Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006575.1 Hibiscus syriacus cultivar Beakdansim tig00016108_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 157965
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
File 1 of 2
Found at i:245 original size:20 final size:19
Alignment explanation
Indices: 220--287 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 19
210 CGAACTTAAA
220 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCG-AAATGACT
240 ATCGCAACGCGGAAAT-AGCT
1 ATCGCAACGC-GAAATGA-CT
* **
260 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
279 ATCGCAACG
1 ATCGCAACG
288 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
19 14 0.34
20 26 0.63
21 1 0.02
ACGTcount: A:0.40, C:0.24, G:0.22, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:295 original size:14 final size:14
Alignment explanation
Indices: 276--365 Score: 81
Period size: 14 Copynumber: 5.9 Consensus size: 14
266 ATGCGAAATG
*
276 AAAATCGCAACGAC
1 AAAATCGCAACGAA
290 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAA
*
306 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAA
322 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAA
*
338 ATGAAATCGCAACGAT
1 A--AAATCGCAACGAA
354 AAAATCGCAACG
1 AAAATCGCAACG
366 CGAAACACAA
Statistics
Matches: 64, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
14 30 0.47
16 16 0.25
18 18 0.28
ACGTcount: A:0.48, C:0.22, G:0.18, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAA
Found at i:318 original size:32 final size:32
Alignment explanation
Indices: 260--370 Score: 195
Period size: 32 Copynumber: 3.4 Consensus size: 32
250 GGAAATAGCT
260 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
293 ATCGCAATGCGAAATGAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAATCGCAACGACAAA
*
325 ATCGCAATGCGAAATGAAATCGCAACGATAAA
1 ATCGCAATGCGAAATGAAATCGCAACGACAAA
*
357 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
371 CACAAATCGC
Statistics
Matches: 76, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 60 0.79
33 16 0.21
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.13
Consensus pattern (32 bp):
ATCGCAATGCGAAATGAAATCGCAACGACAAA
Found at i:419 original size:14 final size:14
Alignment explanation
Indices: 402--456 Score: 65
Period size: 14 Copynumber: 3.6 Consensus size: 14
392 CATTTCGCGA
402 TGCGATTTTGTCGT
1 TGCGATTTTGTCGT
*
416 TGCGATTTCATTTCGCAT
1 TGCGATTT--TGTCG--T
434 TGCGATTTTGTCGT
1 TGCGATTTTGTCGT
448 TGCGATTTT
1 TGCGATTTT
457 CATTTCGCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
14 18 0.51
16 8 0.23
18 9 0.26
ACGTcount: A:0.11, C:0.16, G:0.24, T:0.49
Consensus pattern (14 bp):
TGCGATTTTGTCGT
Found at i:430 original size:32 final size:33
Alignment explanation
Indices: 382--472 Score: 159
Period size: 32 Copynumber: 2.8 Consensus size: 33
372 ACAAATCGCA
382 TTGCGATTTTCATTTCGCGA-TGCGATTTTGTCG
1 TTGCGATTTTCATTTCGC-ATTGCGATTTTGTCG
415 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
447 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
473 AGCCATTTCC
Statistics
Matches: 56, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
31 1 0.02
32 30 0.54
33 25 0.45
ACGTcount: A:0.13, C:0.19, G:0.22, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:479 original size:19 final size:20
Alignment explanation
Indices: 457--500 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
447 TTGCGATTTT
457 CATTT-CGCATTGCGATAGC
1 CATTTCCGCATTGCGATAGC
* *
476 CATTTCCGCGTTGCGATAGT
1 CATTTCCGCATTGCGATAGC
496 CATTT
1 CATTT
501 TCGTGTGCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.36
Consensus pattern (20 bp):
CATTTCCGCATTGCGATAGC
Found at i:1009 original size:18 final size:18
Alignment explanation
Indices: 983--1027 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
973 GTCGATCAGA
*
983 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
1001 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
1019 TGATGGCTC
1 TGATGGCTC
1028 CCGAAGGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:2366 original size:20 final size:20
Alignment explanation
Indices: 2331--2388 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
2321 GAATAGTTTC
*
2331 TGAAAATGA-AATCGCAACA
1 TGAAAATGACTATCGCAACA
* *
2350 TGAAAATGACTATCGCAGCG
1 TGAAAATGACTATCGCAACA
**
2370 TGAATTTGACTATCGCAAC
1 TGAAAATGACTATCGCAAC
2389 GATCGCAACG
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 9 0.28
20 23 0.72
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22
Consensus pattern (20 bp):
TGAAAATGACTATCGCAACA
Found at i:2673 original size:22 final size:22
Alignment explanation
Indices: 2646--2689 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
2636 GATGGAGATA
2646 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
2668 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
2690 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:2885 original size:21 final size:21
Alignment explanation
Indices: 2855--2970 Score: 82
Period size: 20 Copynumber: 5.7 Consensus size: 21
2845 CGCTTTGAAA
2855 ATCGCATTGCGATTATGTATT
1 ATCGCATTGCGATTATGTATT
* * *
2876 ATCGCGTTGCGA--AAGTCAGT
1 ATCGCATTGCGATTATGT-ATT
* * *
2896 ATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGATTATGTATT
*
2917 ATCGCATTGCGA-TA-GTAAGT
1 ATCGCATTGCGATTATGT-ATT
* *
2937 ATCGCAATGCGA-TA-GTCAGT
1 ATCGCATTGCGATTATGT-ATT
2957 ATCGCATTGCGATT
1 ATCGCATTGCGATT
2971 TTCCCAATTC
Statistics
Matches: 76, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
19 5 0.07
20 45 0.59
21 24 0.32
22 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.35
Consensus pattern (21 bp):
ATCGCATTGCGATTATGTATT
Found at i:2941 original size:20 final size:20
Alignment explanation
Indices: 2916--2969 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
2906 GATTTTGTAT
2916 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
* *
2936 TATCGCAATGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
2956 TATCGCATTGCGAT
1 TATCGCATTGCGAT
2970 TTTCCCAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.30
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:2948 original size:41 final size:41
Alignment explanation
Indices: 2855--2968 Score: 133
Period size: 41 Copynumber: 2.8 Consensus size: 41
2845 CGCTTTGAAA
* *
2855 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTATGTATTATCGCATTGCGAAAGTAAGT
* * * *
2896 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATTATGTATTATCGCATTGCGAAAGTAAGT
* *
2937 ATCGCAATGCGA-TA-GTCAGTATCGCATTGCGA
1 ATCGCATTGCGATTATGT-ATTATCGCATTGCGA
2969 TTTTCCCAAT
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
39 2 0.03
40 15 0.25
41 44 0.72
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.34
Consensus pattern (41 bp):
ATCGCATTGCGATTATGTATTATCGCATTGCGAAAGTAAGT
Found at i:2954 original size:61 final size:62
Alignment explanation
Indices: 2855--2972 Score: 159
Period size: 61 Copynumber: 1.9 Consensus size: 62
2845 CGCTTTGAAA
* ** * *
2855 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGATTATGTAGTATCGCAATGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
*
2917 ATCGCATTGCGA-TA-GTAAGTATCGCAATGCGATAGTCAGTATCGCATTGCGATTTT
1 ATCGCATTGCGATTATGT-AGTATCGCAATGCGAAAGTCAGTATCGCATTGCGATTTT
2973 CCCAATTCGC
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
60 2 0.04
61 35 0.71
62 12 0.24
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (62 bp):
ATCGCATTGCGATTATGTAGTATCGCAATGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
Found at i:3080 original size:21 final size:21
Alignment explanation
Indices: 3040--3080 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
3030 ACTGTAGACC
** *
3040 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGCAACT
3061 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATGCAAC
3081 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAAATGCAACT
Found at i:4164 original size:42 final size:42
Alignment explanation
Indices: 4126--4203 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 42
4116 TTAAAAATTT
*
4126 ATAAATAATTA-AATGTTAAGGTGAAATAA-TTTGAAAAAAA
1 ATAAAGAATTAGAATGTTAAGGTGAAATAATTTTGAAAAAAA
* * *
4166 ATAGAGATTTAGAATGTTAGGGTGAAATAATTTTGAAA
1 ATAAAGAATTAGAATGTTAAGGTGAAATAATTTTGAAA
4204 TTAGAAATGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 8 0.25
41 17 0.53
42 7 0.22
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (42 bp):
ATAAAGAATTAGAATGTTAAGGTGAAATAATTTTGAAAAAAA
Found at i:4451 original size:3 final size:3
Alignment explanation
Indices: 4443--4489 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
4433 ATCCCTAGAT
4443 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
4490 TCAATGTAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:6270 original size:19 final size:19
Alignment explanation
Indices: 6243--6302 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
6233 TATATGAATA
6243 AAATCATAAATAAACAACT
1 AAATCATAAATAAACAACT
* * *
6262 AAATTATAAAGAAAC-ATT
1 AAATCATAAATAAACAACT
6280 CAAATCATAAATAAACAGACT
1 -AAATCATAAATAAACA-ACT
6301 AA
1 AA
6303 TTAACAACTT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
18 2 0.06
19 26 0.81
20 2 0.06
21 2 0.06
ACGTcount: A:0.62, C:0.13, G:0.03, T:0.22
Consensus pattern (19 bp):
AAATCATAAATAAACAACT
Found at i:9958 original size:20 final size:21
Alignment explanation
Indices: 9925--9970 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
9915 ATTAAATCCC
9925 TATTTTATTGAATAAAAATAA
1 TATTTTATTGAATAAAAATAA
* * *
9946 TATTTT-TTTAATAAATATAT
1 TATTTTATTGAATAAAAATAA
9966 TATTT
1 TATTT
9971 CGAGTCGGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
TATTTTATTGAATAAAAATAA
Found at i:10755 original size:13 final size:13
Alignment explanation
Indices: 10701--10770 Score: 52
Period size: 13 Copynumber: 5.4 Consensus size: 13
10691 TTTAATATTA
*
10701 ATATCAAAATAAT
1 ATATTAAAATAAT
* *
10714 AAATTAAAATACT
1 ATATTAAAATAAT
* **
10727 ACTAATATTA-AAT
1 A-TATTAAAATAAT
*
10740 ATATTAAATTAAT
1 ATATTAAAATAAT
10753 ATATTAAAATAAT
1 ATATTAAAATAAT
*
10766 TTATT
1 ATATT
10771 TTATGTCTCT
Statistics
Matches: 41, Mismatches: 14, Indels: 4
0.69 0.24 0.07
Matches are distributed among these distances:
12 4 0.10
13 33 0.80
14 4 0.10
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
ATATTAAAATAAT
Found at i:10823 original size:18 final size:21
Alignment explanation
Indices: 10794--10854 Score: 74
Period size: 23 Copynumber: 2.9 Consensus size: 21
10784 TTTTTAAATT
10794 TATTTAATTTAATCCTTAAAAA
1 TATTTAATTTAATCCTT-AAAA
10816 TTATTTAATTTAATCCTTAAAA
1 -TATTTAATTTAATCCTTAAAA
10838 -A-TT-ATTTAATCCATTAA
1 TATTTAATTTAATCC-TTAA
10855 TTTAATATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.24
19 6 0.16
20 1 0.03
22 4 0.11
23 17 0.46
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.48
Consensus pattern (21 bp):
TATTTAATTTAATCCTTAAAA
Found at i:10823 original size:23 final size:23
Alignment explanation
Indices: 10793--10847 Score: 110
Period size: 23 Copynumber: 2.4 Consensus size: 23
10783 ATTTTTAAAT
10793 TTATTTAATTTAATCCTTAAAAA
1 TTATTTAATTTAATCCTTAAAAA
10816 TTATTTAATTTAATCCTTAAAAA
1 TTATTTAATTTAATCCTTAAAAA
10839 TTATTTAAT
1 TTATTTAAT
10848 CCATTAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (23 bp):
TTATTTAATTTAATCCTTAAAAA
Found at i:10990 original size:17 final size:17
Alignment explanation
Indices: 10940--10992 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
10930 CATAATATAA
*
10940 TAAAATAATATTATTAT
1 TAAAATAATATTAATAT
* * *
10957 TCATATAA-AAT-ATAT
1 TAAAATAATATTAATAT
10972 TAAAATAATATTAATAT
1 TAAAATAATATTAATAT
10989 TAAA
1 TAAA
10993 TCTCTTAAAT
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
15 9 0.33
16 4 0.15
17 14 0.52
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAAATAATATTAATAT
Found at i:11816 original size:36 final size:36
Alignment explanation
Indices: 11767--11839 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
11757 TGTGTGTCTA
11767 TAATACCGCTACTAAATCTATAAGAACAAATTCCTC
1 TAATACCGCTACTAAATCTATAAGAACAAATTCCTC
* * * *
11803 TAATATCGTTACTAAATCTGTAGGAACAAATTCCTC
1 TAATACCGCTACTAAATCTATAAGAACAAATTCCTC
11839 T
1 T
11840 TAAATATCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (36 bp):
TAATACCGCTACTAAATCTATAAGAACAAATTCCTC
Found at i:28549 original size:33 final size:34
Alignment explanation
Indices: 28493--28556 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
28483 TATACTGATG
**
28493 TTAATAAATATGATTTTATATTAATT-TATAAGA
1 TTAATAAATATGAAATTATATTAATTATATAAGA
28526 TTAATAAATAT-AAATTATGATTAATTATATA
1 TTAATAAATATGAAATTAT-ATTAATTATATA
28557 TTATATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 5 0.19
33 18 0.67
34 4 0.15
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (34 bp):
TTAATAAATATGAAATTATATTAATTATATAAGA
Found at i:28559 original size:17 final size:16
Alignment explanation
Indices: 28508--28565 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
28498 AAATATGATT
28508 TTATATTAATTTATAAGA
1 TTATATTAA-TTATAA-A
*
28526 TTA-A-TAAATATAAA
1 TTATATTAATTATAAA
*
28540 TTATGATTAATTATATA
1 TTAT-ATTAATTATAAA
28557 TTATATTAA
1 TTATATTAA
28566 ATATTATAGC
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
14 4 0.12
15 5 0.15
16 9 0.26
17 13 0.38
18 3 0.09
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
TTATATTAATTATAAA
Found at i:29998 original size:15 final size:16
Alignment explanation
Indices: 29975--30014 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
29965 AGTGGATGTC
*
29975 ATACCAAAATTAAT-T
1 ATACAAAAATTAATAT
29990 ATACAAAAATTAATAT
1 ATACAAAAATTAATAT
*
30006 ATATAAAAA
1 ATACAAAAA
30015 ATGAGTATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.30
Consensus pattern (16 bp):
ATACAAAAATTAATAT
Found at i:32027 original size:55 final size:54
Alignment explanation
Indices: 31662--32042 Score: 394
Period size: 55 Copynumber: 6.9 Consensus size: 54
31652 AGACTTGAAA
* * * * *
31662 AATCTTCAAATAACGGGTCTGCTCCCTATTCTTTTA-AGGAGTATA-AGACTTGAAC
1 AATCTTCAAA-AACGGGTCCGCTCTCTATTCCTTCAGA-GAGTATAGA-ACTCGAAC
** * * * * **
31717 AATCTTCGGCAAATGTGTCTGCTCCCTATTAATTCA-AGGAGTATATG-ACTCGAAC
1 AATCTTC-AAAAACGGGTCCGCTCTCTATTCCTTCAGA-GAGTATA-GAACTCGAAC
* * * *
31772 AATCTTCAATAAACGGGTCCGCTCCCTA-TCTGTTCAGGGAGTACAGAACTCGAAC
1 AATCTTCAA-AAACGGGTCCGCTCTCTATTC-CTTCAGAGAGTATAGAACTCGAAC
* *
31827 AATCTTCATAAAATGAGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAAC
1 AATCTTCA-AAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAAC
* * *
31882 AATCTTCATAAAACGAGTCCGTTCTCCATTCCTTCAGAGAGTATAGAACTCGAAC
1 AATCTTCA-AAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAAC
* *
31937 AATCTTCAACAAACGGGTCCGCTCTCTATTTCTTCAGAGAGTATAGAACTTGAAC
1 AATCTTCAA-AAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAAC
*
31992 AATCTTCATAAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGGACTC
1 AATCTTCA-AAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTC
32043 AATTTTCAAC
Statistics
Matches: 281, Mismatches: 34, Indels: 22
0.83 0.10 0.07
Matches are distributed among these distances:
54 3 0.01
55 273 0.97
56 5 0.02
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (54 bp):
AATCTTCAAAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAAC
Found at i:32093 original size:110 final size:107
Alignment explanation
Indices: 31755--32077 Score: 320
Period size: 110 Copynumber: 3.0 Consensus size: 107
31745 TTAATTCAAG
* * * *
31755 GAGTATATG-ACTCGAACAATCTTCA-ATAAACGGGTCCGCTC-CC-TATCTGTTCAGGGAGTAC
1 GAGTATA-GAACTCGAACAATCTTCATA-AAACGAGTCCGCTCTCCAT-TC-CTTCAGAGAGTAT
* *
31816 AGAACTCGAACAATCTTCATA-AAATGAGTCCGCTCTCTAT-TCCTTCAGA
62 AGAACT---ACAATCTTCA-ACAAACGAGTCCGCTCACTATCT-CTTCAGA
*
31865 GAGTATAGAACTCGAACAATCTTCATAAAACGAGTCCGTTCTCCATTCCTTCAGAGAGTATAGAA
1 GAGTATAGAACTCGAACAATCTTCATAAAACGAGTCCGCTCTCCATTCCTTCAGAGAGTATAGAA
* * *
31930 CTCGAACAATCTTCAACAAACGGGTCCGCTCTCTATTTCTTCAGA
66 CT---ACAATCTTCAACAAACGAGTCCGCTCACTATCTCTTCAGA
* * * *
31975 GAGTATAGAACTTGAACAATCTTCATAAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGGA
1 GAGTATAGAACTCGAACAATCTTCATAAAACGAGTCCGCTCTCCATTCCTTCAGAGAGTATAGAA
* **
32040 CT-CAATTTTCAACAAACGAGTTTGCTTCACTA-CTCTTC
66 CTACAATCTTCAACAAACGAGTCCGC-TCACTATCTCTTC
32078 CATGAAGGCT
Statistics
Matches: 188, Mismatches: 18, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
106 24 0.13
107 5 0.03
109 2 0.01
110 150 0.80
111 6 0.03
112 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (107 bp):
GAGTATAGAACTCGAACAATCTTCATAAAACGAGTCCGCTCTCCATTCCTTCAGAGAGTATAGAA
CTACAATCTTCAACAAACGAGTCCGCTCACTATCTCTTCAGA
Found at i:32383 original size:17 final size:17
Alignment explanation
Indices: 32351--32385 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
32341 TATCTTCATC
32351 TCAATGCTTCAATATCT
1 TCAATGCTTCAATATCT
32368 TCAAT-CTTCAACTATCT
1 TCAATGCTTCAA-TATCT
32385 T
1 T
32386 TGGGAAACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.29, C:0.26, G:0.03, T:0.43
Consensus pattern (17 bp):
TCAATGCTTCAATATCT
Found at i:33504 original size:55 final size:56
Alignment explanation
Indices: 33445--33564 Score: 133
Period size: 54 Copynumber: 2.2 Consensus size: 56
33435 CCATTTTTCT
* *
33445 TTTTTTTCCTTTTC-C-TTTTCCTTTTTCACTTTTTCCTTTTTCA-TTTTCTTCATCA
1 TTTTTTTCATTTTCTCTTTTTCCTTTTT--CTTTTTCCATTTTCATTTTTCTTCATCA
* *
33500 --TTTTTCATTTTCTCTTTTTTTCTTTTTCTTTTTCCATTTTCATTTTTTTTCATCA
1 TTTTTTTCATTTTCTC-TTTTTCCTTTTTCTTTTTCCATTTTCATTTTTCTTCATCA
33555 TTTTTCTTCA
1 TTTTT-TTCA
33565 AGCAAAATAT
Statistics
Matches: 54, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
53 11 0.20
54 15 0.28
55 11 0.20
56 10 0.19
57 3 0.06
58 4 0.07
ACGTcount: A:0.08, C:0.22, G:0.00, T:0.70
Consensus pattern (56 bp):
TTTTTTTCATTTTCTCTTTTTCCTTTTTCTTTTTCCATTTTCATTTTTCTTCATCA
Found at i:33546 original size:7 final size:7
Alignment explanation
Indices: 33364--33546 Score: 100
Period size: 7 Copynumber: 26.6 Consensus size: 7
33354 CCCCCTTTTA
*
33364 TTTTCTT
1 TTTTCAT
*
33371 TTTTCTT
1 TTTTCAT
33378 TTTTCAT
1 TTTTCAT
33385 TTTTCAT
1 TTTTCAT
33392 TTTTC-T
1 TTTTCAT
33398 CTTTTCAT
1 -TTTTCAT
33406 TTTTC-T
1 TTTTCAT
33412 TTTTCAT
1 TTTTCAT
33419 TTTT--T
1 TTTTCAT
* *
33424 CTTCCAT
1 TTTTCAT
*
33431 TTTCCCAT
1 TTT-TCAT
*
33439 TTTTCTTTT
1 TTTTC--AT
*
33448 TTTTC-C
1 TTTTCAT
*
33454 TTTTC-C
1 TTTTCAT
*
33460 TTTTCCT
1 TTTTCAT
33467 TTTTCACT
1 TTTTCA-T
*
33475 TTTTCCT
1 TTTTCAT
33482 TTTTCA-
1 TTTTCAT
33488 TTTTC-T
1 TTTTCAT
**
33494 TCATCAT
1 TTTTCAT
33501 TTTTCAT
1 TTTTCAT
*
33508 TTTCTCTTT
1 TTT-TC-AT
33517 TTTTC-T
1 TTTTCAT
33523 TTTTC-T
1 TTTTCAT
33529 TTTTCCA-
1 TTTT-CAT
33536 TTTTCAT
1 TTTTCAT
33543 TTTT
1 TTTT
33547 TTTCATCATT
Statistics
Matches: 143, Mismatches: 16, Indels: 34
0.74 0.08 0.18
Matches are distributed among these distances:
5 3 0.02
6 39 0.27
7 73 0.51
8 18 0.13
9 10 0.07
ACGTcount: A:0.07, C:0.21, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTTCAT
Found at i:33564 original size:68 final size:65
Alignment explanation
Indices: 33364--33564 Score: 212
Period size: 69 Copynumber: 3.0 Consensus size: 65
33354 CCCCCTTTTA
*
33364 TTTTCTTTTTTC-TTTTTTCATTTTTCATTTTTCTCTTTTCATTTTTCTTTTTCATTTTTTCTTC
1 TTTTCATTTTTCTTTTTTTC-TTTTTC-TTTTTC-CTTTTCATTTTTCTTTTTCA-TTTTTCTTC
33428 -CAT
62 ACAT
* * *
33431 TTTCCCATTTTTCTTTTTTTTCCTTTTCCTTTTCCTTTTTCACTTTTTCCTTTTTCA-TTTTCTT
1 TTT-TCATTTTTC-TTTTTTTCTTTTTCTTTTTCC-TTTTCA-TTTTT-CTTTTTCATTTTTCTT
33495 CATCAT
61 CA-CAT
*
33501 TTTTCATTTTCTCTTTTTTTCTTTTTCTTTTTCCATTTTCATTTTT-TTTCATCATTTTTCTTCA
1 TTTTCATTTT-TCTTTTTTTCTTTTTCTTTTTCC-TTTTCATTTTTCTTT-TTCATTTTTCTTCA
33565 AGCAAAATAT
Statistics
Matches: 114, Mismatches: 9, Indels: 21
0.79 0.06 0.15
Matches are distributed among these distances:
66 3 0.03
67 7 0.06
68 40 0.35
69 41 0.36
70 23 0.20
ACGTcount: A:0.08, C:0.21, G:0.00, T:0.71
Consensus pattern (65 bp):
TTTTCATTTTTCTTTTTTTCTTTTTCTTTTTCCTTTTCATTTTTCTTTTTCATTTTTCTTCACAT
Found at i:43272 original size:45 final size:45
Alignment explanation
Indices: 43206--43349 Score: 216
Period size: 45 Copynumber: 3.1 Consensus size: 45
43196 TTTTATTCAC
* * *
43206 AAAAAGAAATCCTATCCGCATGATATCTAATTCGCATGCTTGTTCG
1 AAAAATAAA-CCTAACCGCATGATATCTAGTTCGCATGCTTGTTCG
43252 AAAAATAAACCTAACCGCATGATATCTAGTTCGCATGCTTGTTCG
1 AAAAATAAACCTAACCGCATGATATCTAGTTCGCATGCTTGTTCG
* *
43297 AAAAATAAACCTAACCGCATGATATCTAGTTCGCAAGCATTTTTTCG
1 AAAAATAAACCTAACCGCATGATATCTAGTTCGCATGC--TTGTTCG
43344 AAAAAT
1 AAAAAT
43350 GAAAATAAAT
Statistics
Matches: 91, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
45 71 0.78
46 8 0.09
47 12 0.13
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (45 bp):
AAAAATAAACCTAACCGCATGATATCTAGTTCGCATGCTTGTTCG
Found at i:44844 original size:15 final size:16
Alignment explanation
Indices: 44824--44858 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
44814 ATGTCATGCC
44824 AAAATTAAT-TATATA
1 AAAATTAATATATATA
44839 AAAATTAATATATATA
1 AAAATTAATATATATA
44855 AAAA
1 AAAA
44859 ATGATTATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAATTAATATATATA
Found at i:51224 original size:21 final size:21
Alignment explanation
Indices: 51198--51250 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
51188 GTTTCCAGAT
51198 TCGCAACGCGAACATCGACTA
1 TCGCAACGCGAACATCGACTA
*
51219 TCGCAACGCGAACTTCGACTA
1 TCGCAACGCGAACATCGACTA
*
51240 TCGCAATGCGA
1 TCGCAACGCGA
51251 TAGTCCAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.32, G:0.21, T:0.17
Consensus pattern (21 bp):
TCGCAACGCGAACATCGACTA
Found at i:51361 original size:61 final size:62
Alignment explanation
Indices: 51246--51394 Score: 205
Period size: 61 Copynumber: 2.4 Consensus size: 62
51236 ACTATCGCAA
* * * ** *
51246 TGCGATAGTCCAAGTTTG--TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGT
1 TGCGATAGTCCAAGTTCGCAATGCGATAGTCCAAGTTCGCAATGCGA-TTAGTCCAAATTCGT
*
51307 TGCGATAGTCCAAGTTCGCAATGCGATAGTCCAAGTTCGCAATGCGA-TAGTCCAAGTTCGT
1 TGCGATAGTCCAAGTTCGCAATGCGATAGTCCAAGTTCGCAATGCGATTAGTCCAAATTCGT
51368 TGCGATAGTCCAAGTTCGCAATGCGAT
1 TGCGATAGTCCAAGTTCGCAATGCGAT
51395 TTTTTTTATT
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
61 56 0.71
63 23 0.29
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (62 bp):
TGCGATAGTCCAAGTTCGCAATGCGATAGTCCAAGTTCGCAATGCGATTAGTCCAAATTCGT
Found at i:51394 original size:21 final size:21
Alignment explanation
Indices: 51240--51394 Score: 169
Period size: 21 Copynumber: 7.6 Consensus size: 21
51230 ACTTCGACTA
51240 TCGCAATGCGATAGTCCAAGT
1 TCGCAATGCGATAGTCCAAGT
* * *
51261 TTG--TTGCGATAGTCGAAGT
1 TCGCAATGCGATAGTCCAAGT
** * *
51280 TCGCGTTGCGATTTATTCCAAAT
1 TCGCAATGCGA--TAGTCCAAGT
*
51303 TCG--TTGCGATAGTCCAAGT
1 TCGCAATGCGATAGTCCAAGT
51322 TCGCAATGCGATAGTCCAAGT
1 TCGCAATGCGATAGTCCAAGT
51343 TCGCAATGCGATAGTCCAAGT
1 TCGCAATGCGATAGTCCAAGT
*
51364 TCG--TTGCGATAGTCCAAGT
1 TCGCAATGCGATAGTCCAAGT
51383 TCGCAATGCGAT
1 TCGCAATGCGAT
51395 TTTTTTTATT
Statistics
Matches: 114, Mismatches: 12, Indels: 16
0.80 0.08 0.11
Matches are distributed among these distances:
19 45 0.39
21 59 0.52
23 10 0.09
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (21 bp):
TCGCAATGCGATAGTCCAAGT
Found at i:51904 original size:21 final size:21
Alignment explanation
Indices: 51880--51995 Score: 146
Period size: 21 Copynumber: 5.6 Consensus size: 21
51870 TTTGGAATAA
* **
51880 ATCGCAACGTGAACTTCAACT
1 ATCGCAACGCGAACTTGGACT
51901 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
* **
51922 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTGGACT
*
51941 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTGGACT
51962 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
*
51983 ATCGCAATGCGAA
1 ATCGCAACGCGAA
51996 TATGTAAATC
Statistics
Matches: 81, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
19 16 0.20
21 65 0.80
ACGTcount: A:0.33, C:0.27, G:0.21, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAACTTGGACT
Found at i:51963 original size:61 final size:63
Alignment explanation
Indices: 51855--51989 Score: 229
Period size: 61 Copynumber: 2.2 Consensus size: 63
51845 TGTGATTTTA
*
51855 GACTATCGCAACAAATTTGGAATAAATCGCAACGTGAACTTCAACTATCGCAACGCGAACTTG
1 GACTATCGCAACAAATTTGGAATAAATCGCAACGCGAACTTCAACTATCGCAACGCGAACTTG
* *
51918 GACTATCGCAACGAATTTGG-A-AAATCGCAACGCGAACTTCGACTATCGCAACGCGAACTTG
1 GACTATCGCAACAAATTTGGAATAAATCGCAACGCGAACTTCAACTATCGCAACGCGAACTTG
51979 GACTATCGCAA
1 GACTATCGCAA
51990 TGCGAATATG
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
61 49 0.71
62 1 0.01
63 19 0.28
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (63 bp):
GACTATCGCAACAAATTTGGAATAAATCGCAACGCGAACTTCAACTATCGCAACGCGAACTTG
Found at i:52074 original size:21 final size:21
Alignment explanation
Indices: 52010--52077 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
52000 TAAATCGCAA
52010 TGCGATAGTCGAAGTTTGCGT
1 TGCGATAGTCGAAGTTTGCGT
*
52031 TACGATAGTCGAAGTTTGCGT
1 TGCGATAGTCGAAGTTTGCGT
* * *
52052 TGTGATAGTCGAAGTTCGTGT
1 TGCGATAGTCGAAGTTTGCGT
52073 TGCGA
1 TGCGA
52078 ATCTGGAAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.21, C:0.13, G:0.32, T:0.34
Consensus pattern (21 bp):
TGCGATAGTCGAAGTTTGCGT
Found at i:52236 original size:2 final size:2
Alignment explanation
Indices: 52225--52519 Score: 68
Period size: 2 Copynumber: 155.0 Consensus size: 2
52215 ATTTTCTCAT
*
52225 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA -A GTT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
*
52265 TA TA TA -A T- TA TA TA TA T- TA TA AA CTA TA TA -A T- TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* * * * * *
52302 TA -A GT- TA TA TA TA TA TA CA TA AA T- TT TG TT TA TA TA AA CTA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* ** * * * *
52343 TA TG TA TA -A GC TA TA AA AA GTA TA TA GTT TA TA AA CTA TA -A
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA -TA TA TA
* * *
52384 TT TA TA T- TA -A TA TA GTA TA TA TA TA CA TA TA T- TA AA CTA TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * * *
52425 TA -A AA TA TA TA GTT TA TA -A AA TA TA -A TT TA TA T- TA -A TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
52463 TA TA TA TA TA TG TA TG TA TA -A CTA -A TA TA -A GTA -A TC TA TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA
52503 T- TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
52520 GTTTATAGAA
Statistics
Matches: 212, Mismatches: 42, Indels: 78
0.64 0.13 0.23
Matches are distributed among these distances:
1 27 0.13
2 174 0.82
3 11 0.05
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (2 bp):
TA
Found at i:52691 original size:20 final size:19
Alignment explanation
Indices: 52664--52731 Score: 64
Period size: 20 Copynumber: 3.5 Consensus size: 19
52654 CTTATAGTAC
*
52664 ATGTATATAAAAAATATGT
1 ATGTATATAAAAAATATAT
* *
52683 ATAGTATATATAAACTATAT
1 AT-GTATATAAAAAATATAT
* *
52703 ATGTATATATATATATATAT
1 ATGTATATA-AAAAATATAT
*
52723 ATATATATA
1 ATGTATATA
52732 TATAAACTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
19 9 0.23
20 30 0.77
ACGTcount: A:0.50, C:0.01, G:0.06, T:0.43
Consensus pattern (19 bp):
ATGTATATAAAAAATATAT
Found at i:52744 original size:2 final size:2
Alignment explanation
Indices: 52677--52735 Score: 73
Period size: 2 Copynumber: 28.5 Consensus size: 2
52667 TATATAAAAA
* * *
52677 AT AT GT AT AGT AT AT AT AA ACT AT AT AT GT AT AT AT AT AT AT AT
1 AT AT AT AT A-T AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT
52721 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
52736 AACTATATAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
2 46 0.94
3 3 0.06
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (2 bp):
AT
Found at i:53006 original size:35 final size:36
Alignment explanation
Indices: 52936--53009 Score: 96
Period size: 37 Copynumber: 2.1 Consensus size: 36
52926 ACAATAGTTA
* *
52936 ATATATGTAACATATAGTATATGTATACATGTAAACT
1 ATATATGTAACATATAGTACATGTATA-ATATAAACT
* *
52973 ATATATGTAACTTATAGTACATGTAT-GTATAAACT
1 ATATATGTAACATATAGTACATGTATAATATAAACT
53008 AT
1 AT
53010 GTATAGTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 9 0.27
37 24 0.73
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (36 bp):
ATATATGTAACATATAGTACATGTATAATATAAACT
Found at i:53018 original size:20 final size:21
Alignment explanation
Indices: 52993--53101 Score: 118
Period size: 20 Copynumber: 5.2 Consensus size: 21
52983 CTTATAGTAC
*
52993 ATGTATGTATAAACTATGTAT
1 ATGTATATATAAACTATGTAT
*
53014 A-GTATATATAAACTATATAT
1 ATGTATATATAAACTATGTAT
* *
53034 ATATATATATAACCTATAGTAT
1 ATGTATATATAAACTAT-GTAT
*
53056 ATGTATATATACAATCTATTTAT
1 ATGTATATATA-AA-CTATGTAT
53079 ATGT-TATATAAACTA--TAT
1 ATGTATATATAAACTATGTAT
53097 ATGTA
1 ATGTA
53102 ACCTATAGTT
Statistics
Matches: 75, Mismatches: 8, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
18 7 0.09
20 21 0.28
21 16 0.21
22 19 0.25
23 8 0.11
24 4 0.05
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.43
Consensus pattern (21 bp):
ATGTATATATAAACTATGTAT
Found at i:53039 original size:63 final size:65
Alignment explanation
Indices: 52972--53098 Score: 179
Period size: 63 Copynumber: 2.0 Consensus size: 65
52962 ACATGTAAAC
* * *
52972 TATATATGTAACTTATAGTACATGTATGTATA-AA-CTATGTATA-GTATATATAAACTATATAT
1 TATATATATAACCTATAGTACATGTATATATACAATCTATGTATATGT-TATATAAACTATATAT
53034 A
65 A
* *
53035 TATATATATAACCTATAGTATATGTATATATACAATCTATTTATATGTTATATAAACTATATAT
1 TATATATATAACCTATAGTACATGTATATATACAATCTATGTATATGTTATATAAACTATATAT
53099 GTAACCTATA
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
63 28 0.50
64 2 0.04
65 24 0.43
66 2 0.04
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (65 bp):
TATATATATAACCTATAGTACATGTATATATACAATCTATGTATATGTTATATAAACTATATATA
Found at i:53080 original size:41 final size:41
Alignment explanation
Indices: 53000--53094 Score: 120
Period size: 44 Copynumber: 2.2 Consensus size: 41
52990 TACATGTATG
53000 TATAAACTATGTATAGTATATATAAACTATATATATATATA
1 TATAAACTATGTATAGTATATATAAACTATATATATATATA
* * *
53041 TATAACCTATAGTATATGTATATATACAATCTATTTATATGT-TA
1 TATAAACTAT-GTATA-GTATATATA-AA-CTATATATATATATA
53085 TATAAACTAT
1 TATAAACTAT
53095 ATATGTAACC
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
41 9 0.20
42 5 0.11
43 9 0.20
44 13 0.28
45 10 0.22
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.43
Consensus pattern (41 bp):
TATAAACTATGTATAGTATATATAAACTATATATATATATA
Found at i:53158 original size:14 final size:14
Alignment explanation
Indices: 53136--53179 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
53126 TATATTAGTG
*
53136 TACTATATAGTTTA
1 TACTATATAATTTA
* *
53150 TACTTTATAATCTA
1 TACTATATAATTTA
53164 TACTATATAATTTA
1 TACTATATAATTTA
53178 TA
1 TA
53180 AACTATAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (14 bp):
TACTATATAATTTA
Found at i:53228 original size:16 final size:16
Alignment explanation
Indices: 53171--53228 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 16
53161 CTATACTATA
*
53171 TAATTTATA--AACTA
1 TAATTTATATTAACTG
*
53185 TAGTTTATATTAA-TG
1 TAATTTATATTAACTG
*
53200 TTAA-TTATCTTAACTG
1 -TAATTTATATTAACTG
53216 TAATTTATATTAA
1 TAATTTATATTAA
53229 TATAATATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
14 8 0.24
15 12 0.35
16 14 0.41
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (16 bp):
TAATTTATATTAACTG
Found at i:53263 original size:87 final size:88
Alignment explanation
Indices: 53148--53346 Score: 253
Period size: 87 Copynumber: 2.3 Consensus size: 88
53138 CTATATAGTT
* * *
53148 TATACTTTATAATCTATACTATATAATTTATAAACTATAGTTTATATTAATGTTAATTATCT-TA
1 TATACTTTATAAACTATACTATATAATTTATAAAATATAGTTTATATTAATATTAATT-T-TATA
*
53212 -ACTGTAATTTATATTAATATAATA
64 GACTATAATTTATATTAATATAATA
*
53236 TATAGTTTATAAACTA-ACTATATAATTTATAAAATATAGTTTATATTAATATTAATTTTATAGA
1 TATACTTTATAAACTATACTATATAATTTATAAAATATAGTTTATATTAATATTAATTTTATAGA
*
53300 CTATATTTTATATTAATATTAAT-
66 CTATAATTTATATTAATA-TAATA
* ** *
53323 TACAAATTATAAACTATATTATAT
1 TATACTTTATAAACTATACTATAT
53347 TAATATAAGT
Statistics
Matches: 97, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
85 1 0.01
86 3 0.03
87 69 0.71
88 24 0.25
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.48
Consensus pattern (88 bp):
TATACTTTATAAACTATACTATATAATTTATAAAATATAGTTTATATTAATATTAATTTTATAGA
CTATAATTTATATTAATATAATA
Found at i:53310 original size:31 final size:31
Alignment explanation
Indices: 53229--53323 Score: 102
Period size: 31 Copynumber: 3.0 Consensus size: 31
53219 TTTATATTAA
* *
53229 TATAATATATAGTTTATAAACTAACTATATAA-TT
1 TATAAAATATAGTTTAT--ATTAA-TAT-TAATTT
53263 TATAAAATATAGTTTATATTAATATTAATTT
1 TATAAAATATAGTTTATATTAATATTAATTT
* * *
53294 TATAGACTATATTTTATATTAATATTAATT
1 TATAAAATATAGTTTATATTAATATTAATT
53324 ACAAATTATA
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
30 3 0.05
31 32 0.58
32 4 0.07
34 16 0.29
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (31 bp):
TATAAAATATAGTTTATATTAATATTAATTT
Found at i:53354 original size:87 final size:87
Alignment explanation
Indices: 53154--53375 Score: 239
Period size: 87 Copynumber: 2.6 Consensus size: 87
53144 AGTTTATACT
* * * *
53154 TTATAATCTATACTATATAATTTATAAACTATAGTTTATATTAATGTTAATTATCTTAACTGTAA
1 TTATAAACTATACTATATAA-TTATAAAATATAGTTTATATTAATATTAATTATCTTAACTATAA
* **
53219 TTTATATTAATATAATATATAGT
65 TTTATATTAATATAATATACAAA
53242 TTATAAACTA-ACTATATAATTTATAAAATATAGTTTATATTAATATTAATT-T-TATAGACTAT
1 TTATAAACTATACTATATAA-TTATAAAATATAGTTTATATTAATATTAATTATCT-TA-ACTAT
*
53304 ATTTTATATTAATATTAAT-TACAAA
63 AATTTATATTAATA-TAATATACAAA
* *
53329 TTATAAACTATA-T-TAT-A-T-TAATATA-AGTTAATATTAATATTAATTAT
1 TTATAAACTATACTATATAATTATAAAATATAGTTTATATTAATATTAATTAT
53376 ATAAATATTA
Statistics
Matches: 119, Mismatches: 10, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
81 19 0.16
82 7 0.06
83 1 0.01
85 2 0.02
86 6 0.05
87 70 0.59
88 14 0.12
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (87 bp):
TTATAAACTATACTATATAATTATAAAATATAGTTTATATTAATATTAATTATCTTAACTATAAT
TTATATTAATATAATATACAAA
Found at i:53645 original size:23 final size:24
Alignment explanation
Indices: 53618--53671 Score: 101
Period size: 23 Copynumber: 2.3 Consensus size: 24
53608 ATTATTTTTC
53618 TTTACATAAATTAAACTATA-TAA
1 TTTACATAAATTAAACTATATTAA
53641 TTTACATAAATTAAACTATATTAA
1 TTTACATAAATTAAACTATATTAA
53665 TTTACAT
1 TTTACAT
53672 TTAATCATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 20 0.67
24 10 0.33
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (24 bp):
TTTACATAAATTAAACTATATTAA
Found at i:55079 original size:2 final size:2
Alignment explanation
Indices: 55072--55100 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
55062 CAACATCATT
55072 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
55101 GTACACACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:61150 original size:335 final size:335
Alignment explanation
Indices: 60526--61162 Score: 1114
Period size: 335 Copynumber: 1.9 Consensus size: 335
60516 GATCCTGAAT
*
60526 TAATATGTGTTATATGTTTGAAGAAAATTTCTAAAGATTTATCCATTCATCAGGATGTTTGATTA
1 TAATATGTGTTATATGTTTGAAGAAAATTTCTAAAGATTTATACATTCATCAGGATGTTTGATTA
60591 GTTTGTATTCCTTAAATATAAATTTCTAATTAGTTATAACGTATGGATAAAACCTCTAATAAGTA
66 GTTTGTATTCCTTAAATATAAATTTCTAATTAGTTATAACGTATGGATAAAACCTCTAATAAGTA
*
60656 AGTCACTCGAAAAGTCCATGTGAATCGTCAGAATAAAATTTAAAATATGATTATCAAATTTACTT
131 AGTCACTCGAAAAGTCCATGTGAATCGTCAGAATAAAATTTAAAATATAATTATCAAATTTACTT
60721 AATTTGTTGAACTATAAAAAGTCATGATAACCCTATGTACTACGGTTAACGCACTCATTAAAAAT
196 AATTTGTTGAACTATAAAAAGTCATGATAACCCTATGTACTACGGTTAACGCACTCATTAAAAAT
*
60786 CACTATAAATGCTCCATTCGCAGTTGAACAAGGAGATGAATTTTTTTTTTCATAAACATGGCTTT
261 CACTATAAATGCTCCATTCGCAATTGAACAAGGAGATGAATTTTTTTTTTCATAAACATGGCTTT
60851 CCTTGAATGA
326 CCTTGAATGA
*
60861 TAATATGTGTTATATGTTTGAAGAAAATTTCTAAAGATTTATACATTCATCATGATGTTTGATTA
1 TAATATGTGTTATATGTTTGAAGAAAATTTCTAAAGATTTATACATTCATCAGGATGTTTGATTA
* *
60926 GTTTGTATTCCTTAAATATAAATTTCTAATTAGTTATAATGTATGGATAAGACCTCTAATAAGTA
66 GTTTGTATTCCTTAAATATAAATTTCTAATTAGTTATAACGTATGGATAAAACCTCTAATAAGTA
* * * *
60991 AGTCACTTGAATAGTTCATGTGAATCGTCAGAATAAAATTTAAAATATAATTATCAAATTTATTT
131 AGTCACTCGAAAAGTCCATGTGAATCGTCAGAATAAAATTTAAAATATAATTATCAAATTTACTT
* * * **
61056 AATTTGTTGAACTATAAAAAGTCATGATGATCCTATAG-ACTACGGTTATCGTGCTCATTAAAAA
196 AATTTGTTGAACTATAAAAAGTCATGATAACCCTAT-GTACTACGGTTAACGCACTCATTAAAAA
*
61120 TCACTATAAATGCTCCCTTCGCAATTGAACAAGGAGATGAATT
260 TCACTATAAATGCTCCATTCGCAATTGAACAAGGAGATGAATT
61163 GACGGTAACC
Statistics
Matches: 285, Mismatches: 16, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
335 284 1.00
336 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (335 bp):
TAATATGTGTTATATGTTTGAAGAAAATTTCTAAAGATTTATACATTCATCAGGATGTTTGATTA
GTTTGTATTCCTTAAATATAAATTTCTAATTAGTTATAACGTATGGATAAAACCTCTAATAAGTA
AGTCACTCGAAAAGTCCATGTGAATCGTCAGAATAAAATTTAAAATATAATTATCAAATTTACTT
AATTTGTTGAACTATAAAAAGTCATGATAACCCTATGTACTACGGTTAACGCACTCATTAAAAAT
CACTATAAATGCTCCATTCGCAATTGAACAAGGAGATGAATTTTTTTTTTCATAAACATGGCTTT
CCTTGAATGA
Found at i:65117 original size:9 final size:9
Alignment explanation
Indices: 65103--65159 Score: 50
Period size: 9 Copynumber: 6.6 Consensus size: 9
65093 TCTTTTTTAT
65103 TTATTACTA
1 TTATTACTA
65112 TTATTACTA
1 TTATTACTA
*
65121 TTTTTA-TA
1 TTATTACTA
65129 TT-TTA-T-
1 TTATTACTA
*
65135 TTAAATACTTA
1 TT-ATTAC-TA
65146 TTATTACTA
1 TTATTACTA
65155 TTATT
1 TTATT
65160 TTTATACCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
6 2 0.05
7 4 0.10
8 6 0.15
9 21 0.52
10 5 0.12
11 2 0.05
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (9 bp):
TTATTACTA
Found at i:65196 original size:4 final size:4
Alignment explanation
Indices: 65182--65221 Score: 71
Period size: 4 Copynumber: 10.0 Consensus size: 4
65172 TTATAAGTTA
*
65182 TTAT ATAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
65222 ATGACTATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
TTAT
Found at i:65197 original size:12 final size:12
Alignment explanation
Indices: 65123--65223 Score: 68
Period size: 12 Copynumber: 8.6 Consensus size: 12
65113 TATTACTATT
65123 TTTATAT-TTTA
1 TTTATATATTTA
* *
65134 TTTAAATACTTA
1 TTTATATATTTA
65146 -TTAT-TACTATTA
1 TTTATATA-T-TTA
* * *
65158 TTTTTATACCTTG
1 TTTATATA-TTTA
*
65171 TTTATA-AGTTA
1 TTTATATATTTA
65182 -TTATATATTTA
1 TTTATATATTTA
*
65193 TTTATTTATTTA
1 TTTATATATTTA
*
65205 TTTATTTATTTA
1 TTTATATATTTA
65217 TTTATAT
1 TTTATAT
65224 GACTATTATT
Statistics
Matches: 70, Mismatches: 13, Indels: 13
0.73 0.14 0.14
Matches are distributed among these distances:
10 7 0.10
11 15 0.21
12 35 0.50
13 10 0.14
14 3 0.04
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (12 bp):
TTTATATATTTA
Found at i:74107 original size:33 final size:34
Alignment explanation
Indices: 74051--74114 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
74041 TATACTGATG
**
74051 TTAATAAATATGATTTTATATTAATT-TATAAGA
1 TTAATAAATATGAAATTATATTAATTATATAAGA
74084 TTAATAAATAT-AAATTATGATTAATTATATA
1 TTAATAAATATGAAATTAT-ATTAATTATATA
74115 TTATATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 5 0.19
33 18 0.67
34 4 0.15
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (34 bp):
TTAATAAATATGAAATTATATTAATTATATAAGA
Found at i:74117 original size:17 final size:16
Alignment explanation
Indices: 74066--74123 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
74056 AAATATGATT
74066 TTATATTAATTTATAAGA
1 TTATATTAA-TTATAA-A
*
74084 TTA-A-TAAATATAAA
1 TTATATTAATTATAAA
*
74098 TTATGATTAATTATATA
1 TTAT-ATTAATTATAAA
74115 TTATATTAA
1 TTATATTAA
74124 ATATTATAGC
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
14 4 0.12
15 5 0.15
16 9 0.26
17 13 0.38
18 3 0.09
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
TTATATTAATTATAAA
Found at i:75557 original size:15 final size:16
Alignment explanation
Indices: 75534--75573 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
75524 AGTGGATGTC
*
75534 ATACCAAAATTAAT-T
1 ATACAAAAATTAATAT
75549 ATACAAAAATTAATAT
1 ATACAAAAATTAATAT
*
75565 ATATAAAAA
1 ATACAAAAA
75574 ATGATTATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.30
Consensus pattern (16 bp):
ATACAAAAATTAATAT
Found at i:77268 original size:55 final size:54
Alignment explanation
Indices: 77207--77596 Score: 228
Period size: 55 Copynumber: 7.1 Consensus size: 54
77197 ATGATAAGCG
* *
77207 AGACTTGAAAAATCTTCAAATAACGGGTCTGCTCCCTATTCTTTTAAGGAGTATA
1 AGACTTGAACAATCTTC-AATAACGGGTCTGCTCCCTATTCTTTCAAGGAGTATA
* * * **
77262 AGACTTGAACAATCTTCGGCA-AATGTGTCTGCTCCCTATTAATTCAAGGAGTATA
1 AGACTTGAACAATCTTC--AATAACGGGTCTGCTCCCTATTCTTTCAAGGAGTATA
* * * *
77317 TGACTCGAACAATCTTCAATAAACGGGTCCGCTCCCTA-TCTGTTCAAGGAGTA-C
1 AGACTTGAACAATCTTCAAT-AACGGGTCTGCTCCCTATTCT-TTCAAGGAGTATA
* * * * * * *
77371 AGAACTCGAACAATCTTCATAAAATGAGTCCGCTCTCTATTCCTTC-AGAGAGTAT-
1 AG-ACTTGAACAATCTTCA-ATAACGGGTCTGCTCCCTATTCTTTCAAG-GAGTATA
* * * * *
77426 AGAACTCGAACAATCTTCATAAAACGAGTCCGCTCTCC-ATTCCTTC-AGAGAGTAT-
1 AG-ACTTGAACAATCTTCA-ATAACGGGTCTGCTC-CCTATTCTTTCAAG-GAGTATA
* * * *
77481 AGAACTCGAACAATCTTCAACAAACGGGTCCGCTCTCTATT-TCTTC-AGAGAGTAT-
1 AG-ACTTGAACAATCTTCAA-TAACGGGTCTGCTCCCTATTCT-TTCAAG-GAGTATA
* * * * *
77536 AGAACTCGAACAATCTTCATAAAACGGGTCCGCTCTCTATTCCTTC-AGAGAGTATA
1 AG-ACTTGAACAATCTTCA-ATAACGGGTCTGCTCCCTATTCTTTCAAG-GAGTATA
*
77592 GGACT
1 AGACT
77597 CAATTTTCAA
Statistics
Matches: 289, Mismatches: 30, Indels: 32
0.82 0.09 0.09
Matches are distributed among these distances:
53 1 0.00
54 6 0.02
55 275 0.95
56 7 0.02
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (54 bp):
AGACTTGAACAATCTTCAATAACGGGTCTGCTCCCTATTCTTTCAAGGAGTATA
Found at i:77411 original size:110 final size:108
Alignment explanation
Indices: 77217--77597 Score: 400
Period size: 110 Copynumber: 3.5 Consensus size: 108
77207 AGACTTGAAA
* * *
77217 AATCTTCA-AATAACGGGTCTGCTCCCTATTCTTTTAAGGAGTATA-AGACTTGAACAATCTTCG
1 AATCTTCATAA-AACGGGTCCGCTCCCTA-TCTTTCAAGGAGTATAGA-ACTCGAACAATCTTC-
** * * * *
77280 GCAAATGTGTCTGCTCCCTATTAATTCA-AGGAGTATATG-ACTCGAAC
62 AAAAATGAGTCCGCTCTCTATTACTTCAGA-GAGTATA-GAACTCGAAC
*
77327 AATCTTCA-ATAAACGGGTCCGCTCCCTATCTGTTCAAGGAGTACAGAACTCGAACAATCTTCAT
1 AATCTTCATA-AAACGGGTCCGCTCCCTATCT-TTCAAGGAGTATAGAACTCGAACAATCTTCA-
*
77391 AAAATGAGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAAC
63 AAAATGAGTCCGCTCTCTATTACTTCAGAGAGTATAGAACTCGAAC
* *
77437 AATCTTCATAAAACGAGTCCGCTCTCC-ATTCCTTC-AGAGAGTATAGAACTCGAACAATCTTCA
1 AATCTTCATAAAACGGGTCCGCTC-CCTA-TCTTTCAAG-GAGTATAGAACTCGAACAATCTTCA
* * *
77500 ACAAACGGGTCCGCTCTCTATTTCTTCAGAGAGTATAGAACTCGAAC
63 A-AAATGAGTCCGCTCTCTATTACTTCAGAGAGTATAGAACTCGAAC
* * *
77547 AATCTTCATAAAACGGGTCCGCTCTCTATTCCTTC-AGAGAGTATAGGACTC
1 AATCTTCATAAAACGGGTCCGCTCCCTA-TCTTTCAAG-GAGTATAGAACTC
77598 AATTTTCAAC
Statistics
Matches: 239, Mismatches: 20, Indels: 24
0.84 0.07 0.08
Matches are distributed among these distances:
109 8 0.03
110 223 0.93
111 8 0.03
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (108 bp):
AATCTTCATAAAACGGGTCCGCTCCCTATCTTTCAAGGAGTATAGAACTCGAACAATCTTCAAAA
ATGAGTCCGCTCTCTATTACTTCAGAGAGTATAGAACTCGAAC
Found at i:77648 original size:110 final size:107
Alignment explanation
Indices: 77310--77632 Score: 331
Period size: 110 Copynumber: 3.0 Consensus size: 107
77300 TTAATTCAAG
* *
77310 GAGTATATG-ACTCGAACAATCTTCA-ATAAACGGGTCCGCTC-CC-TATCTGTTCA-AGGAGTA
1 GAGTATA-GAACTCGAACAATCTTCATA-AAACGAGTCCGCTCTCCAT-TC-CTTCAGA-GAGTA
* * *
77370 CAGAACTCGAACAATCTTCATA-AAATGAGTCCGCTCTCTAT-TCCTTCAGA
61 TAGAACT---ACAATCTTCA-ACAAACGAGTCCGCTCACTATCT-CTTCAGA
77420 GAGTATAGAACTCGAACAATCTTCATAAAACGAGTCCGCTCTCCATTCCTTCAGAGAGTATAGAA
1 GAGTATAGAACTCGAACAATCTTCATAAAACGAGTCCGCTCTCCATTCCTTCAGAGAGTATAGAA
* * *
77485 CTCGAACAATCTTCAACAAACGGGTCCGCTCTCTATTTCTTCAGA
66 CT---ACAATCTTCAACAAACGAGTCCGCTCACTATCTCTTCAGA
* * *
77530 GAGTATAGAACTCGAACAATCTTCATAAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGGA
1 GAGTATAGAACTCGAACAATCTTCATAAAACGAGTCCGCTCTCCATTCCTTCAGAGAGTATAGAA
* **
77595 CT-CAATTTTCAACAAACGAGTTTGCTTCACTA-CTCTTC
66 CTACAATCTTCAACAAACGAGTCCGC-TCACTATCTCTTC
77633 CATGAAGGCT
Statistics
Matches: 191, Mismatches: 14, Indels: 20
0.85 0.06 0.09
Matches are distributed among these distances:
106 24 0.13
107 5 0.03
109 2 0.01
110 152 0.80
111 7 0.04
112 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (107 bp):
GAGTATAGAACTCGAACAATCTTCATAAAACGAGTCCGCTCTCCATTCCTTCAGAGAGTATAGAA
CTACAATCTTCAACAAACGAGTCCGCTCACTATCTCTTCAGA
Found at i:77938 original size:17 final size:17
Alignment explanation
Indices: 77906--77940 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
77896 TATCTTCATC
77906 TCAATGCTTCAATATCT
1 TCAATGCTTCAATATCT
77923 TCAAT-CTTCAACTATCT
1 TCAATGCTTCAA-TATCT
77940 T
1 T
77941 TGGGAAACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.29, C:0.26, G:0.03, T:0.43
Consensus pattern (17 bp):
TCAATGCTTCAATATCT
Found at i:78983 original size:14 final size:14
Alignment explanation
Indices: 78964--79054 Score: 51
Period size: 16 Copynumber: 6.0 Consensus size: 14
78954 CCCCCTTTTA
78964 TTTTCTTTTTTCAT
1 TTTTCTTTTTTCAT
*
78978 TTTTCTCTTTTTCTCT
1 TTTTCT-TTTTTC-AT
78994 TTTTCATTTTCTTCAT
1 TTTTC-TTTT-TTCAT
* *
79010 CATTTT-TTATTCTCTTT
1 --TTTTCTT-TTTTC-AT
*
79027 TTTTCTTTTTCCA-
1 TTTTCTTTTTTCAT
79040 TTTTCATTTTTTCAT
1 TTTTC-TTTTTTCAT
79055 CAATTTTCTT
Statistics
Matches: 58, Mismatches: 8, Indels: 21
0.67 0.09 0.24
Matches are distributed among these distances:
13 5 0.09
14 13 0.22
15 13 0.22
16 16 0.28
17 7 0.12
18 4 0.07
ACGTcount: A:0.09, C:0.19, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTCTTTTTTCAT
Found at i:88820 original size:44 final size:45
Alignment explanation
Indices: 88710--88834 Score: 198
Period size: 44 Copynumber: 2.8 Consensus size: 45
88700 TTTTATTCAC
* * *
88710 AAAAAGAAATCCTATCCGCATGATATCTAATTCGCATGCTAGTTCG
1 AAAAATAAA-CCTAACCGCATGATATCTAGTTCGCATGCTAGTTCG
*
88756 AAAAATAAACCTAACCGCATGATATCTAGTTCGCATGCTTGTTCG
1 AAAAATAAACCTAACCGCATGATATCTAGTTCGCATGCTAGTTCG
88801 -AAAATAAACCTAACCGCATGATATCTAGTTCGCA
1 AAAAATAAACCTAACCGCATGATATCTAGTTCGCA
88835 AGCATTTTTT
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
44 34 0.45
45 33 0.44
46 8 0.11
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.27
Consensus pattern (45 bp):
AAAAATAAACCTAACCGCATGATATCTAGTTCGCATGCTAGTTCG
Found at i:90355 original size:15 final size:16
Alignment explanation
Indices: 90335--90369 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
90325 ATGTCATGCC
90335 AAAATTAAT-TATATA
1 AAAATTAATATATATA
90350 AAAATTAATATATATA
1 AAAATTAATATATATA
90366 AAAA
1 AAAA
90370 ATGATTATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAATTAATATATATA
Found at i:96748 original size:21 final size:21
Alignment explanation
Indices: 96722--96774 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
96712 GTTTCCAGAT
96722 TCGCAACGCGAACATCGACTA
1 TCGCAACGCGAACATCGACTA
*
96743 TCGCAACGCGAACTTCGACTA
1 TCGCAACGCGAACATCGACTA
*
96764 TCGCAATGCGA
1 TCGCAACGCGA
96775 TAGTCCAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.32, G:0.21, T:0.17
Consensus pattern (21 bp):
TCGCAACGCGAACATCGACTA
Found at i:96794 original size:19 final size:19
Alignment explanation
Indices: 96770--96888 Score: 130
Period size: 19 Copynumber: 5.9 Consensus size: 19
96760 ACTATCGCAA
*
96770 TGCGATAGTCCAAGTTTGT
1 TGCGATAGTCCAAGTTCGT
* *
96789 TGCGATAGTCGATGTTCGCGT
1 TGCGATAGTCCAAGTT--CGT
* *
96810 TGCGATTTATTCCAAATTCGT
1 TGCGA--TAGTCCAAGTTCGT
*
96831 TGCGATAGTCCAAGTTCGCAA
1 TGCGATAGTCCAAGTTCG--T
96852 TGCGATAGTCCAAGTTCGT
1 TGCGATAGTCCAAGTTCGT
96871 TGCGATAGTCCAAGTTCG
1 TGCGATAGTCCAAGTTCG
96889 CAATGTGATT
Statistics
Matches: 83, Mismatches: 11, Indels: 12
0.78 0.10 0.11
Matches are distributed among these distances:
19 43 0.52
21 33 0.40
23 7 0.08
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (19 bp):
TGCGATAGTCCAAGTTCGT
Found at i:96875 original size:40 final size:40
Alignment explanation
Indices: 96764--96893 Score: 179
Period size: 40 Copynumber: 3.2 Consensus size: 40
96754 ACTTCGACTA
* * *
96764 TCGCAATGCGATAGTCCAAGTTTGTTGCGATAGTCGATGT
1 TCGCAATGCGATAGTCCAAGTTCGTTGCGATAGTCCAAGT
** * *
96804 TCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGT
1 TCGCAATGCGA--TAGTCCAAGTTCGTTGCGATAGTCCAAGT
96846 TCGCAATGCGATAGTCCAAGTTCGTTGCGATAGTCCAAGT
1 TCGCAATGCGATAGTCCAAGTTCGTTGCGATAGTCCAAGT
96886 TCGCAATG
1 TCGCAATG
96894 TGATTTTTTT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
40 44 0.57
42 33 0.43
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.32
Consensus pattern (40 bp):
TCGCAATGCGATAGTCCAAGTTCGTTGCGATAGTCCAAGT
Found at i:97407 original size:21 final size:21
Alignment explanation
Indices: 97378--97533 Score: 212
Period size: 21 Copynumber: 7.6 Consensus size: 21
97368 TTTGGAATAA
* *
97378 ATCGTAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTGGACT
97399 ATCGCAA--CGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
97418 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
*
97439 ATCGTAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
* **
97460 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTGGACT
*
97479 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTGGACT
97500 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
*
97521 ATCGCAATGCGAA
1 ATCGCAACGCGAA
97534 TATGTAAATC
Statistics
Matches: 118, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
19 34 0.29
21 84 0.71
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (21 bp):
ATCGCAACGCGAACTTGGACT
Found at i:97439 original size:40 final size:41
Alignment explanation
Indices: 97378--97527 Score: 198
Period size: 40 Copynumber: 3.7 Consensus size: 41
97368 TTTGGAATAA
* *
97378 ATCGTAACGCGAACTTCGACTATCGCAA-CGAACTTGGACT
1 ATCGCAACGCGAACTTGGACTATCGCAACCGAACTTGGACT
*
97418 ATCGCAACGCGAACTTGGACTATCGTAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTGGACTATCGCAAC-CGAACTTGGACT
* ** *
97460 ATCGCAA--CGAATTTGGAAAATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTGGACTATCGCAAC-CGAACTTGGACT
97500 ATCGCAACGCGAACTTGGACTATCGCAA
1 ATCGCAACGCGAACTTGGACTATCGCAA
97528 TGCGAATATG
Statistics
Matches: 95, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
40 60 0.63
42 35 0.37
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (41 bp):
ATCGCAACGCGAACTTGGACTATCGCAACCGAACTTGGACT
Found at i:97448 original size:61 final size:61
Alignment explanation
Indices: 97378--97527 Score: 246
Period size: 61 Copynumber: 2.5 Consensus size: 61
97368 TTTGGAATAA
* ** *
97378 ATCGTAACGCGAACTTCGACTATCGCAACGAACTTGGACTATCGCAACGCGAACTTGGACT
1 ATCGTAACGCGAACTTGGACTATCGCAACGAACTTGGAAAATCGCAACGCGAACTTCGACT
*
97439 ATCGTAACGCGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
1 ATCGTAACGCGAACTTGGACTATCGCAACGAACTTGGAAAATCGCAACGCGAACTTCGACT
*
97500 ATCGCAACGCGAACTTGGACTATCGCAA
1 ATCGTAACGCGAACTTGGACTATCGCAA
97528 TGCGAATATG
Statistics
Matches: 83, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 83 1.00
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (61 bp):
ATCGTAACGCGAACTTGGACTATCGCAACGAACTTGGAAAATCGCAACGCGAACTTCGACT
Found at i:97576 original size:21 final size:21
Alignment explanation
Indices: 97550--97626 Score: 145
Period size: 21 Copynumber: 3.7 Consensus size: 21
97540 AATCGCAATG
97550 CGATAGTCGAAGTTTGCGTTA
1 CGATAGTCGAAGTTTGCGTTA
97571 CGATAGTCGAAGTTTGCGTTA
1 CGATAGTCGAAGTTTGCGTTA
*
97592 CGATAGTCGAAGTTTGCGTTG
1 CGATAGTCGAAGTTTGCGTTA
97613 CGATAGTCGAAGTT
1 CGATAGTCGAAGTT
97627 CGTGTTGCGA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 55 1.00
ACGTcount: A:0.23, C:0.14, G:0.30, T:0.32
Consensus pattern (21 bp):
CGATAGTCGAAGTTTGCGTTA
Found at i:97633 original size:21 final size:21
Alignment explanation
Indices: 97548--97636 Score: 142
Period size: 21 Copynumber: 4.2 Consensus size: 21
97538 TAAATCGCAA
97548 TGCGATAGTCGAAGTTTGCGT
1 TGCGATAGTCGAAGTTTGCGT
*
97569 TACGATAGTCGAAGTTTGCGT
1 TGCGATAGTCGAAGTTTGCGT
*
97590 TACGATAGTCGAAGTTTGCGT
1 TGCGATAGTCGAAGTTTGCGT
* *
97611 TGCGATAGTCGAAGTTCGTGT
1 TGCGATAGTCGAAGTTTGCGT
97632 TGCGA
1 TGCGA
97637 ATCTGGAAAC
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 64 1.00
ACGTcount: A:0.21, C:0.15, G:0.31, T:0.33
Consensus pattern (21 bp):
TGCGATAGTCGAAGTTTGCGT
Found at i:97795 original size:2 final size:2
Alignment explanation
Indices: 97784--98097 Score: 111
Period size: 2 Copynumber: 163.0 Consensus size: 2
97774 ATTTTCTCAT
97784 TA TA -A TA TA TA 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 TA TA TA TA TA TA
* * *
97825 -A GTT TA TA TA TA AA T- TA TA TA TA TA T- TA TA AA CTA TA TA -A
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
* * * * *
97865 T- TA T- TA TA -A GT- TA TA TA TA TA TA TA CA TA AA T- TT TG TT
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * ** * * *
97903 TA TA TA AA CTA TA TA TG TA TA -A GC TA TA AA AA GTA TA TA GTT
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA
* * *
97945 TA TA AA CTA TA -A TT TA TA T- TA -A TA TA GTA TA TA TA TA TA CA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
* * * *
97986 TA TA T- TA AA CTA TA TA -A AA TA TA TA GTT TA TA -A AA TA TA -A
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* *
98026 TT TA TA T- TA -A TA TA GTA TA TA TA TA TA TG TA TA TA TA -A CTA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA
*
98067 -A TA TA -A GTA -A TC TA TA T- TA TA TA TA TA TA TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
98098 GTTTATAGAA
Statistics
Matches: 232, Mismatches: 42, Indels: 76
0.66 0.12 0.22
Matches are distributed among these distances:
1 25 0.11
2 194 0.84
3 13 0.06
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (2 bp):
TA
Found at i:98059 original size:69 final size:70
Alignment explanation
Indices: 97915--98072 Score: 232
Period size: 69 Copynumber: 2.3 Consensus size: 70
97905 TATAAACTAT
* *
97915 ATATGTATAAGCTATA-AAAAGTATATAGTTTATAAACTATAATTTATATTAATATAGTATATAT
1 ATATATATAA-CTATATAAAAGTATATAGTTTATAAAATATAATTTATATTAATATAGTATATAT
97979 ATATAC
65 ATATAC
97985 ATATAT-TAAACTATATAAAA-TATATAGTTTATAAAATATAATTTATATTAATATAGTATATAT
1 ATATATAT-AACTATATAAAAGTATATAGTTTATAAAATATAATTTATATTAATATAGTATATAT
*
98048 ATATAT
65 ATATAC
*
98054 GTATATATAACTAATATAA
1 ATATATATAACT-ATATAA
98073 GTAATCTATA
Statistics
Matches: 80, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
69 62 0.77
70 18 0.22
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.42
Consensus pattern (70 bp):
ATATATATAACTATATAAAAGTATATAGTTTATAAAATATAATTTATATTAATATAGTATATATA
TATAC
Found at i:98111 original size:73 final size:69
Alignment explanation
Indices: 97977--98111 Score: 139
Period size: 73 Copynumber: 1.9 Consensus size: 69
97967 TATAGTATAT
**
97977 ATATATACATATATTAAACTATATAAAATATATAGTTTATAAAATATAATTTATATTAATATAGT
1 ATATATACATATATTAAACTATATAAAATATATAGTTTATAAAATATAATTTATAGAAATATAGT
98042 ATAT
66 ATAT
** * * *
98046 ATATATATGTATA-TATAACTAATATAAGTAATCTATA-TTATATATATATATAGTTTATAGAAA
1 ATATATACATATATTA-AACT-ATATAA--AATATATAGTT-TATA-AAATATAATTTATAGAAA
98109 TAT
60 TAT
98112 TATGCATAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
68 2 0.04
69 15 0.28
70 6 0.11
71 2 0.04
72 11 0.21
73 17 0.32
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.44
Consensus pattern (69 bp):
ATATATACATATATTAAACTATATAAAATATATAGTTTATAAAATATAATTTATAGAAATATAGT
ATAT
Found at i:98269 original size:20 final size:21
Alignment explanation
Indices: 98244--98291 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
98234 TATAGTACAT
98244 GTATATAAA-AAATATGTATA
1 GTATATAAACAAATATGTATA
*
98264 GTATATAAACTATATATGTATA
1 GTATATAAAC-AAATATGTATA
98286 -TATATA
1 GTATATA
98292 TATATAAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 9 0.36
21 6 0.24
22 10 0.40
ACGTcount: A:0.50, C:0.02, G:0.08, T:0.40
Consensus pattern (21 bp):
GTATATAAACAAATATGTATA
Found at i:98355 original size:7 final size:7
Alignment explanation
Indices: 98345--98383 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
98335 TCCTAAACCC
*
98345 TAAATAT
1 TAAATCT
*
98352 TAAACCT
1 TAAATCT
98359 TAAATCT
1 TAAATCT
98366 TAAATCT
1 TAAATCT
98373 TAAATCT
1 TAAATCT
98380 TAAA
1 TAAA
98384 CCCTAAACCC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (7 bp):
TAAATCT
Found at i:98355 original size:14 final size:14
Alignment explanation
Indices: 98332--98390 Score: 73
Period size: 14 Copynumber: 4.2 Consensus size: 14
98322 TAGTTTATAG
*
98332 AAATCCTAAACCCT
1 AAATCTTAAACCCT
* *
98346 AAATATTAAACCTT
1 AAATCTTAAACCCT
* *
98360 AAATCTTAAATCTT
1 AAATCTTAAACCCT
98374 AAATCTTAAACCCT
1 AAATCTTAAACCCT
98388 AAA
1 AAA
98391 CCCTAAACTA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 38 1.00
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (14 bp):
AAATCTTAAACCCT
Found at i:98397 original size:21 final size:21
Alignment explanation
Indices: 98332--98390 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
98322 TAGTTTATAG
* *
98332 AAATCCTAAACCCTAAATATT
1 AAATCTTAAACCCTAAATCTT
* * *
98353 AAACCTTAAATCTTAAATCTT
1 AAATCTTAAACCCTAAATCTT
98374 AAATCTTAAACCCTAAA
1 AAATCTTAAACCCTAAA
98391 CCCTAAACTA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (21 bp):
AAATCTTAAACCCTAAATCTT
Found at i:98574 original size:35 final size:36
Alignment explanation
Indices: 98504--98577 Score: 96
Period size: 37 Copynumber: 2.1 Consensus size: 36
98494 ACAATAGTTA
* *
98504 ATATATGTAACATATAGTATATGTATACATGTAAACT
1 ATATATGTAACATATAGTACATGTATA-ATATAAACT
* *
98541 ATATATGTAACTTATAGTACATGTAT-GTATAAACT
1 ATATATGTAACATATAGTACATGTATAATATAAACT
98576 AT
1 AT
98578 GTATAGTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 9 0.27
37 24 0.73
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (36 bp):
ATATATGTAACATATAGTACATGTATAATATAAACT
Found at i:98586 original size:20 final size:21
Alignment explanation
Indices: 98561--98667 Score: 109
Period size: 22 Copynumber: 5.2 Consensus size: 21
98551 CTTATAGTAC
*
98561 ATGTATGTATAAACTATGTAT
1 ATGTATATATAAACTATGTAT
98582 A-GTATATATAAACTA--TAT
1 ATGTATATATAAACTATGTAT
* *
98600 ATATATATATAACCTATAGTAT
1 ATGTATATATAAACTAT-GTAT
*
98622 ATGTATATATACAATCTATTTAT
1 ATGTATATATA-AA-CTATGTAT
98645 ATGT-TATATAAACTA--TAT
1 ATGTATATATAAACTATGTAT
98663 ATGTA
1 ATGTA
98668 ACCTATAGTT
Statistics
Matches: 73, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
18 11 0.15
19 12 0.16
20 16 0.22
21 3 0.04
22 19 0.26
23 8 0.11
24 4 0.05
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (21 bp):
ATGTATATATAAACTATGTAT
Found at i:98588 original size:63 final size:61
Alignment explanation
Indices: 98516--98676 Score: 163
Period size: 61 Copynumber: 2.7 Consensus size: 61
98506 ATATGTAACA
* * * *
98516 TATAGTATATGTATACATGTAAACTATATATGTAACTTATAGTACATGTATGTATAAACTATG
1 TATAGTATATGTATACATATAAACTATATATGTAACCTATAGTACATGTA--TATAAACAATC
* * * * * *
98579 TATAGTATATATAAAC-TATATA-TATATATATAACCTATAGTATATGTATATATACAATC
1 TATAGTATATGTATACATATAAACTATATATGTAACCTATAGTACATGTATATAAACAATC
*
98638 TAT-TTATATGT-T--ATATAAACTATATATGTAACCTATAGT
1 TATAGTATATGTATACATATAAACTATATATGTAACCTATAGT
98677 TTATAACAAT
Statistics
Matches: 81, Mismatches: 15, Indels: 10
0.76 0.14 0.09
Matches are distributed among these distances:
56 5 0.06
57 18 0.22
58 6 0.07
59 11 0.14
61 23 0.28
62 4 0.05
63 14 0.17
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.42
Consensus pattern (61 bp):
TATAGTATATGTATACATATAAACTATATATGTAACCTATAGTACATGTATATAAACAATC
Found at i:98626 original size:61 final size:63
Alignment explanation
Indices: 98540--98664 Score: 175
Period size: 61 Copynumber: 2.0 Consensus size: 63
98530 ACATGTAAAC
* * *
98540 TATATATGTAACTTATAGTACATGTATGTATA-AA-CTATGTATA-GTATATATAAACTATATA
1 TATATATATAACCTATAGTACATGTATATATACAATCTATGTATATGT-TATATAAACTATATA
* *
98601 TATATATATAACCTATAGTATATGTATATATACAATCTATTTATATGTTATATAAACTATATA
1 TATATATATAACCTATAGTACATGTATATATACAATCTATGTATATGTTATATAAACTATATA
98664 T
1 T
98665 GTAACCTATA
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
61 28 0.50
62 2 0.04
63 24 0.43
64 2 0.04
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.43
Consensus pattern (63 bp):
TATATATATAACCTATAGTACATGTATATATACAATCTATGTATATGTTATATAAACTATATA
Found at i:98640 original size:24 final size:22
Alignment explanation
Indices: 98553--98661 Score: 115
Period size: 20 Copynumber: 5.2 Consensus size: 22
98543 ATATGTAACT
* *
98553 TATAGTACATGTATGTATAAAC
1 TATAGTATATGTATATATAAAC
98575 TAT-GTATA-GTATATATAAAC
1 TATAGTATATGTATATATAAAC
*
98595 TATA-TATA--TATATATAACC
1 TATAGTATATGTATATATAAAC
98614 TATAGTATATGTATATATACAATC
1 TATAGTATATGTATATATA-AA-C
*
98638 TAT-TTATATGT-TATATAAAC
1 TATAGTATATGTATATATAAAC
98658 TATA
1 TATA
98662 TATGTAACCT
Statistics
Matches: 75, Mismatches: 5, Indels: 15
0.79 0.05 0.16
Matches are distributed among these distances:
19 14 0.19
20 26 0.35
21 6 0.08
22 17 0.23
23 8 0.11
24 4 0.05
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.42
Consensus pattern (22 bp):
TATAGTATATGTATATATAAAC
Found at i:98753 original size:20 final size:20
Alignment explanation
Indices: 98704--98755 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
98694 TAGTGTACTA
* *
98704 TATAGTTTA-CTTTATAATC
1 TATAGTTTATATTTATAAAC
* *
98723 TATACTATATATTTATAAAC
1 TATAGTTTATATTTATAAAC
98743 TATAGTTTATATT
1 TATAGTTTATATT
98756 AATGTTAATT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.52
Consensus pattern (20 bp):
TATAGTTTATATTTATAAAC
Found at i:98834 original size:87 final size:87
Alignment explanation
Indices: 98714--98906 Score: 241
Period size: 87 Copynumber: 2.2 Consensus size: 87
98704 TATAGTTTAC
* * * *
98714 TTTATAATCTATACTATATATTTATAAACTATAGTTTATATTAATGTTAATTATCT-TA-ACTGT
1 TTTATAAACTATACTATATATTTATAAAATATAGTTTATATTAATATTAATT-T-TATAGACTAT
98777 AATTTATATTAATATAATATATAG
64 AATTTATATTAATATAATATATAG
98801 TTTATAAACTA-ACTATATAATTTATAAAATATAGTTTATATTAATATTAATTTTATAGACTATA
1 TTTATAAACTATACTATAT-ATTTATAAAATATAGTTTATATTAATATTAATTTTATAGACTATA
* * *
98865 TTTTATATTAATATTAAT-TACAA
65 ATTTATATTAATA-TAATATATAG
* *
98888 ATTATAAACTATATTATAT
1 TTTATAAACTATACTATAT
98907 TAATATAAGT
Statistics
Matches: 92, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
85 1 0.01
86 10 0.11
87 71 0.77
88 10 0.11
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (87 bp):
TTTATAAACTATACTATATATTTATAAAATATAGTTTATATTAATATTAATTTTATAGACTATAA
TTTATATTAATATAATATATAG
Found at i:98870 original size:31 final size:31
Alignment explanation
Indices: 98789--98883 Score: 102
Period size: 31 Copynumber: 3.0 Consensus size: 31
98779 TTTATATTAA
* *
98789 TATAATATATAGTTTATAAACTAACTATATAA-TT
1 TATAAAATATAGTTTAT--ATTAA-TAT-TAATTT
98823 TATAAAATATAGTTTATATTAATATTAATTT
1 TATAAAATATAGTTTATATTAATATTAATTT
* * *
98854 TATAGACTATATTTTATATTAATATTAATT
1 TATAAAATATAGTTTATATTAATATTAATT
98884 ACAAATTATA
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
30 3 0.05
31 32 0.58
32 4 0.07
34 16 0.29
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (31 bp):
TATAAAATATAGTTTATATTAATATTAATTT
Found at i:98914 original size:87 final size:87
Alignment explanation
Indices: 98715--98963 Score: 212
Period size: 87 Copynumber: 2.9 Consensus size: 87
98705 ATAGTTTACT
* * * *
98715 TTATAATCTATACTATATATT--TATAAACTATAGTTTATATTAATGTTAATTATCTTAACTGTA
1 TTATAAACTATA-T-TATATTAATATAAAATATAGTTTATATTAATATTAATTATCTTAACTATA
* **
98778 ATTTATATTAATATAATATATAGT
64 ATTTATATTAATATAATATACAAA
*
98802 TTATAAACTA-ACTATA-TAATTTATAAAATATAGTTTATATTAATATTAATT-T-TATAGACTA
1 TTATAAACTATATTATATTAA--TATAAAATATAGTTTATATTAATATTAATTATCT-TA-ACTA
*
98863 TATTTTATATTAATATTAAT-TACAAA
62 TAATTTATATTAATA-TAATATACAAA
* * **
98889 TTATAAACTATATTATATTAATATAAGTTAATATTA-ATTATATAAATATTAATTATAAT-A-TA
1 TTATAAACTATATTATATTAATATAA---AATA-TAGTTTATATTAATATTAATTATCTTAACTA
98951 TAATTTATATTAA
62 TAATTTATATTAA
98964 GGGCGTGAAT
Statistics
Matches: 133, Mismatches: 14, Indels: 29
0.76 0.08 0.16
Matches are distributed among these distances:
83 1 0.01
84 4 0.03
85 1 0.01
86 4 0.03
87 72 0.54
88 23 0.17
89 4 0.03
90 20 0.15
91 4 0.03
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (87 bp):
TTATAAACTATATTATATTAATATAAAATATAGTTTATATTAATATTAATTATCTTAACTATAAT
TTATATTAATATAATATACAAA
Found at i:98936 original size:25 final size:28
Alignment explanation
Indices: 98900--98960 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 28
98890 TATAAACTAT
*
98900 ATTATATTAATA-TAAGT-TAATAT-TA
1 ATTATATAAATATTAAGTATAATATATA
*
98925 ATTATATAAATATTAATTATAATATATA
1 ATTATATAAATATTAAGTATAATATATA
98953 ATTTATAT
1 A-TTATAT
98961 TAAGGGCGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 11 0.37
26 4 0.13
27 6 0.20
28 3 0.10
29 6 0.20
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (28 bp):
ATTATATAAATATTAAGTATAATATATA
Found at i:99199 original size:23 final size:24
Alignment explanation
Indices: 99172--99225 Score: 101
Period size: 23 Copynumber: 2.3 Consensus size: 24
99162 ATTATTTTTC
99172 TTTACATAAATTAAACTATA-TAA
1 TTTACATAAATTAAACTATATTAA
99195 TTTACATAAATTAAACTATATTAA
1 TTTACATAAATTAAACTATATTAA
99219 TTTACAT
1 TTTACAT
99226 TTAATCATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 20 0.67
24 10 0.33
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (24 bp):
TTTACATAAATTAAACTATATTAA
Found at i:106401 original size:33 final size:34
Alignment explanation
Indices: 106345--106408 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
106335 TATACTGATG
**
106345 TTAATAAATATGATTTTATATTAATT-TATAAGA
1 TTAATAAATATGAAATTATATTAATTATATAAGA
106378 TTAATAAATAT-AAATTATGATTAATTATATA
1 TTAATAAATATGAAATTAT-ATTAATTATATA
106409 TTATATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 5 0.19
33 18 0.67
34 4 0.15
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (34 bp):
TTAATAAATATGAAATTATATTAATTATATAAGA
Found at i:106411 original size:17 final size:16
Alignment explanation
Indices: 106360--106417 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
106350 AAATATGATT
106360 TTATATTAATTTATAAGA
1 TTATATTAA-TTATAA-A
*
106378 TTA-A-TAAATATAAA
1 TTATATTAATTATAAA
*
106392 TTATGATTAATTATATA
1 TTAT-ATTAATTATAAA
106409 TTATATTAA
1 TTATATTAA
106418 ATATTATAGC
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
14 4 0.12
15 5 0.15
16 9 0.26
17 13 0.38
18 3 0.09
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
TTATATTAATTATAAA
Found at i:107843 original size:15 final size:16
Alignment explanation
Indices: 107820--107859 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
107810 AGTGGATGTC
*
107820 ATACCAAAATTAAT-T
1 ATACAAAAATTAATAT
107835 ATACAAAAATTAATAT
1 ATACAAAAATTAATAT
*
107851 ATATAAAAA
1 ATACAAAAA
107860 ATGATTATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.30
Consensus pattern (16 bp):
ATACAAAAATTAATAT
Found at i:109716 original size:110 final size:109
Alignment explanation
Indices: 109602--109834 Score: 349
Period size: 110 Copynumber: 2.1 Consensus size: 109
109592 TTAATTCAAG
* * *
109602 GAGTATATGACTCGAACAATCTTCAATAAACGGGTCCGCTCCCTATCTGTTCAGGGAGTACAGAA
1 GAGTATA-GACTCGAACAATCTTCAACAAACGGGTCCGCTCCCTATCTCTTCAGAGAGTACAGAA
109667 CTCGAACAATCTTCATAAAACGAGTCCGCTCTCCATTCCTTCAGA
65 CTCGAACAATCTTCATAAAACGAGTCCGCTCTCCATTCCTTCAGA
* * * *
109712 GAGTATAGAACTCGAACAATCTTCAACAAACGGGTTCGCTCTCTATTTCTTCAGAGAGTATAGAA
1 GAGTATAG-ACTCGAACAATCTTCAACAAACGGGTCCGCTCCCTATCTCTTCAGAGAGTACAGAA
* * *
109777 CTCGAACAATCTTCATAAAACGGGTCCGTTCTCTATTCCTTCAGA
65 CTCGAACAATCTTCATAAAACGAGTCCGCTCTCCATTCCTTCAGA
109822 GAGTATAGGACTC
1 GAGTATA-GACTC
109835 AATTTTCAAC
Statistics
Matches: 111, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
109 1 0.01
110 109 0.98
111 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (109 bp):
GAGTATAGACTCGAACAATCTTCAACAAACGGGTCCGCTCCCTATCTCTTCAGAGAGTACAGAAC
TCGAACAATCTTCATAAAACGAGTCCGCTCTCCATTCCTTCAGA
Found at i:109810 original size:55 final size:55
Alignment explanation
Indices: 109509--109834 Score: 308
Period size: 55 Copynumber: 5.9 Consensus size: 55
109499 AGACTTGAAA
* * * * *
109509 AATCTTCAA-ATAACGGGTCTGCTCCCTATTCTTTTA-AGGAGTATA-AGACTTGAAC
1 AATCTTCAACA-AACGGGTCCGCTCTCTATTCCTTCAGA-GAGTATAGA-ACTCGAAC
** * * * * **
109564 AATCTTCGGCAAATGTGTCTGCTCCCTATTAATTCA-AGGAGTATATG-ACTCGAAC
1 AATCTTCAACAAACGGGTCCGCTCTCTATTCCTTCAGA-GAGTATA-GAACTCGAAC
* * * * *
109619 AATCTTCAATAAACGGGTCCGCTCCCTA-TCTGTTCAGGGAGTACAGAACTCGAAC
1 AATCTTCAACAAACGGGTCCGCTCTCTATTC-CTTCAGAGAGTATAGAACTCGAAC
* *
109674 AATCTTCATA-AAACGAGTCCGCTCTCCATTCCTTCAGAGAGTATAGAACTCGAAC
1 AATCTTCA-ACAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAAC
* *
109729 AATCTTCAACAAACGGGTTCGCTCTCTATTTCTTCAGAGAGTATAGAACTCGAAC
1 AATCTTCAACAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAAC
* *
109784 AATCTTCATA-AAACGGGTCCGTTCTCTATTCCTTCAGAGAGTATAGGACTC
1 AATCTTCA-ACAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTC
109835 AATTTTCAAC
Statistics
Matches: 229, Mismatches: 32, Indels: 20
0.81 0.11 0.07
Matches are distributed among these distances:
54 3 0.01
55 221 0.97
56 5 0.02
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (55 bp):
AATCTTCAACAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAAC
Found at i:109885 original size:110 final size:107
Alignment explanation
Indices: 109617--109869 Score: 312
Period size: 110 Copynumber: 2.3 Consensus size: 107
109607 TATGACTCGA
* * * * * * *
109617 ACAATCTTCAATAAACGGGTCCGCTCCCTATCTGTTCAGGGAGTACAGAACTCGAACAATCTTCA
1 ACAATCTTCAACAAACGAGTTCGCTCACTATCTCTTCAGAGAGTATAGAACTCGAACAATCTTCA
109682 TAAAACGAGTCCGCTCTCCATTCCTTCAGAGAGTATAGAACT
66 TAAAACGAGTCCGCTCTCCATTCCTTCAGAGAGTATAGAACT
* * *
109724 CGAACAATCTTCAACAAACGGGTTCGCTCTCTATTTCTTCAGAGAGTATAGAACTCGAACAATCT
1 ---ACAATCTTCAACAAACGAGTTCGCTCACTATCTCTTCAGAGAGTATAGAACTCGAACAATCT
* * * *
109789 TCATAAAACGGGTCCGTTCTCTATTCCTTCAGAGAGTATAGGACT
63 TCATAAAACGAGTCCGCTCTCCATTCCTTCAGAGAGTATAGAACT
* *
109834 -CAATTTTCAACAAACGAGTTTGCTTCACTA-CTCTTC
1 ACAATCTTCAACAAACGAGTTCGC-TCACTATCTCTTC
109870 CATGAAGGCT
Statistics
Matches: 126, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
106 25 0.20
107 5 0.04
110 96 0.76
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (107 bp):
ACAATCTTCAACAAACGAGTTCGCTCACTATCTCTTCAGAGAGTATAGAACTCGAACAATCTTCA
TAAAACGAGTCCGCTCTCCATTCCTTCAGAGAGTATAGAACT
Found at i:110175 original size:17 final size:17
Alignment explanation
Indices: 110143--110177 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
110133 TATCTTCATC
110143 TCAATGCTTCAATATCT
1 TCAATGCTTCAATATCT
110160 TCAAT-CTTCAACTATCT
1 TCAATGCTTCAA-TATCT
110177 T
1 T
110178 TGGGAAACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.29, C:0.26, G:0.03, T:0.43
Consensus pattern (17 bp):
TCAATGCTTCAATATCT
Found at i:111174 original size:7 final size:7
Alignment explanation
Indices: 111162--111212 Score: 59
Period size: 7 Copynumber: 7.4 Consensus size: 7
111152 CCCCCTTTTA
111162 TTTTCTT
1 TTTTCTT
111169 TTTTCTT
1 TTTTCTT
*
111176 TTTTCAT
1 TTTTCTT
*
111183 TTTTC-A
1 TTTTCTT
**
111189 TTTTCCC
1 TTTTCTT
111196 TTTTCTT
1 TTTTCTT
111203 TTTTCTT
1 TTTTCTT
111210 TTT
1 TTT
111213 CAATTTTTCT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
6 5 0.13
7 33 0.87
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTTCTT
Found at i:111177 original size:6 final size:6
Alignment explanation
Indices: 111162--111319 Score: 56
Period size: 6 Copynumber: 24.8 Consensus size: 6
111152 CCCCCTTTTA
* *
111162 TTTTCTT TTTTCTT TTTTCAT TTTTCAT TTTCCC TTTTCTT TTTTCT TTTTCAAT
1 TTTTC-T TTTTC-T TTTTC-T TTTTC-T TTTTCT TTTTC-T TTTTCT TTTTC--T
* * * *
111217 TTTTC- -TTCCAT TTTCCCAT TTTTC- TTTT-T TTTCCT TTTCCT TTTTCACTT
1 TTTTCT TTTTC-T TTT-TC-T TTTTCT TTTTCT TTTTCT TTTTCT TTTT--C-T
* ** * *
111267 TTTTCT TTTTCA TTTTCT TCATCAT TTTTCA TTTTCT CTTT-T TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTC-T TTTTCT TTTTCT TTTTCT TTTTCT
111315 TTTTC
1 TTTTC
111320 CATTTTCATT
Statistics
Matches: 118, Mismatches: 19, Indels: 29
0.71 0.11 0.17
Matches are distributed among these distances:
4 3 0.03
5 11 0.09
6 48 0.41
7 37 0.31
8 14 0.12
9 5 0.04
ACGTcount: A:0.07, C:0.21, G:0.00, T:0.72
Consensus pattern (6 bp):
TTTTCT
Found at i:111295 original size:49 final size:52
Alignment explanation
Indices: 111242--111350 Score: 120
Period size: 49 Copynumber: 2.2 Consensus size: 52
111232 CCATTTTTCT
* * *
111242 TTTTTTTCCTTTTC-C-TTTTTCACTTTTTTCTTTTTCA-TTTTCTTCATCA
1 TTTTTTTCATTTTCTCTTTTTTCACTTTTTCCATTTTCATTTTTCTTCATCA
** *
111291 --TTTTTCATTTTCTCTTTTTTTTCTTTTTCCATTTTCATTTTTTTTCATCA
1 TTTTTTTCATTTTCTCTTTTTTCACTTTTTCCATTTTCATTTTTCTTCATCA
111341 TTTTTCTTCA
1 TTTTT-TTCA
111351 AGCAAAATAT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
47 11 0.23
48 1 0.02
49 18 0.38
50 11 0.23
52 3 0.06
53 4 0.08
ACGTcount: A:0.09, C:0.20, G:0.00, T:0.71
Consensus pattern (52 bp):
TTTTTTTCATTTTCTCTTTTTTCACTTTTTCCATTTTCATTTTTCTTCATCA
Found at i:111307 original size:64 final size:64
Alignment explanation
Indices: 111182--111350 Score: 199
Period size: 64 Copynumber: 2.7 Consensus size: 64
111172 TCTTTTTTCA
*
111182 TTTTTCATTTTCCCTTTT--CTTTTTTCTTTTTCAATTTTTCTTC-CATTTTCCCATTTTTCTTT
1 TTTTTCATTTTCCATTTTCACTTTTTTCTTTTTC-ATTTTTCTTCACATTTTCCCATTTTTCTTT
* * *
111244 TTTTTCCTTTTCCTTTTTCACTTTTTTCTTTTTCA-TTTTCTTCATCATTTT-TCATTTTCTCTT
1 TTTTTCATTTTCCATTTTCACTTTTTTCTTTTTCATTTTTCTTCA-CATTTTCCCATTTT-TCTT
111307 T
64 T
* **
111308 TTTTTCTTTTTCCATTTTCA-TTTTTT-TTCATCATTTTTCTTCA
1 TTTTTCATTTTCCATTTTCACTTTTTTCTTTTTCATTTTTCTTCA
111351 AGCAAAATAT
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
62 29 0.31
63 22 0.23
64 43 0.46
ACGTcount: A:0.09, C:0.21, G:0.00, T:0.70
Consensus pattern (64 bp):
TTTTTCATTTTCCATTTTCACTTTTTTCTTTTTCATTTTTCTTCACATTTTCCCATTTTTCTTT
Found at i:111323 original size:24 final size:22
Alignment explanation
Indices: 111167--111336 Score: 82
Period size: 27 Copynumber: 7.3 Consensus size: 22
111157 TTTTATTTTC
111167 TTTTTTCTTTTTTCATTTTTCATT
1 TTTTTTC-TTTTTCA-TTTTCATT
*
111191 TTCCCTTTTCTTTTTTCTTTTTCAATT
1 TT---TTTTC-TTTTTCATTTTC-ATT
* *
111218 TTTCTTCCATTTTCCCATTTTTC-TT
1 TTT-TTTC-TTTT-TCA-TTTTCATT
* * *
111243 TTTTTTCCTTTTCCTTTTTCA-C
1 TTTTTT-CTTTTTCATTTTCATT
111265 TTTTTTCTTTTTCATTTTC---
1 TTTTTTCTTTTTCATTTTCATT
** *
111284 -TTCATCATTTTTCATTTTCTCTT
1 TTTTTTC-TTTTTCATTTTC-ATT
111307 TTTTTTCTTTTTCCATTTTCATT
1 TTTTTTCTTTTT-CATTTTCATT
111330 TTTTTTC
1 TTTTTTC
111337 ATCATTTTTC
Statistics
Matches: 115, Mismatches: 15, Indels: 33
0.71 0.09 0.20
Matches are distributed among these distances:
18 4 0.03
19 12 0.10
21 11 0.10
22 11 0.10
23 16 0.14
24 20 0.17
25 13 0.11
26 6 0.05
27 22 0.19
ACGTcount: A:0.08, C:0.21, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTTTTCTTTTTCATTTTCATT
Found at i:111325 original size:17 final size:17
Alignment explanation
Indices: 111233--111319 Score: 53
Period size: 17 Copynumber: 5.4 Consensus size: 17
111223 TCCATTTTCC
111233 CATTTT-TCTTTTTTTT
1 CATTTTCTCTTTTTTTT
*
111249 CCTTTTC-C---TTTTT
1 CATTTTCTCTTTTTTTT
* *
111262 CACTTT-T-TTCTTTTT
1 CATTTTCTCTTTTTTTT
**
111277 CATTTTCTTCATCATTTTT
1 CATTTTC-TC-TTTTTTTT
111296 CATTTTCTCTTTTTTTT
1 CATTTTCTCTTTTTTTT
*
111313 CTTTTTC
1 CATTTTC
111320 CATTTTCATT
Statistics
Matches: 53, Mismatches: 9, Indels: 17
0.67 0.11 0.22
Matches are distributed among these distances:
13 9 0.17
15 10 0.19
16 6 0.11
17 13 0.25
18 2 0.04
19 13 0.25
ACGTcount: A:0.07, C:0.21, G:0.00, T:0.72
Consensus pattern (17 bp):
CATTTTCTCTTTTTTTT
Found at i:121023 original size:51 final size:47
Alignment explanation
Indices: 120975--121132 Score: 153
Period size: 45 Copynumber: 3.4 Consensus size: 47
120965 CCCCATGCTT
*
120975 TTTTATTCACAAAAAGAAATCCTATCCGCATGATATCTAATTCGCATGC
1 TTTTATTCA-AAAAAGAAA-CCTAACCGCATGATATCTAATTCGCATGC
* ** *
121024 --TTGTTCAAAAAATTAACCTAACCGCATGATATCTAGTTCGCATGC
1 TTTTATTCAAAAAAGAAACCTAACCGCATGATATCTAATTCGCATGC
* * * * *
121069 --TTGTTCGAAAAATAAACCTAACCGCATGATATCTAGTTCGCAAGC
1 TTTTATTCAAAAAAGAAACCTAACCGCATGATATCTAATTCGCATGC
* *
121114 ATTTATTCGAAAAACGAAA
1 TTTTATTC-AAAAAAGAAA
121133 ATAAATGACT
Statistics
Matches: 94, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
45 69 0.73
46 7 0.07
47 11 0.12
48 7 0.07
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.30
Consensus pattern (47 bp):
TTTTATTCAAAAAAGAAACCTAACCGCATGATATCTAATTCGCATGC
Found at i:121049 original size:45 final size:45
Alignment explanation
Indices: 120980--121110 Score: 199
Period size: 45 Copynumber: 2.9 Consensus size: 45
120970 TGCTTTTTTA
* * *
120980 TTCACAAAAAGAAATCCTATCCGCATGATATCTAATTCGCATGCTTG
1 TTCA-AAAAATAAA-CCTAACCGCATGATATCTAGTTCGCATGCTTG
*
121027 TTCAAAAAATTAACCTAACCGCATGATATCTAGTTCGCATGCTTG
1 TTCAAAAAATAAACCTAACCGCATGATATCTAGTTCGCATGCTTG
*
121072 TTCGAAAAATAAACCTAACCGCATGATATCTAGTTCGCA
1 TTCAAAAAATAAACCTAACCGCATGATATCTAGTTCGCA
121111 AGCATTTATT
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
45 67 0.86
46 7 0.09
47 4 0.05
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (45 bp):
TTCAAAAAATAAACCTAACCGCATGATATCTAGTTCGCATGCTTG
Found at i:122631 original size:15 final size:16
Alignment explanation
Indices: 122611--122645 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
122601 ATGTCATGCC
122611 AAAATTAAT-TATATA
1 AAAATTAATATATATA
122626 AAAATTAATATATATA
1 AAAATTAATATATATA
122642 AAAA
1 AAAA
122646 ATGATTATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAATTAATATATATA
Found at i:129064 original size:21 final size:19
Alignment explanation
Indices: 129022--129507 Score: 414
Period size: 21 Copynumber: 23.7 Consensus size: 19
129012 ACTATCGCAA
129022 TGCGATAGTCCAAGTTCGT
1 TGCGATAGTCCAAGTTCGT
* *
129041 TGCGACAGTCGAAGTTCGCGT
1 TGCGATAGTCCAAGTT--CGT
* *
129062 TGCGATTTATTCCAAATTCGT
1 TGCGA--TAGTCCAAGTTCGT
*
129083 TGCGATAGTCCAAGTTCGCAA
1 TGCGATAGTCCAAGTTCG--T
*
129104 TGCGATAGTGCAAGTTCGT
1 TGCGATAGTCCAAGTTCGT
*
129123 TGCGATAGTCCAAGTTCGCAA
1 TGCGATAGTCCAAGTTCG--T
*
129144 TGCGATAGTCCGAGTTCGT
1 TGCGATAGTCCAAGTTCGT
129163 TGCGATAGTCCAAGTTCACGT
1 TGCGATAGTCCAAGTT--CGT
129184 TGCGATAGTCCAAGTTCGT
1 TGCGATAGTCCAAGTTCGT
*
129203 TGCGATAGTCGAAGTTCGCGT
1 TGCGATAGTCCAAGTT--CGT
* *
129224 TGCGATTTATTCCAAATTCGT
1 TGCGA--TAGTCCAAGTTCGT
129245 TGCGATAGTCCAAGTTCGCGT
1 TGCGATAGTCCAAGTT--CGT
*
129266 TGCGATTTATTCCAAGTTCGT
1 TGCGA--TAGTCCAAGTTCGT
* *
129287 TGCGATAGTCGAAGTTTGTGT
1 TGCGATAGTCCAAG-TT-CGT
* *
129308 TGCGATTTATTCCAAATTCGT
1 TGCGA--TAGTCCAAGTTCGT
*
129329 TGCGATAGTCGAAGTTCGCGT
1 TGCGATAGTCCAAGTT--CGT
129350 TGCGATAGTCCAAGTTCGT
1 TGCGATAGTCCAAGTTCGT
*
129369 TGCGATAGTCGAAGTTCGCGT
1 TGCGATAGTCCAAGTT--CGT
* *
129390 TGCGATTTATTCCAAATTCGT
1 TGCGA--TAGTCCAAGTTCGT
*
129411 TGCGATAGTCGAAGTTCGCGT
1 TGCGATAGTCCAAGTT--CGT
* *
129432 TGCGATTTATTCCAAGTTCAT
1 TGCGA--TAGTCCAAGTTCGT
*
129453 TGCGATAGTCGAAGTTCGCAT
1 TGCGATAGTCCAAGTTCG--T
* *
129474 TGCGATTTATTCCAAATTCGT
1 TGCGA--TAGTCCAAGTTCGT
129495 TGCGATAGTCCAA
1 TGCGATAGTCCAA
129508 AATCGCAACG
Statistics
Matches: 380, Mismatches: 51, Indels: 72
0.76 0.10 0.14
Matches are distributed among these distances:
19 142 0.37
20 2 0.01
21 176 0.46
22 2 0.01
23 58 0.15
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (19 bp):
TGCGATAGTCCAAGTTCGT
Found at i:129386 original size:166 final size:166
Alignment explanation
Indices: 129022--129507 Score: 791
Period size: 166 Copynumber: 3.0 Consensus size: 166
129012 ACTATCGCAA
*
129022 TGCGATAGTCCAAGTTCGTTGCGACAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCG
1 TGCGATAGTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCG
** * * * *
129087 ATAGTCCAAGTTCGCAATGCGA--TAGTGCAAGTTCGTTGCGATAGTCCAAGTTCGCAATGCGA-
66 ATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCATTGCGAT
* * *
129149 -TAGTCCGAGTTCGTTGCGATAGTCCAAGTTCACGT
131 TTATTCCAAATTCGTTGCGATAGTCCAAGTTCACGT
129184 TGCGATAGTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCG
1 TGCGATAGTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCG
* **
129249 ATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTTGTGTTGCGAT
66 ATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCATTGCGAT
* *
129314 TTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGT
131 TTATTCCAAATTCGTTGCGATAGTCCAAGTTCACGT
129350 TGCGATAGTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCG
1 TGCGATAGTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCG
* *
129415 ATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCATTGCGATAGTCGAAGTTCGCATTGCGAT
66 ATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCATTGCGAT
129480 TTATTCCAAATTCGTTGCGATAGTCCAA
131 TTATTCCAAATTCGTTGCGATAGTCCAA
129508 AATCGCAACG
Statistics
Matches: 299, Mismatches: 21, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
162 84 0.28
164 33 0.11
166 182 0.61
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (166 bp):
TGCGATAGTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCG
ATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCATTGCGAT
TTATTCCAAATTCGTTGCGATAGTCCAAGTTCACGT
Found at i:129514 original size:42 final size:42
Alignment explanation
Indices: 129030--129504 Score: 669
Period size: 42 Copynumber: 11.5 Consensus size: 42
129020 AATGCGATAG
*
129030 TCCAAGTTCGTTGCGACAGTCGAAGTTCGCGTTGCGATTTAT
1 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTAT
* * ** *
129072 TCCAAATTCGTTGCGATAGTCCAAGTTCGCAATGCGA--TAG
1 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTAT
* * ** *
129112 TGCAAGTTCGTTGCGATAGTCCAAGTTCGCAATGCGA--TAG
1 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTAT
* * * *
129152 TCCGAGTTCGTTGCGATAGTCCAAGTTCACGTTGCGA--TAG
1 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTAT
129192 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTAT
1 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTAT
* *
129234 TCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTAT
1 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTAT
* *
129276 TCCAAGTTCGTTGCGATAGTCGAAGTTTGTGTTGCGATTTAT
1 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTAT
* *
129318 TCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGA--TAG
1 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTAT
129358 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTAT
1 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTAT
*
129400 TCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTAT
1 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTAT
* *
129442 TCCAAGTTCATTGCGATAGTCGAAGTTCGCATTGCGATTTAT
1 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTAT
*
129484 TCCAAATTCGTTGCGATAGTC
1 TCCAAGTTCGTTGCGATAGTC
129505 CAAAATCGCA
Statistics
Matches: 394, Mismatches: 35, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
40 147 0.37
42 247 0.63
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (42 bp):
TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTAT
Found at i:130423 original size:42 final size:41
Alignment explanation
Indices: 130364--130503 Score: 237
Period size: 42 Copynumber: 3.4 Consensus size: 41
130354 CGTTGTGATT
*
130364 TTGGACTATCGCAACGAATTTGGAATAAATCGCAATGCGAAC
1 TTGGACTATCGCAACGAATTTGG-ATAAATCGCAACGCGAAC
130406 TTGGACTATCGCAACGAATTTGTGATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTG-GATAAATCGCAACGCGAAC
130448 TTGGACTATCGCAACGAATTTGGA-AAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGATAAATCGCAACGCGAAC
*
130488 TTCGACTATCGCAACG
1 TTGGACTATCGCAACG
130504 CGAACTTGGA
Statistics
Matches: 95, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
40 31 0.33
41 2 0.02
42 61 0.64
43 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (41 bp):
TTGGACTATCGCAACGAATTTGGATAAATCGCAACGCGAAC
Found at i:130498 original size:21 final size:21
Alignment explanation
Indices: 130364--130528 Score: 146
Period size: 21 Copynumber: 8.0 Consensus size: 21
130354 CGTTGTGATT
*
130364 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
* *
130383 TTGGAATAAATCGCAATGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
*
130406 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
130425 TTGTGA-TAAATCGCAACGCGAAC
1 TTG-GACT--ATCGCAACGCGAAC
*
130448 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
**
130467 TTGGAAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGCGAAC
*
130488 TTCGACTATCGCAACGCGAAC
1 TTGGACTATCGCAACGCGAAC
* *
130509 TTGGAATATCGCAATGCGAA
1 TTGGACTATCGCAACGCGAA
130529 TATGTAAATC
Statistics
Matches: 119, Mismatches: 15, Indels: 22
0.76 0.10 0.14
Matches are distributed among these distances:
19 30 0.25
20 2 0.02
21 67 0.56
22 2 0.02
23 18 0.15
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (21 bp):
TTGGACTATCGCAACGCGAAC
Found at i:130528 original size:42 final size:40
Alignment explanation
Indices: 130364--130528 Score: 231
Period size: 42 Copynumber: 4.0 Consensus size: 40
130354 CGTTGTGATT
*
130364 TTGGACTATCGCAACGAATTTGGAATAAATCGCAATGCGAAC
1 TTGGACTATCGCAACGAATTTGG-A-AAATCGCAACGCGAAC
130406 TTGGACTATCGCAACGAATTTGTGATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTG-GA-AAATCGCAACGCGAAC
130448 TTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAAC
* * * *
130488 TTCGACTATCGCAACGCGAACTTGGAATATCGCAATGCGAA
1 TTGGACTATCGCAA--CGAATTTGGAAAATCGCAACGCGAA
130529 TATGTAAATC
Statistics
Matches: 115, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
40 29 0.25
41 2 0.02
42 83 0.72
43 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (40 bp):
TTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAAC
Found at i:130727 original size:2 final size:2
Alignment explanation
Indices: 130716--131020 Score: 75
Period size: 2 Copynumber: 159.0 Consensus size: 2
130706 ATTTTCTCAT
*
130716 TA TA -A TA TA TA TA TA TA TA TA TA TA TA -A TA TA -A GTT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * *
130756 TA TA AA T- TA TA TT TA TA T- TA TA AA CTA TA TA -A T- TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
** * * * * * *
130794 TA -A GC TA TA TA TA TA CA TA AA T- TT TG TT TA TA TA AA CTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* ** * * * *
130835 TA TG TA TA -A GC TA TA AA AA GTA TA TA GTT TA TA AA CTA TA -A
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA -TA TA TA
*
130876 TT TA TA T- TA -A TA TA GTA TA TA TA TA TA TA TA TA TA TA TA T-
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
130916 TA AA CTA TA TA AA TA TA TA GTT TA TA -A AA TA TA -A TT TA TA T-
1 TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* *
130957 TA -A TA TA GTA TA TA TA TG TA TG TA TA -A CTA -A TA TA -A GTA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA
*
130996 -A TC TA TA T- TA TA T- TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
131021 GTTTATAGAA
Statistics
Matches: 218, Mismatches: 48, Indels: 74
0.64 0.14 0.22
Matches are distributed among these distances:
1 25 0.11
2 180 0.83
3 13 0.06
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (2 bp):
TA
Found at i:130940 original size:74 final size:74
Alignment explanation
Indices: 130822--130982 Score: 234
Period size: 74 Copynumber: 2.2 Consensus size: 74
130812 AAATTTTGTT
* * * *
130822 TATATAAACTATATATGTATAAGCTATAAAAAGTATATAGTTTATAAACTATAATTTATATTAAT
1 TATATATA-TATATATATATAAACTATAAAAAGTATATAGTTTATAAAATATAATTTATATTAAT
130887 ATAGTATATA
65 ATAGTATATA
*
130897 TATATATATATATATATATTAAACTATATAAA-TATATAGTTTATAAAATATAATTTATATTAAT
1 TATATATATATATATATA-TAAACTATAAAAAGTATATAGTTTATAAAATATAATTTATATTAAT
130961 ATAGTATATA
65 ATAGTATATA
* *
130971 TATGTATGTATA
1 TATATATATATA
130983 ACTAATATAA
Statistics
Matches: 78, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
74 60 0.77
75 18 0.23
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (74 bp):
TATATATATATATATATATAAACTATAAAAAGTATATAGTTTATAAAATATAATTTATATTAATA
TAGTATATA
Found at i:131185 original size:20 final size:19
Alignment explanation
Indices: 131158--131205 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
131148 CTTATACTAC
*
131158 ATGTATATAAAAAATATGT
1 ATGTATATAAAAAATATAT
* *
131177 ATAGTATATATAAACTATAT
1 AT-GTATATAAAAAATATAT
131197 ATGTATATA
1 ATGTATATA
131206 TATATATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.50, C:0.02, G:0.08, T:0.40
Consensus pattern (19 bp):
ATGTATATAAAAAATATAT
Found at i:131230 original size:2 final size:2
Alignment explanation
Indices: 131171--131221 Score: 57
Period size: 2 Copynumber: 24.5 Consensus size: 2
131161 TATATAAAAA
* * *
131171 AT AT GT AT AGT AT AT AT AA ACT AT AT AT GT AT AT AT AT AT AT AT
1 AT AT AT AT A-T AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT
131215 AT AT AT A
1 AT AT AT A
131222 AACTATATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 38 0.93
3 3 0.07
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (2 bp):
AT
Done.