Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005744.1 Hibiscus syriacus cultivar Beakdansim tig00013431_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: 102089
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Found at i:3049 original size:23 final size:23
Alignment explanation
Indices: 3008--3052 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2998 CTCGCATAAA
*
3008 TGCATCGAAGTGCCACGTAGAAT
1 TGCATCGAAGTACCACGTAGAAT
* *
3031 TGCATCGTAGTACCGCGTAGAA
1 TGCATCGAAGTACCACGTAGAA
3053 ATACACCGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (23 bp):
TGCATCGAAGTACCACGTAGAAT
Found at i:3466 original size:2 final size:2
Alignment explanation
Indices: 3459--3484 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3449 ATGTCTTATC
3459 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
3485 TCACATGTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5627 original size:24 final size:24
Alignment explanation
Indices: 5600--5650 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
5590 AATGTTACAT
*
5600 CAGCTCCGCAAGAAATACGTTCTA
1 CAGCTCCGCAAGAAATACGTTATA
5624 CAGCTCCGCAAGAAATACGTTATA
1 CAGCTCCGCAAGAAATACGTTATA
5648 CAG
1 CAG
5651 TTCATGTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (24 bp):
CAGCTCCGCAAGAAATACGTTATA
Found at i:9798 original size:21 final size:21
Alignment explanation
Indices: 9769--9810 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9759 TTCTGGGTTG
*
9769 TGTGCATCGATACACTTTCAA
1 TGTGCATCGATACACTCTCAA
* *
9790 TGTGTATCGATGCACTCTCAA
1 TGTGCATCGATACACTCTCAA
9811 ATAAATGAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (21 bp):
TGTGCATCGATACACTCTCAA
Found at i:10534 original size:18 final size:18
Alignment explanation
Indices: 10500--10534 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10490 AGGGATTGTC
*
10500 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGAGACAT
*
10518 AGTGGTCCTTTGAGACA
1 AGTGGTCCTTCGAGACA
10535 AATATTCAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (18 bp):
AGTGGTCCTTCGAGACAT
Found at i:14447 original size:21 final size:21
Alignment explanation
Indices: 14423--14463 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
14413 CTTCCTGCAC
14423 TACTTATATA-ATATCCTTTTA
1 TACTTATATATATA-CCTTTTA
*
14444 TACTTATCTATATACCTTTT
1 TACTTATATATATACCTTTT
14464 CCTTAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (21 bp):
TACTTATATATATACCTTTTA
Found at i:14921 original size:18 final size:18
Alignment explanation
Indices: 14898--14932 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
14888 ACCACTGATT
14898 TATCCCAAATGACCACTA
1 TATCCCAAATGACCACTA
*
14916 TATCCCGAATGACCACT
1 TATCCCAAATGACCACT
14933 CCTTAAGAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.34, G:0.09, T:0.23
Consensus pattern (18 bp):
TATCCCAAATGACCACTA
Found at i:16574 original size:15 final size:15
Alignment explanation
Indices: 16547--16586 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 15
16537 GGTTATGAAT
*
16547 TATATGAATAT-ATA
1 TATATGACTATGATA
16561 T-TATGA-TATGATA
1 TATATGACTATGATA
16574 TATATGACTATGA
1 TATATGACTATGA
16587 GCTAGAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 3 0.13
13 9 0.39
14 6 0.26
15 5 0.22
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.42
Consensus pattern (15 bp):
TATATGACTATGATA
Found at i:22094 original size:17 final size:18
Alignment explanation
Indices: 22049--22101 Score: 72
Period size: 18 Copynumber: 3.0 Consensus size: 18
22039 CTGAAATGTT
*
22049 TATGAGGGAATTGGAATC
1 TATGAAGGAATTGGAATC
22067 TATGAAGGAATTGGAATC
1 TATGAAGGAATTGGAATC
* *
22085 TGT-CAGGAATTGGAATC
1 TATGAAGGAATTGGAATC
22102 CAATTCCATA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
17 13 0.41
18 19 0.59
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (18 bp):
TATGAAGGAATTGGAATC
Found at i:22841 original size:222 final size:223
Alignment explanation
Indices: 22466--22925 Score: 739
Period size: 222 Copynumber: 2.1 Consensus size: 223
22456 ATCCGAGACT
*
22466 CGACCCGGCCCGAATATATGAATTAAAAACCCGACCGACCCGAAATAATAAAAAAATATTTTTAT
1 CGACCCGACCCGAATATATGAATTAAAAA-CC-ACCGACCCGAAATAATAAAAAAATATTTTTAT
*
22531 TCAATAAAAACAATGACTTAATTGAAAAAAATTATATATAGAGGGGTATTATTGTAATTATTCCT
64 TCAATAAAAACAATGACTTAATTGAAAAAAATTATATATAGAAGGGTATTATTGTAATTATTCCT
* *
22596 AAATATATAAGGTAAAATTATATAT-TTTTTGGGTCGGGTCGGGTATTTTTCACCCTAAACCC-A
129 AAATATATAAGGTAAAATTATATATATTTTCGGGTCGGATCGGGTATTTTTCACCCTAAACCCGA
22659 ACCCCGACCCGAATATCACACTTAAAAAAAAC
194 A-CCCGACCCGAATATCACACTT-AAAAAAAC
* *
22691 CGACCCGACCCGAATATATGAATTAGAAA-C-CCGACTCGAAATAATAAAAAAATATTTTTATTC
1 CGACCCGACCCGAATATATGAATTAAAAACCACCGACCCGAAATAATAAAAAAATATTTTTATTC
* * *
22754 AATAAAAACAGTGACTTAATTGAAAAAATTATATATATATAAGGGTATTATTGTAATTATTCCTA
66 AATAAAAACAATGACTTAATTGAAAAAAAT-TATATATAGAAGGGTATTATTGTAATTATTCCTA
*
22819 AATATATAAGGTAAAATTATATATATTTTCGGGTCGGATCGGGTATTTTTTACCCTAAACCCGAA
130 AATATATAAGGTAAAATTATATATATTTTCGGGTCGGATCGGGTATTTTTCACCCTAAACCCGAA
*
22884 CTCGACCCGAATATCACACTTAAAAAAAC
195 CCCGACCCGAATATCACACTTAAAAAAAC
*
22913 TGACCCGACCCGA
1 CGACCCGACCCGA
22926 CCAAAATAAA
Statistics
Matches: 220, Mismatches: 12, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
221 60 0.27
222 76 0.35
223 55 0.25
224 2 0.01
225 27 0.12
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.29
Consensus pattern (223 bp):
CGACCCGACCCGAATATATGAATTAAAAACCACCGACCCGAAATAATAAAAAAATATTTTTATTC
AATAAAAACAATGACTTAATTGAAAAAAATTATATATAGAAGGGTATTATTGTAATTATTCCTAA
ATATATAAGGTAAAATTATATATATTTTCGGGTCGGATCGGGTATTTTTCACCCTAAACCCGAAC
CCGACCCGAATATCACACTTAAAAAAAC
Found at i:32495 original size:25 final size:25
Alignment explanation
Indices: 32445--32497 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
32435 TTATGACACA
* *
32445 TTTTTCTCTGTTTTTTTGGCATATT
1 TTTTTCTCTGTTTATTTGGCAAATT
32470 TTTTTCTCTG-TTATTTGGCACAATT
1 TTTTTCTCTGTTTATTTGGCA-AATT
32495 TTT
1 TTT
32498 ATTACTTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.11, C:0.13, G:0.11, T:0.64
Consensus pattern (25 bp):
TTTTTCTCTGTTTATTTGGCAAATT
Found at i:32496 original size:24 final size:25
Alignment explanation
Indices: 32445--32497 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
32435 TTATGACACA
* * *
32445 TTTTTCTCTGTTTTTTTGGCATATT
1 TTTTTCTCTGTTTATTTGGCACAAT
32470 TTTTTCTCTG-TTATTTGGCACAAT
1 TTTTTCTCTGTTTATTTGGCACAAT
32494 TTTT
1 TTTT
32498 ATTACTTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 15 0.60
25 10 0.40
ACGTcount: A:0.11, C:0.13, G:0.11, T:0.64
Consensus pattern (25 bp):
TTTTTCTCTGTTTATTTGGCACAAT
Found at i:34318 original size:2 final size:2
Alignment explanation
Indices: 34311--34367 Score: 107
Period size: 2 Copynumber: 29.0 Consensus size: 2
34301 TAAATATCAT
34311 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
34353 TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA
34368 AACTAGTTCG
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 53 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:34517 original size:19 final size:19
Alignment explanation
Indices: 34489--34526 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
34479 ATTGTTTTTA
* *
34489 AATAGTATAAATATAAAAT
1 AATAGCATAAAAATAAAAT
34508 AATAGCATAAAAATAAAAT
1 AATAGCATAAAAATAAAAT
34527 CCATTCCATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (19 bp):
AATAGCATAAAAATAAAAT
Found at i:37541 original size:23 final size:23
Alignment explanation
Indices: 37474--37560 Score: 88
Period size: 23 Copynumber: 3.7 Consensus size: 23
37464 TCATATAAAT
*
37474 TTGCACCGTAGTGCCACGTAGAA
1 TTGCACCGAAGTGCCACGTAGAA
*
37497 TTTTGTC-CCGAAG-GACCGCGTAGAA
1 --TTG-CACCGAAGTG-CCACGTAGAA
*
37522 ATGCACCGAAGTGCCACGTAGAA
1 TTGCACCGAAGTGCCACGTAGAA
*
37545 TTGCACCGTAGTGCCA
1 TTGCACCGAAGTGCCA
37561 TATAATATGT
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
22 1 0.02
23 31 0.60
24 2 0.04
25 17 0.33
26 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.21
Consensus pattern (23 bp):
TTGCACCGAAGTGCCACGTAGAA
Found at i:43689 original size:23 final size:23
Alignment explanation
Indices: 43622--43708 Score: 88
Period size: 23 Copynumber: 3.7 Consensus size: 23
43612 TCATATAAAT
*
43622 TTGCACCGTAGTGCCACGTAGAA
1 TTGCACCGAAGTGCCACGTAGAA
*
43645 TTTTGTC-CCGAAG-GACCGCGTAGAA
1 --TTG-CACCGAAGTG-CCACGTAGAA
*
43670 ATGCACCGAAGTGCCACGTAGAA
1 TTGCACCGAAGTGCCACGTAGAA
*
43693 TTGCACCGTAGTGCCA
1 TTGCACCGAAGTGCCA
43709 TATAATATGT
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
22 1 0.02
23 31 0.60
24 2 0.04
25 17 0.33
26 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.21
Consensus pattern (23 bp):
TTGCACCGAAGTGCCACGTAGAA
Found at i:48629 original size:23 final size:23
Alignment explanation
Indices: 48575--48629 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
48565 TATGCAATAG
48575 TATAATTTAAAATTAAAATATTA
1 TATAATTTAAAATTAAAATATTA
** *
48598 TATTGTTTAATA-TAAAATATTA
1 TATAATTTAAAATTAAAATATTA
48620 TATAAATTTA
1 TAT-AATTTA
48630 TAATATTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 13 0.50
23 13 0.50
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
TATAATTTAAAATTAAAATATTA
Found at i:57606 original size:14 final size:14
Alignment explanation
Indices: 57587--57626 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
57577 AACGAACATA
57587 AACGAACACAAACG
1 AACGAACACAAACG
*
57601 AACGAACATAAACG
1 AACGAACACAAACG
57615 AAC-AACACAAAC
1 AACGAACACAAAC
57627 ACAAAAAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 8 0.33
14 16 0.67
ACGTcount: A:0.60, C:0.28, G:0.10, T:0.03
Consensus pattern (14 bp):
AACGAACACAAACG
Found at i:57618 original size:10 final size:10
Alignment explanation
Indices: 57574--57603 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
57564 CATTTAAATG
57574 ATAAACGAAC
1 ATAAACGAAC
57584 ATAAACGAAC
1 ATAAACGAAC
*
57594 ACAAACGAAC
1 ATAAACGAAC
57604 GAACATAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.60, C:0.23, G:0.10, T:0.07
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:57900 original size:14 final size:14
Alignment explanation
Indices: 57881--57916 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
57871 GATCTCTGTT
57881 CGAACATAAATAAA
1 CGAACATAAATAAA
*
57895 CGAACATAAATGAA
1 CGAACATAAATAAA
57909 CGAACATA
1 CGAACATA
57917 TAATCGAACT
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:0.58, C:0.17, G:0.11, T:0.14
Consensus pattern (14 bp):
CGAACATAAATAAA
Found at i:59707 original size:17 final size:18
Alignment explanation
Indices: 59675--59708 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
59665 TATTAAGGTA
*
59675 TATTTTTATTATATTTAG
1 TATTTTTAGTATATTTAG
59693 TATTTTTAGTA-ATTTA
1 TATTTTTAGTATATTTA
59709 TTTAATTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
TATTTTTAGTATATTTAG
Found at i:61919 original size:13 final size:13
Alignment explanation
Indices: 61877--61921 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
61867 TATTTAGTAC
*
61877 TTTTTTATTGTAG
1 TTTTTTATTGTAA
* * *
61890 TTGTTTATTGGAC
1 TTTTTTATTGTAA
61903 TTTTTTATTGTAA
1 TTTTTTATTGTAA
61916 TTTTTT
1 TTTTTT
61922 TATTATTTAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.16, C:0.02, G:0.13, T:0.69
Consensus pattern (13 bp):
TTTTTTATTGTAA
Found at i:66972 original size:28 final size:27
Alignment explanation
Indices: 66889--66983 Score: 94
Period size: 28 Copynumber: 3.6 Consensus size: 27
66879 ATAAAAAATT
66889 ATAATTTAGAAATTTATTTTAA-TAAAAA
1 ATAATTTA-AAATTTATTTTAACT-AAAA
*
66917 ATAATTT-AAA-TTA-GTT-AC-AAATA
1 ATAATTTAAAATTTATTTTAACTAAA-A
66940 ATAATTTAAAAGTTTATTTTAACTAAAA
1 ATAATTTAAAA-TTTATTTTAACTAAAA
66968 ATAATTTAATAATTTA
1 ATAATTTAA-AATTTA
66984 AAGGGAAAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 18
0.74 0.03 0.24
Matches are distributed among these distances:
22 3 0.05
23 9 0.16
24 5 0.09
25 3 0.05
26 6 0.11
27 2 0.04
28 23 0.41
29 5 0.09
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (27 bp):
ATAATTTAAAATTTATTTTAACTAAAA
Found at i:76560 original size:110 final size:110
Alignment explanation
Indices: 76433--76646 Score: 410
Period size: 110 Copynumber: 1.9 Consensus size: 110
76423 ATATGACACT
76433 ATGGGAATGCTCGGCGTCTTCAAGCAATTGGACTGTGGGATATCTCGGCGTCTTCTGCATGCTAC
1 ATGGGAATGCTCGGCGTCTTCAAGCAATTGGACTGTGGGATATCTCGGCGTCTTCTGCATGCTAC
76498 AAGGAATGCCAAGGGGGATCTCTCGGCGTCTTCACCTGTCGTCTG
66 AAGGAATGCCAAGGGGGATCTCTCGGCGTCTTCACCTGTCGTCTG
*
76543 ATGGGAATGCTCGGCGTCTTCAAGCAATTGGACTGTGGGATCTCTCGGCGTCTTCTGCATGCTAC
1 ATGGGAATGCTCGGCGTCTTCAAGCAATTGGACTGTGGGATATCTCGGCGTCTTCTGCATGCTAC
*
76608 AAGGAATGCCAAGGTGGATCTCTCGGCGTCTTCACCTGT
66 AAGGAATGCCAAGGGGGATCTCTCGGCGTCTTCACCTGT
76647 GCGGGAATCT
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
110 102 1.00
ACGTcount: A:0.18, C:0.25, G:0.29, T:0.28
Consensus pattern (110 bp):
ATGGGAATGCTCGGCGTCTTCAAGCAATTGGACTGTGGGATATCTCGGCGTCTTCTGCATGCTAC
AAGGAATGCCAAGGGGGATCTCTCGGCGTCTTCACCTGTCGTCTG
Found at i:76950 original size:18 final size:18
Alignment explanation
Indices: 76927--76973 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
76917 CTTTGTGGCC
76927 GAAGCGTGAGATTCGTCT
1 GAAGCGTGAGATTCGTCT
*
76945 GAAGCGTGAGATTCTTCT
1 GAAGCGTGAGATTCGTCT
76963 GAAGCGTGAGA
1 GAAGCGTGAGA
76974 CTAATAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.26, C:0.15, G:0.34, T:0.26
Consensus pattern (18 bp):
GAAGCGTGAGATTCGTCT
Found at i:79576 original size:8 final size:8
Alignment explanation
Indices: 79552--79984 Score: 115
Period size: 8 Copynumber: 58.5 Consensus size: 8
79542 TATTTAATAA
79552 TAATTATT
1 TAATTATT
79560 TAA--ATT
1 TAATTATT
79566 TAATTATT
1 TAATTATT
*
79574 TAA--CTT
1 TAATTATT
*
79580 TAATGATT
1 TAATTATT
*
79588 TAA-TA-A
1 TAATTATT
79594 TAATTATT
1 TAATTATT
*
79602 TAA--CTT
1 TAATTATT
*
79608 TAATGATT
1 TAATTATT
*
79616 TAA-TA-A
1 TAATTATT
79622 TAATTACTT
1 TAATTA-TT
*
79631 TAATGATT
1 TAATTATT
*
79639 TAA--CTT
1 TAATTATT
*
79645 TAATGATT
1 TAATTATT
*
79653 TAA-TA-A
1 TAATTATT
79659 TAATTACTT
1 TAATTA-TT
*
79668 TAATGATT
1 TAATTATT
79676 T-A--ATT
1 TAATTATT
*
79681 TAATGATT
1 TAATTATT
*
79689 TAA-TA-A
1 TAATTATT
79695 TAATTACTT
1 TAATTA-TT
*
79704 TAATGATT
1 TAATTATT
79712 TAA-T-TT
1 TAATTATT
*
79718 TAATGATT
1 TAATTATT
*
79726 TAATGATT
1 TAATTATT
*
79734 TAA--CTT
1 TAATTATT
*
79740 TAATGATT
1 TAATTATT
*
79748 TAA-TA-A
1 TAATTATT
79754 TAATTACTT
1 TAATTA-TT
*
79763 TAATGATT
1 TAATTATT
*
79771 TAATGATT
1 TAATTATT
*
79779 TAATGATT
1 TAATTATT
*
79787 TAA-TA-A
1 TAATTATT
79793 TAATTATTT
1 TAATTA-TT
*
79802 TAATGATT
1 TAATTATT
*
79810 TAATGATT
1 TAATTATT
*
79818 TAATGATT
1 TAATTATT
*
79826 TAA-TA-A
1 TAATTATT
79832 TAATTACTT
1 TAATTA-TT
*
79841 TAATGATT
1 TAATTATT
*
79849 TAA--CTT
1 TAATTATT
**
79855 TAATGCTT
1 TAATTATT
*
79863 TAA-TA-A
1 TAATTATT
79869 TAATTACTT
1 TAATTA-TT
*
79878 TAATGATT
1 TAATTATT
*
79886 TAATGATT
1 TAATTATT
*
79894 TAATGATT
1 TAATTATT
*
79902 TAA-TA-A
1 TAATTATT
79908 TAATTACTT
1 TAATTA-TT
*
79917 TAATGATT
1 TAATTATT
79925 TAA-T-TT
1 TAATTATT
*
79931 TAATAATT
1 TAATTATT
*
79939 TAA-TA-A
1 TAATTATT
*
79945 TAATTACT
1 TAATTATT
79953 TAA-T-TT
1 TAATTATT
*
79959 TAATGATT
1 TAATTATT
79967 TAA-T-TT
1 TAATTATT
*
79973 TAATGATT
1 TAATTATT
79981 TAAT
1 TAAT
79985 AATAATTACT
Statistics
Matches: 318, Mismatches: 56, Indels: 102
0.67 0.12 0.21
Matches are distributed among these distances:
5 4 0.01
6 81 0.25
7 31 0.10
8 162 0.51
9 40 0.13
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.51
Consensus pattern (8 bp):
TAATTATT
Found at i:79641 original size:37 final size:37
Alignment explanation
Indices: 79594--79750 Score: 257
Period size: 37 Copynumber: 4.3 Consensus size: 37
79584 GATTTAATAA
*
79594 TAATTATTTAACTTTAATGATTTAATAATAATTACTT
1 TAATGATTTAACTTTAATGATTTAATAATAATTACTT
79631 TAATGATTTAACTTTAATGATTTAATAATAATTACTT
1 TAATGATTTAACTTTAATGATTTAATAATAATTACTT
79668 TAATGATTTAA-TTTAATGATTTAATAATAATTACTT
1 TAATGATTTAACTTTAATGATTTAATAATAATTACTT
* *
79704 TAATGATTTAATTTTAATGATTTAATGAT--TTAACTT
1 TAATGATTTAACTTTAATGATTTAATAATAATT-ACTT
79740 TAATGATTTAA
1 TAATGATTTAA
79751 TAATAATTAC
Statistics
Matches: 116, Mismatches: 2, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
35 2 0.02
36 51 0.44
37 63 0.54
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (37 bp):
TAATGATTTAACTTTAATGATTTAATAATAATTACTT
Found at i:79644 original size:14 final size:13
Alignment explanation
Indices: 79552--79984 Score: 249
Period size: 14 Copynumber: 33.9 Consensus size: 13
79542 TATTTAATAA
*
79552 TAATTATTTAAATT
1 TAATGATTT-AATT
*
79566 TAATTATTTAACTT
1 TAATGATTTAA-TT
*
79580 TAATGATTTAATAA
1 TAATGATTTAAT-T
*
79594 TAATTATTTAACTT
1 TAATGATTTAA-TT
79608 TAATGATTTAA--
1 TAATGATTTAATT
* *
79619 TAAT-AATTACTT
1 TAATGATTTAATT
79631 TAATGATTTAACTT
1 TAATGATTTAA-TT
79645 TAATGATTTAA--
1 TAATGATTTAATT
* *
79656 TAAT-AATTACTT
1 TAATGATTTAATT
79668 TAATGATTTAATT
1 TAATGATTTAATT
79681 TAATGATTTAA--
1 TAATGATTTAATT
* *
79692 TAAT-AATTACTT
1 TAATGATTTAATT
79704 TAATGATTTAATTT
1 TAATGATTTAA-TT
79718 TAATG-----ATT
1 TAATGATTTAATT
79726 TAATGATTTAACTT
1 TAATGATTTAA-TT
79740 TAATGATTTAA--
1 TAATGATTTAATT
* *
79751 TAAT-AATTACTT
1 TAATGATTTAATT
79763 TAATGATTTAATGATT
1 TAATGATTT-A--ATT
79779 TAATGATTTAA--
1 TAATGATTTAATT
* *
79790 TAAT-AATTATTT
1 TAATGATTTAATT
79802 TAATGATTTAATGATT
1 TAATGATTT-A--ATT
79818 TAATGATTTAA--
1 TAATGATTTAATT
* *
79829 TAAT-AATTACTT
1 TAATGATTTAATT
79841 TAATGATTTAACTT
1 TAATGATTTAA-TT
*
79855 TAATGCTTTAA--
1 TAATGATTTAATT
* *
79866 TAAT-AATTACTT
1 TAATGATTTAATT
79878 TAATGATTTAATGATT
1 TAATGATTT-A--ATT
79894 TAATGATTTAA--
1 TAATGATTTAATT
* *
79905 TAAT-AATTACTT
1 TAATGATTTAATT
79917 TAATGATTTAATTT
1 TAATGATTTAA-TT
* *
79931 TAATAATTTAATAA
1 TAATGATTTAAT-T
* *
79945 TAATTACTTAATTT
1 TAATGATTTAA-TT
79959 TAATGATTTAATTT
1 TAATGATTTAA-TT
79973 TAATGATTTAAT
1 TAATGATTTAAT
79985 AATAATTACT
Statistics
Matches: 325, Mismatches: 46, Indels: 97
0.69 0.10 0.21
Matches are distributed among these distances:
8 7 0.02
9 1 0.00
10 31 0.10
11 32 0.10
12 32 0.10
13 51 0.16
14 133 0.41
15 5 0.02
16 33 0.10
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.51
Consensus pattern (13 bp):
TAATGATTTAATT
Found at i:79683 original size:73 final size:72
Alignment explanation
Indices: 79594--79751 Score: 255
Period size: 73 Copynumber: 2.2 Consensus size: 72
79584 GATTTAATAA
*
79594 TAATTATTTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAATAA
1 TAATGATTTAA-TTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAATAA
79659 TAATT-ACTT
65 T--TTAACTT
* *
79668 TAATGATTTAATTTAATGATTTAATAATAATTACTTTAATGATTTAATTTTAATGATTTAATGAT
1 TAATGATTTAATTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAATAAT
79733 TTAACTT
66 TTAACTT
79740 TAATGATTTAAT
1 TAATGATTTAAT
79752 AATAATTACT
Statistics
Matches: 80, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
71 2 0.03
72 16 0.20
73 52 0.65
74 10 0.12
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.51
Consensus pattern (72 bp):
TAATGATTTAATTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAATAAT
TTAACTT
Found at i:79789 original size:39 final size:38
Alignment explanation
Indices: 79702--79995 Score: 409
Period size: 39 Copynumber: 7.7 Consensus size: 38
79692 TAATAATTAC
** * *
79702 TTTAATGATTTAATTTTAATGA-TTTAATGATTTAA-C
1 TTTAATGATTTAATAATAATTACTTTAATGATTTAATA
79738 TTTAATGATTTAATAATAATTACTTTAATGATTTAATGA
1 TTTAATGATTTAATAATAATTACTTTAATGATTTAAT-A
*
79777 TTTAATGATTTAATAATAATTATTTTAATGATTTAATGA
1 TTTAATGATTTAATAATAATTACTTTAATGATTTAAT-A
*
79816 TTTAATGATTTAATAATAATTACTTTAATGATTTAA-C
1 TTTAATGATTTAATAATAATTACTTTAATGATTTAATA
*
79853 TTTAATGCTTTAATAATAATTACTTTAATGATTTAATGA
1 TTTAATGATTTAATAATAATTACTTTAATGATTTAAT-A
79892 TTTAATGATTTAATAATAATTACTTTAATGATTTAAT-
1 TTTAATGATTTAATAATAATTACTTTAATGATTTAATA
*
79929 TTTAATAATTTAATAATAATTACTTAATTTTAATGATTTAAT-
1 TTTAATGATTTAATAATAATTAC-----TTTAATGATTTAATA
79971 TTTAATGATTTAATAATAATTACTT
1 TTTAATGATTTAATAATAATTACTT
79996 GACTTTAATG
Statistics
Matches: 236, Mismatches: 12, Indels: 19
0.88 0.04 0.07
Matches are distributed among these distances:
36 19 0.08
37 72 0.31
39 109 0.46
42 36 0.15
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.51
Consensus pattern (38 bp):
TTTAATGATTTAATAATAATTACTTTAATGATTTAATA
Found at i:79867 original size:76 final size:75
Alignment explanation
Indices: 79666--79995 Score: 411
Period size: 76 Copynumber: 4.3 Consensus size: 75
79656 TAATAATTAC
* * * ** *
79666 TTTAATGATTTAAT-TTAATGA-TTTAATAATAATT-ACTTTAATGATTTAATTTTAATGA-TTT
1 TTTAATGATTTAATAATAATTACTTTAATGAT--TTAACTTTAATGATTTAATAATAATTATTTT
*
79727 AATGATTTAA-C
64 AATGATTTAATA
*
79738 TTTAATGATTTAATAATAATTACTTTAATGATTTAATGATTTAATGATTTAATAATAATTATTTT
1 TTTAATGATTTAATAATAATTACTTTAATGATTTAA--CTTTAATGATTTAATAATAATTATTTT
79803 AATGATTTAATGA
64 AATGATTTAAT-A
* *
79816 TTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAATGCTTTAATAATAATTACTTTAA
1 TTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAATAATAATTATTTTAA
79881 TGATTTAATGA
66 TGATTTAAT-A
* *
79892 TTTAATGATTTAATAATAATTACTTTAATGATTTAATTTTAATAATTTAATAATAATTACTTAAT
1 TTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAATAAT-A--A-TT-AT
79957 TTTAATGATTTAAT-
61 TTTAATGATTTAATA
79971 TTTAATGATTTAATAATAATTACTT
1 TTTAATGATTTAATAATAATTACTT
79996 GACTTTAATG
Statistics
Matches: 230, Mismatches: 15, Indels: 19
0.87 0.06 0.07
Matches are distributed among these distances:
72 16 0.07
73 6 0.03
74 8 0.03
75 19 0.08
76 101 0.44
77 1 0.00
78 36 0.16
79 26 0.11
80 2 0.01
81 15 0.07
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.51
Consensus pattern (75 bp):
TTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAATAATAATTATTTTAA
TGATTTAATA
Found at i:79934 original size:23 final size:22
Alignment explanation
Indices: 79643--79905 Score: 85
Period size: 23 Copynumber: 11.3 Consensus size: 22
79633 ATGATTTAAC
**
79643 TTTAATGATTTAATAATAATTA
1 TTTAATGATTTAATTTTAATTA
*
79665 CTTTAATGATTTAA-TTTAATGA
1 -TTTAATGATTTAATTTTAATTA
* * *
79687 TTTAATAATAATT-ACTTTAATGA
1 TTTAATGAT--TTAATTTTAATTA
79710 TTTAAT--TTTAATGATTTAATGATTTAA
1 TTTAATGATTTAAT--TTT-A--A-TT-A
**
79737 CTTTAATGATTTAATAATAATTA
1 -TTTAATGATTTAATTTTAATTA
*
79760 CTTTAATGATTTAATGATTTAATGA
1 -TTTAATGATTTAAT--TTTAATTA
* *
79785 TTTAATAATAATT-ATTTTAATGA
1 TTTAATGAT--TTAATTTTAATTA
79808 TTTAATGATTTAATGATTTAA-TA
1 TTTAATGATTTAAT--TTTAATTA
* * *
79831 -ATAATTACTTTAATGATTTAA--C
1 TTTAATGA-TTTAAT--TTTAATTA
* **
79853 TTTAATGCTTTAATAATAATTA
1 TTTAATGATTTAATTTTAATTA
*
79875 CTTTAATGATTTAATGATTTAATGA
1 -TTTAATGATTTAAT--TTTAATTA
79900 TTTAAT
1 TTTAAT
79906 AATAATTACT
Statistics
Matches: 185, Mismatches: 27, Indels: 55
0.69 0.10 0.21
Matches are distributed among these distances:
19 2 0.01
20 4 0.02
21 11 0.06
22 22 0.12
23 93 0.50
24 21 0.11
25 14 0.08
26 3 0.02
27 2 0.01
28 7 0.04
30 6 0.03
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (22 bp):
TTTAATGATTTAATTTTAATTA
Found at i:79976 original size:28 final size:28
Alignment explanation
Indices: 79724--79984 Score: 93
Period size: 31 Copynumber: 9.0 Consensus size: 28
79714 ATTTTAATGA
* * *
79724 TTTAATGATTTAACTTTAATGATTTAAT
1 TTTAATAATTTAATTTTAATGACTTAAT
** * *
79752 AATAATTACTTTAATGATTTAATGATTTAAT
1 TTTAA-TAATTTAAT--TTTAATGACTTAAT
* * *
79783 GATTTAATAATAATTATTTTAATGATTTAAT
1 --TTTAATAAT-TTAATTTTAATGACTTAAT
* * *
79814 GATTTAATGATTTAA---TAAT-AATT-AC
1 --TTTAATAATTTAATTTTAATGACTTAAT
* *
79839 TTTAATGATTTAACTTTAATG-CTTTAAT
1 TTTAATAATTTAATTTTAATGAC-TTAAT
** * *
79867 AATAATTACTTTAATGATTTAATGATTTAAT
1 TTTAA-TAATTTAAT--TTTAATGACTTAAT
* * * *
79898 GATTTAATAATAATTACTTTAATGATTTAAT
1 --TTTAATAAT-TTAATTTTAATGACTTAAT
** *
79929 TTTAATAATTTAATAATAATTACTTAAT
1 TTTAATAATTTAATTTTAATGACTTAAT
* *
79957 TTTAATGATTTAATTTTAATGATTTAAT
1 TTTAATAATTTAATTTTAATGACTTAAT
79985 AATAATTACT
Statistics
Matches: 173, Mismatches: 41, Indels: 38
0.69 0.16 0.15
Matches are distributed among these distances:
23 13 0.08
25 1 0.01
26 7 0.04
27 6 0.03
28 42 0.24
29 21 0.12
30 2 0.01
31 64 0.37
32 6 0.03
33 11 0.06
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.51
Consensus pattern (28 bp):
TTTAATAATTTAATTTTAATGACTTAAT
Found at i:79993 original size:42 final size:41
Alignment explanation
Indices: 79723--80030 Score: 350
Period size: 39 Copynumber: 7.8 Consensus size: 41
79713 AATTTTAATG
*
79723 ATTTAATGATTTAA-CTTTAATGATTTAATAATAATTAC--
1 ATTTAATGATTTAATATTTAATGATTTAATAATAATTACTT
79761 -TTTAATGATTTAATGATTTAATGATTTAATAATAATTA--T
1 ATTTAATGATTTAAT-ATTTAATGATTTAATAATAATTACTT
79800 -TTTAATGATTTAATGATTTAATGATTTAATAATAATTAC--
1 ATTTAATGATTTAAT-ATTTAATGATTTAATAATAATTACTT
* *
79839 -TTTAATGATTTAA-CTTTAATGCTTTAATAATAATTAC--
1 ATTTAATGATTTAATATTTAATGATTTAATAATAATTACTT
79876 -TTTAATGATTTAATGATTTAATGATTTAATAATAATTAC--
1 ATTTAATGATTTAAT-ATTTAATGATTTAATAATAATTACTT
*
79915 -TTTAATGATTTAAT-TTTAATAATTTAATAATAATTACTT
1 ATTTAATGATTTAATATTTAATGATTTAATAATAATTACTT
79954 AATTTTAATGATTTAAT-TTTAATGATTTAATAATAATTACTT
1 -A-TTTAATGATTTAATATTTAATGATTTAATAATAATTACTT
* * *
79996 GACTTTAATGAGTT-ATATTTACTGATATAATAATA
1 -A-TTTAATGATTTAATATTTAATGATTTAATAATA
80031 GTAAATATAT
Statistics
Matches: 246, Mismatches: 12, Indels: 20
0.88 0.04 0.07
Matches are distributed among these distances:
37 70 0.28
39 109 0.44
41 2 0.01
42 65 0.26
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49
Consensus pattern (41 bp):
ATTTAATGATTTAATATTTAATGATTTAATAATAATTACTT
Found at i:80026 original size:115 final size:112
Alignment explanation
Indices: 79744--79995 Score: 371
Period size: 115 Copynumber: 2.2 Consensus size: 112
79734 TAACTTTAAT
*
79744 GATTTAATAATAATTACTTTAATGATTTAATGATTTAATGATTTAATAATAATTATTTTAATGAT
1 GATTTAATAATAATTAC-TT-ATGATTTAATGATTTAATGATTTAATAATAATTACTTTAATGAT
*
79809 TTAATGATTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAAT
64 TTAAT-ATTTAATAATTTAATAATAATTACTTTAATGATTTAACTTTAAT
*
79859 GCTTTAATAATAATTACTTTAATGATTTAATGATTTAATGATTTAATAATAATTACTTTAATGAT
1 GATTTAATAATAATTAC-TT-ATGATTTAATGATTTAATGATTTAATAATAATTACTTTAATGAT
*
79924 TTAAT-TTTAATAATTTAATAATAATTACTTAATTTTAATGATTTAATTTTAAT
64 TTAATATTTAATAATTTAATAATAATTAC-----TTTAATGATTTAACTTTAAT
79977 GATTTAATAATAATTACTT
1 GATTTAATAATAATTACTT
79996 GACTTTAATG
Statistics
Matches: 127, Mismatches: 5, Indels: 8
0.91 0.04 0.06
Matches are distributed among these distances:
113 22 0.17
115 68 0.54
117 2 0.02
118 35 0.28
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (112 bp):
GATTTAATAATAATTACTTATGATTTAATGATTTAATGATTTAATAATAATTACTTTAATGATTT
AATATTTAATAATTTAATAATAATTACTTTAATGATTTAACTTTAAT
Found at i:80495 original size:6 final size:6
Alignment explanation
Indices: 80484--80508 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
80474 GGTGAGAAGA
80484 ACTCCC ACTCCC ACTCCC ACTCCC A
1 ACTCCC ACTCCC ACTCCC ACTCCC A
80509 GTCCTTCTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.64, G:0.00, T:0.16
Consensus pattern (6 bp):
ACTCCC
Found at i:82470 original size:172 final size:173
Alignment explanation
Indices: 82175--82530 Score: 563
Period size: 172 Copynumber: 2.1 Consensus size: 173
82165 CATCAAATAT
* *
82175 AAAATGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTTGCAATTTAATCACTAAATT
1 AAAACGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTAGCAATTTAATCACTAAATT
*
82240 TATAAATTCTTTCAAATTTAACCAATTAAGCATATTAATACTAAATTCAAGCATAGTATACCAAC
66 TATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCAAGCATAGTATACCAAC
* * *
82305 TTTTTATAATTTACTCTAATTTCTTAAATTCCTCAAATTTTGC
131 TTTTAATAATTTACTCTAATTCCTTAAATTCCTCAAATTTTAC
* *
82348 AAAACGATCCCTAATTACTATTTGGTTCTCAACATTTTCAAAGTTAGCAATTTAATC-CATAAAT
1 AAAACGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTAGCAATTTAATCAC-TAAAT
* * *
82412 TT-TAAATTCTTTCTAATTTAACCAATTAAGCATACTAATACTAAATTCCAGCATAGTATAGCAA
65 TTATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCAAGCATAGTATACCAA
* *
82476 CTTTTAATAATTTACTCTTATTCCTTAAATTCCTTAAATTTTAC
130 CTTTTAATAATTTACTCTAATTCCTTAAATTCCTCAAATTTTAC
*
82520 AAAACGGTCCC
1 AAAACGATCCC
82531 CTAAAACTTT
Statistics
Matches: 168, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
172 108 0.64
173 60 0.36
ACGTcount: A:0.37, C:0.19, G:0.05, T:0.40
Consensus pattern (173 bp):
AAAACGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTAGCAATTTAATCACTAAATT
TATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCAAGCATAGTATACCAAC
TTTTAATAATTTACTCTAATTCCTTAAATTCCTCAAATTTTAC
Found at i:83019 original size:23 final size:23
Alignment explanation
Indices: 82993--83036 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
82983 GTTGCATGCC
82993 CCCCCACATGCAGACGTGCAGGA
1 CCCCCACATGCAGACGTGCAGGA
83016 CCCCCACATGCAGACGTGCAG
1 CCCCCACATGCAGACGTGCAG
83037 CCCTGCAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.25, C:0.41, G:0.25, T:0.09
Consensus pattern (23 bp):
CCCCCACATGCAGACGTGCAGGA
Found at i:83097 original size:22 final size:22
Alignment explanation
Indices: 83066--83112 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
83056 CGTGATTTCT
*
83066 GTGCTTTCTCCTTGCAGAACCC
1 GTGCTCTCTCCTTGCAGAACCC
83088 GTGCTCTCTCCTTGCAGAACCC
1 GTGCTCTCTCCTTGCAGAACCC
83110 GTG
1 GTG
83113 ATTTCTCACG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.13, C:0.36, G:0.21, T:0.30
Consensus pattern (22 bp):
GTGCTCTCTCCTTGCAGAACCC
Found at i:83119 original size:22 final size:22
Alignment explanation
Indices: 83070--83119 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
83060 ATTTCTGTGC
*
83070 TTTCTCCTTGCAGAACCCGTGC
1 TTTCTCCTTGCAGAACCCGTGA
*
83092 TCTCTCCTTGCAGAACCCGTGA
1 TTTCTCCTTGCAGAACCCGTGA
83114 TTTCTC
1 TTTCTC
83120 ACGTCCAGTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.14, C:0.36, G:0.16, T:0.34
Consensus pattern (22 bp):
TTTCTCCTTGCAGAACCCGTGA
Found at i:83184 original size:34 final size:34
Alignment explanation
Indices: 83141--83225 Score: 152
Period size: 34 Copynumber: 2.5 Consensus size: 34
83131 CATGCACAGC
*
83141 ACTGAAGACGCCGAGATTTCCTACGAAGAATCCA
1 ACTGAAGACGCCGAGAGTTCCTACGAAGAATCCA
*
83175 ACTGAAGACGCCGAGAGTTCCTATGAAGAATCCA
1 ACTGAAGACGCCGAGAGTTCCTACGAAGAATCCA
83209 ACTGAAGACGCCGAGAG
1 ACTGAAGACGCCGAGAG
83226 ATCAATCATA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 49 1.00
ACGTcount: A:0.35, C:0.25, G:0.25, T:0.15
Consensus pattern (34 bp):
ACTGAAGACGCCGAGAGTTCCTACGAAGAATCCA
Found at i:91133 original size:36 final size:36
Alignment explanation
Indices: 91086--91190 Score: 201
Period size: 36 Copynumber: 2.9 Consensus size: 36
91076 TAGACTTGAT
91086 GACTATACAAGCCTTCCTTCATGCTCAAATTAAGAA
1 GACTATACAAGCCTTCCTTCATGCTCAAATTAAGAA
91122 GACTATACAAGCCTTCCTTCATGCTCAAATTAAGAA
1 GACTATACAAGCCTTCCTTCATGCTCAAATTAAGAA
*
91158 GACTATACAAGCCTTCCTTCATGCCCAAATTAA
1 GACTATACAAGCCTTCCTTCATGCTCAAATTAA
91191 TTTTTTTTAT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
36 68 1.00
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.28
Consensus pattern (36 bp):
GACTATACAAGCCTTCCTTCATGCTCAAATTAAGAA
Found at i:91312 original size:19 final size:19
Alignment explanation
Indices: 91285--91344 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
91275 ATTGACAAAG
*
91285 TGATGTATAACTACATACA
1 TGATCTATAACTACATACA
*
91304 TGATCTAT-ACGT-CA-AAA
1 TGATCTATAAC-TACATACA
*
91321 TGATGTATAACTACATACA
1 TGATCTATAACTACATACA
91340 TGATC
1 TGATC
91345 GATACGTGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
17 10 0.31
18 8 0.25
19 14 0.44
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.32
Consensus pattern (19 bp):
TGATCTATAACTACATACA
Found at i:91332 original size:36 final size:36
Alignment explanation
Indices: 91280--91351 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
91270 TTCACATTGA
* *
91280 CAAAGTGATGTATAACTACATACATGATCTATACGT
1 CAAAATGATGTATAACTACATACATGATCGATACGT
91316 CAAAATGATGTATAACTACATACATGATCGATACGT
1 CAAAATGATGTATAACTACATACATGATCGATACGT
91352 GGTCCTCACA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (36 bp):
CAAAATGATGTATAACTACATACATGATCGATACGT
Found at i:92644 original size:31 final size:30
Alignment explanation
Indices: 92609--92684 Score: 80
Period size: 31 Copynumber: 2.5 Consensus size: 30
92599 AATAATAAAG
* *
92609 TTTGATAAATTTAATTATCATTTTGTAACAA
1 TTTGATAAATTTAA-CATCATTTTATAACAA
* * * *
92640 TTTGAAAAAAATTAACGTCATTTTATAATAA
1 TTTG-ATAAATTTAACATCATTTTATAACAA
92671 TTTGATAAATTTAA
1 TTTGATAAATTTAA
92685 AGATTAATTT
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
30 8 0.22
31 20 0.56
32 8 0.22
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (30 bp):
TTTGATAAATTTAACATCATTTTATAACAA
Found at i:92692 original size:21 final size:22
Alignment explanation
Indices: 92668--92714 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
92658 CATTTTATAA
92668 TAATTTGAT-AAATTT-AAAGAT
1 TAATTT-ATAAAATTTGAAAGAT
*
92689 TAATTTATAAAATTTGAAAGTT
1 TAATTTATAAAATTTGAAAGAT
92711 TAAT
1 TAAT
92715 AACCAAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 2 0.09
21 12 0.52
22 9 0.39
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.45
Consensus pattern (22 bp):
TAATTTATAAAATTTGAAAGAT
Found at i:94449 original size:8 final size:9
Alignment explanation
Indices: 94430--94503 Score: 50
Period size: 8 Copynumber: 8.3 Consensus size: 9
94420 TGTTATATGT
94430 TATGATATA
1 TATGATATA
94439 TATGA-ATA
1 TATGATATA
* *
94447 TATGTTAGA
1 TATGATATA
*
94456 GTA-GTAAATCA
1 -TATG-ATAT-A
94467 TATGAATATA
1 TATG-ATATA
94477 TAT-ATATA
1 TATGATATA
94485 TAT-ATATA
1 TATGATATA
94493 TAT-ATATA
1 TATGATATA
94501 TAT
1 TAT
94504 AATTCATGTG
Statistics
Matches: 53, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
8 31 0.58
9 8 0.15
10 9 0.17
11 5 0.09
ACGTcount: A:0.46, C:0.01, G:0.09, T:0.43
Consensus pattern (9 bp):
TATGATATA
Found at i:94479 original size:2 final size:2
Alignment explanation
Indices: 94472--94504 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
94462 AATCATATGA
94472 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
94505 ATTCATGTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:95530 original size:18 final size:18
Alignment explanation
Indices: 95440--95532 Score: 87
Period size: 18 Copynumber: 4.9 Consensus size: 18
95430 AGGGATTATC
*
95440 AGTGGTCCTTCGGGACAAAC
1 AGTGGTCCTTCGGGAC--AT
*
95460 AGTGGTCCTTCAGGACAT
1 AGTGGTCCTTCGGGACAT
* * * *
95478 AGTAGTTCTTCAGAACAAT
1 AGTGGTCCTTCGGGAC-AT
95497 CAGTGGTCCTTCGGGACAT
1 -AGTGGTCCTTCGGGACAT
*
95516 AGTGGTCCTTTGGGACA
1 AGTGGTCCTTCGGGACA
95533 AATATTCAGT
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
18 30 0.49
19 4 0.07
20 27 0.44
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:99400 original size:20 final size:23
Alignment explanation
Indices: 99350--99403 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
99340 ATGCACAGGT
99350 AGTGCATCGATACACATGTTAGG
1 AGTGCATCGATACACATGTTAGG
*
99373 AATGCATCGATACAC-TG-TA-G
1 AGTGCATCGATACACATGTTAGG
99393 AGTGCATCGAT
1 AGTGCATCGAT
99404 GCATACCTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 11 0.38
21 2 0.07
22 2 0.07
23 14 0.48
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (23 bp):
AGTGCATCGATACACATGTTAGG
Found at i:100283 original size:19 final size:19
Alignment explanation
Indices: 100239--100283 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
100229 TATAAGAATT
100239 ATATAGGAAATCATATGTG
1 ATATAGGAAATCATATGTG
100258 A-ATTAGGAAATCATATGTG
1 ATA-TAGGAAATCATATGTG
100277 ATATAGG
1 ATATAGG
100284 TTTAGATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 1 0.04
19 22 0.92
20 1 0.04
ACGTcount: A:0.42, C:0.04, G:0.22, T:0.31
Consensus pattern (19 bp):
ATATAGGAAATCATATGTG
Found at i:100743 original size:18 final size:18
Alignment explanation
Indices: 100717--100787 Score: 90
Period size: 18 Copynumber: 3.8 Consensus size: 18
100707 GGGATTATCA
*
100717 TGGTCCTTCGGGACATAG
1 TGGTCATTCGGGACATAG
*
100735 TGGTTC-TTCGGAACAATCAG
1 TGG-TCATTCGGGAC-AT-AG
100755 TGGTCATTCGGGACATAG
1 TGGTCATTCGGGACATAG
100773 TGGTCATTCGGGACA
1 TGGTCATTCGGGACA
100788 AATTCAGTTC
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
18 27 0.57
19 8 0.17
20 12 0.26
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.28
Consensus pattern (18 bp):
TGGTCATTCGGGACATAG
Found at i:101150 original size:4 final size:4
Alignment explanation
Indices: 101141--102089 Score: 1419
Period size: 4 Copynumber: 242.5 Consensus size: 4
101131 AGATAATAAC
101141 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT-T ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
101188 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
101236 ATGT ATGT ATGT ATGT ATGT ATGT AGGT ATGT A--T ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
101282 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG- -TGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
101328 ATGT ATGT ATGT ATGT ATGT ATGT ATGT CTGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
101376 A--T ATGTT GTGT ATGT ATGT A-GT ATGT ATGT AAGT ATGT ATGT ATGT
1 ATGT ATG-T ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
101422 ATGT ATGT ATGT ATGT ATGT ATGT AGTTT ATGT ATGT ATGT A-GT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT A-TGT ATGT ATGT ATGT ATGT ATGT
*
101470 ATGT ATGT ATGT ATGT AGTCT AT-T ATGT ATGT ATGT ATGT AT-T ATGT
1 ATGT ATGT ATGT ATGT A-TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
101517 ATGT ATGT ATGT ATGT ATGGT ATGT ATTGT ATGT ATGT ATGT ATGT ATGGT
1 ATGT ATGT ATGT ATGT AT-GT ATGT A-TGT ATGT ATGT ATGT ATGT AT-GT
101568 ATGT ATGT ATGT ATGT ATGT A-GT ATGT ATGT ATGT ATGT ATGT AT-T
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
101614 ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-GT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
101661 -TGGT ATGT ATGT A-GT ATGT ATGT ATGT A-GT ATGT A-GT ATGT ATGT
1 AT-GT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
101706 ATGT A-GT ATGT ATGT ATGT AT-T ATG- -TGT ATGT AT-T -TGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * *
101748 GTAT GTGT ATGT ATGT ATGT ATGT ATGT ATGGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT-GT ATGT ATGT ATGT ATGT
101797 ATGT ATGT ATGT ATGT A-GT ATGT ATGT ATGT ATGT ATGGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT-GT ATGT ATGT
101845 -TGT ATGT ATGT ATG- ATGT ATGT ATGT ATGT ATG- -TGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
101889 ATGT A-GT ATGT ATTAT ATGT ATGT ATGT ATGT ATGGT ATTT ATGT ATGT
1 ATGT ATGT ATGT A-TGT ATGT ATGT ATGT ATGT AT-GT ATGT ATGT ATGT
101938 ATGT ATGT ATGT ATGT ATGT ATGT A--T ATGT ATGT ATGT ATTGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-TGT ATGT
*
101985 ATGCT ATGT ATGT ATGT ATGT ATGT A-GA ATGT ATGT ATGT ATGT A-GT
1 ATG-T ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
102032 ATGT ATGT ATGTT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-GT ATGT
1 ATGT ATGT ATG-T ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
102080 ATGT ATGT AT
1 ATGT ATGT AT
Statistics
Matches: 875, Mismatches: 21, Indels: 98
0.88 0.02 0.10
Matches are distributed among these distances:
2 13 0.01
3 62 0.07
4 751 0.86
5 49 0.06
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.49
Consensus pattern (4 bp):
ATGT
Done.