Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004135.1 Hibiscus syriacus cultivar Beakdansim tig00009043_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: 76728
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Found at i:1530 original size:20 final size:20
Alignment explanation
Indices: 1505--1564 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
1495 CTCTGTATAG
1505 TAGTATCGATACCATAGGCA
1 TAGTATCGATACCATAGGCA
1525 TAGTATCGATACCATAGGCA
1 TAGTATCGATACCATAGGCA
*
1545 TAATATCGATACCATCAGGC
1 TAGTATCGATACCAT-AGGC
1565 CTCAACGACT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
20 34 0.89
21 4 0.11
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (20 bp):
TAGTATCGATACCATAGGCA
Found at i:4820 original size:22 final size:22
Alignment explanation
Indices: 4772--4825 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
4762 AAAAGATGAT
* *
4772 GAAGAAGAAGAAGTAACCCGGA
1 GAAGAAGAAGAAATAACACGGA
* * *
4794 AAAGAAGAAGAAATAATATGGA
1 GAAGAAGAAGAAATAACACGGA
4816 GAAGAAGAAG
1 GAAGAAGAAG
4826 GGGGTGGGTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.57, C:0.06, G:0.30, T:0.07
Consensus pattern (22 bp):
GAAGAAGAAGAAATAACACGGA
Found at i:5509 original size:22 final size:21
Alignment explanation
Indices: 5463--5505 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
5453 TGTTTACATT
5463 TTTATTAATTATTACAATTTAA
1 TTTATTAATTA-TACAATTTAA
5485 TTTATTAATTA-ACTAATTTAA
1 TTTATTAATTATAC-AATTTAA
5506 ATTTGATATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 2 0.10
21 7 0.35
22 11 0.55
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTATTAATTATACAATTTAA
Found at i:5537 original size:14 final size:14
Alignment explanation
Indices: 5520--5548 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
5510 GATATGGTAA
5520 AGATAAATTAAAAG
1 AGATAAATTAAAAG
5534 AGATAAATTAAAAG
1 AGATAAATTAAAAG
5548 A
1 A
5549 ACGAAGATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.14, T:0.21
Consensus pattern (14 bp):
AGATAAATTAAAAG
Found at i:7587 original size:3 final size:3
Alignment explanation
Indices: 7579--7659 Score: 162
Period size: 3 Copynumber: 27.0 Consensus size: 3
7569 AACTCGAAAT
7579 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
7627 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
7660 TAAATTCCAT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 78 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:12171 original size:46 final size:46
Alignment explanation
Indices: 12102--12230 Score: 177
Period size: 46 Copynumber: 2.8 Consensus size: 46
12092 ACCATTAAGT
* * *
12102 ATTTTTATTTGTGGCATCTTTTCATGCCAATTATGCATTGTTATAC
1 ATTTTCATTTATGACATCTTTTCATGCCAATTATGCATTGTTATAC
* * *
12148 ATTTTCATTTATGACATCCTTTCATGCTAATTATGCATTGTTTTAC
1 ATTTTCATTTATGACATCTTTTCATGCCAATTATGCATTGTTATAC
* * *
12194 ATTTTCATTTATAACATCTTTTAATGCCAACTATGCA
1 ATTTTCATTTATGACATCTTTTCATGCCAATTATGCA
12231 CAGCTAAGCC
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 72 1.00
ACGTcount: A:0.26, C:0.17, G:0.09, T:0.48
Consensus pattern (46 bp):
ATTTTCATTTATGACATCTTTTCATGCCAATTATGCATTGTTATAC
Found at i:12370 original size:82 final size:82
Alignment explanation
Indices: 12226--13046 Score: 1276
Period size: 82 Copynumber: 10.1 Consensus size: 82
12216 AATGCCAACT
* * *
12226 ATGCACAGCTAAGCCATTAATCTTTTA-CTCAAAGGTATTTAACCTTTCATCTAGCTGGCATAAT
1 ATGCACAACTAGGCCATTAATCTTTTATCTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
**
12290 TGACACATTTCTGTCCC
66 TGACACATTTCTGTCAA
* *
12307 ATGCACATCTAGGCCATTAATCTTTTATCTCAAAGGTATTTAACCTTTCATCTAACTGACATAAT
1 ATGCACAACTAGGCCATTAATCTTTTATCTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
* *
12372 TGACACCTTTATGTCAA
66 TGACACATTTCTGTCAA
* * *
12389 ATGCACAGCTAGACCATTAATATTTTATCTCAAAGGTATTTAACCTTTCATCTAACTGGCATAA-
1 ATGCACAACTAGGCCATTAATCTTTTATCTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
*
12453 TGAACACCTTTCT-TCAA
66 TG-ACACATTTCTGTCAA
* *
12470 ATGCACAACTAGGCCATTAATATTTTA-CTCAAAGATATTTAACCTTTCATCTAACTGGCATAAT
1 ATGCACAACTAGGCCATTAATCTTTTATCTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
*
12534 TGACACATTTATGTCAA
66 TGACACATTTCTGTCAA
* **
12551 ATGCACAGCTAGATCATTAATCTTTTATCTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
1 ATGCACAACTAGGCCATTAATCTTTTATCTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
* *
12616 TGGCATATTTCTGTCAA
66 TGACACATTTCTGTCAA
* * *
12633 ATGCATAGCTAGACCATTAATCTTTTATCTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
1 ATGCACAACTAGGCCATTAATCTTTTATCTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
*
12698 TGACACCTTTCTGTTC-A
66 TGACACATTTCTG-TCAA
12715 ATGCACAACTAGGCCATTAATCTTTTA-CTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
1 ATGCACAACTAGGCCATTAATCTTTTATCTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
*
12779 TGACACCTTTCTGTCAA
66 TGACACATTTCTGTCAA
* *
12796 ATGCACAACTAGGCCATTACTCTTTTATCTCAAAGGTATTTAGCCTTTCATCTAACTGGCATAAT
1 ATGCACAACTAGGCCATTAATCTTTTATCTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
12861 TGACACATTTCTGTCAA
66 TGACACATTTCTGTCAA
12878 ATGCACAACTAGGCCATTAATCTTTTATCTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
1 ATGCACAACTAGGCCATTAATCTTTTATCTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
12943 TGACACATTTCTGTCAA
66 TGACACATTTCTGTCAA
** * * *
12960 ATGCATTACTAGGCCATTAATATTTTATTTCAAAGGTATTTAACCTTTCATCTAACTGACATAAT
1 ATGCACAACTAGGCCATTAATCTTTTATCTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
*
13025 TGACACATTTCTATCAA
66 TGACACATTTCTGTCAA
13042 ATGCA
1 ATGCA
13047 TAGCTAGTGT
Statistics
Matches: 687, Mismatches: 45, Indels: 15
0.92 0.06 0.02
Matches are distributed among these distances:
80 45 0.07
81 162 0.24
82 478 0.70
83 2 0.00
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.36
Consensus pattern (82 bp):
ATGCACAACTAGGCCATTAATCTTTTATCTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
TGACACATTTCTGTCAA
Found at i:12852 original size:245 final size:246
Alignment explanation
Indices: 12226--13046 Score: 1310
Period size: 245 Copynumber: 3.3 Consensus size: 246
12216 AATGCCAACT
* * * *
12226 ATGCACAGCTAAGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAGCTGGCATAATT
1 ATGCACAACTAGGCCATTAATATTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATT
** *
12291 GACACATTTCTGTCCCATGCACATCTAGGCCATTAATCTTTTATCTCAAAGGTATTTAACCTTTC
66 GACACATTTCTGTCAAATGCACAACTAGGCCATTAATCTTTTATCTCAAAGGTATTTAACCTTTC
* * * *
12356 ATCTAACTGACATAATTGACACCTTTATGTCAAATGCACAGCTAGACCATTAATATTTTATCTCA
131 ATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGCTAGACCATTAATCTTTTATCTCA
12421 AAGGTATTTAACCTTTCATCTAACTGGCATAA-TGAACACCTTTC--TTCAA
196 AAGGTATTTAACCTTTCATCTAACTGGCATAATTG-ACACCTTTCTGTTCAA
*
12470 ATGCACAACTAGGCCATTAATATTTTACTCAAAGATATTTAACCTTTCATCTAACTGGCATAATT
1 ATGCACAACTAGGCCATTAATATTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATT
* * **
12535 GACACATTTATGTCAAATGCACAGCTAGATCATTAATCTTTTATCTCAAAGGTATTTAACCTTTC
66 GACACATTTCTGTCAAATGCACAACTAGGCCATTAATCTTTTATCTCAAAGGTATTTAACCTTTC
* * *
12600 ATCTAACTGGCATAATTGGCATATTTCTGTCAAATGCATAGCTAGACCATTAATCTTTTATCTCA
131 ATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGCTAGACCATTAATCTTTTATCTCA
12665 AAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTTC-A
196 AAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTTCAA
*
12715 ATGCACAACTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATT
1 ATGCACAACTAGGCCATTAATATTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATT
* * *
12780 GACACCTTTCTGTCAAATGCACAACTAGGCCATTACTCTTTTATCTCAAAGGTATTTAGCCTTTC
66 GACACATTTCTGTCAAATGCACAACTAGGCCATTAATCTTTTATCTCAAAGGTATTTAACCTTTC
* *
12845 ATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAACTAGGCCATTAATCTTTTATCTCA
131 ATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGCTAGACCATTAATCTTTTATCTCA
*
12910 AAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTG-TCAA
196 AAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTTCAA
** * *
12960 ATGCATTACTAGGCCATTAATATTTTATTTCAAAGGTATTTAACCTTTCATCTAACTGACATAAT
1 ATGCACAACTAGGCCATTAATATTTTA-CTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
*
13025 TGACACATTTCTATCAAATGCA
65 TGACACATTTCTGTCAAATGCA
13047 TAGCTAGTGT
Statistics
Matches: 532, Mismatches: 40, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
244 220 0.41
245 254 0.48
246 58 0.11
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.36
Consensus pattern (246 bp):
ATGCACAACTAGGCCATTAATATTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATT
GACACATTTCTGTCAAATGCACAACTAGGCCATTAATCTTTTATCTCAAAGGTATTTAACCTTTC
ATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGCTAGACCATTAATCTTTTATCTCA
AAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTTCAA
Found at i:13893 original size:19 final size:22
Alignment explanation
Indices: 13866--13917 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
13856 TAAAAATGGC
13866 ATCGATACCATA-TA-AG-AGT
1 ATCGATACCATAGTATAGTAGT
*
13885 ATCGGTACCATAGTATAGTAGT
1 ATCGATACCATAGTATAGTAGT
13907 ATCGATACCAT
1 ATCGATACCAT
13918 GGTAGGGGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 11 0.39
20 2 0.07
21 2 0.07
22 13 0.46
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (22 bp):
ATCGATACCATAGTATAGTAGT
Found at i:14357 original size:55 final size:55
Alignment explanation
Indices: 14273--14463 Score: 278
Period size: 55 Copynumber: 3.5 Consensus size: 55
14263 AAGTGTGCAA
*
14273 AAACTTAAGAAATTCATACGAAGTGGATGAATTTCTGTATGGGCACTTTATGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGGGCACTTTATGTGT
*
14328 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGGGCACTTTATGTGT
* * * *
14383 AGACTTAAGAAATTCATACTAAGTGGATGAATTT-TCATATGGGTACTTTATGTGCA
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCT-GTATGGGCACTTTATGTG-T
*
14439 AAAC-TAGGAAATTTCATACTAAGTG
1 AAACTTAAGAAA-TTCATACTAAGTG
14464 TATATATATT
Statistics
Matches: 124, Mismatches: 9, Indels: 5
0.90 0.07 0.04
Matches are distributed among these distances:
55 108 0.87
56 16 0.13
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.34
Consensus pattern (55 bp):
AAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGGGCACTTTATGTGT
Found at i:15671 original size:17 final size:18
Alignment explanation
Indices: 15649--15694 Score: 85
Period size: 17 Copynumber: 2.6 Consensus size: 18
15639 TCTTCTCCAA
15649 AGTATCGATACCCCC-TC
1 AGTATCGATACCCCCTTC
15666 AGTATCGATACCCCCTTC
1 AGTATCGATACCCCCTTC
15684 AGTATCGATAC
1 AGTATCGATAC
15695 TAATTACATC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 15 0.54
18 13 0.46
ACGTcount: A:0.26, C:0.35, G:0.13, T:0.26
Consensus pattern (18 bp):
AGTATCGATACCCCCTTC
Found at i:17155 original size:19 final size:19
Alignment explanation
Indices: 17122--17159 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
17112 TTTAAAAAAC
17122 ATTTCAACACTTAACATTT
1 ATTTCAACACTTAACATTT
17141 ATTTCAACACTTAACATTT
1 ATTTCAACACTTAACATTT
17160 CTTCCCCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.21, G:0.00, T:0.42
Consensus pattern (19 bp):
ATTTCAACACTTAACATTT
Found at i:17874 original size:21 final size:21
Alignment explanation
Indices: 17850--17893 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
17840 AAGGAGGAGG
* *
17850 AGGAGGAGCACGAGAGGAGCT
1 AGGAGCAGCACGAGAGGAACT
*
17871 AGGAGCAGCTCGAGAGGAACT
1 AGGAGCAGCACGAGAGGAACT
17892 AG
1 AG
17894 CTCTCGGAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.16, G:0.43, T:0.07
Consensus pattern (21 bp):
AGGAGCAGCACGAGAGGAACT
Found at i:22781 original size:22 final size:21
Alignment explanation
Indices: 22739--22778 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
22729 GAGTTTGTTT
*
22739 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
22760 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
22779 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:24792 original size:64 final size:62
Alignment explanation
Indices: 24724--24882 Score: 171
Period size: 63 Copynumber: 2.5 Consensus size: 62
24714 TGCACTAAGA
*
24724 GTGCATCGATGCATCAAGTGCATTCGATGTT-TTA-AAATAGCC-CGAGTGCATTGATGCATGGC
1 GTGCATCGATGCATCAA-TGCATTCGATGTTCTTATAAA-AGCCTC-AGTGCATCGATGCATGG-
24786 T
62 T
* * * *
24787 GGTGCATCGATGCATCAAATGAATTTGATGTTCTTATAAAATCCTCAGTGCATCGGTGCATGGT
1 -GTGCATCGATGCATC-AATGCATTCGATGTTCTTATAAAAGCCTCAGTGCATCGATGCATGGT
**
24851 GTGCATCGATGCATGGTATGCATTCGATGTTC
1 GTGCATCGATGCAT-CAATGCATTCGATGTTC
24883 AATTTAATTC
Statistics
Matches: 81, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
63 27 0.33
64 27 0.33
65 23 0.28
66 4 0.05
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (62 bp):
GTGCATCGATGCATCAATGCATTCGATGTTCTTATAAAAGCCTCAGTGCATCGATGCATGGT
Found at i:24856 original size:17 final size:17
Alignment explanation
Indices: 24834--24879 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
24824 AAAATCCTCA
*
24834 GTGCATCGGTGCATGGT
1 GTGCATCGATGCATGGT
24851 GTGCATCGATGCATGGT
1 GTGCATCGATGCATGGT
*
24868 ATGCATTCGATG
1 GTGCA-TCGATG
24880 TTCAATTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 20 0.77
18 6 0.23
ACGTcount: A:0.17, C:0.17, G:0.35, T:0.30
Consensus pattern (17 bp):
GTGCATCGATGCATGGT
Found at i:30185 original size:46 final size:46
Alignment explanation
Indices: 30135--30242 Score: 171
Period size: 46 Copynumber: 2.3 Consensus size: 46
30125 TTGCATCATT
*
30135 TCATGCCAATTATGCATTGTCATACATTTTCATTTATGGCATCCTC
1 TCATGCCAATTATGCATTGTCATACATTTTCATTTATGACATCCTC
* * *
30181 TCATGCAAATTATGCATTGTTATACATTTTCATTTATGACATCCTT
1 TCATGCCAATTATGCATTGTCATACATTTTCATTTATGACATCCTC
*
30227 TCATGCCAACTATGCA
1 TCATGCCAATTATGCA
30243 CAACTAAGCC
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 56 1.00
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (46 bp):
TCATGCCAATTATGCATTGTCATACATTTTCATTTATGACATCCTC
Found at i:30453 original size:82 final size:82
Alignment explanation
Indices: 30238--31082 Score: 1221
Period size: 82 Copynumber: 10.3 Consensus size: 82
30228 CATGCCAACT
*
30238 ATGCACAACTAAGCCATTAATCTTTTA-CTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
1 ATGCACAACTAGGCCATTAATCTTTTATCTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
* * **
30302 TGACACATTT-TTTCCC
66 TGACACCTTTCTGTCAA
* *
30318 ATTCACAACTAGGCCATTAATCTTTTATCTCAAAGGTATTTAACCTTTCATCTAATTGGCATAAT
1 ATGCACAACTAGGCCATTAATCTTTTATCTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
*
30383 TGACACATTTCTGTCAA
66 TGACACCTTTCTGTCAA
* * * * ** *
30400 ATGCACAGCTAGACCATTAATTTTTTATCTAAAAAATATTTAACCTTTCATCTAACTGACATAAT
1 ATGCACAACTAGGCCATTAATCTTTTATCTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
* *
30465 TGACACTTTTTTGTCAA
66 TGACACCTTTCTGTCAA
* * * *
30482 ATGCACATCTAGGTCATTAATCTTCTATCTCAAAGGTATTTAACATTTCATCTAACTGGCATAAT
1 ATGCACAACTAGGCCATTAATCTTTTATCTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
30547 TGACACCTTTCTGTCAA
66 TGACACCTTTCTGTCAA
* * *
30564 ATGCACAACTAGGCCATTAATATTTTA-CTCTAAGGTATTTAACCTTTCATCTAACTGGCATACT
1 ATGCACAACTAGGCCATTAATCTTTTATCTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
*
30628 TGACACCTTTTTGTCAA
66 TGACACCTTTCTGTCAA
* * ** *
30645 ATGCATAGCTACACCATTAATCTTTTATCTCAAAGGTATTTAACCTTTCATATAACTGGCATAAT
1 ATGCACAACTAGGCCATTAATCTTTTATCTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
*
30710 TGACACATTTCTGTCAA
66 TGACACCTTTCTGTCAA
* * * *
30727 ATGCACAGCTAGACCATCAATCTTTTATCTAAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
1 ATGCACAACTAGGCCATTAATCTTTTATCTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
30792 TGACACCTTTCTGTCAA
66 TGACACCTTTCTGTCAA
* * *
30809 ATGCACAACTAGTCCATTAATCTTTTATCTCAAAGGTATTTACCCTTTCATCTAACTGACATAAT
1 ATGCACAACTAGGCCATTAATCTTTTATCTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
* * *
30874 TAACACATTCCTGTCAA
66 TGACACCTTTCTGTCAA
* *
30891 ATGCACAGCTAGGCCATTAATCTTTTA-CTCAAAGGGTATTTAACCTTTCATCTAACTGACATAA
1 ATGCACAACTAGGCCATTAATCTTTTATCTCAAA-GGTATTTAACCTTTCATCTAACTGGCATAA
*
30955 TTGACACCTTTCTTTCAA
65 TTGACACCTTTCTGTCAA
* *
30973 ATGCACAACTACGCCATTAATCTTTTATCTCAAAGGTATTTAACCTTTTATCTAACTGGCATAAT
1 ATGCACAACTAGGCCATTAATCTTTTATCTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
31038 TGACACCTTTCTGTCAA
66 TGACACCTTTCTGTCAA
* *
31055 ATGCACATCTAGGCCATTAATATTTTAT
1 ATGCACAACTAGGCCATTAATCTTTTAT
31083 TTAGAACAAT
Statistics
Matches: 683, Mismatches: 77, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
80 25 0.04
81 124 0.18
82 528 0.77
83 6 0.01
ACGTcount: A:0.32, C:0.22, G:0.10, T:0.37
Consensus pattern (82 bp):
ATGCACAACTAGGCCATTAATCTTTTATCTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
TGACACCTTTCTGTCAA
Found at i:30695 original size:245 final size:246
Alignment explanation
Indices: 30238--31082 Score: 1268
Period size: 245 Copynumber: 3.4 Consensus size: 246
30228 CATGCCAACT
*
30238 ATGCACAACTAAGCCATTAATCTTTTA-CTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
1 ATGCACAACTAGGCCATTAATCTTTTATCTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
* * ** * *
30302 TGACACATTT-TTTCCCATTCACAACTAGGCCATTAATCTTTTATCTCAAAGGTATTTAACCTTT
66 TGACACCTTTCTGTCAAATGCACAACTAGGCCATTAATATTTTATCTCAAAGGTATTTAACCTTT
* * *
30366 CATCTAATTGGCATAATTGACACATTTCTGTCAAATGCACAGCTAGACCATTAATTTTTTATCTA
131 CATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGCTAGACCATTAATCTTTTATCTC
**
30431 AAAAATATTTAACCTTTCATCTAACTGACATAATTGACACTTTTTTGTCAA
196 AAAGGTATTTAACCTTTCATCTAACTGACATAATTGACACTTTTTTGTCAA
* * * *
30482 ATGCACATCTAGGTCATTAATCTTCTATCTCAAAGGTATTTAACATTTCATCTAACTGGCATAAT
1 ATGCACAACTAGGCCATTAATCTTTTATCTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
*
30547 TGACACCTTTCTGTCAAATGCACAACTAGGCCATTAATATTTTA-CTCTAAGGTATTTAACCTTT
66 TGACACCTTTCTGTCAAATGCACAACTAGGCCATTAATATTTTATCTCAAAGGTATTTAACCTTT
* * * * *
30611 CATCTAACTGGCATACTTGACACCTTTTTGTCAAATGCATAGCTACACCATTAATCTTTTATCTC
131 CATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGCTAGACCATTAATCTTTTATCTC
* * * *
30676 AAAGGTATTTAACCTTTCATATAACTGGCATAATTGACACATTTCTGTCAA
196 AAAGGTATTTAACCTTTCATCTAACTGACATAATTGACACTTTTTTGTCAA
* * * *
30727 ATGCACAGCTAGACCATCAATCTTTTATCTAAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
1 ATGCACAACTAGGCCATTAATCTTTTATCTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
* * *
30792 TGACACCTTTCTGTCAAATGCACAACTAGTCCATTAATCTTTTATCTCAAAGGTATTTACCCTTT
66 TGACACCTTTCTGTCAAATGCACAACTAGGCCATTAATATTTTATCTCAAAGGTATTTAACCTTT
* * * *
30857 CATCTAACTGACATAATTAACACATTCCTGTCAAATGCACAGCTAGGCCATTAATCTTTTA-CTC
131 CATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGCTAGACCATTAATCTTTTATCTC
*
30921 AAAGGGTATTTAACCTTTCATCTAACTGACATAATTGACACCTTTCTT-TCAA
196 AAA-GGTATTTAACCTTTCATCTAACTGACATAATTGACA-CTTTTTTGTCAA
* *
30973 ATGCACAACTACGCCATTAATCTTTTATCTCAAAGGTATTTAACCTTTTATCTAACTGGCATAAT
1 ATGCACAACTAGGCCATTAATCTTTTATCTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
*
31038 TGACACCTTTCTGTCAAATGCACATCTAGGCCATTAATATTTTAT
66 TGACACCTTTCTGTCAAATGCACAACTAGGCCATTAATATTTTAT
31083 TTAGAACAAT
Statistics
Matches: 536, Mismatches: 60, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
244 23 0.04
245 272 0.51
246 237 0.44
247 4 0.01
ACGTcount: A:0.32, C:0.22, G:0.10, T:0.37
Consensus pattern (246 bp):
ATGCACAACTAGGCCATTAATCTTTTATCTCAAAGGTATTTAACCTTTCATCTAACTGGCATAAT
TGACACCTTTCTGTCAAATGCACAACTAGGCCATTAATATTTTATCTCAAAGGTATTTAACCTTT
CATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGCTAGACCATTAATCTTTTATCTC
AAAGGTATTTAACCTTTCATCTAACTGACATAATTGACACTTTTTTGTCAA
Found at i:34103 original size:22 final size:23
Alignment explanation
Indices: 34075--34122 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 23
34065 GAACTCAAGC
34075 TTTCGAAT-GGAAAAATAATAG-T
1 TTTCGAATAGG-AAAATAATAGCT
34097 TTTCGAATAGGAAAATAATAGCT
1 TTTCGAATAGGAAAATAATAGCT
34120 TTT
1 TTT
34123 GAAAACGTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.42, C:0.06, G:0.17, T:0.35
Consensus pattern (23 bp):
TTTCGAATAGGAAAATAATAGCT
Found at i:37205 original size:39 final size:39
Alignment explanation
Indices: 37162--37248 Score: 165
Period size: 39 Copynumber: 2.2 Consensus size: 39
37152 CCACAAGAAG
37162 AATCTATTGAGGTACTATATTGAACTTAATAATAAATAA
1 AATCTATTGAGGTACTATATTGAACTTAATAATAAATAA
37201 AATCTATTGAGGTACTATATTGAACTTAATAATAAATAA
1 AATCTATTGAGGTACTATATTGAACTTAATAATAAATAA
*
37240 AATCAATTG
1 AATCTATTG
37249 CTAATGATGT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.36
Consensus pattern (39 bp):
AATCTATTGAGGTACTATATTGAACTTAATAATAAATAA
Found at i:37588 original size:18 final size:17
Alignment explanation
Indices: 37560--37596 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
37550 AGTAGTTTAG
*
37560 TTTGTTTGTTGTCTTAT
1 TTTGTTTGTTGTCCTAT
37577 TTTGTATTGTTGTCCTAT
1 TTTGT-TTGTTGTCCTAT
37595 TT
1 TT
37597 CATTTTGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.08, C:0.08, G:0.16, T:0.68
Consensus pattern (17 bp):
TTTGTTTGTTGTCCTAT
Found at i:40513 original size:21 final size:21
Alignment explanation
Indices: 40487--40534 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
40477 AGTCGAAAAT
**
40487 GAAGCAAGGGAAGCAGAGAGA
1 GAAGCAACAGAAGCAGAGAGA
* *
40508 GCAGCAACAGAAGTAGAGAGA
1 GAAGCAACAGAAGCAGAGAGA
40529 GAAGCA
1 GAAGCA
40535 GTGGTAGCAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.48, C:0.12, G:0.38, T:0.02
Consensus pattern (21 bp):
GAAGCAACAGAAGCAGAGAGA
Found at i:41059 original size:43 final size:43
Alignment explanation
Indices: 40993--41253 Score: 296
Period size: 43 Copynumber: 6.1 Consensus size: 43
40983 CTTTAACGAC
* * *
40993 GTTTGTGGGGAAAATGCCGCTAAATCTCAACACCTATTGCGGT
1 GTTTGTGAGAAAAACGCCGCTAAATCTCAACACCTATTGCGGT
* * *
41036 ATTTGTGAGAAAAACGCCACTAAATCTCAACACCTATTAC-G-
1 GTTTGTGAGAAAAACGCCGCTAAATCTCAACACCTATTGCGGT
* * * * * *
41077 GCTTGTGAGAAAAACGCTGCTAAACCTAAACACCTATCGTGGT
1 GTTTGTGAGAAAAACGCCGCTAAATCTCAACACCTATTGCGGT
**
41120 GTTTGTGAGAAAAACGCCGCTAAATCTCAACACCTATTGCGAC
1 GTTTGTGAGAAAAACGCCGCTAAATCTCAACACCTATTGCGGT
* * * * * *
41163 GTTTGTG-GGAAAATGCTGCTAAATCTTAAAAACTATTGC-GT
1 GTTTGTGAGAAAAACGCCGCTAAATCTCAACACCTATTGCGGT
*
41204 CGTTTGTGAGAAAAACGCCGCTAAATCTCAACACCTATTACGGT
1 -GTTTGTGAGAAAAACGCCGCTAAATCTCAACACCTATTGCGGT
41248 GTTTGT
1 GTTTGT
41254 TCAATATCAT
Statistics
Matches: 175, Mismatches: 38, Indels: 10
0.78 0.17 0.04
Matches are distributed among these distances:
41 31 0.18
42 35 0.20
43 107 0.61
44 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.27
Consensus pattern (43 bp):
GTTTGTGAGAAAAACGCCGCTAAATCTCAACACCTATTGCGGT
Found at i:41100 original size:84 final size:83
Alignment explanation
Indices: 41011--41246 Score: 314
Period size: 84 Copynumber: 2.8 Consensus size: 83
41001 GGAAAATGCC
* * *
41011 GCTAAATCTCAACACCTATTGCGGTATTTGTGAGAAAAACGCCACTAAATCTCAACACCTATTAC
1 GCTAAATCTAAACACCTATTGCGGTGTTTGTGAGAAAAACGCCGCTAAATCTCAACACCTATTAC
41076 GGCTTGTGAGAAAAACGCT
66 GGCTTGTG-GAAAAACGCT
* * * *
41095 GCTAAACCTAAACACCTATCGTGGTGTTTGTGAGAAAAACGCCGCTAAATCTCAACACCTATTGC
1 GCTAAATCTAAACACCTATTGCGGTGTTTGTGAGAAAAACGCCGCTAAATCTCAACACCTATTAC
* * *
41160 GACGTTTGTGGGAAAATGCT
66 G--GCTTGTGGAAAAACGCT
*
41180 GCTAAATCTTAAA-AACTATTGC-GTCGTTTGTGAGAAAAACGCCGCTAAATCTCAACACCTATT
1 GCTAAATC-TAAACACCTATTGCGGT-GTTTGTGAGAAAAACGCCGCTAAATCTCAACACCTATT
41243 ACGG
64 ACGG
41247 TGTTTGTTCA
Statistics
Matches: 133, Mismatches: 15, Indels: 9
0.85 0.10 0.06
Matches are distributed among these distances:
83 1 0.01
84 61 0.46
85 61 0.46
86 10 0.08
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (83 bp):
GCTAAATCTAAACACCTATTGCGGTGTTTGTGAGAAAAACGCCGCTAAATCTCAACACCTATTAC
GGCTTGTGGAAAAACGCT
Found at i:42661 original size:19 final size:20
Alignment explanation
Indices: 42618--42663 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
42608 TTTAGATATT
42618 ATTTTATATTTTTATTAATA
1 ATTTTATATTTTTATTAATA
*
42638 A-TTTAT-TTTATTTTTAA-A
1 ATTTTATATTT-TTATTAATA
42656 ATTTTATA
1 ATTTTATA
42664 AATTTATCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
18 5 0.23
19 16 0.73
20 1 0.05
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
ATTTTATATTTTTATTAATA
Found at i:47056 original size:17 final size:18
Alignment explanation
Indices: 47034--47076 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
47024 TAATATTCGA
*
47034 ATAATTT-AATTGAATAT
1 ATAATTTGAATCGAATAT
47051 ATAATTTTGAATCGAATAT
1 ATAA-TTTGAATCGAATAT
*
47070 AAAATTT
1 ATAATTT
47077 TAAAATTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 4 0.18
18 6 0.27
19 12 0.55
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (18 bp):
ATAATTTGAATCGAATAT
Found at i:47261 original size:23 final size:23
Alignment explanation
Indices: 47216--47269 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
47206 AATTTTGAAA
*
47216 AATTACT-CCCGCTTAGTACATT
1 AATTACTCCCCGCTTACTACATT
* *
47238 AATTACTCCCCTCTTACTATATT
1 AATTACTCCCCGCTTACTACATT
47261 -ATT-CTCCCC
1 AATTACTCCCC
47270 ATTTTTGTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 6 0.21
22 10 0.36
23 12 0.43
ACGTcount: A:0.24, C:0.33, G:0.04, T:0.39
Consensus pattern (23 bp):
AATTACTCCCCGCTTACTACATT
Found at i:47536 original size:14 final size:15
Alignment explanation
Indices: 47517--47546 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
47507 AATATCATTC
47517 AACC-AAATCAAACA
1 AACCAAAATCAAACA
47531 AACCAAAATCAAACA
1 AACCAAAATCAAACA
47546 A
1 A
47547 TTAAATCCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.67, C:0.27, G:0.00, T:0.07
Consensus pattern (15 bp):
AACCAAAATCAAACA
Found at i:60298 original size:2 final size:2
Alignment explanation
Indices: 60291--60323 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
60281 AACTTGTTAA
60291 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
60324 ATTTGATCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:60850 original size:13 final size:13
Alignment explanation
Indices: 60832--60856 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60822 TTGTTTAAAA
60832 TAAAAAATATTTT
1 TAAAAAATATTTT
60845 TAAAAAATATTT
1 TAAAAAATATTT
60857 ATATAACTTT
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TAAAAAATATTTT
Found at i:62122 original size:31 final size:30
Alignment explanation
Indices: 62054--62128 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 30
62044 TGGGGCCTGC
* *
62054 GAGCCTACCCAAGAAAATTCTCGGGCCACA
1 GAGCCTACCCAAGAAAAATATCGGGCCACA
***
62084 GAGGCCTACCCAAGAAAAATATCAGGGTTGCA
1 GA-GCCTACCCAAGAAAAATATC-GGGCCACA
62116 GAGCCTACCCAAG
1 GAGCCTACCCAAG
62129 GGTCGCCTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
30 2 0.05
31 29 0.76
32 7 0.18
ACGTcount: A:0.35, C:0.29, G:0.23, T:0.13
Consensus pattern (30 bp):
GAGCCTACCCAAGAAAAATATCGGGCCACA
Found at i:63217 original size:26 final size:26
Alignment explanation
Indices: 63190--63238 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
63180 AATCTTTTAT
*
63190 TTTA-GTCCTTTACTTTATATTTAAA
1 TTTATGTCATTTACTTTATATTTAAA
*
63215 TTTATGTCATTTACTTTTTATTTA
1 TTTATGTCATTTACTTTATATTTA
63239 TTTAATTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.24, C:0.10, G:0.04, T:0.61
Consensus pattern (26 bp):
TTTATGTCATTTACTTTATATTTAAA
Found at i:63305 original size:16 final size:14
Alignment explanation
Indices: 63230--63307 Score: 61
Period size: 14 Copynumber: 5.3 Consensus size: 14
63220 GTCATTTACT
63230 TTTTATTTA-TTTAA
1 TTTT-TTTACTTTAA
**
63244 TTTCATTACTTTAA
1 TTTTTTTACTTTAA
*
63258 TTTTCTTT-TTTTAA
1 TTTT-TTTACTTTAA
63272 TTATTTTTACTTTAAA
1 TT-TTTTTACTTT-AA
63288 TTTTTTAATACTTTAA
1 TTTTTT--TACTTTAA
63304 TTTT
1 TTTT
63308 AGTCTTTTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
13 3 0.06
14 21 0.41
15 11 0.22
16 10 0.20
17 6 0.12
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTTTTTACTTTAA
Found at i:64419 original size:17 final size:17
Alignment explanation
Indices: 64397--64429 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
64387 CTACCTCGAA
64397 TGGTTTTCACCTCCGTG
1 TGGTTTTCACCTCCGTG
64414 TGGTTTTCACCTCCGT
1 TGGTTTTCACCTCCGT
64430 ATGGACATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.06, C:0.30, G:0.21, T:0.42
Consensus pattern (17 bp):
TGGTTTTCACCTCCGTG
Found at i:74856 original size:14 final size:14
Alignment explanation
Indices: 74837--74867 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
74827 ATGAGTCACA
74837 AGATGGCCAATGAG
1 AGATGGCCAATGAG
74851 AGATGGCCAATGAG
1 AGATGGCCAATGAG
74865 AGA
1 AGA
74868 GGGTCTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.39, C:0.13, G:0.35, T:0.13
Consensus pattern (14 bp):
AGATGGCCAATGAG
Found at i:75277 original size:135 final size:135
Alignment explanation
Indices: 75035--75745 Score: 1007
Period size: 135 Copynumber: 5.2 Consensus size: 135
75025 TCTCAAAGAT
*
75035 CAGATGTCCTCATCACGAAGGAACAATGTCATCTACCAATCAGAACTCTTCATCAAGAAGGAGTC
1 CAGATGTCCTCATCACGAAGGAACAATGTCATCTACCAATCAGAACTCTTCATCACGAAGGAGTC
* *
75100 -TGTCATCCTTAGATAACCAAACGTCCTCATCACGAAGGAACTATGTTATCTCAGATGTCTTAAA
66 GTGTCATCC-TAGATAACCAAACGTCCTCATCACGAAGGAACTATGTTATCTCAAATATCTTAAA
75164 GATGGC
130 GATGGC
* *
75170 CAGATGTCCTCATCACGAATGAACAATGTCATCTACCAATCAGAACTCTTCATCACGAAGGAGTA
1 CAGATGTCCTCATCACGAAGGAACAATGTCATCTACCAATCAGAACTCTTCATCACGAAGGAGTC
* * *
75235 GTGTCATCCTAGATAACCAAACGTCCTCATCAAGAAGGAACTATGTTATCTCAGATGTCTTAAAG
66 GTGTCATCCTAGATAACCAAACGTCCTCATCACGAAGGAACTATGTTATCTCAAATATCTTAAAG
*
75300 ATGGT
131 ATGGC
*
75305 CAGATGTCCTCTTCACGAAGGAACAATGTCATCTACCAATCAGAACTCTTCATCACGAAGGAGTC
1 CAGATGTCCTCATCACGAAGGAACAATGTCATCTACCAATCAGAACTCTTCATCACGAAGGAGTC
* *
75370 GTGTCATCCTAGATAACCAGACGTCCTCATCACGAATGAACTATGTTATCTCAAATATCTTTAAA
66 GTGTCATCCTAGATAACCAAACGTCCTCATCACGAAGGAACTATGTTATCTCAAATATC-TTAAA
75435 GATGGC
130 GATGGC
* *
75441 CA-ATGTCCTCATCATGAAGGAACAATGTCATCTACCAATCAGAACTCCTCATCACGAAGGAGTC
1 CAGATGTCCTCATCACGAAGGAACAATGTCATCTACCAATCAGAACTCTTCATCACGAAGGAGTC
* * * *
75505 GTGTCAGCCTTA-ATAACCAGACGTTCTTATCACGAAGGAACTATGTTATCTCAAATATCTTTAA
66 GTGTCATCC-TAGATAACCAAACGTCCTCATCACGAAGGAACTATGTTATCTCAAATATC-TTAA
75569 AGATGGC
129 AGATGGC
* * * *
75576 CAGATATCCTCATCACGAAGGAACAATGTCATCTACCAATCTGAAATCCTCATCACGAAGGAGTC
1 CAGATGTCCTCATCACGAAGGAACAATGTCATCTACCAATCAGAACTCTTCATCACGAAGGAGTC
* * * ** * * * *
75641 GTGTCATTCTTTGATAGCCAAAATTCCTTATCACAAAGGAACCATGTTATCTCAATTTATCTCTA
66 GTGTCA-TCCTAGATAACCAAACGTCCTCATCACGAAGGAACTATGTTATCTCAA-ATATCT-TA
* *
75706 AACATGAC
128 AAGATGGC
* *
75714 CA-ACTGTCCTCATCACGAATGAACAGTGTCAT
1 CAGA-TGTCCTCATCACGAAGGAACAATGTCAT
75746 ACACCAGTTT
Statistics
Matches: 526, Mismatches: 41, Indels: 15
0.90 0.07 0.03
Matches are distributed among these distances:
135 362 0.69
136 87 0.17
137 38 0.07
138 39 0.07
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.26
Consensus pattern (135 bp):
CAGATGTCCTCATCACGAAGGAACAATGTCATCTACCAATCAGAACTCTTCATCACGAAGGAGTC
GTGTCATCCTAGATAACCAAACGTCCTCATCACGAAGGAACTATGTTATCTCAAATATCTTAAAG
ATGGC
Found at i:76210 original size:19 final size:19
Alignment explanation
Indices: 76186--76224 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
76176 CCACAGCAGA
76186 TTTCAGCAACCCCTCCACG
1 TTTCAGCAACCCCTCCACG
*
76205 TTTCAGCAGCCCCTCCACG
1 TTTCAGCAACCCCTCCACG
76224 T
1 T
76225 GTATCAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.18, C:0.46, G:0.13, T:0.23
Consensus pattern (19 bp):
TTTCAGCAACCCCTCCACG
Done.