Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 19 of 182
Found at i:7795848 original size:14 final size:15
Alignment explanation
Indices: 7795831--7795863 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
7795821 AAAATTGTAA
7795831 AAATA-AAAAATATT
1 AAATATAAAAATATT
*
7795845 AAATATAAAAATGTT
1 AAATATAAAAATATT
7795860 AAAT
1 AAAT
7795864 TTTTAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (15 bp):
AAATATAAAAATATT
Found at i:7797492 original size:34 final size:34
Alignment explanation
Indices: 7797431--7797495 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
7797421 CTCCTAACCT
* **
7797431 TAAATAATTAATTAAATCGTTTTATTTTTTAAAA
1 TAAAAAATTAATTAAATCGTTAAATTTTTTAAAA
7797465 TAAAAAATTAATTAAA-CTGTTAAATTTTTTA
1 TAAAAAATTAATTAAATC-GTTAAATTTTTTA
7797496 TAACATTGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 1 0.04
34 26 0.96
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (34 bp):
TAAAAAATTAATTAAATCGTTAAATTTTTTAAAA
Found at i:7797522 original size:12 final size:14
Alignment explanation
Indices: 7797495--7797527 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
7797485 TAAATTTTTT
7797495 ATAACATTGATGTG
1 ATAACATTGATGTG
7797509 ATAAC-TTG-TGTG
1 ATAACATTGATGTG
7797521 ATAACAT
1 ATAACAT
7797528 ACATATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 9 0.50
13 4 0.22
14 5 0.28
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.36
Consensus pattern (14 bp):
ATAACATTGATGTG
Found at i:7797657 original size:24 final size:24
Alignment explanation
Indices: 7797611--7797657 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
7797601 AAATATTCTT
* *
7797611 ATTAAAAAAATTAAACCTAAAATA
1 ATTAAAAAAATAAAAACTAAAATA
*
7797635 ATTAAAAAAATAAAAACTCAAAT
1 ATTAAAAAAATAAAAACTAAAAT
7797658 GACAAAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.68, C:0.09, G:0.00, T:0.23
Consensus pattern (24 bp):
ATTAAAAAAATAAAAACTAAAATA
Found at i:7808306 original size:5 final size:5
Alignment explanation
Indices: 7808296--7808335 Score: 80
Period size: 5 Copynumber: 8.0 Consensus size: 5
7808286 TTTTTTATTG
7808296 CTCTT CTCTT CTCTT CTCTT CTCTT CTCTT CTCTT CTCTT
1 CTCTT CTCTT CTCTT CTCTT CTCTT CTCTT CTCTT CTCTT
7808336 GTTTTTGATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (5 bp):
CTCTT
Found at i:7811924 original size:12 final size:11
Alignment explanation
Indices: 7811905--7811934 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
7811895 TGGGCAGAGA
7811905 TTTTTCTTTCT
1 TTTTTCTTTCT
7811916 TTCTTTCTTTCT
1 TT-TTTCTTTCT
7811928 TTTTTCT
1 TTTTTCT
7811935 ATATGATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTTCTTTCT
Found at i:7819368 original size:18 final size:18
Alignment explanation
Indices: 7819333--7819368 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
7819323 AATATTAGGC
*
7819333 AATTAAATTTAATTAAAA
1 AATTAAATTTAATGAAAA
*
7819351 AATTAAATTTGATGAAAA
1 AATTAAATTTAATGAAAA
7819369 TTTAATAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (18 bp):
AATTAAATTTAATGAAAA
Found at i:7828139 original size:24 final size:24
Alignment explanation
Indices: 7828108--7828157 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
7828098 GAGTGCGAAG
7828108 ATATAAAGTCTTTGGAGACATTGT
1 ATATAAAGTCTTTGGAGACATTGT
7828132 ATATAAAGTCTTTGGAGACATTGT
1 ATATAAAGTCTTTGGAGACATTGT
7828156 AT
1 AT
7828158 TGCTCAAGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.38
Consensus pattern (24 bp):
ATATAAAGTCTTTGGAGACATTGT
Found at i:7835546 original size:43 final size:42
Alignment explanation
Indices: 7835457--7835546 Score: 103
Period size: 45 Copynumber: 2.1 Consensus size: 42
7835447 ACTTTTTACA
* **
7835457 ATTTTTATTTAAAAATATTTGTATATTTACTAAATGTGGACTT
1 ATTTTTATTTAAAAATATTTGTATACTTACTAAATGCAGAC-T
7835500 ATTTTTATTTAAAAAATAATTT-TCATACTTACTAAATGCAGA-T
1 ATTTTTATTT-AAAAAT-ATTTGT-ATACTTACTAAATGCAGACT
7835543 ATTT
1 ATTT
7835547 AGTGGATTCG
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
43 15 0.37
44 7 0.17
45 19 0.46
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.49
Consensus pattern (42 bp):
ATTTTTATTTAAAAATATTTGTATACTTACTAAATGCAGACT
Found at i:7836471 original size:13 final size:13
Alignment explanation
Indices: 7836453--7836478 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7836443 GCAGGGCGAA
7836453 TGGTGGAGCACAG
1 TGGTGGAGCACAG
7836466 TGGTGGAGCACAG
1 TGGTGGAGCACAG
7836479 CGTGTCAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.46, T:0.15
Consensus pattern (13 bp):
TGGTGGAGCACAG
Found at i:7846865 original size:6 final size:6
Alignment explanation
Indices: 7846856--7846900 Score: 81
Period size: 6 Copynumber: 7.5 Consensus size: 6
7846846 TCTTCTCACT
*
7846856 TCCCTC TCCCTC TCCCTC TCCCTC TCCCTC TCCCTC TCCTTC TCC
1 TCCCTC TCCCTC TCCCTC TCCCTC TCCCTC TCCCTC TCCCTC TCC
7846901 ATTTCCATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (6 bp):
TCCCTC
Found at i:7864078 original size:75 final size:74
Alignment explanation
Indices: 7863983--7864133 Score: 207
Period size: 75 Copynumber: 2.0 Consensus size: 74
7863973 AAACAACAAC
* * * *
7863983 AAATATCGTTGCTAGGGAATTTATGT-CTTTTAAAAGTTTATATAAAATCTTTAAAATAAAT-TG
1 AAATATCGTTCCTAGAGAATTTAT-TAATTTTAAAAGTTTATATAAAATCATT-AAA-AAATCTG
*
7864046 CTTAAAAAATAT
63 CTTAAAAAACAT
*
7864058 AAATATCGTTCCTAGAGAATTTATTAATTTTAAAATTTTATATAAAATCATTAAAAAATCTGCTT
1 AAATATCGTTCCTAGAGAATTTATTAATTTTAAAAGTTTATATAAAATCATTAAAAAATCTGCTT
7864123 AAAAAACAT
66 AAAAAACAT
7864132 AA
1 AA
7864134 CATCGAAATT
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
73 4 0.06
74 19 0.28
75 45 0.66
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (74 bp):
AAATATCGTTCCTAGAGAATTTATTAATTTTAAAAGTTTATATAAAATCATTAAAAAATCTGCTT
AAAAAACAT
Found at i:7870196 original size:19 final size:19
Alignment explanation
Indices: 7870172--7870209 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
7870162 TTAATGACAA
7870172 CTATTTGGTTTATCAAAGG
1 CTATTTGGTTTATCAAAGG
7870191 CTATTTGGTTTATCAAAGG
1 CTATTTGGTTTATCAAAGG
7870210 TTGGTGAGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.42
Consensus pattern (19 bp):
CTATTTGGTTTATCAAAGG
Found at i:7870925 original size:30 final size:30
Alignment explanation
Indices: 7870867--7870925 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
7870857 GTGAAAGTTT
*
7870867 AAAAGATGTTGCTCAAAATTCACCAAAAAA
1 AAAAGATGTTGCTCAAAATTCACAAAAAAA
* *
7870897 AAAAGATGTTGCTCAAAATTTATAAAAAA
1 AAAAGATGTTGCTCAAAATTCACAAAAAA
7870926 TGAGTTCTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.54, C:0.12, G:0.10, T:0.24
Consensus pattern (30 bp):
AAAAGATGTTGCTCAAAATTCACAAAAAAA
Found at i:7909920 original size:3 final size:3
Alignment explanation
Indices: 7909912--7909951 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
7909902 TTAATTGTTT
7909912 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
7909952 GTTCACTGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:7913047 original size:24 final size:24
Alignment explanation
Indices: 7913014--7913094 Score: 63
Period size: 24 Copynumber: 3.2 Consensus size: 24
7913004 TCCTTTTCCA
*
7913014 GCACCCGAGCCTTCCAGTCCCTTT
1 GCACCTGAGCCTTCCAGTCCCTTT
* * *
7913038 GCACCTGAGCCTGATTCTGGCCCTTTT
1 GCACCTGAGCCT--TCCAGTCCC-TTT
* * * *
7913065 GCACCAGAGCCTTCTAGTCCATCT
1 GCACCTGAGCCTTCCAGTCCCTTT
7913089 GCACCT
1 GCACCT
7913095 CCCCTCGCTG
Statistics
Matches: 42, Mismatches: 12, Indels: 6
0.70 0.20 0.10
Matches are distributed among these distances:
24 18 0.43
25 4 0.10
26 6 0.14
27 14 0.33
ACGTcount: A:0.15, C:0.40, G:0.19, T:0.27
Consensus pattern (24 bp):
GCACCTGAGCCTTCCAGTCCCTTT
Found at i:7931695 original size:30 final size:30
Alignment explanation
Indices: 7931659--7931730 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
7931649 ACTTATTGTT
7931659 AATATTTTAATATATGAAATATTAA-T-TTTA
1 AATATTTTAATA-AT-AAATATTAATTATTTA
*
7931689 AATATTTTTAAGTAATTAATATTAATTATTTA
1 AATA-TTTTAA-TAATAAATATTAATTATTTA
7931721 AA-ATTTTAAT
1 AATATTTTAAT
7931731 TAGATTATAT
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
29 1 0.03
30 18 0.49
31 10 0.27
32 8 0.22
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (30 bp):
AATATTTTAATAATAAATATTAATTATTTA
Found at i:7947378 original size:17 final size:18
Alignment explanation
Indices: 7947356--7947389 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7947346 TAACTTTTCA
*
7947356 ATTAT-AATCATTGAAAC
1 ATTATAAATAATTGAAAC
7947373 ATTATAAATAATTGAAA
1 ATTATAAATAATTGAAA
7947390 ATGTTCTAAC
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:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (18 bp):
ATTATAAATAATTGAAAC
Found at i:7959615 original size:52 final size:52
Alignment explanation
Indices: 7959537--7959658 Score: 244
Period size: 52 Copynumber: 2.3 Consensus size: 52
7959527 ACTGACTCAC
7959537 TTCACCAGCAATAAACTTGCCTCCATTTATATAAGTAATTATATGGAAAATA
1 TTCACCAGCAATAAACTTGCCTCCATTTATATAAGTAATTATATGGAAAATA
7959589 TTCACCAGCAATAAACTTGCCTCCATTTATATAAGTAATTATATGGAAAATA
1 TTCACCAGCAATAAACTTGCCTCCATTTATATAAGTAATTATATGGAAAATA
7959641 TTCACCAGCAATAAACTT
1 TTCACCAGCAATAAACTT
7959659 CGCTTAACTT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (52 bp):
TTCACCAGCAATAAACTTGCCTCCATTTATATAAGTAATTATATGGAAAATA
Found at i:7961626 original size:28 final size:29
Alignment explanation
Indices: 7961560--7961629 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
7961550 CCGAATTTAA
** *
7961560 ATTA-ATTATTTTATTTTTTAATAAATAAG
1 ATTATATT-TTTTATTTTGAAACAAATAAG
7961589 ATTATATTTTTTATTTTGAAACAAATAAG
1 ATTATATTTTTTATTTTGAAACAAATAAG
*
7961618 ATTGT-TTTTTTA
1 ATTATATTTTTTA
7961630 AGTTTAGGCT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
28 7 0.19
29 26 0.72
30 3 0.08
ACGTcount: A:0.37, C:0.01, G:0.06, T:0.56
Consensus pattern (29 bp):
ATTATATTTTTTATTTTGAAACAAATAAG
Found at i:7969863 original size:17 final size:17
Alignment explanation
Indices: 7969841--7969875 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
7969831 CAATCACTGC
7969841 TTAGTTTCATACGGGAA
1 TTAGTTTCATACGGGAA
7969858 TTAGTTTCATACGGGAA
1 TTAGTTTCATACGGGAA
7969875 T
1 T
7969876 CAATGCATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (17 bp):
TTAGTTTCATACGGGAA
Found at i:7974868 original size:18 final size:18
Alignment explanation
Indices: 7974845--7974899 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 18
7974835 TCACTTATAG
7974845 AAAATAATATTTTAATAA
1 AAAATAATATTTTAATAA
*
7974863 AAAATAA-A--ATAATAA
1 AAAATAATATTTTAATAA
* *
7974878 ATAATAATGTTTTAATTAA
1 AAAATAATATTTTAA-TAA
7974897 AAA
1 AAA
7974900 GGAAGTCGCT
Statistics
Matches: 28, Mismatches: 5, Indels: 7
0.70 0.12 0.17
Matches are distributed among these distances:
15 12 0.43
17 1 0.04
18 10 0.36
19 5 0.18
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (18 bp):
AAAATAATATTTTAATAA
Found at i:7979998 original size:19 final size:19
Alignment explanation
Indices: 7979974--7980011 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
7979964 GGAGGTTTTT
* *
7979974 TATTTAAATAATATAAAAA
1 TATTTAAAAAAAATAAAAA
7979993 TATTTAAAAAAAATAAAAA
1 TATTTAAAAAAAATAAAAA
7980012 CGAGATGGGT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
TATTTAAAAAAAATAAAAA
Found at i:7992451 original size:14 final size:13
Alignment explanation
Indices: 7992432--7992464 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
7992422 GCAAAACTTG
7992432 ATTCGAACAAAAAA
1 ATTCGAA-AAAAAA
7992446 ATTCG-AAAAAAA
1 ATTCGAAAAAAAA
7992458 ATTCGAA
1 ATTCGAA
7992465 TTCCAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 11 0.61
13 2 0.11
14 5 0.28
ACGTcount: A:0.61, C:0.12, G:0.09, T:0.18
Consensus pattern (13 bp):
ATTCGAAAAAAAA
Found at i:7992558 original size:18 final size:18
Alignment explanation
Indices: 7992532--7992569 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
7992522 TGAATTTTCA
* *
7992532 AATTCGAATAACTCGAAT
1 AATTAGAATAAATCGAAT
7992550 AATTAGAATAAATCGAAT
1 AATTAGAATAAATCGAAT
7992568 AA
1 AA
7992570 AATTATATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.53, C:0.11, G:0.11, T:0.26
Consensus pattern (18 bp):
AATTAGAATAAATCGAAT
Found at i:7993289 original size:31 final size:31
Alignment explanation
Indices: 7993254--7993312 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
7993244 TATATTTGCC
*
7993254 GCAATACATGACAATATATAATTTAACTCCG
1 GCAATACATGACAATATATAATTCAACTCCG
* * *
7993285 GCAATTCATGATAGTATATAATTCAACT
1 GCAATACATGACAATATATAATTCAACT
7993313 TCGAAATTCG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (31 bp):
GCAATACATGACAATATATAATTCAACTCCG
Found at i:7993747 original size:116 final size:113
Alignment explanation
Indices: 7993546--7993755 Score: 275
Period size: 114 Copynumber: 1.8 Consensus size: 113
7993536 TTATGAGTTT
*
7993546 CGATCATTGGGTGCCAAAAAGTGAGAAATTTTTTTTTCAGGTACAAAAAAAGCAATGTCGGCTAT
1 CGATCATTGGGTGCCAAAAAGTGAGAAA-TTTTTTTTCAGGTACAAAAAAAGCAATGTAGGCTAT
* *
7993611 GGCTTGCCAAACACCCAAAAAAATATTTTTTTAATGTTAAAAAAGTGCTGC
65 GACTTGACAAACA-CC-AAAAAATATTTTTTTAATGTTAAAAAAGTGCTGC
* *
7993662 CGATCATTGGGTGTCAAAAAGTGAGAAA-TTTTTTTCAGGTACAAAAAAA--AATGGCATTAGTC
1 CGATCATTGGGTGCCAAAAAGTGAGAAATTTTTTTTCAGGTACAAAAAAAGCAAT-G---TAGGC
7993724 -ATGACTTGACAAACACACAAAAAATATTTTTT
62 TATGACTTGACAAACAC-CAAAAAATATTTTTT
7993756 ATTCTTATTT
Statistics
Matches: 84, Mismatches: 5, Indels: 12
0.83 0.05 0.12
Matches are distributed among these distances:
112 3 0.04
113 1 0.01
114 36 0.43
115 14 0.17
116 30 0.36
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (113 bp):
CGATCATTGGGTGCCAAAAAGTGAGAAATTTTTTTTCAGGTACAAAAAAAGCAATGTAGGCTATG
ACTTGACAAACACCAAAAAATATTTTTTTAATGTTAAAAAAGTGCTGC
Found at i:7994390 original size:11 final size:11
Alignment explanation
Indices: 7994374--7994417 Score: 56
Period size: 10 Copynumber: 4.2 Consensus size: 11
7994364 TTTTTTGGAT
7994374 AATTATAAAAA
1 AATTATAAAAA
7994385 AATTATAAAAA
1 AATTATAAAAA
*
7994396 TATT-TAAAAA
1 AATTATAAAAA
*
7994406 TA-TATAAAAA
1 AATTATAAAAA
7994416 AA
1 AA
7994418 ACCTAGTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
9 1 0.03
10 15 0.50
11 14 0.47
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
AATTATAAAAA
Found at i:8000856 original size:17 final size:17
Alignment explanation
Indices: 8000830--8000878 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
8000820 TTAATTTTTT
*
8000830 AAAAATTTAAAATTAAA
1 AAAAAATTAAAATTAAA
*
8000847 AAAAAATTAAAAATAAA
1 AAAAAATTAAAATTAAA
**
8000864 AAATCATTAAAATTA
1 AAAAAATTAAAATTA
8000879 TTTAAAAGAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAAAATTAAAATTAAA
Found at i:8006914 original size:62 final size:60
Alignment explanation
Indices: 8006771--8007356 Score: 513
Period size: 61 Copynumber: 9.8 Consensus size: 60
8006761 CTATTTTAAA
* * * * *
8006771 AAAAAAATTCAAAATTGTTTGGTGTTGGCCATCAAATGATCGACA-CCCCTTTTCTC--G
1 AAAAAAATTTAAATTTTTTTGGTGTTGGCCATCAAATAACCGACACCCCCTTTTCTCAAG
* * *
8006828 AAAAAAA-TTATA-TTTTTGGGTGTTGGCCATCAAATAATCGACACCCCCTATTTCTCAAG
1 AAAAAAATTTAAATTTTTTTGGTGTTGGCCATCAAATAACCGACACCCCCT-TTTCTCAAG
* ** *
8006887 AAAAAAATTTTAAATTTTTTTTGTGTTGGCCATGC-AATGGCCGACACCCCCATTTTTTTCTCGA
1 AAAAAAA-TTTAAATTTTTTTGGTGTTGGCCAT-CAAATAACCGACACCCCC----TTTTCTCAA
8006951 G
60 G
* ***
8006952 AAAAAAATTCAAATTTTTTTGGTGTTGGCCATCAAATCGTCGACACTCCCCTTTTCTCAA-
1 AAAAAAATTTAAATTTTTTTGGTGTTGGCCATCAAATAACCGACAC-CCCCTTTTCTCAAG
** * *
8007012 AAAAAAA-TT-AATTTTTTTGGTGTTGGTTATTAAATAACCGACACCCCCTTTTTTCCCAAG
1 AAAAAAATTTAAATTTTTTTGGTGTTGGCCATCAAATAACCGACACCCCC--TTTTCTCAAG
* * * ** * **
8007072 AAAAAAAATTAAAATTTTTTGGTGTTGGCCATAAAATGGCTGACACCCCCTTTTCTTGAG
1 AAAAAAATTTAAATTTTTTTGGTGTTGGCCATCAAATAACCGACACCCCCTTTTCTCAAG
* *
8007132 AAAAAAATTCAAATTTTTTTGGTGTTGGCCATCAAATCGA-CGACAACCCCCTTTTCTC---
1 AAAAAAATTTAAATTTTTTTGGTGTTGGCCATCAAAT-AACCGAC-ACCCCCTTTTCTCAAG
* * *
8007190 --AAAAA-TT-ATTTTTTTTGGTGTTGGCTATCAAATAACCGACACCCCTTTTTTTCTCAAG
1 AAAAAAATTTAAATTTTTTTGGTGTTGGCCATCAAATAACCGACACCCC--CTTTTCTCAAG
* * * * ** * *
8007248 AAAATAAAATTAAAATTTTTTGATGTTGGCTATCAAATGGCTGACACCCCCTTTTCTCGAG
1 AAAA-AAATTTAAATTTTTTTGGTGTTGGCCATCAAATAACCGACACCCCCTTTTCTCAAG
* * *
8007309 AAAAAAATTTCAAATTTTTTTTGTGTTGGCCATCAAATGACAGACACC
1 AAAAAAATTT-AAATTTTTTTGGTGTTGGCCATCAAATAACCGACACC
8007357 AACTTCTCCT
Statistics
Matches: 434, Mismatches: 62, Indels: 62
0.78 0.11 0.11
Matches are distributed among these distances:
53 6 0.01
54 28 0.06
55 36 0.08
56 13 0.03
57 17 0.04
58 29 0.07
59 17 0.04
60 64 0.15
61 74 0.17
62 63 0.15
63 34 0.08
64 33 0.08
65 19 0.04
66 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (60 bp):
AAAAAAATTTAAATTTTTTTGGTGTTGGCCATCAAATAACCGACACCCCCTTTTCTCAAG
Found at i:8007137 original size:61 final size:60
Alignment explanation
Indices: 8006769--8007356 Score: 414
Period size: 62 Copynumber: 9.8 Consensus size: 60
8006759 CCCTATTTTA
* * *
8006769 AAAAAAAAATTCAAAATTGTTTGGTGTTGGCCATCAAATGA-TCGACA-CCCCTTTTC-TCG
1 AAAAAAAAATT-AAATTTTTTTGGTGTTGGCCATCAAATGACT-GACACCCCCTTTTCTTAG
* * * *
8006828 --AAAAAAATTATA-TTTTTGGGTGTTGGCCATCAAAT-AATCGACACCCCCTATTTCTCAAG
1 AAAAAAAAATTAAATTTTTTTGGTGTTGGCCATCAAATGACT-GACACCCCCT-TTTCT-TAG
** * * * * *
8006887 AAAAAAATTTTAAATTTTTTTTGTGTTGGCCATGC-AATGGCCGACACCCCCATTTTTTTCTCG
1 AAAAAAAAATTAAATTTTTTTGGTGTTGGCCAT-CAAATGACTGACACCCCC--TTTTCT-TAG
* * *
8006950 AGAAAAAAATTCAAATTTTTTTGGTGTTGGCCATCAAATCGTC-GACACTCCCCTTTTC-T-C
1 AAAAAAAAATT-AAATTTTTTTGGTGTTGGCCATCAAAT-GACTGACAC-CCCCTTTTCTTAG
** * * *
8007010 AAAAAAAAATT-AATTTTTTTGGTGTTGGTTATTAAATAACCGACACCCCCTTTT-TTCCCA-
1 AAAAAAAAATTAAATTTTTTTGGTGTTGGCCATCAAATGACTGACACCCCCTTTTCTT---AG
* * *
8007070 AGAAAAAAAATTAAAATTTTTTGGTGTTGGCCATAAAATGGCTGACACCCCCTTTTCTT-G
1 A-AAAAAAAATTAAATTTTTTTGGTGTTGGCCATCAAATGACTGACACCCCCTTTTCTTAG
*
8007130 AGAAAAAAATTCAAATTTTTTTGGTGTTGGCCATCAAATCGAC-GACAACCCCCTTTTC-T--
1 AAAAAAAAATT-AAATTTTTTTGGTGTTGGCCATCAAAT-GACTGAC-ACCCCCTTTTCTTAG
* * * * * * *
8007189 ---CAAAAATT-ATTTTTTTTGGTGTTGGCTATCAAATAACCGACACCCCTTTTTTTCTCAAG
1 AAAAAAAAATTAAATTTTTTTGGTGTTGGCCATCAAATGACTGACACCCC--CTTTTCT-TAG
* * * * * *
8007248 AAAATAAAATTAAAATTTTTTGATGTTGGCTATCAAATGGCTGACACCCCCTTTTC-TCG
1 AAAAAAAAATTAAATTTTTTTGGTGTTGGCCATCAAATGACTGACACCCCCTTTTCTTAG
* * *
8007307 AGAAAAAAATTTCAAATTTTTTTTGTGTTGGCCATCAAATGACAGACACC
1 A-AAAAAAAATT-AAATTTTTTTGGTGTTGGCCATCAAATGACTGACACC
8007357 AACTTCTCCT
Statistics
Matches: 422, Mismatches: 65, Indels: 82
0.74 0.11 0.14
Matches are distributed among these distances:
53 7 0.02
54 28 0.07
55 32 0.08
56 14 0.03
57 23 0.05
58 28 0.07
59 12 0.03
60 49 0.12
61 69 0.16
62 70 0.17
63 54 0.13
64 30 0.07
65 6 0.01
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.35
Consensus pattern (60 bp):
AAAAAAAAATTAAATTTTTTTGGTGTTGGCCATCAAATGACTGACACCCCCTTTTCTTAG
Found at i:8007988 original size:37 final size:37
Alignment explanation
Indices: 8007918--8007988 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
8007908 TTTTGTGTAT
* **
8007918 TAATATTAACAATTATTTATAATTTATTTTATTATTG
1 TAATATTAACAATGATTTATAATTTATCGTATTATTG
*
8007955 TAATATTCAACAA-GATTTATATTTTATCGTATTA
1 TAATATT-AACAATGATTTATAATTTATCGTATTA
8007989 ATATAATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 24 0.83
38 5 0.17
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (37 bp):
TAATATTAACAATGATTTATAATTTATCGTATTATTG
Found at i:8011383 original size:45 final size:44
Alignment explanation
Indices: 8011247--8011466 Score: 104
Period size: 45 Copynumber: 5.1 Consensus size: 44
8011237 AAATATAGTT
* * * *
8011247 ATTATATTACAATTTATATCAAATATTGTATTAATTTGACAATAC
1 ATTATATTACAATTTTTATCATATAATGT-TTGATTTGACAATAC
* * * *** * **
8011292 ATTATTTATTA-AATTTTCAT-ATTTAAAGTACAAATT-ATTAT-C
1 ATTA--TATTACAATTTTTATCATATAATGTTTGATTTGACAATAC
8011334 ATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATAC
1 ATTATATTACAATTTTTATCATATAATGT-TTGATTTGACAATAC
* * * *** **
8011379 ATTAT-TTATTAATTTTATATC-TTTAA-ATAAAATTT-----TTT
1 ATTATATTA-CAATTTT-TATCATATAATGTTTGATTTGACAATAC
8011417 ATTATATTACAATTTTTATCATATAATGTATTGATTTGACAATAC
1 ATTATATTACAATTTTTATCATATAATGT-TTGATTTGACAATAC
8011462 ATTAT
1 ATTAT
8011467 TTATTAATTT
Statistics
Matches: 121, Mismatches: 36, Indels: 36
0.63 0.19 0.19
Matches are distributed among these distances:
37 4 0.03
38 16 0.13
39 4 0.03
40 9 0.07
41 8 0.07
42 12 0.10
43 10 0.08
44 11 0.09
45 31 0.26
46 11 0.09
47 5 0.04
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.50
Consensus pattern (44 bp):
ATTATATTACAATTTTTATCATATAATGTTTGATTTGACAATAC
Found at i:8011441 original size:83 final size:83
Alignment explanation
Indices: 8011245--8011769 Score: 790
Period size: 83 Copynumber: 6.3 Consensus size: 83
8011235 AAAAATATAG
* * * * *
8011245 TTATTATATTACAATTTATATCAAATATTGTATTAATTTGACAATACATTATTTATTAAATTTTC
1 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACATTATTTATT-AATTTT-
8011310 ATA--TTTAAAGTACAAATTATT
64 ATATCTTTAAA-TA-AAATT-TT
*
8011331 ATCATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACATTATTTATTAATTTTA
1 -TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACATTATTTATTAATTTTA
8011396 TATCTTTAAATAAAATTTT
65 TATCTTTAAATAAAATTTT
*
8011415 TTATTATATTACAATTTTTATCATATAATGTATTGATTTGACAATACATTATTTATTAATTTTAT
1 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACATTATTTATTAATTTTAT
* *
8011480 ATTTTTAAATAAAAATTT
66 ATCTTTAAATAAAATTTT
* * * * *
8011498 TAATTATGTTACAATTTTTATTATATAATATGTTGATTTGACAATATATTATTTATTAATTTTAT
1 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACATTATTTATTAATTTTAT
8011563 ATCTTTAAAT-AAATTTT
66 ATCTTTAAATAAAATTTT
8011580 TTATTATATTACAATTTTTATC-TATAATGTGTTGATTTGACAATACA-TATTTATTAATTTTAT
1 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACATTATTTATTAATTTTAT
*
8011643 ATCTTTAAATAAAAATTT
66 ATCTTTAAATAAAATTTT
* *
8011661 TAATTATATTACAATTTTTATCATATAATGTGTTGATTTGGCAATACATTATTTATTAATTTTAT
1 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACATTATTTATTAATTTTAT
* *
8011726 ATTTTTAAATAAATTTTT
66 ATCTTTAAATAAAATTTT
8011744 TTATTATATTACAATTTTTATCATAT
1 TTATTATATTACAATTTTTATCATAT
8011770 TTTAAATTTA
Statistics
Matches: 403, Mismatches: 30, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
80 26 0.06
81 50 0.12
82 49 0.12
83 203 0.50
84 2 0.00
85 8 0.02
86 8 0.02
87 57 0.14
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.53
Consensus pattern (83 bp):
TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACATTATTTATTAATTTTAT
ATCTTTAAATAAAATTTT
Found at i:8011671 original size:246 final size:252
Alignment explanation
Indices: 8011247--8011769 Score: 810
Period size: 246 Copynumber: 2.1 Consensus size: 252
8011237 AAATATAGTT
* * * * * *
8011247 ATTATATTACAATTTATATCAAATATTGTATTAATTTGACAATACATTATTTATTAAATTTTCAT
1 ATTATATTACAATTTTTATCATATAATATGTTGATTTGACAATACATTATTTATTAAATTTTCAT
8011312 ATTTAAAGTACAAATTATTATCATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAAT
66 ATTTAAAGTA-AAATTATTATCATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAAT
* *
8011377 ACATTATTTATTAATTTTATATCTTTAAATAAAATTTTTTATTATATTACAATTTTTATCATATA
130 ACATTATTTATTAATTTTATATCTTTAAATAAAAATTTTAATTATATTACAATTTTTATCATATA
8011442 ATGTATTGATTTGACAATACATTATTTATTAATTTTATATTTTTAAATAAAAATTTTA
195 ATGTATTGATTTGACAATACATTATTTATTAATTTTATATTTTTAAATAAAAATTTTA
* * *
8011500 ATTATGTTACAATTTTTATTATATAATATGTTGATTTGACAATATATTATTTATT-AATTTT-AT
1 ATTATATTACAATTTTTATCATATAATATGTTGATTTGACAATACATTATTTATTAAATTTTCAT
*
8011563 ATCTTTAAA-T-AAATT-TT-TTATTATATTACAATTTTTATC-TATAATGTGTTGATTTGACAA
66 A--TTTAAAGTAAAATTATTATCATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAA
8011623 TACA-TATTTATTAATTTTATATCTTTAAATAAAAATTTTAATTATATTACAATTTTTATCATAT
129 TACATTATTTATTAATTTTATATCTTTAAATAAAAATTTTAATTATATTACAATTTTTATCATAT
* * ** *
8011687 AATGTGTTGATTTGGCAATACATTATTTATTAATTTTATATTTTTAAATAAATTTTTTT
194 AATGTATTGATTTGACAATACATTATTTATTAATTTTATATTTTTAAATAAAAATTTTA
8011746 ATTATATTACAATTTTTATCATAT
1 ATTATATTACAATTTTTATCATAT
8011770 TTTAAATTTA
Statistics
Matches: 249, Mismatches: 19, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
246 134 0.54
247 25 0.10
248 21 0.08
249 2 0.01
250 5 0.02
251 3 0.01
252 7 0.03
253 52 0.21
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.52
Consensus pattern (252 bp):
ATTATATTACAATTTTTATCATATAATATGTTGATTTGACAATACATTATTTATTAAATTTTCAT
ATTTAAAGTAAAATTATTATCATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATA
CATTATTTATTAATTTTATATCTTTAAATAAAAATTTTAATTATATTACAATTTTTATCATATAA
TGTATTGATTTGACAATACATTATTTATTAATTTTATATTTTTAAATAAAAATTTTA
Found at i:8011989 original size:20 final size:20
Alignment explanation
Indices: 8011948--8011995 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
8011938 TTGACCGCCA
*
8011948 TTGACTGACTTTGTCCACCG
1 TTGACCGACTTTGTCCACCG
* **
8011968 TTTACCGACTTTGTCCGTCG
1 TTGACCGACTTTGTCCACCG
8011988 TTGACCGA
1 TTGACCGA
8011996 GTTTCATCTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.15, C:0.29, G:0.21, T:0.35
Consensus pattern (20 bp):
TTGACCGACTTTGTCCACCG
Found at i:8014265 original size:30 final size:30
Alignment explanation
Indices: 8014201--8014292 Score: 89
Period size: 30 Copynumber: 3.1 Consensus size: 30
8014191 TCCCTTTACT
*
8014201 TTTTAAATTTAA-TTCGTAATTTCGTT-TTTA
1 TTTTAAATTTAATTTCG-AATTTC-TTGTATA
*
8014231 TTTTAAATTTAATTTCGAATTTCTTGTATG
1 TTTTAAATTTAATTTCGAATTTCTTGTATA
* ** * *
8014261 TTTTAATTTTTCTTTCTAATTTCATGTATA
1 TTTTAAATTTAATTTCGAATTTCTTGTATA
8014291 TT
1 TT
8014293 CTAATTATTA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
29 2 0.04
30 46 0.88
31 4 0.08
ACGTcount: A:0.25, C:0.08, G:0.07, T:0.61
Consensus pattern (30 bp):
TTTTAAATTTAATTTCGAATTTCTTGTATA
Found at i:8015281 original size:60 final size:60
Alignment explanation
Indices: 8015205--8015514 Score: 423
Period size: 60 Copynumber: 5.2 Consensus size: 60
8015195 CAAAAATGCG
* *
8015205 AATTTTTTTCTCGAGAAAAAGGAGTGTCGACCATCTGATGGCCAACACAAAAAAAATTTA
1 AATTTTTTTCTCGAGAAAAAGGGGTGTCGACCATTTGATGGCCAACACAAAAAAAATTTA
* * * *
8015265 AATTTTTTTATCGAGAAAAGGGGGTGTCGACCATTTGATGGCCAACACCAAAAAATTTTAA
1 AATTTTTTTCTCGAGAAAAAGGGGTGTCGACCATTTGATGGCCAACACAAAAAAAATTT-A
* * * *
8015326 AATTTTTTTCTCGAGAAAAAAGGAGGGTGTCGGCCATTTGATGGCCAATACCAAAAAAATTTG
1 AATTTTTTTCTCGAG-AAAAA-G-GGGTGTCGACCATTTGATGGCCAACACAAAAAAAATTTA
8015389 AATTTTTTTCTCGAGAAAAGAGGGGTGTCGACCATTTGATGGCCAACACAAAAAAAA-TTA
1 AATTTTTTTCTCGAGAAAA-AGGGGTGTCGACCATTTGATGGCCAACACAAAAAAAATTTA
* *
8015449 AATTTTTTTCTCGAGAAAAAGGGGGTGTCG---A-TTGATGGCCAACACAAAAAAATTTTG
1 AATTTTTTTCTCGAGAAAAA-GGGGTGTCGACCATTTGATGGCCAACACAAAAAAAATTTA
8015506 AATTTTTTT
1 AATTTTTTT
8015515 TGAAACAGAA
Statistics
Matches: 225, Mismatches: 18, Indels: 17
0.87 0.07 0.07
Matches are distributed among these distances:
56 21 0.09
57 12 0.05
59 1 0.00
60 83 0.37
61 47 0.21
62 9 0.04
63 17 0.08
64 35 0.16
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (60 bp):
AATTTTTTTCTCGAGAAAAAGGGGTGTCGACCATTTGATGGCCAACACAAAAAAAATTTA
Found at i:8020172 original size:19 final size:20
Alignment explanation
Indices: 8020124--8020172 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
8020114 TTTAATATTG
*
8020124 TATTTTTAAAGAATATTCAT
1 TATTTTTAAATAATATTCAT
*
8020144 T-TTTTTAAATTAT-TTCAT
1 TATTTTTAAATAATATTCAT
8020162 TATTTTTAAAT
1 TATTTTTAAAT
8020173 CAATTACTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 6 0.23
19 19 0.73
20 1 0.04
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (20 bp):
TATTTTTAAATAATATTCAT
Found at i:8020833 original size:15 final size:15
Alignment explanation
Indices: 8020813--8020844 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
8020803 ATAGCTAAAA
8020813 AAAAAAATTTTGAAG
1 AAAAAAATTTTGAAG
*
8020828 AAAAAATTTTTGAAG
1 AAAAAAATTTTGAAG
8020843 AA
1 AA
8020845 GTGAAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.12, T:0.28
Consensus pattern (15 bp):
AAAAAAATTTTGAAG
Found at i:8023872 original size:16 final size:17
Alignment explanation
Indices: 8023844--8023932 Score: 128
Period size: 17 Copynumber: 5.3 Consensus size: 17
8023834 CCACTTTTTA
*
8023844 AAATTTATTTTAAAATT
1 AAATTTATTTTAAATTT
8023861 AAATTT-TTTTAAATTT
1 AAATTTATTTTAAATTT
* *
8023877 AAATTTAATTTAAGTTT
1 AAATTTATTTTAAATTT
8023894 AAATTTATTTTAAATTTT
1 AAATTTATTTTAAA-TTT
8023912 AAA-TTATTTTAAATTT
1 AAATTTATTTTAAATTT
8023928 AAATT
1 AAATT
8023933 AATAAAAATC
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
16 21 0.33
17 37 0.58
18 6 0.09
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (17 bp):
AAATTTATTTTAAATTT
Found at i:8023877 original size:6 final size:6
Alignment explanation
Indices: 8023868--8023932 Score: 66
Period size: 6 Copynumber: 11.3 Consensus size: 6
8023858 ATTAAATTTT
* *
8023868 TTTAAA TTTAAA TTT-AA TTTAAG TTTAAA TTT-AT TTTAAA TTTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA -TTTAAA
*
8023915 -TT-AT TTTAAA TTTAAA TT
1 TTTAAA TTTAAA TTTAAA TT
8023933 AATAAAAATC
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
4 1 0.02
5 13 0.27
6 28 0.58
7 6 0.12
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (6 bp):
TTTAAA
Found at i:8023949 original size:51 final size:50
Alignment explanation
Indices: 8023843--8023949 Score: 126
Period size: 51 Copynumber: 2.1 Consensus size: 50
8023833 CCCACTTTTT
* ** * *
8023843 AAAATTTATTTTAAAATTAAATTTTTTTAAATTTAAATTTAATTTAAGTT
1 AAAATTTATTTTAAAATTAAATTATTTTAAATTTAAATTTAATAAAAATC
* *
8023893 TAAATTTATTTTAAATTTTAAATTATTTTAAATTTAAA-TTAATAAAAATCC
1 AAAATTTATTTTAAA-ATTAAATTATTTTAAATTTAAATTTAATAAAAAT-C
8023944 AAAATT
1 AAAATT
8023950 ACAAGCCCAA
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
50 22 0.47
51 25 0.53
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (50 bp):
AAAATTTATTTTAAAATTAAATTATTTTAAATTTAAATTTAATAAAAATC
Found at i:8025732 original size:30 final size:29
Alignment explanation
Indices: 8025668--8025875 Score: 172
Period size: 29 Copynumber: 7.1 Consensus size: 29
8025658 AAGGTCCCTA
* * * *
8025668 AACTATCTAAAAATCATATTTTGACCCTG
1 AACTTTCTAAAAATTATATTTTAACCCCG
*
8025697 AACTTTCTAAAAATTATATTTTAACCTTCG
1 AACTTTCTAAAAATTATATTTTAACC-CCG
* * ** *
8025727 AACTTTCCAAAAATTACATTTTGCCCCCA
1 AACTTTCTAAAAATTATATTTTAACCCCG
* * *
8025756 AACTTTCTAAAAATTACATTTTTACCCCTA
1 AACTTTCTAAAAATTATATTTTAACCCC-G
*
8025786 AACTCTC-AAAAATTACTATTTT-ACCCC-
1 AACTTTCTAAAAATTA-TATTTTAACCCCG
* * *
8025813 AAATATCTAAAAATTACATTTTTAACCCCG
1 AACTTTCTAAAAATTATA-TTTTAACCCCG
*
8025843 AACTTCCTAAAAATTATTATTTT-ACACCCG
1 AACTTTCTAAAAATTA-TATTTTAAC-CCCG
8025873 AAC
1 AAC
8025876 ATCCAAAAAT
Statistics
Matches: 147, Mismatches: 23, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
27 6 0.04
28 12 0.08
29 69 0.47
30 59 0.40
31 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.36
Consensus pattern (29 bp):
AACTTTCTAAAAATTATATTTTAACCCCG
Found at i:8025768 original size:59 final size:58
Alignment explanation
Indices: 8025697--8025895 Score: 201
Period size: 59 Copynumber: 3.4 Consensus size: 58
8025687 TTTGACCCTG
* * *
8025697 AACTTTCTAAAAATTATATTTTAACCTTCGAACTTTCCAAAAATTAC-ATTTTGCCCCCA
1 AACTTTCTAAAAATTACATTTTAACC-CCGAACTTTCCAAAAATTACTATTTT-ACCCCA
* * *
8025756 AACTTTCTAAAAATTACATTTTTACCCCTAAACTCT-CAAAAATTACTATTTTACCCCA
1 AACTTTCTAAAAATTACATTTTAACCCC-GAACTTTCCAAAAATTACTATTTTACCCCA
* * *
8025814 AA-TATCTAAAAATTACATTTTTAACCCCGAAC-TTCCTAAAAATTATTATTTTACACCCG
1 AACTTTCTAAAAATTACA-TTTTAACCCCGAACTTTCC-AAAAATTACTATTTTAC-CCCA
* *
8025873 AAC-ATCCAAAAATTACCATTTTA
1 AACTTTCTAAAAATTA-CATTTTA
8025896 CTCCTGGATG
Statistics
Matches: 119, Mismatches: 13, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
56 1 0.01
57 18 0.15
58 43 0.36
59 55 0.46
60 2 0.02
ACGTcount: A:0.39, C:0.24, G:0.02, T:0.36
Consensus pattern (58 bp):
AACTTTCTAAAAATTACATTTTAACCCCGAACTTTCCAAAAATTACTATTTTACCCCA
Found at i:8025893 original size:29 final size:27
Alignment explanation
Indices: 8025705--8026057 Score: 206
Period size: 29 Copynumber: 12.2 Consensus size: 27
8025695 TGAACTTTCT
* * *
8025705 AAAAATTATATTTTAACCTTCGAACTTTCC
1 AAAAATTACATTTT-ACC-CCGAA-TATCC
* * * *
8025735 AAAAATTACATTTTGCCCCCAAACTTTCT
1 AAAAATTACATTTT-ACCCCGAA-TATCC
*
8025764 AAAAATTACATTTTTACCCCTAA-ACTCTC
1 AAAAATTACA-TTTTACCCCGAATA-TC-C
* *
8025793 AAAAATTACTATTTTACCCCAAATATCT
1 AAAAATTAC-ATTTTACCCCGAATATCC
8025821 AAAAATTACATTTTTAACCCCGAACT-TCC
1 AAAAATTACA-TTTT-ACCCCGAA-TATCC
* *
8025850 TAAAAATTATTATTTTACACCCGAACATCC
1 -AAAAATTA-CATTTTAC-CCCGAATATCC
* * *
8025880 AAAAATTACCATTTTACTCCTGGATGTCC
1 AAAAATTA-CATTTTAC-CCCGAATATCC
* * * *
8025909 AAAAATTACATTTTGCCCCCGAGTTTTC
1 AAAAATTACATTTT-ACCCCGAATATCC
* * *
8025937 AAAAATTACCGTTTTACCGCTGAATATCT
1 AAAAATTA-CATTTTACC-CCGAATATCC
** *
8025966 AAAAATTACATTTTTGCCCGAAGTGTCC
1 AAAAATTACATTTTACCCCGAA-TATCC
*
8025994 AAAAATTACCGTTTTACCCTCGAATATCC
1 AAAAATTA-CATTTTACCC-CGAATATCC
* * *
8026023 AAAAATTACCTTTTTACCCCCAAGCATCC
1 AAAAATTA-CATTTTACCCCGAA-TATCC
8026052 AAAAAT
1 AAAAAT
8026058 CGCATTTTTG
Statistics
Matches: 255, Mismatches: 49, Indels: 39
0.74 0.14 0.11
Matches are distributed among these distances:
27 5 0.02
28 57 0.22
29 145 0.57
30 47 0.18
31 1 0.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (27 bp):
AAAAATTACATTTTACCCCGAATATCC
Found at i:8025940 original size:57 final size:55
Alignment explanation
Indices: 8025877--8026036 Score: 196
Period size: 57 Copynumber: 2.8 Consensus size: 55
8025867 CACCCGAACA
* * * *
8025877 TCCAAAAATTACCATTTTACTCCTGGATGTCCAAAAATTACATTTTGCCCCCG-AGTT
1 TCCAAAAATTACCGTTTTAC-CCTGAATATCCAAAAATTACATTTTG--CCCGAAGTG
* *
8025934 TTCAAAAATTACCGTTTTACCGCTGAATATCTAAAAATTACATTTTTGCCCGAAGTG
1 TCCAAAAATTACCGTTTTACC-CTGAATATCCAAAAATTACA-TTTTGCCCGAAGTG
*
8025991 TCCAAAAATTACCGTTTTACCCTCGAATATCCAAAAATTACCTTTT
1 TCCAAAAATTACCGTTTTACCCT-GAATATCCAAAAATTACATTTT
8026037 TACCCCCAAG
Statistics
Matches: 90, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
56 11 0.12
57 74 0.82
58 5 0.06
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.34
Consensus pattern (55 bp):
TCCAAAAATTACCGTTTTACCCTGAATATCCAAAAATTACATTTTGCCCGAAGTG
Found at i:8025974 original size:86 final size:85
Alignment explanation
Indices: 8025732--8026041 Score: 251
Period size: 86 Copynumber: 3.6 Consensus size: 85
8025722 CTTCGAACTT
* * * *
8025732 TCCAAAAATTACATTTTGCCCCCAAACTTTCTAAAAATTACATTTTTACCCCT-AAACTCTCAAA
1 TCCAAAAATTACATTTTACCCCCGAACTTCCTAAAAATTACCTTTTTA-CCCTGAAA-TCT-AAA
* * *
8025796 AATTACTATTTTAC-CCCAAATA
63 AATTACCATTTTACTCCCGAATG
* * * * *
8025818 TCTAAAAATTACATTTTTAACCCCGAACTTCCTAAAAATTA-TTATTTTACACCCGAACATCCAA
1 TCCAAAAATTACA-TTTTACCCCCGAACTTCCTAAAAATTACCT-TTTTAC-CCTGAA-ATCTAA
* *
8025882 AAATTACCATTTTACTCCTGGATG
62 AAATTACCATTTTACTCCCGAATG
* ** * *
8025906 TCCAAAAATTACATTTTGCCCCCGAGTTTTC-AAAAATTACCGTTTTACCGCTGAATATCTAAAA
1 TCCAAAAATTACATTTTACCCCCGAACTTCCTAAAAATTACCTTTTTACC-CTGAA-ATCTAAAA
8025970 ATTA-CATTTT--TGCCCGAAGTG
64 ATTACCATTTTACT-CCCGAA-TG
* *
8025991 TCCAAAAATTACCGTTTTACCCTCGAA-TATCC-AAAAATTACCTTTTTACCC
1 TCCAAAAATTA-CATTTTACCCCCGAACT-TCCTAAAAATTACCTTTTTACCC
8026042 CCAAGCATCC
Statistics
Matches: 180, Mismatches: 32, Indels: 25
0.76 0.14 0.11
Matches are distributed among these distances:
83 1 0.01
84 4 0.02
85 22 0.12
86 73 0.41
87 59 0.33
88 20 0.11
89 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.34
Consensus pattern (85 bp):
TCCAAAAATTACATTTTACCCCCGAACTTCCTAAAAATTACCTTTTTACCCTGAAATCTAAAAAT
TACCATTTTACTCCCGAATG
Found at i:8027275 original size:1 final size:1
Alignment explanation
Indices: 8027269--8027295 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
8027259 AAGGCAACAG
8027269 CCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCC
8027296 TCACCAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:8031068 original size:14 final size:14
Alignment explanation
Indices: 8031049--8031077 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
8031039 ATCGATACAA
8031049 TGATAAAAATCCAC
1 TGATAAAAATCCAC
8031063 TGATAAAAATCCAC
1 TGATAAAAATCCAC
8031077 T
1 T
8031078 TTTCACGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.21, G:0.07, T:0.24
Consensus pattern (14 bp):
TGATAAAAATCCAC
Found at i:8032735 original size:29 final size:29
Alignment explanation
Indices: 8032703--8032764 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
8032693 AAACTGCCAA
*
8032703 AACTTCCATATTTGCGAATTAACCATCAG
1 AACTTCCATATTTACGAATTAACCATCAG
* *
8032732 AACTTCCATATTTACGAATTAACCGTTAG
1 AACTTCCATATTTACGAATTAACCATCAG
8032761 AACT
1 AACT
8032765 CCACAAAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.32
Consensus pattern (29 bp):
AACTTCCATATTTACGAATTAACCATCAG
Found at i:8035608 original size:17 final size:17
Alignment explanation
Indices: 8035586--8035668 Score: 81
Period size: 17 Copynumber: 5.2 Consensus size: 17
8035576 CTACTTTTTA
8035586 AAATTTATTTTAAGA-TT
1 AAATTTATTTTAA-ATTT
8035603 AAATTTATTTTAAATTT
1 AAATTTATTTTAAATTT
8035620 -AA---A--TTAAATTT
1 AAATTTATTTTAAATTT
8035631 AAATTTATTTTTAAATTT
1 AAATTTA-TTTTAAATTT
* *
8035649 AAAATTATTCTAAATTT
1 AAATTTATTTTAAATTT
8035666 AAA
1 AAA
8035669 ATATATAAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 16
0.76 0.03 0.22
Matches are distributed among these distances:
11 8 0.14
12 2 0.04
13 1 0.02
15 1 0.02
16 3 0.05
17 27 0.48
18 14 0.25
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (17 bp):
AAATTTATTTTAAATTT
Found at i:8035617 original size:11 final size:11
Alignment explanation
Indices: 8035594--8035635 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
8035584 TAAAATTTAT
8035594 TTTAAGATTAAA
1 TTTAA-ATTAAA
**
8035606 TTTATTTTAAA
1 TTTAAATTAAA
8035617 TTTAAATTAAA
1 TTTAAATTAAA
8035628 TTTAAATT
1 TTTAAATT
8035636 TATTTTTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
11 22 0.85
12 4 0.15
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (11 bp):
TTTAAATTAAA
Found at i:8035626 original size:5 final size:6
Alignment explanation
Indices: 8035601--8035668 Score: 63
Period size: 6 Copynumber: 11.8 Consensus size: 6
8035591 TATTTTAAGA
* **
8035601 TTAAAT TT-ATT TTAAAT TTAAA- TTAAAT TTAAAT TTATTT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
8035647 TTAAAA TT--AT TCTAAAT TTAAA
1 TTAAAT TTAAAT T-TAAAT TTAAA
8035669 ATATATAAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
4 2 0.04
5 10 0.20
6 34 0.69
7 3 0.06
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (6 bp):
TTAAAT
Found at i:8037423 original size:30 final size:29
Alignment explanation
Indices: 8037377--8037442 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 29
8037367 CCCAAAAGGT
*
8037377 CCCTAAACTATCCAAAAAT-CATGTTTTGA
1 CCCTAAACAATCCAAAAATACAT-TTTTGA
*
8037406 CCCTAAACAATTCCAAAATTACATTTTTGA
1 CCCTAAACAA-TCCAAAAATACATTTTTGA
8037436 CCCTAAA
1 CCCTAAA
8037443 TTTCTTAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 9 0.27
30 21 0.64
31 3 0.09
ACGTcount: A:0.39, C:0.26, G:0.05, T:0.30
Consensus pattern (29 bp):
CCCTAAACAATCCAAAAATACATTTTTGA
Found at i:8037458 original size:30 final size:28
Alignment explanation
Indices: 8037377--8037811 Score: 139
Period size: 29 Copynumber: 14.9 Consensus size: 28
8037367 CCCAAAAGGT
*
8037377 CCCTAAACTATCCAAAAA-T-CATGTTTTGA
1 CCCTAAACT-TCTAAAAATTACAT-TTTT-A
*
8037406 CCCTAAACAATTC-CAAAATTACATTTTTGA
1 CCCTAAAC--TTCTAAAAATTACATTTTT-A
* *
8037436 CCCTAAATTTCTTAAAATTTACATTTTTA
1 CCCTAAACTTC-TAAAAATTACATTTTTA
* *
8037465 CCCCTAAACTTCTAAAAATCATATTTTTAA
1 -CCCTAAACTTCTAAAAATTACATTTTT-A
* * * *
8037495 CCCTAAATTTCTTAAAAAATACGTGTTTA
1 CCCTAAACTTC-TAAAAATTACATTTTTA
*
8037524 CCCTTAAACTTCCAAAAATTACATTTTTGA
1 CCC-TAAACTTCTAAAAATTACATTTTT-A
* * * *
8037554 CCTTGAACTTTCCAAAAACTACCA--TTTA
1 CCCTAAAC-TTCTAAAAATTA-CATTTTTA
8037582 CCCTCAAACATTC--AAAATTACGA-TTTTA
1 CCCT-AAAC-TTCTAAAAATTAC-ATTTTTA
*
8037610 CCCCTCGAA-TGTCCT-AAAATTACATTTTTGA
1 -CCCT-AAACT-T-CTAAAAATTACATTTTT-A
** * * *
8037641 CCCCGAACTTTCCAAAAATTAAAATTTTA
1 CCCTAAAC-TTCTAAAAATTACATTTTTA
* * *
8037670 TCCTCAAACATC-CAAAATTACATTTTTGA
1 CCCT-AAACTTCTAAAAATTACATTTTT-A
** * **
8037699 CCCCGAACATAAAAAAATTACCA-TTTTA
1 CCCTAAACTTCTAAAAATTA-CATTTTTA
* *
8037727 CTCCTGAA-TATCCAAAAATTACCA-TTTTA
1 C-CCTAAACT-TCTAAAAATTA-CATTTTTA
* * *
8037756 CCCTCGAACATC-CAAAATTACCA-TTTTA
1 CCCT-AAACTTCTAAAAATTA-CATTTTTA
8037784 CCCCTAAACATTC-AAAAATTATCATTTT
1 -CCCTAAAC-TTCTAAAAATTA-CATTTT
8037812 GCCCCTAAGT
Statistics
Matches: 317, Mismatches: 53, Indels: 71
0.72 0.12 0.16
Matches are distributed among these distances:
26 1 0.00
27 8 0.03
28 52 0.16
29 140 0.44
30 108 0.34
31 8 0.03
ACGTcount: A:0.38, C:0.24, G:0.04, T:0.34
Consensus pattern (28 bp):
CCCTAAACTTCTAAAAATTACATTTTTA
Found at i:8037571 original size:59 final size:59
Alignment explanation
Indices: 8037390--8037555 Score: 194
Period size: 59 Copynumber: 2.8 Consensus size: 59
8037380 TAAACTATCC
8037390 AAAAAT-CATGTTTTGA-CCCTAAACAATTCC-AAAATTACATTTTTGACCCTAAATTTCTTA
1 AAAAATACATG-TTT-ACCCCTAAAC--TTCCAAAAATTACATTTTTGACCCTAAATTTCTTA
** * * * * *
8037450 AAATTTACATTTTTACCCCTAAACTTCTAAAAATCATATTTTTAACCCTAAATTTCTTA
1 AAAAATACATGTTTACCCCTAAACTTCCAAAAATTACATTTTTGACCCTAAATTTCTTA
* *
8037509 AAAAATACGTGTTTACCCTTAAACTTCCAAAAATTACATTTTTGACC
1 AAAAATACATGTTTACCCCTAAACTTCCAAAAATTACATTTTTGACC
8037556 TTGAACTTTC
Statistics
Matches: 87, Mismatches: 16, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
58 3 0.03
59 66 0.76
60 15 0.17
61 3 0.03
ACGTcount: A:0.38, C:0.20, G:0.04, T:0.38
Consensus pattern (59 bp):
AAAAATACATGTTTACCCCTAAACTTCCAAAAATTACATTTTTGACCCTAAATTTCTTA
Found at i:8037634 original size:87 final size:87
Alignment explanation
Indices: 8037537--8037872 Score: 305
Period size: 86 Copynumber: 3.9 Consensus size: 87
8037527 TTAAACTTCC
* * *
8037537 AAAAATTACATTTTTGACCTTGAACTTTCCAAAAACTACCA-TTTACCCTCAAACATTCAAAATT
1 AAAAATTACATTTTTGACCCTGAACTTTCCAAAAATTACCATTTTACCCTCAAACATCCAAAATT
** **
8037601 ACGATTTTACCCCTCGAATGTCC
66 AC-ATTTTACCCCTCGAACATAA
* * ** *
8037624 TAAAATTACATTTTTGACCCCGAACTTTCCAAAAATTAAAATTTTATCCTCAAACATCCAAAATT
1 AAAAATTACATTTTTGACCCTGAACTTTCCAAAAATTACCATTTTACCCTCAAACATCCAAAATT
8037689 ACATTTTTGA-CCC-CGAACATAA
66 ACA-TTTT-ACCCCTCGAACATAA
* *
8037711 AAAAATTACCA-TTTT-ACTCCTGAA-TATCCAAAAATTACCATTTTACCCTCGAACATCCAAAA
1 AAAAATTA-CATTTTTGAC-CCTGAACTTTCCAAAAATTACCATTTTACCCTCAAACATCCAAAA
* **
8037773 TTACCATTTTACCCCT-AAACATTC
64 TTA-CATTTTACCCCTCGAACATAA
* * * * **
8037797 AAAAATTATCA-TTTTGCCCCT-AAGTGTCCAAAAATTACCATTTTGTCCC-CAAGTATCCAAAA
1 AAAAATTA-CATTTTTGACCCTGAACTTTCCAAAAATTACCATTTT-ACCCTCAAACATCCAAAA
*
8037859 TTACCGTTTTACCC
64 TTA-CATTTTACCC
8037873 TCGGACGTTC
Statistics
Matches: 208, Mismatches: 30, Indels: 23
0.80 0.11 0.09
Matches are distributed among these distances:
85 3 0.01
86 109 0.52
87 63 0.30
88 32 0.15
89 1 0.00
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.32
Consensus pattern (87 bp):
AAAAATTACATTTTTGACCCTGAACTTTCCAAAAATTACCATTTTACCCTCAAACATCCAAAATT
ACATTTTACCCCTCGAACATAA
Found at i:8037742 original size:57 final size:59
Alignment explanation
Indices: 8037595--8037929 Score: 207
Period size: 57 Copynumber: 5.8 Consensus size: 59
8037585 TCAAACATTC
* * ** * *
8037595 AAAATTACGATTTTACCCCTCGAATGTCCTAAAATTA-CATTTTTGACCCCGAACTTTCCA
1 AAAATTACCATTTTACCCCTCAAACATCCAAAAATTACCATTTTTGACCCCGAAC-AT-CA
** * *
8037655 AAAATTAAAATTTTA-TCCTCAAACATCC-AAAATTA-CATTTTTGACCCCGAACATAAA
1 AAAATTACCATTTTACCCCTCAAACATCCAAAAATTACCATTTTTGACCCCGAACAT-CA
* * * *
8037712 AAAATTACCATTTTACTCCT-GAATATCCAAAAATTACCA-TTTT-ACCCTCGAACATCC
1 AAAATTACCATTTTACCCCTCAAACATCCAAAAATTACCATTTTTGACCC-CGAACATCA
* * * **
8037769 AAAATTACCATTTTACCCCT-AAACATTCAAAAATTATCA-TTTTG-CCCCTAAGTGTCCA
1 AAAATTACCATTTTACCCCTCAAACATCCAAAAATTACCATTTTTGACCCCGAA-CAT-CA
** ** * * *
8037827 AAAATTACCATTTTGTCCC-CAAGTATCC-AAAATTACC-GTTTT-ACCCTCGGACGTTCA
1 AAAATTACCATTTTACCCCTCAAACATCCAAAAATTACCATTTTTGACCC-CGAAC-ATCA
* *** *
8037884 AAAATTACCATTTTATCCC-CGGGCATCCAAAAATT-GCATTTTTGAC
1 AAAATTACCATTTTACCCCTCAAACATCCAAAAATTACCATTTTTGAC
8037930 TCCATTTGTC
Statistics
Matches: 220, Mismatches: 40, Indels: 31
0.76 0.14 0.11
Matches are distributed among these distances:
56 3 0.01
57 109 0.50
58 82 0.37
59 13 0.06
60 13 0.06
ACGTcount: A:0.36, C:0.26, G:0.07, T:0.32
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCTCAAACATCCAAAAATTACCATTTTTGACCCCGAACATCA
Found at i:8037884 original size:86 final size:86
Alignment explanation
Indices: 8037520--8037903 Score: 281
Period size: 86 Copynumber: 4.4 Consensus size: 86
8037510 AAAATACGTG
* * * *
8037520 TTTACCCTTAAAC-TTCCAAAAATTA-CATTTTTGA-CCTTGAACTTTCCAAAAACTACCA-TTT
1 TTTACCCCTAAACATT-CAAAAATTACCA-TTTT-ACCCCTGAA-TATCCAAAAATTACCATTTT
* * *
8037581 ACCCTCAAACATTCAAAATTACGAT
62 ACCCTCGAACATCCAAAATTACCAT
** * * **
8037606 TTTACCCCTCGA-ATGTCCTAAAATTA-CATTTTTGACCCC-GAACTTTCCAAAAATTAAAATTT
1 TTTACCCCTAAACAT-T-CAAAAATTACCA-TTTT-ACCCCTGAA-TATCCAAAAATTACCATTT
* *
8037668 TATCCTCAAACATCCAAAATTA-CATT
61 TACCCTCGAACATCCAAAATTACCA-T
* ** *
8037694 TTTGACCCC-GAACATAAAAAAATTACCATTTTACTCCTGAATATCCAAAAATTACCATTTTACC
1 TTT-ACCCCTAAACATTCAAAAATTACCATTTTACCCCTGAATATCCAAAAATTACCATTTTACC
8037758 CTCGAACATCCAAAATTACCAT
65 CTCGAACATCCAAAATTACCAT
* * * *
8037780 TTTACCCCTAAACATTCAAAAATTATCATTTTGCCCCT-AAGTGTCCAAAAATTACCATTTTGTC
1 TTTACCCCTAAACATTCAAAAATTACCATTTTACCCCTGAA-TATCCAAAAATTACCATTTT-AC
* *
8037844 CC-C-AAGTATCCAAAATTACCGT
64 CCTCGAA-CATCCAAAATTACCAT
** *
8037866 TTTA-CCCTCGGACGTTCAAAAATTACCATTTTATCCCC
1 TTTACCCCT-AAACATTCAAAAATTACCATTTTA-CCCC
8037904 GGGCATCCAA
Statistics
Matches: 245, Mismatches: 37, Indels: 31
0.78 0.12 0.10
Matches are distributed among these distances:
85 13 0.05
86 134 0.55
87 60 0.24
88 31 0.13
89 7 0.03
ACGTcount: A:0.36, C:0.27, G:0.05, T:0.33
Consensus pattern (86 bp):
TTTACCCCTAAACATTCAAAAATTACCATTTTACCCCTGAATATCCAAAAATTACCATTTTACCC
TCGAACATCCAAAATTACCAT
Found at i:8037914 original size:29 final size:28
Alignment explanation
Indices: 8037564--8037918 Score: 193
Period size: 29 Copynumber: 12.4 Consensus size: 28
8037554 CCTTGAACTT
*
8037564 TCCAAAAACTACCA-TTTACCCTCAAACA
1 TCCAAAAATTACCATTTTACCC-CAAACA
* * * **
8037592 TTC-AAAATTACGATTTTACCCCTCGAATG
1 TCCAAAAATTACCATTTTA-CCC-CAAACA
* * *
8037621 TCCTAAAATTA-CATTTTTGACCCCGAACTT
1 TCCAAAAATTACCA-TTTT-ACCCCAAAC-A
** *
8037651 TCCAAAAATTAAAATTTTATCCTCAAACA
1 TCCAAAAATTACCATTTTA-CCCCAAACA
*
8037680 TCC-AAAATTA-CATTTTTGACCCCGAACA
1 TCCAAAAATTACCA-TTTT-ACCCCAAACA
** ** *
8037708 TAAAAAAATTACCATTTTACTCCTGAATA
1 TCCAAAAATTACCATTTTAC-CCCAAACA
*
8037737 TCCAAAAATTACCATTTTACCCTCGAACA
1 TCCAAAAATTACCATTTTACCC-CAAACA
8037766 TCC-AAAATTACCATTTTACCCCTAAACA
1 TCCAAAAATTACCATTTTACCCC-AAACA
* * * ***
8037794 TTCAAAAATTATCATTTTGCCCCTAAGTG
1 TCCAAAAATTACCATTTTACCCC-AAACA
* **
8037823 TCCAAAAATTACCATTTTGTCCCCAAGTA
1 TCCAAAAATTACCATTTT-ACCCCAAACA
* ** *
8037852 TCC-AAAATTACCGTTTTACCCTCGGACG
1 TCCAAAAATTACCATTTTACCC-CAAACA
* ***
8037880 TTCAAAAATTACCATTTTATCCCCGGGCA
1 TCCAAAAATTACCATTTTA-CCCCAAACA
8037909 TCCAAAAATT
1 TCCAAAAATT
8037919 GCATTTTTGA
Statistics
Matches: 258, Mismatches: 49, Indels: 39
0.75 0.14 0.11
Matches are distributed among these distances:
27 13 0.05
28 69 0.27
29 131 0.51
30 43 0.17
31 2 0.01
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.31
Consensus pattern (28 bp):
TCCAAAAATTACCATTTTACCCCAAACA
Found at i:8042133 original size:9 final size:9
Alignment explanation
Indices: 8042119--8042143 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
8042109 TTTTGAAGGT
8042119 ATTTTAGGA
1 ATTTTAGGA
8042128 ATTTTAGGA
1 ATTTTAGGA
8042137 ATTTTAG
1 ATTTTAG
8042144 TCTATATATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (9 bp):
ATTTTAGGA
Found at i:8043000 original size:11 final size:11
Alignment explanation
Indices: 8042977--8043022 Score: 74
Period size: 11 Copynumber: 4.1 Consensus size: 11
8042967 GTAGGTGGCA
8042977 TAGTAATAGAAT
1 TAGTAA-AGAAT
8042989 TAGTAAAGAAT
1 TAGTAAAGAAT
*
8043000 TAGTATAGAAT
1 TAGTAAAGAAT
8043011 TAGTAAAGAAT
1 TAGTAAAGAAT
8043022 T
1 T
8043023 TATTCTCATA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
11 26 0.81
12 6 0.19
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (11 bp):
TAGTAAAGAAT
Found at i:8043009 original size:22 final size:23
Alignment explanation
Indices: 8042977--8043022 Score: 85
Period size: 22 Copynumber: 2.0 Consensus size: 23
8042967 GTAGGTGGCA
8042977 TAGTAATAGAATTAGTAAAGAAT
1 TAGTAATAGAATTAGTAAAGAAT
8043000 TAGT-ATAGAATTAGTAAAGAAT
1 TAGTAATAGAATTAGTAAAGAAT
8043022 T
1 T
8043023 TATTCTCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (23 bp):
TAGTAATAGAATTAGTAAAGAAT
Found at i:8048331 original size:6 final size:6
Alignment explanation
Indices: 8048320--8048344 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
8048310 CCAAGTATTT
8048320 TCTTTC TCTTTC TCTTTC TCTTTC T
1 TCTTTC TCTTTC TCTTTC TCTTTC T
8048345 TATACAAACT
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:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (6 bp):
TCTTTC
Found at i:8053973 original size:36 final size:36
Alignment explanation
Indices: 8053924--8054023 Score: 157
Period size: 36 Copynumber: 2.8 Consensus size: 36
8053914 TGGTAATAGG
*
8053924 CATGACCTTTGGGTCAACAGGGAGTAAAA-GAAGCAT
1 CATGACCTTTGGGTCAATAGGGAGTAAAATG-AGCAT
*
8053960 CTTGACCTTTGGGTCAATAGGGAGTAAAATGAGCAT
1 CATGACCTTTGGGTCAATAGGGAGTAAAATGAGCAT
*
8053996 CATGACCTTTGGGTCAATAAGGAGTAAA
1 CATGACCTTTGGGTCAATAGGGAGTAAA
8054024 TCGAATATCG
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
36 58 0.98
37 1 0.02
ACGTcount: A:0.34, C:0.15, G:0.27, T:0.24
Consensus pattern (36 bp):
CATGACCTTTGGGTCAATAGGGAGTAAAATGAGCAT
Found at i:8065119 original size:6 final size:6
Alignment explanation
Indices: 8065110--8065136 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
8065100 TAAGTACAAG
8065110 TCCATA TCCATA TCCATA TCCATA TCC
1 TCCATA TCCATA TCCATA TCCATA TCC
8065137 GTATATACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.37, G:0.00, T:0.33
Consensus pattern (6 bp):
TCCATA
Found at i:8067477 original size:20 final size:20
Alignment explanation
Indices: 8067454--8067500 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
8067444 TGTTTTTAAA
* **
8067454 AAAAATAGTAAAATCGAATT
1 AAAAATAGAAAAATAAAATT
*
8067474 AAAAGTAGAAAAATAAAATT
1 AAAAATAGAAAAATAAAATT
8067494 AAAAATA
1 AAAAATA
8067501 AGATAAGTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.68, C:0.02, G:0.09, T:0.21
Consensus pattern (20 bp):
AAAAATAGAAAAATAAAATT
Found at i:8068347 original size:2 final size:2
Alignment explanation
Indices: 8068340--8068364 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8068330 TTACGTCATT
8068340 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
8068365 TTTGGCATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8069399 original size:15 final size:18
Alignment explanation
Indices: 8069379--8069415 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
8069369 TAGTCTGTTT
8069379 ATTA-TTTAAA-AA-TTA
1 ATTATTTTAAATAATTTA
8069394 ATTATTTTAAATAATTTA
1 ATTATTTTAAATAATTTA
8069412 ATTA
1 ATTA
8069416 AAATTAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 4 0.21
16 6 0.32
17 2 0.11
18 7 0.37
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTATTTTAAATAATTTA
Found at i:8069678 original size:1 final size:1
Alignment explanation
Indices: 8069672--8069698 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
8069662 ACTCGAGACA
8069672 CCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCC
8069699 TTTCTAGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:8073578 original size:18 final size:18
Alignment explanation
Indices: 8073537--8073579 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 18
8073527 AATTATAAAA
8073537 AAAATTCAAAATAAATTTT
1 AAAATTCAAAAT-AATTTT
8073556 AAAATTCAAAAT-ATTTAT
1 AAAATTCAAAATAATTT-T
8073574 AAAATT
1 AAAATT
8073580 TTTAAAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.17
18 7 0.30
19 12 0.52
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAATTCAAAATAATTTT
Found at i:8073622 original size:19 final size:18
Alignment explanation
Indices: 8073549--8073669 Score: 79
Period size: 18 Copynumber: 6.7 Consensus size: 18
8073539 AATTCAAAAT
* *
8073549 AAATTTTAAAA-TTCAAA
1 AAATTTAAAAATTTTAAA
* *
8073566 ATATTTATAAAATTTT-TA
1 AAATTTA-AAAATTTTAAA
* ** *
8073584 AAATTTATATTTTTTCAA
1 AAATTTAAAAATTTTAAA
8073602 AAATTATAAAAATTTTAAA
1 AAATT-TAAAAATTTTAAA
*
8073621 AAA-TTAAAAATATATAAA
1 AAATTTAAAAAT-TTTAAA
*
8073639 GAAAGTT-AAAATTTTAAA
1 -AAATTTAAAAATTTTAAA
8073657 AAATTTATAAAAT
1 AAATTTA-AAAAT
8073670 AATAATTTTG
Statistics
Matches: 79, Mismatches: 16, Indels: 16
0.71 0.14 0.14
Matches are distributed among these distances:
17 22 0.28
18 28 0.35
19 27 0.34
20 2 0.03
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (18 bp):
AAATTTAAAAATTTTAAA
Found at i:8073663 original size:9 final size:9
Alignment explanation
Indices: 8073600--8073669 Score: 54
Period size: 9 Copynumber: 7.7 Consensus size: 9
8073590 ATATTTTTTC
8073600 AAAAATTATA
1 AAAAATT-TA
*
8073610 AAAATTTTA
1 AAAAATTTA
8073619 AAAAA-TTA
1 AAAAATTTA
*
8073627 AAAATATATA
1 AAAA-ATTTA
*
8073637 AAGAAAGTT-
1 AA-AAATTTA
*
8073646 AAAATTTTA
1 AAAAATTTA
8073655 AAAAATTTA
1 AAAAATTTA
*
8073664 TAAAAT
1 AAAAAT
8073670 AATAATTTTG
Statistics
Matches: 47, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
8 11 0.23
9 22 0.47
10 12 0.26
11 2 0.04
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (9 bp):
AAAAATTTA
Found at i:8082912 original size:13 final size:13
Alignment explanation
Indices: 8082894--8082928 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
8082884 TAACCAGCTT
8082894 TCTCTCATGGACG
1 TCTCTCATGGACG
8082907 TCTCTCATGGACG
1 TCTCTCATGGACG
*
8082920 TCTCCCATG
1 TCTCTCATG
8082929 TTGATTCCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.14, C:0.34, G:0.20, T:0.31
Consensus pattern (13 bp):
TCTCTCATGGACG
Found at i:8092103 original size:21 final size:21
Alignment explanation
Indices: 8092077--8092117 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8092067 AGAAGAAGAA
*
8092077 CCCAAGAAATCTAACATCAAG
1 CCCAAGAAAGCTAACATCAAG
*
8092098 CCCAAGAAAGCTAAGATCAA
1 CCCAAGAAAGCTAACATCAA
8092118 CTAATACATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.49, C:0.27, G:0.12, T:0.12
Consensus pattern (21 bp):
CCCAAGAAAGCTAACATCAAG
Found at i:8095778 original size:20 final size:21
Alignment explanation
Indices: 8095753--8095791 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
8095743 ATCCTAGATG
8095753 TTTTTC-AAAAAGATAAATAA
1 TTTTTCGAAAAAGATAAATAA
8095773 TTTTTCGAAAAAGATAAAT
1 TTTTTCGAAAAAGATAAAT
8095792 GATTGATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.36
Consensus pattern (21 bp):
TTTTTCGAAAAAGATAAATAA
Found at i:8096222 original size:21 final size:21
Alignment explanation
Indices: 8096196--8096237 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
8096186 ATAACACATT
8096196 GTAAAAAATTAAGAAAATAAA
1 GTAAAAAATTAAGAAAATAAA
8096217 GTAAAAAATTAAGAAAATAAA
1 GTAAAAAATTAAGAAAATAAA
8096238 ATAAGTCATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (21 bp):
GTAAAAAATTAAGAAAATAAA
Found at i:8096699 original size:22 final size:22
Alignment explanation
Indices: 8096671--8096712 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
8096661 AATTCATAAA
*
8096671 TTTTAAATTATTTAAATTATAT
1 TTTTAAATTATTAAAATTATAT
8096693 TTTTAAATTATTAAAATTAT
1 TTTTAAATTATTAAAATTAT
8096713 TTCAATTAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTTAAATTATTAAAATTATAT
Found at i:8096727 original size:31 final size:31
Alignment explanation
Indices: 8096653--8096737 Score: 86
Period size: 31 Copynumber: 2.8 Consensus size: 31
8096643 TGATTCTCGT
**
8096653 TTTAAATTA-ATTCATAAATT-TT-AAATTA
1 TTTAAATTAGATTTTTAAATTATTAAAATTA
*
8096681 TTTAAATTATATTTTTAAATTATTAAAATTA
1 TTTAAATTAGATTTTTAAATTATTAAAATTA
* * **
8096712 TTTCAATTAGGTTTTTTCATTATTAA
1 TTTAAATTAGATTTTTAAATTATTAA
8096738 GATCGTTAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
28 9 0.19
29 9 0.19
30 2 0.04
31 27 0.57
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (31 bp):
TTTAAATTAGATTTTTAAATTATTAAAATTA
Found at i:8100355 original size:11 final size:11
Alignment explanation
Indices: 8100335--8100368 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
8100325 ATATTCACTC
8100335 AAAT-AAATCG
1 AAATCAAATCG
8100345 AAATCAAATCG
1 AAATCAAATCG
8100356 AAATCAAATCG
1 AAATCAAATCG
8100367 AA
1 AA
8100369 TTAATGTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 4 0.17
11 19 0.83
ACGTcount: A:0.59, C:0.15, G:0.09, T:0.18
Consensus pattern (11 bp):
AAATCAAATCG
Found at i:8112083 original size:16 final size:16
Alignment explanation
Indices: 8112062--8112100 Score: 55
Period size: 14 Copynumber: 2.5 Consensus size: 16
8112052 TTATTACTTT
8112062 ATAAATATTTTAA-AAA
1 ATAAA-ATTTTAAGAAA
8112078 AT-AAATTTTAAGAAA
1 ATAAAATTTTAAGAAA
8112093 ATAAAATT
1 ATAAAATT
8112101 AATCAATAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 7 0.33
15 7 0.33
16 7 0.33
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (16 bp):
ATAAAATTTTAAGAAA
Found at i:8112085 original size:14 final size:15
Alignment explanation
Indices: 8112068--8112097 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8112058 CTTTATAAAT
8112068 ATTTTAA-AAAATAA
1 ATTTTAAGAAAATAA
8112082 ATTTTAAGAAAATAA
1 ATTTTAAGAAAATAA
8112097 A
1 A
8112098 ATTAATCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
ATTTTAAGAAAATAA
Found at i:8113035 original size:6 final size:6
Alignment explanation
Indices: 8113024--8113048 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
8113014 CAGTCACTTC
8113024 TTTTCT TTTTCT TTTTCT TTTTCT T
1 TTTTCT TTTTCT TTTTCT TTTTCT T
8113049 CCCCCCTTAT
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:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTCT
Found at i:8113732 original size:24 final size:24
Alignment explanation
Indices: 8113696--8113741 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
8113686 ATGTGTAATT
**
8113696 TAATATATAAAATTTAATTTGATG
1 TAATATATAAAATAAAATTTGATG
8113720 TAATA-ATACAAATAAAATTTGA
1 TAATATATA-AAATAAAATTTGA
8113742 ATTGTAGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.16
24 16 0.84
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.39
Consensus pattern (24 bp):
TAATATATAAAATAAAATTTGATG
Found at i:8129621 original size:18 final size:18
Alignment explanation
Indices: 8129595--8129659 Score: 53
Period size: 18 Copynumber: 3.5 Consensus size: 18
8129585 ATATTTTTTT
*
8129595 AAAATATATAAAAATGTA
1 AAAAAATATAAAAATGTA
**
8129613 AAAAAATATTTAGATTAT-TA
1 AAAAAATA--TA-AAAATGTA
8129633 AAAAAAT-TAAAAATTGTA
1 AAAAAATATAAAAA-TGTA
8129651 AAAAAATAT
1 AAAAAATAT
8129660 TTACAATTTG
Statistics
Matches: 36, Mismatches: 5, Indels: 11
0.69 0.10 0.21
Matches are distributed among these distances:
16 2 0.06
17 3 0.08
18 16 0.44
19 1 0.03
20 11 0.31
21 3 0.08
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.31
Consensus pattern (18 bp):
AAAAAATATAAAAATGTA
Found at i:8129667 original size:20 final size:20
Alignment explanation
Indices: 8129595--8129773 Score: 95
Period size: 20 Copynumber: 9.1 Consensus size: 20
8129585 ATATTTTTTT
* *
8129595 AAAATATATAAAAATGTAAA
1 AAAATATTTAAAATTGTAAA
* * *
8129615 AAAATATTT-AGATTATTAA
1 AAAATATTTAAAATTGTAAA
*
8129634 AAAA-ATTAAAAATTGTAAA
1 AAAATATTTAAAATTGTAAA
* **
8129653 AAAATATTTACAATT-T-GC
1 AAAATATTTAAAATTGTAAA
*
8129671 AAAATA-TTAAATTTTGTAAA
1 AAAATATTTAAA-ATTGTAAA
* ** *
8129691 TAGTTA-TTAAATATTGTTAA
1 AAAATATTTAAA-ATTGTAAA
*
8129711 AATAT-TTTAAAATTGTAAAA
1 AAAATATTTAAAATTGT-AAA
*
8129731 AAAATATTAAAAATCT-TAAA
1 AAAATATTTAAAAT-TGTAAA
* *
8129751 ACATTATTTAAAATTTGTAAA
1 AAAATATTTAAAA-TTGTAAA
8129772 AA
1 AA
8129774 TTATTAAATA
Statistics
Matches: 116, Mismatches: 32, Indels: 21
0.69 0.19 0.12
Matches are distributed among these distances:
17 4 0.03
18 11 0.09
19 28 0.24
20 58 0.50
21 14 0.12
22 1 0.01
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (20 bp):
AAAATATTTAAAATTGTAAA
Found at i:8129680 original size:38 final size:37
Alignment explanation
Indices: 8129595--8129773 Score: 112
Period size: 38 Copynumber: 4.6 Consensus size: 37
8129585 ATATTTTTTT
* *
8129595 AAAATATATAAAAA-TGTAAAAAAATATTTAGATTATTA
1 AAAATAT-TAAAAATTGTAAAAAAATATTTAAATT-TGA
* *
8129633 AAAAAATTAAAAATTGTAAAAAAATATTTACAATTTGC
1 AAAATATTAAAAATTGTAAAAAAATATTTA-AATTTGA
** * ** *
8129671 AAAATATTAAATTTTGTAAATAGTTA-TTAAATATTGTT
1 AAAATATTAAAAATTGTAAAAAAATATTTAAAT-TTG-A
* *
8129709 AAAATATTTTAAAATTGTAAAAAAAATATTAAAAATCTT-A
1 AAAATA-TTAAAAATTGT-AAAAAAATATT-TAAAT-TTGA
*
8129749 AAACATTATTTAAAATTTGTAAAAA
1 AAA-A-TA-TTAAAAATTGTAAAAA
8129774 TTATTAAATA
Statistics
Matches: 109, Mismatches: 22, Indels: 17
0.74 0.15 0.11
Matches are distributed among these distances:
36 3 0.03
37 12 0.11
38 49 0.45
39 11 0.10
40 9 0.08
41 7 0.06
42 18 0.17
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (37 bp):
AAAATATTAAAAATTGTAAAAAAATATTTAAATTTGA
Found at i:8129733 original size:21 final size:21
Alignment explanation
Indices: 8129709--8129773 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 21
8129699 AAATATTGTT
8129709 AAAATATTTTAAAATTGTAAA
1 AAAATATTTTAAAATTGTAAA
*
8129730 AAAA-ATATTAAAAATCT-TAAA
1 AAAATAT-TTTAAAAT-TGTAAA
* *
8129751 ACATTA-TTTAAAATTTGTAAA
1 AAAATATTTTAAAA-TTGTAAA
8129772 AA
1 AA
8129774 TTATTAAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 10
0.69 0.10 0.20
Matches are distributed among these distances:
20 9 0.26
21 23 0.68
22 2 0.06
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.35
Consensus pattern (21 bp):
AAAATATTTTAAAATTGTAAA
Found at i:8129739 original size:40 final size:41
Alignment explanation
Indices: 8129677--8129785 Score: 100
Period size: 40 Copynumber: 2.7 Consensus size: 41
8129667 TTGCAAAATA
* ** * *
8129677 TTAAATTTTGTAAATAGTTATTAAATATTGTTAAAATA-T-T
1 TTAAAATTTGTAAA-AAATATTAAATATTCTTAAAACATTAT
*
8129717 TTAAAA-TTGTAAAAAAAATATTAAA-AATCTTAAAACATTAT
1 TTAAAATTTGT--AAAAAATATTAAATATTCTTAAAACATTAT
*
8129758 TTAAAATTTGTAAAAATTATTAAATATT
1 TTAAAATTTGTAAAAAATATTAAATATT
8129786 TCGAAATTTA
Statistics
Matches: 55, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
39 13 0.24
40 26 0.47
41 12 0.22
42 4 0.07
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (41 bp):
TTAAAATTTGTAAAAAATATTAAATATTCTTAAAACATTAT
Found at i:8129786 original size:20 final size:20
Alignment explanation
Indices: 8129671--8129786 Score: 77
Period size: 20 Copynumber: 5.8 Consensus size: 20
8129661 TACAATTTGC
8129671 AAAA-TATTAAAT-TTTGTA
1 AAAATTATTAAATATTTGTA
*
8129689 AATAGTTATTAAATA-TTGTTA
1 AA-AATTATTAAATATTTG-TA
8129710 AAATATT-TTAAA-A-TTGTAAA
1 AAA-ATTATTAAATATTTGT--A
* * *
8129730 AAAAATATTAAAAATCT-TA
1 AAAATTATTAAATATTTGTA
8129749 AAACATTATTTAAA-ATTTGTA
1 AAA-ATTA-TTAAATATTTGTA
8129770 AAAATTATTAAATATTT
1 AAAATTATTAAATATTT
8129787 CGAAATTTAT
Statistics
Matches: 78, Mismatches: 6, Indels: 26
0.71 0.05 0.24
Matches are distributed among these distances:
18 3 0.04
19 16 0.21
20 40 0.51
21 18 0.23
22 1 0.01
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (20 bp):
AAAATTATTAAATATTTGTA
Found at i:8130189 original size:10 final size:9
Alignment explanation
Indices: 8130173--8130228 Score: 67
Period size: 9 Copynumber: 6.0 Consensus size: 9
8130163 TTTTAACCAT
8130173 TATTTTTTA
1 TATTTTTTA
*
8130182 TAATTTTTA
1 TATTTTTTA
8130191 TATATTTTTA
1 TAT-TTTTTA
*
8130201 TTTTTTTTA
1 TATTTTTTA
*
8130210 TAATTTTTAA
1 T-ATTTTTTA
8130220 TATTTTTTA
1 TATTTTTTA
8130229 CAATTTCTTG
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
9 24 0.62
10 15 0.38
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (9 bp):
TATTTTTTA
Found at i:8130190 original size:9 final size:9
Alignment explanation
Indices: 8130176--8130234 Score: 64
Period size: 9 Copynumber: 6.3 Consensus size: 9
8130166 TAACCATTAT
8130176 TTTTTATAA
1 TTTTTATAA
8130185 TTTTTATATA
1 TTTTTATA-A
**
8130195 TTTTTATTT
1 TTTTTATAA
8130204 TTTTTATAA
1 TTTTTATAA
*
8130213 TTTTTAATAT
1 TTTTT-ATAA
*
8130223 TTTTTACAA
1 TTTTTATAA
8130232 TTT
1 TTT
8130235 CTTGTCTAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
9 25 0.61
10 16 0.39
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (9 bp):
TTTTTATAA
Found at i:8130227 original size:19 final size:18
Alignment explanation
Indices: 8130176--8130234 Score: 73
Period size: 19 Copynumber: 3.2 Consensus size: 18
8130166 TAACCATTAT
*
8130176 TTTTTATAATTTTTATATA
1 TTTTTATATTTTTTATA-A
*
8130195 TTTTTATTTTTTTTATAA
1 TTTTTATATTTTTTATAA
*
8130213 TTTTTAATATTTTTTACAA
1 TTTTT-ATATTTTTTATAA
8130232 TTT
1 TTT
8130235 CTTGTCTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.17
19 29 0.83
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTTATATTTTTTATAA
Found at i:8130260 original size:25 final size:25
Alignment explanation
Indices: 8130231--8130282 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
8130221 ATTTTTTACA
*
8130231 ATTTCTTGTCTAATAAACAGAGTTG
1 ATTTCTTGTCTAATAAACAAAGTTG
*
8130256 ATTTCTTGTCTGATAAACAAAGTTG
1 ATTTCTTGTCTAATAAACAAAGTTG
8130281 AT
1 AT
8130283 GCATAGTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (25 bp):
ATTTCTTGTCTAATAAACAAAGTTG
Found at i:8131356 original size:10 final size:10
Alignment explanation
Indices: 8131343--8131376 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
8131333 TTTTAAGTAA
8131343 TTTAATTTTT
1 TTTAATTTTT
*
8131353 TTTATATTCTT
1 TTTA-ATTTTT
8131364 TTTAATTTTT
1 TTTAATTTTT
8131374 TTT
1 TTT
8131377 TATATTCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTAATTTTT
Found at i:8131387 original size:12 final size:12
Alignment explanation
Indices: 8131350--8131387 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 12
8131340 TAATTTAATT
8131350 TTTTTTATATTC
1 TTTTTTATATTC
*
8131362 -TTTTTA-ATTT
1 TTTTTTATATTC
8131372 TTTTTTATATTC
1 TTTTTTATATTC
8131384 TTTT
1 TTTT
8131388 GTTTTTTCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
10 3 0.14
11 12 0.55
12 7 0.32
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTTATATTC
Found at i:8131394 original size:22 final size:22
Alignment explanation
Indices: 8131343--8131387 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
8131333 TTTTAAGTAA
8131343 TTTAA-TTTTTTTTATATTCTT
1 TTTAATTTTTTTTTATATTCTT
8131364 TTTAATTTTTTTTTATATTCTT
1 TTTAATTTTTTTTTATATTCTT
8131386 TT
1 TT
8131388 GTTTTTTCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (22 bp):
TTTAATTTTTTTTTATATTCTT
Found at i:8137238 original size:2 final size:2
Alignment explanation
Indices: 8137182--8137229 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
8137172 CACATTTTGT
8137182 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
8137224 GA GA GA
1 GA GA GA
8137230 CGGGAGAGAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:8142457 original size:93 final size:93
Alignment explanation
Indices: 8142360--8142528 Score: 302
Period size: 93 Copynumber: 1.8 Consensus size: 93
8142350 AAAATACAAG
*
8142360 ATAGCTTAAGTACTTATGACGCTTACATGTACAAGTTTAATTATTATTACATGGATATCATATTT
1 ATAGCTTAAATACTTATGACGCTTACATGTACAAGTTTAATTATTATTACATGGATATCATATTT
8142425 AGACTACTAATTCATTAAAAAAAAATAT
66 AGACTACTAATTCATTAAAAAAAAATAT
** *
8142453 ATAGCTTAAATACTTATGGTGCTTACATGTACAAGTTTAATTATTATTACATGGATATGATATTT
1 ATAGCTTAAATACTTATGACGCTTACATGTACAAGTTTAATTATTATTACATGGATATCATATTT
8142518 AGACTACTAAT
66 AGACTACTAAT
8142529 ATATTGAGAA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.39
Consensus pattern (93 bp):
ATAGCTTAAATACTTATGACGCTTACATGTACAAGTTTAATTATTATTACATGGATATCATATTT
AGACTACTAATTCATTAAAAAAAAATAT
Found at i:8144548 original size:5 final size:5
Alignment explanation
Indices: 8144538--8144568 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
8144528 GGGTAACCAA
8144538 CCCAT CCCAT CCCAT CCCAT CCCAT CCCAT C
1 CCCAT CCCAT CCCAT CCCAT CCCAT CCCAT C
8144569 AGCCAGTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.61, G:0.00, T:0.19
Consensus pattern (5 bp):
CCCAT
Found at i:8144711 original size:19 final size:19
Alignment explanation
Indices: 8144663--8144715 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
8144653 AGCCAATATA
*
8144663 TAAAAATATA-AATATAATT
1 TAAAAATAAATAATA-AATT
* *
8144682 T-AAATTTAATAATAAATT
1 TAAAAATAAATAATAAATT
8144700 TAAAAATAAATAATAA
1 TAAAAATAAATAATAA
8144716 GTATACTTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
18 10 0.37
19 17 0.63
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TAAAAATAAATAATAAATT
Found at i:8145265 original size:154 final size:154
Alignment explanation
Indices: 8145037--8145341 Score: 567
Period size: 154 Copynumber: 2.0 Consensus size: 154
8145027 CATGAAACAA
*
8145037 TTACATAAAATTTAAAACAAAACATTATGAGGAGAGTTACAAAATAATGTTTTGTAGGTTATAAA
1 TTACATAAAATTTAAAACAAAACATTATGAGGAGAGTTACAAAATAATGTTTTGTAGGTTACAAA
*
8145102 AATGGTGAGTTACAAAAAATTAAAACAAATAAAGCTATGTAACTG-CATTTGAAACATCAAATGA
66 AATGATGAGTTACAAAAAATTAAAACAAATAAAGCTATGTAACTGTC-TTTGAAACATCAAATGA
8145166 CAGTTCTGTTGAAGAAGAAAAACGG
130 CAGTTCTGTTGAAGAAGAAAAACGG
8145191 TTACATAAAATTTAAAACAAAACATTATGAGGAGAGTTACAAAATAATGTTTTGTAGGTTACAAA
1 TTACATAAAATTTAAAACAAAACATTATGAGGAGAGTTACAAAATAATGTTTTGTAGGTTACAAA
*
8145256 AATGATGAGTTACAAAAACTTAAAACAAATAAAGCTATGTAACTGTCTTTGAAACATCAAATGAC
66 AATGATGAGTTACAAAAAATTAAAACAAATAAAGCTATGTAACTGTCTTTGAAACATCAAATGAC
8145321 AGTTCTGTTGAAGAAGAAAAA
131 AGTTCTGTTGAAGAAGAAAAA
8145342 TATTTAAATG
Statistics
Matches: 147, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
154 146 0.99
155 1 0.01
ACGTcount: A:0.48, C:0.10, G:0.15, T:0.28
Consensus pattern (154 bp):
TTACATAAAATTTAAAACAAAACATTATGAGGAGAGTTACAAAATAATGTTTTGTAGGTTACAAA
AATGATGAGTTACAAAAAATTAAAACAAATAAAGCTATGTAACTGTCTTTGAAACATCAAATGAC
AGTTCTGTTGAAGAAGAAAAACGG
Found at i:8147836 original size:17 final size:18
Alignment explanation
Indices: 8147799--8147837 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
8147789 AATACTTTTT
*
8147799 AAAAGTACTTTTGAGTCA
1 AAAAGTACTTTTGAGTAA
*
8147817 AAAAGTATTTTTGAG-AA
1 AAAAGTACTTTTGAGTAA
8147834 AAAA
1 AAAA
8147838 CTAAAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.49, C:0.05, G:0.15, T:0.31
Consensus pattern (18 bp):
AAAAGTACTTTTGAGTAA
Found at i:8147957 original size:18 final size:18
Alignment explanation
Indices: 8147934--8147974 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
8147924 TTTTAATAAT
8147934 ATTTTTATCTCAAAAGTA
1 ATTTTTATCTCAAAAGTA
8147952 ATTTTTATCTCAAAAGTA
1 ATTTTTATCTCAAAAGTA
*
8147970 CTTTT
1 ATTTT
8147975 GAAATGCAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.34, C:0.12, G:0.05, T:0.49
Consensus pattern (18 bp):
ATTTTTATCTCAAAAGTA
Found at i:8163203 original size:30 final size:30
Alignment explanation
Indices: 8163169--8163227 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
8163159 GAAGTAGGCA
*
8163169 TAATAATTTTGTTAGAAATACTGATCGCCG
1 TAATAATTTTGGTAGAAATACTGATCGCCG
8163199 TAATAATTTTGGTAGAAATACTGATCGCC
1 TAATAATTTTGGTAGAAATACTGATCGCC
8163228 ATTCTAACTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.36
Consensus pattern (30 bp):
TAATAATTTTGGTAGAAATACTGATCGCCG
Found at i:8167655 original size:18 final size:19
Alignment explanation
Indices: 8167611--8167658 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
8167601 AAAAATTACG
8167611 ATAATAATAAAATTAGACAT
1 ATAA-AATAAAATTAGACAT
* *
8167631 -TATAATAAAATTATA-AT
1 ATAAAATAAAATTAGACAT
8167648 ATAAAATAAAA
1 ATAAAATAAAA
8167659 AACAAACTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 2 0.08
18 20 0.83
19 2 0.08
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (19 bp):
ATAAAATAAAATTAGACAT
Found at i:8176163 original size:3 final size:3
Alignment explanation
Indices: 8176157--8176184 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
8176147 TACGTTGTTG
8176157 CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT C
8176185 AAGTCTTTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:8184098 original size:5 final size:5
Alignment explanation
Indices: 8184088--8184117 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
8184078 AGTTGTAATC
8184088 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
8184118 CTTAATTTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:8184510 original size:4 final size:4
Alignment explanation
Indices: 8184503--8184527 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
8184493 TAAATAAATA
8184503 AAGG AAGG AAGG AAGG AAGG AAGG A
1 AAGG AAGG AAGG AAGG AAGG AAGG A
8184528 GAAGAATGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (4 bp):
AAGG
Found at i:8190279 original size:2 final size:2
Alignment explanation
Indices: 8190272--8190296 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8190262 ATACAAAAGC
8190272 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 A
8190297 GAGAGAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8199712 original size:16 final size:17
Alignment explanation
Indices: 8199688--8199721 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
8199678 CTGTTAACAA
8199688 TAACTAACAGTAACTAC
1 TAACTAACAGTAACTAC
*
8199705 TAAC-AACATTAACTAC
1 TAACTAACAGTAACTAC
8199721 T
1 T
8199722 TAATTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.47, C:0.24, G:0.03, T:0.26
Consensus pattern (17 bp):
TAACTAACAGTAACTAC
Found at i:8200432 original size:17 final size:19
Alignment explanation
Indices: 8200412--8200455 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
8200402 TTTTTTAAAA
8200412 TTTTAAAAATA-TTA-ATT
1 TTTTAAAAATATTTATATT
*
8200429 TTTTAACAATATTTATATT
1 TTTTAAAAATATTTATATT
*
8200448 TTGTAAAA
1 TTTTAAAA
8200456 TTTTAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 10 0.45
18 3 0.14
19 9 0.41
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (19 bp):
TTTTAAAAATATTTATATT
Found at i:8209552 original size:22 final size:22
Alignment explanation
Indices: 8209498--8209555 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 22
8209488 TCTATATAAT
*
8209498 TTTTTATTTTTTTAATAAACTA
1 TTTTTATATTTTTAATAAACTA
* ** *
8209520 TTTATATTATTTTTAATTCAGTA
1 TTTTTA-TATTTTTAATAAACTA
8209543 TTTTTATATTTTT
1 TTTTTATATTTTT
8209556 CATTTATTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
22 12 0.41
23 17 0.59
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTTTATATTTTTAATAAACTA
Found at i:8211835 original size:18 final size:18
Alignment explanation
Indices: 8211812--8211884 Score: 51
Period size: 18 Copynumber: 3.9 Consensus size: 18
8211802 AGGAAGTATA
8211812 AAATTAAAATAAAATTAT
1 AAATTAAAATAAAATTAT
* *
8211830 AAATT-ACATATAATATAT
1 AAATTAAAATAAAAT-TAT
*
8211848 AAATGTAAATGTAAAATTA-
1 AAAT-TAAA-ATAAAATTAT
* *
8211867 AAACTATAATTAAAATTA
1 AAATTA-AAATAAAATTA
8211885 AAAAAAAACA
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
17 7 0.16
18 22 0.51
19 6 0.14
20 3 0.07
21 5 0.12
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (18 bp):
AAATTAAAATAAAATTAT
Found at i:8236189 original size:7 final size:7
Alignment explanation
Indices: 8236171--8236206 Score: 63
Period size: 7 Copynumber: 5.0 Consensus size: 7
8236161 TCGTTTACTA
8236171 TGATGAAT
1 TGATG-AT
8236179 TGATGAT
1 TGATGAT
8236186 TGATGAT
1 TGATGAT
8236193 TGATGAT
1 TGATGAT
8236200 TGATGAT
1 TGATGAT
8236207 GACTGCTCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 23 0.82
8 5 0.18
ACGTcount: A:0.31, C:0.00, G:0.28, T:0.42
Consensus pattern (7 bp):
TGATGAT
Found at i:8261993 original size:25 final size:26
Alignment explanation
Indices: 8261949--8262016 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
8261939 TGTAAACATT
* *
8261949 AAAAAATA-TTAAGATGATTATAT-A
1 AAAAAATATTTAAAATTATTATATCA
8261973 AAAAAAT-TTATAAAATTATTATATCA
1 AAAAAATATT-TAAAATTATTATATCA
*
8261999 AAATAATATTTAAAATTA
1 AAAAAATATTTAAAATTA
8262017 ATATGGACGG
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
24 8 0.22
25 12 0.32
26 15 0.41
27 2 0.05
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (26 bp):
AAAAAATATTTAAAATTATTATATCA
Found at i:8267453 original size:24 final size:22
Alignment explanation
Indices: 8267426--8267469 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 22
8267416 CTTGTGTTTC
8267426 ATATTGTAT-TGTGAAAGTAATGCT
1 ATATT-TATGTGT-AAA-TAATGCT
8267450 ATATTTATGTGTAAATAATG
1 ATATTTATGTGTAAATAATG
8267470 TGTTATCATG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 5 0.26
23 6 0.32
24 8 0.42
ACGTcount: A:0.36, C:0.02, G:0.18, T:0.43
Consensus pattern (22 bp):
ATATTTATGTGTAAATAATGCT
Found at i:8267468 original size:22 final size:24
Alignment explanation
Indices: 8267426--8267469 Score: 58
Period size: 22 Copynumber: 1.9 Consensus size: 24
8267416 CTTGTGTTTC
8267426 ATATTGTATTGTGAAAGTAATGCT
1 ATATTGTATTGTGAAAGTAATGCT
8267450 ATATT-TA-TGTGTAAA-TAATG
1 ATATTGTATTGTG-AAAGTAATG
8267470 TGTTATCATG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 9 0.47
23 5 0.26
24 5 0.26
ACGTcount: A:0.36, C:0.02, G:0.18, T:0.43
Consensus pattern (24 bp):
ATATTGTATTGTGAAAGTAATGCT
Found at i:8277731 original size:18 final size:18
Alignment explanation
Indices: 8277680--8277738 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 18
8277670 TAAAAAATAT
8277680 AAATTTTCATTTAATTAA
1 AAATTTTCATTTAATTAA
* ** *
8277698 AAACTTAAATTAAATTAA
1 AAATTTTCATTTAATTAA
*
8277716 TAATTTTCATTTAATTAA
1 AAATTTTCATTTAATTAA
8277734 AAATT
1 AAATT
8277739 ATATATTACA
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (18 bp):
AAATTTTCATTTAATTAA
Done.