Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005575.1 Hibiscus syriacus cultivar Beakdansim tig00012936_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: 214437
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
File 1 of 2
Found at i:66 original size:17 final size:18
Alignment explanation
Indices: 30--73 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
20 TCCACTTCGG
*
30 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
48 GAGCTATCACC-CACCCA
1 GAGCCATCACCTCACCCA
65 GAGCCATCA
1 GAGCCATCA
74 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.27, C:0.45, G:0.16, T:0.11
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:564 original size:20 final size:19
Alignment explanation
Indices: 530--594 Score: 78
Period size: 20 Copynumber: 3.4 Consensus size: 19
520 TAGTTTACTT
*
530 TCGCAACACGAAATGACTA
1 TCGCAACGCGAAATGACTA
*
549 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGACTA
* *
569 TCGCAATGCGAAATGA-AA
1 TCGCAACGCGAAATGACTA
587 TCGCAACG
1 TCGCAACG
595 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
18 8 0.21
19 14 0.36
20 17 0.44
ACGTcount: A:0.37, C:0.25, G:0.23, T:0.15
Consensus pattern (19 bp):
TCGCAACGCGAAATGACTA
Found at i:591 original size:18 final size:17
Alignment explanation
Indices: 568--661 Score: 76
Period size: 18 Copynumber: 5.6 Consensus size: 17
558 GGAAATGGCT
568 ATCGCAATGCGAAATGAA
1 ATCGCAA-GCGAAATGAA
*
586 ATCGCAA-CGACA--AA
1 ATCGCAAGCGAAATGAA
600 ATCGCAACGCGAAATGAA
1 ATCGCAA-GCGAAATGAA
*
618 ATCGCAA-CG--A-CAA
1 ATCGCAAGCGAAATGAA
631 ATCGCAACGCGAAATGAAA
1 ATCGCAA-GCGAAATG-AA
650 ATCGCAATGCGA
1 ATCGCAA-GCGA
662 TTTGTGTTTC
Statistics
Matches: 61, Mismatches: 5, Indels: 19
0.72 0.06 0.22
Matches are distributed among these distances:
13 9 0.15
14 10 0.16
15 2 0.03
16 10 0.16
17 1 0.02
18 16 0.26
19 13 0.21
ACGTcount: A:0.45, C:0.23, G:0.20, T:0.12
Consensus pattern (17 bp):
ATCGCAAGCGAAATGAA
Found at i:612 original size:32 final size:31
Alignment explanation
Indices: 568--656 Score: 151
Period size: 32 Copynumber: 2.8 Consensus size: 31
558 GGAAATGGCT
*
568 ATCGCAATGCGAAATGAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAATCGCAACGAC-AA
600 ATCGCAACGCGAAATGAAATCGCAACGACAA
1 ATCGCAACGCGAAATGAAATCGCAACGACAA
631 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAACGCGAAATG-AAATCGCAA
657 TGCGATTTGT
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 18 0.33
32 37 0.67
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (31 bp):
ATCGCAACGCGAAATGAAATCGCAACGACAA
Found at i:645 original size:13 final size:14
Alignment explanation
Indices: 583--645 Score: 58
Period size: 13 Copynumber: 4.4 Consensus size: 14
573 AATGCGAAAT
583 GAAATCGCAACGAC
1 GAAATCGCAACGAC
* *
597 AAAATCGCAACGCGAAAT
1 GAAATCGCAA--CG--AC
615 GAAATCGCAACGAC
1 GAAATCGCAACGAC
629 -AAATCGCAACG-C
1 GAAATCGCAACGAC
641 GAAAT
1 GAAAT
646 GAAAATCGCA
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
12 1 0.03
13 15 0.38
14 10 0.25
16 4 0.10
18 10 0.25
ACGTcount: A:0.46, C:0.25, G:0.19, T:0.10
Consensus pattern (14 bp):
GAAATCGCAACGAC
Found at i:653 original size:19 final size:19
Alignment explanation
Indices: 530--661 Score: 74
Period size: 19 Copynumber: 7.6 Consensus size: 19
520 TAGTTTACTT
* **
530 TCGCAACACGAAATGACTA
1 TCGCAACGCGAAATGAAAA
***
549 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
569 TCGCAATGCGAAATG-AAA
1 TCGCAACGCGAAATGAAAA
*
587 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
601 TCGCAACGCGAAATG-AAA
1 TCGCAACGCGAAATGAAAA
*
619 TCGCAA--CG--A--CAAA
1 TCGCAACGCGAAATGAAAA
632 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
651 TCGCAATGCGA
1 TCGCAACGCGA
662 TTTGTGTTTC
Statistics
Matches: 90, Mismatches: 9, Indels: 28
0.71 0.07 0.22
Matches are distributed among these distances:
13 9 0.10
14 11 0.12
15 2 0.02
16 6 0.07
17 1 0.01
18 17 0.19
19 27 0.30
20 17 0.19
ACGTcount: A:0.42, C:0.24, G:0.21, T:0.13
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:702 original size:19 final size:19
Alignment explanation
Indices: 687--774 Score: 106
Period size: 19 Copynumber: 4.6 Consensus size: 19
677 GCGATTTTGT
687 CGTTGCGA-TTTCATTTCG
1 CGTTGCGATTTTCATTTCG
705 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
* ***
724 CATTGCGATAGCCATTTCCG
1 CGTTGCGATTTTCATTT-CG
**
744 CGTTGCGATAGTCATTTCG
1 CGTTGCGATTTTCATTTCG
763 CGTTGCGATTTT
1 CGTTGCGATTTT
775 AAGTTTGTGT
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
18 8 0.13
19 35 0.58
20 17 0.28
ACGTcount: A:0.14, C:0.23, G:0.23, T:0.41
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:748 original size:39 final size:38
Alignment explanation
Indices: 698--771 Score: 112
Period size: 39 Copynumber: 1.9 Consensus size: 38
688 GTTGCGATTT
**
698 CATTTCGCGTTGCGATTTTCATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGTCATTTCGCATTGCGATAGC
*
736 CATTTCCGCGTTGCGATAGTCATTTCGCGTTGCGAT
1 CATTT-CGCGTTGCGATAGTCATTTCGCATTGCGAT
772 TTTAAGTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
38 5 0.16
39 27 0.84
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (38 bp):
CATTTCGCGTTGCGATAGTCATTTCGCATTGCGATAGC
Found at i:2778 original size:18 final size:18
Alignment explanation
Indices: 2739--2837 Score: 127
Period size: 18 Copynumber: 5.7 Consensus size: 18
2729 AAAACAGACT
*
2739 ATCGCAACGCGAAATGGAA
1 ATCGCAATGCGAAAT-GAA
2758 ATCGCAATGCGAAATGAA
1 ATCGCAATGCGAAATGAA
2776 ATCGCAATGC-AAATGAAA
1 ATCGCAATGCGAAATG-AA
2794 ATCGCAATGCGAAATGAA
1 ATCGCAATGCGAAATGAA
*
2812 ATCGCAA--CGAGA--AA
1 ATCGCAATGCGAAATGAA
2826 ATCGCAATGCGA
1 ATCGCAATGCGA
2838 TTTTCATTTC
Statistics
Matches: 74, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 9 0.12
16 7 0.09
17 5 0.07
18 34 0.46
19 19 0.26
ACGTcount: A:0.44, C:0.19, G:0.22, T:0.14
Consensus pattern (18 bp):
ATCGCAATGCGAAATGAA
Found at i:2902 original size:20 final size:20
Alignment explanation
Indices: 2856--2912 Score: 89
Period size: 19 Copynumber: 2.9 Consensus size: 20
2846 TCGCATTGCG
* *
2856 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAGCC
2876 A-TTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
2895 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
2913 TCAAATGAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.37
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:3984 original size:24 final size:24
Alignment explanation
Indices: 3957--4010 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
3947 GTATTCGAAA
* *
3957 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
3981 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
4005 TTTGAT
1 TTTGAT
4011 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:5399 original size:33 final size:33
Alignment explanation
Indices: 5342--5440 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
5332 ACGAGATAAT
*
5342 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
*
5376 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* **
5409 GACAATCGCAACGCGAAATGAAAATCGCAACC
1 GAGAATCGCAACGCGAAATGACTATCGCAACC
5441 GCGAAATAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 45 0.76
34 14 0.24
ACGTcount: A:0.39, C:0.26, G:0.23, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:5434 original size:19 final size:19
Alignment explanation
Indices: 5317--5481 Score: 136
Period size: 19 Copynumber: 9.1 Consensus size: 19
5307 TCTTTTGGTT
*
5317 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
5336 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
5356 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
5374 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
5390 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
5408 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
5423 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
5443 GAAAT-AAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
5461 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
5480 GA
1 GA
5482 TTTTGGTTTC
Statistics
Matches: 119, Mismatches: 13, Indels: 28
0.74 0.08 0.17
Matches are distributed among these distances:
14 19 0.16
15 3 0.03
16 2 0.02
17 1 0.01
18 12 0.10
19 45 0.38
20 35 0.29
21 2 0.02
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:5510 original size:19 final size:19
Alignment explanation
Indices: 5477--5543 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
5467 AAAATCGCAA
**
5477 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
5496 TGCGATTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
**
5515 TGCGATAGTTATTTCCGCGT
1 TGCGATTTTTATTT-CGCGT
5535 TGCGATTTT
1 TGCGATTTT
5544 CATTCTCGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 29 0.71
20 12 0.29
ACGTcount: A:0.10, C:0.16, G:0.25, T:0.48
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:6123 original size:21 final size:19
Alignment explanation
Indices: 6099--6227 Score: 80
Period size: 20 Copynumber: 6.3 Consensus size: 19
6089 AAGTATCTCG
6099 TTGCGATTTTTTATTATCGCA
1 TTGCGATTTTTTA-T-TCGCA
** *
6120 TTGCGA-TAGTAAGTATCGCA
1 TTGCGATTTTTTA-T-TCGCA
* *
6140 TTGCGATTTTTCCAATTCGCG
1 TTGCGATTTTT--TATTCGCA
*
6161 TTGCGATTTACTTATTCGCA
1 TTGCGATTT-TTTATTCGCA
* *
6181 TTGCGATTTTTCCAATTCGCG
1 TTGCGATTTTT--TATTCGCA
*
6202 TTGCGATTTACTTATTCGCA
1 TTGCGATTT-TTTATTCGCA
6222 TTGCGA
1 TTGCGA
6228 ATTGGGAAAA
Statistics
Matches: 85, Mismatches: 16, Indels: 15
0.73 0.14 0.13
Matches are distributed among these distances:
19 1 0.01
20 43 0.51
21 36 0.42
22 3 0.04
23 2 0.02
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.43
Consensus pattern (19 bp):
TTGCGATTTTTTATTCGCA
Found at i:6146 original size:20 final size:20
Alignment explanation
Indices: 6053--6146 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
6043 CGCTATGTAA
* *
6053 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTAAGT
*
6073 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTAAGT
* ** * *
6093 ATCTCGTTGCGATTTTTTATT
1 ATCGCGTTGCGA-TAGTAAGT
*
6114 ATCGCATTGCGATAGTAAGT
1 ATCGCGTTGCGATAGTAAGT
*
6134 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
6147 TTTTCCAATT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.34
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTAAGT
Found at i:6165 original size:41 final size:41
Alignment explanation
Indices: 6074--6208 Score: 157
Period size: 41 Copynumber: 3.3 Consensus size: 41
6064 AAAGTCAGTA
* * * * *
6074 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTT-TATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTTCCAAT
*
6114 ATCGCATTGCGATAGTAAGTATCGCATTGCGATTTTTCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTTCCAAT
* **
6156 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTTCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTTCCAAT
6197 TCGCGTTGCGAT
1 TCGCGTTGCGAT
6209 TTACTTATTC
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
40 4 0.05
41 76 0.93
42 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.40
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTTCCAAT
Found at i:6179 original size:20 final size:20
Alignment explanation
Indices: 6135--6227 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
6125 ATAGTAAGTA
* **
6135 TCGCATTGCGATTTTTCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
6156 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
6176 TCGCATTGCGATTTTTCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
6197 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
6217 TCGCATTGCGA
1 TCGCATTGCGA
6228 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.42
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:6209 original size:41 final size:41
Alignment explanation
Indices: 6135--6227 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
6125 ATAGTAAGTA
6135 TCGCATTGCGATTTTTCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTTCCAATTCGCGTTGCGATTTACTTAT
6176 TCGCATTGCGATTTTTCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTTCCAATTCGCGTTGCGATTTACTTAT
6217 TCGCATTGCGA
1 TCGCATTGCGA
6228 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.42
Consensus pattern (41 bp):
TCGCATTGCGATTTTTCCAATTCGCGTTGCGATTTACTTAT
Found at i:6570 original size:28 final size:28
Alignment explanation
Indices: 6530--6587 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
6520 GGAAAAATTG
**
6530 AATACTTTAGGTATTTATTTTGACCAAA
1 AATACTTTAGGTACATATTTTGACCAAA
*
6558 AATATTTTAGGTACATATTTTGACCAAA
1 AATACTTTAGGTACATATTTTGACCAAA
6586 AA
1 AA
6588 GATAAGTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (28 bp):
AATACTTTAGGTACATATTTTGACCAAA
Found at i:17540 original size:65 final size:64
Alignment explanation
Indices: 17405--17560 Score: 222
Period size: 65 Copynumber: 2.4 Consensus size: 64
17395 TACACTAGGG
* * * * * *
17405 GTGCATCGATACACTAATTACATTCGATGTTTCAAAGAGCCAGGAGTGCATCGATGCATGGTTT
1 GTGCATCGGTACACAAAATGCATTCGATGTTTCAAAGAGCCAAGAGTGCATCGATGCATGGCTT
* **
17469 GTGCATCGGTACACAAAATGCATTCGATGTTTCAAAATATTCAAGAGTGCATCGATGCATGGCTT
1 GTGCATCGGTACACAAAATGCATTCGATGTTTC-AAAGAGCCAAGAGTGCATCGATGCATGGCTT
17534 GTGCATCGGTACACAAAATGCATTCGA
1 GTGCATCGGTACACAAAATGCATTCGA
17561 AATGGGTGTG
Statistics
Matches: 82, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
64 29 0.35
65 53 0.65
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (64 bp):
GTGCATCGGTACACAAAATGCATTCGATGTTTCAAAGAGCCAAGAGTGCATCGATGCATGGCTT
Found at i:18214 original size:2 final size:2
Alignment explanation
Indices: 18209--18240 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
18199 CATACAAACC
18209 AT 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 AT
18241 TAAGTTCAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20324 original size:23 final size:23
Alignment explanation
Indices: 20247--20326 Score: 78
Period size: 23 Copynumber: 3.6 Consensus size: 23
20237 TACAACAAAG
*
20247 TGCATCGATGCACATTCAAGGAA
1 TGCATCGATGCACATTCAAGGGA
* *
20270 TGCATC-AGTGCACCTTC-ATGG-
1 TGCATCGA-TGCACATTCAAGGGA
*
20291 TGTAAT-GATGCACATTCAAGGGA
1 TG-CATCGATGCACATTCAAGGGA
20314 TGCATCGATGCAC
1 TGCATCGATGCAC
20327 TGTCTAGTGT
Statistics
Matches: 44, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
21 10 0.23
22 11 0.25
23 23 0.52
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.25
Consensus pattern (23 bp):
TGCATCGATGCACATTCAAGGGA
Found at i:26215 original size:65 final size:64
Alignment explanation
Indices: 26090--26242 Score: 184
Period size: 65 Copynumber: 2.4 Consensus size: 64
26080 ATAAGACTTA
* * * * *
26090 GTGCATCGATACACTAATTGCATTCGATGTTTCAAAGAGCCAGGAGTGCATCGATGCATGG-TCT
1 GTGCTTCGGTACACAAAATGCATTCGATGTTTCAAAGAGCCAAGAGTGCATCGATGCATGGCT-T
* * **
26154 GTG-TATCGGTACCCAAAATGCATTCGATGTTTCAAAATATTCAAGAGTGCATCGATGCATGGCT
1 GTGCT-TCGGTACACAAAATGCATTCGATGTTTC-AAAGAGCCAAGAGTGCATCGATGCATGGCT
26218 T
64 T
26219 GTGCTTCGGTACACAAAATGCATT
1 GTGCTTCGGTACACAAAATGCATT
26243 TGAAATAGGT
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
64 27 0.36
65 46 0.61
66 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (64 bp):
GTGCTTCGGTACACAAAATGCATTCGATGTTTCAAAGAGCCAAGAGTGCATCGATGCATGGCTT
Found at i:26607 original size:22 final size:23
Alignment explanation
Indices: 26581--26623 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
26571 TACCAAATAT
26581 ATAACATTTTAGGTTG-AACTGA
1 ATAACATTTTAGGTTGTAACTGA
26603 ATAACATTTTAGGTTGTAACT
1 ATAACATTTTAGGTTGTAACT
26624 AAGTATTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (23 bp):
ATAACATTTTAGGTTGTAACTGA
Found at i:26830 original size:135 final size:135
Alignment explanation
Indices: 26666--26923 Score: 372
Period size: 135 Copynumber: 1.9 Consensus size: 135
26656 AACTACATTA
* * *
26666 AACATTTTAGGTTGCAATCGAAAATGTTACCAAAAATATAACATTTTATGTTGGACTGGATAACA
1 AACATTTAACGTTGCAATCGAAAATGTTACCAAAAATATAACATTTTATGTTGGACTCGATAACA
* * ** *
26731 TTTTAGGACGTAACTAAGTATCGATACTTAGTTACAAGTATTAATACTTGTCGTGAAATAAGTAT
66 TTTTAGGACATAACTAAGTATCAATACTTAGTTACAAGTACCAATACTTATCGTGAAATAAGTAT
26796 TATAT
131 TATAT
* * *
26801 AACATTTAACGTTGCAATCGAAAATGTTACCAAATATATAACATTTTATGTTTGACTCGATTACA
1 AACATTTAACGTTGCAATCGAAAATGTTACCAAAAATATAACATTTTATGTTGGACTCGATAACA
** * * *
26866 TTTTAGGTTATAAGTAAGTATCAATATTTAGTTACAAGTACCGATACTTATCGTGAAA
66 TTTTAGGACATAACTAAGTATCAATACTTAGTTACAAGTACCAATACTTATCGTGAAA
26924 CGATAATTAT
Statistics
Matches: 107, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
135 107 1.00
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (135 bp):
AACATTTAACGTTGCAATCGAAAATGTTACCAAAAATATAACATTTTATGTTGGACTCGATAACA
TTTTAGGACATAACTAAGTATCAATACTTAGTTACAAGTACCAATACTTATCGTGAAATAAGTAT
TATAT
Found at i:27088 original size:13 final size:13
Alignment explanation
Indices: 27070--27096 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
27060 CCCATCAACT
27070 TATTTTGTTACCG
1 TATTTTGTTACCG
27083 TATTTTGTTACCG
1 TATTTTGTTACCG
27096 T
1 T
27097 CTTATTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.56
Consensus pattern (13 bp):
TATTTTGTTACCG
Found at i:27595 original size:187 final size:187
Alignment explanation
Indices: 27330--27819 Score: 588
Period size: 187 Copynumber: 2.6 Consensus size: 187
27320 CTGAAGTTGA
* * * * * * *
27330 TAAAGCAACTTATAATAAACACGATCTCAACTTAATTTCTTATTAAACACTAATAATCATGAGTG
1 TAAAGCAACTTATAACAAACCCGATCTCAACTTACTTTCTTATCAAACACTAACAATCATGGGAG
* * * * * * * ***
27395 TAATCGAATTTCTTACCATGTTTGATAACATTTCCATCTTTCAATTTATTTTGTTACCATCCTTG
66 CAACCGGATTTCTTACCACGATTGATAACATTTTCAGCTTTCAATTTATTTTGTTACCATCCGAA
* * * *
27460 TTTTGATGAACCCATTTGGTAAAGTCTGGTATCATCTTCGGTCCAAA-CTGGATTTGT
131 TTTTGATGAACCCATTTGCTAAACTCTGGTAACATCTTCGGTCCAAATC-AGATTTGT
* *
27517 TAAAGCAACTTATAACAAACCCGATCTCAACTTACTTTCTTACTGAAA-GCTAACAATCATGGGA
1 TAAAGCAACTTATAACAAACCCGATCTCAACTTACTTTCTTA-TCAAACACTAACAATCATGGGA
* * *
27581 GCAACCGGATTTCTTACCACAATTGATAACATTTTCAGCTTTCAATTTATTTTGTTATCGTCCGA
65 GCAACCGGATTTCTTACCACGATTGATAACATTTTCAGCTTTCAATTTATTTTGTTACCATCCGA
* * * *
27646 ATTTTGATGAACTCATTTGCTAAACTCTGGTAACATTTTTGGTCGAAATCAGATTTGT
130 ATTTTGATGAACCCATTTGCTAAACTCTGGTAACATCTTCGGTCCAAATCAGATTTGT
* * * * * *
27704 TAAAGCAACTTATGACAAACCCAATCTCAATTTACTTTCTTATCAAACACTAACAATTATTGGCG
1 TAAAGCAACTTATAACAAACCCGATCTCAACTTACTTTCTTATCAAACACTAACAATCATGGGAG
* * * *
27769 CAACTGGATTTCTCACCACGATTGATAACATTTTGAGCTTTCAACTTATTT
66 CAACCGGATTTCTTACCACGATTGATAACATTTTCAGCTTTCAATTTATTT
27820 GTCAACATAT
Statistics
Matches: 258, Mismatches: 42, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
186 4 0.02
187 249 0.97
188 5 0.02
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (187 bp):
TAAAGCAACTTATAACAAACCCGATCTCAACTTACTTTCTTATCAAACACTAACAATCATGGGAG
CAACCGGATTTCTTACCACGATTGATAACATTTTCAGCTTTCAATTTATTTTGTTACCATCCGAA
TTTTGATGAACCCATTTGCTAAACTCTGGTAACATCTTCGGTCCAAATCAGATTTGT
Found at i:29685 original size:23 final size:23
Alignment explanation
Indices: 29657--29708 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
29647 GGATATATAT
*
29657 GTGGTCATTCAGGATATTTCTAC
1 GTGGTCATTCAGGAAATTTCTAC
*
29680 GTGGTCATTCGGGAAATTTCTAC
1 GTGGTCATTCAGGAAATTTCTAC
29703 GTGGTC
1 GTGGTC
29709 CTTCGGGACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.19, C:0.17, G:0.27, T:0.37
Consensus pattern (23 bp):
GTGGTCATTCAGGAAATTTCTAC
Found at i:29713 original size:23 final size:22
Alignment explanation
Indices: 29657--29716 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 22
29647 GGATATATAT
*
29657 GTGGTCATTCAGGATATTTCTAC
1 GTGGTCATTCGGGA-ATTTCTAC
29680 GTGGTCATTCGGGAAATTTCTAC
1 GTGGTCATTCGGG-AATTTCTAC
*
29703 GTGGTCCTTCGGGA
1 GTGGTCATTCGGGA
29717 CAAAATATGT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
22 1 0.03
23 32 0.94
24 1 0.03
ACGTcount: A:0.18, C:0.18, G:0.28, T:0.35
Consensus pattern (22 bp):
GTGGTCATTCGGGAATTTCTAC
Found at i:29875 original size:2 final size:2
Alignment explanation
Indices: 29870--29912 Score: 70
Period size: 2 Copynumber: 21.5 Consensus size: 2
29860 TATATATATA
29870 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG ATG T- TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG -TG TG TG TG TG
29912 T
1 T
29913 ATTACTTGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 1 0.03
2 36 0.92
3 2 0.05
ACGTcount: A:0.02, C:0.00, G:0.47, T:0.51
Consensus pattern (2 bp):
TG
Found at i:34935 original size:30 final size:30
Alignment explanation
Indices: 34894--34957 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
34884 TTCCTTTGCC
34894 ACCCCACTGAGAATCAAAGAAAAGATTCAA
1 ACCCCACTGAGAATCAAAGAAAAGATTCAA
*
34924 ACCCCATTGAGAATCAAAGAAAAGATTCAA
1 ACCCCACTGAGAATCAAAGAAAAGATTCAA
34954 ACCC
1 ACCC
34958 TTTATAATGC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.48, C:0.25, G:0.12, T:0.14
Consensus pattern (30 bp):
ACCCCACTGAGAATCAAAGAAAAGATTCAA
Found at i:38166 original size:21 final size:22
Alignment explanation
Indices: 38102--38155 Score: 76
Period size: 20 Copynumber: 2.5 Consensus size: 22
38092 GTTAAGCATT
* *
38102 AAAAATTAAAAGTAATAATAT-
1 AAAAATTAAAATTACTAATATA
38123 -AAAATTAAAATTACTAATATA
1 AAAAATTAAAATTACTAATATA
38144 AAAAATTAAAAT
1 AAAAATTAAAAT
38156 ATTTATTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 18 0.62
22 11 0.38
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (22 bp):
AAAAATTAAAATTACTAATATA
Found at i:38207 original size:21 final size:22
Alignment explanation
Indices: 38181--38221 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
38171 ATATTCTAAG
*
38181 TAAAATATAT-TTTTAAATTTA
1 TAAAATATATAATTTAAATTTA
38202 TAAAATATATAATTTAAATT
1 TAAAATATATAATTTAAATT
38222 AATTTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TAAAATATATAATTTAAATTTA
Found at i:38643 original size:2 final size:2
Alignment explanation
Indices: 38636--38676 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
38626 ACTTTTTATT
38636 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
38677 TTTATGTTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:47125 original size:22 final size:23
Alignment explanation
Indices: 47094--47140 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
47084 TAATCGTGAG
47094 TTTAGAAGATACGA-TTTTGGGC
1 TTTAGAAGATACGATTTTTGGGC
*
47116 TTTAGCAGATACGATTTTTGGGC
1 TTTAGAAGATACGATTTTTGGGC
47139 TT
1 TT
47141 GTTTAGGGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.23, C:0.11, G:0.26, T:0.40
Consensus pattern (23 bp):
TTTAGAAGATACGATTTTTGGGC
Found at i:55708 original size:2 final size:2
Alignment explanation
Indices: 55703--55733 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
55693 TCTCTCTCTC
55703 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
55734 ATTTATGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:60819 original size:60 final size:59
Alignment explanation
Indices: 60685--60823 Score: 167
Period size: 60 Copynumber: 2.4 Consensus size: 59
60675 TAGTCAGGTA
* *
60685 ACCATTTTGTAACTTTTAATAGTCGAAGACTCAACAAAGCAGTGCTCTATAATTAGAGG
1 ACCATTTTGTAACTTTTAATTGTCGAAGACTCAACAAAGCAATGCTCTATAATTAGAGG
* * * * *
60744 ACTATTTTATAACTTTTAATTGTCGAGAGACTCGACAAAGTAAT-ATCCTATAATTAGAGG
1 ACCATTTTGTAACTTTTAATTGTCGA-AGACTCAACAAAGCAATGCT-CTATAATTAGAGG
60804 ACCATTTGTGT-AC-TTTAATT
1 ACCATTT-TGTAACTTTTAATT
60824 TTTTTAACTA
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
59 31 0.46
60 35 0.51
61 2 0.03
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (59 bp):
ACCATTTTGTAACTTTTAATTGTCGAAGACTCAACAAAGCAATGCTCTATAATTAGAGG
Found at i:71725 original size:2 final size:2
Alignment explanation
Indices: 71718--71744 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
71708 TTAATTATGG
71718 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 A
71745 ATTAGTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:75212 original size:90 final size:89
Alignment explanation
Indices: 75039--75261 Score: 288
Period size: 90 Copynumber: 2.5 Consensus size: 89
75029 TAAGCCCTAT
75039 TTTTTAGAATATTTTGACCATCAATATTTCATTTTAGGGTAAAAGGACCCTAATATTGAACAAAT
1 TTTTTAGAATATTTTGACCATCAATATTTCATTTTAGGGTAAAAGGACCCTAATATTGAACAAAT
* *
75104 AGTTACTTTAACCCTTATTATTTA
66 AATTACTTTAACCCTTATTAATTA
* * * *
75128 TTTTTGGAATATTTTGACTC-TCAATTTTTTATTTTAGGGTAAAA-GAGCCCTAATATTTGAATA
1 TTTTTAGAATATTTTGAC-CATCAATATTTCATTTTAGGGTAAAAGGA-CCCTAATA-TTGAACA
*
75191 AATAATTACTTTAACCCTTATTAATTG
63 AATAATTACTTTAACCCTTATTAATTA
* * * * * *
75218 TTTTTAGAACATTTTGACCCTAAATGTTCCATTTTAGGGGAAAA
1 TTTTTAGAATATTTTGACCATCAATATTTCATTTTAGGGTAAAA
75262 TATCATTATT
Statistics
Matches: 116, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
88 2 0.02
89 48 0.41
90 66 0.57
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.43
Consensus pattern (89 bp):
TTTTTAGAATATTTTGACCATCAATATTTCATTTTAGGGTAAAAGGACCCTAATATTGAACAAAT
AATTACTTTAACCCTTATTAATTA
Found at i:80065 original size:33 final size:34
Alignment explanation
Indices: 79997--80073 Score: 86
Period size: 33 Copynumber: 2.3 Consensus size: 34
79987 ATTTGGCACC
* *
79997 ACGTGGGTATAATGCGCCCCCTGCCCCGTGATAT
1 ACGTGGGTATAATGCGCCCCCTGACCCGCGATAT
* *
80031 ACGTGGGTATAGA-GCG-CCCCTGATCCGCGCTAT
1 ACGTGGGTATA-ATGCGCCCCCTGACCCGCGATAT
*
80064 ACCTGGGTAT
1 ACGTGGGTAT
80074 CTGACACGTG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
33 22 0.59
34 14 0.38
35 1 0.03
ACGTcount: A:0.18, C:0.30, G:0.29, T:0.23
Consensus pattern (34 bp):
ACGTGGGTATAATGCGCCCCCTGACCCGCGATAT
Found at i:80547 original size:111 final size:111
Alignment explanation
Indices: 80353--80684 Score: 610
Period size: 111 Copynumber: 3.0 Consensus size: 111
80343 TGGAAATCAT
* *
80353 ATATCTCTACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAACTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* *
80418 TATTTAGTTGATTTATTTAATGCATGATTATTATATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
*
80464 ATATCTCGACACTTTGCTGATACGGTAATATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
80529 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
80575 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
*
80640 TAATTAGTTGATTTATTTAATGCATGATTATTAGAGTAAGAATTA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTA
80685 TTTTTGTAAT
Statistics
Matches: 214, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
111 214 1.00
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:82220 original size:18 final size:18
Alignment explanation
Indices: 82195--82246 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
82185 CAGCCACCGT
82195 AGCCATATATGATACCAC
1 AGCCATATATGATACCAC
* ** *
82213 ATCCATATATGATGTCGC
1 AGCCATATATGATACCAC
82231 AGCCATATATGATACC
1 AGCCATATATGATACC
82247 GCCATCGCCT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.27
Consensus pattern (18 bp):
AGCCATATATGATACCAC
Found at i:86965 original size:72 final size:74
Alignment explanation
Indices: 86884--87021 Score: 253
Period size: 72 Copynumber: 1.9 Consensus size: 74
86874 TAACGCATAC
86884 ATTTATTTTTTAAAACAAAATTCATAT-ATATATATATA-ATTTCATATTTTTTACCCATCTTAT
1 ATTTATTTTTTAAAACAAAATTCATATAATATATATATATATTTCATATTTTTTACCCATCTTAT
86947 ATATTTCAT
66 ATATTTCAT
86956 ATTTATTTTTTAAAACAAAATTCATATAGATATATATATATATTTCATATTTTTTACCCATCTTA
1 ATTTATTTTTTAAAACAAAATTCATATA-ATATATATATATATTTCATATTTTTTACCCATCTTA
87021 T
65 T
87022 CAAAAAAATA
Statistics
Matches: 63, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
72 27 0.43
74 11 0.17
75 25 0.40
ACGTcount: A:0.38, C:0.11, G:0.01, T:0.51
Consensus pattern (74 bp):
ATTTATTTTTTAAAACAAAATTCATATAATATATATATATATTTCATATTTTTTACCCATCTTAT
ATATTTCAT
Found at i:89547 original size:177 final size:182
Alignment explanation
Indices: 89345--89700 Score: 668
Period size: 177 Copynumber: 2.0 Consensus size: 182
89335 TATTATGAAT
89345 ATATTTGCCTACTATTTCATTATCATTATCATTATCATCCCCGTCATCTTCATCATTATCATCAT
1 ATATTTGCCTACTATTTCATTATCATTATCATTATCATCCCCGTCATCTTCATCATTATCATCAT
89410 TTGTTTTTTGG-TTATGGGTTTTTAGTCATAATGACCTCTTAGATAGAAAAGTGATAAAGGACCA
66 TTGTTTTTTGGTTTATGGGTTTTTAGTCATAATGACCTCTTAGATAGAAAAGTGATAAAGGACCA
*
89474 CT-GGAAT-ACATTTTCGGTTTCTTCCAGGATCACC-AGCTCTC-TGATTAA
131 CTGGGAATAACATTTTCGATTTCTTCCAGGATCACCTAGCTCTCATGATTAA
89522 ATATTTGCCTACTATTTCATTATCATTATCATTATCATCCCCGTCATCTTCATCATTATCATCAT
1 ATATTTGCCTACTATTTCATTATCATTATCATTATCATCCCCGTCATCTTCATCATTATCATCAT
89587 TTGTTTTTTGGTTTATGGGTTTTTAGTCATAATGACCTCTTAGATAGAAAAGTGATAAAGGACCA
66 TTGTTTTTTGGTTTATGGGTTTTTAGTCATAATGACCTCTTAGATAGAAAAGTGATAAAGGACCA
89652 CTGGGAATAACATTTTCGATTTCTTCCAGGATCACCTAGCTCTCATGAT
131 CTGGGAATAACATTTTCGATTTCTTCCAGGATCACCTAGCTCTCATGAT
89701 GGAACTTCTT
Statistics
Matches: 173, Mismatches: 1, Indels: 5
0.97 0.01 0.03
Matches are distributed among these distances:
177 76 0.44
178 55 0.32
179 5 0.03
180 26 0.15
181 7 0.04
182 4 0.02
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (182 bp):
ATATTTGCCTACTATTTCATTATCATTATCATTATCATCCCCGTCATCTTCATCATTATCATCAT
TTGTTTTTTGGTTTATGGGTTTTTAGTCATAATGACCTCTTAGATAGAAAAGTGATAAAGGACCA
CTGGGAATAACATTTTCGATTTCTTCCAGGATCACCTAGCTCTCATGATTAA
Found at i:90374 original size:28 final size:28
Alignment explanation
Indices: 90343--90398 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
90333 TTACAAGCTA
90343 TTCTGCTGAAAGTTTTGAAATCACATAT
1 TTCTGCTGAAAGTTTTGAAATCACATAT
90371 TTCTGCTGAAAGTTTTGAAATCACATAT
1 TTCTGCTGAAAGTTTTGAAATCACATAT
90399 GTAAGCCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (28 bp):
TTCTGCTGAAAGTTTTGAAATCACATAT
Found at i:91106 original size:44 final size:44
Alignment explanation
Indices: 91032--91267 Score: 252
Period size: 44 Copynumber: 5.3 Consensus size: 44
91022 CACAAAGCCG
* * * * *
91032 AAGAGCCTACAGAAAGCT-GTAAGGTATTACCCTTGTACATAACA
1 AAGAGCCTTCAGAAA-ATAGTAAGGTCTTACCCTTGCACACAACA
* *
91076 AAGGAGCCTGCAGAAAA-GGTAAGGTCTTACCC-TG-ACACATAGCA
1 AA-GAGCCTTCAGAAAATAGTAAGGTCTTACCCTTGCACACA-A-CA
* * *
91120 GAGGAGCCTTTAG-AAATGGTAAGGTCTTACCCTTGCACACAACA
1 -AAGAGCCTTCAGAAAATAGTAAGGTCTTACCCTTGCACACAACA
91164 GAAGAGCCTTCA-AAAATAGTAAGGTCTTACCCTTGCACACAACA
1 -AAGAGCCTTCAGAAAATAGTAAGGTCTTACCCTTGCACACAACA
91208 GAAGAGCCTTCA-AAAATAGTAAGGTCTTACCCTTGCACACAACA
1 -AAGAGCCTTCAGAAAATAGTAAGGTCTTACCCTTGCACACAACA
*
91252 GATGAGCCTTCAGAAA
1 -AAGAGCCTTCAGAAA
91268 CTTCCTCCAA
Statistics
Matches: 171, Mismatches: 11, Indels: 19
0.85 0.05 0.09
Matches are distributed among these distances:
42 4 0.02
43 6 0.04
44 137 0.80
45 19 0.11
46 5 0.03
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (44 bp):
AAGAGCCTTCAGAAAATAGTAAGGTCTTACCCTTGCACACAACA
Found at i:91171 original size:88 final size:88
Alignment explanation
Indices: 91003--91267 Score: 306
Period size: 88 Copynumber: 3.0 Consensus size: 88
90993 AGGAGCGTGC
* * * *
91003 AGTAAGGACTTACCCTGAGCACAAAGCCGAAGAGCCTACAGAAA-GCTGTAAGGTATTACCCTTG
1 AGTAAGGTCTTACCCTGA-CAC-AAGCAGAAGAGCCTTCAGAAATG--GTAAGGTCTTACCCTTG
* * *
91067 TACATAACA-AAGGAGCCTGCAGAAAA-
62 CACACAACAGAA-GAGCCTTCAGAAAAT
* * *
91093 GGTAAGGTCTTACCCTGACACATAGCAGAGGAGCCTTTAGAAATGGTAAGGTCTTACCCTTGCAC
1 AGTAAGGTCTTACCCTGACACA-AGCAGAAGAGCCTTCAGAAATGGTAAGGTCTTACCCTTGCAC
91158 ACAACAGAAGAGCCTTCA-AAAAT
65 ACAACAGAAGAGCCTTCAGAAAAT
* *
91181 AGTAAGGTCTTACCCTTGCACACAA-CAGAAGAGCCTTCAAAAATAGTAAGGTCTTACCCTTGCA
1 AGTAAGGTCTTACCC-TG-ACACAAGCAGAAGAGCCTTCAGAAATGGTAAGGTCTTACCCTTGCA
*
91245 CACAACAGATGAGCCTTCAGAAA
64 CACAACAGAAGAGCCTTCAGAAA
91268 CTTCCTCCAA
Statistics
Matches: 152, Mismatches: 16, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
87 4 0.03
88 99 0.65
89 27 0.18
90 22 0.14
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (88 bp):
AGTAAGGTCTTACCCTGACACAAGCAGAAGAGCCTTCAGAAATGGTAAGGTCTTACCCTTGCACA
CAACAGAAGAGCCTTCAGAAAAT
Found at i:100192 original size:59 final size:59
Alignment explanation
Indices: 100124--100241 Score: 209
Period size: 59 Copynumber: 2.0 Consensus size: 59
100114 TATAGACAGT
* *
100124 TACCGAGGATCTTTATGACCTCTAGATAGTTACCGATGATCTTTATGACCTCTGGATAG
1 TACCGAGGATCTTTATGACCTCTAGATAGTTACCAAGGATCTTTATGACCTCTGGATAG
*
100183 TACCGAGGATCTTTATGACCTCTGGATAGTTACCAAGGATCTTTATGACCTCTGGATAG
1 TACCGAGGATCTTTATGACCTCTAGATAGTTACCAAGGATCTTTATGACCTCTGGATAG
100242 GTCCTTCGGA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.33
Consensus pattern (59 bp):
TACCGAGGATCTTTATGACCTCTAGATAGTTACCAAGGATCTTTATGACCTCTGGATAG
Found at i:100196 original size:29 final size:30
Alignment explanation
Indices: 100121--100241 Score: 208
Period size: 30 Copynumber: 4.1 Consensus size: 30
100111 ACCTATAGAC
*
100121 AGTTACCGAGGATCTTTATGACCTCTAGAT
1 AGTTACCGAGGATCTTTATGACCTCTGGAT
*
100151 AGTTACCGATGATCTTTATGACCTCTGGAT
1 AGTTACCGAGGATCTTTATGACCTCTGGAT
100181 AG-TACCGAGGATCTTTATGACCTCTGGAT
1 AGTTACCGAGGATCTTTATGACCTCTGGAT
*
100210 AGTTACCAAGGATCTTTATGACCTCTGGAT
1 AGTTACCGAGGATCTTTATGACCTCTGGAT
100240 AG
1 AG
100242 GTCCTTCGGA
Statistics
Matches: 86, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
29 28 0.33
30 58 0.67
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (30 bp):
AGTTACCGAGGATCTTTATGACCTCTGGAT
Found at i:104987 original size:24 final size:24
Alignment explanation
Indices: 104942--104999 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
104932 ACACTTAACA
*
104942 GTGCATCGATGCATCCCTTTGAAT
1 GTGCATCGATGCATCCATTTGAAT
*
104966 GTGCATCGATTCAT-CATGTTG-A-
1 GTGCATCGATGCATCCAT-TTGAAT
104988 -TGCATCGATGCA
1 GTGCATCGATGCA
105000 CGGGGTCATG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 11 0.37
23 3 0.10
24 16 0.53
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (24 bp):
GTGCATCGATGCATCCATTTGAAT
Found at i:107376 original size:21 final size:20
Alignment explanation
Indices: 107328--107373 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
107318 AAATGCTTTA
107328 AAGGGGAGAAGTGTTATAGT
1 AAGGGGAGAAGTGTTATAGT
107348 AAGGGGAGAAGTGTTATAGT
1 AAGGGGAGAAGTGTTATAGT
107368 AAGGGG
1 AAGGGG
107374 GAGTAATTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.43, T:0.22
Consensus pattern (20 bp):
AAGGGGAGAAGTGTTATAGT
Found at i:107742 original size:20 final size:20
Alignment explanation
Indices: 107717--107755 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
107707 TTTTCAAAGG
107717 CATGCACCGATGCACCAATC
1 CATGCACCGATGCACCAATC
* *
107737 CATGCATCGATGCATCAAT
1 CATGCACCGATGCACCAAT
107756 TAATTTCTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.33, G:0.15, T:0.21
Consensus pattern (20 bp):
CATGCACCGATGCACCAATC
Found at i:107806 original size:19 final size:20
Alignment explanation
Indices: 107782--107834 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
107772 GAATGCATTT
*
107782 ATGCATCGATGCAC-ATACC
1 ATGCATCGATGCACAAGACC
107801 ATGCATCGATGCACAAGACC
1 ATGCATCGATGCACAAGACC
*
107821 ATGCATCAATGCAC
1 ATGCATCGATGCAC
107835 TCAGGCTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.34, C:0.30, G:0.17, T:0.19
Consensus pattern (20 bp):
ATGCATCGATGCACAAGACC
Found at i:110298 original size:44 final size:43
Alignment explanation
Indices: 110205--110307 Score: 134
Period size: 44 Copynumber: 2.4 Consensus size: 43
110195 TTTTGTGCAC
* *
110205 TATGCATCGATACACTAGAAAGTGTACCGATGCATCCCTTGAA
1 TATGCATCGATACACTAGAAAGTGCACCGATACATCCCTTGAA
* * *
110248 TATGCATCGATACACTATAAAGGTGCACCGATACATTCTTTGAA
1 TATGCATCGATACACTAGAAA-GTGCACCGATACATCCCTTGAA
* *
110292 TGTGCATCAATACACT
1 TATGCATCGATACACT
110308 CTGTTGTGCA
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
43 20 0.38
44 32 0.62
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (43 bp):
TATGCATCGATACACTAGAAAGTGCACCGATACATCCCTTGAA
Found at i:110317 original size:20 final size:19
Alignment explanation
Indices: 110292--110332 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
110282 ATTCTTTGAA
110292 TGTGCATCAATACACTCTGT
1 TGTGCATCAATACACTC-GT
*
110312 TGTGCATCGATACACTCGT
1 TGTGCATCAATACACTCGT
110331 TG
1 TG
110333 GGTTTTGGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (19 bp):
TGTGCATCAATACACTCGT
Found at i:110697 original size:23 final size:21
Alignment explanation
Indices: 110670--110729 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
110660 TTTTACAACT
110670 AATTTCATAAAAAAAACACA-CAA
1 AATTTCA-AAAAAAAA-A-ATCAA
110693 AATTTCAAAAAAAAAAATCAA
1 AATTTCAAAAAAAAAAATCAA
* *
110714 AATTTCGAAATAAAAA
1 AATTTCAAAAAAAAAA
110730 TGTTTTGATT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.03
21 18 0.53
22 8 0.24
23 7 0.21
ACGTcount: A:0.67, C:0.12, G:0.02, T:0.20
Consensus pattern (21 bp):
AATTTCAAAAAAAAAAATCAA
Found at i:110814 original size:16 final size:16
Alignment explanation
Indices: 110793--110826 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
110783 TACAAATTGA
110793 TTTTTCAAACATT-GTT
1 TTTTTCAAA-ATTAGTT
110809 TTTTTCAAAATTAGTT
1 TTTTTCAAAATTAGTT
110825 TT
1 TT
110827 CAAAATCTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.18
16 14 0.82
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.59
Consensus pattern (16 bp):
TTTTTCAAAATTAGTT
Found at i:113027 original size:20 final size:20
Alignment explanation
Indices: 113002--113039 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
112992 CACATGTTAA
113002 AGAATGCATCGATGCACTGT
1 AGAATGCATCGATGCACTGT
113022 AGAATGCATCGATGCACT
1 AGAATGCATCGATGCACT
113040 TCAAGGGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (20 bp):
AGAATGCATCGATGCACTGT
Found at i:117224 original size:20 final size:22
Alignment explanation
Indices: 117179--117236 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 22
117169 TGCATGGTAG
117179 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TGTT-AAGAA
117203 TGCATCGATGCACTG-T-AGAA
1 TGCATCGATGCACTGTTAAGAA
117223 TGCATCGATGCACT
1 TGCATCGATGCACT
117237 TCAAGGGGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 18 0.53
22 1 0.03
23 2 0.06
24 13 0.38
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (22 bp):
TGCATCGATGCACTGTTAAGAA
Found at i:119419 original size:14 final size:14
Alignment explanation
Indices: 119400--119457 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
119390 AGTATTTCGA
119400 ATAAATTTTAAAAG
1 ATAAATTTTAAAAG
* ***
119414 ATAAATTTCAATCCTT
1 ATAAATTTTAA--AAG
119430 ACTAAATTTTAAAAG
1 A-TAAATTTTAAAAG
119445 ATAAATTTTAAAA
1 ATAAATTTTAAAA
119458 TTTTATAATA
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
14 22 0.67
15 1 0.03
16 1 0.03
17 9 0.27
ACGTcount: A:0.52, C:0.07, G:0.03, T:0.38
Consensus pattern (14 bp):
ATAAATTTTAAAAG
Found at i:120587 original size:25 final size:25
Alignment explanation
Indices: 120559--120620 Score: 97
Period size: 25 Copynumber: 2.5 Consensus size: 25
120549 TTTGGTCAAA
* *
120559 GTCAACGGTCAACGATCAACAATCG
1 GTCAACAGTCAACGACCAACAATCG
*
120584 GTCAACAGTCAACGGCCAACAATCG
1 GTCAACAGTCAACGACCAACAATCG
120609 GTCAACAGTCAA
1 GTCAACAGTCAA
120621 TGTTGGACCG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.37, C:0.29, G:0.19, T:0.15
Consensus pattern (25 bp):
GTCAACAGTCAACGACCAACAATCG
Found at i:120770 original size:10 final size:11
Alignment explanation
Indices: 120745--120774 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
120735 AGAGGGTCGG
120745 AAAAATTCTGA
1 AAAAATTCTGA
*
120756 AAAAATTCTAA
1 AAAAATTCTGA
120767 AAAAATTC
1 AAAAATTC
120775 ATATAACTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.60, C:0.10, G:0.03, T:0.27
Consensus pattern (11 bp):
AAAAATTCTGA
Found at i:124860 original size:58 final size:58
Alignment explanation
Indices: 124762--124886 Score: 155
Period size: 58 Copynumber: 2.2 Consensus size: 58
124752 CTGCTGTCAA
*
124762 ACTTCTTGCAATGAAGCTCCATTACACTTCTGTTTATATTGACGGAGG-CTAAACGACG
1 ACTTCTTGCAATGAAGCTCCATTACACTTCTGTTTATATTGACGGAGGTC-AAACAACG
* * * * * * *
124820 ACTTCTTGCAGTTAAGCTCCTTTGCTCTTCTTTTTGTATTGACGGAGGTCAAACAACG
1 ACTTCTTGCAATGAAGCTCCATTACACTTCTGTTTATATTGACGGAGGTCAAACAACG
124878 ACTT-TTGCA
1 ACTTCTTGCA
124887 TGAGCTTTAC
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
57 5 0.09
58 52 0.90
59 1 0.02
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.35
Consensus pattern (58 bp):
ACTTCTTGCAATGAAGCTCCATTACACTTCTGTTTATATTGACGGAGGTCAAACAACG
Found at i:140688 original size:30 final size:30
Alignment explanation
Indices: 140652--140712 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
140642 CACTCCGGGC
140652 GACCAAGGAGTGATGCATGTGGGAGCTGTG
1 GACCAAGGAGTGATGCATGTGGGAGCTGTG
140682 GACCAAGGAGTGATGCATGTGGGAGCTGTG
1 GACCAAGGAGTGATGCATGTGGGAGCTGTG
140712 G
1 G
140713 GATGCATGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.23, C:0.13, G:0.44, T:0.20
Consensus pattern (30 bp):
GACCAAGGAGTGATGCATGTGGGAGCTGTG
Found at i:140718 original size:20 final size:20
Alignment explanation
Indices: 140693--140731 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
140683 ACCAAGGAGT
140693 GATGCATGTGGGAGCTGTGG
1 GATGCATGTGGGAGCTGTGG
140713 GATGCATGTGGGAGCTGTG
1 GATGCATGTGGGAGCTGTG
140732 CATGGGCCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.10, G:0.49, T:0.26
Consensus pattern (20 bp):
GATGCATGTGGGAGCTGTGG
Found at i:140724 original size:11 final size:11
Alignment explanation
Indices: 140693--140725 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
140683 ACCAAGGAGT
140693 GATGCATGTGG
1 GATGCATGTGG
140704 GA-GC-TGTGG
1 GATGCATGTGG
140713 GATGCATGTGG
1 GATGCATGTGG
140724 GA
1 GA
140726 GCTGTGCATG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 7 0.35
10 4 0.20
11 9 0.45
ACGTcount: A:0.18, C:0.09, G:0.48, T:0.24
Consensus pattern (11 bp):
GATGCATGTGG
Found at i:140743 original size:26 final size:25
Alignment explanation
Indices: 140694--140796 Score: 67
Period size: 26 Copynumber: 4.2 Consensus size: 25
140684 CCAAGGAGTG
140694 ATGCATGTGGGAGC--TG--TGGG-
1 ATGCATGTGGGAGCTGTGCATGGGC
140714 ATGCATGTGGGAGCTGTGCATGGGCC
1 ATGCATGTGGGAGCTGTGCATGGG-C
* ** **
140740 ATGCACGTCGAATAG-TGTAGGTTGGG-
1 ATGCATGT-G-GGAGCTGT-GCATGGGC
140766 ATGCATGTGGGAGCTGTGCATGGGTC
1 ATGCATGTGGGAGCTGTGCATGGG-C
140792 ATGCA
1 ATGCA
140797 CGCCGAATGG
Statistics
Matches: 61, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
20 14 0.23
22 2 0.03
24 11 0.18
25 4 0.07
26 19 0.31
27 4 0.07
28 7 0.11
ACGTcount: A:0.18, C:0.15, G:0.42, T:0.25
Consensus pattern (25 bp):
ATGCATGTGGGAGCTGTGCATGGGC
Found at i:140780 original size:52 final size:52
Alignment explanation
Indices: 140710--140815 Score: 185
Period size: 52 Copynumber: 2.0 Consensus size: 52
140700 GTGGGAGCTG
*
140710 TGGGATGCATGTGGGAGCTGTGCATGGGCCATGCACGTCGAATAGTGTAGGT
1 TGGGATGCATGTGGGAGCTGTGCATGGGCCATGCACGCCGAATAGTGTAGGT
* *
140762 TGGGATGCATGTGGGAGCTGTGCATGGGTCATGCACGCCGAATGGTGTAGGT
1 TGGGATGCATGTGGGAGCTGTGCATGGGCCATGCACGCCGAATAGTGTAGGT
140814 TG
1 TG
140816 CCATGGAGTC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.18, C:0.15, G:0.42, T:0.25
Consensus pattern (52 bp):
TGGGATGCATGTGGGAGCTGTGCATGGGCCATGCACGCCGAATAGTGTAGGT
Found at i:141018 original size:44 final size:44
Alignment explanation
Indices: 140910--141020 Score: 168
Period size: 44 Copynumber: 2.5 Consensus size: 44
140900 CATAGCCTCA
* * * * *
140910 TGCATGCGTTTCATCCATAGATGGGAGATTCTTGCATTCGTAGT
1 TGCATGCGTTGCATCCATAGCTGGGAGATTCCTGCATCCGTAGC
*
140954 TGTATGCGTTGCATCCATAGCTGGGAGATTCCTGCATCCGTAGC
1 TGCATGCGTTGCATCCATAGCTGGGAGATTCCTGCATCCGTAGC
140998 TGCATGCGTTGCATCCATAGCTG
1 TGCATGCGTTGCATCCATAGCTG
141021 CATTATTGCA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 60 1.00
ACGTcount: A:0.19, C:0.23, G:0.26, T:0.32
Consensus pattern (44 bp):
TGCATGCGTTGCATCCATAGCTGGGAGATTCCTGCATCCGTAGC
Found at i:141407 original size:29 final size:29
Alignment explanation
Indices: 141374--141433 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
141364 AACTAAAATC
*
141374 TAGTTAATTAGTTTGTTAGTATAAATTAT
1 TAGTTAATTAGTTTCTTAGTATAAATTAT
* *
141403 TAGTTAATTAGTTTCTTAGTTTAAGTTAT
1 TAGTTAATTAGTTTCTTAGTATAAATTAT
141432 TA
1 TA
141434 AATATAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.32, C:0.02, G:0.13, T:0.53
Consensus pattern (29 bp):
TAGTTAATTAGTTTCTTAGTATAAATTAT
Found at i:145494 original size:49 final size:49
Alignment explanation
Indices: 145424--145611 Score: 331
Period size: 49 Copynumber: 3.8 Consensus size: 49
145414 GGCACCCATC
145424 TATTATTAATATTTAATGATTTGATAGTAATGATTAGTAATAATGAAAT
1 TATTATTAATATTTAATGATTTGATAGTAATGATTAGTAATAATGAAAT
*
145473 TATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATGAAAT
1 TATTATTAATATTTAATGATTTGATAGTAATGATTAGTAATAATGAAAT
* * *
145522 TATTATCAATTTTTAATGATTTGATAATAATGATTAGTAATAATGAAAT
1 TATTATTAATATTTAATGATTTGATAGTAATGATTAGTAATAATGAAAT
*
145571 TATTATTAATATTTAATGATTTGATATTAATGATTAGTAAT
1 TATTATTAATATTTAATGATTTGATAGTAATGATTAGTAAT
145612 TATTAATAAT
Statistics
Matches: 133, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 133 1.00
ACGTcount: A:0.41, C:0.01, G:0.11, T:0.47
Consensus pattern (49 bp):
TATTATTAATATTTAATGATTTGATAGTAATGATTAGTAATAATGAAAT
Found at i:145564 original size:13 final size:14
Alignment explanation
Indices: 145535--145567 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
145525 TATCAATTTT
*
145535 TAATGATTTGATAA
1 TAATGATTAGATAA
145549 TAATGATTAG-TAA
1 TAATGATTAGATAA
145562 TAATGA
1 TAATGA
145568 AATTATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.39
Consensus pattern (14 bp):
TAATGATTAGATAA
Found at i:145839 original size:12 final size:11
Alignment explanation
Indices: 145818--146220 Score: 224
Period size: 12 Copynumber: 33.3 Consensus size: 11
145808 TAACCATAAA
145818 AATGATTTAAT
1 AATGATTTAAT
145829 AATGAATTTAATATTT
1 AATG-ATTT-A-A--T
*
145845 AATGATTTAGT
1 AATGATTTAAT
*
145856 AATGATTTGAT
1 AATGATTTAAT
*
145867 AAT-AATTAAT
1 AATGATTTAAT
145877 AAT--TTGATAAT
1 AATGATT--TAAT
*
145888 AATCATTATAAT
1 AATGATT-TAAT
145900 AATGATTTAGTAAT
1 AATGA-TT--TAAT
*
145914 AATCATTATAAT
1 AATGATT-TAAT
145926 AATGATTT--T
1 AATGATTTAAT
145935 AAT-ATTTAAT
1 AATGATTTAAT
145945 GATTTGATGATTTAAT
1 -A----ATGATTTAAT
145961 AATGATTTGATAAT
1 AATGA-TT--TAAT
*
145975 AATCATTATAAT
1 AATGATT-TAAT
*
145987 AATGTTTAGTAAT
1 AATGATT--TAAT
*
146000 AATCATTATAAT
1 AATGATT-TAAT
146012 AATGATTTAAT
1 AATGATTTAAT
* *
146023 AATAATGATAAT
1 AATGAT-TTAAT
146035 AATGATTTGTTAAT
1 AATGA--T-TTAAT
*
146049 AATCATTATAAT
1 AATGATT-TAAT
146061 AATGATTTAAT
1 AATGATTTAAT
* *
146072 AATAATGATAAT
1 AATGAT-TTAAT
146084 AATGATTTAATAAT
1 AATGA-TT--TAAT
*
146098 AATCATTATAAT
1 AATGATT-TAAT
146110 AATGATTTAAT
1 AATGATTTAAT
146121 AATGATTTAAT
1 AATGATTTAAT
* *
146132 AATAATGATAAT
1 AATGAT-TTAAT
146144 AATGATTTAATAGT
1 AATGATTT-A-A-T
146158 AATGATTTAAT
1 AATGATTTAAT
*
146169 AATGATTTAGT
1 AATGATTTAAT
146180 AATGATTTTATAAT
1 AATGA--TT-TAAT
146194 AATGATTTAATAT
1 AATGATTT-A-AT
146207 AATGATTTAAT
1 AATGATTTAAT
146218 AAT
1 AAT
146221 TATTACTAAT
Statistics
Matches: 315, Mismatches: 37, Indels: 80
0.73 0.09 0.19
Matches are distributed among these distances:
8 4 0.01
9 5 0.02
10 9 0.03
11 92 0.29
12 98 0.31
13 35 0.11
14 53 0.17
15 7 0.02
16 12 0.04
ACGTcount: A:0.46, C:0.01, G:0.09, T:0.44
Consensus pattern (11 bp):
AATGATTTAAT
Found at i:145876 original size:18 final size:18
Alignment explanation
Indices: 145855--145890 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
145845 AATGATTTAG
*
145855 TAATGATTTGATAATAAT
1 TAATAATTTGATAATAAT
145873 TAATAATTTGATAATAAT
1 TAATAATTTGATAATAAT
145891 CATTATAATA
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:0.47, C:0.00, G:0.08, T:0.44
Consensus pattern (18 bp):
TAATAATTTGATAATAAT
Found at i:145899 original size:23 final size:23
Alignment explanation
Indices: 145873--146155 Score: 167
Period size: 23 Copynumber: 12.2 Consensus size: 23
145863 TGATAATAAT
145873 TAATAATTTGATAATAATCATTA
1 TAATAATTTGATAATAATCATTA
*
145896 TAATAATGATTTAGTAATAATCATTA
1 TAATAAT--TTGA-TAATAATCATTA
**
145922 TAATAA--TGATTTTAAT-ATT-
1 TAATAATTTGATAATAATCATTA
* * *
145941 TAATGATTTGATGAT--T--TAA
1 TAATAATTTGATAATAATCATTA
*
145960 TAATGATTTGATAATAATCATTA
1 TAATAATTTGATAATAATCATTA
*
145983 TAATAATGTTTAGTAATAATCATTA
1 TAATAAT-TTGA-TAATAATCATTA
* * *
146008 TAATAATGATTTAATAATAATGATAA
1 TAAT-A--ATTTGATAATAATCATTA
* *
146034 TAATGATTTGTTAATAATCATTA
1 TAATAATTTGATAATAATCATTA
* * *
146057 TAATAATGATTTAATAATAATGATAA
1 TAAT-A--ATTTGATAATAATCATTA
* *
146083 TAATGATTTAATAATAATCATTA
1 TAATAATTTGATAATAATCATTA
*
146106 TAATAA--TGATTTAATAATGATT-
1 TAATAATTTGA--TAATAATCATTA
* *
146128 TAATAATAATGATAATAATGATT-
1 TAATAAT-TTGATAATAATCATTA
146151 TAATA
1 TAATA
146156 GTAATGATTT
Statistics
Matches: 206, Mismatches: 31, Indels: 46
0.73 0.11 0.16
Matches are distributed among these distances:
18 1 0.00
19 20 0.10
20 3 0.01
21 13 0.06
22 8 0.04
23 80 0.39
24 3 0.01
25 22 0.11
26 51 0.25
27 3 0.01
28 2 0.01
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (23 bp):
TAATAATTTGATAATAATCATTA
Found at i:145907 original size:26 final size:25
Alignment explanation
Indices: 145844--146220 Score: 245
Period size: 26 Copynumber: 15.2 Consensus size: 25
145834 ATTTAATATT
* *
145844 TAATGATTTAGTAATGATTTGATAATAA
1 TAATGATTTA-TAAT-A-ATGATTATAA
* *
145872 TTAATAATTTGATAATAATCATTATAA
1 -TAATGATTT-ATAATAATGATTATAA
*
145899 TAATGATTTAGTAATAATCATTATAA
1 TAATGATTTA-TAATAATGATTATAA
* * * *
145925 TAATGATTT-TAATATTTAATGAT-T
1 TAATGATTTATAATA-ATGATTATAA
*
145949 TGATGA-TT-TAATAATGATTTGATAA
1 TAATGATTTATAATAATGA-TT-ATAA
* *
145974 TAATCA-TTATAATAATGTTTAGTAA
1 TAATGATTTATAATAATGATTA-TAA
*
145999 TAATCA-TTATAATAATGATT-TAA
1 TAATGATTTATAATAATGATTATAA
* * *
146022 TAAT-AATGATAATAATGATTTGTTAA
1 TAATGATTTATAATAATGA-TT-ATAA
*
146048 TAATCA-TTATAATAATGATT-TAA
1 TAATGATTTATAATAATGATTATAA
* *
146071 TAAT-AATGATAATAATGATT-TAA
1 TAATGATTTATAATAATGATTATAA
*
146094 TAATAATCATTATAATAATGATT-TAA
1 TAATGAT--TTATAATAATGATTATAA
146120 TAATGATTTAATAATAATG---ATAA
1 TAATGATTT-ATAATAATGATTATAA
*
146143 TAATGATTTAATAGTAATGATT-TAA
1 TAATGATTT-ATAATAATGATTATAA
* *
146168 TAATGATTTAGTAATGAT-TTTATAA
1 TAATGATTTA-TAATAATGATTATAA
146193 TAATGATTTA-ATATAATGATT-TAA
1 TAATGATTTATA-ATAATGATTATAA
146217 TAAT
1 TAAT
146221 TATTACTAAT
Statistics
Matches: 292, Mismatches: 30, Indels: 57
0.77 0.08 0.15
Matches are distributed among these distances:
22 4 0.01
23 75 0.26
24 32 0.11
25 79 0.27
26 80 0.27
27 8 0.03
28 1 0.00
29 12 0.04
30 1 0.00
ACGTcount: A:0.46, C:0.02, G:0.09, T:0.44
Consensus pattern (25 bp):
TAATGATTTATAATAATGATTATAA
Found at i:146033 original size:6 final size:6
Alignment explanation
Indices: 145996--146146 Score: 53
Period size: 6 Copynumber: 26.2 Consensus size: 6
145986 TAATGTTTAG
* * * * * * *
145996 TAATAA TCATTA TAATAA TGAT-T TAATAA TAATGA TAATAA TGAT-T
1 TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA
** * * * * * *
146042 TGTTAA TAATCA TTATAA TAATGA T-TTAA TAATAA TGATAA TAATGA
1 TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA
* * * * * * *
146089 T-TTAA TAATAA TCATTA TAATAA TGAT-T TAATAA TGAT-T TAATAA
1 TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA
*
146134 TAATGA TAATAA T
1 TAATAA TAATAA T
146147 GATTTAATAG
Statistics
Matches: 95, Mismatches: 44, Indels: 12
0.63 0.29 0.08
Matches are distributed among these distances:
5 18 0.19
6 77 0.81
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.42
Consensus pattern (6 bp):
TAATAA
Found at i:146068 original size:49 final size:48
Alignment explanation
Indices: 145957--146220 Score: 282
Period size: 49 Copynumber: 5.4 Consensus size: 48
145947 TTTGATGATT
* * * *
145957 TAATAATGATTTGATAATAATCATTATAATAATGTTTAGTAATAATCATTA
1 TAATAATGATTTAATAATAAT-ATAATAATGAT-TTGA-TAATAATCATTA
*
146008 TAATAATGATTTAATAATAATGATAATAATGATTTGTTAATAATCATTA
1 TAATAATGATTTAATAATAAT-ATAATAATGATTTGATAATAATCATTA
*
146057 TAATAATGATTTAATAATAATGATAATAATGATTTAATAATAATCATTA
1 TAATAATGATTTAATAATAAT-ATAATAATGATTTGATAATAATCATTA
* * * *
146106 TAATAATGATTTAATAATGATTTAATAAT-A-ATGATAATAATGATTTAA
1 TAATAATGATTTAATAATAATATAATAATGATTTGATAATAATCA-TT-A
* * * * * *
146154 TAGTAATGATTTAATAATGATTTAGTAATGATTTTATAATAATGATT-
1 TAATAATGATTTAATAATAATATAATAATGATTTGATAATAATCATTA
146201 TAATATAATGATTTAATAAT
1 T-A-ATAATGATTTAATAAT
146221 TATTACTAAT
Statistics
Matches: 189, Mismatches: 18, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
46 10 0.05
47 4 0.02
48 36 0.19
49 97 0.51
50 13 0.07
51 29 0.15
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (48 bp):
TAATAATGATTTAATAATAATATAATAATGATTTGATAATAATCATTA
Found at i:146400 original size:32 final size:35
Alignment explanation
Indices: 146361--146434 Score: 91
Period size: 38 Copynumber: 2.1 Consensus size: 35
146351 TTATTATTAA
*
146361 TAATGATT-TATTAAT-ATT-TAATTATTTGATAC
1 TAATGATTATATTAATAATTATAATAATTTGATAC
146393 TAATGATTACTATTAATGAAATTATAATAATTTGATAC
1 TAATGATTA-TATTAAT--AATTATAATAATTTGATAC
146431 TAAT
1 TAAT
146435 TTCAATATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
32 8 0.23
34 7 0.20
37 3 0.09
38 17 0.49
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (35 bp):
TAATGATTATATTAATAATTATAATAATTTGATAC
Found at i:148600 original size:15 final size:16
Alignment explanation
Indices: 148580--148613 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
148570 CAAAAAAAAT
148580 TAATATAAT-AACTTA
1 TAATATAATAAACTTA
148595 TAATATAATAAACTTA
1 TAATATAATAAACTTA
148611 TAA
1 TAA
148614 AGTAAACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
TAATATAATAAACTTA
Found at i:148851 original size:45 final size:47
Alignment explanation
Indices: 148775--148864 Score: 123
Period size: 45 Copynumber: 2.0 Consensus size: 47
148765 CAACAAACTA
* *
148775 ATATAACTTAACTAATTAACTAACACAAACTAATTAAATAATTTTTTT
1 ATATAACTTAACGAATTAACTAAAACAAACTAATT-AATAATTTTTTT
*
148823 ATATAAC-TAACGAA-TAAC-AAAACAAACTAATTAATTATTTTT
1 ATATAACTTAACGAATTAACTAAAACAAACTAATTAATAATTTTT
148865 AACTATATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
44 9 0.23
45 13 0.33
46 4 0.10
47 6 0.15
48 7 0.18
ACGTcount: A:0.50, C:0.12, G:0.01, T:0.37
Consensus pattern (47 bp):
ATATAACTTAACGAATTAACTAAAACAAACTAATTAATAATTTTTTT
Found at i:149099 original size:13 final size:13
Alignment explanation
Indices: 149060--149106 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
149050 CTCACAAGAG
149060 CCTTATCTCCCTTT
1 CCTT-TCTCCCTTT
* *
149074 CTTCTTCTTCCTTT
1 CCT-TTCTCCCTTT
149088 CCTTTCTCCCTTT
1 CCTTTCTCCCTTT
149101 -CTTTCT
1 CCTTTCT
149107 TTCTTTCTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 6 0.21
13 9 0.32
14 12 0.43
15 1 0.04
ACGTcount: A:0.02, C:0.40, G:0.00, T:0.57
Consensus pattern (13 bp):
CCTTTCTCCCTTT
Found at i:161004 original size:21 final size:21
Alignment explanation
Indices: 160978--161017 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
160968 TACTTACGTG
160978 TCATCATAAAGTAATATCATT
1 TCATCATAAAGTAATATCATT
*
160999 TCATCATTAAGTAATATCA
1 TCATCATAAAGTAATATCA
161018 CGTCATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.15, G:0.05, T:0.38
Consensus pattern (21 bp):
TCATCATAAAGTAATATCATT
Found at i:161023 original size:21 final size:21
Alignment explanation
Indices: 160977--161023 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
160967 TTACTTACGT
*
160977 GTCATCATAAAGTAATATCAT
1 GTCATCATAAAGTAATATCAC
* *
160998 TTCATCATTAAGTAATATCAC
1 GTCATCATAAAGTAATATCAC
161019 GTCAT
1 GTCAT
161024 TATTGAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (21 bp):
GTCATCATAAAGTAATATCAC
Found at i:161475 original size:15 final size:15
Alignment explanation
Indices: 161455--161496 Score: 75
Period size: 15 Copynumber: 2.8 Consensus size: 15
161445 GTTACCGTCT
161455 AAATTGAATTAACTA
1 AAATTGAATTAACTA
161470 AAATTGAATTAACTA
1 AAATTGAATTAACTA
*
161485 AAAGTGAATTAA
1 AAATTGAATTAA
161497 TCGAAATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.31
Consensus pattern (15 bp):
AAATTGAATTAACTA
Found at i:162205 original size:31 final size:31
Alignment explanation
Indices: 162161--162240 Score: 101
Period size: 31 Copynumber: 2.6 Consensus size: 31
162151 TTCAATAATA
*
162161 TAATAAGTATTTTATAGT-ATTTAGATAAATT
1 TAATAAGTATTTTATAATCATTTA-ATAAATT
* *
162192 TATTAA-TAATTTTATAATCTTTTAATAAATT
1 TAATAAGT-ATTTTATAATCATTTAATAAATT
162223 TAATAAGTATTTTATAAT
1 TAATAAGTATTTTATAAT
162241 TTTTAAACTT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
30 1 0.02
31 36 0.86
32 5 0.12
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.51
Consensus pattern (31 bp):
TAATAAGTATTTTATAATCATTTAATAAATT
Found at i:162208 original size:20 final size:20
Alignment explanation
Indices: 162185--162247 Score: 53
Period size: 19 Copynumber: 3.2 Consensus size: 20
162175 TAGTATTTAG
162185 ATAAAT-TTATTAATAATTTT
1 ATAAATATT-TTAATAATTTT
* *
162205 AT-AATCTTTTAATAAATTTA
1 ATAAATATTTTAAT-AATTTT
*
162225 ATAAGTATTTT-ATAATTTT
1 ATAAATATTTTAATAATTTT
162244 -TAAA
1 ATAAA
162248 CTTTATTGAC
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
18 3 0.09
19 13 0.37
20 13 0.37
21 6 0.17
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (20 bp):
ATAAATATTTTAATAATTTT
Found at i:162218 original size:19 final size:20
Alignment explanation
Indices: 162194--162243 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
162184 GATAAATTTA
*
162194 TTAATAATTTTATAA-TCTT
1 TTAATAATTTTATAAGTATT
*
162213 TTAATAAATTTAATAAGTATT
1 TTAAT-AATTTTATAAGTATT
162234 TT-ATAATTTT
1 TTAATAATTTT
162244 TAAACTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 10 0.38
20 11 0.42
21 5 0.19
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
TTAATAATTTTATAAGTATT
Found at i:162234 original size:11 final size:10
Alignment explanation
Indices: 162161--162246 Score: 50
Period size: 11 Copynumber: 8.3 Consensus size: 10
162151 TTCAATAATA
162161 TAATAAGTATT
1 TAATAA-TATT
* *
162172 TTATAGTATT
1 TAATAATATT
162182 TAGATAA-ATT
1 TA-ATAATATT
*
162192 TATTAATAATT
1 TAATAAT-ATT
* *
162203 TTATAATCTTT
1 TAATAAT-ATT
162214 TAATAA-ATT
1 TAATAATATT
162223 TAATAAGTATT
1 TAATAA-TATT
* *
162234 TTATAATTTT
1 TAATAATATT
162244 TAA
1 TAA
162247 ACTTTATTGA
Statistics
Matches: 56, Mismatches: 14, Indels: 11
0.69 0.17 0.14
Matches are distributed among these distances:
9 11 0.20
10 15 0.27
11 30 0.54
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.52
Consensus pattern (10 bp):
TAATAATATT
Found at i:163004 original size:31 final size:30
Alignment explanation
Indices: 162969--163055 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 30
162959 TCAATAAAGT
162969 TTAAAAAATTATAAAATACTTATTAAATTTA
1 TTAAAAAATTATAAAATA-TTATTAAATTTA
* *
163000 TTAAAAGATTATAAAATTATTAATAAATTTA
1 TTAAAAAATTATAAAA-TATTATTAAATTTA
* *
163031 TCT-AAATACTATAAAATAATTATTA
1 T-TAAAAAATTATAAAAT-ATTATTA
163056 TATTATCGAA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
30 1 0.02
31 44 0.92
32 3 0.06
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.41
Consensus pattern (30 bp):
TTAAAAAATTATAAAATATTATTAAATTTA
Found at i:163031 original size:20 final size:20
Alignment explanation
Indices: 162964--163031 Score: 54
Period size: 19 Copynumber: 3.5 Consensus size: 20
162954 TTTCGTCAAT
*
162964 AAAG-TTTAAAAAATTA-TA
1 AAAGATTTATAAAATTATTA
* * *
162982 AAATACTTATTAAATTTATTA
1 AAAGATTTA-TAAAATTATTA
163003 AAAGA-TTATAAAATTATTA
1 AAAGATTTATAAAATTATTA
163022 ATAA-ATTTAT
1 A-AAGATTTAT
163032 CTAAATACTA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
18 3 0.08
19 15 0.38
20 15 0.38
21 6 0.15
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.41
Consensus pattern (20 bp):
AAAGATTTATAAAATTATTA
Found at i:173165 original size:15 final size:15
Alignment explanation
Indices: 173145--173175 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
173135 ATCAATATTT
173145 TTTAAAAAATAAAAA
1 TTTAAAAAATAAAAA
*
173160 TTTAAAAAATATAAA
1 TTTAAAAAATAAAAA
173175 T
1 T
173176 ATTACAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
TTTAAAAAATAAAAA
Found at i:173250 original size:17 final size:18
Alignment explanation
Indices: 173230--173270 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
173220 AAGATATTAT
*
173230 AAATTTATTTTTA-ACGA
1 AAATTTATTTTAACACGA
*
173247 AAA-TTATTTTAACACGT
1 AAATTTATTTTAACACGA
173264 AAATTTA
1 AAATTTA
173271 ACTTAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 8 0.40
17 9 0.45
18 3 0.15
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (18 bp):
AAATTTATTTTAACACGA
Found at i:174563 original size:21 final size:21
Alignment explanation
Indices: 174520--174612 Score: 109
Period size: 21 Copynumber: 4.5 Consensus size: 21
174510 TTTTCCTAAT
** *
174520 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTGGGAAAA
*
174540 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTGGGAAAA
** *
174561 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTGGGAAAA
174581 TCGCAATGCGAATTGGGAAAA
1 TCGCAATGCGAATTGGGAAAA
174602 TCGCAATGCGA
1 TCGCAATGCGA
174613 TACTTACTAT
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.47
21 32 0.53
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (21 bp):
TCGCAATGCGAATTGGGAAAA
Found at i:174565 original size:41 final size:41
Alignment explanation
Indices: 174520--174612 Score: 177
Period size: 41 Copynumber: 2.3 Consensus size: 41
174510 TTTTCCTAAT
174520 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
*
174561 TCGCAATGCGAATAAGTAAATCGCAATGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
174602 TCGCAATGCGA
1 TCGCAATGCGA
174613 TACTTACTAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:174625 original size:41 final size:41
Alignment explanation
Indices: 174539--174673 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
174529 GAATAAGTAA
** *
174539 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATAAGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTTACT
*
174580 ATCGCAATGCGAATTGGGAAAATCGCAATGCGATACTTACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
* * ** * *
174621 ATCGCAATGCGATAAT-ACAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTTACT
*
174662 TTCGCAACGCGA
1 ATCGCAACGCGA
174674 TACTGACTTT
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
40 5 0.06
41 74 0.91
42 2 0.02
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
Found at i:174626 original size:20 final size:20
Alignment explanation
Indices: 174601--174694 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
174591 AATTGGGAAA
*
174601 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTTACT
* * *
174621 ATCGCAATGCGATA-ATACAAA
1 ATCGCAACGCGATACTTAC--T
*
174642 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTTACT
* *
174662 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTTACT
*
174682 TTCGCAACGCGAT
1 ATCGCAACGCGAT
174695 TTACATAGCG
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
19 3 0.05
20 44 0.71
21 12 0.19
22 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTTACT
Found at i:174647 original size:21 final size:20
Alignment explanation
Indices: 174557--174648 Score: 57
Period size: 20 Copynumber: 4.5 Consensus size: 20
174547 GCGAATTGGG
174557 AAAATCGCAATGCG-AATA-
1 AAAATCGCAATGCGAAATAC
* **
174575 AGTAAATCGCAATGCGAATTGGG
1 A--AAATCGCAATGCGAAAT-AC
174598 AAAATCGCAATGCG--ATAC
1 AAAATCGCAATGCGAAATAC
**
174616 TTACTATCGCAATGCGATAATAC
1 --AAAATCGCAATGCGA-AATAC
174639 AAAATCGCAA
1 AAAATCGCAA
174649 CGAGATACTT
Statistics
Matches: 55, Mismatches: 9, Indels: 17
0.68 0.11 0.21
Matches are distributed among these distances:
18 1 0.02
19 1 0.02
20 25 0.45
21 23 0.42
23 5 0.09
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.21
Consensus pattern (20 bp):
AAAATCGCAATGCGAAATAC
Found at i:175272 original size:19 final size:19
Alignment explanation
Indices: 175212--175292 Score: 73
Period size: 19 Copynumber: 4.5 Consensus size: 19
175202 TTCGAGAATG
175212 AAAATCGCAACGCGAAAATA
1 AAAATCGCAACGCG-AAATA
** *
175232 ACTATCGCAA--CGAGAT-
1 AAAATCGCAACGCGAAATA
175248 --AATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
175265 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
175284 AAAATCGCA
1 AAAATCGCA
175293 TTGCGATTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
14 7 0.14
16 5 0.10
17 3 0.06
18 2 0.04
19 24 0.49
20 8 0.16
ACGTcount: A:0.48, C:0.25, G:0.16, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:175310 original size:19 final size:19
Alignment explanation
Indices: 175288--175438 Score: 177
Period size: 19 Copynumber: 8.1 Consensus size: 19
175278 GAAACCAAAA
*
175288 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
175307 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
175326 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
175345 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
175365 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
175381 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
175398 TCGCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
175417 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
175437 TC
1 TC
175439 AACCAAAAGA
Statistics
Matches: 114, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
14 10 0.09
15 1 0.01
16 1 0.01
17 1 0.01
18 1 0.01
19 65 0.57
20 35 0.31
ACGTcount: A:0.12, C:0.21, G:0.22, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:175365 original size:39 final size:38
Alignment explanation
Indices: 175288--175438 Score: 177
Period size: 39 Copynumber: 4.1 Consensus size: 38
175278 GAAACCAAAA
*
175288 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
*
175326 TCGCGTTGCGATTTTTATTTCGCGGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGC-GTTGCGATTTTCATT
* * **
175365 TCGCGTTGCGATTGTC---T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
* *
175398 TCGCGTTGCGATTCTCATTATCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT-TCGCGTTGCGATTTTCATT
175437 TC
1 TC
175439 AACCAAAAGA
Statistics
Matches: 94, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
33 27 0.29
35 1 0.01
36 1 0.01
37 1 0.01
38 21 0.22
39 43 0.46
ACGTcount: A:0.12, C:0.21, G:0.22, T:0.45
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
Found at i:177481 original size:42 final size:42
Alignment explanation
Indices: 177421--177543 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
177411 GCCCGACTCG
* * *
177421 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
177463 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
177505 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
177544 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:177501 original size:21 final size:21
Alignment explanation
Indices: 177477--177543 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
177467 TCATTCCTCG
177477 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
177498 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
177519 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
177540 AGAG
1 AGAG
177544 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:178920 original size:14 final size:14
Alignment explanation
Indices: 178901--178936 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
178891 ATTGTTTAAT
178901 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
178915 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
178929 TGATTTGT
1 TGATTTGT
178937 TTAATTGATG
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:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:179161 original size:33 final size:32
Alignment explanation
Indices: 179119--179245 Score: 184
Period size: 33 Copynumber: 3.9 Consensus size: 32
179109 ATTAAATTCG
179119 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
* **
179152 CGTTGCGATTTTCATTTCGCATTGCAAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGC--GATTCCT
179185 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
179218 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
179246 GGACATTAAG
Statistics
Matches: 84, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
31 3 0.04
33 78 0.93
35 3 0.04
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:179208 original size:66 final size:66
Alignment explanation
Indices: 179112--179242 Score: 244
Period size: 66 Copynumber: 2.0 Consensus size: 66
179102 ACGCGAAATT
*
179112 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
179177 A
66 A
*
179178 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
179243 GATGGACATT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.42
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
A
Found at i:181526 original size:12 final size:12
Alignment explanation
Indices: 181509--181533 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
181499 TCTTCGGGGA
181509 CTTTTTCTTCTT
1 CTTTTTCTTCTT
181521 CTTTTTCTTCTT
1 CTTTTTCTTCTT
181533 C
1 C
181534 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:181740 original size:24 final size:24
Alignment explanation
Indices: 181706--181759 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
181696 CTGAAACATC
* *
181706 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
181730 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
181754 ATCAAA
1 ATCAAA
181760 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:182815 original size:19 final size:19
Alignment explanation
Indices: 182791--182916 Score: 85
Period size: 19 Copynumber: 7.2 Consensus size: 19
182781 AGACAAAACT
182791 CGATTTTCATTTCGCGTTG
1 CGATTTTCATTTCGCGTTG
*
182810 CGA-TTT--TGT--CGTTG
1 CGATTTTCATTTCGCGTTG
182824 CGA-TTTCATTTCGCGTTG
1 CGATTTTCATTTCGCGTTG
*
182842 CGA-TTT--TGT--CGTTG
1 CGATTTTCATTTCGCGTTG
*
182856 CGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCGTTG
***
182875 CGATAGCCATTTCCGCGTTG
1 CGATTTTCATTT-CGCGTTG
** *
182895 CGATAGTCATTTCGTGTTG
1 CGATTTTCATTTCGCGTTG
182914 CGA
1 CGA
182917 AAGTAAACTA
Statistics
Matches: 86, Mismatches: 11, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
14 19 0.22
15 3 0.03
16 6 0.07
17 2 0.02
18 14 0.16
19 25 0.29
20 17 0.20
ACGTcount: A:0.13, C:0.21, G:0.24, T:0.43
Consensus pattern (19 bp):
CGATTTTCATTTCGCGTTG
Found at i:182824 original size:14 final size:14
Alignment explanation
Indices: 182805--182862 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
182795 TTTCATTTCG
182805 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
182819 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
182835 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
182851 CGTTGCGATTTT
1 CGTTGCGATTTT
182863 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:182833 original size:32 final size:33
Alignment explanation
Indices: 182791--182878 Score: 160
Period size: 32 Copynumber: 2.7 Consensus size: 33
182781 AGACAAAACT
182791 CGATTTTCATTTCGCGTTGCGATTTTGTCGTTG
1 CGATTTTCATTTCGCGTTGCGATTTTGTCGTTG
182824 CGA-TTTCATTTCGCGTTGCGATTTTGTCGTTG
1 CGATTTTCATTTCGCGTTGCGATTTTGTCGTTG
*
182856 CGATTTTCATTTCGCATTGCGAT
1 CGATTTTCATTTCGCGTTGCGAT
182879 AGCCATTTCC
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
32 32 0.60
33 21 0.40
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (33 bp):
CGATTTTCATTTCGCGTTGCGATTTTGTCGTTG
Found at i:182897 original size:20 final size:19
Alignment explanation
Indices: 182863--182916 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 19
182853 TTGCGATTTT
*
182863 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
182882 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
182902 CATTTCGTGTTGCGA
1 CATTTCGCGTTGCGA
182917 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:183415 original size:18 final size:18
Alignment explanation
Indices: 183389--183433 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
183379 GTCGATCAGA
* *
183389 TGATGGCTCTGGGTGGGG
1 TGATGGCTCTGGGCGAGG
*
183407 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
183425 TGATGGCTC
1 TGATGGCTC
183434 CCGAAGTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.11, C:0.16, G:0.47, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:184989 original size:22 final size:22
Alignment explanation
Indices: 184964--185007 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
184954 GATTTAGATA
184964 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
184986 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
185008 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:185288 original size:20 final size:20
Alignment explanation
Indices: 185175--185288 Score: 90
Period size: 20 Copynumber: 5.7 Consensus size: 20
185165 CGCTTTGAAA
185175 ATCGCATTGCGATTATGTAA--
1 ATCGCATTGCGA-TA-GTAAGT
* * *
185195 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTAAGT
* *
185215 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTAAGT
* * * *
185235 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTAAGT
185256 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTAAGT
185276 ATCGCATTGCGAT
1 ATCGCATTGCGAT
185289 TTTCCCAATT
Statistics
Matches: 77, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
18 3 0.04
19 4 0.05
20 56 0.73
21 12 0.16
22 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (20 bp):
ATCGCATTGCGATAGTAAGT
Found at i:185306 original size:21 final size:21
Alignment explanation
Indices: 185277--185352 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
185267 ATAGTAAGTA
185277 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
185298 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
185318 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
*
185339 TCGCGTTGCGATTT
1 TCGCATTGCGATTT
185353 ACTTATTCGC
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.16, C:0.25, G:0.18, T:0.41
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:185307 original size:41 final size:41
Alignment explanation
Indices: 185216--185350 Score: 148
Period size: 41 Copynumber: 3.3 Consensus size: 41
185206 AAAGTCAGTA
* * * ** *
185216 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-GTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
*
185256 ATCGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
185298 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
185339 TCGCGTTGCGAT
1 TCGCGTTGCGAT
185351 TTACTTATTC
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
40 4 0.05
41 75 0.93
42 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:185321 original size:20 final size:20
Alignment explanation
Indices: 185296--185362 Score: 89
Period size: 20 Copynumber: 3.3 Consensus size: 20
185286 GATTTTCCCA
185296 ATTCGCGTTGCGATTTACTT
1 ATTCGCGTTGCGATTTACTT
* * **
185316 ATTCGCATTGCGATTTTCCCA
1 ATTCGCGTTGCGA-TTTACTT
185337 ATTCGCGTTGCGATTTACTT
1 ATTCGCGTTGCGATTTACTT
185357 ATTCGC
1 ATTCGC
185363 ATTGAGAATT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 22 0.58
21 16 0.42
ACGTcount: A:0.16, C:0.24, G:0.18, T:0.42
Consensus pattern (20 bp):
ATTCGCGTTGCGATTTACTT
Found at i:185351 original size:41 final size:41
Alignment explanation
Indices: 185277--185366 Score: 180
Period size: 41 Copynumber: 2.2 Consensus size: 41
185267 ATAGTAAGTA
185277 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
185318 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
185359 TCGCATTG
1 TCGCATTG
185367 AGAATTGGGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.17, C:0.24, G:0.18, T:0.41
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Done.