Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008691.1 Hibiscus syriacus cultivar Beakdansim tig00111719_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: 175273
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
File 1 of 2
Found at i:745 original size:20 final size:20
Alignment explanation
Indices: 720--777 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
710 ATTCATTTGA
720 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
740 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
*
760 CTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
778 CGCAATGCGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:837 original size:19 final size:19
Alignment explanation
Indices: 796--863 Score: 83
Period size: 19 Copynumber: 3.8 Consensus size: 19
786 GAAATGAAAA
796 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
*
812 TCG--TTGCGATTTTTATT
1 TCGCATTGCGATTTTCATT
829 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
848 TCGCATTACGATTTTC
1 TCGCATTGCGATTTTC
864 TCGTTGCGAT
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
14 10 0.23
16 3 0.07
17 3 0.07
19 28 0.64
ACGTcount: A:0.15, C:0.21, G:0.16, T:0.49
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:999 original size:14 final size:14
Alignment explanation
Indices: 980--1016 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
970 CATCAATTAA
980 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
994 ACAAATCATCTTTT
1 ACAAATCAACATTT
1008 ACAAATCAA
1 ACAAATCAA
1017 TTAAACATCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:2897 original size:19 final size:19
Alignment explanation
Indices: 2872--2957 Score: 120
Period size: 19 Copynumber: 4.5 Consensus size: 19
2862 CGAAACTTAA
2872 AATCGCAACGCGAAATGAC
1 AATCGCAACGCGAAATGAC
*
2891 TATCGCAACGCAGAAATGAC
1 AATCGCAACGC-GAAATGAC
* * *
2911 TATCGCAATGCGAAATGAA
1 AATCGCAACGCGAAATGAC
2930 AATCGCAACGCGAAATGA-
1 AATCGCAACGCGAAATGAC
2948 AATCGCAACG
1 AATCGCAACG
2958 ACAAATCGCA
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
18 10 0.16
19 33 0.54
20 18 0.30
ACGTcount: A:0.42, C:0.23, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAC
Found at i:2897 original size:39 final size:38
Alignment explanation
Indices: 2854--2957 Score: 111
Period size: 39 Copynumber: 2.7 Consensus size: 38
2844 TAGTTTACTT
* **
2854 TCGCAACACGAAACTTAAAATCGCAACGCGAAATGACTA
1 TCGCAACGCGAAA-TTAAAATCGCAACGCGAAATGAAAA
* ** *
2893 TCGCAACGCAGAAATGACTATCGCAATGCGAAATGAAAA
1 TCGCAACGC-GAAATTAAAATCGCAACGCGAAATGAAAA
*
2932 TCGCAACGCGAAA-TGAAATCGCAACG
1 TCGCAACGCGAAATTAAAATCGCAACG
2958 ACAAATCGCA
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
37 8 0.15
38 4 0.08
39 36 0.69
40 4 0.08
ACGTcount: A:0.42, C:0.24, G:0.19, T:0.14
Consensus pattern (38 bp):
TCGCAACGCGAAATTAAAATCGCAACGCGAAATGAAAA
Found at i:3023 original size:14 final size:14
Alignment explanation
Indices: 3004--3061 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
2994 TTTCATTTCG
3004 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
3018 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
3034 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
*
3050 CGTTGCAATTTT
1 CGTTGCGATTTT
3062 CATTTCGCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 20 0.54
16 8 0.22
18 9 0.24
ACGTcount: A:0.12, C:0.17, G:0.22, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:3068 original size:33 final size:33
Alignment explanation
Indices: 2987--3077 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
2977 ACAAATCGCA
*
2987 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
3020 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
3052 TTGCAATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
3078 AGCCATTTCC
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 30 0.55
33 25 0.45
ACGTcount: A:0.13, C:0.19, G:0.21, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:3096 original size:20 final size:19
Alignment explanation
Indices: 3062--3116 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
3052 TTGCAATTTT
*
3062 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
3081 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
3101 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
3117 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:3621 original size:18 final size:18
Alignment explanation
Indices: 3595--3639 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
3585 GTCGATCAGA
*
3595 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
3613 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
3631 TGATGGCTC
1 TGATGGCTC
3640 CCGAAGTGGA
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:4978 original size:20 final size:20
Alignment explanation
Indices: 4953--4995 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
4943 AATAGTTTCT
4953 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
*
4973 GAAAATGAAAATCGCAACGC
1 GAAAATGAAAATCGCAACAC
4993 GAA
1 GAA
4996 TTCGACTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.53, C:0.19, G:0.19, T:0.09
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:5295 original size:22 final size:22
Alignment explanation
Indices: 5268--5311 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
5258 AGATGGAGAT
5268 AGACGGATTTCGCCGGAGATGG
1 AGACGGATTTCGCCGGAGATGG
*
5290 AGACGGATTTCGTCGGAGATGG
1 AGACGGATTTCGCCGGAGATGG
5312 GTGAGAGAGT
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:0.23, C:0.16, G:0.41, T:0.20
Consensus pattern (22 bp):
AGACGGATTTCGCCGGAGATGG
Found at i:5524 original size:20 final size:20
Alignment explanation
Indices: 5498--5570 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
5488 GATTATGTAT
5498 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
5518 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
5538 TATCGCGGTT-CGAAAGTAAG
1 TATCGC-GTTGCGAAAGTCAG
*
5558 TATCTCGTTGCGA
1 TATCGCGTTGCGA
5571 TTTTTTATTA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
19 3 0.06
20 41 0.87
21 3 0.06
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:5589 original size:21 final size:19
Alignment explanation
Indices: 5565--5652 Score: 77
Period size: 20 Copynumber: 4.3 Consensus size: 19
5555 AAGTATCTCG
5565 TTGCGATTTTTTATTATCGCA
1 TTGCGATTTTTTA-T-TCGCA
*
5586 TTGCGATTTACTTATTCGCA
1 TTGCGATTT-TTTATTCGCA
** *
5606 TTGCGATTTTCCCAATTCGCG
1 TTGCGATTTT--TTATTCGCA
*
5627 TTGCGATTTACTTATTCGCA
1 TTGCGATTT-TTTATTCGCA
5647 TTGCGA
1 TTGCGA
5653 ATTGGGAAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
20 26 0.48
21 25 0.46
22 3 0.06
ACGTcount: A:0.18, C:0.20, G:0.17, T:0.44
Consensus pattern (19 bp):
TTGCGATTTTTTATTCGCA
Found at i:5606 original size:20 final size:20
Alignment explanation
Indices: 5581--5652 Score: 99
Period size: 20 Copynumber: 3.5 Consensus size: 20
5571 TTTTTTATTA
5581 TCGCATTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
5601 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
5622 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
5642 TCGCATTGCGA
1 TCGCATTGCGA
5653 ATTGGGAAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 27 0.63
21 16 0.37
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:11275 original size:20 final size:20
Alignment explanation
Indices: 11250--11292 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
11240 TAGTTGAAAA
11250 TCGCGTTACGATTTTCCATT
1 TCGCGTTACGATTTTCCATT
11270 TCGCGTTACGATTTTCCATT
1 TCGCGTTACGATTTTCCATT
11290 TCG
1 TCG
11293 AGTTGCGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.14, C:0.26, G:0.16, T:0.44
Consensus pattern (20 bp):
TCGCGTTACGATTTTCCATT
Found at i:11301 original size:20 final size:20
Alignment explanation
Indices: 11254--11301 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
11244 TGAAAATCGC
*
11254 GTTACGATTTTCCATTTCGC
1 GTTACGATTTTCCATTTCGA
11274 GTTACGATTTTCCATTTCGA
1 GTTACGATTTTCCATTTCGA
*
11294 GTTGCGAT
1 GTTACGAT
11302 AGTCCAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.17, C:0.21, G:0.19, T:0.44
Consensus pattern (20 bp):
GTTACGATTTTCCATTTCGA
Found at i:11307 original size:20 final size:20
Alignment explanation
Indices: 11254--11307 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 20
11244 TGAAAATCGC
** *
11254 GTTACGATTTTCCATTTCGC
1 GTTACGATAGTCCATTTCGA
**
11274 GTTACGATTTTCCATTTCGA
1 GTTACGATAGTCCATTTCGA
*
11294 GTTGCGATAGTCCA
1 GTTACGATAGTCCA
11308 AGTTGTCGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.41
Consensus pattern (20 bp):
GTTACGATAGTCCATTTCGA
Found at i:12478 original size:43 final size:41
Alignment explanation
Indices: 12414--12522 Score: 164
Period size: 43 Copynumber: 2.6 Consensus size: 41
12404 TTAACAATCA
12414 CAACGAATTTGGAAAATCGCAACGACAACTGTAGACTATCG
1 CAACGAATTTGGAAAATCGCAACGACAACTGTAGACTATCG
* * * *
12455 CAATGAATTTGTAAACTATCGCAACAACAATTGTAGACTATCG
1 CAACGAATTTGGAAA--ATCGCAACGACAACTGTAGACTATCG
12498 CAACGAATTTGGAAAATCGCAACGA
1 CAACGAATTTGGAAAATCGCAACGA
12523 ATTTGGAAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
41 22 0.37
43 37 0.63
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.22
Consensus pattern (41 bp):
CAACGAATTTGGAAAATCGCAACGACAACTGTAGACTATCG
Found at i:12516 original size:19 final size:19
Alignment explanation
Indices: 12494--12541 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
12484 ATTGTAGACT
12494 ATCGCAACGAATTTGGAAA
1 ATCGCAACGAATTTGGAAA
12513 ATCGCAACGAATTTGGAAA
1 ATCGCAACGAATTTGGAAA
12532 ATCGCAACGA
1 ATCGCAACGA
12542 CAACTGTAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.19
Consensus pattern (19 bp):
ATCGCAACGAATTTGGAAA
Found at i:12551 original size:60 final size:62
Alignment explanation
Indices: 12451--12582 Score: 178
Period size: 60 Copynumber: 2.1 Consensus size: 62
12441 ACTGTAGACT
* * * ** *
12451 ATCGCAATGAATTTGTAAACTATCGCAACAACAATTGTAGACTATCGCAACG-AATTTGGAAA
1 ATCGCAACGAATTTGGAAAC-ATCGCAACAACAACTGTAGACTATCGCAACGCAAAATAGAAA
*
12513 ATCGCAACGAATTTGGAAA-ATCGCAACGACAACTGTAGACTATCGCAACGCAAAATAGAAA
1 ATCGCAACGAATTTGGAAACATCGCAACAACAACTGTAGACTATCGCAACGCAAAATAGAAA
12574 ATCGCAACG
1 ATCGCAACG
12583 CGATTTTCAA
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
60 29 0.47
61 16 0.26
62 17 0.27
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.20
Consensus pattern (62 bp):
ATCGCAACGAATTTGGAAACATCGCAACAACAACTGTAGACTATCGCAACGCAAAATAGAAA
Found at i:12577 original size:20 final size:20
Alignment explanation
Indices: 12494--12583 Score: 76
Period size: 19 Copynumber: 4.5 Consensus size: 20
12484 ATTGTAGACT
* *
12494 ATCGCAACG-AATTTGGAAA
1 ATCGCAACGCAATATAGAAA
* *
12513 ATCGCAACG-AATTTGGAAA
1 ATCGCAACGCAATATAGAAA
* **
12532 ATCGCAACGACAACTGTAGACT
1 ATCGCAACG-CAA-TATAGAAA
*
12554 ATCGCAACGCAAAATAGAAA
1 ATCGCAACGCAATATAGAAA
12574 ATCGCAACGC
1 ATCGCAACGC
12584 GATTTTCAAC
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
19 28 0.47
20 14 0.23
21 5 0.08
22 13 0.22
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCAATATAGAAA
Found at i:12596 original size:41 final size:41
Alignment explanation
Indices: 12551--12667 Score: 207
Period size: 41 Copynumber: 2.9 Consensus size: 41
12541 ACAACTGTAG
* *
12551 ACTATCGCAACGCAAAATAGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
*
12592 ACTATCGCAACGTGAAATGGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
12633 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGA
12668 ATTTGCGATA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 72 1.00
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.18
Consensus pattern (41 bp):
ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
Found at i:12600 original size:21 final size:21
Alignment explanation
Indices: 12574--12647 Score: 87
Period size: 21 Copynumber: 3.6 Consensus size: 21
12564 AAAATAGAAA
12574 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
* ** ** *
12595 ATCGCAACGTGAAATGGAA-A
1 ATCGCAACGCGATTTTCAACT
12615 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
12636 ATCGCAACGCGA
1 ATCGCAACGCGA
12648 AATGGAAAAT
Statistics
Matches: 40, Mismatches: 12, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
20 14 0.35
21 26 0.65
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.22
Consensus pattern (21 bp):
ATCGCAACGCGATTTTCAACT
Found at i:12620 original size:20 final size:20
Alignment explanation
Indices: 12507--12668 Score: 96
Period size: 20 Copynumber: 8.0 Consensus size: 20
12497 GCAACGAATT
*
12507 TGGAAAATCGCAA--CGAATT
1 TGGAAAATCGCAACGCGAA-A
*
12526 TGGAAAATCGCAACGAC-AAC
1 TGGAAAATCGCAACG-CGAAA
** *
12546 TGTAGACTATCGCAACGCAAAA
1 TG--GAAAATCGCAACGCGAAA
* **
12568 TAGAAAATCGCAACGCGATT
1 TGGAAAATCGCAACGCGAAA
** * *
12588 TTCAACTATCGCAACGTGAAA
1 TGGAA-AATCGCAACGCGAAA
**
12609 TGGAAAATCGCAACGCGATT
1 TGGAAAATCGCAACGCGAAA
** *
12629 TTCAACTATCGCAACGCGAAA
1 TGGAA-AATCGCAACGCGAAA
12650 TGGAAAATCGCAACGCGAA
1 TGGAAAATCGCAACGCGAA
12669 TTTGCGATAG
Statistics
Matches: 105, Mismatches: 30, Indels: 15
0.70 0.20 0.10
Matches are distributed among these distances:
19 13 0.12
20 45 0.43
21 32 0.30
22 15 0.14
ACGTcount: A:0.40, C:0.22, G:0.20, T:0.18
Consensus pattern (20 bp):
TGGAAAATCGCAACGCGAAA
Found at i:13246 original size:3 final size:3
Alignment explanation
Indices: 13238--13268 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
13228 AAAATCAAAG
13238 AGA AGA AGA AGA AGA AGA AGA AGA ATGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA A-GA AGA
13269 TTTACCAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.65, C:0.00, G:0.32, T:0.03
Consensus pattern (3 bp):
AGA
Found at i:15647 original size:32 final size:32
Alignment explanation
Indices: 15606--15700 Score: 129
Period size: 32 Copynumber: 3.0 Consensus size: 32
15596 GTGAAAAAAC
*
15606 TTTTT-AGTGATATATCACTTAATTTTAGAAA
1 TTTTTCAGTGATATATCACTTCATTTTAGAAA
* * *
15637 TTTTTCAGTGATATATAATTTCATTTCAGAAA
1 TTTTTCAGTGATATATCACTTCATTTTAGAAA
* *
15669 CTTTTCAGTGATATATCACGTCATTTTAGAAA
1 TTTTTCAGTGATATATCACTTCATTTTAGAAA
15701 AATATTCTTT
Statistics
Matches: 54, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
31 5 0.09
32 49 0.91
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.45
Consensus pattern (32 bp):
TTTTTCAGTGATATATCACTTCATTTTAGAAA
Found at i:15814 original size:140 final size:140
Alignment explanation
Indices: 15619--16085 Score: 527
Period size: 140 Copynumber: 3.3 Consensus size: 140
15609 TTAGTGATAT
* * *
15619 ATCACTTAATTTTAGAAA-TTTTTCAGTGATATATAATTTCATTTCAGAAACTTTTCAGTGATAT
1 ATCACTTAATTTCAGAAACTTTTTCAGTGATATATAACTTCATTTCAGAAAATTTTCAGTGATAT
* * * * * *
15683 ATCACGTCATTTTAGAAAAATATTCTTTTCTCATATACCATTTAATTCACAATGATAGAAACTTT
66 ATCACTTCATTTTAGAAAAATATTCTTTTCTCATACATCATTTAATACACAATGACAAAAACTTT
15748 TCAGA-GCCCA
131 TCA-ATGCCCA
* * * * * *
15758 ATTACTTCATTTCAGAAACTTTTTGAGTGATATACAACTTCTTTTTAGAAAATTTTCAGTGATAT
1 ATCACTTAATTTCAGAAACTTTTTCAGTGATATATAACTTCATTTCAGAAAATTTTCAGTGATAT
* * *
15823 ATCACTTCATTTTAGAAAAAAAAAATCATTTTCTTATACATCATTTAATACACAATGACAAAAAC
66 ATCACTTCATTTTAG--AAAAATATTC-TTTTCTCATACATCATTTAATACACAATGACAAAAAC
15888 TTTTCAATGCCCA
128 TTTTCAATGCCCA
* * * * *
15901 ATCACTTTACTTCAAAAAC-TTTTCAGTGATATATAACTTAATTTCATAAACATTTT-AGTGATA
1 ATCACTTAATTTCAGAAACTTTTTCAGTGATATATAACTTCATTTCAGAAA-ATTTTCAGTGATA
* * * *
15964 TATCACTTCATTTTAGAAAAATGTCCCTTTTCTCATACATAATTTAATACACAATGACAAACA-T
65 TATCACTTCATTTTAGAAAAATAT-TCTTTTCTCATACATCATTTAATACACAATGACAAAAACT
* *
16028 TTTTAGTG-CCA
129 TTTCAATGCCCA
* * *
16039 ATCACTTCACTTT-ATAAAC-TTTTCAGTGATATATCACTTCATTTCAG
1 ATCACTT-AATTTCAGAAACTTTTTCAGTGATATATAACTTCATTTCAG
16086 TGTTATATCA
Statistics
Matches: 276, Mismatches: 44, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
138 40 0.14
139 24 0.09
140 92 0.33
141 1 0.00
142 57 0.21
143 62 0.22
ACGTcount: A:0.36, C:0.17, G:0.07, T:0.40
Consensus pattern (140 bp):
ATCACTTAATTTCAGAAACTTTTTCAGTGATATATAACTTCATTTCAGAAAATTTTCAGTGATAT
ATCACTTCATTTTAGAAAAATATTCTTTTCTCATACATCATTTAATACACAATGACAAAAACTTT
TCAATGCCCA
Found at i:15830 original size:32 final size:32
Alignment explanation
Indices: 15761--15841 Score: 101
Period size: 32 Copynumber: 2.5 Consensus size: 32
15751 GAGCCCAATT
* * *
15761 ACTTCATTTCAGAAACTTTTTGAGTGATATACA
1 ACTTCATTTTAGAAA-ATTTTCAGTGATATACA
*
15794 ACTTCTTTTTAGAAAATTTTCAGTGATATATC-
1 ACTTCATTTTAGAAAATTTTCAGTGATATA-CA
15826 ACTTCATTTTAGAAAA
1 ACTTCATTTTAGAAAA
15842 AAAAAATCAT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
32 28 0.67
33 14 0.33
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.42
Consensus pattern (32 bp):
ACTTCATTTTAGAAAATTTTCAGTGATATACA
Found at i:15966 original size:32 final size:32
Alignment explanation
Indices: 15911--15976 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
15901 ATCACTTTAC
15911 TTCAAAAACTTTTCAGTGATATATAACTTAAT
1 TTCAAAAACTTTTCAGTGATATATAACTTAAT
* * *
15943 TTCATAAACATTTT-AGTGATATATCACTTCAT
1 TTCAAAAAC-TTTTCAGTGATATATAACTTAAT
15975 TT
1 TT
15977 TAGAAAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
32 26 0.87
33 4 0.13
ACGTcount: A:0.36, C:0.14, G:0.06, T:0.44
Consensus pattern (32 bp):
TTCAAAAACTTTTCAGTGATATATAACTTAAT
Found at i:23685 original size:19 final size:19
Alignment explanation
Indices: 23661--23697 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
23651 CAATCCTAAC
23661 AATTAGGCTATAATTTAGT
1 AATTAGGCTATAATTTAGT
23680 AATTAGGCTATAATTTAG
1 AATTAGGCTATAATTTAG
23698 GCAACTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.41
Consensus pattern (19 bp):
AATTAGGCTATAATTTAGT
Found at i:26424 original size:17 final size:17
Alignment explanation
Indices: 26399--26439 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
26389 ATGGTTTTCA
* *
26399 GAACTGGATCGGTCAGC
1 GAACCGGATCGGTCAAC
*
26416 GAACCGGATCGGTGAAC
1 GAACCGGATCGGTCAAC
26433 GAACCGG
1 GAACCGG
26440 CCGTGCTACC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.27, C:0.24, G:0.37, T:0.12
Consensus pattern (17 bp):
GAACCGGATCGGTCAAC
Found at i:27434 original size:62 final size:62
Alignment explanation
Indices: 27332--27458 Score: 245
Period size: 62 Copynumber: 2.0 Consensus size: 62
27322 GCTTTCTCCA
*
27332 ACCAACCATGCATACTCTGTATAGTATAATGGAGGTCGCATTTATAAGGCCAAAAAAATAGC
1 ACCAACCATGCATACTCTGTATAGTATAATGGAGGCCGCATTTATAAGGCCAAAAAAATAGC
27394 ACCAACCATGCATACTCTGTATAGTATAATGGAGGCCGCATTTATAAGGCCAAAAAAATAGC
1 ACCAACCATGCATACTCTGTATAGTATAATGGAGGCCGCATTTATAAGGCCAAAAAAATAGC
27456 ACC
1 ACC
27459 CTACATACAG
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 64 1.00
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (62 bp):
ACCAACCATGCATACTCTGTATAGTATAATGGAGGCCGCATTTATAAGGCCAAAAAAATAGC
Found at i:27616 original size:237 final size:228
Alignment explanation
Indices: 27166--27633 Score: 801
Period size: 237 Copynumber: 2.0 Consensus size: 228
27156 GCTTTCTTCA
27166 ACCAACCATGCATACTCTATATAGTATAATGGAGGCCGCATTTATAAGGCCAAAAAAATAGCACC
1 ACCAACCATGCATACTCTATATAGTATAATGGAGGCCGCATTTATAAGGCCAAAAAAATAGCACC
*
27231 CTACATGCAGGGAAAAATGTATTAATACCCCCATTTCTTCTTCTTCTTCTTCTCTTTTTTGTTTT
66 CTACATACAGGGAAAAATGTATTAATACCCCCATTTCTTCTTCTTCTTCTTCTCTTTTTTGTTTT
*
27296 CCCTTTGAATTTCAACCTTTTTCATGGCTTTCTCCAACCAACCATGCATACTCTGTATAGTATAA
131 CCCTTTGAATTTCAACCTTTTTCATGGATTTCTCCAACCAACCATGCATACTCTGTATAGTATAA
*
27361 TGGAGGTCGCATTTATAAGGCCAAAAAAATAGC
196 TGGAGGCCGCATTTATAAGGCCAAAAAAATAGC
*
27394 ACCAACCATGCATACTCTGTATAGTATAATGGAGGCCGCATTTATAAGGCCAAAAAAATAGCACC
1 ACCAACCATGCATACTCTATATAGTATAATGGAGGCCGCATTTATAAGGCCAAAAAAATAGCACC
*
27459 CTACATACAGGGAAAAATGTATTAATACCCTCATTTCTTCTTTTTCTTCTTGTTCTTCTTCTCTT
66 CTACATACAGGGAAAAATGTATTAATACCCCCA--T-TTC---TTCTTC---TTCTTCTTCTCTT
*
27524 TTTTGTTTTCCCTTTGAATTTCAGCCTTTTTCATGGATTTCTCCAACCAACCATGCATACTCTGT
122 TTTTGTTTTCCCTTTGAATTTCAACCTTTTTCATGGATTTCTCCAACCAACCATGCATACTCTGT
27589 ATAGTATAATGGAGGCCGCATTTATAAGGCCAAAAAAATAGC
187 ATAGTATAATGGAGGCCGCATTTATAAGGCCAAAAAAATAGC
27631 ACC
1 ACC
27634 CTACATGTAA
Statistics
Matches: 225, Mismatches: 6, Indels: 9
0.94 0.03 0.04
Matches are distributed among these distances:
228 95 0.42
230 1 0.00
231 3 0.01
234 6 0.03
237 120 0.53
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (228 bp):
ACCAACCATGCATACTCTATATAGTATAATGGAGGCCGCATTTATAAGGCCAAAAAAATAGCACC
CTACATACAGGGAAAAATGTATTAATACCCCCATTTCTTCTTCTTCTTCTTCTCTTTTTTGTTTT
CCCTTTGAATTTCAACCTTTTTCATGGATTTCTCCAACCAACCATGCATACTCTGTATAGTATAA
TGGAGGCCGCATTTATAAGGCCAAAAAAATAGC
Found at i:28281 original size:31 final size:31
Alignment explanation
Indices: 28243--28398 Score: 260
Period size: 31 Copynumber: 5.0 Consensus size: 31
28233 CCCGAAGGAC
* * *
28243 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
28274 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
28305 CAGTCCATATATCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
28336 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
28367 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
28398 C
1 C
28399 CCTCGACCCT
Statistics
Matches: 119, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
31 118 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:32554 original size:31 final size:31
Alignment explanation
Indices: 32516--32640 Score: 180
Period size: 31 Copynumber: 4.0 Consensus size: 31
32506 CCCGAAGGAC
* * *
32516 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
32547 CAGTCCATATGTCCCGAATAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
32578 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
* *
32609 CAATCCATATGTCCCGAAGAACATAGATAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
32640 C
1 C
32641 CCTCGACCCT
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
31 85 0.99
32 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.17, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:34368 original size:3 final size:3
Alignment explanation
Indices: 34355--34407 Score: 97
Period size: 3 Copynumber: 17.3 Consensus size: 3
34345 GGGAAAATAC
34355 CTT CTTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT C-TT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
34401 CTT CTT C
1 CTT CTT C
34408 AATAATGCAC
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 46 0.94
4 3 0.06
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:34514 original size:3 final size:3
Alignment explanation
Indices: 34506--34590 Score: 138
Period size: 3 Copynumber: 28.3 Consensus size: 3
34496 AGGAAAATAC
34506 CTT CTT CTT CTT CTT CTTT CTT CTT -TT C-T CTT CTCT CTT CTT CTT
1 CTT CTT CTT CTT CTT C-TT CTT CTT CTT CTT CTT CT-T CTT CTT CTT
34551 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
34591 CAATAATGCA
Statistics
Matches: 78, Mismatches: 0, Indels: 8
0.91 0.00 0.09
Matches are distributed among these distances:
2 4 0.05
3 68 0.87
4 6 0.08
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:34717 original size:22 final size:22
Alignment explanation
Indices: 34689--34730 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
34679 CACCTCGTTT
34689 CATATGCTAACGTGTAAACAAA
1 CATATGCTAACGTGTAAACAAA
34711 CATATGCTAACGTGTAAACA
1 CATATGCTAACGTGTAAACA
34731 GATGGTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.24
Consensus pattern (22 bp):
CATATGCTAACGTGTAAACAAA
Found at i:34801 original size:3 final size:3
Alignment explanation
Indices: 34793--34847 Score: 94
Period size: 3 Copynumber: 18.7 Consensus size: 3
34783 GGAAAATACA
*
34793 TTC TTC TTC TTC TTC TTC TTC TTC TTT TTC TT- TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
34840 TTC TTC TT
1 TTC TTC TT
34848 ATGCACCTAG
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 47 0.96
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:34905 original size:68 final size:71
Alignment explanation
Indices: 34828--34996 Score: 198
Period size: 80 Copynumber: 2.3 Consensus size: 71
34818 TTTTCTTTTC
*
34828 TTCTTCTTCTTCTTCTTCTT-ATGCACCTAGTTTCATATGCTAACGTGTAAACAGATGGTTTTCA
1 TTCTTC-T-TTCTTCTTCTTAATGCACCTAGTTTCATATGCTAACGTGTAAACAGATGGTTTTAA
*
34892 TAAGCTATT
64 GAAGCTA-T
*
34901 CTTCTTCTTATTCTTCTTCTTCCAATAATGCACCTCGTTTCATATGCTAACGTGTAAACAGATGG
1 -TTCTTC-T-TTCTTCTTC-T----TAATGCACCTAGTTTCATATGCTAACGTGTAAACAGATGG
34966 TTTTAAGAAGCTA-
58 TTTTAAGAAGCTAT
34979 TTCTTCTTTCTTCTTCTT
1 TTCTTCTTTCTTCTTCTT
34997 CTTCTTCTTC
Statistics
Matches: 85, Mismatches: 4, Indels: 16
0.81 0.04 0.15
Matches are distributed among these distances:
70 1 0.01
74 18 0.21
75 10 0.12
76 1 0.01
77 6 0.07
79 1 0.01
80 48 0.56
ACGTcount: A:0.21, C:0.22, G:0.11, T:0.46
Consensus pattern (71 bp):
TTCTTCTTTCTTCTTCTTAATGCACCTAGTTTCATATGCTAACGTGTAAACAGATGGTTTTAAGA
AGCTAT
Found at i:34914 original size:12 final size:12
Alignment explanation
Indices: 34897--34921 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34887 TTTCATAAGC
34897 TATTCTTCTTCT
1 TATTCTTCTTCT
34909 TATTCTTCTTCT
1 TATTCTTCTTCT
34921 T
1 T
34922 CCAATAATGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (12 bp):
TATTCTTCTTCT
Found at i:34932 original size:80 final size:80
Alignment explanation
Indices: 34825--35092 Score: 380
Period size: 90 Copynumber: 3.3 Consensus size: 80
34815 TCTTTTTCTT
* *
34825 TTCTTCTTCTTCTTCTTCTT-C--TTATGCACCTAGTTTCATATGCTAACGTGTAAACAGATGGT
1 TTCTTCTTCTTCTTCTTCTTCCAATAATGCACCTCGTTTCATATGCTAACGTGTAAACAGATGGT
*
34887 TTTCATAAGCTATTC
66 TTTCAGAAGCTATTC
*
34902 TTCTTCTTATTCTTCTTCTTCCAATAATGCACCTCGTTTCATATGCTAACGTGTAAACAGATGGT
1 TTCTTCTTCTTCTTCTTCTTCCAATAATGCACCTCGTTTCATATGCTAACGTGTAAACAGATGGT
*
34967 TTTAAGAAGCTATTCTTCTTTCTTC
66 TTTCAGAAGCTA----------TTC
34992 TTCTTCTTCTTCTTCTTCTTCCAATAATGCACCTCGTTTCATATGCTAACGTGTAAACAGATGGT
1 TTCTTCTTCTTCTTCTTCTTCCAATAATGCACCTCGTTTCATATGCTAACGTGTAAACAGATGGT
35057 TTTCAGAAGCTATTC
66 TTTCAGAAGCTATTC
35072 TTCTTCTTCTTCTTCTTCTTC
1 TTCTTCTTCTTCTTCTTCTTC
35093 TTCTTCTTCT
Statistics
Matches: 171, Mismatches: 7, Indels: 23
0.85 0.03 0.11
Matches are distributed among these distances:
77 19 0.11
78 1 0.01
80 73 0.43
90 78 0.46
ACGTcount: A:0.20, C:0.24, G:0.11, T:0.46
Consensus pattern (80 bp):
TTCTTCTTCTTCTTCTTCTTCCAATAATGCACCTCGTTTCATATGCTAACGTGTAAACAGATGGT
TTTCAGAAGCTATTC
Found at i:34992 original size:3 final size:3
Alignment explanation
Indices: 34979--35012 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
34969 TAAGAAGCTA
34979 TTC TTC TTTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC TTC
35013 CAATAATGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:35077 original size:3 final size:3
Alignment explanation
Indices: 35069--35109 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
35059 TCAGAAGCTA
35069 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
35110 ATTATTATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:35114 original size:3 final size:3
Alignment explanation
Indices: 35108--35144 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
35098 CTTCTTCTTC
35108 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
35145 GTTCGTGTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:40502 original size:60 final size:61
Alignment explanation
Indices: 40387--40504 Score: 193
Period size: 60 Copynumber: 2.0 Consensus size: 61
40377 TAATCGGATG
* *
40387 ACCATTTTGTAACTTTTAATAGTTGGGAGACTCAACAAAATAATATCCTATAGTCAAAAGA
1 ACCATTTTGTAACTTTTAATAGTTGAGAGACTCAACAAAATAATATCATATAGTCAAAAGA
* *
40448 ACCATTTTGTAACTTTTAATAGTTTAG-GACTCAACAAAATAATTTCATATAGTCAAA
1 ACCATTTTGTAACTTTTAATAGTTGAGAGACTCAACAAAATAATATCATATAGTCAAA
40505 GGATGATCTA
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
60 28 0.53
61 25 0.47
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (61 bp):
ACCATTTTGTAACTTTTAATAGTTGAGAGACTCAACAAAATAATATCATATAGTCAAAAGA
Found at i:46324 original size:19 final size:19
Alignment explanation
Indices: 46288--46326 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
46278 TAAGATAATA
*
46288 ATAAAATAATAATTAAAAT
1 ATAAAATAATAATCAAAAT
46307 ATAAAAGTAATAA-CAAAAT
1 ATAAAA-TAATAATCAAAAT
46326 A
1 A
46327 ATATTGTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (19 bp):
ATAAAATAATAATCAAAAT
Found at i:46388 original size:20 final size:21
Alignment explanation
Indices: 46354--46410 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 21
46344 TGATCAAAAT
*
46354 AAAAGAAAT-TAAAATTA-TA
1 AAAATAAATATAAAATTATTA
*
46373 AAACTAAATATAAAA-TATTA
1 AAAATAAATATAAAATTATTA
*
46393 AAAATAAAGATAATAATT
1 AAAATAAATATAA-AATT
46411 CAAAATATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
19 9 0.30
20 18 0.60
21 2 0.07
22 1 0.03
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.28
Consensus pattern (21 bp):
AAAATAAATATAAAATTATTA
Found at i:47612 original size:3 final size:3
Alignment explanation
Indices: 47592--47677 Score: 104
Period size: 3 Copynumber: 29.0 Consensus size: 3
47582 GTTGTATCTG
* *
47592 TAA TAA -AA TAA TAT TAA TAA TAA TAA TAA TAA TAA TAT TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
47639 AAA TAA TAA TAA TAG TAA TAA AAA TAA TAA -ATA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA
47678 AAACCAAATA
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
2 3 0.04
3 66 0.94
4 1 0.01
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:47628 original size:24 final size:23
Alignment explanation
Indices: 47592--47676 Score: 116
Period size: 24 Copynumber: 3.6 Consensus size: 23
47582 GTTGTATCTG
47592 TAATAAAATAATATTAATAATAA
1 TAATAAAATAATATTAATAATAA
47615 TAATAATAATAATATTAATAATAA
1 TAATAA-AATAATATTAATAATAA
* * *
47639 AAATAATAATAATAGTAATAAAAA
1 TAATAA-AATAATATTAATAATAA
47663 TAATAAATATAATA
1 TAATAAA-ATAATA
47677 AAAACCAAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
23 7 0.12
24 49 0.88
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (23 bp):
TAATAAAATAATATTAATAATAA
Found at i:48312 original size:113 final size:113
Alignment explanation
Indices: 48019--48569 Score: 873
Period size: 113 Copynumber: 4.9 Consensus size: 113
48009 AGAATCATGC
48019 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTC-TCAGATGAG-TCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
48082 ATGAACTCT-CTCTGGAAAAGTTGATCCATCGAGTGATGAATTCGAGC-
66 ATGAACTCTAC-CTGGAAAAGTTGATCCATCAAGTGATGAATTCAAGCG
48129 AAAAGTTGAACAAGTTCTTCTCATTATGAAC-TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
48193 ATGAACTCTACCTGGAAATGTTGATCCATCAAGTGATGAATTCAAGCG
66 ATGAACTCTACCTGGAAAAGTTGATCCATCAAGTGATGAATTCAAGCG
*
48241 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * *
48306 ATGAACTCGACCTGGCAATGTTGATCCATCGAA-TGATGAATTCAAGCG
66 ATGAACTCTACCTGGAAAAGTTGATCCATC-AAGTGATGAATTCAAGCG
48354 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * *
48419 ATGAACT-TTCTCTGGAAAAGCTGATCCATCAAGTGATGAATTCAAACA
66 ATGAACTCTAC-CTGGAAAAGTTGATCCATCAAGTGATGAATTCAAGCG
* *
48467 AAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* ** *
48532 ATGAACTTTTTCTGGAAAAGCTGATCCATCAAGTGATG
66 ATGAACTCTACCTGGAAAAGTTGATCCATCAAGTGATG
48570 GATTTGAATC
Statistics
Matches: 415, Mismatches: 17, Indels: 15
0.93 0.04 0.03
Matches are distributed among these distances:
109 12 0.03
110 40 0.10
111 52 0.13
112 35 0.08
113 272 0.66
114 4 0.01
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (113 bp):
AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTCTACCTGGAAAAGTTGATCCATCAAGTGATGAATTCAAGCG
Found at i:49004 original size:22 final size:22
Alignment explanation
Indices: 48976--49030 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
48966 GATAAAGCTT
*
48976 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
* *
48998 TCATCTTTAAAAAGGGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
49020 TCATCTTTGAA
1 TCATCTTTGAA
49031 GATTGTAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:51798 original size:111 final size:111
Alignment explanation
Indices: 51602--51804 Score: 336
Period size: 111 Copynumber: 1.8 Consensus size: 111
51592 AATTTCAATG
* * *
51602 ATTGGTTCTGGGGTTCTTACCGAAACAGATCAGATAACTCAAAGAACACTTTCAGAAGATGCTAT
1 ATTGGTTCTGGGGTTCATACCGAAACAGATCAGATAACTCAAAGAACACTTCCAGAAGATACTAT
*
51667 TGGGTCTCCTTATTTCTACTATGAGCAAATTCATCTTTCAAATCCA
66 TGGGTCTCCTTATTTATACTATGAGCAAATTCATCTTTCAAATCCA
*
51713 ATTGGTTTTGGGGTTCATACC-AAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATACTA
1 ATTGGTTCTGGGGTTCATACCGAAA-CAGATCAGATAACTCAAAGAACACTTCCAGAAGATACTA
*
51777 TTGGGTCTTCTTATTTATACTATGAGCA
65 TTGGGTCTCCTTATTTATACTATGAGCA
51805 CATGGTACTT
Statistics
Matches: 85, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
110 3 0.04
111 82 0.96
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.33
Consensus pattern (111 bp):
ATTGGTTCTGGGGTTCATACCGAAACAGATCAGATAACTCAAAGAACACTTCCAGAAGATACTAT
TGGGTCTCCTTATTTATACTATGAGCAAATTCATCTTTCAAATCCA
Found at i:56743 original size:14 final size:14
Alignment explanation
Indices: 56705--56758 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
56695 CATAAAAATA
* *
56705 CAAATGCAAAGATG
1 CAAATGTAAATATG
56719 CCAAATGTAAATATG
1 -CAAATGTAAATATG
* *
56734 CAATTGTAAAAATG
1 CAAATGTAAATATG
*
56748 TAAATGTAAAT
1 CAAATGTAAAT
56759 TATTTAAAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 20 0.62
15 12 0.38
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (14 bp):
CAAATGTAAATATG
Found at i:57071 original size:43 final size:44
Alignment explanation
Indices: 57009--57092 Score: 125
Period size: 43 Copynumber: 1.9 Consensus size: 44
56999 TACATCAAAC
* *
57009 AAAACTTTTACATATAGGGGACATCTTTCAGTCCTAACTTCAGT
1 AAAACTTTTACATATAGGGGACAACTTTCACTCCTAACTTCAGT
* *
57053 AAAAC-TTTACATATAGGGGATAACTTTCCCTCCTAACTTC
1 AAAACTTTTACATATAGGGGACAACTTTCACTCCTAACTTC
57093 TCTAAAGCCA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
43 31 0.86
44 5 0.14
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.33
Consensus pattern (44 bp):
AAAACTTTTACATATAGGGGACAACTTTCACTCCTAACTTCAGT
Found at i:58505 original size:6 final size:7
Alignment explanation
Indices: 58486--58510 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
58476 TAAATATATG
58486 AATTTTT
1 AATTTTT
58493 AATTTTT
1 AATTTTT
58500 AATTTTT
1 AATTTTT
58507 AATT
1 AATT
58511 AATAGAGACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
AATTTTT
Found at i:59276 original size:20 final size:21
Alignment explanation
Indices: 59242--59298 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 21
59232 TGATCAAAAT
*
59242 AAAAGAAAT-TAAAATTA-TA
1 AAAATAAATATAAAATTATTA
*
59261 AAACTAAATATAAAA-TATTA
1 AAAATAAATATAAAATTATTA
*
59281 AAAATAAAGATAATAATT
1 AAAATAAATATAA-AATT
59299 CAAAATATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
19 9 0.30
20 18 0.60
21 2 0.07
22 1 0.03
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.28
Consensus pattern (21 bp):
AAAATAAATATAAAATTATTA
Found at i:60540 original size:9 final size:9
Alignment explanation
Indices: 60518--60606 Score: 92
Period size: 9 Copynumber: 10.0 Consensus size: 9
60508 GTTGTATCTG
60518 TAATAA-AA
1 TAATAATAA
*
60526 TAATAATAT
1 TAATAATAA
60535 TAATAATAA
1 TAATAATAA
* *
60544 AAATAATAT
1 TAATAATAA
60553 TAATAATAA
1 TAATAATAA
*
60562 AAATAATAA
1 TAATAATAA
*
60571 TAATAGTAA
1 TAATAATAA
*
60580 TAAAAATAA
1 TAATAATAA
*
60589 AAATAATAA
1 TAATAATAA
60598 -ATATAATAA
1 TA-ATAATAA
60607 AAACCAAATG
Statistics
Matches: 66, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
8 7 0.11
9 59 0.89
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (9 bp):
TAATAATAA
Found at i:60585 original size:21 final size:21
Alignment explanation
Indices: 60518--60597 Score: 105
Period size: 21 Copynumber: 4.0 Consensus size: 21
60508 GTTGTATCTG
*
60518 TAAT-AAAATAATAATATTAA
1 TAATAAAAATAATAATAATAA
60538 TAATAAAAATAAT-AT--TAA
1 TAATAAAAATAATAATAATAA
*
60556 TAATAAAAATAATAATAATAG
1 TAATAAAAATAATAATAATAA
*
60577 TAATAAAAATAAAAATAATAA
1 TAATAAAAATAATAATAATAA
60598 ATATAATAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
18 16 0.30
19 2 0.04
20 6 0.11
21 29 0.55
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (21 bp):
TAATAAAAATAATAATAATAA
Found at i:66727 original size:201 final size:202
Alignment explanation
Indices: 66362--66756 Score: 533
Period size: 201 Copynumber: 2.0 Consensus size: 202
66352 CAGTGTTGTC
* * * * * *
66362 TTCAGATACGACTAGACGTCCTCATCATGTAGGAAAAATGTCGTCCACTTACTAGACCTCCTCAA
1 TTCAAATACGACTAGACATACTCATCAAGTAGGAAAAATGTCATCCACTAACTAGACCTCCTCAA
* * * * * ** *
66427 CATGAAGGAGCAATGTCATCAGAAATGACCAGATTCTCCTCATCACGTAGGAGTCGTGTCGTTTC
66 CATGAAGGAGCAATGTCATAAAAAATGACAAGATTCTCCTAATCACGTAAGAACCGTGTCGTATC
* * *
66492 CAACATCAAATTGTCTCTAAGCAATCAGATTTCCTCAACAAGAAGGAACAATGTTGTCGTCAGAC
131 CAAAATCAAATTGTCTATAAGCAATCAGATTTCCTCAACAAGAAGGAACAAGGTTGTCGTCAGAC
66557 GTAATCT
196 GTAATCT
* *
66564 TTCAAATACGACTAGACATACTTATCAAGTAGG-AAAATGTCATCCACTAACTAGACCTCCTTAA
1 TTCAAATACGACTAGACATACTCATCAAGTAGGAAAAATGTCATCCACTAACTAGACCTCCTCAA
*
66628 TATGAAGGAGCAATGTCATAAAAAATGACAAGATTCTCCTAATCACGTAAGAACCGTGTCGTATC
66 CATGAAGGAGCAATGTCATAAAAAATGACAAGATTCTCCTAATCACGTAAGAACCGTGTCGTATC
* * * ** *
66693 CAAAAT-ATAATTGTCTATAGGCAATTATATTTCCTCAACATTAAGGAACAAGGTTGTCTTCAGA
131 CAAAATCA-AATTGTCTATAAGCAATCAGATTTCCTCAACAAGAAGGAACAAGGTTGTCGTCAGA
66757 TGCATAGTCA
Statistics
Matches: 166, Mismatches: 26, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
200 1 0.01
201 137 0.83
202 28 0.17
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (202 bp):
TTCAAATACGACTAGACATACTCATCAAGTAGGAAAAATGTCATCCACTAACTAGACCTCCTCAA
CATGAAGGAGCAATGTCATAAAAAATGACAAGATTCTCCTAATCACGTAAGAACCGTGTCGTATC
CAAAATCAAATTGTCTATAAGCAATCAGATTTCCTCAACAAGAAGGAACAAGGTTGTCGTCAGAC
GTAATCT
Found at i:67686 original size:14 final size:13
Alignment explanation
Indices: 67660--67684 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67650 CAAAATAATG
67660 AAAAAAATAAAAT
1 AAAAAAATAAAAT
67673 AAAAAAATAAAA
1 AAAAAAATAAAA
67685 ATCAAACTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAAATAAAAT
Found at i:68931 original size:16 final size:17
Alignment explanation
Indices: 68866--68931 Score: 57
Period size: 16 Copynumber: 3.9 Consensus size: 17
68856 TTAAATAATT
*
68866 TTTTAAATATATTA-TA
1 TTTTATATATATTATTA
*
68882 TTTTA-ATATATTTTTA
1 TTTTATATATATTATTA
* *
68898 TTTTTTACTAGATATATTA
1 TTTTATA-TATAT-TATTA
68917 TTTTATATA-ATTATT
1 TTTTATATATATTATT
68932 TTAATAATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
15 7 0.17
16 15 0.37
17 3 0.07
18 6 0.15
19 10 0.24
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (17 bp):
TTTTATATATATTATTA
Found at i:69015 original size:14 final size:12
Alignment explanation
Indices: 68951--69031 Score: 60
Period size: 13 Copynumber: 6.4 Consensus size: 12
68941 AATGTTCATT
68951 TTTATTTATTTTA
1 TTTA-TTATTTTA
*
68964 TGTA-TATATTTA
1 TTTATTAT-TTTA
68976 TTTATTATTTTAA
1 TTTATTATTTT-A
*
68989 ATTATTATTTTTA
1 TTTATTA-TTTTA
69002 TTTATCTATGTTTA
1 TTTAT-TAT-TTTA
69016 GTTT-TTA-TTTA
1 -TTTATTATTTTA
69027 TTTAT
1 TTTAT
69032 CATGATTGGT
Statistics
Matches: 56, Mismatches: 4, Indels: 18
0.72 0.05 0.23
Matches are distributed among these distances:
10 3 0.05
11 8 0.14
12 10 0.18
13 21 0.38
14 11 0.20
15 3 0.05
ACGTcount: A:0.26, C:0.01, G:0.04, T:0.69
Consensus pattern (12 bp):
TTTATTATTTTA
Found at i:71804 original size:2 final size:2
Alignment explanation
Indices: 71797--71826 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
71787 AAACAATGCA
71797 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
71827 CCCTATCAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:73153 original size:21 final size:20
Alignment explanation
Indices: 73071--73173 Score: 55
Period size: 21 Copynumber: 5.0 Consensus size: 20
73061 CGTAAATCAG
73071 TTTCCAAAATCGCAACGCGAT
1 TTTCC-AAATCGCAACGCGAT
* *
73092 TCTT-GACAATCGCAATGCGAT
1 T-TTCCA-AATCGCAACGCGAT
** * **
73113 AGTACAAATTCGCATTGCGAT
1 TTTCCAAA-TCGCAACGCGAT
*
73134 TTTCCAGAATCGCAACGCGAA
1 TTTCCA-AATCGCAACGCGAT
* **
73155 TATGAAAATCGCAACGCGA
1 TTTCCAAATCGCAACGCGA
73174 ACACATAAAT
Statistics
Matches: 62, Mismatches: 15, Indels: 11
0.70 0.17 0.12
Matches are distributed among these distances:
20 17 0.27
21 41 0.66
22 4 0.06
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
TTTCCAAATCGCAACGCGAT
Found at i:73166 original size:20 final size:20
Alignment explanation
Indices: 73141--73293 Score: 75
Period size: 20 Copynumber: 7.7 Consensus size: 20
73131 GATTTTCCAG
* *
73141 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
73161 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
73181 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
73201 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* *
73221 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
73241 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
73261 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
73281 AATCGCAACGCGA
1 AATCGCAACGCGA
73294 TTTTTAAAGC
Statistics
Matches: 121, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
19 2 0.02
20 117 0.97
21 2 0.02
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:73188 original size:40 final size:40
Alignment explanation
Indices: 73141--73292 Score: 135
Period size: 40 Copynumber: 3.8 Consensus size: 40
73131 GATTTTCCAG
*
73141 AATCGCAACGCGAATATGAAAATCGCAACGCG-AACACATA
1 AATCGCAACGCGAATACGAAAATCGCAACGCGTAAC-CATA
* * * * * *
73181 AATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTA
1 AATCGCAACGCGAATACGAAAATCGCAACGCGTAACCATA
* * * * * *
73221 AATCGCAACGCGTATCCGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATACGAAAATCGCAACGCGTAACCATA
* * * *
73261 TATCGCAACGCGTATCCGTAAATCGCAACGCG
1 AATCGCAACGCGAATACGAAAATCGCAACGCG
73293 ATTTTTAAAG
Statistics
Matches: 100, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
40 98 0.98
41 2 0.02
ACGTcount: A:0.34, C:0.28, G:0.20, T:0.19
Consensus pattern (40 bp):
AATCGCAACGCGAATACGAAAATCGCAACGCGTAACCATA
Found at i:73224 original size:60 final size:59
Alignment explanation
Indices: 73141--73293 Score: 207
Period size: 60 Copynumber: 2.6 Consensus size: 59
73131 GATTTTCCAG
* ** *
73141 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAAC-CATAAATCGCAACGCGTATCCGTA
* * * *
73201 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCATAAATCGCAACGCGTATCCGTA
*
73261 TATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
73294 TTTTTAAAGC
Statistics
Matches: 82, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
59 1 0.01
60 79 0.96
61 2 0.02
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.19
Consensus pattern (59 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAACCATAAATCGCAACGCGTATCCGTA
Found at i:73706 original size:32 final size:33
Alignment explanation
Indices: 73668--73737 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
73658 TTCACTTAGA
73668 TTTCATTTCGCG-TACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
73700 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
73733 TTTCA
1 TTTCA
73738 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 12 0.34
33 23 0.66
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.47
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:73843 original size:21 final size:20
Alignment explanation
Indices: 73817--73925 Score: 97
Period size: 21 Copynumber: 5.7 Consensus size: 20
73807 TGCAGAAGAG
73817 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* **
73838 TCGCAACGTGAAAATGACTA
1 TCGCAACGAGAAAATGAAAA
73858 TCTGCAACGAGAAAAATGAAAA
1 TC-GCAACGAG-AAAATGAAAA
73880 TCGCAACGAG---A-G--AA
1 TCGCAACGAGAAAATGAAAA
*
73894 TCGCAACGCG-AAATGAAAA
1 TCGCAACGAGAAAATGAAAA
*
73913 TCGCAACGCGAAA
1 TCGCAACGAGAAA
73926 CCAAAATCGC
Statistics
Matches: 73, Mismatches: 7, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
14 11 0.15
16 2 0.03
17 2 0.03
19 12 0.16
20 11 0.15
21 25 0.34
22 10 0.14
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.13
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:73916 original size:19 final size:19
Alignment explanation
Indices: 73829--73936 Score: 82
Period size: 19 Copynumber: 5.7 Consensus size: 19
73819 GCAACGAGAT
*
73829 AAATGAAAATCGCAACGTG
1 AAATGAAAATCGCAACGCG
** *
73848 AAAATGACTATCTGCAACGAG
1 -AAATGAAAATC-GCAACGCG
73869 AAAAATGAAAATCGCAA--CG
1 --AAATGAAAATCGCAACGCG
*
73888 --A-GAGAATCGCAACGCG
1 AAATGAAAATCGCAACGCG
73904 AAATGAAAATCGCAACGCG
1 AAATGAAAATCGCAACGCG
**
73923 AAACCAAAATCGCA
1 AAATGAAAATCGCA
73937 TTGCGATTTT
Statistics
Matches: 71, Mismatches: 10, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
18 1 0.01
19 27 0.38
20 9 0.13
21 11 0.15
22 10 0.14
ACGTcount: A:0.48, C:0.20, G:0.19, T:0.12
Consensus pattern (19 bp):
AAATGAAAATCGCAACGCG
Found at i:73954 original size:19 final size:19
Alignment explanation
Indices: 73932--74059 Score: 78
Period size: 19 Copynumber: 7.1 Consensus size: 19
73922 GAAACCAAAA
*
73932 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
73951 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
73965 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
73984 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
73998 TCTCGTTGTGATTTTCATTT
1 TCGCGTTGCGATTTTCA-TT
* ***
74018 CTCTCGTTGCGACAGTCATT
1 -TCGCGTTGCGATTTTCATT
*
74038 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
74058 TC
1 TC
74060 AACCAAAAGA
Statistics
Matches: 85, Mismatches: 12, Indels: 24
0.70 0.10 0.20
Matches are distributed among these distances:
14 19 0.22
16 6 0.07
17 6 0.07
19 22 0.26
20 19 0.22
21 13 0.15
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:73973 original size:14 final size:14
Alignment explanation
Indices: 73954--74010 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
73944 TTTCATTTCG
73954 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
73968 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
73987 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
74001 CGTTGTGATT
1 CGTTGCGATT
74011 TTCATTTCTC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:73979 original size:33 final size:33
Alignment explanation
Indices: 73937--74059 Score: 156
Period size: 33 Copynumber: 3.5 Consensus size: 33
73927 CAAAATCGCA
73937 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
73970 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
74003 TTGTGATTTTCATTTCTCTCGTTGCGACAGTCATTCTCTCG
1 TTGCGATTTTCA-TT-TCGCGTT--G-C-G--ATTCTCTCG
74044 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
74060 AACCAAAAGA
Statistics
Matches: 79, Mismatches: 3, Indels: 10
0.86 0.03 0.11
Matches are distributed among these distances:
33 44 0.56
34 2 0.03
35 6 0.08
37 1 0.01
38 1 0.01
39 3 0.04
40 2 0.03
41 20 0.25
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:74021 original size:21 final size:21
Alignment explanation
Indices: 73995--74059 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
73985 CGCGTTGCGA
*
73995 TTCTCTCGTTGTGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
74016 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
74036 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
74057 TTC
1 TTC
74060 AACCAAAAGA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 17 0.47
21 19 0.53
ACGTcount: A:0.11, C:0.25, G:0.15, T:0.49
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:76035 original size:92 final size:93
Alignment explanation
Indices: 75735--76109 Score: 709
Period size: 93 Copynumber: 4.1 Consensus size: 93
75725 TAGATTATTT
*
75735 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
75800 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
75828 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
75893 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
75921 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTC-TTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
75985 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
76013 AGTAAATTTGTTCGGTTACTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
76078 TTTGTCTTTGTTTTGTCTATTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
76105 AGTAA
1 AGTAA
76110 TGCAATCCAT
Statistics
Matches: 278, Mismatches: 3, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
92 97 0.35
93 181 0.65
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:76048 original size:185 final size:185
Alignment explanation
Indices: 75735--76109 Score: 707
Period size: 185 Copynumber: 2.0 Consensus size: 185
75725 TAGATTATTT
75735 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
75800 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTACTGCCAATTCTGCTAAACT
*
75865 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTATTGGTTG-A
*
75921 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTC-TTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
75985 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTACTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTACTGCCAATTCTGCTAAACT
76050 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTATTGGTTGA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTATTGGTTGA
76105 AGTAA
1 AGTAA
76110 TGCAATCCAT
Statistics
Matches: 186, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
184 6 0.03
185 136 0.73
186 44 0.24
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.46
Consensus pattern (185 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTACTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTATTGGTTGA
Found at i:76193 original size:14 final size:14
Alignment explanation
Indices: 76174--76230 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
76164 CGAAACTTAA
76174 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
76188 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
76207 AATCGCAACGACAG
1 AATCGCAACGAGAG
76221 AATCGCAACG
1 AATCGCAACG
76231 CGAAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:76212 original size:19 final size:18
Alignment explanation
Indices: 76188--76279 Score: 65
Period size: 19 Copynumber: 5.4 Consensus size: 18
76178 GCAACGAGAG
76188 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAA-GAA
*
76207 AATCGCAA--CGACAG--
1 AATCGCAACGCGAAAGAA
*
76221 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAA-GAA
*
76240 AATCGCAA--CG--ACAA
1 AATCGCAACGCGAAAGAA
*
76254 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAA-GAA
76273 AATCGCA
1 AATCGCA
76280 TTGCGATTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
14 19 0.32
15 1 0.02
16 7 0.12
17 6 0.10
18 1 0.02
19 26 0.43
ACGTcount: A:0.47, C:0.28, G:0.17, T:0.08
Consensus pattern (18 bp):
AATCGCAACGCGAAAGAA
Found at i:76214 original size:33 final size:33
Alignment explanation
Indices: 76156--76279 Score: 185
Period size: 33 Copynumber: 3.7 Consensus size: 33
76146 TAGTTTACTT
* * *
76156 TCGCAACACGAAACTTAAAATCGCAACGAGAGAA
1 TCGCAACGCGAAAC-CAAAATCGCAACGACAGAA
**
76190 TCGCAACGCGAAATGAAAATCGCAACGACAGAA
1 TCGCAACGCGAAACCAAAATCGCAACGACAGAA
*
76223 TCGCAACGCGAAACCAAAATCGCAACGACAAAA
1 TCGCAACGCGAAACCAAAATCGCAACGACAGAA
76256 TCGCAACGCGAAACCAAAATCGCA
1 TCGCAACGCGAAACCAAAATCGCA
76280 TTGCGATTTT
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
33 71 0.86
34 12 0.14
ACGTcount: A:0.46, C:0.27, G:0.18, T:0.09
Consensus pattern (33 bp):
TCGCAACGCGAAACCAAAATCGCAACGACAGAA
Found at i:76256 original size:14 final size:14
Alignment explanation
Indices: 76205--76263 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
76195 ACGCGAAATG
76205 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
76219 AGAATCGCAACGCGAAACC
1 AAAATCGCAA--CG--A-C
76238 AAAATCGCAACGAC
1 AAAATCGCAACGAC
76252 AAAATCGCAACG
1 AAAATCGCAACG
76264 CGAAACCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 22 0.58
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.47, C:0.29, G:0.17, T:0.07
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:76297 original size:19 final size:19
Alignment explanation
Indices: 76275--76395 Score: 126
Period size: 19 Copynumber: 6.6 Consensus size: 19
76265 GAAACCAAAA
*
76275 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
76294 TCGCGTTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
76310 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
76327 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
76346 TCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
76365 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
76385 TCGTGTTGCGA
1 TCGCGTTGCGA
76396 AAGTAAACTA
Statistics
Matches: 83, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
14 8 0.10
16 5 0.06
17 5 0.06
19 53 0.64
20 12 0.14
ACGTcount: A:0.11, C:0.20, G:0.24, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:78335 original size:14 final size:14
Alignment explanation
Indices: 78316--78351 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
78306 ATTGTTTAAT
78316 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
78330 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
78344 TGATTTGT
1 TGATTTGT
78352 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:78466 original size:19 final size:19
Alignment explanation
Indices: 78442--78529 Score: 114
Period size: 19 Copynumber: 4.8 Consensus size: 19
78432 GCATTATGTT
78442 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAATGC
78461 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAATGC
*
78478 G--A-GAGAATCGCAATGC
1 GAAATGAAAATCGCAATGC
*
78494 GAAATAAAAATCGCAATGC
1 GAAATGAAAATCGCAATGC
78513 GGAAATGAAAATCGCAA
1 -GAAATGAAAATCGCAA
78530 CGAGAGAATC
Statistics
Matches: 59, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
14 10 0.17
15 1 0.02
16 2 0.03
17 2 0.03
18 1 0.02
19 28 0.47
20 15 0.25
ACGTcount: A:0.49, C:0.16, G:0.22, T:0.14
Consensus pattern (19 bp):
GAAATGAAAATCGCAATGC
Found at i:78561 original size:53 final size:53
Alignment explanation
Indices: 78442--78548 Score: 198
Period size: 53 Copynumber: 2.0 Consensus size: 53
78432 GCATTATGTT
*
78442 GAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGC
1 GAAATAAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
78494 GAAATAAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
1 GAAATAAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
78547 GA
1 GA
78549 TTTTCATTTC
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
52 18 0.34
53 35 0.66
ACGTcount: A:0.47, C:0.17, G:0.23, T:0.13
Consensus pattern (53 bp):
GAAATAAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
Found at i:78566 original size:19 final size:19
Alignment explanation
Indices: 78538--78780 Score: 265
Period size: 19 Copynumber: 13.7 Consensus size: 19
78528 AACGAGAGAA
*
78538 TCGCAATGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
78557 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
78576 TCCGCATTGCGA--TTC---
1 T-CGCATTGCGATTTTCATT
*
78591 TCTCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
78610 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
78629 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
78645 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
78662 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
78681 TCCGCATTGTGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
78698 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
78715 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
78734 TCCGCATTGCGATTTTC--T
1 T-CGCATTGCGATTTTCATT
*
78752 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
78768 TCGCATTGCGATT
1 TCGCATTGCGATT
78781 CTCTCGTTGC
Statistics
Matches: 190, Mismatches: 11, Indels: 46
0.77 0.04 0.19
Matches are distributed among these distances:
14 30 0.16
15 1 0.01
16 18 0.09
17 14 0.07
18 8 0.04
19 85 0.45
20 34 0.18
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:78620 original size:33 final size:33
Alignment explanation
Indices: 78560--78727 Score: 162
Period size: 34 Copynumber: 4.9 Consensus size: 33
78550 TTTCATTTCG
78560 CATTGCGATTTTCATTTCCGCATTGCGATTCTCT
1 CATTGCGATTTTCATTT-CGCATTGCGATTCTCT
78594 CATTGCGATTTTCATTTCGCATTGCGATT-T-T
1 CATTGCGATTTTCATTTCGCATTGCGATTCTCT
* * * * *
78625 CATTTCGCA-TTGCGATTCTCTCGTTGCGATTTTCATTTCG
1 CATTGCG-ATTTTC-ATT-TCGCATTGCGA--TTC---TCT
*
78665 CATTGCGATTTTCATTTCCGCATTGTGATTCTCT
1 CATTGCGATTTTCATTT-CGCATTGCGATTCTCT
*
78699 CGTTGCGATTTTCATTTCGCATTGCGATT
1 CATTGCGATTTTCATTTCGCATTGCGATT
78728 TTCATTTCCG
Statistics
Matches: 109, Mismatches: 13, Indels: 25
0.74 0.09 0.17
Matches are distributed among these distances:
31 10 0.09
32 5 0.05
33 32 0.29
34 35 0.32
35 2 0.02
37 3 0.03
38 1 0.01
39 12 0.11
40 9 0.08
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (33 bp):
CATTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:78664 original size:105 final size:106
Alignment explanation
Indices: 78544--78780 Score: 422
Period size: 105 Copynumber: 2.2 Consensus size: 106
78534 AGAATCGCAA
78544 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCATTGCGATTTTCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCATTGCGATTTTCAT
78609 TTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGT
66 TTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
* *
78649 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGTGATTCTCTCGTTGCGATTTTCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCATTGCGATTTTCAT
* *
78714 TTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCTTGT
66 TTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
*
78755 TGGGATTTTCATTTCGCATTGCGATT
1 TGCGATTTTCATTTCGCATTGCGATT
78781 CTCTCGTTGC
Statistics
Matches: 126, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
105 84 0.67
106 42 0.33
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (106 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCATTGCGATTTTCAT
TTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
Found at i:78773 original size:86 final size:84
Alignment explanation
Indices: 78615--78794 Score: 233
Period size: 86 Copynumber: 2.1 Consensus size: 84
78605 TCATTTCGCA
78615 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCA-TTCG-ATTGCGATTTTCAT
*
78680 TTCCGCATTGTGATTCTCTCG
64 TTCCGCATTGCGATTCTCTCG
* *
78701 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTC-TT-G-TTGGGATTT
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCT-CG--TTGCGATTTTCATTCGATTGCGATTT
78763 TCATTT-CGCATTGCGATTCTCTCG
60 TCATTTCCGCATTGCGATTCTCTCG
78787 TTGCGATT
1 TTGCGATT
78795 GTAATTTCCG
Statistics
Matches: 85, Mismatches: 3, Indels: 12
0.85 0.03 0.12
Matches are distributed among these distances:
86 50 0.59
87 14 0.16
88 3 0.04
89 3 0.04
90 4 0.05
92 11 0.13
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (84 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTCGATTGCGATTTTCATTT
CCGCATTGCGATTCTCTCG
Found at i:78778 original size:33 final size:34
Alignment explanation
Indices: 78544--78794 Score: 203
Period size: 33 Copynumber: 7.2 Consensus size: 34
78534 AGAATCGCAA
78544 TGCGATTTTCATTTCGCATTGCGATTTTCA-T-T
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTGT
* * *
78576 TCCGCA-TTGCGATTCTCTCATTGCGATTTTCATTTCGCAT
1 TGCG-ATTTTC-ATT-TCGCATTGCGATTTTCA-TT-G--T
* *
78616 TGCGATTTTCATTTCGCATTGCGATTCTC-TCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTGT
78649 TGCGATTTTCATTTCGCATTGCGATTTTCA-T-T
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTGT
* * * * *
78681 TCCGCATTGTGATTCTCTCGTTGCGATTTTCATTTCGCAT
1 TGCG-ATTTTCATT-TCGCATTGCGATTTTCA-TT-G--T
78721 TGCGATTTTCATTTCCGCATTGCGATTTTC-TTGT
1 TGCGATTTTCATTT-CGCATTGCGATTTTCATTGT
* * *
78755 TGGGATTTTCATTTCGCATTGCGATTCTC-TCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTGT
78788 TGCGATT
1 TGCGATT
78795 GTAATTTCCG
Statistics
Matches: 175, Mismatches: 24, Indels: 39
0.74 0.10 0.16
Matches are distributed among these distances:
32 10 0.06
33 63 0.36
34 45 0.26
35 1 0.01
36 4 0.02
37 2 0.01
38 15 0.09
39 24 0.14
40 11 0.06
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.47
Consensus pattern (34 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTGT
Found at i:78809 original size:53 final size:53
Alignment explanation
Indices: 78544--78780 Score: 422
Period size: 53 Copynumber: 4.5 Consensus size: 53
78534 AGAATCGCAA
*
78544 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
78597 TGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
*
78649 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGTGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
* *
78702 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCTTGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
*
78755 TGGGATTTTCATTTCGCATTGCGATT
1 TGCGATTTTCATTTCGCATTGCGATT
78781 CTCTCGTTGC
Statistics
Matches: 177, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
52 51 0.29
53 126 0.71
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (53 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
Found at i:81091 original size:12 final size:12
Alignment explanation
Indices: 81074--81098 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
81064 TCTTCGGGGA
81074 CTTTTTCTTCTT
1 CTTTTTCTTCTT
81086 CTTTTTCTTCTT
1 CTTTTTCTTCTT
81098 C
1 C
81099 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:81307 original size:24 final size:24
Alignment explanation
Indices: 81273--81319 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
81263 CTGAAACATC
81273 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
81297 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
81320 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:82040 original size:20 final size:20
Alignment explanation
Indices: 82012--82240 Score: 244
Period size: 20 Copynumber: 11.4 Consensus size: 20
82002 AAATTTCAGT
* * *
82012 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
82032 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
82052 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
82072 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
82092 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
82112 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
82132 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
82152 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
82172 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
82192 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
82212 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
82232 GTTGCGATT
1 GTTGCGATT
82241 CTTGAAAATC
Statistics
Matches: 185, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
20 184 0.99
21 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:82293 original size:21 final size:20
Alignment explanation
Indices: 82208--82305 Score: 81
Period size: 21 Copynumber: 4.8 Consensus size: 20
82198 ATTTATGTGT
* *
82208 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCAAAA
*
82228 TCGCGTTGCGATTCTTGAAAA
1 TCGCGTTGCGATT-TTCAAAA
** **
82249 TCGCAATGCGAATTTGT-ACTA
1 TCGCGTTGCG-ATTT-TCAAAA
*
82270 TCGCATTGCGATTTTCAAGAA
1 TCGCGTTGCGATTTTCAA-AA
82291 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
82306 GGAAACTGAT
Statistics
Matches: 62, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
19 1 0.02
20 18 0.29
21 39 0.63
22 4 0.06
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.38
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCAAAA
Found at i:82301 original size:42 final size:43
Alignment explanation
Indices: 82208--82306 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
82198 ATTTATGTGT
* *
82208 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTCTTGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTCTTCAAAA
**
82249 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATT-TTCAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTCTTCAA-AA
*
82291 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
82307 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 12 0.26
42 32 0.68
43 3 0.06
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTCTTCAAAA
Found at i:94189 original size:45 final size:45
Alignment explanation
Indices: 94133--94242 Score: 132
Period size: 47 Copynumber: 2.4 Consensus size: 45
94123 TGCACCAATC
*
94133 CATGCATCGATGCACCATGAATTAAATTG-AACATCGAATGCATTT
1 CATGCATCGATGCACCAGGAATTAAA-TGAAACATCGAATGCATTT
* * **
94178 CATGCATCGATGCACTGAGGATTTTTATGAAAACATCGAATGCATTT
1 CATGCATCGATGCAC-CAGGAATTAAATG-AAACATCGAATGCATTT
*
94225 GATGCATCGATGCACCAG
1 CATGCATCGATGCACCAG
94243 CCATGCATCG
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
45 17 0.31
46 8 0.15
47 30 0.55
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (45 bp):
CATGCATCGATGCACCAGGAATTAAATGAAACATCGAATGCATTT
Found at i:94302 original size:66 final size:66
Alignment explanation
Indices: 94178--94305 Score: 163
Period size: 66 Copynumber: 1.9 Consensus size: 66
94168 GAATGCATTT
* * *
94178 CATGCATCGATGCACTGAGGATTTTTATGAAAACATCGAATGCATTTGATGCATCGATGCACCAG
1 CATGCATCGATGCACTCAGGATATTTATGAAAACATCGAATGCATTTGATGCACCGATGCACCAG
94243 C
66 C
* *
94244 CATGCATCGATGCACTCTGGCTATTT-TG-AAACATCGAATGCACTCTT-AGTGCACCGATGCAC
1 CATGCATCGATGCACTCAGGATATTTATGAAAACATCGAATGCA-T-TTGA-TGCACCGATGCAC
94306 TGAGAGTCCA
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
64 14 0.26
65 4 0.07
66 36 0.67
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.27
Consensus pattern (66 bp):
CATGCATCGATGCACTCAGGATATTTATGAAAACATCGAATGCATTTGATGCACCGATGCACCAG
C
Found at i:98120 original size:60 final size:60
Alignment explanation
Indices: 98027--98190 Score: 301
Period size: 60 Copynumber: 2.7 Consensus size: 60
98017 ACCAGAGTTG
*
98027 GTGACTGCGTCAACGAATGCATGACCTTCTCCTCCGGAACTTGGGCCTGAGTTGGTGACC
1 GTGACAGCGTCAACGAATGCATGACCTTCTCCTCCGGAACTTGGGCCTGAGTTGGTGACC
98087 GTGACAGCGTCAACGAATGCATGACCTTCTCCTCCGGAACTTGGGCCTGAGTTGGTGACC
1 GTGACAGCGTCAACGAATGCATGACCTTCTCCTCCGGAACTTGGGCCTGAGTTGGTGACC
* *
98147 GTGACAGCGTCAACGAATGCATGACCTTTTCCGCCGGAACTTGG
1 GTGACAGCGTCAACGAATGCATGACCTTCTCCTCCGGAACTTGG
98191 ACCGCCGGTC
Statistics
Matches: 101, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 101 1.00
ACGTcount: A:0.20, C:0.28, G:0.28, T:0.24
Consensus pattern (60 bp):
GTGACAGCGTCAACGAATGCATGACCTTCTCCTCCGGAACTTGGGCCTGAGTTGGTGACC
Found at i:111021 original size:49 final size:48
Alignment explanation
Indices: 110962--111085 Score: 151
Period size: 49 Copynumber: 2.5 Consensus size: 48
110952 TTAACAGAAA
* * * * *
110962 AGCGCTCCCCTGCACCGCGCTATATGCTGATTTGGCGTCATGTGGGTAT
1 AGCGCGCCCCTGCACCGCGCTATACGATGATCT-GCGTCACGTGGGTAT
* *
111011 AGCGCGCCCCTGCCCCGCGATATACGATGATCTGCGTCACGTGGGTAT
1 AGCGCGCCCCTGCACCGCGCTATACGATGATCTGCGTCACGTGGGTAT
111059 AGCGCGCCCCCTG-ATCCGCGCTATACG
1 AGCGCG-CCCCTGCA-CCGCGCTATACG
111086 CCACGTAGGG
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
48 20 0.31
49 44 0.69
ACGTcount: A:0.15, C:0.34, G:0.28, T:0.23
Consensus pattern (48 bp):
AGCGCGCCCCTGCACCGCGCTATACGATGATCTGCGTCACGTGGGTAT
Found at i:112627 original size:94 final size:94
Alignment explanation
Indices: 112466--112656 Score: 382
Period size: 94 Copynumber: 2.0 Consensus size: 94
112456 GACAAAAAAA
112466 TATGTATGCTAATGTGCCCGACGTAAAAACGGATGCAATTGGATGGTTCGCGTATCGAAAATGAA
1 TATGTATGCTAATGTGCCCGACGTAAAAACGGATGCAATTGGATGGTTCGCGTATCGAAAATGAA
112531 GAGGAAAAACAACATATGAGAACTAACAG
66 GAGGAAAAACAACATATGAGAACTAACAG
112560 TATGTATGCTAATGTGCCCGACGTAAAAACGGATGCAATTGGATGGTTCGCGTATCGAAAATGAA
1 TATGTATGCTAATGTGCCCGACGTAAAAACGGATGCAATTGGATGGTTCGCGTATCGAAAATGAA
112625 GAGGAAAAACAACATATGAGAACTAACAG
66 GAGGAAAAACAACATATGAGAACTAACAG
112654 TAT
1 TAT
112657 ACAATGGTCC
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 97 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (94 bp):
TATGTATGCTAATGTGCCCGACGTAAAAACGGATGCAATTGGATGGTTCGCGTATCGAAAATGAA
GAGGAAAAACAACATATGAGAACTAACAG
Found at i:113470 original size:50 final size:50
Alignment explanation
Indices: 113395--113529 Score: 270
Period size: 50 Copynumber: 2.7 Consensus size: 50
113385 ATGGGTAAGT
113395 GAAAGCAAGTTAGTAAGTTATACATTTTTTGATCATTTTAATTTTGTAAA
1 GAAAGCAAGTTAGTAAGTTATACATTTTTTGATCATTTTAATTTTGTAAA
113445 GAAAGCAAGTTAGTAAGTTATACATTTTTTGATCATTTTAATTTTGTAAA
1 GAAAGCAAGTTAGTAAGTTATACATTTTTTGATCATTTTAATTTTGTAAA
113495 GAAAGCAAGTTAGTAAGTTATACATTTTTTGATCA
1 GAAAGCAAGTTAGTAAGTTATACATTTTTTGATCA
113530 GGTTACGAAC
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 85 1.00
ACGTcount: A:0.36, C:0.07, G:0.15, T:0.42
Consensus pattern (50 bp):
GAAAGCAAGTTAGTAAGTTATACATTTTTTGATCATTTTAATTTTGTAAA
Found at i:114795 original size:6 final size:6
Alignment explanation
Indices: 114784--114828 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
114774 ACTCCTCGCT
* *
114784 GTCATC GTCATC GTCATC GTCGTC GTCA-C --CATC GTCGTC GTCATC
1 GTCATC GTCATC GTCATC GTCATC GTCATC GTCATC GTCATC GTCATC
114829 ATCGTCGTCT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
3 2 0.06
4 1 0.03
5 1 0.03
6 28 0.88
ACGTcount: A:0.13, C:0.36, G:0.20, T:0.31
Consensus pattern (6 bp):
GTCATC
Found at i:114816 original size:15 final size:15
Alignment explanation
Indices: 114798--114837 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
114788 TCGTCATCGT
114798 CATCGTCGTCGTCAC
1 CATCGTCGTCGTCAC
*
114813 CATCGTCGTCGTCAT
1 CATCGTCGTCGTCAC
114828 CATCGTCGTC
1 CATCGTCGTC
114838 TTGAGCAGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.12, C:0.38, G:0.20, T:0.30
Consensus pattern (15 bp):
CATCGTCGTCGTCAC
Found at i:115202 original size:18 final size:18
Alignment explanation
Indices: 115176--115211 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
115166 AAAGGCGATG
*
115176 GCGGTATCATATATGGCT
1 GCGGCATCATATATGGCT
115194 GCGGCATCATATATGGCT
1 GCGGCATCATATATGGCT
115212 ACGGTGGCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (18 bp):
GCGGCATCATATATGGCT
Found at i:116791 original size:111 final size:111
Alignment explanation
Indices: 116659--116870 Score: 381
Period size: 111 Copynumber: 1.9 Consensus size: 111
116649 ATTACAAAAA
* * *
116659 TTAATTCTTAATCTAATAATCATGCAT-TAAATGAATTAACTAATTATTACTAATAATTTAAATT
1 TTAATTCTTAATCTAATAATCATGCATAT-AATAAATCAACTAAATATTACTAATAATTTAAATT
116723 AAATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTATCGAGATAT
65 AAATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTATCGAGATAT
116770 TTAATTCTTAATCTAATAATCATGCATATAATAAATCAACTAAATATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATATAATAAATCAACTAAATATTACTAATAATTTAAATTA
116835 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGT
116871 GTAGGGATAT
Statistics
Matches: 97, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
111 96 0.99
112 1 0.01
ACGTcount: A:0.45, C:0.11, G:0.07, T:0.36
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATATAATAAATCAACTAAATATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTATCGAGATAT
Found at i:117018 original size:12 final size:10
Alignment explanation
Indices: 117004--117044 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
116994 ACCTTAAAAA
*
117004 GAGAGTATTT
1 GAGAGAATTT
117014 GAGAGAAATTT
1 GAGAG-AATTT
117025 -AGAGAATTT
1 GAGAGAATTT
117034 GAGAGAATTT
1 GAGAGAATTT
117044 G
1 G
117045 GTGTGATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 5 0.18
10 19 0.68
11 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (10 bp):
GAGAGAATTT
Found at i:117220 original size:50 final size:50
Alignment explanation
Indices: 117166--117263 Score: 126
Period size: 50 Copynumber: 2.0 Consensus size: 50
117156 AGATATCCAG
* * * *
117166 GTATAGCGC-GGATCAGGGGGCACGCTATATCCACGTGGCGCCAGATCACT
1 GTATAGCGCGGGA-CAGGGCGCACGCTATACCCACGTGACGCCAAATCACT
* *
117216 GTATATCGCGGGACAGGGCGCGCGCTATACCCACGTGACGCCAAATCA
1 GTATAGCGCGGGACAGGGCGCACGCTATACCCACGTGACGCCAAATCA
117264 ACATATAACG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 38 0.93
51 3 0.07
ACGTcount: A:0.23, C:0.30, G:0.31, T:0.16
Consensus pattern (50 bp):
GTATAGCGCGGGACAGGGCGCACGCTATACCCACGTGACGCCAAATCACT
Found at i:117283 original size:50 final size:50
Alignment explanation
Indices: 117179--117276 Score: 117
Period size: 50 Copynumber: 2.0 Consensus size: 50
117169 TAGCGCGGAT
* * * * * *
117179 CAGGGGGCACGCTATATCCACGTGGCGCCAGATCACTGTATATCGCGGGA
1 CAGGGCGCACGCTATACCCACGTGACGCCAAATCACTATATAACGCGGGA
*
117229 CAGGGCGCGCGCTATACCCACGTGACGCCAAATCAAC-ATATAACGCGG
1 CAGGGCGCACGCTATACCCACGTGACGCCAAATC-ACTATATAACGCGG
117277 TGCAGGGGGG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
50 38 0.95
51 2 0.05
ACGTcount: A:0.26, C:0.31, G:0.29, T:0.15
Consensus pattern (50 bp):
CAGGGCGCACGCTATACCCACGTGACGCCAAATCACTATATAACGCGGGA
Found at i:117878 original size:14 final size:16
Alignment explanation
Indices: 117847--117880 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
117837 CAAAGTGGAA
117847 CAAATTTTACATCTTT
1 CAAATTTTACATCTTT
117863 CAAATTTTA-A-CTTT
1 CAAATTTTACATCTTT
117877 CAAA
1 CAAA
117881 GATATTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 1 0.06
16 9 0.50
ACGTcount: A:0.38, C:0.18, G:0.00, T:0.44
Consensus pattern (16 bp):
CAAATTTTACATCTTT
Found at i:137129 original size:229 final size:227
Alignment explanation
Indices: 136724--137172 Score: 783
Period size: 229 Copynumber: 2.0 Consensus size: 227
136714 GTAAATTATC
* * *
136724 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
**
136789 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
136854 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATT
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATT
136919 GAAACATAAA-TACATAACTTTCAAAAAAGTATA
195 GAAACATAAATTACATAACTTT-AAAAAAGTATA
*
136952 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
*
137017 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
65 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
* *
137082 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATT
130 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATT
137147 GAAACATAAATTACATAACTTTAAAA
195 GAAACATAAATTACATAACTTTAAAA
137173 GCAGTTATAA
Statistics
Matches: 210, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
228 58 0.28
229 152 0.72
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.39
Consensus pattern (227 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
AAACATAAATTACATAACTTTAAAAAAGTATA
Found at i:137261 original size:20 final size:19
Alignment explanation
Indices: 137238--137283 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
137228 CGATATACCA
137238 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
137258 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
137278 GGTAAA
1 GGTAAA
137284 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:137428 original size:20 final size:19
Alignment explanation
Indices: 137405--137451 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
137395 CGATATAACA
137405 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
137425 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
137445 GGTAAAA
1 GGTAAAA
137452 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:137453 original size:17 final size:19
Alignment explanation
Indices: 137414--137456 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
137404 AGGTAAAAAT
137414 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
137434 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
137451 ATGATA
1 ATGATA
137457 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:137684 original size:17 final size:17
Alignment explanation
Indices: 137662--137699 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
137652 TAGAACGGAC
137662 GAGTTTTTGAAATCGAA
1 GAGTTTTTGAAATCGAA
137679 GAGTTTTTGAAATCGAA
1 GAGTTTTTGAAATCGAA
137696 GAGT
1 GAGT
137700 AATTGTTGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.34
Consensus pattern (17 bp):
GAGTTTTTGAAATCGAA
Found at i:139741 original size:21 final size:21
Alignment explanation
Indices: 139694--139758 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
139684 AAGACAATCA
* *
139694 AGAGTCGAAGAGAAACTTGATC
1 AGAGTCGAAGAGAAACTCGA-G
*
139716 A-AGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
* *
139736 AGAGTCGAAGATACACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
139757 AG
1 AG
139759 GCATAAGGGG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.29, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTCGAG
Found at i:139839 original size:33 final size:33
Alignment explanation
Indices: 139792--139857 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
139782 AAATAGATGG
*
139792 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* * *
139825 AGTGGTGAATGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
139858 TATTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.27, C:0.00, G:0.48, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:141672 original size:19 final size:19
Alignment explanation
Indices: 141648--141696 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
141638 AATGTAGGGT
141648 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
141667 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
141686 T-ATTTTCGTAT
1 TAATTTT-GTAT
141697 GTGAATATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 5 0.18
19 23 0.82
ACGTcount: A:0.31, C:0.04, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:142881 original size:197 final size:199
Alignment explanation
Indices: 141821--142906 Score: 2115
Period size: 199 Copynumber: 5.5 Consensus size: 199
141811 GGCCAAAAGG
141821 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
141886 TGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATGGAAAACAGGGTGCACC
66 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGTGCACC
*
141950 CATAAAATGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
131 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
142015 TAAT
196 TAAT
*
142019 ATGTAATTTTTCAATCTAACCGGTACAATTATACTGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
142084 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGTGCACC
66 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGTGCACC
142149 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
131 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
142214 TAAT
196 TAAT
142218 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
142283 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGTGCACC
66 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGTGCACC
142348 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
131 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
142413 TAAT
196 TAAT
142417 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
142482 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGTGCACC
66 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGTGCACC
*
142547 CATAAAGTGTCGATCCATATATAAACAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
131 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
142612 TAAT
196 TAAT
142616 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
142681 TGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATGGAAAACAGGGTGCA-C
66 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGTGCACC
*
142744 CATAAAGTGTCGATCTATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
131 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
142809 TAAT
196 TAAT
142813 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
142878 TGTCGACACTAATATAGTTTGTGTCGATA
66 TGTCGACACTAATATAGTTTGTGTCGATA
142907 CTAATTTAAA
Statistics
Matches: 881, Mismatches: 6, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
197 162 0.18
198 126 0.14
199 593 0.67
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (199 bp):
ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGTGCACC
CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
TAAT
Found at i:144388 original size:18 final size:18
Alignment explanation
Indices: 144367--144428 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
144357 AGCGGTCGCA
144367 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* * *
144385 GAAGATGACGATGATGAT
1 GAAGATGAAGCTGACGAT
* *
144403 GACGATGAAGCTGGCGAT
1 GAAGATGAAGCTGACGAT
144421 GAAGATGA
1 GAAGATGA
144429 TGACGATGAT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.37, C:0.10, G:0.35, T:0.18
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Done.