Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005863.1 Hibiscus syriacus cultivar Beakdansim tig00013782_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: 126647
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Found at i:538 original size:64 final size:62
Alignment explanation
Indices: 419--538 Score: 150
Period size: 64 Copynumber: 1.9 Consensus size: 62
409 CACATTCAAA
* * *
419 GTGCATCGATGCACCCTTTAAAGAAAAACATCGAATGCAATTAGTGCATCAATGCATAAGGC
1 GTGCATCGATGCACCCTTGAAACAAAAACATCGAATGCAATTAGTGCACCAATGCATAAGGC
* * * * *
481 GTGCATCGATGCATTCCCTTGATACAAAAACATCGAATGTATTTTGTGCACCGATGCA
1 GTGCATCGATGCA--CCCTTGAAACAAAAACATCGAATGCAATTAGTGCACCAATGCA
539 CCGTTAAGGA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
62 13 0.27
64 35 0.73
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (62 bp):
GTGCATCGATGCACCCTTGAAACAAAAACATCGAATGCAATTAGTGCACCAATGCATAAGGC
Found at i:1433 original size:23 final size:22
Alignment explanation
Indices: 1398--1471 Score: 87
Period size: 23 Copynumber: 3.3 Consensus size: 22
1388 TAAGGACATT
1398 ATTATA-TGGCACTACGGTGCA
1 ATTATACTGGCACTACGGTGCA
* *
1419 ATTATACTCGGCACTCCGGAGCA
1 ATTATACT-GGCACTACGGTGCA
* *
1442 ATTCTACGTGGCACTTCGGTGCA
1 ATTATAC-TGGCACTACGGTGCA
1465 ATTATAC
1 ATTATAC
1472 GAGCTGTGGT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
21 6 0.14
22 1 0.02
23 36 0.82
24 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (22 bp):
ATTATACTGGCACTACGGTGCA
Found at i:5536 original size:15 final size:14
Alignment explanation
Indices: 5510--5540 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
5500 TATCTAGAAG
5510 CTTATTTCCTTCTT
1 CTTATTTCCTTCTT
5524 CTTATTCTCCTTCTT
1 CTTATT-TCCTTCTT
5539 CT
1 CT
5541 CCCCGTAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.06, C:0.32, G:0.00, T:0.61
Consensus pattern (14 bp):
CTTATTTCCTTCTT
Found at i:6166 original size:20 final size:19
Alignment explanation
Indices: 6126--6200 Score: 60
Period size: 20 Copynumber: 3.7 Consensus size: 19
6116 AATGTATTTT
* *
6126 GTGCACCGATGCACAAGTAA
1 GTGCATCGATGCAC-CGTAA
6146 GTGCATCGATGCACCGTTAA
1 GTGCATCGATGCACCG-TAA
* * *
6166 GGATGCATTGATACACTGTATA
1 -G-TGCATCGATGCACCGTA-A
6188 GTGCATCGATGCA
1 GTGCATCGATGCA
6201 TACCTTCATT
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
19 1 0.02
20 26 0.59
21 4 0.09
22 13 0.30
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.24
Consensus pattern (19 bp):
GTGCATCGATGCACCGTAA
Found at i:6262 original size:27 final size:27
Alignment explanation
Indices: 6231--6284 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
6221 ATTAGCTTTT
6231 CTCTTAGCCTAAGAAGTGATAGTTTAA
1 CTCTTAGCCTAAGAAGTGATAGTTTAA
6258 CTCTTAGCCTAAGAAGTGATAGTTTAA
1 CTCTTAGCCTAAGAAGTGATAGTTTAA
6285 GATATATCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (27 bp):
CTCTTAGCCTAAGAAGTGATAGTTTAA
Found at i:7099 original size:23 final size:23
Alignment explanation
Indices: 7068--7133 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 23
7058 TATTATATGG
*
7068 CACTACGGTACAATTATACGCGA
1 CACTACGGTGCAATTATACGCGA
* * * *
7091 CACTCCGGTGCAATTCTATGTGA
1 CACTACGGTGCAATTATACGCGA
*
7114 CACTTCGGTGCAATTATACG
1 CACTACGGTGCAATTATACG
7134 AGCTGTGGTG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (23 bp):
CACTACGGTGCAATTATACGCGA
Found at i:9674 original size:25 final size:25
Alignment explanation
Indices: 9642--9699 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
9632 ATACATATAT
*
9642 TTGCACTCGAAAATGTCTTGTAGTA
1 TTGCACTCGAAAATGTCGTGTAGTA
* *
9667 TTGCACTCGAAAGTGTCGTGTAGTG
1 TTGCACTCGAAAATGTCGTGTAGTA
9692 TTGCACTC
1 TTGCACTC
9700 AAAGTGCCTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.34
Consensus pattern (25 bp):
TTGCACTCGAAAATGTCGTGTAGTA
Found at i:9713 original size:24 final size:24
Alignment explanation
Indices: 9642--9713 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 24
9632 ATACATATAT
* *
9642 TTGCACTCGAAAATGTCTTGTAGTA
1 TTGCACTCGAAAGTG-CCTGTAGTA
* *
9667 TTGCACTCGAAAGTGTCGTGTAGTG
1 TTGCACTCGAAAGTG-CCTGTAGTA
9692 TTGCACTC-AAAGTGCCTCGTAG
1 TTGCACTCGAAAGTGCCT-GTAG
9714 GATTCATACC
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
23 2 0.05
24 10 0.24
25 30 0.71
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (24 bp):
TTGCACTCGAAAGTGCCTGTAGTA
Found at i:21228 original size:24 final size:24
Alignment explanation
Indices: 21201--21251 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
21191 TTATATAATG
21201 AATGTGAAATATTGTAGTGTGAAC
1 AATGTGAAATATTGTAGTGTGAAC
21225 AATGTGAAATATTGTAGTGTGAAC
1 AATGTGAAATATTGTAGTGTGAAC
21249 AAT
1 AAT
21252 ATGACAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.04, G:0.24, T:0.33
Consensus pattern (24 bp):
AATGTGAAATATTGTAGTGTGAAC
Found at i:21590 original size:32 final size:33
Alignment explanation
Indices: 21549--21675 Score: 131
Period size: 32 Copynumber: 4.0 Consensus size: 33
21539 AGGGTCGAGG
21549 GTTACCTATG-TCTTTCGAGACATATGGACAGT
1 GTTACCTATGTTCTTTCGAGACATATGGACAGT
* *
21581 GTTACCTATG-TCCTTCGGGACATATGGACAG-
1 GTTACCTATGTTCTTTCGAGACATATGGACAGT
*** *
21612 GATTACCTATGTTCTAAGGA-ACATATGGACAAT
1 G-TTACCTATGTTCTTTCGAGACATATGGACAGT
* *
21645 -TTACCTATGTTCTTT-GGGACCTATGGACAGT
1 GTTACCTATGTTCTTTCGAGACATATGGACAGT
21676 TGCTGAGGTT
Statistics
Matches: 78, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
30 1 0.01
31 25 0.32
32 49 0.63
33 3 0.04
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (33 bp):
GTTACCTATGTTCTTTCGAGACATATGGACAGT
Found at i:22893 original size:20 final size:21
Alignment explanation
Indices: 22848--22890 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
22838 ATACAAGCCC
22848 TTACAAAAACATAAATAAAAA
1 TTACAAAAACATAAATAAAAA
22869 TTACAAAAACATAAATAAAAA
1 TTACAAAAACATAAATAAAAA
22890 T
1 T
22891 ACAGACACTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.70, C:0.09, G:0.00, T:0.21
Consensus pattern (21 bp):
TTACAAAAACATAAATAAAAA
Found at i:24377 original size:20 final size:20
Alignment explanation
Indices: 24352--24425 Score: 114
Period size: 20 Copynumber: 3.7 Consensus size: 20
24342 GACCAACAAA
24352 TTCGCAACGCGAATTCCAAT
1 TTCGCAACGCGAATTCCAAT
24372 TTCGCAACGCGAATTCCAAT
1 TTCGCAACGCGAATTCCAAT
* *
24392 TTCGCAAC-CCAGTTTCCAAT
1 TTCGCAACGCGA-ATTCCAAT
24412 TTCGCAACGCGAAT
1 TTCGCAACGCGAAT
24426 ATGTAAATCG
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 2 0.04
20 44 0.92
21 2 0.04
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (20 bp):
TTCGCAACGCGAATTCCAAT
Found at i:24436 original size:20 final size:21
Alignment explanation
Indices: 24348--24545 Score: 112
Period size: 20 Copynumber: 9.8 Consensus size: 21
24338 AAATGACCAA
*
24348 CAAATTCGCAACGCGAAT-TC
1 CAAATTCGCAACGCGAATATG
* *
24368 CAATTTCGCAACGCGAAT-TC
1 CAAATTCGCAACGCGAATATG
* * * * *
24388 CAATTTCGCAAC-CCAGTTTC
1 CAAATTCGCAACGCGAATATG
*
24408 CAATTTCGCAACGCGAATATG
1 CAAATTCGCAACGCGAATATG
* ** * * *
24429 TAAA-TCGCATTGCGATTTTC
1 CAAATTCGCAACGCGAATATG
24449 CAAATTCGCAACGCGAA-A-G
1 CAAATTCGCAACGCGAATATG
*
24468 ACAAATTCGCAACGCGAATTTG
1 -CAAATTCGCAACGCGAATATG
* * *
24490 TAAA-TCGCAACACAGAA-GT-
1 CAAATTCGCAACGC-GAATATG
24509 CAAATTCGCAACGCG-ATA-G
1 CAAATTCGCAACGCGAATATG
*
24528 TCAAATTCGCAACACGAA
1 -CAAATTCGCAACGCGAA
24546 AGTCAAATGT
Statistics
Matches: 138, Mismatches: 28, Indels: 23
0.73 0.15 0.12
Matches are distributed among these distances:
18 1 0.01
19 7 0.05
20 107 0.78
21 22 0.16
22 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.22
Consensus pattern (21 bp):
CAAATTCGCAACGCGAATATG
Found at i:24478 original size:41 final size:41
Alignment explanation
Indices: 24348--24553 Score: 158
Period size: 40 Copynumber: 5.1 Consensus size: 41
24338 AAATGACCAA
* * * *
24348 CAAATTCGCAACGCGA-ATTCCAATTTCGCAACGCG-AATT
1 CAAATTCGCAACGCGATTTTCCAAATTCGCAACACGAAAGT
* * * * *
24387 CCAATTTCGCAAC-CCAGTTTCCAATTTCGCAACGCGAATATGT
1 -CAAATTCGCAACGCGATTTTCCAAATTCGCAACACGAA-A-GT
** * *
24430 -AAA-TCGCATTGCGATTTTCCAAATTCGCAACGCGAAAGA
1 CAAATTCGCAACGCGATTTTCCAAATTCGCAACACGAAAGT
* **
24469 CAAATTCGCAACGCGAATTTGTAAA-TCGCAACAC-AGAAGT
1 CAAATTCGCAACGCGATTTTCCAAATTCGCAACACGA-AAGT
**
24509 CAAATTCGCAACGCGATAGT-CAAATTCGCAACACGAAAGT
1 CAAATTCGCAACGCGATTTTCCAAATTCGCAACACGAAAGT
24549 CAAAT
1 CAAAT
24554 GTTTTTACGC
Statistics
Matches: 134, Mismatches: 22, Indels: 20
0.76 0.12 0.11
Matches are distributed among these distances:
39 7 0.05
40 84 0.63
41 41 0.31
42 1 0.01
43 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.22
Consensus pattern (41 bp):
CAAATTCGCAACGCGATTTTCCAAATTCGCAACACGAAAGT
Found at i:24549 original size:20 final size:20
Alignment explanation
Indices: 24449--24553 Score: 117
Period size: 20 Copynumber: 5.2 Consensus size: 20
24439 TGCGATTTTC
*
24449 CAAATTCGCAACGCGAAAGA
1 CAAATTCGCAACGCGAAAGT
*
24469 CAAATTCGCAACGCGAATTTGT
1 CAAATTCGCAACGCGAA--AGT
*
24491 -AAA-TCGCAACAC-AGAAGT
1 CAAATTCGCAACGCGA-AAGT
*
24509 CAAATTCGCAACGCGATAGT
1 CAAATTCGCAACGCGAAAGT
*
24529 CAAATTCGCAACACGAAAGT
1 CAAATTCGCAACGCGAAAGT
24549 CAAAT
1 CAAAT
24554 GTTTTTACGC
Statistics
Matches: 71, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
18 2 0.03
19 4 0.06
20 60 0.85
21 4 0.06
22 1 0.01
ACGTcount: A:0.42, C:0.24, G:0.17, T:0.17
Consensus pattern (20 bp):
CAAATTCGCAACGCGAAAGT
Found at i:24710 original size:22 final size:22
Alignment explanation
Indices: 24685--24726 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
24675 GGCGACATCC
*
24685 GTCCCCATCTCCGACGAAATAA
1 GTCCCCATCTCCAACGAAATAA
*
24707 GTCCCCATTTCCAACGAAAT
1 GTCCCCATCTCCAACGAAAT
24727 TCGTCTATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.31, C:0.36, G:0.12, T:0.21
Consensus pattern (22 bp):
GTCCCCATCTCCAACGAAATAA
Found at i:24961 original size:13 final size:13
Alignment explanation
Indices: 24943--24976 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
24933 TTAGTATTTG
24943 TTTTTGTTTTGTC
1 TTTTTGTTTTGTC
*
24956 TTTTTGTTTTTTC
1 TTTTTGTTTTGTC
24969 TTTTTGTT
1 TTTTTGTT
24977 AAAGAAACCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.00, C:0.06, G:0.12, T:0.82
Consensus pattern (13 bp):
TTTTTGTTTTGTC
Found at i:27195 original size:21 final size:21
Alignment explanation
Indices: 27104--27199 Score: 86
Period size: 21 Copynumber: 4.6 Consensus size: 21
27094 GATGCATCTA
* * *
27104 TCATCATTCAAGAGGCGCCTT
1 TCATCGTTCAAGAGGCCCCTC
*
27125 TTATCGTTCAAGAGGCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* *
27146 TCATC-ATCGAAGAAGCCCCTC
1 TCATCGTTC-AAGAGGCCCCTC
* * * *
27167 CCACCGTTGAAGAGGCCCCTG
1 TCATCGTTCAAGAGGCCCCTC
27188 TCATCGTTCAAG
1 TCATCGTTCAAG
27200 TGGTCCCGCC
Statistics
Matches: 57, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
20 2 0.04
21 54 0.95
22 1 0.02
ACGTcount: A:0.23, C:0.33, G:0.20, T:0.24
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:28645 original size:14 final size:14
Alignment explanation
Indices: 28626--28665 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
28616 TTTTGATTAA
28626 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
** *
28640 TTGATTTGTTTAAT
1 TTGATTTGTAAAAG
28654 TTGATTTGTAAA
1 TTGATTTGTAAA
28666 TAAGAATTAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:28677 original size:61 final size:62
Alignment explanation
Indices: 28576--28715 Score: 185
Period size: 66 Copynumber: 2.2 Consensus size: 62
28566 TTTTACATTG
*
28576 AAAGTTGATTTGTTTAATTGATGAGGAAATAAGATTTA-TTTT-TTGATTAATTGATTTGTA
1 AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTCTTGATTAATTGATTTGTA
** * *
28636 AAAGTTGATTTGTTTAATTTGATTTGTAAATAAGAATTATTTTTTTGCTTGTTTAATTGATTTGT
1 AAAGTTGATTTGTTTAA-TTGATGAGGAAATAAGAATTA--TTTTT-CTTGATTAATTGATTTGT
28701 A
62 A
28702 AAAGTTGATTTGTT
1 AAAGTTGATTTGTT
28716 GTTTCTAAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
60 17 0.25
61 17 0.25
64 4 0.06
66 31 0.45
ACGTcount: A:0.31, C:0.01, G:0.17, T:0.51
Consensus pattern (62 bp):
AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTCTTGATTAATTGATTTGTA
Found at i:28844 original size:20 final size:20
Alignment explanation
Indices: 28821--28865 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
28811 AATAAGCGTT
*
28821 GCGATAGTCAAATTCGCAAC
1 GCGATAGTCAAATTCACAAC
*
28841 GCGAAAGTCAAATTCACAAC
1 GCGATAGTCAAATTCACAAC
28861 GCGAT
1 GCGAT
28866 TTTTAGTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.18
Consensus pattern (20 bp):
GCGATAGTCAAATTCACAAC
Found at i:29159 original size:39 final size:39
Alignment explanation
Indices: 29105--29187 Score: 139
Period size: 39 Copynumber: 2.1 Consensus size: 39
29095 TCAAGTTGTA
*
29105 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
1 GATTTGGATTTCCTTTTGCTTGGCACCATATGAGATTTG
* *
29144 GATTTGGATTTCCTTTTGTTTGGCACCATATGAGCTTTG
1 GATTTGGATTTCCTTTTGCTTGGCACCATATGAGATTTG
29183 GATTT
1 GATTT
29188 TGATGAGCAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.17, C:0.14, G:0.22, T:0.47
Consensus pattern (39 bp):
GATTTGGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:29525 original size:18 final size:18
Alignment explanation
Indices: 29502--29538 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
29492 CGAAATTTAT
29502 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
29520 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
29538 A
1 A
29539 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:30574 original size:30 final size:30
Alignment explanation
Indices: 30538--30601 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
30528 GAAGGACCTG
* *
30538 TCCAGAGGTTACAAAGAACCCCGGTAACTA
1 TCCAGAGGTCACAAAGAACCCCGGCAACTA
* * *
30568 TCCAGAGGTCATAAAGATCCTCGGCAACTA
1 TCCAGAGGTCACAAAGAACCCCGGCAACTA
30598 TCCA
1 TCCA
30602 TATGTTCCTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (30 bp):
TCCAGAGGTCACAAAGAACCCCGGCAACTA
Found at i:31371 original size:64 final size:63
Alignment explanation
Indices: 31275--31486 Score: 205
Period size: 64 Copynumber: 3.3 Consensus size: 63
31265 TCTTTTAATG
* *
31275 AAGGTATGCATCGATGCACTACTTGTGTATCGATGCATAAAATGCATTCGATGTTTCATTAATAA
1 AAGG-ATGCATCGATGCACTACTTATGCATCGATGCATAAAATGCATTCGATGTTTCATT-ATAA
** ** * * * *
31340 CGGGATGCATCGATGCACTACTTATGCATCGATGCACGAATTACATTCGATGTTTTTATTTTAA
1 AAGGATGCATCGATGCACTACTTATGCATCGATGCATAAAATGCATTCGATG-TTTCATTATAA
* * * * *
31404 AAGGATGCATCGATGCATTAGC-GATGCATCGATGCATCAAAGGCATTCGATGTTCTTC-TT-TT
1 AAGGATGCATCGATGCACTA-CTTATGCATCGATGCATAAAATGCATTCGATG-T-TTCATTATA
31466 A
63 A
31467 AAGGAATGCATCGATGCACT
1 AAGG-ATGCATCGATGCACT
31487 TATGAATGTG
Statistics
Matches: 121, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
63 6 0.05
64 104 0.86
65 11 0.09
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (63 bp):
AAGGATGCATCGATGCACTACTTATGCATCGATGCATAAAATGCATTCGATGTTTCATTATAA
Found at i:34840 original size:30 final size:30
Alignment explanation
Indices: 34804--34867 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
34794 GAAGGACCTG
* *
34804 TCCAGAGGTTACAAAGAACCTCGGTAACTA
1 TCCAGAGGTCACAAAGAACCTCGGCAACTA
* *
34834 TCCAGAGGTCATAAAGATCCTCGGCAACTA
1 TCCAGAGGTCACAAAGAACCTCGGCAACTA
34864 TCCA
1 TCCA
34868 TATGTTCCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.20
Consensus pattern (30 bp):
TCCAGAGGTCACAAAGAACCTCGGCAACTA
Found at i:35636 original size:64 final size:63
Alignment explanation
Indices: 35541--35752 Score: 205
Period size: 64 Copynumber: 3.3 Consensus size: 63
35531 TCTTTTAATG
*
35541 AAGGTATGCATCGATGCACTACTTGTGCATCGATGCATAAAATGCATTCGATGTTTCATTAATAA
1 AAGG-ATGCATCGATGCACTACTTATGCATCGATGCATAAAATGCATTCGATGTTTCATT-ATAA
** ** * * * *
35606 CGGGATGCATCGATGCACTACTTATGCATCGATGCACGAATTACATTCGATGTTTTTATTTTAA
1 AAGGATGCATCGATGCACTACTTATGCATCGATGCATAAAATGCATTCGATG-TTTCATTATAA
* * * * * *
35670 AAGGATGCATCGATGCATTAGC-GATGCATCGATGCATCAAAGGCATTCAATGTTCTTC-TT-TT
1 AAGGATGCATCGATGCACTA-CTTATGCATCGATGCATAAAATGCATTCGATG-T-TTCATTATA
35732 A
63 A
35733 AAGGAATGCATCGATGCACT
1 AAGG-ATGCATCGATGCACT
35753 TATGAATGTG
Statistics
Matches: 121, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
63 6 0.05
64 104 0.86
65 11 0.09
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (63 bp):
AAGGATGCATCGATGCACTACTTATGCATCGATGCATAAAATGCATTCGATGTTTCATTATAA
Found at i:36662 original size:25 final size:25
Alignment explanation
Indices: 36633--36682 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
36623 ATTATTTTTC
*
36633 CAAATAATGTACCCATAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
*
36658 CAAATAATGTACCCACAATAATGTT
1 CAAATAATGTACCCACAACAATGTT
36683 TAATTGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (25 bp):
CAAATAATGTACCCACAACAATGTT
Found at i:36677 original size:14 final size:13
Alignment explanation
Indices: 36632--36681 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
36622 CATTATTTTT
36632 CCAAATAATGTAC
1 CCAAATAATGTAC
*
36645 CCATAACAATGT--
1 CCA-AATAATGTAC
*
36657 TCAAATAATGTAC
1 CCAAATAATGTAC
36670 CCACAATAATGT
1 CCA-AATAATGT
36682 TTAATTGATT
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
11 7 0.24
12 2 0.07
13 5 0.17
14 15 0.52
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (13 bp):
CCAAATAATGTAC
Found at i:36796 original size:20 final size:20
Alignment explanation
Indices: 36773--36833 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
36763 AATAAGCGTT
36773 GCGATAGTCAAATTCGCAAC
1 GCGATAGTCAAATTCGCAAC
* *
36793 GCGAAAGTCAAATTCGCTAC
1 GCGATAGTCAAATTCGCAAC
*
36813 GCGATAGTCAAATTCGTAAC
1 GCGATAGTCAAATTCGCAAC
36833 G
1 G
36834 TTTATTTCGC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.21
Consensus pattern (20 bp):
GCGATAGTCAAATTCGCAAC
Found at i:39657 original size:12 final size:12
Alignment explanation
Indices: 39636--39669 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
39626 GGTTGTGGGT
*
39636 TTTGAGATTGTG
1 TTTGATATTGTG
39648 TTTGATATTGTG
1 TTTGATATTGTG
*
39660 TTTGGTATTG
1 TTTGATATTG
39670 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:40456 original size:19 final size:19
Alignment explanation
Indices: 40415--40474 Score: 77
Period size: 19 Copynumber: 3.2 Consensus size: 19
40405 ACTAAAACCT
* *
40415 GTTGCGAAATT-AAATTCGC
1 GTTGCGAATTTGAAATTC-A
*
40434 GTTGTGAATTTGAAATTCA
1 GTTGCGAATTTGAAATTCA
40453 GTTGCGAATTTGAAATTCA
1 GTTGCGAATTTGAAATTCA
40472 GTT
1 GTT
40475 ACGATTTACA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
19 30 0.83
20 6 0.17
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (19 bp):
GTTGCGAATTTGAAATTCA
Found at i:40487 original size:19 final size:19
Alignment explanation
Indices: 40439--40489 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
40429 TTCGCGTTGT
* *
40439 GAATTTGAAATTCAGTTGC
1 GAATTTCAAATTCAGTTAC
*
40458 GAATTTGAAATTCAGTTAC
1 GAATTTCAAATTCAGTTAC
40477 G-ATTTACAAATTC
1 GAATTT-CAAATTC
40490 GCGTTGCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 4 0.14
19 25 0.86
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (19 bp):
GAATTTCAAATTCAGTTAC
Found at i:51550 original size:19 final size:19
Alignment explanation
Indices: 51528--51588 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
51518 TATATATATA
51528 TAATATATATTAATAAATT
1 TAATATATATTAATAAATT
* * * *
51547 TAATTTAAATTAAAAAATA
1 TAATATATATTAATAAATT
* *
51566 T-ATATAATATTTATATATT
1 TAATAT-ATATTAATAAATT
51585 TAAT
1 TAAT
51589 TTAAATATAT
Statistics
Matches: 30, Mismatches: 10, Indels: 3
0.70 0.23 0.07
Matches are distributed among these distances:
18 3 0.10
19 25 0.83
20 2 0.07
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TAATATATATTAATAAATT
Found at i:55801 original size:39 final size:39
Alignment explanation
Indices: 55756--55834 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
55746 ACGTAGAATC
** *
55756 TACAAGAGAATGAATGAATGTCAAATACAGTCATTCAAA
1 TACAAGAGAATGAATGAATGAAAAATAAAGTCATTCAAA
*
55795 TACAAGAGAATGAATGAATGAAAAATAAAGTCATTTAAA
1 TACAAGAGAATGAATGAATGAAAAATAAAGTCATTCAAA
55834 T
1 T
55835 CACCGAAGAG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.52, C:0.09, G:0.15, T:0.24
Consensus pattern (39 bp):
TACAAGAGAATGAATGAATGAAAAATAAAGTCATTCAAA
Found at i:60622 original size:29 final size:29
Alignment explanation
Indices: 60584--60652 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 29
60574 AAATATATGT
*
60584 TAAAA-ATATTTTAAA-TTAGGAATAAAAA
1 TAAAATATATTTTAAATTTAAG-ATAAAAA
60612 TAAAATATATTTTTTAAATTTAAGATAAAAA
1 TAAAATATA--TTTTAAATTTAAGATAAAAA
*
60643 TAATATATAT
1 TAAAATATAT
60653 ATATATATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
28 5 0.14
29 4 0.11
31 22 0.63
32 4 0.11
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (29 bp):
TAAAATATATTTTAAATTTAAGATAAAAA
Found at i:60630 original size:31 final size:31
Alignment explanation
Indices: 60592--60652 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
60582 GTTAAAAATA
*
60592 TTTTAAA-TTAGGAATAAAAATAAAATATATT
1 TTTTAAATTTAAG-ATAAAAATAAAATATATT
*
60623 TTTTAAATTTAAGATAAAAATAATATATAT
1 TTTTAAATTTAAGATAAAAATAAAATATAT
60653 ATATATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 23 0.85
32 4 0.15
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (31 bp):
TTTTAAATTTAAGATAAAAATAAAATATATT
Found at i:60652 original size:2 final size:2
Alignment explanation
Indices: 60645--60674 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
60635 GATAAAAATA
60645 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
60675 TAAGTTAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:60763 original size:27 final size:27
Alignment explanation
Indices: 60685--60800 Score: 83
Period size: 27 Copynumber: 4.1 Consensus size: 27
60675 TAAGTTAAGT
*
60685 TAAGAATAAAATATTTGTTTTCAATTTAAAA
1 TAAGAATAAAATA--T-TTTT-AAATTAAAA
**
60716 TAA-AA-AAAATTACATTTTTAAATTATGA
1 TAAGAATAAAA-T--ATTTTTAAATTAAAA
* *
60744 TCAGAATAAAATATTTTTAAGTTAAAA
1 TAAGAATAAAATATTTTTAAATTAAAA
* * *
60771 TAAGATTAAAATATTTTTAAGTTAAGA
1 TAAGAATAAAATATTTTTAAATTAAAA
60798 TAA
1 TAA
60801 AAAATATTAA
Statistics
Matches: 70, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
27 39 0.56
28 8 0.11
29 11 0.16
30 8 0.11
31 3 0.04
32 1 0.01
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.40
Consensus pattern (27 bp):
TAAGAATAAAATATTTTTAAATTAAAA
Found at i:60970 original size:28 final size:28
Alignment explanation
Indices: 60932--60985 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
60922 ATATTTCTAA
*
60932 AATTAAATTAATAATAAAATAGATTTTC
1 AATTAAATTAAGAATAAAATAGATTTTC
* *
60960 AATTAAGTTAAGAATAAAATATATTT
1 AATTAAATTAAGAATAAAATAGATTT
60986 AATAAATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.39
Consensus pattern (28 bp):
AATTAAATTAAGAATAAAATAGATTTTC
Found at i:62763 original size:55 final size:55
Alignment explanation
Indices: 62224--62776 Score: 801
Period size: 55 Copynumber: 10.1 Consensus size: 55
62214 TACGTGGGAA
* * * * * * *
62224 TGCACACCCAATGCCAATACGAAAATTCATAATCTCATTATGAATTTCTTAG-GT
1 TGCACACACAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTT
* * *
62278 TGCACACACAGTGCCAATACAGAAATTCATAAACTTATTATGAATTTCTTAG-GT
1 TGCACACACAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTT
* * * *
62332 TGCGCACACAGTACCAATACGGAAATTTATAAACTTATTATGAATTTCTTAGTTT
1 TGCACACACAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTT
*
62387 TGCACACACAGTGCCCATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTT
1 TGCACACACAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTT
** *
62442 TGCACACACAGCACCCATACGGAAATTCATAAGCTTATTAT-ACATTTCTTAGTTT
1 TGCACACACAGTGCCCATACGGAAATTCATAAACTTATTATGA-ATTTCTTAGTTT
*
62497 TGCACACACAATGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTT
1 TGCACACACAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTT
* *
62552 TGCACACACAGTGCCCATACGGAAATTCATAAATTTATTATGAATGTCTTAGTTT
1 TGCACACACAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTT
* * *
62607 TGCTCATACA-TAGCCCACACGGAAATTCATAAACTTATTATGAATTTCTTAGTTT
1 TGCACACACAGT-GCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTT
*
62662 TGTACACACAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTT
1 TGCACACACAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTT
* * *
62717 TGCACACACAGTGCCCATACAGAAATTCATAAACTTATTATGAATTTATTAG-GT
1 TGCACACACAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTT
62771 TGCACA
1 TGCACA
62777 TATAGTGTCA
Statistics
Matches: 454, Mismatches: 40, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
54 105 0.23
55 347 0.76
56 2 0.00
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (55 bp):
TGCACACACAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTT
Found at i:66451 original size:5 final size:5
Alignment explanation
Indices: 66437--66632 Score: 119
Period size: 5 Copynumber: 39.2 Consensus size: 5
66427 TAAAATAGTA
*
66437 AATA- AATAT AATAT AATAT AACTAT AA-CT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AA-TAT AATAT AATAT AATAT AATAT AATAT
* *
66486 -A-AT ACTAT AATATT AAT-T AACAT AATATAT AATAT AA-AGT -ATAAT
1 AATAT AATAT AATA-T AATAT AATAT -A-ATAT AATAT AATA-T AAT-AT
* * * *
66531 AATAT ACTTT AATAT -ATAT ATATAT ATATGT AATAT -ATAT AATAT -GTAT
1 AATAT AATAT AATAT AATAT A-ATAT A-ATAT AATAT AATAT AATAT AATAT
* *
66580 AATAT ATATAT AATAT ACTAT TATA- ATATAT AATAT -ATAT ACTATAT
1 AATAT A-ATAT AATAT AATAT AATAT A-ATAT AATAT AATAT A--ATAT
66627 AATAT A
1 AATAT A
66633 TATTATCCTG
Statistics
Matches: 151, Mismatches: 18, Indels: 45
0.71 0.08 0.21
Matches are distributed among these distances:
3 2 0.01
4 28 0.19
5 83 0.55
6 30 0.20
7 8 0.05
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.41
Consensus pattern (5 bp):
AATAT
Found at i:66470 original size:20 final size:19
Alignment explanation
Indices: 66445--66609 Score: 91
Period size: 18 Copynumber: 8.6 Consensus size: 19
66435 TAAATAAATA
66445 TAATATAATATAACTATAAC
1 TAATATAATATAA-TATAAC
66465 TAATATAATATAATATAA-
1 TAATATAATATAATATAAC
*
66483 T-ATAATACTATAATAT---
1 TAAT-ATAATATAATATAAC
*
66499 TAAT-TAACATAATAT-A-
1 TAATATAATATAATATAAC
66515 TAATATAAAGTATAATAATATAC
1 TAATAT-AA-TATAAT-ATA-AC
**
66538 TTTAATATATATATATATATATG
1 --TAATATA-ATATA-ATATAAC
*
66561 TAATAT-ATATAATATGTA-
1 TAATATAATATAATAT-AAC
66579 TAATATATATATAATAT-AC
1 TAATATA-ATATAATATAAC
*
66598 TATTATAATATA
1 TAATATAATATA
66610 TAATATATAT
Statistics
Matches: 118, Mismatches: 9, Indels: 38
0.72 0.05 0.23
Matches are distributed among these distances:
15 9 0.08
16 5 0.04
17 5 0.04
18 30 0.25
19 21 0.18
20 24 0.20
21 6 0.05
22 1 0.01
24 8 0.07
25 9 0.08
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (19 bp):
TAATATAATATAATATAAC
Found at i:66496 original size:8 final size:8
Alignment explanation
Indices: 66441--66634 Score: 80
Period size: 7 Copynumber: 24.8 Consensus size: 8
66431 ATAGTAAATA
66441 AATATAAT
1 AATATAAT
66449 -ATA-ATAT
1 AATATA-AT
66456 AACTATAACT
1 AA-TATAA-T
66466 AATATAAT
1 AATATAAT
66474 -ATA-ATAT
1 AATATA-AT
66481 AATATAAT
1 AATATAAT
*
66489 ACTATAAT
1 AATATAAT
66497 -AT-TAAT
1 AATATAAT
66503 --TA-ACAT
1 AATATA-AT
66509 AATAT-AT
1 AATATAAT
66516 AATATAA-
1 AATATAAT
*
66523 AGTATAAT
1 AATATAAT
*
66531 AATATACTTT
1 AATATA--AT
66541 AATAT-AT
1 AATATAAT
66548 -ATATATAT
1 AATATA-AT
*
66556 ATATGTAAT
1 A-ATATAAT
66565 ATATATAAT
1 A-ATATAAT
*
66574 ATGTATAAT
1 A-ATATAAT
66583 -ATATATAT
1 AATATA-AT
*
66591 AATATACT
1 AATATAAT
*
66599 ATTATAAT
1 AATATAAT
66607 -ATATAAT
1 AATATAAT
*
66614 ATATATACT
1 A-ATATAAT
66623 -ATATAAT
1 AATATAAT
66630 -ATATA
1 AATATA
66635 TTATCCTGGA
Statistics
Matches: 145, Mismatches: 16, Indels: 51
0.68 0.08 0.24
Matches are distributed among these distances:
5 2 0.01
6 12 0.08
7 46 0.32
8 33 0.23
9 38 0.26
10 14 0.10
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (8 bp):
AATATAAT
Found at i:66549 original size:2 final size:2
Alignment explanation
Indices: 66542--66635 Score: 96
Period size: 2 Copynumber: 50.0 Consensus size: 2
66532 ATATACTTTA
* *
66542 AT AT AT AT AT AT AT AT AT GT A- AT AT AT AT A- AT AT GT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
66581 AT AT AT AT AT A- AT AT ACT AT -T AT A- AT AT AT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
66620 ACT AT AT A- AT AT AT AT
1 A-T AT AT AT AT AT AT AT
66636 TATCCTGGAT
Statistics
Matches: 78, Mismatches: 4, Indels: 20
0.76 0.04 0.20
Matches are distributed among these distances:
1 8 0.10
2 66 0.85
3 4 0.05
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:66565 original size:31 final size:32
Alignment explanation
Indices: 66508--66632 Score: 125
Period size: 29 Copynumber: 3.9 Consensus size: 32
66498 TTAATTAACA
* *
66508 TAATATATA-ATATAAAGTATAATAATATACTT
1 TAATATATATATATATACTAT-ATAATATACTT
* *
66540 TAATATATATATATATA-TATGTAATATA-TA
1 TAATATATATATATATACTATATAATATACTT
*
66570 TAATATGTATA-ATATA-TATATAATATACTATT
1 TAATATATATATATATACTATATAATATAC--TT
66602 ATAATATATAATATATATACTATATAATATA
1 -TAATATAT-ATATATATACTATATAATATA
66633 TATTATCCTG
Statistics
Matches: 78, Mismatches: 7, Indels: 12
0.80 0.07 0.12
Matches are distributed among these distances:
29 15 0.19
30 11 0.14
31 7 0.09
32 13 0.17
33 13 0.17
34 3 0.04
35 5 0.06
36 11 0.14
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (32 bp):
TAATATATATATATATACTATATAATATACTT
Found at i:67204 original size:98 final size:98
Alignment explanation
Indices: 67074--67261 Score: 295
Period size: 98 Copynumber: 1.9 Consensus size: 98
67064 CTTCGTCTTT
* * *
67074 AAGTTGAAATTAATCTCAAAATCTGCACTGGAATGTGGCTCCTCGTTGTCGAGTTATAATCAACC
1 AAGTTGAAATTAATCTCAAAATATGCACTGGAATATGGCTCCTCATTGTCGAGTTATAATCAACC
67139 TTAGTCTTCTTCTTGGCTTAAAGACATCGGTTG
66 TTAGTCTTCTTCTTGGCTTAAAGACATCGGTTG
* * * *
67172 AAGTTGAAATTAATCTCGAAATATGCACTGGAATATGGCTCCTTATTGTCGAGTTGTAGTCAACC
1 AAGTTGAAATTAATCTCAAAATATGCACTGGAATATGGCTCCTCATTGTCGAGTTATAATCAACC
* *
67237 TTGGTCTTCTTTTTGGCTTAAAGAC
66 TTAGTCTTCTTCTTGGCTTAAAGAC
67262 CTCAGTTTAA
Statistics
Matches: 81, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
98 81 1.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.36
Consensus pattern (98 bp):
AAGTTGAAATTAATCTCAAAATATGCACTGGAATATGGCTCCTCATTGTCGAGTTATAATCAACC
TTAGTCTTCTTCTTGGCTTAAAGACATCGGTTG
Found at i:67706 original size:203 final size:200
Alignment explanation
Indices: 67279--67743 Score: 617
Period size: 203 Copynumber: 2.3 Consensus size: 200
67269 TAAAATTCAA
* * * * *
67279 TACCATGCAGTCGATACGCCCTTGAGCTAACTGGAATCAAACTCGAAAGTTTTTGTTTACATACA
1 TACCATGCAGTTGATACGCCCTCGAGCTAA-TGGAATCGAACTCGAAAGTTTTCGTTGACATACA
* **
67344 ACTTTTCTCGACTTAAGTTATGTTGTAAATTAGGCTGGGAGATAGTTCCTTGTTGCTAAATCGCA
65 ACTTTTCTCGACTTAAGCTATGTTGTAAATTAGGCTAAGAGATAGTTCCTTGTTGCTAAATCGCA
* * * *
67409 ACCAACCTAGGTCTTCTTCTTGGCTTAAAGACCTCGTTTTGAATTTCAACCGAAAATTAGTTCCT
130 ACCAACATAGGTCTTCTTCTTGGCTTAAAGACCTCGTTTTAAAATTCAACCGAAAAGTAGTTCCT
67474 CGCTGC
195 CGCTGC
* * * *
67480 TACCATGCGGTTGATACGCCCTCGAGCTGAATGTAATCGAACTTGAAAGTTTTCATTGACATACA
1 TACCATGCAGTTGATACGCCCTCGAGCT-AATGGAATCGAACTCGAAAGTTTTCGTTGACATACA
** *
67545 ACTTTTCTCGACTTAAGCTATGTTGTAAATTAGGCTAAGAGATAGTTTTTTTTTTTGCTAAATCG
65 ACTTTTCTCGACTTAAGCTATGTTGTAAATTAGGCTAAGAGATAG--TTCCTTGTTGCTAAATCG
* * * * * *
67610 TAGCCAATATAGGTTTTCTTCTTGGTTTAAAGACCTCAG-TTTAAAATTCAACTGAAAAGTAGTT
128 CAACCAACATAGGTCTTCTTCTTGGCTTAAAGACCTC-GTTTTAAAATTCAACCGAAAAGTAGTT
*
67674 CTTCGCTGC
192 CCTCGCTGC
* *
67683 TACCATACAGTTGATACGCCCTCGAGCTAAATGGAATTGAACTCGAAAGTTTTCGTTGACA
1 TACCATGCAGTTGATACGCCCTCGAGCT-AATGGAATCGAACTCGAAAGTTTTCGTTGACA
67744 AATAACCCTT
Statistics
Matches: 227, Mismatches: 33, Indels: 6
0.85 0.12 0.02
Matches are distributed among these distances:
201 95 0.42
202 2 0.01
203 129 0.57
204 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (200 bp):
TACCATGCAGTTGATACGCCCTCGAGCTAATGGAATCGAACTCGAAAGTTTTCGTTGACATACAA
CTTTTCTCGACTTAAGCTATGTTGTAAATTAGGCTAAGAGATAGTTCCTTGTTGCTAAATCGCAA
CCAACATAGGTCTTCTTCTTGGCTTAAAGACCTCGTTTTAAAATTCAACCGAAAAGTAGTTCCTC
GCTGC
Found at i:69763 original size:23 final size:24
Alignment explanation
Indices: 69737--69818 Score: 103
Period size: 24 Copynumber: 3.5 Consensus size: 24
69727 GGTTCTACAC
* *
69737 GGTCATTCGGGATATA-TCTATGT
1 GGTCATTCGGGATAAATTCTACGT
*
69760 GGTCATTCGGGACAAATTCTACGT
1 GGTCATTCGGGATAAATTCTACGT
* *
69784 GGTCCTTCGGGATAAATTCTACGC
1 GGTCATTCGGGATAAATTCTACGT
*
69808 GGTCCTTCGGG
1 GGTCATTCGGG
69819 GACGAATTCT
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 14 0.27
24 38 0.73
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.32
Consensus pattern (24 bp):
GGTCATTCGGGATAAATTCTACGT
Found at i:69785 original size:24 final size:24
Alignment explanation
Indices: 69737--69831 Score: 102
Period size: 24 Copynumber: 4.0 Consensus size: 24
69727 GGTTCTACAC
* * *
69737 GGTCATTCGGGATATA-TCTATGT
1 GGTCATTCGGGACAAATTCTACGT
69760 GGTCATTCGGGACAAATTCTACGT
1 GGTCATTCGGGACAAATTCTACGT
* * *
69784 GGTCCTTCGGGATAAATTCTACGC
1 GGTCATTCGGGACAAATTCTACGT
* *
69808 GGTCCTTCGGGGACGAATTCTACG
1 GGTCATTC-GGGACAAATTCTACG
69832 CAGTCATTAG
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
23 14 0.23
24 35 0.56
25 13 0.21
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (24 bp):
GGTCATTCGGGACAAATTCTACGT
Found at i:69828 original size:49 final size:47
Alignment explanation
Indices: 69737--69831 Score: 118
Period size: 47 Copynumber: 2.0 Consensus size: 47
69727 GGTTCTACAC
* * *
69737 GGTCATTCGGGATATATCTATGTGGTCATTCGGGACAAATTCTACGT
1 GGTCATTCGGGATAAATCTACGCGGTCATTCGGGACAAATTCTACGT
* * *
69784 GGTCCTTCGGGATAAATTCTACGCGGTCCTTCGGGGACGAATTCTACG
1 GGTCATTCGGGATAAA-TCTACGCGGTCATTC-GGGACAAATTCTACG
69832 CAGTCATTAG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
47 14 0.35
48 12 0.30
49 14 0.35
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (47 bp):
GGTCATTCGGGATAAATCTACGCGGTCATTCGGGACAAATTCTACGT
Found at i:75159 original size:106 final size:106
Alignment explanation
Indices: 74857--75594 Score: 1265
Period size: 106 Copynumber: 7.0 Consensus size: 106
74847 CGTTGTGAAG
* *
74857 CTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
1 CTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
74922 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
** *
74963 CTGAAATTGAGAA------T-TTGACAGTCAGCGGTCCCATCGTCGTGAAGTTGAACTTGCGTTG
1 CTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
75021 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
* * *
75062 CTGAAATTAAGGAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
1 CTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
*
75127 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACT
66 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
*
75168 CTGAAATTGAGAAGTTGGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
1 CTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
*
75233 TCTGGAGTACAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
*
75274 CTGAAATTGAGAAGTTGGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
1 CTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
*
75339 TATGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
* *
75380 CTGAAATTGAAAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGCTGAACTTGCGTTG
1 CTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
*
75445 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACT
66 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
* *
75486 CTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGCCGTGAAGTTGAACTTGCGTTG
1 CTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
75551 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
75592 CTG
1 CTG
75595 GGTAAAACCT
Statistics
Matches: 597, Mismatches: 28, Indels: 14
0.93 0.04 0.02
Matches are distributed among these distances:
99 93 0.16
100 1 0.00
105 1 0.00
106 502 0.84
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (106 bp):
CTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
Found at i:76436 original size:47 final size:49
Alignment explanation
Indices: 76356--76448 Score: 136
Period size: 47 Copynumber: 1.9 Consensus size: 49
76346 CTCTTTTTCT
* * *
76356 TTTTTCTTTTCTCAATTTAGGGCGCCCTTTCGGGTTTTCACCCTAAACG
1 TTTTTCTTTTCTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAAACG
*
76405 TTTTT-TTTT-TCAACTTAGGACGCCCTCTCGGGTTTTCATCCTAA
1 TTTTTCTTTTCTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAA
76449 GCGAAGTATT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 31 0.77
48 4 0.10
49 5 0.12
ACGTcount: A:0.15, C:0.26, G:0.15, T:0.44
Consensus pattern (49 bp):
TTTTTCTTTTCTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAAACG
Found at i:86805 original size:22 final size:22
Alignment explanation
Indices: 86771--86823 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
86761 TAATTAACCG
*
86771 AATACAAAA-GAAAAATAAGAAA
1 AATA-AAAATGAAAAAAAAGAAA
* *
86793 AATAGAAATGAAAAAAAAGCAA
1 AATAAAAATGAAAAAAAAGAAA
86815 AATAAAAAT
1 AATAAAAAT
86824 ATATAAAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 3 0.12
22 23 0.88
ACGTcount: A:0.75, C:0.04, G:0.09, T:0.11
Consensus pattern (22 bp):
AATAAAAATGAAAAAAAAGAAA
Found at i:88372 original size:19 final size:19
Alignment explanation
Indices: 88335--88373 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
88325 AAAGAAAAAG
* *
88335 AATGTAAATATTATATATA
1 AATGGAAATATAATATATA
*
88354 AATGGAAATATAATTTATA
1 AATGGAAATATAATATATA
88373 A
1 A
88374 TATAAGTCTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (19 bp):
AATGGAAATATAATATATA
Found at i:88824 original size:14 final size:14
Alignment explanation
Indices: 88781--88825 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
88771 AACCGAATAC
88781 AAAAGAAAAATAAA
1 AAAAGAAAAATAAA
* *
88795 AAAATAGAAATGAAA
1 AAAAGAAAAAT-AAA
*
88810 AAAAGCAAAATAAA
1 AAAAGAAAAATAAA
88824 AA
1 AA
88826 CATATAAAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.80, C:0.02, G:0.09, T:0.09
Consensus pattern (14 bp):
AAAAGAAAAATAAA
Found at i:90267 original size:19 final size:19
Alignment explanation
Indices: 90230--90268 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
90220 AAAGAAAAAG
* *
90230 AATGTAAATATTATATATA
1 AATGGAAATATAATATATA
*
90249 AATGGAAATATAATTTATA
1 AATGGAAATATAATATATA
90268 A
1 A
90269 TATAAGTCTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (19 bp):
AATGGAAATATAATATATA
Found at i:90918 original size:106 final size:106
Alignment explanation
Indices: 90613--91455 Score: 1468
Period size: 106 Copynumber: 8.0 Consensus size: 106
90603 CGTTGTGAAG
* *
90613 CTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
1 CTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
90678 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
***
90719 CTGAAATTGAGAA------T-TTGACAGTTAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
1 CTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
90777 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
* * *
90818 CTGAAATTAAGGAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
1 CTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
90883 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
*
90924 CTGAAATTGAGAAGTTGGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
1 CTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
90989 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
*
91030 CTGAAATTGAGAAGTTGGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
1 CTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
91095 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
* *
91136 CTGAAATTGAAAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGCTGAACTTGCGTTG
1 CTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
*
91201 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACT
66 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
*
91242 CTGAAATTGAGAAGTTGTTT-TTGACAACCAGCGGTCCCTTCGCCGTGAAGTTGAACTTGCGTTG
1 CTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
* *
91306 TCAGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACT
66 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
* *
91347 CTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGCCGTGAAGTTGAACTTGCGTTG
1 CTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
91412 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
91453 CTG
1 CTG
91456 GGTAAAACCT
Statistics
Matches: 706, Mismatches: 23, Indels: 16
0.95 0.03 0.02
Matches are distributed among these distances:
99 93 0.13
100 1 0.00
105 103 0.15
106 509 0.72
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (106 bp):
CTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
Found at i:92449 original size:19 final size:19
Alignment explanation
Indices: 92412--92450 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
92402 AAAGAAAAAG
* *
92412 AATGTAAATATTATATATA
1 AATGGAAATATAATATATA
*
92431 AATGGAAATATAATTTATA
1 AATGGAAATATAATATATA
92450 A
1 A
92451 TATAAGTCTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (19 bp):
AATGGAAATATAATATATA
Found at i:93067 original size:106 final size:106
Alignment explanation
Indices: 92797--93639 Score: 1459
Period size: 106 Copynumber: 8.0 Consensus size: 106
92787 CGTTGTGAAG
* *
92797 CTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
1 CTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
*
92862 TCTGGATTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
***
92903 CTGAAATTGAGAA------T-TTGACAGTTAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
1 CTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
92961 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
* * *
93002 CTGAAATTAAGGAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
1 CTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
93067 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
*
93108 CTGAAATTGAGAAGTTGGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
1 CTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
93173 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
*
93214 CTGAAATTGAGAAGTTGGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
1 CTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
93279 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
* *
93320 CTGAAATTGAAAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGCTGAACTTGCGTTG
1 CTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
*
93385 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACT
66 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
*
93426 CTGAAATTGAGAAGTTGTTT-TTGACAACCAGCGGTCCCTTCGCCGTGAAGTTGAACTTGCGTTG
1 CTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
* *
93490 TCAGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACT
66 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
* *
93531 CTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGCCGTGAAGTTGAACTTGCGTTG
1 CTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
93596 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
93637 CTG
1 CTG
93640 GGTAAAACCT
Statistics
Matches: 705, Mismatches: 24, Indels: 16
0.95 0.03 0.02
Matches are distributed among these distances:
99 92 0.13
100 1 0.00
105 103 0.15
106 509 0.72
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (106 bp):
CTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
Found at i:94483 original size:47 final size:49
Alignment explanation
Indices: 94403--94495 Score: 136
Period size: 47 Copynumber: 1.9 Consensus size: 49
94393 CTCTTTTTCT
* * *
94403 TTTTTCTTTTCTCAATTTAGGGCGCCCTTTCGGGTTTTCACCCTAAACG
1 TTTTTCTTTTCTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAAACG
*
94452 TTTTT-TTTT-TCAACTTAGGACGCCCTCTCGGGTTTTCATCCTAA
1 TTTTTCTTTTCTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAA
94496 GCGAAGTATT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 31 0.77
48 4 0.10
49 5 0.12
ACGTcount: A:0.15, C:0.26, G:0.15, T:0.44
Consensus pattern (49 bp):
TTTTTCTTTTCTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAAACG
Found at i:104723 original size:22 final size:22
Alignment explanation
Indices: 104689--104741 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
104679 TAATTAACCG
*
104689 AATACAAAA-GAAAAATAAGAAA
1 AATA-AAAATGAAAAAAAAGAAA
* *
104711 AATAGAAATGAAAAAAAAGCAA
1 AATAAAAATGAAAAAAAAGAAA
104733 AATAAAAAT
1 AATAAAAAT
104742 ATATAAAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 3 0.12
22 23 0.88
ACGTcount: A:0.75, C:0.04, G:0.09, T:0.11
Consensus pattern (22 bp):
AATAAAAATGAAAAAAAAGAAA
Found at i:104918 original size:3 final size:3
Alignment explanation
Indices: 104910--105019 Score: 54
Period size: 3 Copynumber: 38.0 Consensus size: 3
104900 ATAAATATAT
* * * * *
104910 TAA TAA TAA TAA TAA TAA TAA TAC TAAA TAA TCA -AA TAT TAGG GAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TA-A TAA
* * * * *
104956 -AA -AA TAT TAA TAA TAG TAGA -AA AAA CAA -AA TAA TAA AAA T-A
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
104997 TAA T-A TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
105020 AGGACAAAAA
Statistics
Matches: 83, Mismatches: 15, Indels: 18
0.72 0.13 0.16
Matches are distributed among these distances:
2 12 0.14
3 68 0.82
4 3 0.04
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:105119 original size:21 final size:21
Alignment explanation
Indices: 105072--105120 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
105062 ACATATATAC
105072 ATAATAAACCATAATAATAAA
1 ATAATAAACCATAATAATAAA
* * *
105093 AAAATAAA-CGTAATACATTAA
1 ATAATAAACCATAATA-ATAAA
105114 ATAATAA
1 ATAATAA
105121 TAAGAAGTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.65, C:0.08, G:0.02, T:0.24
Consensus pattern (21 bp):
ATAATAAACCATAATAATAAA
Found at i:106633 original size:23 final size:23
Alignment explanation
Indices: 106590--106635 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
106580 AAAAACGTTT
* *
106590 CATAAAATTATAATTATTAAAAA
1 CATAAAATAATAATGATTAAAAA
106613 CATAAAATAAT-ATGATATAAAAA
1 CATAAAATAATAATGAT-TAAAAA
106636 AATTAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.30
Consensus pattern (23 bp):
CATAAAATAATAATGATTAAAAA
Found at i:108440 original size:23 final size:23
Alignment explanation
Indices: 108414--108461 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
108404 TTTGATATAT
108414 TTCTTATTGAAGTTTAAAACTAA
1 TTCTTATTGAAGTTTAAAACTAA
* *
108437 TTCTTATTTAAGTTTGAAACTAA
1 TTCTTATTGAAGTTTAAAACTAA
108460 TT
1 TT
108462 TAGGTATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.48
Consensus pattern (23 bp):
TTCTTATTGAAGTTTAAAACTAA
Found at i:111769 original size:28 final size:30
Alignment explanation
Indices: 111685--111786 Score: 136
Period size: 31 Copynumber: 3.4 Consensus size: 30
111675 TTCATTTGCA
* *
111685 TACCTTAAGTATTTTTTTGGTCAAAATAAG
1 TACCTAAAGTATTTTTTTGGTCAAAATAGG
*
111715 TATCTAAAGTTATTTTTTTGGTCAAAATAGG
1 TACCTAAAG-TATTTTTTTGGTCAAAATAGG
*
111746 TACCTAAAGTA-TTTTAT-GTCAAAATAGG
1 TACCTAAAGTATTTTTTTGGTCAAAATAGG
*
111774 TACCTAAACTATT
1 TACCTAAAGTATT
111787 CAAACTTTTT
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
28 21 0.33
29 6 0.09
30 9 0.14
31 28 0.44
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (30 bp):
TACCTAAAGTATTTTTTTGGTCAAAATAGG
Found at i:111908 original size:29 final size:29
Alignment explanation
Indices: 111866--111970 Score: 149
Period size: 29 Copynumber: 3.6 Consensus size: 29
111856 AAAAAAATTG
*
111866 AATACTTTAGGTACCTATTTTGACCAAAA
1 AATACTTTAGGTACTTATTTTGACCAAAA
* * *
111895 AATACTTTAAGTACTTATTTTAACTAAAA
1 AATACTTTAGGTACTTATTTTGACCAAAA
111924 AGATAACTTTAGGTACTTATTTTGA-CAAAA
1 A-AT-ACTTTAGGTACTTATTTTGACCAAAA
111954 AATACTTTAGGTACTTA
1 AATACTTTAGGTACTTA
111971 AATGAAAAAG
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
28 14 0.21
29 28 0.42
30 7 0.10
31 18 0.27
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (29 bp):
AATACTTTAGGTACTTATTTTGACCAAAA
Found at i:111992 original size:59 final size:57
Alignment explanation
Indices: 111835--112003 Score: 171
Period size: 59 Copynumber: 2.8 Consensus size: 57
111825 GGCATTAATT
* * *
111835 AAATACTTTAGGTACTTAGATAAAAAAATTGAATACTTTAGGTACCTATTTTGACCAAA
1 AAATACTTTAGGTACTTAAAT-AAAAAATAG-ATACTTTAGGTACTTATTTTGACCAAA
* **
111894 AAATACTTTAAGTACTTATTTTAACTAAAA-AGATAACTTTAGGTACTTATTTTGA-CAAA
1 AAATACTTTAGGTACTTA-AATAA--AAAATAGAT-ACTTTAGGTACTTATTTTGACCAAA
* *
111953 AAATACTTTAGGTACTTAAATGAAAAAGATAGTATACTTTAGTTATTTATT
1 AAATACTTTAGGTACTTAAAT-AAAAA-ATAG-ATACTTTAGGTACTTATT
112004 ATATAATCCT
Statistics
Matches: 92, Mismatches: 10, Indels: 16
0.78 0.08 0.14
Matches are distributed among these distances:
57 3 0.03
58 2 0.02
59 60 0.65
60 23 0.25
61 4 0.04
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (57 bp):
AAATACTTTAGGTACTTAAATAAAAAATAGATACTTTAGGTACTTATTTTGACCAAA
Found at i:112033 original size:17 final size:19
Alignment explanation
Indices: 112005--112039 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
111995 TTATTTATTA
112005 TATAATCCTTTAT-TTTAC
1 TATAATCCTTTATGTTTAC
112023 TATAA-CCTTTATGTTTA
1 TATAATCCTTTATGTTTA
112040 TAATAGTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.29, C:0.14, G:0.03, T:0.54
Consensus pattern (19 bp):
TATAATCCTTTATGTTTAC
Found at i:113460 original size:49 final size:49
Alignment explanation
Indices: 113407--113533 Score: 166
Period size: 49 Copynumber: 2.6 Consensus size: 49
113397 TGTTTTAATT
* * *
113407 TATCCTTGTAATTTATTTTTC-CTATTAAATGGATAATTAGAGGTTGATG
1 TATCCTCGTAATTTATTTTACTC-ATTAAATGGATAATTACAGGTTGATG
*
113456 TATCCTCGTAATTTATTTTACTCATTAAATGGATGATTACAGGTTGATG
1 TATCCTCGTAATTTATTTTACTCATTAAATGGATAATTACAGGTTGATG
* * * *
113505 TATCATCATAATCTATTTTTCTCATTAAA
1 TATCCTCGTAATTTATTTTACTCATTAAA
113534 AAGATAACTA
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
49 68 0.99
50 1 0.01
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.46
Consensus pattern (49 bp):
TATCCTCGTAATTTATTTTACTCATTAAATGGATAATTACAGGTTGATG
Found at i:113551 original size:49 final size:49
Alignment explanation
Indices: 113449--113551 Score: 116
Period size: 49 Copynumber: 2.1 Consensus size: 49
113439 ATAATTAGAG
* * * ** * * * *
113449 GTTGATGTATCCTCGTAATTTATTTTACTCATTAAATGGATGATTACAG
1 GTTGATGTATCATCATAATCTATTTTACTCATTAAAAAGATAACTAAAA
*
113498 GTTGATGTATCATCATAATCTATTTTTCTCATTAAAAAGATAACTAAAA
1 GTTGATGTATCATCATAATCTATTTTACTCATTAAAAAGATAACTAAAA
113547 GTTGA
1 GTTGA
113552 ACAATGTTAG
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.41
Consensus pattern (49 bp):
GTTGATGTATCATCATAATCTATTTTACTCATTAAAAAGATAACTAAAA
Found at i:124872 original size:29 final size:29
Alignment explanation
Indices: 124840--124959 Score: 89
Period size: 30 Copynumber: 4.0 Consensus size: 29
124830 CCTCGGCAAC
* *
124840 TGTCCTAGGTCCCGAAGAACCTAGGTAAA
1 TGTCCTATGTCCCGAAGAACATAGGTAAA
* ** *
124869 TGTCCATATGTTCCTTAGAACATAGGTATA
1 TGTCC-TATGTCCCGAAGAACATAGGTAAA
* *
124899 TGTCTATATGTCCCGAA-AACATAGGTAAT
1 TGTC-CTATGTCCCGAAGAACATAGGTAAA
* * *
124928 TCAGTCCATATGTTCCGTAGAACATAGATAAA
1 T--GTCC-TATGTCCCGAAGAACATAGGTAAA
124960 CCCTCGACTC
Statistics
Matches: 68, Mismatches: 17, Indels: 9
0.72 0.18 0.10
Matches are distributed among these distances:
29 16 0.24
30 30 0.44
31 12 0.18
32 10 0.15
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.29
Consensus pattern (29 bp):
TGTCCTATGTCCCGAAGAACATAGGTAAA
Found at i:124895 original size:30 final size:30
Alignment explanation
Indices: 124855--124959 Score: 104
Period size: 30 Copynumber: 3.5 Consensus size: 30
124845 TAGGTCCCGA
* *
124855 AGAACCTAGGTAAATGTCCATATGTTCCTT
1 AGAACATAGGTAAATGTCCATATGTTCCCT
* * *
124885 AGAACATAGGTATATGTCTATATG-TCCCG
1 AGAACATAGGTAAATGTCCATATGTTCCCT
* * *
124914 AAAACATAGGTAATTCAGTCCATATGTTCCGT
1 AGAACATAGGTAAAT--GTCCATATGTTCCCT
*
124946 AGAACATAGATAAA
1 AGAACATAGGTAAA
124960 CCCTCGACTC
Statistics
Matches: 58, Mismatches: 14, Indels: 4
0.76 0.18 0.05
Matches are distributed among these distances:
29 15 0.26
30 21 0.36
31 8 0.14
32 14 0.24
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (30 bp):
AGAACATAGGTAAATGTCCATATGTTCCCT
Found at i:125648 original size:20 final size:20
Alignment explanation
Indices: 125623--125678 Score: 94
Period size: 22 Copynumber: 2.7 Consensus size: 20
125613 TGCAATTCCC
125623 ATGCATCGATGCACTCCTTA
1 ATGCATCGATGCACTCCTTA
125643 ATGCATCGATGTGCACTCCTTA
1 ATGCATCGA--TGCACTCCTTA
125665 ATGCATCGATGCAC
1 ATGCATCGATGCAC
125679 CTTCAACTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 14 0.41
22 20 0.59
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (20 bp):
ATGCATCGATGCACTCCTTA
Done.