATTTTAAAACGATATGA-AGTTTTTTATTTGATT
1 T-TTTTAAAACGATATGAGA-ATTTTTATTT-A-A
* *
2420638 TTTTTAAACCAATATG-GAATTTTTATTTAA
1 TTTTTAAAACGATATGAGAATTTTTATTTAA
*
2420668 TTTTTAAAATGATAT-AGAATTTTT
1 TTTTTAAAACGATATGAGAATTTTT
2420692 TTAAAGGGGT
Statistics
Matches: 70, Mismatches: 12, Indels: 13
0.74 0.13 0.14
Matches are distributed among these distances:
30 20 0.29
31 3 0.04
32 31 0.44
33 15 0.21
34 1 0.01
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.52
Consensus pattern (31 bp):
TTTTTAAAACGATATGAGAATTTTTATTTAA
Found at i:2428881 original size:6 final size:6
Alignment explanation
Indices: 2428853--2428899 Score: 71
Period size: 6 Copynumber: 8.2 Consensus size: 6
2428843 ATATGTGTTT
*
2428853 AATATA AA-ATA AATAT- TATATA AATATA AATATA AATATA AATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AATATA
2428899 A
1 A
2428900 CAAATATATC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
5 9 0.24
6 28 0.76
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
AATATA
Found at i:2428904 original size:27 final size:28
Alignment explanation
Indices: 2428853--2428907 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
2428843 ATATGTGTTT
*
2428853 AATATAAAATAAATATTATATAAATATA
1 AATATAAAATAAATATTATACAAATATA
2428881 AATATAAATATAAATA-TA-ACAAATATA
1 AATATAAA-ATAAATATTATACAAATATA
2428908 TCTTTAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 8 0.32
28 10 0.40
29 7 0.28
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (28 bp):
AATATAAAATAAATATTATACAAATATA
Found at i:2437458 original size:25 final size:25
Alignment explanation
Indices: 2437424--2437476 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
2437414 AAATAATAAT
*
2437424 AAAATTTATTATAATT-TCGATTAAA
1 AAAAATTATTATAATTAT-GATTAAA
*
2437449 AAAAATTATTGTAATTATGATTAAA
1 AAAAATTATTATAATTATGATTAAA
2437474 AAA
1 AAA
2437477 TTAATAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 24 0.96
26 1 0.04
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.40
Consensus pattern (25 bp):
AAAAATTATTATAATTATGATTAAA
Found at i:2439251 original size:30 final size:29
Alignment explanation
Indices: 2439215--2439297 Score: 87
Period size: 30 Copynumber: 2.8 Consensus size: 29
2439205 TACATAGCAT
*
2439215 TTTAAAAAATTAAGTAAAAAATT-ATATTTG
1 TTTAAAAAATTAAGTAAAAAATTCATA--TC
* * *
2439245 TTTAAAAAATTAAATAAATAACTTCGTATC
1 TTTAAAAAATTAAGTAAA-AAATTCATATC
*
2439275 TTTAAAATATTAAGTAAAAAATT
1 TTTAAAAAATTAAGTAAAAAATT
2439298 TCAAATCATT
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
29 4 0.09
30 34 0.77
31 4 0.09
32 2 0.05
ACGTcount: A:0.53, C:0.04, G:0.05, T:0.39
Consensus pattern (29 bp):
TTTAAAAAATTAAGTAAAAAATTCATATC
Found at i:2439552 original size:32 final size:31
Alignment explanation
Indices: 2439508--2439625 Score: 123
Period size: 32 Copynumber: 3.8 Consensus size: 31
2439498 TAAAAAATCT
* *
2439508 TTTTTTAAATGATATGAAAATTTTTACTTAA
1 TTTTTAAAATGATATGAAAATTTTTATTTAA
** *
2439539 TATTTTAAAATGATATGAAGTTTTTTATTTGAT
1 T-TTTTAAAATGATATGAAAATTTTTATTT-AA
***
2439572 TTTTTAAACCAATATG-AAATTTTTATTTAA
1 TTTTTAAAATGATATGAAAATTTTTATTTAA
*
2439602 TTTTTAAAATGATAT-AGAATTTTT
1 TTTTTAAAATGATATGAAAATTTTT
2439626 TTAAAGGGGT
Statistics
Matches: 69, Mismatches: 15, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
30 20 0.29
31 11 0.16
32 36 0.52
33 2 0.03
ACGTcount: A:0.37, C:0.03, G:0.08, T:0.53
Consensus pattern (31 bp):
TTTTTAAAATGATATGAAAATTTTTATTTAA
Found at i:2449906 original size:12 final size:12
Alignment explanation
Indices: 2449889--2449929 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
2449879 AATCTAGTAT
*
2449889 ACACACACACAC
1 ACACACATACAC
*
2449901 ACACACGTACAC
1 ACACACATACAC
*
2449913 ACACATATACAC
1 ACACACATACAC
2449925 ACACA
1 ACACA
2449930 AAAAAAAACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.49, C:0.41, G:0.02, T:0.07
Consensus pattern (12 bp):
ACACACATACAC
Found at i:2454044 original size:16 final size:16
Alignment explanation
Indices: 2454023--2454054 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
2454013 ATTTGAACTT
2454023 ATATTAGGTTTTCAAC
1 ATATTAGGTTTTCAAC
2454039 ATATTAGGTTTTCAAC
1 ATATTAGGTTTTCAAC
2454055 TTAAAGTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.44
Consensus pattern (16 bp):
ATATTAGGTTTTCAAC
Found at i:2454116 original size:36 final size:35
Alignment explanation
Indices: 2454065--2454159 Score: 99
Period size: 36 Copynumber: 2.7 Consensus size: 35
2454055 TTAAAGTTTA
*
2454065 TACATATATA-ATAAATCTTTGATTCTTTCTTTT-T
1 TACATATATATATAAATCTTTGATTATTT-TTTTCT
2454099 TACATATATATAGTAAATCTTTTG-TTATTTTTTTCT
1 TACATATATATA-TAAATC-TTTGATTATTTTTTTCT
*
2454135 TAGACATATATA-ATACATCTTTGAT
1 T--ACATATATATATAAATCTTTGAT
2454160 GTATCATATA
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
34 10 0.19
35 9 0.17
36 19 0.37
37 5 0.10
38 9 0.17
ACGTcount: A:0.32, C:0.11, G:0.05, T:0.53
Consensus pattern (35 bp):
TACATATATATATAAATCTTTGATTATTTTTTTCT
Found at i:2454740 original size:29 final size:29
Alignment explanation
Indices: 2454707--2454762 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
2454697 CTACAAACTA
*
2454707 ATAATATTTAAATTTTAAAATTT-TTAAAT
1 ATAATATTTAAATTAT-AAATTTATTAAAT
*
2454736 ATAATATTTGAATTATAAATTTATTAA
1 ATAATATTTAAATTATAAATTTATTAA
2454763 TTAATGTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 6 0.25
29 18 0.75
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (29 bp):
ATAATATTTAAATTATAAATTTATTAAAT
Found at i:2455206 original size:16 final size:16
Alignment explanation
Indices: 2455185--2455219 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
2455175 CATTTATAAA
*
2455185 GAAAAATCATCAATTT
1 GAAAAATCAACAATTT
2455201 GAAAAATCAACAATTT
1 GAAAAATCAACAATTT
2455217 GAA
1 GAA
2455220 CTCGACCAAA
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:0.54, C:0.11, G:0.09, T:0.26
Consensus pattern (16 bp):
GAAAAATCAACAATTT
Found at i:2457149 original size:16 final size:16
Alignment explanation
Indices: 2457112--2457150 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
2457102 ATTAAAATTT
* *
2457112 AATTTAATTAATTTAT
1 AATTTAATAAATTTAG
*
2457128 ATTTTAATAAATTTAG
1 AATTTAATAAATTTAG
2457144 AATTTAA
1 AATTTAA
2457151 ATTTTAATAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (16 bp):
AATTTAATAAATTTAG
Found at i:2457408 original size:25 final size:25
Alignment explanation
Indices: 2457357--2457410 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
2457347 AAATTGTAAT
* * *
2457357 AAAATTTATTATAGCTATGATTGAA
1 AAAATTTATTATAACTATAATTAAA
*
2457382 AAAATTTATTATAATTATAATTAAA
1 AAAATTTATTATAACTATAATTAAA
2457407 AAAA
1 AAAA
2457411 ATTTTAATGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.39
Consensus pattern (25 bp):
AAAATTTATTATAACTATAATTAAA
Found at i:2458606 original size:28 final size:27
Alignment explanation
Indices: 2458575--2458641 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 27
2458565 TATTATATTA
*
2458575 ATTAACATATTTATAATTTAAGTATCAC
1 ATTAA-ATATTTAAAATTTAAGTATCAC
*
2458603 ATTAAATATTTTAAAATTTAAGTATCAT
1 ATTAAATA-TTTAAAATTTAAGTATCAC
2458631 ATTAAATATTT
1 ATTAAATATTT
2458642 CACTATAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 6 0.17
28 30 0.83
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (27 bp):
ATTAAATATTTAAAATTTAAGTATCAC
Done.