Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004712.1 Hibiscus syriacus cultivar Beakdansim tig00010621_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: 71101
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:9478 original size:6 final size:6
Alignment explanation
Indices: 9467--9494 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
9457 TAAAATATTT
9467 TAAATC TAAATC TAAATC TAAATC TAAA
1 TAAATC TAAATC TAAATC TAAATC TAAA
9495 ATATTAGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (6 bp):
TAAATC
Found at i:20139 original size:14 final size:16
Alignment explanation
Indices: 20111--20143 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
20101 TACATGTATG
20111 TTATTTCAATCTTGTT
1 TTATTTCAATCTTGTT
20127 TTATTTC-AT-TTGTT
1 TTATTTCAATCTTGTT
20141 TTA
1 TTA
20144 ATAAACTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 2 0.12
16 7 0.41
ACGTcount: A:0.18, C:0.09, G:0.06, T:0.67
Consensus pattern (16 bp):
TTATTTCAATCTTGTT
Found at i:28529 original size:3 final size:3
Alignment explanation
Indices: 28513--28551 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
28503 TTGACTTGTA
*
28513 AAT AA- AAT -AT AAT AAT AAT AAT ATT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
28552 CGGTCTCTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 4 0.12
3 28 0.88
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:31441 original size:3 final size:3
Alignment explanation
Indices: 31426--31468 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
31416 AAAGAAAAAA
*
31426 AAT ATT AAT -AT AAT AAT AAT AAT AAT AAT AAT AA- AAT AGAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AA
31469 CAAAGAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 4 0.11
3 28 0.80
4 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:31481 original size:22 final size:23
Alignment explanation
Indices: 31452--31500 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
31442 TAATAATAAT
* *
31452 AATAATAAAATAGATAACAAAGAAA
1 AATAA-AAGATAG-TAAAAAAGAAA
31477 AATAAAAGATAGTAAAAAAGAAA
1 AATAAAAGATAGTAAAAAAGAAA
31500 A
1 A
31501 TAATAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 11 0.50
24 6 0.27
25 5 0.23
ACGTcount: A:0.73, C:0.02, G:0.10, T:0.14
Consensus pattern (23 bp):
AATAAAAGATAGTAAAAAAGAAA
Found at i:31501 original size:22 final size:25
Alignment explanation
Indices: 31452--31531 Score: 76
Period size: 24 Copynumber: 3.2 Consensus size: 25
31442 TAATAATAAT
*
31452 AATAATAAAATAGATAACAAAGAAA
1 AATAATAAAATAGATAAAAAAGAAA
*
31477 AATAA-AAGATAG-TAAAAAAGAAAA
1 AATAATAAAATAGATAAAAAAG-AAA
* *
31501 TAATAAAAAAAATAGATAAAAAA-ATA
1 -AAT-AATAAAATAGATAAAAAAGAAA
31527 AATAA
1 AATAA
31532 AGAAAATGAC
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
23 7 0.15
24 11 0.24
25 11 0.24
26 4 0.09
27 6 0.13
28 7 0.15
ACGTcount: A:0.75, C:0.01, G:0.07, T:0.16
Consensus pattern (25 bp):
AATAATAAAATAGATAAAAAAGAAA
Found at i:31519 original size:13 final size:12
Alignment explanation
Indices: 31396--31538 Score: 66
Period size: 12 Copynumber: 12.0 Consensus size: 12
31386 TAGATTATAA
31396 AATAAAAACAAAT
1 AATAAAAA-AAAT
*
31409 -ATAAAAAAAAG
1 AATAAAAAAAAT
*
31420 AA-AAAAAATATT
1 AATAAAAAA-AAT
* *
31432 AAT-ATAATAAT
1 AATAAAAAAAAT
* *
31443 AATAATAATAAT
1 AATAAAAAAAAT
* *
31455 AATAAAATAGAT
1 AATAAAAAAAAT
*
31467 AACAAAGAAAAAT
1 AATAAA-AAAAAT
* * *
31480 -A-AAAGATAGT
1 AATAAAAAAAAT
31490 AA-AAAAGAAAAT
1 AATAAAA-AAAAT
31502 AATAAAAAAAAT
1 AATAAAAAAAAT
31514 AGAT-AAAAAAAT
1 A-ATAAAAAAAAT
*
31526 AAATAAAGAAAAT
1 -AATAAAAAAAAT
31539 GACCAAAATG
Statistics
Matches: 99, Mismatches: 20, Indels: 22
0.70 0.14 0.16
Matches are distributed among these distances:
10 3 0.03
11 21 0.21
12 57 0.58
13 18 0.18
ACGTcount: A:0.74, C:0.01, G:0.06, T:0.19
Consensus pattern (12 bp):
AATAAAAAAAAT
Found at i:31529 original size:16 final size:16
Alignment explanation
Indices: 31420--31530 Score: 61
Period size: 17 Copynumber: 6.6 Consensus size: 16
31410 TAAAAAAAAG
*
31420 AAAAAAAATA-TTAAT
1 AAAAAAAATAGATAAT
*
31435 ATAATAATAATA-ATAAT
1 A-AA-AAAAATAGATAAT
*
31452 AATAATAAAATAGATAAC
1 AA-AA-AAAATAGATAAT
*
31470 AAAGAAAAATAAAAGATAGT
1 AAA-AAAAAT---AGATAAT
31490 AAAAAAGAA-A-ATAAT
1 AAAAAA-AATAGATAAT
31505 AAAAAAAATAGATAA-
1 AAAAAAAATAGATAAT
31520 AAAAATAAATA
1 AAAAA-AAATA
31531 AAGAAAATGA
Statistics
Matches: 76, Mismatches: 7, Indels: 25
0.70 0.06 0.23
Matches are distributed among these distances:
14 2 0.03
15 17 0.22
16 14 0.18
17 23 0.30
18 7 0.09
19 3 0.04
20 10 0.13
ACGTcount: A:0.73, C:0.01, G:0.05, T:0.21
Consensus pattern (16 bp):
AAAAAAAATAGATAAT
Found at i:31530 original size:25 final size:26
Alignment explanation
Indices: 31449--31538 Score: 73
Period size: 25 Copynumber: 3.5 Consensus size: 26
31439 TAATAATAAT
*
31449 AATAATAATAAAATAGATAACAAAGAA-A
1 AATAA-AAGAAAATAGATAA-AAA-AATA
* * *
31477 AATAAAAGATAGTA-AAAAAGAAAAT-
1 AATAAAAGAAAATAGATAAA-AAAATA
31502 AATAAAA-AAAATAGATAAAAAAATA
1 AATAAAAGAAAATAGATAAAAAAATA
31527 AAT-AAAGAAAAT
1 AATAAAAGAAAAT
31539 GACCAAAATG
Statistics
Matches: 50, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
24 12 0.24
25 22 0.44
26 5 0.10
27 6 0.12
28 5 0.10
ACGTcount: A:0.74, C:0.01, G:0.08, T:0.17
Consensus pattern (26 bp):
AATAAAAGAAAATAGATAAAAAAATA
Found at i:31537 original size:28 final size:27
Alignment explanation
Indices: 31446--31531 Score: 74
Period size: 28 Copynumber: 3.2 Consensus size: 27
31436 TAATAATAAT
*
31446 AATAATAATAATAAAATAGATAACAAAG-A
1 AATAATAA-AA-AAAATAG-TAAAAAAGAA
*
31475 AA-AAT--AAAAGATAGTAAAAAAGAA
1 AATAATAAAAAAAATAGTAAAAAAGAA
31499 AATAATAAAAAAAATAGATAAAAAA-ATA
1 AATAATAAAAAAAATAG-TAAAAAAGA-A
31527 AATAA
1 AATAA
31532 AGAAAATGAC
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
23 7 0.15
24 9 0.19
25 5 0.10
27 9 0.19
28 16 0.33
29 2 0.04
ACGTcount: A:0.74, C:0.01, G:0.07, T:0.17
Consensus pattern (27 bp):
AATAATAAAAAAAATAGTAAAAAAGAA
Found at i:31546 original size:25 final size:24
Alignment explanation
Indices: 31497--31546 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
31487 AGTAAAAAAG
*
31497 AAAATAATAAAAAAAATAGATAAA
1 AAAATAATAAAAAAAATAGACAAA
* *
31521 AAAATAAATAAAGAAAAT-GACCAA
1 AAAAT-AATAAAAAAAATAGACAAA
31545 AA
1 AA
31547 TGAATGATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.76, C:0.04, G:0.06, T:0.14
Consensus pattern (24 bp):
AAAATAATAAAAAAAATAGACAAA
Found at i:33391 original size:83 final size:83
Alignment explanation
Indices: 33247--33517 Score: 389
Period size: 83 Copynumber: 3.2 Consensus size: 83
33237 CTGAATGAAA
* * *
33247 TCGAACTCGTCAGGTCTTTAGTTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATG
1 TCGAACTCG-AAGGTCTTT-GTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATG
33312 TGCCTTGGAGCTGAGCGTAG
64 TGCCTTGGAGCTGAGCGTAG
* * * * * *
33332 TCGAACTCGAAGGTCTTTGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
1 TCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTG
* *
33397 CCTTTGAGCTGAGCGTGG
66 CCTTGGAGCTGAGCGTAG
* * * *
33415 TCGAACTCGAAGGTTTTTGTTGGCAGATATCCCTTCTAGCCTTGAGTTATGCTATGAATGATGTG
1 TCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTG
33480 CCTTGGAGCTGAGCGTAG
66 CCTTGGAGCTGAGCGTAG
33498 TCGAACTCGAAGGTCTTTGT
1 TCGAACTCGAAGGTCTTTGT
33518 GTTTCAAGAG
Statistics
Matches: 163, Mismatches: 23, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
83 146 0.90
84 8 0.05
85 9 0.06
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (83 bp):
TCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTG
CCTTGGAGCTGAGCGTAG
Found at i:33576 original size:28 final size:27
Alignment explanation
Indices: 33519--33575 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
33509 GGTCTTTGTG
*
33519 TTTCAAGAGAAATATTTTCAAAGGTTT
1 TTTCAAGAGAAAGATTTTCAAAGGTTT
33546 TTTCAAGAGAAACGA-TTTCAAAGGTTT
1 TTTCAAGAGAAA-GATTTTCAAAGGTTT
33573 TTT
1 TTT
33576 TGTGTTTCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
27 27 0.96
28 1 0.04
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (27 bp):
TTTCAAGAGAAAGATTTTCAAAGGTTT
Found at i:33614 original size:33 final size:34
Alignment explanation
Indices: 33546--33625 Score: 135
Period size: 34 Copynumber: 2.4 Consensus size: 34
33536 TCAAAGGTTT
* *
33546 TTTCAAGAGAAACGATTTCAAAGGTTTTTTTGTG
1 TTTCAAGAGAAACGACTTCAAAGGTATTTTTGTG
33580 TTTCAAGAGAAACGACTTCAAAGG-ATTTTTGTG
1 TTTCAAGAGAAACGACTTCAAAGGTATTTTTGTG
33613 TTTCAAGAGAAAC
1 TTTCAAGAGAAAC
33626 TGTCTCCAGA
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
33 21 0.48
34 23 0.52
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.35
Consensus pattern (34 bp):
TTTCAAGAGAAACGACTTCAAAGGTATTTTTGTG
Found at i:33729 original size:37 final size:36
Alignment explanation
Indices: 33679--33783 Score: 147
Period size: 37 Copynumber: 2.9 Consensus size: 36
33669 AAAGATTGGT
33679 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTC
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTC
* *
33716 GTTTCAAGTGAAACTGTCTCAAGAGAGACAAAATTT
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTC
* * *
33752 GGTTCAAAAAGAAACTGTCTCAAGGGAGACAA
1 GTTTC-AAGAGAAACTGTCTCAAGAGAGACAA
33784 TGGTGAGCAC
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
36 6 0.10
37 55 0.90
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (36 bp):
GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTC
Found at i:33956 original size:106 final size:105
Alignment explanation
Indices: 33808--34970 Score: 1864
Period size: 103 Copynumber: 11.1 Consensus size: 105
33798 CCCTTCGTCA
* * *
33808 TGAAGTTGAAATTGACTCT-AGAATTGGAAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGT
1 TGAAGTTGAAATTGGCTCTGA-AATTGG-GAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGT
*
33872 GAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTG
64 GAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTG
*
33914 TGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTG
1 TGAAGTTGAAATTGGCTCTGAAATTGGGAA-TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTG
* * ** *
33979 AAGTTAAACATGCGTTGTCAAGAGTCCAATATCCTTCGTTG
65 AAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTG
34020 TGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAACCAGCGGTCCCTTCGTCGTG
1 TGAAGTTGAAATTGGCTCTGAAATTGGGAA-TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTG
*
34084 AAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTC
65 AAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTG
*
34125 TGAAGTTGAAATTGGCTCTGAAATTGGAAAGTTG-TTGTTGACAACCAGCGGTCCCTTCGTCGTG
1 TGAAGTTGAAATTGGCTCTGAAATTGGGAA-TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTG
*
34189 AAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTG
65 AAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTG
* * * *
34230 TGAAGTTAAAATTGGCTCTGAATTTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTG
1 TGAAGTTGAAATTGGCTCTGAAATTGGGAA-TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTG
* * *
34295 AAGTTGAACATACATTGTCTGGAGTCCAATATCCTTCGCTG
65 AAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTG
34336 TGAAGTTGAAATTGGCTCTGAAATTGGGAA--GTTTGTTGACAACCAGCGGTCCCTTCGTCGTGA
1 TGAAGTTGAAATTGGCTCTGAAATTGGGAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGA
*
34399 AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTG
66 AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTG
* * *
34439 TGAAGTTGAAATTGGCTCTGAATTTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTG
1 TGAAGTTGAAATTGGCTCTGAAATTGGGAA-TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTG
* *
34504 AAGTTGAACATACGTTGTCTGGAGTCCAATATCCTTCGCTG
65 AAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTG
34545 TGAAGTTGAAATTGGCTCTGAAATTGGGAA--GTTTGTTGACAACCAGCGGTCCCTTCGTCGTGA
1 TGAAGTTGAAATTGGCTCTGAAATTGGGAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGA
*
34608 AGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGCTG
66 AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTG
34648 TGAAGTTGAAATTGGCTCTGAAATTGGGAA--GTTTGTTGACAACCAGCGGTCCCTTCGTCGTGA
1 TGAAGTTGAAATTGGCTCTGAAATTGGGAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGA
*
34711 AGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGCTG
66 AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTG
34751 TGAAGTTGAAATTGGCTCTGAAATTGGGAA--GTTTGTTGACAACCAGCGGTCCCTTCGTCGTGA
1 TGAAGTTGAAATTGGCTCTGAAATTGGGAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGA
*
34814 AGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGCTG
66 AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTG
* *
34854 TGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGA
1 TGAAGTTGAAATTGGCTCTGAAATTGGGAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGA
* * *
34919 AGTTGAACTTGCGTTGTCTAGAGT-CAAGATCCTTCGTTG
66 AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTG
*
34958 AGAAGTTGAAATT
1 TGAAGTTGAAATT
34971 TACTCTCGAG
Statistics
Matches: 998, Mismatches: 51, Indels: 18
0.94 0.05 0.02
Matches are distributed among these distances:
103 403 0.40
104 25 0.03
105 253 0.25
106 316 0.32
107 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (105 bp):
TGAAGTTGAAATTGGCTCTGAAATTGGGAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGA
AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTG
Found at i:34457 original size:209 final size:209
Alignment explanation
Indices: 33799--34970 Score: 1910
Period size: 209 Copynumber: 5.6 Consensus size: 209
33789 AGCACGATTC
** * *
33799 CCTTCGTCATGAAGTTGAAATTGACTCT-AGAATTG-GAAAATTGTTTATTGACAACCAGCGGTC
1 CCTTCGTTGTGAAGTTGAAATTGGCTCTGA-AATTGAG-AAGTTGTTTATTGACAACCAGCGGTC
* *
33862 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
64 CCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
* * *
33927 GGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTAAACATGC
129 GGCTCTGAAATTGGGAA---GTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
**
33992 GTTGTCAAGAGTCCAATAT
191 GTTGTCTGGAGTCCAATAT
* *
34011 CCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAACCAGCGGTCCC
1 CCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCC
* *
34075 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTCTGAAGTTGAAATTGG
66 TTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGG
*
34140 CTCTGAAATTGGAAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTT
131 CTCTGAAATTGGGAAG-T-TTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTT
34205 GTCTGGAGTCCAATAT
194 GTCTGGAGTCCAATAT
* *
34221 CCTTCGTTGTGAAGTTAAAATTGGCTCTGAATTTGAGAAGTTGTTTATTGACAACCAGCGGTCCC
1 CCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCC
* *
34286 TTCGTCGTGAAGTTGAACATACATTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGG
66 TTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGG
34351 CTCTGAAATTGGGAAGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
131 CTCTGAAATTGGGAAGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
34416 CTGGAGTCCAATAT
196 CTGGAGTCCAATAT
*
34430 CCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAGTTGTTTATTGACAACCAGCGGTCCC
1 CCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCC
*
34495 TTCGTCGTGAAGTTGAACATACGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGG
66 TTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGG
*
34560 CTCTGAAATTGGGAAGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGT
131 CTCTGAAATTGGGAAGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
34625 CTGGAGTCCAATAT
196 CTGGAGTCCAATAT
* * *
34639 CCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA---GTTTGTTGACAACCAGCGGTCCC
1 CCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCC
34701 TTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGG
66 TTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGG
*
34766 CTCTGAAATTGGGAAGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGT
131 CTCTGAAATTGGGAAGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
34831 CTGGAGTCCAATAT
196 CTGGAGTCCAATAT
* * *
34845 CCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA-ATGTTTATTGACAACCAGCGGTCCC
1 CCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCC
* * * * *
34909 TTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGT-CAAGATCCTTCGTTGAGAAGTTGAAATT
66 TTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
34971 TACTCTCGAG
Statistics
Matches: 917, Mismatches: 36, Indels: 19
0.94 0.04 0.02
Matches are distributed among these distances:
206 204 0.22
207 25 0.03
208 55 0.06
209 305 0.33
210 99 0.11
211 192 0.21
212 35 0.04
213 2 0.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (209 bp):
CCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCC
TTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGG
CTCTGAAATTGGGAAGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
CTGGAGTCCAATAT
Found at i:38618 original size:3 final size:3
Alignment explanation
Indices: 38603--38649 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
38593 AAAGAAAAAA
* *
38603 AAT ATT AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT AAA AAT AGAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
38648 AA
1 AA
38650 CAAAGAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
3 33 0.87
4 3 0.08
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:38682 original size:22 final size:23
Alignment explanation
Indices: 38635--38713 Score: 72
Period size: 23 Copynumber: 3.3 Consensus size: 23
38625 TAATAATAAT
*
38635 AATAAAAATAGATAACAAAGAAA
1 AATAAAAATAGATAAAAAAGAAA
38658 AATAAAAGATAG-TAAAAAAGAAAA
1 AATAAAA-ATAGATAAAAAAG-AAA
*
38682 TAATAAAAAAAATAGATAAAAAA-ATA
1 -AAT---AAAAATAGATAAAAAAGAAA
38708 AATAAA
1 AATAAA
38714 GAAAATGACC
Statistics
Matches: 47, Mismatches: 2, Indels: 15
0.73 0.03 0.23
Matches are distributed among these distances:
22 3 0.06
23 14 0.30
24 7 0.15
25 6 0.13
26 2 0.04
27 4 0.09
28 11 0.23
ACGTcount: A:0.76, C:0.01, G:0.08, T:0.15
Consensus pattern (23 bp):
AATAAAAATAGATAAAAAAGAAA
Found at i:38700 original size:13 final size:12
Alignment explanation
Indices: 38573--38719 Score: 81
Period size: 12 Copynumber: 12.0 Consensus size: 12
38563 TAGATTATAA
38573 AATAAAAACAAAT
1 AATAAAAA-AAAT
*
38586 -ATAAAAAAAAG
1 AATAAAAAAAAT
*
38597 AA-AAAAAATATT
1 AATAAAAAA-AAT
* *
38609 AAT-ATAATAAT
1 AATAAAAAAAAT
* *
38620 AATAATAATAAT
1 AATAAAAAAAAT
*
38632 AATAATAAAAAT
1 AATAAAAAAAAT
38644 AGATAACAAAGAAA-
1 A-ATAA-AAA-AAAT
* *
38658 AATAAAAGATAGT
1 AATAAAA-AAAAT
38671 AA-AAAAGAAAAT
1 AATAAAA-AAAAT
38683 AATAAAAAAAAT
1 AATAAAAAAAAT
38695 AGAT-AAAAAAAT
1 A-ATAAAAAAAAT
*
38707 AAATAAAGAAAAT
1 -AATAAAAAAAAT
38720 GACCAAAATG
Statistics
Matches: 108, Mismatches: 13, Indels: 26
0.73 0.09 0.18
Matches are distributed among these distances:
11 14 0.13
12 63 0.58
13 25 0.23
14 3 0.03
15 3 0.03
ACGTcount: A:0.74, C:0.01, G:0.05, T:0.19
Consensus pattern (12 bp):
AATAAAAAAAAT
Found at i:38710 original size:16 final size:16
Alignment explanation
Indices: 38615--38711 Score: 67
Period size: 15 Copynumber: 5.9 Consensus size: 16
38605 TATTAATATA
* *
38615 ATAATAATAATAATA-
1 ATAATAAAAAAAATAG
*
38630 ATAATAATAAAAATAG
1 ATAATAAAAAAAATAG
*
38646 ATAACAAAGAAAAATAAAAG
1 ATAATAAA-AAAAAT---AG
*
38666 ATAGTAAAAAAGAA-A-
1 ATAATAAAAAA-AATAG
38681 ATAATAAAAAAAATAG
1 ATAATAAAAAAAATAG
38697 ATAA-AAAAATAAATA
1 ATAATAAAAA-AAATA
38712 AAGAAAATGA
Statistics
Matches: 67, Mismatches: 6, Indels: 17
0.74 0.07 0.19
Matches are distributed among these distances:
14 2 0.03
15 30 0.45
16 16 0.24
17 6 0.09
19 3 0.04
20 10 0.15
ACGTcount: A:0.73, C:0.01, G:0.06, T:0.20
Consensus pattern (16 bp):
ATAATAAAAAAAATAG
Found at i:38718 original size:28 final size:27
Alignment explanation
Indices: 38629--38712 Score: 79
Period size: 28 Copynumber: 3.2 Consensus size: 27
38619 TAATAATAAT
* *
38629 AATAATAATAAAAATAGATAACAAAG-A
1 AATAATAAAAAAAATAG-TAAAAAAGAA
*
38656 AA-AAT--AAAAGATAGTAAAAAAGAA
1 AATAATAAAAAAAATAGTAAAAAAGAA
38680 AATAATAAAAAAAATAGATAAAAAA-ATA
1 AATAATAAAAAAAATAG-TAAAAAAGA-A
38708 AATAA
1 AATAA
38713 AGAAAATGAC
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
23 7 0.15
24 10 0.21
25 3 0.06
26 3 0.06
27 11 0.23
28 13 0.28
ACGTcount: A:0.75, C:0.01, G:0.07, T:0.17
Consensus pattern (27 bp):
AATAATAAAAAAAATAGTAAAAAAGAA
Found at i:38727 original size:25 final size:24
Alignment explanation
Indices: 38629--38727 Score: 58
Period size: 25 Copynumber: 4.0 Consensus size: 24
38619 TAATAATAAT
* *
38629 AATAATAATAAAAATAGATAACAAA
1 AATAATAAAAAAAATAGACAA-AAA
* * * *
38654 GAAAAATAAAAGATAGTA-AAAAAGAA
1 -AATAATAAAA-AAAATAGACAAA-AA
*
38680 AATAATAAAAAAAATAGATAAAAA
1 AATAATAAAAAAAATAGACAAAAA
* *
38704 AATAAATAAAGAAAAT-GACCAAAA
1 AAT-AATAAAAAAAATAGACAAAAA
38728 TGAATGATAT
Statistics
Matches: 57, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
24 15 0.26
25 25 0.44
26 13 0.23
27 4 0.07
ACGTcount: A:0.74, C:0.03, G:0.08, T:0.15
Consensus pattern (24 bp):
AATAATAAAAAAAATAGACAAAAA
Found at i:43975 original size:42 final size:42
Alignment explanation
Indices: 43916--44000 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
43906 AATAAAAGAG
43916 ATAATAAGTGACAAACTTAAGAAAGTTATCAAACACAATTAT
1 ATAATAAGTGACAAACTTAAGAAAGTTATCAAACACAATTAT
* *
43958 ATAATAAGTGACAAACTTAAGAAAGTTATCGAACGCAATTAT
1 ATAATAAGTGACAAACTTAAGAAAGTTATCAAACACAATTAT
44000 A
1 A
44001 AAATTTTATC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.51, C:0.12, G:0.12, T:0.26
Consensus pattern (42 bp):
ATAATAAGTGACAAACTTAAGAAAGTTATCAAACACAATTAT
Found at i:45602 original size:23 final size:23
Alignment explanation
Indices: 45538--45605 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
45528 CAGCTCGTAT
* *
45538 AAATGCACCAAAGTGCCACATAG
1 AAATGCACCGAAGTGCCATATAG
* * *
45561 AATTGCACCGTAGTGCCATGTAG
1 AAATGCACCGAAGTGCCATATAG
45584 AAATGCACCGAAGTGCCATATA
1 AAATGCACCGAAGTGCCATATA
45606 AGGTTGTCCC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.19
Consensus pattern (23 bp):
AAATGCACCGAAGTGCCATATAG
Found at i:46557 original size:23 final size:23
Alignment explanation
Indices: 46531--46607 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
46521 CACCACAGCT
46531 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
* *
46554 CATATAATTACACCGAAGTG-CG
1 CATATAATTGCACCGAAGTGCCA
* * *
46576 CGTAGAATTGCACCGTAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
46599 TATAATAAT
1 CAT-ATAAT
46608 GTCCATAAGG
Statistics
Matches: 42, Mismatches: 10, Indels: 3
0.76 0.18 0.05
Matches are distributed among these distances:
22 17 0.40
23 21 0.50
24 4 0.10
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:47601 original size:21 final size:21
Alignment explanation
Indices: 47569--47611 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
47559 TGTTTGTTTA
47569 ATTGAGAGTGCATCGATGCAC
1 ATTGAGAGTGCATCGATGCAC
47590 ATTGA-AGATGCATCGATGCAC
1 ATTGAGAG-TGCATCGATGCAC
47611 A
1 A
47612 CAACCCAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.23
Consensus pattern (21 bp):
ATTGAGAGTGCATCGATGCAC
Found at i:48680 original size:2 final size:2
Alignment explanation
Indices: 48673--48730 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
48663 ATGTCTTATC
48673 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
48715 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
48731 TCACATGTTC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:49423 original size:64 final size:63
Alignment explanation
Indices: 49336--49476 Score: 160
Period size: 64 Copynumber: 2.2 Consensus size: 63
49326 TCTTTAACAT
* * * *
49336 GTGCATCGATGCACTACCCATGCATCGATACACAAATTACCTTCGATGTTTTCAT-TTTAAAGG
1 GTGCATCGATGCACTACCCATGCATCGATACACAAAGTACATTCAATG-TTTCATCTTTAAAGA
* * * * *
49399 GATGCATCGATGCACT-CCTTATGCATCGATGCACCAAGTGCATTCAATGTTTCTTCTTTAAAGA
1 G-TGCATCGATGCACTACC-CATGCATCGATACACAAAGTACATTCAATGTTTCATCTTTAAAGA
49463 GTGCATCGATGCAC
1 GTGCATCGATGCAC
49477 ATTGAATGTG
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
63 21 0.32
64 45 0.68
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (63 bp):
GTGCATCGATGCACTACCCATGCATCGATACACAAAGTACATTCAATGTTTCATCTTTAAAGA
Found at i:51469 original size:30 final size:30
Alignment explanation
Indices: 51290--51452 Score: 281
Period size: 30 Copynumber: 5.4 Consensus size: 30
51280 TCCGAAGGAC
*
51290 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCATAGGTCATAAAGATCCTCGGTAA
* *
51320 CTATCCAGAGGTCATAAAGATCCTCGATAA
1 CTATCCATAGGTCATAAAGATCCTCGGTAA
*
51350 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCATAGGTCATAAAGATCCTCGGTAA
*
51380 CTATCCATAGGTCATAAAGATCCTCGGTCA
1 CTATCCATAGGTCATAAAGATCCTCGGTAA
51410 CTATCCATAGGTCATAAAGATCCTCGGTAA
1 CTATCCATAGGTCATAAAGATCCTCGGTAA
51440 CTATCCATAGGTC
1 CTATCCATAGGTC
51453 CCGAAGAACC
Statistics
Matches: 128, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 128 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (30 bp):
CTATCCATAGGTCATAAAGATCCTCGGTAA
Found at i:51469 original size:90 final size:91
Alignment explanation
Indices: 51290--51479 Score: 274
Period size: 90 Copynumber: 2.1 Consensus size: 91
51280 TCCGAAGGAC
*
51290 CTATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGATAACTATC
1 CTATCCATAGGTCATAAAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGATAACTATC
* * *
51355 CAGAGGTCATAAAGATCCTCGGT-AA
66 CAGAGGTCACAAAGAACCTAGGTAAA
* * *
51380 CTATCCATAGGTCATAAAGATCCTCGGTCACTATCCATAGGTCATAAAGATCCTCGGTAACTATC
1 CTATCCATAGGTCATAAAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGATAACTATC
* * *
51445 CATAGGTCCCGAAGAACCTAGGTAAA
66 CAGAGGTCACAAAGAACCTAGGTAAA
*
51471 CTATTCATA
1 CTATCCATA
51480 TGTTCCTTAG
Statistics
Matches: 88, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
90 78 0.89
91 10 0.11
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (91 bp):
CTATCCATAGGTCATAAAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGATAACTATC
CAGAGGTCACAAAGAACCTAGGTAAA
Found at i:51714 original size:4 final size:4
Alignment explanation
Indices: 51705--52083 Score: 689
Period size: 4 Copynumber: 96.2 Consensus size: 4
51695 ATATAACCAT
51705 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
51753 TACA TACA TACA TACA TACA TATA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
51801 TACA T--A TACA TACA TACA TACA TACA T--A TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* *
51845 TGCA TACA T--A TACA TACA TACA TACA TATA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
51891 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
51939 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
51987 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
52035 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
52083 T
1 T
52084 GTCATCATTT
Statistics
Matches: 363, Mismatches: 6, Indels: 12
0.95 0.02 0.03
Matches are distributed among these distances:
2 6 0.02
4 357 0.98
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:54737 original size:2 final size:2
Alignment explanation
Indices: 54730--54768 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
54720 ACAACTAGCA
54730 AT AT AT 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 AT AT AT A
54769 ACACTAAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:55585 original size:17 final size:18
Alignment explanation
Indices: 55561--55643 Score: 89
Period size: 17 Copynumber: 4.7 Consensus size: 18
55551 GATTTGTAAT
*
55561 GTTTTTAGGGTTTTTAGG
1 GTTTGTAGGGTTTTTAGG
*
55579 GTTT-TAGGGTTTCTAGG
1 GTTTGTAGGGTTTTTAGG
* *
55596 ATTTGTAAGG-TTTTAGG
1 GTTTGTAGGGTTTTTAGG
** *
55613 GTTTGTAGAATTTTTAAG
1 GTTTGTAGGGTTTTTAGG
55631 GTTTGTAGGGTTT
1 GTTTGTAGGGTTT
55644 GTAATTAGAA
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
17 27 0.52
18 25 0.48
ACGTcount: A:0.17, C:0.01, G:0.31, T:0.51
Consensus pattern (18 bp):
GTTTGTAGGGTTTTTAGG
Found at i:55590 original size:26 final size:26
Alignment explanation
Indices: 55561--55643 Score: 103
Period size: 26 Copynumber: 3.2 Consensus size: 26
55551 GATTTGTAAT
* * *
55561 GTTTTTAGGGTTTTTAGGGTTTTAGG
1 GTTTCTAGGATTTTTAAGGTTTTAGG
*
55587 GTTTCTAGGATTTGTAAGGTTTTAGG
1 GTTTCTAGGATTTTTAAGGTTTTAGG
* *
55613 GTTTGTAGAATTTTTAAGGTTTGTAGG
1 GTTTCTAGGATTTTTAAGGTTT-TAGG
55640 GTTT
1 GTTT
55644 GTAATTAGAA
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 41 0.84
27 8 0.16
ACGTcount: A:0.17, C:0.01, G:0.31, T:0.51
Consensus pattern (26 bp):
GTTTCTAGGATTTTTAAGGTTTTAGG
Found at i:55598 original size:44 final size:45
Alignment explanation
Indices: 55534--55648 Score: 153
Period size: 44 Copynumber: 2.6 Consensus size: 45
55524 TAAACCCTAG
* *
55534 AGTTTTAAGGTTTCTAGGATTTGTAATGTTTTTAGGGTTTTTAG-
1 AGTTTTAAGGTTTCTAGGATTTGTAATGGTTTTAGGGTTTGTAGA
* *
55578 GGTTTTAGGGTTTCTAGGATTTGTAA-GGTTTTAGGGTTTGTAGA
1 AGTTTTAAGGTTTCTAGGATTTGTAATGGTTTTAGGGTTTGTAGA
* * *
55622 ATTTTTAAGGTTTGTAGGGTTTGTAAT
1 AGTTTTAAGGTTTCTAGGATTTGTAAT
55649 TAGAATGCAC
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
43 15 0.25
44 45 0.75
ACGTcount: A:0.20, C:0.02, G:0.29, T:0.50
Consensus pattern (45 bp):
AGTTTTAAGGTTTCTAGGATTTGTAATGGTTTTAGGGTTTGTAGA
Found at i:55644 original size:9 final size:9
Alignment explanation
Indices: 55542--55646 Score: 79
Period size: 9 Copynumber: 11.9 Consensus size: 9
55532 AGAGTTTTAA
*
55542 GGTTTCTAG
1 GGTTTGTAG
* *
55551 GATTTGTAA
1 GGTTTGTAG
* *
55560 TGTTTTTAG
1 GGTTTGTAG
*
55569 GGTTTTTAG
1 GGTTTGTAG
55578 GGTTT-TAG
1 GGTTTGTAG
*
55586 GGTTTCTAG
1 GGTTTGTAG
* *
55595 GATTTGTAA
1 GGTTTGTAG
55604 GGTTT-TAG
1 GGTTTGTAG
55612 GGTTTGTAG
1 GGTTTGTAG
** * *
55621 AATTTTTAA
1 GGTTTGTAG
55630 GGTTTGTAG
1 GGTTTGTAG
55639 GGTTTGTA
1 GGTTTGTA
55647 ATTAGAATGC
Statistics
Matches: 73, Mismatches: 21, Indels: 4
0.74 0.21 0.04
Matches are distributed among these distances:
8 15 0.21
9 58 0.79
ACGTcount: A:0.18, C:0.02, G:0.30, T:0.50
Consensus pattern (9 bp):
GGTTTGTAG
Found at i:57096 original size:19 final size:19
Alignment explanation
Indices: 57072--57120 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
57062 AATGTAGGGT
57072 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
57091 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
57110 TAATTTTGTAT
1 TAATTTTGTAT
57121 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:57902 original size:201 final size:200
Alignment explanation
Indices: 57233--57997 Score: 1280
Period size: 200 Copynumber: 3.8 Consensus size: 200
57223 AATTTACAAT
57233 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
* * *
57298 TGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTGCAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* * *
57363 ATGAGAGAATATGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTCTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
57428 AATGA
196 AATGA
*
57433 ATGGCAAACAGGCTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
* * *
57498 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
57563 ATGAGAGAATAGGTCTAAATAATATGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
57628 AATGA
196 AATGA
* *
57633 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAATTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
* *
57698 CGAAAGCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* * * *
57763 ATGAAAGAATAGGCCTAAATAATGTGTCGACACTTTTTTTAGTTTGTGTCGCTATTTTTGGTCCA
131 ATGAGAGAATAGGTCTAAATAATGTGTCGACAC-TTTTGTAGTTTGTGTCGATATTTTTGGTCCA
57828 GAATGA
195 GAATGA
* *
57834 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
*
57899 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* * *
57964 ATGAGAGAATTGGTATATAAT-ATGTATCGACACT
131 ATGAGAGAATAGGTCTA-AATAATGTGTCGACACT
57998 GTTTAATGTT
Statistics
Matches: 534, Mismatches: 29, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
200 347 0.65
201 184 0.34
202 3 0.01
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.30
Consensus pattern (200 bp):
ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
AATGA
Found at i:57996 original size:401 final size:399
Alignment explanation
Indices: 57233--57997 Score: 1280
Period size: 401 Copynumber: 1.9 Consensus size: 399
57223 AATTTACAAT
57233 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
* * *
57298 TGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTGCAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* * *
57363 ATGAGAGAATATGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTCTGGTCCAG
131 ATGAAAGAATAGGCCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTCTGGTCCAG
*
57428 AATGAATGGCAAACAGGCTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAA
196 AATGAATGGCAAACAGGCTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAA
* *
57493 AACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAATCGGTACAAGTATACCG
261 AACATCGAAAACCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCG
57558 GTTTTATGAGAGAATAGGTCTAAATAATATGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGG
326 GTTTTATGAGAGAATAGG-CTAAATAATATGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGG
57623 TCCAGAATGA
390 TCCAGAATGA
* *
57633 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAATTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
* *
57698 CGAAAGCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* * * *
57763 ATGAAAGAATAGGCCTAAATAATGTGTCGACACTTTTTTTAGTTTGTGTCGCTATTTTTGGTCCA
131 ATGAAAGAATAGGCCTAAATAATGTATCGACAC-TTTTGTAGTTTGTGTCGATATTTCTGGTCCA
* *
57828 GAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAT
195 GAATGAATGGCAAACAGGCTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAA
* *
57893 AAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACC
260 AAACATCGAAAACCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACC
* *
57958 GGTTTTATGAGAGAATTGG-TATATAATATGTATCGACACT
325 GGTTTTATGAGAGAATAGGCTAAATAATATG--TCGACACT
57998 GTTTAATGTT
Statistics
Matches: 339, Mismatches: 23, Indels: 5
0.92 0.06 0.01
Matches are distributed among these distances:
399 10 0.03
400 152 0.45
401 177 0.52
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.30
Consensus pattern (399 bp):
ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
ATGAAAGAATAGGCCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTCTGGTCCAG
AATGAATGGCAAACAGGCTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAA
AACATCGAAAACCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCG
GTTTTATGAGAGAATAGGCTAAATAATATGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGT
CCAGAATGA
Found at i:58377 original size:183 final size:183
Alignment explanation
Indices: 58064--58652 Score: 1124
Period size: 183 Copynumber: 3.2 Consensus size: 183
58054 TATATAGTAC
* *
58064 TCTATAACCTATATCGATACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAA
1 TCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAA
58129 TGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATA
66 TGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATA
58194 GATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGG
131 GATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGG
58247 TCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAA
1 TCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAA
58312 TGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATA
66 TGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATA
58377 GATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGG
131 GATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGG
*
58430 TCTACAACCTATATCGATACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAA
1 TCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAA
*
58495 TGTGTCGATACCTTGTCAAAAAATGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATA
66 TGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATA
* *
58560 GATAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGTGAATAGG
131 GATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGG
58613 TCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTA
1 TCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTA
58653 ATTTTAAGTA
Statistics
Matches: 399, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
183 399 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (183 bp):
TCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAA
TGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATA
GATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGG
Found at i:61523 original size:23 final size:23
Alignment explanation
Indices: 61492--61564 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
61482 ATAGGTAAAA
*
61492 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
61515 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
**
61538 ATATAATGTAATAGGTAATGCTT
1 ATATAATGTAATAGGTAGCGCTT
61561 ATAT
1 ATAT
61565 TGTAAAGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:61994 original size:20 final size:22
Alignment explanation
Indices: 61969--62043 Score: 73
Period size: 23 Copynumber: 3.4 Consensus size: 22
61959 ACTTTCAATA
61969 TAATAGGTAA-A-AATATAATG
1 TAATAGGTAACACAATATAATG
*
61989 TAATAGGTAACACTTATATAATG
1 TAATAGGTAACAC-AATATAATG
* ***
62012 TAATAGGTAGCGTTTATATAATG
1 TAATAGGTAAC-ACAATATAATG
62035 TAATAGGTA
1 TAATAGGTA
62044 GTGCTTATAT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
20 10 0.21
21 1 0.02
23 36 0.77
ACGTcount: A:0.44, C:0.04, G:0.17, T:0.35
Consensus pattern (22 bp):
TAATAGGTAACACAATATAATG
Found at i:62044 original size:23 final size:23
Alignment explanation
Indices: 61981--62053 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
61971 ATAGGTAAAA
* *
61981 ATATAATGTAATAGGTAACACTT
1 ATATAATGTAATAGGTAGCGCTT
*
62004 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
62027 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
62050 ATAT
1 ATAT
62054 TGTAAAGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:62127 original size:489 final size:489
Alignment explanation
Indices: 61153--62454 Score: 2320
Period size: 489 Copynumber: 2.7 Consensus size: 489
61143 AGGTATGTAC
61153 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGA-TT-TTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
*
61216 GTTACGATATATATTATGATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGATATATATTATCATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
61281 TTTGGTTAATATTGTTAAATTTAAA-T-TAAATATTA--TTATAAAATATCAAAACAATCAAA-A
131 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
* *
61341 TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAA
196 ATTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAA
*
61406 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGGACA
261 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATAGACA
* * *
61471 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGT
326 CTTTCAATATAATAGGTAAAAATATAATGTAATAGGTAACACTTATATAATGTAATAGGTAGCGT
61536 TTATATAATGTAATAGGTAATGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTATCCATA
391 TTATATAATGTAATAGGTAATGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTATCCATA
* *
61601 CTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
456 CTTATTTCACTGTGGAAAACATTAATTTAAAGTT
61635 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
*
61700 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGATATATATTATCATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
61765 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
61830 ATTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAA
196 ATTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAA
*
61895 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGACA
261 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATAGACA
61960 CTTTCAATATAATAGGTAAAAATATAATGTAATAGGTAACACTTATATAATGTAATAGGTAGCGT
326 CTTTCAATATAATAGGTAAAAATATAATGTAATAGGTAACACTTATATAATGTAATAGGTAGCGT
* *
62025 TTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATA
391 TTATATAATGTAATAGGTAATGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTATCCATA
62090 CTTATTTCACTGTGGAAAACATTAATTTAAAGTT
456 CTTATTTCACTGTGGAAAACATTAATTTAAAGTT
* * ** *
62124 ATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATATGTATCTAATGATTTATTTTTTAT
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
*
62189 GTTACGGTATATATTATCATTAAATTAAAAACAATAAACATATATATTACATA-TTATTATTATC
66 GTTACGATATATATTATCATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
62253 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTT-TAAAATATCAAAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
62317 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAAACATGAAACACTATT--A
196 A-TTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGG-AAAACATGAAACACTATTAAA
*
62380 AAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCTTTTTTATAAAACAGTATAG
259 AAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAA-AGTATAG
62445 ACACTTTCAA
323 ACACTTTCAA
62455 CATATTATAA
Statistics
Matches: 790, Mismatches: 20, Indels: 14
0.96 0.02 0.02
Matches are distributed among these distances:
482 53 0.07
483 2 0.00
484 97 0.12
485 1 0.00
486 9 0.01
487 81 0.10
488 134 0.17
489 413 0.52
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (489 bp):
ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
GTTACGATATATATTATCATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
ATTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAA
AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATAGACA
CTTTCAATATAATAGGTAAAAATATAATGTAATAGGTAACACTTATATAATGTAATAGGTAGCGT
TTATATAATGTAATAGGTAATGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTATCCATA
CTTATTTCACTGTGGAAAACATTAATTTAAAGTT
Found at i:66858 original size:17 final size:17
Alignment explanation
Indices: 66820--66858 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
66810 AATTTCAAGA
66820 TTCATATTTATATCTTT
1 TTCATATTTATATCTTT
*
66837 GTCATATTTATTAT-TTT
1 TTCATATTTA-TATCTTT
66854 TTCAT
1 TTCAT
66859 GCATAAACCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.23, C:0.10, G:0.03, T:0.64
Consensus pattern (17 bp):
TTCATATTTATATCTTT
Found at i:67325 original size:13 final size:13
Alignment explanation
Indices: 67307--67344 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
67297 GGTTCTGGGC
67307 TTAAGGTTTGAGT
1 TTAAGGTTTGAGT
67320 TTAAGGTTT-AGGT
1 TTAAGGTTTGA-GT
*
67333 TTAGGGTTTGAG
1 TTAAGGTTTGAG
67345 GTTTGTGGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 1 0.05
13 20 0.91
14 1 0.05
ACGTcount: A:0.21, C:0.00, G:0.34, T:0.45
Consensus pattern (13 bp):
TTAAGGTTTGAGT
Found at i:68656 original size:64 final size:65
Alignment explanation
Indices: 68542--68664 Score: 153
Period size: 64 Copynumber: 1.9 Consensus size: 65
68532 AATGCATTTT
* * * *
68542 ATGCATCGATGCACTCAGGGTTTTATGAAAATATCGAATGCATCTTATGCATCGATGCACAAACC
1 ATGCATCGATGCACTCAGGCTTTTATGAAAACATCGAATGCATCTCATGCATCAATGCACAAACC
**
68607 ATGCATCGATGCACTTTGGCTTGTT-TG-AAACATCGAATGCA-CTCCATGCATCAATGCA
1 ATGCATCGATGCACTCAGGCTT-TTATGAAAACATCGAATGCATCT-CATGCATCAATGCA
68665 TTCTTAGTGC
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
63 2 0.04
64 25 0.50
65 21 0.42
66 2 0.04
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (65 bp):
ATGCATCGATGCACTCAGGCTTTTATGAAAACATCGAATGCATCTCATGCATCAATGCACAAACC
Done.