Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
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 44 of 143
Found at i:13793051 original size:17 final size:17
Alignment explanation
Indices: 13793029--13793062 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
13793019 CGTCGCTATA
*
13793029 AAACATGTATAAATATC
1 AAACATCTATAAATATC
*
13793046 AAACATCTATCAATATC
1 AAACATCTATAAATATC
13793063 TAAATAACAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.18, G:0.03, T:0.29
Consensus pattern (17 bp):
AAACATCTATAAATATC
Found at i:13795126 original size:11 final size:11
Alignment explanation
Indices: 13795112--13795137 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
13795102 ATACAATAAA
13795112 ATAAGTCTTTT
1 ATAAGTCTTTT
13795123 ATAAGTCTTTT
1 ATAAGTCTTTT
13795134 ATAA
1 ATAA
13795138 CTCAACAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.50
Consensus pattern (11 bp):
ATAAGTCTTTT
Found at i:13795881 original size:44 final size:44
Alignment explanation
Indices: 13795808--13795916 Score: 164
Period size: 44 Copynumber: 2.5 Consensus size: 44
13795798 CATCACTGTC
* * *
13795808 TCCATGGATGTGATTTGAGTAATCAACTTGTTATTTTTATTGCA
1 TCCATGGATGTGATTCGGGTGATCAACTTGTTATTTTTATTGCA
* *
13795852 TCCATGTATGTGATTCGGGTGATCGACTTGTTATTTTTATTGCA
1 TCCATGGATGTGATTCGGGTGATCAACTTGTTATTTTTATTGCA
*
13795896 TCCATGGATGTGGTTCGGGTG
1 TCCATGGATGTGATTCGGGTG
13795917 TCCCTGTTTC
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 58 1.00
ACGTcount: A:0.19, C:0.13, G:0.25, T:0.43
Consensus pattern (44 bp):
TCCATGGATGTGATTCGGGTGATCAACTTGTTATTTTTATTGCA
Found at i:13802896 original size:25 final size:24
Alignment explanation
Indices: 13802860--13802906 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
13802850 TTAGTCACTT
*
13802860 GAAAAAGAAAAATGAGAAAAAAAGG
1 GAAAAAGAAAAAAGA-AAAAAAAGG
13802885 GAAAAATG-AAAAAGAAAAAAAA
1 GAAAAA-GAAAAAAGAAAAAAAA
13802907 TTTAAATGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 7 0.35
25 12 0.60
26 1 0.05
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (24 bp):
GAAAAAGAAAAAAGAAAAAAAAGG
Found at i:13806747 original size:26 final size:25
Alignment explanation
Indices: 13806717--13806778 Score: 72
Period size: 26 Copynumber: 2.5 Consensus size: 25
13806707 AATTTTATTA
13806717 AGAGTAAAATTGTCAAAATTTGACC
1 AGAGTAAAATTGTCAAAATTTGACC
** * *
13806742 AGGAGTAAAATCATTAAAATTTTACC
1 A-GAGTAAAATTGTCAAAATTTGACC
13806768 AG-GTAAAATTG
1 AGAGTAAAATTG
13806779 GGATGATAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
24 7 0.23
25 2 0.07
26 21 0.70
ACGTcount: A:0.45, C:0.10, G:0.16, T:0.29
Consensus pattern (25 bp):
AGAGTAAAATTGTCAAAATTTGACC
Found at i:13814404 original size:36 final size:36
Alignment explanation
Indices: 13814357--13814460 Score: 127
Period size: 36 Copynumber: 2.9 Consensus size: 36
13814347 TGGTCGTTAT
***
13814357 TCATTTTACTCCCTATTGACATGTAGGTCATGATGC
1 TCATTTTACTCCCTATTGACACAAAGGTCATGATGC
* *
13814393 TCATTTTACTCCCTATTGGCCCAAAGGTCATGATGC
1 TCATTTTACTCCCTATTGACACAAAGGTCATGATGC
* * * *
13814429 TCATTTTACTCCTTGTTGACCCGAAGGTCATG
1 TCATTTTACTCCCTATTGACACAAAGGTCATG
13814461 CCTATTACCA
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 59 1.00
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (36 bp):
TCATTTTACTCCCTATTGACACAAAGGTCATGATGC
Found at i:13821926 original size:6 final size:6
Alignment explanation
Indices: 13821906--13821938 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
13821896 TTTATCATAA
13821906 TTTTT- TTTCTTC TTTTTC TTTTTC TTTTTC TTT
1 TTTTTC TTT-TTC TTTTTC TTTTTC TTTTTC TTT
13821939 CTTGTTACGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 3 0.12
6 20 0.77
7 3 0.12
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTC
Found at i:13821930 original size:12 final size:13
Alignment explanation
Indices: 13821906--13821941 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
13821896 TTTATCATAA
13821906 TTTTT-TTTCTTC
1 TTTTTCTTTCTTC
13821918 TTTTTCTTT-TTC
1 TTTTTCTTTCTTC
13821930 TTTTTCTTTCTT
1 TTTTTCTTTCTT
13821942 GTTACGTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 17 0.77
13 5 0.23
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTCTTTCTTC
Found at i:13822547 original size:34 final size:34
Alignment explanation
Indices: 13822490--13822555 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
13822480 ATATATATGG
*
13822490 AAATGCAATGACAATGTAGATGCAGCGACAATAA
1 AAATGCAATGACAATATAGATGCAGCGACAATAA
* *
13822524 AAATGCAATGACATTAATA-ATGCAGGGACAAT
1 AAATGCAATGACAAT-ATAGATGCAGCGACAAT
13822556 TATACTACAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 26 0.93
35 2 0.07
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.20
Consensus pattern (34 bp):
AAATGCAATGACAATATAGATGCAGCGACAATAA
Found at i:13849259 original size:33 final size:33
Alignment explanation
Indices: 13849205--13849280 Score: 107
Period size: 33 Copynumber: 2.3 Consensus size: 33
13849195 AATGTTATCA
* *
13849205 AACATCTATCAGGGCAGCTTCATGAATGATTGG
1 AACATCTATCAAGGCAACTTCATGAATGATTGG
* * *
13849238 AACAACTATCAAGGCAACTTCATTATTGATTGG
1 AACATCTATCAAGGCAACTTCATGAATGATTGG
13849271 AACATCTATC
1 AACATCTATC
13849281 GGCACAACTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (33 bp):
AACATCTATCAAGGCAACTTCATGAATGATTGG
Found at i:13849289 original size:33 final size:32
Alignment explanation
Indices: 13849205--13849293 Score: 99
Period size: 33 Copynumber: 2.7 Consensus size: 32
13849195 AATGTTATCA
*
13849205 AACATCTATCAGGGCAGCTTCATGAATGATTGG
1 AACATCTATCA-GGCAACTTCATGAATGATTGG
* * *
13849238 AACAACTATCAAGGCAACTTCATTATTGATTGG
1 AACATCTATC-AGGCAACTTCATGAATGATTGG
13849271 AACATCTATC-GGCACAACTTCAT
1 AACATCTATCAGG--CAACTTCAT
13849294 CATTCTATTC
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
31 2 0.04
33 45 0.94
34 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (32 bp):
AACATCTATCAGGCAACTTCATGAATGATTGG
Found at i:13854866 original size:17 final size:18
Alignment explanation
Indices: 13854844--13854877 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
13854834 ATAACAATTA
13854844 TGAAGATTTTGG-ATATG
1 TGAAGATTTTGGCATATG
13854861 TGAAGATTTTGGCATAT
1 TGAAGATTTTGGCATAT
13854878 TCCCTAAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.29, C:0.03, G:0.26, T:0.41
Consensus pattern (18 bp):
TGAAGATTTTGGCATATG
Found at i:13857781 original size:43 final size:43
Alignment explanation
Indices: 13857733--13857817 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
13857723 GACACATTGG
*
13857733 AATATATTTAAAATAGGAAAGAATAAGAAAATTTACCGAAAAC
1 AATATATTTAAAATAGGAAAGAATAAGAAAAGTTACCGAAAAC
* *
13857776 AATATATTTAAAATAGGAAAGAATTAGAAAAGTTACCTAAAA
1 AATATATTTAAAATAGGAAAGAATAAGAAAAGTTACCGAAAA
13857818 AATCCTTCAG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.58, C:0.06, G:0.12, T:0.25
Consensus pattern (43 bp):
AATATATTTAAAATAGGAAAGAATAAGAAAAGTTACCGAAAAC
Found at i:13870406 original size:37 final size:37
Alignment explanation
Indices: 13870356--13870443 Score: 126
Period size: 37 Copynumber: 2.4 Consensus size: 37
13870346 TCCAAATTTG
*
13870356 CACCCAAAACTGTCG-CAGCATGAGCA-TCTCTAGATTA
1 CACCCAAAACTGTCGCCA-CATGAGCACT-TCCAGATTA
*
13870393 CACCCAAAACTGTCGCCACATGAGCACTTCCAGATTG
1 CACCCAAAACTGTCGCCACATGAGCACTTCCAGATTA
13870430 CACCCAAAACTGTC
1 CACCCAAAACTGTC
13870444 ATCACAAGAA
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
37 44 0.94
38 3 0.06
ACGTcount: A:0.32, C:0.34, G:0.15, T:0.19
Consensus pattern (37 bp):
CACCCAAAACTGTCGCCACATGAGCACTTCCAGATTA
Found at i:13873132 original size:17 final size:17
Alignment explanation
Indices: 13873112--13873169 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 17
13873102 TAATTGTGCT
13873112 TGCATTTTTATTGTCAC
1 TGCATTTTTATTGTCAC
*
13873129 TGCATTTTTATTGTCGC
1 TGCATTTTTATTGTCAC
* ** *
13873146 TGCATCTACATTGTCAT
1 TGCATTTTTATTGTCAC
13873163 TGCATTT
1 TGCATTT
13873170 CCATATATAC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 34 1.00
ACGTcount: A:0.17, C:0.19, G:0.14, T:0.50
Consensus pattern (17 bp):
TGCATTTTTATTGTCAC
Found at i:13874381 original size:37 final size:37
Alignment explanation
Indices: 13874298--13874382 Score: 127
Period size: 37 Copynumber: 2.3 Consensus size: 37
13874288 CAAATTTACG
* * *
13874298 CCCAAAACTATCGTCGCATGAGCATCTCTAGATTGCA
1 CCCAAAACTGTCGCCACATGAGCATCTCTAGATTGCA
13874335 CCCAAAACTGTCGCCACATGAGCA-CTTCTAGATTGCA
1 CCCAAAACTGTCGCCACATGAGCATC-TCTAGATTGCA
13874372 CCCAAAACTGT
1 CCCAAAACTGT
13874383 TGTCACAGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
36 1 0.02
37 43 0.98
ACGTcount: A:0.31, C:0.32, G:0.15, T:0.22
Consensus pattern (37 bp):
CCCAAAACTGTCGCCACATGAGCATCTCTAGATTGCA
Found at i:13874409 original size:37 final size:37
Alignment explanation
Indices: 13874324--13874420 Score: 104
Period size: 37 Copynumber: 2.6 Consensus size: 37
13874314 CATGAGCATC
* * *
13874324 TCTAGATTGCACCCAAAACTGTCGCCACATGAGCACT
1 TCTAGAATGCACCCAAAACTGTCGCCACAGGAACACT
* * * * *
13874361 TCTAGATTGCACCCAAAACTGTTGTCACAGGAATATT
1 TCTAGAATGCACCCAAAACTGTCGCCACAGGAACACT
* *
13874398 TCTGGAATGCACCCAAGACTGTC
1 TCTAGAATGCACCCAAAACTGTC
13874421 ATTGCATAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (37 bp):
TCTAGAATGCACCCAAAACTGTCGCCACAGGAACACT
Found at i:13885068 original size:18 final size:18
Alignment explanation
Indices: 13885023--13885060 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
13885013 CAACAGCAAG
*
13885023 CTGAAAAAGAAGAAGATC
1 CTGAAGAAGAAGAAGATC
*
13885041 CTGAAGAAGAAGAGGATC
1 CTGAAGAAGAAGAAGATC
13885059 CT
1 CT
13885061 AAGGAAGATT
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:0.47, C:0.13, G:0.26, T:0.13
Consensus pattern (18 bp):
CTGAAGAAGAAGAAGATC
Found at i:13887297 original size:30 final size:30
Alignment explanation
Indices: 13887260--13887450 Score: 106
Period size: 30 Copynumber: 6.4 Consensus size: 30
13887250 AGAAAGTTTG
* *
13887260 GAAAGTTT-GGGGGCTAAATTTAAATTTTTA
1 GAAAGTTTAGGGGGCAAAATGTAAA-TTTTA
* *
13887290 GAGAGTTTAGGGGTCAAAATGTAAATTTTA
1 GAAAGTTTAGGGGGCAAAATGTAAATTTTA
* * * *
13887320 GAAAGTTTAAGGGTC-AAATCTAAATTTTG
1 GAAAGTTTAGGGGGCAAAATGTAAATTTTA
** * *
13887349 GAAAGTTTAAAGGTC-AAAT-TCAAATTTTT
1 GAAAGTTTAGGGGGCAAAATGT-AAATTTTA
* ** * *
13887378 GAAGAGTTTAGTGGTTAATAT-CAAATTTTTA
1 GAA-AGTTTAGGGGGCAAAATGTAAA-TTTTA
* * * *
13887409 -AAGAGTTTAGGGGTCAAAATGTGATTTTTG
1 GAA-AGTTTAGGGGGCAAAATGTAAATTTTA
13887439 GAAAGTTTAGGG
1 GAAAGTTTAGGG
13887451 ACTTTCTAAG
Statistics
Matches: 131, Mismatches: 23, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
28 1 0.01
29 40 0.31
30 67 0.51
31 23 0.18
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.37
Consensus pattern (30 bp):
GAAAGTTTAGGGGGCAAAATGTAAATTTTA
Found at i:13887368 original size:89 final size:90
Alignment explanation
Indices: 13887275--13887447 Score: 210
Period size: 89 Copynumber: 1.9 Consensus size: 90
13887265 TTTGGGGGCT
* *
13887275 AAATTTAAATTTTT-AGAGAGTTTAGGGGTCAAAATGTAAA-TTTTAGAA-AGTTTAAGGGTC-A
1 AAATTCAAATTTTTGA-AGAGTTTAGGGGTCAAAAT-CAAATTTTTA-AAGAGTTTAAGGGTCAA
13887336 AATCTAAATTTTGGAAAGTTTAAAGGTC
63 AATCTAAATTTTGGAAAGTTTAAAGGTC
* * * *
13887364 AAATTCAAATTTTTGAAGAGTTTAGTGGTTAATATCAAATTTTTAAAGAGTTTAGGGGTCAAAAT
1 AAATTCAAATTTTTGAAGAGTTTAGGGGTCAAAATCAAATTTTTAAAGAGTTTAAGGGTCAAAAT
* * *
13887429 GTGATTTTTGGAAAGTTTA
66 CTAAATTTTGGAAAGTTTA
13887448 GGGACTTTCT
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
88 5 0.07
89 45 0.63
90 21 0.30
ACGTcount: A:0.38, C:0.04, G:0.20, T:0.38
Consensus pattern (90 bp):
AAATTCAAATTTTTGAAGAGTTTAGGGGTCAAAATCAAATTTTTAAAGAGTTTAAGGGTCAAAAT
CTAAATTTTGGAAAGTTTAAAGGTC
Found at i:13888709 original size:11 final size:12
Alignment explanation
Indices: 13888681--13888726 Score: 51
Period size: 11 Copynumber: 4.0 Consensus size: 12
13888671 CGGGCTGTGT
*
13888681 AGCTGTCGTGGC
1 AGCTGACGTGGC
13888693 AGCTGACGTGG-
1 AGCTGACGTGGC
*
13888704 AGCTGATGTGGC
1 AGCTGACGTGGC
*
13888716 AG-TGATGTGGC
1 AGCTGACGTGGC
13888727 CCTAAGGAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
11 19 0.61
12 12 0.39
ACGTcount: A:0.15, C:0.17, G:0.43, T:0.24
Consensus pattern (12 bp):
AGCTGACGTGGC
Found at i:13889377 original size:49 final size:50
Alignment explanation
Indices: 13889305--13889584 Score: 213
Period size: 49 Copynumber: 5.7 Consensus size: 50
13889295 CACCGTTATA
*
13889305 GCTTCAATCTTTCCCATCATATCTCT-ATGGTACAAGGTTTGTCGTTGCG
1 GCTTCAACCTTTCCCATCATATCTCTCATGGTACAAGGTTTGTCGTTGCG
* * *
13889354 GCTTCAACCTTTTCCTTCATATCTC-CATGGTACAAGATTTTGTCGTTGCG
1 GCTTCAACCTTTCCCATCATATCTCTCATGGTACAAG-GTTTGTCGTTGCG
* * * * * *
13889404 ACTTCAATCTTTCCCATCACT-TCTTTGA-GGTATAAGGTTTGCCGTTGCG
1 GCTTCAACCTTTCCCATCA-TATCTCTCATGGTACAAGGTTTGTCGTTGCG
* * * * **
13889453 GCTTTAACCTTTCCC-TCCATATCT-TCATGGTAC-AGGATTCGCCATAACG
1 GCTTCAACCTTTCCCAT-CATATCTCTCATGGTACAAGG-TTTGTCGTTGCG
* ** * * * * *
13889502 GCTTCAATCTTTCCCATCACGTTTCTGA-GGTACAAGGTTT-ACTATTGCA
1 GCTTCAACCTTTCCCATCATATCTCTCATGGTACAAGGTTTGTC-GTTGCG
13889551 GCTTCAACCTTTCCC-TCCATATCT-TCATGGTACA
1 GCTTCAACCTTTCCCAT-CATATCTCTCATGGTACA
13889585 GGATTCGTCA
Statistics
Matches: 179, Mismatches: 38, Indels: 28
0.73 0.16 0.11
Matches are distributed among these distances:
48 11 0.06
49 123 0.69
50 43 0.24
51 2 0.01
ACGTcount: A:0.20, C:0.27, G:0.16, T:0.37
Consensus pattern (50 bp):
GCTTCAACCTTTCCCATCATATCTCTCATGGTACAAGGTTTGTCGTTGCG
Found at i:13889401 original size:50 final size:49
Alignment explanation
Indices: 13889305--13889682 Score: 200
Period size: 49 Copynumber: 7.7 Consensus size: 49
13889295 CACCGTTATA
* *
13889305 GCTTCAATCTTTCCCATCATATCTCTATGGTACAAGGTTTGTCGTTGCG
1 GCTTCAACCTTTCCCATCATATCTCCATGGTACAAGGTTTGTCGTTGCG
* * *
13889354 GCTTCAACCTTTTCCTTCATATCTCCATGGTACAAGATTTTGTCGTTGCG
1 GCTTCAACCTTTCCCATCATATCTCCATGGTACAAG-GTTTGTCGTTGCG
* * ** * *
13889404 ACTTCAATCTTTCCCATCACT-TCTTTGA-GGTATAAGGTTTGCCGTTGCG
1 GCTTCAACCTTTCCCATCA-TATC-TCCATGGTACAAGGTTTGTCGTTGCG
* * * * * **
13889453 GCTTTAACCTTTCCC-TCCATATCTTCATGGTAC-AGGATTCGCCATAACG
1 GCTTCAACCTTTCCCAT-CATATCTCCATGGTACAAGG-TTTGTCGTTGCG
* * * * * *
13889502 GCTTCAATCTTTCCCATCACGTTTCT-GA-GGTACAAGGTTT-ACTATTGCA
1 GCTTCAACCTTTCCCATCA--TATCTCCATGGTACAAGGTTTGTC-GTTGCG
* * * * **
13889551 GCTTCAACCTTTCCC-TCCATATCTTCATGGTAC-AGGATTCGTCATAGAA
1 GCTTCAACCTTTCCCAT-CATATCTCCATGGTACAAGG-TTTGTCGTTGCG
* * * * * * * * *** **
13889600 GCTTCCATCTTTGCTATCATGTCTCTAAGGTATAAGGTTCACCGTTGTA
1 GCTTCAACCTTTCCCATCATATCTCCATGGTACAAGGTTTGTCGTTGCG
13889649 GCTTCAACCTTTCCC-TCCATATCTCCATGGTACA
1 GCTTCAACCTTTCCCAT-CATATCTCCATGGTACA
13889683 GGATTCGCTA
Statistics
Matches: 248, Mismatches: 61, Indels: 40
0.71 0.17 0.11
Matches are distributed among these distances:
47 4 0.02
48 15 0.06
49 176 0.71
50 46 0.19
51 7 0.03
ACGTcount: A:0.21, C:0.27, G:0.16, T:0.37
Consensus pattern (49 bp):
GCTTCAACCTTTCCCATCATATCTCCATGGTACAAGGTTTGTCGTTGCG
Found at i:13889541 original size:98 final size:98
Alignment explanation
Indices: 13889305--13889765 Score: 473
Period size: 98 Copynumber: 4.7 Consensus size: 98
13889295 CACCGTTATA
* * * ** *
13889305 GCTTCAATCTTTCCCATCATATCTCT-ATGGTACAAGGTTTGTCGTTGCGGCTTCAACCTTTTCC
1 GCTTCAATCTTTCCCATCATGTTTCTGA-GGTATAAGGTTTACCGTTGCGGCTTCAACCTTTCCC
* * * * * **
13889369 TTCATATCTCCATGGTACAAGATTTTGTCGTTGCG
65 TCCATATCTCCATGGTACAGGA-TTCGCCATAACG
* * *
13889404 ACTTCAATCTTTCCCATCACT-TCTT-TGAGGTATAAGGTTTGCCGTTGCGGCTTTAACCTTTCC
1 GCTTCAATCTTTCCCATCA-TGT-TTCTGAGGTATAAGGTTTACCGTTGCGGCTTCAACCTTTCC
*
13889467 CTCCATATCTTCATGGTACAGGATTCGCCATAACG
64 CTCCATATCTCCATGGTACAGGATTCGCCATAACG
* * ** *
13889502 GCTTCAATCTTTCCCATCACGTTTCTGAGGTACAAGGTTTACTATTGCAGCTTCAACCTTTCCCT
1 GCTTCAATCTTTCCCATCATGTTTCTGAGGTATAAGGTTTACCGTTGCGGCTTCAACCTTTCCCT
* * *
13889567 CCATATCTTCATGGTACAGGATTCGTCATAGA-A
66 CCATATCTCCATGGTACAGGATTCGCCATA-ACG
* * * * * * **
13889600 GCTTCCATCTTTGCTATCATGTCTCTAAGGTATAAGGTTCACCGTTGTAGCTTCAACCTTTCCCT
1 GCTTCAATCTTTCCCATCATGTTTCTGAGGTATAAGGTTTACCGTTGCGGCTTCAACCTTTCCCT
* *
13889665 CCATATCTCCATGGTACAGGATTCGCTATAGCG
66 CCATATCTCCATGGTACAGGATTCGCCATAACG
* * * * *
13889698 GCTTTAATATTTCCCATCATGTCTT-TGAGGAATAAGGTTCACCGTTGCGGCTTCAACCTTTCCT
1 GCTTCAATCTTTCCCATCATGT-TTCTGAGGTATAAGGTTTACCGTTGCGGCTTCAACCTTTCCC
13889762 TCCA
65 TCCA
13889766 AACCTGTAGA
Statistics
Matches: 303, Mismatches: 51, Indels: 17
0.82 0.14 0.05
Matches are distributed among these distances:
97 2 0.01
98 225 0.74
99 73 0.24
100 3 0.01
ACGTcount: A:0.21, C:0.27, G:0.16, T:0.36
Consensus pattern (98 bp):
GCTTCAATCTTTCCCATCATGTTTCTGAGGTATAAGGTTTACCGTTGCGGCTTCAACCTTTCCCT
CCATATCTCCATGGTACAGGATTCGCCATAACG
Found at i:13901955 original size:20 final size:21
Alignment explanation
Indices: 13901927--13901966 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
13901917 CAAGGACAAA
*
13901927 ATTGTAAAA-ATTTTAAAATT
1 ATTGAAAAAGATTTTAAAATT
*
13901947 ATTGAAAAAGTTTTTAAAAT
1 ATTGAAAAAGATTTTAAAAT
13901967 AAAAAAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.42
Consensus pattern (21 bp):
ATTGAAAAAGATTTTAAAATT
Found at i:13912556 original size:21 final size:21
Alignment explanation
Indices: 13912505--13912557 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
13912495 ATTAACCCCA
13912505 AACCTTAAACCTTCACACTAT
1 AACCTTAAACCTTCACACTAT
* *
13912526 AATCC-CAAACCTTGA-ACTTAT
1 AA-CCTTAAACCTTCACAC-TAT
13912547 AACCTTAAACC
1 AACCTTAAACC
13912558 CTTAAACCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
20 4 0.15
21 20 0.77
22 2 0.08
ACGTcount: A:0.40, C:0.32, G:0.02, T:0.26
Consensus pattern (21 bp):
AACCTTAAACCTTCACACTAT
Found at i:13912584 original size:28 final size:28
Alignment explanation
Indices: 13912545--13912606 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
13912535 CCTTGAACTT
*
13912545 ATAACCTTAAACCCTTAAAC-CATGAACCC
1 ATAACCTTAAA-CCTCAAACTCAT-AACCC
13912574 A-AACCTTAAACCTCAAACTCATAACCC
1 ATAACCTTAAACCTCAAACTCATAACCC
13912601 ATAACC
1 ATAACC
13912607 CCAAACGCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 13 0.43
28 16 0.53
29 1 0.03
ACGTcount: A:0.44, C:0.35, G:0.02, T:0.19
Consensus pattern (28 bp):
ATAACCTTAAACCTCAAACTCATAACCC
Found at i:13915356 original size:36 final size:37
Alignment explanation
Indices: 13915304--13915377 Score: 105
Period size: 36 Copynumber: 2.0 Consensus size: 37
13915294 ATCATAATCA
*
13915304 TGGGTATGGACGTGTTTTCAGTGTCAAAACCT-TTTT
1 TGGGTATGGACATGTTTTCAGTGTCAAAACCTCTTTT
* * *
13915340 TGGGTCTGGACATGTTTTGATTGTCAAAACCTCTTTT
1 TGGGTATGGACATGTTTTCAGTGTCAAAACCTCTTTT
13915377 T
1 T
13915378 TGGAAATGGA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
36 28 0.85
37 5 0.15
ACGTcount: A:0.19, C:0.15, G:0.23, T:0.43
Consensus pattern (37 bp):
TGGGTATGGACATGTTTTCAGTGTCAAAACCTCTTTT
Found at i:13917906 original size:27 final size:27
Alignment explanation
Indices: 13917850--13917915 Score: 89
Period size: 27 Copynumber: 2.3 Consensus size: 27
13917840 TTGATATTTT
13917850 ATTATGAGTATCGATACTCTCGAGGTGAA
1 ATTATGA-TATCGATAC-CTCGAGGTGAA
13917879 ATTATAGATATCGATA-CTCGAGGTGAA
1 ATTAT-GATATCGATACCTCGAGGTGAA
13917906 ATTATCGATA
1 ATTAT-GATA
13917916 CCTATCTTGA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
27 20 0.57
29 13 0.37
30 2 0.06
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (27 bp):
ATTATGATATCGATACCTCGAGGTGAA
Found at i:13919902 original size:16 final size:15
Alignment explanation
Indices: 13919872--13919905 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
13919862 TTATCAAATC
*
13919872 TAAAATAAAAGTAAT
1 TAAAATAAAAATAAT
13919887 TAAAATAAAAAATAAT
1 TAAAAT-AAAAATAAT
13919903 TAA
1 TAA
13919906 TTAAATGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (15 bp):
TAAAATAAAAATAAT
Found at i:13942490 original size:25 final size:25
Alignment explanation
Indices: 13942456--13942505 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
13942446 TGTTGTAAGA
13942456 TAGTGTGGAGTAAGGAACCTCCGTT
1 TAGTGTGGAGTAAGGAACCTCCGTT
13942481 TAGTGTGGAGTAAGGAACCTCCGTT
1 TAGTGTGGAGTAAGGAACCTCCGTT
13942506 AGCTTTGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.28
Consensus pattern (25 bp):
TAGTGTGGAGTAAGGAACCTCCGTT
Found at i:13944038 original size:122 final size:122
Alignment explanation
Indices: 13943818--13944173 Score: 523
Period size: 123 Copynumber: 2.9 Consensus size: 122
13943808 TTCTACTATC
* * *
13943818 TTTCCTTTTATTTTAATATCCCATATTAAAATAGAAATATGTATCTTTAAAGAAATATATGGAAG
1 TTTCCTTTTA-TATAATATCTCATATTAAAATGGAAATA-GT-TCTTTAAAGAAATATATGGAAG
*
13943883 GTTTATT-----A-TAT-TCTTTCCAAAAGGATATTAACTTCCATGTTTTTAATATT-AA
63 GTTTATTAAAACATTATACCTTTCCAAAAGGATATTAACTTCCATGTTTTTAATATTCAA
13943935 TTTCCTTTTATATAATATCTCATATTAAAATGGAAATA-TTCGTTTAAAGAAATATATGGAAGGT
1 TTTCCTTTTATATAATATCTCATATTAAAATGGAAATAGTTC-TTTAAAGAAATATATGGAAGGT
* * *
13943999 TTATTAAAACATTATAGCCTTTCGAAATGGATATTAACTTTCATGTTTTTAATATTCAA
65 TTATTAAAACATTATA-CCTTTCCAAAAGGATATTAACTTCCATGTTTTTAATATTCAA
13944058 TTTCCTTTTATATAATATCTCATATTAAAATGGAAATAGTTCTTTAAAGAAATATATGGAAGGTT
1 TTTCCTTTTATATAATATCTCATATTAAAATGGAAATAGTTCTTTAAAGAAATATATGGAAGGTT
*
13944123 TATTAAAACATTATATCCTTTCCAAAAGGATATTAACTTCTATGTTTTTAA
66 TATTAAAACATTATA-CCTTTCCAAAAGGATATTAACTTCCATGTTTTTAA
13944174 GAATTAATGA
Statistics
Matches: 216, Mismatches: 12, Indels: 16
0.89 0.05 0.07
Matches are distributed among these distances:
113 2 0.01
114 28 0.13
116 25 0.12
117 10 0.05
119 1 0.00
120 3 0.01
122 35 0.16
123 109 0.50
124 3 0.01
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (122 bp):
TTTCCTTTTATATAATATCTCATATTAAAATGGAAATAGTTCTTTAAAGAAATATATGGAAGGTT
TATTAAAACATTATACCTTTCCAAAAGGATATTAACTTCCATGTTTTTAATATTCAA
Found at i:13944304 original size:106 final size:106
Alignment explanation
Indices: 13944107--13944326 Score: 298
Period size: 106 Copynumber: 2.1 Consensus size: 106
13944097 TTCTTTAAAG
* * **
13944107 AAATATATGGAAGGTTTATTAAAACATTATATCCTTTCCAAAAGGATATTAACTTCTATGTTTTT
1 AAAT-TATGGAAGGTTTATTAAAACATTATATCATTTCCAAAAGGATATTAACTTCCATCATTTT
*
13944172 AAGAATTAATGAATTAATATAATTAATAATTATAATTACGCT
65 AAGAATTAATGAATCAATATAATTAATAATTATAATTACGCT
* *
13944214 AAATTATGGAAGGTTTATTGAAACATTGTATCATTTCCAAAAGGATATTAACTTCCA-CATTTTA
1 AAATTATGGAAGGTTTATTAAAACATTATATCATTTCCAAAAGGATATTAACTTCCATCATTTTA
* * * * * *
13944278 ATATTTAATGAAATCATTATACTTAATAATTATAATTATGTT
66 AGAATTAATG-AATCAATATAATTAATAATTATAATTACGCT
13944320 AAATTAT
1 AAATTAT
13944327 ATTAAGTAAA
Statistics
Matches: 99, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
105 13 0.13
106 82 0.83
107 4 0.04
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (106 bp):
AAATTATGGAAGGTTTATTAAAACATTATATCATTTCCAAAAGGATATTAACTTCCATCATTTTA
AGAATTAATGAATCAATATAATTAATAATTATAATTACGCT
Found at i:13948306 original size:14 final size:14
Alignment explanation
Indices: 13948287--13948329 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
13948277 TTGAAATAAT
13948287 GATTACTTTTTCTA
1 GATTACTTTTTCTA
**
13948301 GATTACTTTGGCTA
1 GATTACTTTTTCTA
13948315 GATTACTTTTTCTA
1 GATTACTTTTTCTA
13948329 G
1 G
13948330 CACTTGCATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.21, C:0.14, G:0.14, T:0.51
Consensus pattern (14 bp):
GATTACTTTTTCTA
Found at i:13975725 original size:23 final size:22
Alignment explanation
Indices: 13975699--13975742 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
13975689 AAAATATTTC
*
13975699 ATTAAATAATTTGGGTTGAATTA
1 ATTAAATAAATTGGGTT-AATTA
*
13975722 ATTAATTAAATTGGGTTAATT
1 ATTAAATAAATTGGGTTAATT
13975743 TTATTTCTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (22 bp):
ATTAAATAAATTGGGTTAATTA
Found at i:14000347 original size:24 final size:25
Alignment explanation
Indices: 14000313--14000361 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 25
14000303 ACCGCTAAAG
14000313 AACATGATCTTTAGCGGCG-CTTTT
1 AACATGATCTTTAGCGGCGCCTTTT
*
14000337 AACATGCTCTTTAGCGGCGCCTTTT
1 AACATGATCTTTAGCGGCGCCTTTT
14000362 CTCGCAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.37
Consensus pattern (25 bp):
AACATGATCTTTAGCGGCGCCTTTT
Found at i:14000427 original size:43 final size:43
Alignment explanation
Indices: 14000337--14000481 Score: 182
Period size: 43 Copynumber: 3.3 Consensus size: 43
14000327 CGGCGCTTTT
* * * *
14000337 AACATGCTCTTTAGCGGCGCCTTTTCTCGCAAATGCCGCTAATG
1 AACATGGTCTTTAGCGGCG-CTTTTCCCGCAAACGCCGCTAAAG
* * *
14000381 AACATGGTCTTTAGCGGCGCTTTTCCCGGAAACACCACTAAAG
1 AACATGGTCTTTAGCGGCGCTTTTCCCGCAAACGCCGCTAAAG
*** *
14000424 AACATGGTCTTTAATTGCGCTTTTCCCACAAACGCCGCTAAAG
1 AACATGGTCTTTAGCGGCGCTTTTCCCGCAAACGCCGCTAAAG
14000467 AACATGGTCTTTAGC
1 AACATGGTCTTTAGC
14000482 AACATTTTTC
Statistics
Matches: 85, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
43 67 0.79
44 18 0.21
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (43 bp):
AACATGGTCTTTAGCGGCGCTTTTCCCGCAAACGCCGCTAAAG
Found at i:14000491 original size:43 final size:43
Alignment explanation
Indices: 14000337--14000507 Score: 171
Period size: 43 Copynumber: 4.0 Consensus size: 43
14000327 CGGCGCTTTT
* * * * * * *
14000337 AACATGCTCTTTAGCGGCGCCTTTTCTCGCAAATGCCGCTAATG
1 AACATGGTCTTTAGCAGCG-CTTTTCCCACAAACGCCACTAAAG
* ** *
14000381 AACATGGTCTTTAGCGGCGCTTTTCCCGGAAACACCACTAAAG
1 AACATGGTCTTTAGCAGCGCTTTTCCCACAAACGCCACTAAAG
*** *
14000424 AACATGGTCTTTAATTGCGCTTTTCCCACAAACGCCGCTAAAG
1 AACATGGTCTTTAGCAGCGCTTTTCCCACAAACGCCACTAAAG
* **
14000467 AACATGGTCTTTAGCAACATTTTTCCCACAAACGCCACTAA
1 AACATGGTCTTTAGCAGCGCTTTTCCCACAAACGCCACTAA
14000508 TATTAACAAA
Statistics
Matches: 106, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
43 88 0.83
44 18 0.17
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (43 bp):
AACATGGTCTTTAGCAGCGCTTTTCCCACAAACGCCACTAAAG
Found at i:14002949 original size:22 final size:23
Alignment explanation
Indices: 14002923--14002966 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
14002913 TAAAACGCTG
*
14002923 CATTAGTATAATAT-CAAAGCAA
1 CATTAGTAAAATATCCAAAGCAA
14002945 CATTAGTAAAATATCCAAAGCA
1 CATTAGTAAAATATCCAAAGCA
14002967 GGCACAAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.50, C:0.16, G:0.09, T:0.25
Consensus pattern (23 bp):
CATTAGTAAAATATCCAAAGCAA
Found at i:14003478 original size:17 final size:17
Alignment explanation
Indices: 14003423--14003478 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
14003413 AAATAATTTT
14003423 TTTTTAGTTTATATAAG
1 TTTTTAGTTTATATAAG
* * * *
14003440 TTTTAAAATTT-TAGAATT
1 TTTT-TAGTTTATATAA-G
14003458 TTTTTAGTTTATATAAG
1 TTTTTAGTTTATATAAG
14003475 TTTT
1 TTTT
14003479 AAAATAATTG
Statistics
Matches: 28, Mismatches: 8, Indels: 6
0.67 0.19 0.14
Matches are distributed among these distances:
17 16 0.57
18 12 0.43
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (17 bp):
TTTTTAGTTTATATAAG
Found at i:14003478 original size:18 final size:18
Alignment explanation
Indices: 14003422--14003478 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
14003412 AAAATAATTT
14003422 TTTTTTAGTTTATATAAG
1 TTTTTTAGTTTATATAAG
** * * *
14003440 TTTTAAAATTT-TAGAAT
1 TTTTTTAGTTTATATAAG
14003457 TTTTTTAGTTTATATAAG
1 TTTTTTAGTTTATATAAG
14003475 TTTT
1 TTTT
14003479 AAAATAATTG
Statistics
Matches: 28, Mismatches: 10, Indels: 2
0.70 0.25 0.05
Matches are distributed among these distances:
17 12 0.43
18 16 0.57
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (18 bp):
TTTTTTAGTTTATATAAG
Found at i:14003591 original size:41 final size:41
Alignment explanation
Indices: 14003549--14003959 Score: 456
Period size: 41 Copynumber: 10.1 Consensus size: 41
14003539 AAATTATACT
* * *
14003549 TTTAGCGGTGCTTCCTCATAAATGCCGCTAATGCTCTGA-C
1 TTTAGCGGCGCTTTCTCATAAACGCCGCTAATGCTCTGACC
* *
14003589 TTTAGCGACGCTTTCTCATAAACGCCGCTAATGCTCTAACC
1 TTTAGCGGCGCTTTCTCATAAACGCCGCTAATGCTCTGACC
*
14003630 TTTAGCGGCGCTTT-TCAATAAACGCCACTAATGCTCTGACC
1 TTTAGCGGCGCTTTCTC-ATAAACGCCGCTAATGCTCTGACC
* * *
14003671 TTTAGTGGCGC-TTCCCATAAACACCGCTAATGCTCTGACC
1 TTTAGCGGCGCTTTCTCATAAACGCCGCTAATGCTCTGACC
* * *
14003711 TTTAGCGGCGCTTTCCCATAAACACCGCTAATGCTTTGACC
1 TTTAGCGGCGCTTTCTCATAAACGCCGCTAATGCTCTGACC
* * * *
14003752 TTTAACGGCGCTTT-TCAATAAACGTCGCTAATGCCCTAACC
1 TTTAGCGGCGCTTTCTC-ATAAACGCCGCTAATGCTCTGACC
* * * *
14003793 TTTAGTGGCACTTTCTCATAAACGCCACTAATGCCCTGACC
1 TTTAGCGGCGCTTTCTCATAAACGCCGCTAATGCTCTGACC
* * ** *
14003834 TTTTGCAGCGCTTTCTCATAAACGCTACTAATGCCCTGACC
1 TTTAGCGGCGCTTTCTCATAAACGCCGCTAATGCTCTGACC
* * *
14003875 TTTAGCGGCGCTTTCTCATCAACGCCGCTAATGCCCTAACC
1 TTTAGCGGCGCTTTCTCATAAACGCCGCTAATGCTCTGACC
* * * *
14003916 TTTAGCGGTGCTTT-TCCTATAAACGCTGCTATTGCT-TTACC
1 TTTAGCGGCGCTTTCT-C-ATAAACGCCGCTAATGCTCTGACC
14003957 TTT
1 TTT
14003960 TGCAGCGTTT
Statistics
Matches: 319, Mismatches: 44, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
40 72 0.23
41 231 0.72
42 16 0.05
ACGTcount: A:0.22, C:0.30, G:0.16, T:0.31
Consensus pattern (41 bp):
TTTAGCGGCGCTTTCTCATAAACGCCGCTAATGCTCTGACC
Found at i:14003980 original size:39 final size:40
Alignment explanation
Indices: 14003936--14004040 Score: 140
Period size: 39 Copynumber: 2.6 Consensus size: 40
14003926 CTTTTCCTAT
* *
14003936 AAACGCTGCTATTGCTTTACCTTTTGCAGCGTTTAT-GAA
1 AAACGCTGCTATTGCTTTACCTTTTGCAGCATTTATACAA
* *
14003975 AAACGCTGCTACTGCTTTACCTTTTGTAGCATTTATACAA
1 AAACGCTGCTATTGCTTTACCTTTTGCAGCATTTATACAA
* * *
14004015 AAACTCCGTTATTGCTTTACCTTTTG
1 AAACGCTGCTATTGCTTTACCTTTTG
14004041 TGGTGTTTTC
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 33 0.58
40 24 0.42
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.40
Consensus pattern (40 bp):
AAACGCTGCTATTGCTTTACCTTTTGCAGCATTTATACAA
Found at i:14015372 original size:21 final size:22
Alignment explanation
Indices: 14015326--14015373 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
14015316 GAAAAGATCA
*
14015326 AAAAGAAAAGAAAAATGAGTAG
1 AAAACAAAAGAAAAATGAGTAG
**
14015348 -AAACAAAAGAATCATGAG-AG
1 AAAACAAAAGAAAAATGAGTAG
14015368 AAAACA
1 AAAACA
14015374 TGTGAATAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.67, C:0.06, G:0.19, T:0.08
Consensus pattern (22 bp):
AAAACAAAAGAAAAATGAGTAG
Found at i:14017523 original size:15 final size:16
Alignment explanation
Indices: 14017481--14017517 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
14017471 CGTGCATACG
*
14017481 AATTTAAATTAGTTTT
1 AATTTAACTTAGTTTT
14017497 AATTTAACTTAG-TTT
1 AATTTAACTTAGTTTT
14017512 AATTTA
1 AATTTA
14017518 GTTTAGAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (16 bp):
AATTTAACTTAGTTTT
Found at i:14024492 original size:19 final size:20
Alignment explanation
Indices: 14024445--14024492 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 20
14024435 TTGATAGTTC
14024445 TTAA-TATTA-AATTATAAA
1 TTAATTATTATAATTATAAA
*
14024463 TTAAATT-TTATAATT-TATA
1 TT-AATTATTATAATTATAAA
14024482 TTAATTATTAT
1 TTAATTATTAT
14024493 CTAAAGTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
18 6 0.24
19 14 0.56
20 5 0.20
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTAATTATTATAATTATAAA
Found at i:14032141 original size:20 final size:20
Alignment explanation
Indices: 14032104--14032141 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
14032094 GATATTATAT
* *
14032104 TATATTTTATTTTTTTCTTA
1 TATATTTTATATTATTCTTA
14032124 TATATTTTATATTATTCT
1 TATATTTTATATTATTCT
14032142 ATTTGGTTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (20 bp):
TATATTTTATATTATTCTTA
Found at i:14056028 original size:18 final size:18
Alignment explanation
Indices: 14056000--14056041 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
14055990 TTTTAGTTTC
*
14056000 TAACTAAATTCCTAACATT
1 TAACTAAATTCATAA-ATT
14056019 TAAC-AAATTCATAAATT
1 TAACTAAATTCATAAATT
14056036 T-ACTAA
1 TAACTAA
14056042 TATTGATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 2 0.10
17 6 0.29
18 9 0.43
19 4 0.19
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.36
Consensus pattern (18 bp):
TAACTAAATTCATAAATT
Found at i:14059377 original size:251 final size:251
Alignment explanation
Indices: 14058934--14059407 Score: 858
Period size: 251 Copynumber: 1.9 Consensus size: 251
14058924 CCTCTGGCCA
*
14058934 GTTACATAGCTATATTTGTTTTGATTTTTTTTACCTCACCATTTCTGTAACCTATAAAACATTGT
1 GTTACATAGCTATATTTGTTTTGATTTTTTTTACCTCACCATTTCTATAACCTATAAAACATTGT
*
14058999 TTTGTAACTTTCCTCATAATGTTTTGTTTTATATTTCATGTAACCATTTCATGAAATTTTCACTA
66 TTTGTAACTTTCCTCATAATGTTTTGTTTTAAATTTCATGTAACCATTTCATGAAATTTTCACTA
*
14059064 TAAATAGCCCTCTTTTCTTTTCATTTTACACATCAAGTTGAAAAAAACACTTTTGCTCTCTTTCA
131 TAAATAGCCCTCTCTTCTTTTCATTTTACACATCAAGTTGAAAAAAACACTTTTGCTCTCTTTCA
14059129 AAGTTCTCTAAAAAAAATTCCAATTCAGTGAACTGTCCTTTGGCCTTCCAAAGGCT
196 AAGTTCTCTAAAAAAAATTCCAATTCAGTGAACTGTCCTTTGGCCTTCCAAAGGCT
*
14059185 GTTACATAGCTTTATTTGTTTTGATTTTTTTTACCTCACCATTTCTATAACCTATAAAACATTGT
1 GTTACATAGCTATATTTGTTTTGATTTTTTTTACCTCACCATTTCTATAACCTATAAAACATTGT
* ***
14059250 TTTGTAACTTTCCTCGTAATGTTTTGTTTTAAATTTCATGTAAGTGTTTCATGAAATTTTCACTA
66 TTTGTAACTTTCCTCATAATGTTTTGTTTTAAATTTCATGTAACCATTTCATGAAATTTTCACTA
*
14059315 TAAATAGCCCTCTCTTCTTTTCATTTTACACATCAAGTTGAAAAAAACACTTTTGTTCTCTTTCA
131 TAAATAGCCCTCTCTTCTTTTCATTTTACACATCAAGTTGAAAAAAACACTTTTGCTCTCTTTCA
*
14059380 TAGTTCTCTAAAAAAAATTCCAATTCAG
196 AAGTTCTCTAAAAAAAATTCCAATTCAG
14059408 CTTTTTGTGA
Statistics
Matches: 213, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
251 213 1.00
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.44
Consensus pattern (251 bp):
GTTACATAGCTATATTTGTTTTGATTTTTTTTACCTCACCATTTCTATAACCTATAAAACATTGT
TTTGTAACTTTCCTCATAATGTTTTGTTTTAAATTTCATGTAACCATTTCATGAAATTTTCACTA
TAAATAGCCCTCTCTTCTTTTCATTTTACACATCAAGTTGAAAAAAACACTTTTGCTCTCTTTCA
AAGTTCTCTAAAAAAAATTCCAATTCAGTGAACTGTCCTTTGGCCTTCCAAAGGCT
Found at i:14060137 original size:17 final size:17
Alignment explanation
Indices: 14060089--14060138 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
14060079 ATTTGATATC
14060089 TAAATTTGATATTTTTT
1 TAAATTTGATATTTTTT
*
14060106 TTAATTTGATA----TT
1 TAAATTTGATATTTTTT
*
14060119 TAAATTAGATATTTTTT
1 TAAATTTGATATTTTTT
14060136 TAA
1 TAA
14060139 GTTGATACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 8
0.70 0.08 0.22
Matches are distributed among these distances:
13 11 0.42
17 15 0.58
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (17 bp):
TAAATTTGATATTTTTT
Found at i:14060143 original size:29 final size:30
Alignment explanation
Indices: 14060081--14060153 Score: 103
Period size: 29 Copynumber: 2.5 Consensus size: 30
14060071 AATATAATAT
* * *
14060081 TTGATATCTAAATTTGATATTTTTTTTAAT
1 TTGATATTTAAATTAGATATTTTTTTTAAG
14060111 TTGATATTTAAATTAGATA-TTTTTTTAAG
1 TTGATATTTAAATTAGATATTTTTTTTAAG
*
14060140 TTGATACTTAAATT
1 TTGATATTTAAATT
14060154 TTTTAAGATC
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 22 0.56
30 17 0.44
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (30 bp):
TTGATATTTAAATTAGATATTTTTTTTAAG
Found at i:14060514 original size:28 final size:27
Alignment explanation
Indices: 14060471--14060525 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
14060461 AAAAAATGTC
*
14060471 AAGTTCAAGTACCAAATTAGATAAAAAA
1 AAGTTCAAGTACCAAATTA-AGAAAAAA
* *
14060499 AAGTTTAAGTATCAAATTAAGAAAAAA
1 AAGTTCAAGTACCAAATTAAGAAAAAA
14060526 GTATCAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 7 0.29
28 17 0.71
ACGTcount: A:0.58, C:0.07, G:0.11, T:0.24
Consensus pattern (27 bp):
AAGTTCAAGTACCAAATTAAGAAAAAA
Found at i:14060547 original size:60 final size:57
Alignment explanation
Indices: 14060375--14060525 Score: 178
Period size: 59 Copynumber: 2.6 Consensus size: 57
14060365 AATTTAATAT
* * * *
14060375 TAAAAAAAACTTAGGTACCAAATTAAGAAAAAATTCGAGTTCAAGTACCAAATTAGG
1 TAAAAAAAATTTAGGTATCAAATTAAGAAAAAATTCAAGTTCAAGTACCAAATTAGA
* * *
14060432 TCCAAAAAAATTTTAGGTGTTAAATT-AGAAAAAAATGTCAAGTTCAAGTACCAAATTAGA
1 T--AAAAAAAATTTAGGTATCAAATTAAG-AAAAAAT-TCAAGTTCAAGTACCAAATTAGA
*
14060492 TAAAAAAAAGTTTAAGTATCAAATTAAGAAAAAA
1 TAAAAAAAA-TTTAGGTATCAAATTAAGAAAAAA
14060526 GTATCAAATT
Statistics
Matches: 77, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
57 1 0.01
58 9 0.12
59 43 0.56
60 24 0.31
ACGTcount: A:0.53, C:0.09, G:0.13, T:0.25
Consensus pattern (57 bp):
TAAAAAAAATTTAGGTATCAAATTAAGAAAAAATTCAAGTTCAAGTACCAAATTAGA
Found at i:14068080 original size:13 final size:13
Alignment explanation
Indices: 14068062--14068086 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14068052 CCCATTTGGT
14068062 CATCTTTAGCATA
1 CATCTTTAGCATA
14068075 CATCTTTAGCAT
1 CATCTTTAGCAT
14068087 TTTTAATTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (13 bp):
CATCTTTAGCATA
Found at i:14084020 original size:14 final size:14
Alignment explanation
Indices: 14084003--14084032 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14083993 TTTAAACTCT
*
14084003 AAAAGATAAATCTA
1 AAAAGATAAATATA
14084017 AAAAGATAAATATA
1 AAAAGATAAATATA
14084031 AA
1 AA
14084033 TTAAATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (14 bp):
AAAAGATAAATATA
Found at i:14092644 original size:225 final size:225
Alignment explanation
Indices: 14092253--14092702 Score: 864
Period size: 225 Copynumber: 2.0 Consensus size: 225
14092243 AACTTAAATT
14092253 TTTTGAAATTCTAATGTACAAATTGTATTCACATGATAGAATAATGCGCTGACAATTTATAGGCA
1 TTTTGAAATTCTAATGTACAAATTGTATTCACATGATAGAATAATGCGCTGACAATTTATAGGCA
14092318 TGAATAATTAAAATTGCAACTTCATAAATGTTACTATCATGCATTAAATCCTAATCTTCCTTGAA
66 TGAATAATTAAAATTGCAACTTCATAAATGTTACTATCATGCATTAAATCCTAATCTTCCTTGAA
14092383 CCAATACACCATTTAAAAAAAATTTTCTTTTCATTTTCTTCCTTTTTCTCATTTATCTTTTTCAA
131 CCAATACACCATTTAAAAAAAATTTTCTTTTCATTTTCTTCCTTTTTCTCATTTATCTTTTTCAA
14092448 GTGACTGAGAGATGTCATTGCATTACTCTA
196 GTGACTGAGAGATGTCATTGCATTACTCTA
14092478 TTTTGAAATTCTAATGTACAAATTGTATTCACATGATAGAATAATGCGCTGACAATTTATAGGCA
1 TTTTGAAATTCTAATGTACAAATTGTATTCACATGATAGAATAATGCGCTGACAATTTATAGGCA
14092543 TGAATAATTAAAATTGCAACTTCATAAATGTTACTATCATGCATTAAATCCTAATCTTCCTTGAA
66 TGAATAATTAAAATTGCAACTTCATAAATGTTACTATCATGCATTAAATCCTAATCTTCCTTGAA
****
14092608 CCAATACACCATTTAAAATTTTTTTTCTTTTCATTTTCTTCCTTTTTCTCATTTATCTTTTTCAA
131 CCAATACACCATTTAAAAAAAATTTTCTTTTCATTTTCTTCCTTTTTCTCATTTATCTTTTTCAA
14092673 GTGACTGAGAGATGTCATTGCATTACTCTA
196 GTGACTGAGAGATGTCATTGCATTACTCTA
14092703 CCTTTGTTCC
Statistics
Matches: 221, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
225 221 1.00
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.41
Consensus pattern (225 bp):
TTTTGAAATTCTAATGTACAAATTGTATTCACATGATAGAATAATGCGCTGACAATTTATAGGCA
TGAATAATTAAAATTGCAACTTCATAAATGTTACTATCATGCATTAAATCCTAATCTTCCTTGAA
CCAATACACCATTTAAAAAAAATTTTCTTTTCATTTTCTTCCTTTTTCTCATTTATCTTTTTCAA
GTGACTGAGAGATGTCATTGCATTACTCTA
Found at i:14097409 original size:22 final size:20
Alignment explanation
Indices: 14097380--14097420 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
14097370 AATCAGAGTG
14097380 AAGAATTGTGGAAAATCACGC
1 AAGAATTGT-GAAAATCACGC
*
14097401 AAGACATTGTGCAAATCACG
1 AAGA-ATTGTGAAAATCACG
14097421 AGTGGATTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.20
Consensus pattern (20 bp):
AAGAATTGTGAAAATCACGC
Found at i:14110143 original size:26 final size:25
Alignment explanation
Indices: 14110070--14110144 Score: 87
Period size: 26 Copynumber: 2.9 Consensus size: 25
14110060 TCTCATCTCT
* *
14110070 ATTTTACCCTCAGCAAAATTTTGATG
1 ATTTTACCCT-AGTAAAATTTTGAAG
14110096 ATTTTACCCTAGTAAAATTTTGAAG
1 ATTTTACCCTAGTAAAATTTTGAAG
* * *
14110121 ATTTTGCCCTTGGTAAAAATTTGA
1 ATTTTACCC-TAGTAAAATTTTGA
14110145 GAAAATGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
25 21 0.49
26 22 0.51
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (25 bp):
ATTTTACCCTAGTAAAATTTTGAAG
Found at i:14113634 original size:21 final size:21
Alignment explanation
Indices: 14113610--14113649 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
14113600 ATGAAATAGC
14113610 CCATGCATGTCGCGACATAAG
1 CCATGCATGTCGCGACATAAG
*
14113631 CCATGTATGTCGCGACATA
1 CCATGCATGTCGCGACATA
14113650 GCCCTATAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.23
Consensus pattern (21 bp):
CCATGCATGTCGCGACATAAG
Found at i:14147926 original size:37 final size:37
Alignment explanation
Indices: 14147872--14148034 Score: 236
Period size: 37 Copynumber: 4.4 Consensus size: 37
14147862 CATATATAAA
*
14147872 TTCAGGCTATATGCCTAGTAGGCTTCGTGCCGGTGTT
1 TTCAGGCTATGTGCCTAGTAGGCTTCGTGCCGGTGTT
** * * *
14147909 TTTGGGCTATGTGCCTAGTAAGCTTCGTGCCGATGTG
1 TTCAGGCTATGTGCCTAGTAGGCTTCGTGCCGGTGTT
* * * *
14147946 TTCGGGTTATGTGCCTAGTAGGTTTCGTGTCGGTGTT
1 TTCAGGCTATGTGCCTAGTAGGCTTCGTGCCGGTGTT
14147983 TTCAGGCTATGTGCCTAGTAGGCTTCGTGCCGGTGTT
1 TTCAGGCTATGTGCCTAGTAGGCTTCGTGCCGGTGTT
14148020 TTCAGGCTATGTGCC
1 TTCAGGCTATGTGCC
14148035 GGTGATTCGA
Statistics
Matches: 109, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 109 1.00
ACGTcount: A:0.12, C:0.20, G:0.32, T:0.37
Consensus pattern (37 bp):
TTCAGGCTATGTGCCTAGTAGGCTTCGTGCCGGTGTT
Found at i:14155912 original size:49 final size:51
Alignment explanation
Indices: 14155848--14155944 Score: 153
Period size: 49 Copynumber: 1.9 Consensus size: 51
14155838 TTTTTATATC
*
14155848 TGATTTTTTAAATAAATATAAACA-TTATTTAATTT-ATTTTGTTTAACTA
1 TGATGTTTTAAATAAATATAAACATTTATTTAATTTGATTTTGTTTAACTA
* *
14155897 TGATGTTTTAAATAAATATAAATATTTATTTAATTTGTTTTTGTTTAA
1 TGATGTTTTAAATAAATATAAACATTTATTTAATTTGATTTTGTTTAA
14155945 AATCTGGTGT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
49 22 0.51
50 11 0.26
51 10 0.23
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (51 bp):
TGATGTTTTAAATAAATATAAACATTTATTTAATTTGATTTTGTTTAACTA
Found at i:14155965 original size:53 final size:51
Alignment explanation
Indices: 14155848--14155992 Score: 154
Period size: 53 Copynumber: 2.9 Consensus size: 51
14155838 TTTTTATATC
* *
14155848 TGAT-TTTTTAAATAAATATAAACA-TTATTTAATTTATTTTGTTTAACTA
1 TGATGTTTTTAAATAAATATAAATATTTATTTAATTTATTTTGTTTAAATA
* *
14155897 TGATG-TTTTAAATAAATATAAATATTTATTTAATTTGTTTTTGTTTAAAATC
1 TGATGTTTTTAAATAAATATAAATATTTATTTAATTT-ATTTTGTTT-AAATA
* * * * *
14155949 TGGTGTTTTTACATAAACATAACTATTTGTTT-ATATTATTTTGT
1 TGATGTTTTTAAATAAATATAAATATTTATTTAAT-TTATTTTGT
14155993 ACATTTTTTG
Statistics
Matches: 80, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
49 22 0.28
50 11 0.14
51 8 0.10
52 15 0.19
53 24 0.30
ACGTcount: A:0.34, C:0.04, G:0.08, T:0.54
Consensus pattern (51 bp):
TGATGTTTTTAAATAAATATAAATATTTATTTAATTTATTTTGTTTAAATA
Found at i:14156163 original size:14 final size:15
Alignment explanation
Indices: 14156137--14156166 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
14156127 AAATACAACA
14156137 AAAAAATATAATTTT
1 AAAAAATATAATTTT
14156152 AAAAAATA-AATTTT
1 AAAAAATATAATTTT
14156166 A
1 A
14156167 TATACAATTT
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:0.00, T:0.37
Consensus pattern (15 bp):
AAAAAATATAATTTT
Found at i:14156461 original size:22 final size:24
Alignment explanation
Indices: 14156433--14156484 Score: 72
Period size: 22 Copynumber: 2.2 Consensus size: 24
14156423 TTTTATATTG
14156433 TTTAAATAGTA-TTTTAACAAT-T
1 TTTAAATAGTATTTTTAACAATAT
* *
14156455 TTTAAATTGTATTTTTAACACTAT
1 TTTAAATAGTATTTTTAACAATAT
14156479 TTTAAA
1 TTTAAA
14156485 CAAATATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 10 0.38
23 9 0.35
24 7 0.27
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (24 bp):
TTTAAATAGTATTTTTAACAATAT
Found at i:14156899 original size:17 final size:17
Alignment explanation
Indices: 14156873--14156907 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
14156863 ACTTTTACAT
* *
14156873 TTTTTTTAAATATATAA
1 TTTTTGTAAAAATATAA
14156890 TTTTTGTAAAAATATAA
1 TTTTTGTAAAAATATAA
14156907 T
1 T
14156908 ACATTTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
TTTTTGTAAAAATATAA
Found at i:14162261 original size:19 final size:19
Alignment explanation
Indices: 14162237--14162275 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
14162227 TTTAAAATTA
*
14162237 ATTTTTTAAAAATATTTTT
1 ATTTTTCAAAAATATTTTT
* *
14162256 ATTTTTCAAGATTATTTTT
1 ATTTTTCAAAAATATTTTT
14162275 A
1 A
14162276 ATTGATTTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (19 bp):
ATTTTTCAAAAATATTTTT
Found at i:14166697 original size:71 final size:72
Alignment explanation
Indices: 14166577--14166724 Score: 253
Period size: 71 Copynumber: 2.0 Consensus size: 72
14166567 CACATTAATT
*
14166577 ATAATCATAATGTGAAACATGTGTTGAGGTAAAAAAATTTAACAAGGTCTTCATTTCAAACTATT
1 ATAATCATAATGTGAAACATGTGTT--GGCAAAAAAATTTAACAAGGTCTTCATTTCAAACTATT
14166642 GAAAGAAGC
64 GAAAGAAGC
*
14166651 ATAATCATAATGTGAAACATGTGTT-GCAAAAATATTTAACAAGGTCTTCATTTCAAACTATTGA
1 ATAATCATAATGTGAAACATGTGTTGGCAAAAAAATTTAACAAGGTCTTCATTTCAAACTATTGA
14166715 AAGAAGC
66 AAGAAGC
14166722 ATA
1 ATA
14166725 GAACCACTTG
Statistics
Matches: 72, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
71 47 0.65
74 25 0.35
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.30
Consensus pattern (72 bp):
ATAATCATAATGTGAAACATGTGTTGGCAAAAAAATTTAACAAGGTCTTCATTTCAAACTATTGA
AAGAAGC
Found at i:14167200 original size:30 final size:31
Alignment explanation
Indices: 14167161--14167279 Score: 131
Period size: 30 Copynumber: 4.0 Consensus size: 31
14167151 GCAGAAAACC
14167161 ATCCTACAACCACTTGAAAATGTGTGGGGG-
1 ATCCTACAACCACTTGAAAATGTGTGGGGGT
* *
14167191 ATCTTACAACCACTTGAAAACGTG-GGGGGT
1 ATCCTACAACCACTTGAAAATGTGTGGGGGT
* *
14167221 GTCCTACAACCACTTGAAGATGTGT-GGGGT
1 ATCCTACAACCACTTGAAAATGTGTGGGGGT
* * * *
14167251 TTCCTATAACAATTTGAAAAT-T-TGGGGGT
1 ATCCTACAACCACTTGAAAATGTGTGGGGGT
14167280 GTCTTTCTAA
Statistics
Matches: 75, Mismatches: 11, Indels: 7
0.81 0.12 0.08
Matches are distributed among these distances:
28 1 0.01
29 11 0.15
30 63 0.84
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.28
Consensus pattern (31 bp):
ATCCTACAACCACTTGAAAATGTGTGGGGGT
Found at i:14167277 original size:60 final size:59
Alignment explanation
Indices: 14167162--14167282 Score: 152
Period size: 60 Copynumber: 2.0 Consensus size: 59
14167152 CAGAAAACCA
* *
14167162 TCCTACAACCACTTGAAAATGTGTGGGGGATCTTACAACCACTTGAAAACGTGGGGGGTG
1 TCCTACAACCACTTGAAAATGTGTGGGGGATCCTACAACAACTTGAAAACGT-GGGGGTG
* ** * * **
14167222 TCCTACAACCACTTGAAGATGTGTGGGGTTTCCTATAACAATTTGAAAATTTGGGGGTG
1 TCCTACAACCACTTGAAAATGTGTGGGGGATCCTACAACAACTTGAAAACGTGGGGGTG
14167281 TC
1 TC
14167283 TTTCTAACGT
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
59 9 0.17
60 43 0.83
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.28
Consensus pattern (59 bp):
TCCTACAACCACTTGAAAATGTGTGGGGGATCCTACAACAACTTGAAAACGTGGGGGTG
Found at i:14169043 original size:50 final size:49
Alignment explanation
Indices: 14168967--14169131 Score: 208
Period size: 50 Copynumber: 3.3 Consensus size: 49
14168957 TCAGATTTTG
*
14168967 TTTAATTATTTT-TTTAGATCTGATGTTTTAAATAAATATAAATATTTA
1 TTTATTTATTTTGTTTAGATCTGATGTTTTAAATAAATATAAATATTTA
* *
14169015 TTTAATTTATTTTGTTTAAATATGATGTTTTAAATAAATATAAATATTTA
1 TTT-ATTTATTTTGTTTAGATCTGATGTTTTAAATAAATATAAATATTTA
* * *
14169065 TTTATTTATTTTTGTTTACGATCT-AGTGTTTTTACATAAACATAAATTTTTA
1 TTTATTTA-TTTTGTTTA-GATCTGA-TG-TTTTAAATAAATATAAATATTTA
14169117 TTTATATTATTTTGT
1 TTTAT-TTATTTTGT
14169132 ACAAATCTTG
Statistics
Matches: 102, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
48 3 0.03
49 13 0.13
50 47 0.46
51 5 0.05
52 31 0.30
53 3 0.03
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.56
Consensus pattern (49 bp):
TTTATTTATTTTGTTTAGATCTGATGTTTTAAATAAATATAAATATTTA
Found at i:14169424 original size:82 final size:83
Alignment explanation
Indices: 14169327--14169854 Score: 345
Period size: 82 Copynumber: 6.6 Consensus size: 83
14169317 TTGGAAAATA
* * *
14169327 TCTGTTTCGGGATTTATTCCTGCCGCTCAATAGATTTGATTCTATTTTGATTTTGTTTTC-AAAC
1 TCTGTTTCGGGATTTATTCCTGCCGTTCAACAGATTTGATTCTATTTTGATTTTGTTTCCAAAAC
14169391 AAGAATTAAGTATATAAT
66 AAGAATTAAGTATATAAT
* * * * *
14169409 TCTATTTCGGGATTTATTCTTGCTGTTTAACATATTTGATTCTATTTTGATTTTGTTTCCAAAAC
1 TCTGTTTCGGGATTTATTCCTGCCGTTCAACAGATTTGATTCTATTTTGATTTTGTTTCCAAAAC
14169474 AAGAA-TAAG--------
66 AAGAATTAAGTATATAAT
* * * ** * *
14169483 T-T-TTTAGGGATTTATTCCTGCTGTTAAACA-ATTTTTTTTCTATTTTTGATTTTGTTT-CTAT
1 TCTGTTTCGGGATTTATTCCTGCCGTTCAACAGA-TTTGATTCTA-TTTTGATTTTGTTTCCAAA
* *
14169544 ACAAGAATTAAAATTAAATAAT
64 ACAAGAATT--AAGTATATAAT
* * * * * *
14169566 TTTGCTTAGAGATTTATT--T-CCG-T---C-G-TTT-A-AC-AGATTTGATTTTGTTTCC-AAA
1 TCTGTTTCGGGATTTATTCCTGCCGTTCAACAGATTTGATTCTA-TTTTGATTTTGTTTCCAAAA
* *
14169618 CAAGAATTAAAATTAAATAAT
65 CAAGAATT--AAGTATATAAT
*
14169639 TCTGTTTTGGGATTTATT-CTAGCCGTTCAACAGATTTGATT-TGATTTTGATTTTTGTTTCC-A
1 TCTGTTTCGGGATTTATTCCT-GCCGTTCAACAGATTTGATTCT-ATTTTGA-TTTTGTTTCCAA
14169701 AACAAGAATTAAG-ACTGAATAAT
63 AACAAGAATTAAGTA-T--ATAAT
* * *
14169724 TATGTTTCGGGATTTATTTCC-GCCATTTAACAGATTTGATT-TGATTTTGATTTTGTTT-CAAA
1 TCTGTTTCGGGATTTA-TTCCTGCCGTTCAACAGATTTGATTCT-ATTTTGATTTTGTTTCCAAA
* * *
14169786 ATAAGGATTAATTGA-ATAAT
64 ACAAGAATTAAGT-ATATAAT
* *
14169806 TTTGTTTCGGGATTTATTCCCGCCGTTCAACAGATTTGATT-TGATTTTG
1 TCTGTTTCGGGATTTATTCCTGCCGTTCAACAGATTTGATTCT-ATTTTG
14169855 TTTCAAAATA
Statistics
Matches: 363, Mismatches: 42, Indels: 82
0.75 0.09 0.17
Matches are distributed among these distances:
71 1 0.00
72 42 0.12
73 67 0.18
74 4 0.01
75 2 0.01
76 6 0.02
77 1 0.00
78 1 0.00
80 1 0.00
81 6 0.02
82 108 0.30
83 15 0.04
84 25 0.07
85 80 0.22
86 3 0.01
87 1 0.00
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.46
Consensus pattern (83 bp):
TCTGTTTCGGGATTTATTCCTGCCGTTCAACAGATTTGATTCTATTTTGATTTTGTTTCCAAAAC
AAGAATTAAGTATATAAT
Found at i:14169604 original size:73 final size:73
Alignment explanation
Indices: 14169527--14169680 Score: 211
Period size: 73 Copynumber: 2.1 Consensus size: 73
14169517 TTTTTCTATT
* * * * *
14169527 TTTGATTTTGTTTCTATACAAGAATTAAAATTAAATAATTTTGCTTAGAGATTTATT-TCCGTCG
1 TTTGATTTTGTTTCCAAACAAGAATTAAAATTAAATAATTCTGCTTAGAGATTTATTCT-AGCCG
*
14169591 TTTAACAGA
65 TTCAACAGA
* * *
14169600 TTTGATTTTGTTTCCAAACAAGAATTAAAATTAAATAATTCTGTTTTGGGATTTATTCTAGCCGT
1 TTTGATTTTGTTTCCAAACAAGAATTAAAATTAAATAATTCTGCTTAGAGATTTATTCTAGCCGT
14169665 TCAACAGA
66 TCAACAGA
14169673 TTTGATTT
1 TTTGATTT
14169681 GATTTTGATT
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
73 70 0.99
74 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.45
Consensus pattern (73 bp):
TTTGATTTTGTTTCCAAACAAGAATTAAAATTAAATAATTCTGCTTAGAGATTTATTCTAGCCGT
TCAACAGA
Found at i:14169699 original size:85 final size:84
Alignment explanation
Indices: 14169600--14169854 Score: 354
Period size: 85 Copynumber: 3.0 Consensus size: 84
14169590 GTTTAACAGA
* * * *
14169600 TTTGATTTTGTTTCCAAACAAGAATTAAAATTAAATAATTCTGTTTTGGGATTTATTCTAGCCGT
1 TTTGATTTTGTTTCCAAACAAGAATTAAAATTGAATAATTATGTTTCGGGATTTATTCTCGCCGT
14169665 TCAACAGATTTGATTTGAT
66 TCAACAGATTTGATTTGAT
* *
14169684 TTTGATTTTTGTTTCCAAACAAGAATTAAGACTGAATAATTATGTTTCGGGATTTATT-TCCGCC
1 TTTGA-TTTTGTTTCCAAACAAGAATTAAAATTGAATAATTATGTTTCGGGATTTATTCT-CGCC
* *
14169748 ATTTAACAGATTTGATTTGAT
64 GTTCAACAGATTTGATTTGAT
* * * * *
14169769 TTTGATTTTGTTTCAAAATAAGGATT--AATTGAATAATTTTGTTTCGGGATTTATTCCCGCCGT
1 TTTGATTTTGTTTCCAAACAAGAATTAAAATTGAATAATTATGTTTCGGGATTTATTCTCGCCGT
14169832 TCAACAGATTTGATTTGAT
66 TCAACAGATTTGATTTGAT
14169851 TTTG
1 TTTG
14169855 TTTCAAAATA
Statistics
Matches: 151, Mismatches: 17, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
82 53 0.35
84 24 0.16
85 74 0.49
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.45
Consensus pattern (84 bp):
TTTGATTTTGTTTCCAAACAAGAATTAAAATTGAATAATTATGTTTCGGGATTTATTCTCGCCGT
TCAACAGATTTGATTTGAT
Found at i:14169921 original size:76 final size:77
Alignment explanation
Indices: 14169759--14169934 Score: 194
Period size: 76 Copynumber: 2.3 Consensus size: 77
14169749 TTTAACAGAT
* * * * ** *
14169759 TTGATTTGATTTTGATTTTGTTTCAAAATAAGGATTAATTGAATAATTTTGTTTCGGGATTTATT
1 TTGATTTGATTTTGATTTTGTTTCAAAATAAGAAATAATTAAATAATTCTGTTTCAAGATTTAAT
*
14169824 CCCGCCGTTCAA
66 CCCGCCCTTCAA
** *
14169836 CAGATTTGA-TTTGATTTTGTTTCAAAATAATAAATAATTAAATAATTCTGTTTCAAGATTTAAT
1 TTGATTTGATTTTGATTTTGTTTCAAAATAAGAAATAATTAAATAATTCTGTTTCAAGATTTAAT
**
14169900 CTTGCCACTT-AA
66 CCCGCC-CTTCAA
* *
14169912 TTGAATTGATTTTGAGTTTGTTT
1 TTGATTTGATTTTGATTTTGTTT
14169935 TAGAATTTTA
Statistics
Matches: 80, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
76 59 0.74
77 21 0.26
ACGTcount: A:0.30, C:0.09, G:0.14, T:0.47
Consensus pattern (77 bp):
TTGATTTGATTTTGATTTTGTTTCAAAATAAGAAATAATTAAATAATTCTGTTTCAAGATTTAAT
CCCGCCCTTCAA
Found at i:14170711 original size:17 final size:17
Alignment explanation
Indices: 14170689--14170730 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
14170679 ATTTTGTCTA
*
14170689 AAGGGGATTGTTTATGG
1 AAGGGGATTGTTTATAG
*
14170706 AAGGGGATTGTTTGTAG
1 AAGGGGATTGTTTATAG
14170723 AAGGGGAT
1 AAGGGGAT
14170731 GTGCATTGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.43, T:0.31
Consensus pattern (17 bp):
AAGGGGATTGTTTATAG
Found at i:14171491 original size:30 final size:30
Alignment explanation
Indices: 14171455--14171575 Score: 136
Period size: 30 Copynumber: 4.1 Consensus size: 30
14171445 TAGAAAACCA
*
14171455 TCCTACAACTACTTGAAAATGTGGGGGGTG
1 TCCTACAACCACTTGAAAATGTGGGGGGTG
** *
14171485 TCCTACAACCACTTGAAAATGTAAGAGGTG
1 TCCTACAACCACTTGAAAATGTGGGGGGTG
*** * *
14171515 TTAGACAACTACTTGAAGATGT-GGGGGTG
1 TCCTACAACCACTTGAAAATGTGGGGGGTG
* *
14171544 TCCTACAACCCCTTGAAAATGTGGGTGGTG
1 TCCTACAACCACTTGAAAATGTGGGGGGTG
14171574 TC
1 TC
14171576 TTGCGAACGT
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
29 21 0.29
30 51 0.71
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.26
Consensus pattern (30 bp):
TCCTACAACCACTTGAAAATGTGGGGGGTG
Found at i:14173447 original size:41 final size:41
Alignment explanation
Indices: 14172968--14173440 Score: 511
Period size: 41 Copynumber: 11.5 Consensus size: 41
14172958 GCTCTGACCT
* * * * *
14172968 TTAGCGGCGCCTTATCACAAATGCCGCTAAAAGTCAGAGCA
1 TTAGCGGCGCTTTCTCATAAACGCCGCTAAAGGTCAGAGCA
* * * * *
14173009 TTAGTGGC-TTTTATGGGA-AAACACCGCTAAAGGTCAGAGCA
1 TTAGCGGCGCTTTCT--CATAAACGCCGCTAAAGGTCAGAGCA
* * * * *
14173050 TTAGCAGCGCTTTCTCATAAACGTCACTAAAGATCAAAGCA
1 TTAGCGGCGCTTTCTCATAAACGCCGCTAAAGGTCAGAGCA
*
14173091 TTAGCGGCGCTTTCTCATAAACGCCGCTAAAGATCAGAGCA
1 TTAGCGGCGCTTTCTCATAAACGCCGCTAAAGGTCAGAGCA
*
14173132 TTAGCGGCGCTTTCTCATAAACGCCGCTAAAGGTCAGAGTA
1 TTAGCGGCGCTTTCTCATAAACGCCGCTAAAGGTCAGAGCA
* *
14173173 TTAGTGGCGCTTTCTCATAAACGCCGCTAAAGGTTAGAGCA
1 TTAGCGGCGCTTTCTCATAAACGCCGCTAAAGGTCAGAGCA
* * * * * *
14173214 TTAGCGACAC-TTCCCCTAAAATGCTGCTAAAGGTCAGAGCA
1 TTAGCGGCGCTTTCTCAT-AAACGCCGCTAAAGGTCAGAGCA
* * * * *
14173255 TTAGTGGCGCTTTCCCTTAAACGCCGTTAAAGGTCAAAGCA
1 TTAGCGGCGCTTTCTCATAAACGCCGCTAAAGGTCAGAGCA
* * * * *
14173296 TTAGTGGCACTTTCTCAGAAACACCGCTAAAGGTCAGAGTA
1 TTAGCGGCGCTTTCTCATAAACGCCGCTAAAGGTCAGAGCA
* * * * *
14173337 TTAGTGGCGCTTTCCCACAAATGCCACTAAAGGTCAGAGCA
1 TTAGCGGCGCTTTCTCATAAACGCCGCTAAAGGTCAGAGCA
* *
14173378 TTAGCGGTGCTTTCTCATAAACGCCGCTAAAGGTCAGAGAA
1 TTAGCGGCGCTTTCTCATAAACGCCGCTAAAGGTCAGAGCA
*
14173419 TTAGCGACGCTTTCTCATAAAC
1 TTAGCGGCGCTTTCTCATAAAC
14173441 ATCGCTATTT
Statistics
Matches: 360, Mismatches: 66, Indels: 12
0.82 0.15 0.03
Matches are distributed among these distances:
40 10 0.03
41 339 0.94
42 11 0.03
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (41 bp):
TTAGCGGCGCTTTCTCATAAACGCCGCTAAAGGTCAGAGCA
Found at i:14175257 original size:41 final size:39
Alignment explanation
Indices: 14175202--14175356 Score: 139
Period size: 41 Copynumber: 3.8 Consensus size: 39
14175192 AAATGCCGCA
* * *
14175202 AAAGGTAAATCAATAGCGGCGCTTATTGGAAAGCGCCATT
1 AAAGGTAAAGCAATAGCGACGCTTA-TGGAAAGCGCCACT
* *
14175242 AAAGGTAAGAGCAATAGCGACGCTTATGTAGAAGCACCACT
1 AAAGGTAA-AGCAATAGCGACGCTTATGGA-AAGCGCCACT
* * * * *
14175283 AAAGGTCAGAGCAATAACGACGCTTGTGCGTAAGCGCCAGT
1 AAAGGT-AAAGCAATAGCGACGCTTATG-GAAAGCGCCACT
* *
14175324 AAAGGTCAAAGCATTAGCGATGCTTATGTGAAA
1 AAAGGT-AAAGCAATAGCGACGCTTATG-GAAA
14175357 AACGCCGCTA
Statistics
Matches: 92, Mismatches: 19, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
40 11 0.12
41 80 0.87
42 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.20
Consensus pattern (39 bp):
AAAGGTAAAGCAATAGCGACGCTTATGGAAAGCGCCACT
Found at i:14177161 original size:12 final size:12
Alignment explanation
Indices: 14177144--14177186 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
14177134 TTAAATGAAG
14177144 TATTATATCACA
1 TATTATATCACA
*
14177156 TATTATAATGA-A
1 TATTAT-ATCACA
14177168 GTATTATATCACA
1 -TATTATATCACA
14177181 TATTAT
1 TATTAT
14177187 GGTATACATG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
12 16 0.62
13 10 0.38
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (12 bp):
TATTATATCACA
Found at i:14177171 original size:25 final size:25
Alignment explanation
Indices: 14177137--14177186 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
14177127 AAATGATTTA
14177137 AATGAAGTATTATATCACATATTAT
1 AATGAAGTATTATATCACATATTAT
14177162 AATGAAGTATTATATCACATATTAT
1 AATGAAGTATTATATCACATATTAT
14177187 GGTATACATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (25 bp):
AATGAAGTATTATATCACATATTAT
Found at i:14179239 original size:389 final size:388
Alignment explanation
Indices: 14178523--14179300 Score: 1367
Period size: 389 Copynumber: 2.0 Consensus size: 388
14178513 GCATATCTTA
*
14178523 TCTGCTATAATTTTGTAAGATTGGATAATGTGTTTACACTAATGCTATTCCCACTACTAAATGTG
1 TCTGCTATAATTTTATAAGATTGGATAATGTGTTTACACTAATGCTATTCCCACTACTAAATGTG
* *
14178588 TAAATGCTGAAAATCCTAAAATTTATGTATTTTTTACCATAAGATCAAACTCTGACTTCTTTGTT
66 TAAAAGCTGAAAATCCTAAAATTTATGTATTTTTTACCATAAGATCAAACTCTGACTTCTCTGTT
*
14178653 CGTACATTTTTCTGTTATGATCATCTAGTTTAGTATTCATGCCTTATTTTCCATCAAATTTAGTT
131 CGTACATTTTTCTGTTATGATCATCTAGTTTAGTATTCATGCCTTATTTTCCATCAAATTTAGTG
* * *
14178718 AATAAAACATGCTAATTTATGTCATTTTTAACAAGACTTGAAGAGTTTGATTTTTCTATTTTTGC
196 AATAAAACATACTAATTTATGTCATTGTTAACAAGACTTGAAGAGTTTGATTTTTCTATTTCTGC
14178783 TTTTCTTTTGTAGATTGTTCTCTCTTTTGGATTCCAATTGTTGCTTTTCTTTTCTACCAGTCAAG
261 TTTTCTTTTGTAGATTGTTCTCTCTTTTGGATTCCAATTGTTGCTTTTCTTTTCTACCAGTCAAG
** *
14178848 TTGTCTGTTGTTGTTCATTGCACTTCAACAATTCAGGTAAGTTCTTTCATTGCTTTTTCTGTT
326 TTGTCTACTGTTGTTCATTGCACTTCAACAATTCAGGTAAGTTCTTCCATTGCTTTTTCTGTT
*
14178911 TCTGCTATAATTTTATAAGATTGGATCATGTGTTTACACTAATGCTATTCCCACTACTAAATGTG
1 TCTGCTATAATTTTATAAGATTGGATAATGTGTTTACACTAATGCTATTCCCACTACTAAATGTG
* *
14178976 TAAAAGCTGAAAATCCTAAAATTTATGTATTTTTTATCATAAGATCAAACTTTGACTTCTCTGTT
66 TAAAAGCTGAAAATCCTAAAATTTATGTATTTTTTACCATAAGATCAAACTCTGACTTCTCTGTT
* * *
14179041 GGTACATTTTTTTTGTTATGATCATCTAGTTTAGTATTCATGTCTTATTTTCCATCAAATTTAGT
131 CGTACA-TTTTTCTGTTATGATCATCTAGTTTAGTATTCATGCCTTATTTTCCATCAAATTTAGT
*
14179106 GAATAAAACATACTAATTTATGTCATTGTTAACAAGACTTGAAGAGTTTGATTTTTCTGTTTCTG
195 GAATAAAACATACTAATTTATGTCATTGTTAACAAGACTTGAAGAGTTTGATTTTTCTATTTCTG
*
14179171 CTTTTCTTTTGTAGATTGTTCTCTCTTTTGGATTTCAATTGTTGCTTTTCTTTTCTACCAGTCAA
260 CTTTTCTTTTGTAGATTGTTCTCTCTTTTGGATTCCAATTGTTGCTTTTCTTTTCTACCAGTCAA
* *
14179236 GTTGTCTACTGTTGTTCTTTGCACTTCATCAATTCAGGTAAGTTCTTCCATTGCTTTTTCTGTT
325 GTTGTCTACTGTTGTTCATTGCACTTCAACAATTCAGGTAAGTTCTTCCATTGCTTTTTCTGTT
14179300 T
1 T
14179301 TTGCCATTTG
Statistics
Matches: 369, Mismatches: 20, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
388 129 0.35
389 240 0.65
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.47
Consensus pattern (388 bp):
TCTGCTATAATTTTATAAGATTGGATAATGTGTTTACACTAATGCTATTCCCACTACTAAATGTG
TAAAAGCTGAAAATCCTAAAATTTATGTATTTTTTACCATAAGATCAAACTCTGACTTCTCTGTT
CGTACATTTTTCTGTTATGATCATCTAGTTTAGTATTCATGCCTTATTTTCCATCAAATTTAGTG
AATAAAACATACTAATTTATGTCATTGTTAACAAGACTTGAAGAGTTTGATTTTTCTATTTCTGC
TTTTCTTTTGTAGATTGTTCTCTCTTTTGGATTCCAATTGTTGCTTTTCTTTTCTACCAGTCAAG
TTGTCTACTGTTGTTCATTGCACTTCAACAATTCAGGTAAGTTCTTCCATTGCTTTTTCTGTT
Found at i:14180213 original size:26 final size:26
Alignment explanation
Indices: 14180184--14180250 Score: 98
Period size: 26 Copynumber: 2.5 Consensus size: 26
14180174 TTATAAATAA
*
14180184 TATTTAATTATTAAAAACAACCTAAT
1 TATTTAATTATTAAAAACAACCCAAT
*
14180210 TATTTAATTATTTAAAACAACCCAAT
1 TATTTAATTATTAAAAACAACCCAAT
*
14180236 TAATTAATTAATTAA
1 TATTTAATT-ATTAA
14180251 TTAATTATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 32 0.89
27 4 0.11
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.40
Consensus pattern (26 bp):
TATTTAATTATTAAAAACAACCCAAT
Found at i:14180242 original size:4 final size:4
Alignment explanation
Indices: 14180233--14180261 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
14180223 AAAACAACCC
14180233 AATT AATT AATT AATT AATT AATT -ATT AA
1 AATT AATT AATT AATT AATT AATT AATT AA
14180262 AAATAATCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:14180248 original size:38 final size:38
Alignment explanation
Indices: 14180206--14180302 Score: 113
Period size: 38 Copynumber: 2.5 Consensus size: 38
14180196 AAAAACAACC
*
14180206 TAATTATTTAATTATTTAAAACAACCCAATTAATTAAT
1 TAATTATTTAATTATTTAAAACAACCCAAATAATTAAT
* * * * *
14180244 TAATTAATTAATTATTAAAAATAATCCAAATATTTAAT
1 TAATTATTTAATTATTTAAAACAACCCAAATAATTAAT
*
14180282 TAAAAATATTTAATTATTTAA
1 T--AATTATTTAATTATTTAA
14180303 TTAAATATTT
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
38 33 0.69
40 15 0.31
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (38 bp):
TAATTATTTAATTATTTAAAACAACCCAAATAATTAAT
Found at i:14180290 original size:14 final size:14
Alignment explanation
Indices: 14180271--14180297 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14180261 AAAATAATCC
14180271 AAATATTTAATTAA
1 AAATATTTAATTAA
14180285 AAATATTTAATTA
1 AAATATTTAATTA
14180298 TTTAATTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AAATATTTAATTAA
Found at i:14180299 original size:22 final size:22
Alignment explanation
Indices: 14180247--14180319 Score: 80
Period size: 22 Copynumber: 3.4 Consensus size: 22
14180237 AATTAATTAA
*
14180247 TTAATTAATT-ATTAAAAATAAT
1 TTAATTATTTAATTAAAAAT-AT
** *
14180269 CCAAATATTTAATTAAAAATAT
1 TTAATTATTTAATTAAAAATAT
14180291 TTAATTATTTAATT--AAATAT
1 TTAATTATTTAATTAAAAATAT
14180311 TTAATTATT
1 TTAATTATT
14180320 AAAAACAACC
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 15 0.35
22 19 0.44
23 9 0.21
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (22 bp):
TTAATTATTTAATTAAAAATAT
Found at i:14180310 original size:20 final size:21
Alignment explanation
Indices: 14180274--14180319 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
14180264 ATAATCCAAA
14180274 TATTTAATTAAAAATATTTAAT
1 TATTTAATT-AAAATATTTAAT
14180296 TATTTAATT-AAATATTTAAT
1 TATTTAATTAAAATATTTAAT
14180316 TATT
1 TATT
14180320 AAAAACAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 15 0.62
22 9 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TATTTAATTAAAATATTTAAT
Found at i:14180311 original size:12 final size:12
Alignment explanation
Indices: 14180271--14180317 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 12
14180261 AAAATAATCC
14180271 AAATATTTAATT
1 AAATATTTAATT
* *
14180283 AAA-A-ATATTT
1 AAATATTTAATT
*
14180293 AATTATTTAATT
1 AAATATTTAATT
14180305 AAATATTTAATT
1 AAATATTTAATT
14180317 A
1 A
14180318 TTAAAAACAA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
10 6 0.22
11 2 0.07
12 19 0.70
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
AAATATTTAATT
Found at i:14180338 original size:34 final size:34
Alignment explanation
Indices: 14180300--14180522 Score: 123
Period size: 34 Copynumber: 6.2 Consensus size: 34
14180290 TTTAATTATT
14180300 TAATTAAATATTTAATTATTAAAAACAACCCAAA
1 TAATTAAATATTTAATTATTAAAAACAACCCAAA
* * *
14180334 TAATTAATTATTTAATTATTTAAAACAACCCAAT
1 TAATTAAATATTTAATTATTAAAAACAACCCAAA
*
14180368 TAATTAGTTAATTAATTCATTATTTAATTATTAAAA-AACCCAAATA
1 TAATTA---AA-T-A-T--TTAATT-ATTA--AAAACAACCC-AA-A
*** ** **
14180414 TTTAATTCAAAATATTTAATTA-T--ATTTAA-TTATT
1 --TAATT--AAATATTTAATTATTAAAAACAACCCAAA
14180448 TAATTAAATATTTAATTATTAAAAACAACCCAAA
1 TAATTAAATATTTAATTATTAAAAACAACCCAAA
* * * *
14180482 TACTTAATTATTTAATTATTTAAAACAACCCAAT
1 TAATTAAATATTTAATTATTAAAAACAACCCAAA
14180516 TAATTAA
1 TAATTAA
14180523 TTCATTCATT
Statistics
Matches: 141, Mismatches: 26, Indels: 44
0.67 0.12 0.21
Matches are distributed among these distances:
30 13 0.09
31 1 0.01
32 5 0.04
33 3 0.02
34 74 0.52
35 1 0.01
36 1 0.01
37 3 0.02
38 1 0.01
39 1 0.01
40 2 0.01
41 1 0.01
42 10 0.07
43 3 0.02
44 6 0.04
45 7 0.05
46 1 0.01
47 2 0.01
48 5 0.04
50 1 0.01
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (34 bp):
TAATTAAATATTTAATTATTAAAAACAACCCAAA
Found at i:14180460 original size:20 final size:18
Alignment explanation
Indices: 14180426--14180467 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 18
14180416 TAATTCAAAA
14180426 TATTTAATTATATTTAAT
1 TATTTAATTATATTTAAT
14180444 TATTTAATTAAATATTTAAT
1 TATTTAATT--ATATTTAAT
14180464 TATT
1 TATT
14180468 AAAAACAACC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 9 0.41
20 13 0.59
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TATTTAATTATATTTAAT
Found at i:14180472 original size:148 final size:150
Alignment explanation
Indices: 14180287--14180586 Score: 541
Period size: 148 Copynumber: 2.0 Consensus size: 150
14180277 TTAATTAAAA
14180287 ATATTTAATTATTTAATTAAATATTTAATTATTAAAAACAACCCAAATAATTAATTATTTAATTA
1 ATATTTAATTATTTAATTAAATATTTAATTATTAAAAACAACCCAAATAATTAATTATTTAATTA
*
14180352 TTTAAAACAACCCAATTAATTAGTTAATTAATTCATTATTTAATTATT-AAAA-AACCCAAATAT
66 TTTAAAACAACCCAATTAATTAATTAATTAATTCATTATTTAATTATTAAAAACAACCCAAATAT
14180415 TTAATTCAAAATATTTAATT
131 TTAATTCAAAATATTTAATT
*
14180435 ATATTTAATTATTTAATTAAATATTTAATTATTAAAAACAACCCAAATACTTAATTATTTAATTA
1 ATATTTAATTATTTAATTAAATATTTAATTATTAAAAACAACCCAAATAATTAATTATTTAATTA
* *
14180500 TTTAAAACAACCCAATTAATTAATTCATTCATTCATTATTTAATTATTAAAAACAACCCAAATAT
66 TTTAAAACAACCCAATTAATTAATTAATTAATTCATTATTTAATTATTAAAAACAACCCAAATAT
*
14180565 TTAATTCAAAATATTTATTT
131 TTAATTCAAAATATTTAATT
14180585 AT
1 AT
14180587 TAAAAACAAC
Statistics
Matches: 145, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
148 109 0.75
149 4 0.03
150 32 0.22
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (150 bp):
ATATTTAATTATTTAATTAAATATTTAATTATTAAAAACAACCCAAATAATTAATTATTTAATTA
TTTAAAACAACCCAATTAATTAATTAATTAATTCATTATTTAATTATTAAAAACAACCCAAATAT
TTAATTCAAAATATTTAATT
Found at i:14186721 original size:51 final size:51
Alignment explanation
Indices: 14186691--14186883 Score: 287
Period size: 51 Copynumber: 3.8 Consensus size: 51
14186681 ATTCATCATC
* *
14186691 GATTCATTTACTCACAATGATACTTAGTCATCGAACCTTTAATCCGTAAAG
1 GATTCATTTACTCACAATGACACTTAGTCATCGGACCTTTAATCCGTAAAG
* ** * *
14186742 GATTTATTTACTCATGATGACATTTAGTCATCGGACCTTTAATCCGTAAAT
1 GATTCATTTACTCACAATGACACTTAGTCATCGGACCTTTAATCCGTAAAG
* *
14186793 GATTCATTTACTCACGATGACACTTAGTCACCGGACCTTTAATCCGTAAAG
1 GATTCATTTACTCACAATGACACTTAGTCATCGGACCTTTAATCCGTAAAG
* *
14186844 GATTTATTTACTGACAATGACACTTAGTCATCGGACCTTT
1 GATTCATTTACTCACAATGACACTTAGTCATCGGACCTTT
14186884 CGTTTATAGC
Statistics
Matches: 126, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 126 1.00
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (51 bp):
GATTCATTTACTCACAATGACACTTAGTCATCGGACCTTTAATCCGTAAAG
Found at i:14186831 original size:102 final size:102
Alignment explanation
Indices: 14186648--14186883 Score: 332
Period size: 102 Copynumber: 2.3 Consensus size: 102
14186638 TTTCATTTAA
* * * *
14186648 TACTCACGATGACATATT-GTCATCGAACCTTTAATTCATCATCGATTCATTTACTCACAATGAT
1 TACTCACGATGACAT-TTAGTCATCGGACCTTTAATCCATAATCGATTCATTTACTCACAATGAC
*
14186712 ACTTAGTCATCGAACCTTTAATCCGTAAAGGATTTATT
65 ACTTAGTCACCGAACCTTTAATCCGTAAAGGATTTATT
* * *
14186750 TACTCATGATGACATTTAGTCATCGGACCTTTAATCCGTAAAT-GATTCATTTACTCACGATGAC
1 TACTCACGATGACATTTAGTCATCGGACCTTTAATCCAT-AATCGATTCATTTACTCACAATGAC
*
14186814 ACTTAGTCACCGGACCTTTAATCCGTAAAGGATTTATT
65 ACTTAGTCACCGAACCTTTAATCCGTAAAGGATTTATT
* * *
14186852 TACTGACAATGACACTTAGTCATCGGACCTTT
1 TACTCACGATGACATTTAGTCATCGGACCTTT
14186884 CGTTTATAGC
Statistics
Matches: 119, Mismatches: 13, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
101 2 0.02
102 115 0.97
103 2 0.02
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (102 bp):
TACTCACGATGACATTTAGTCATCGGACCTTTAATCCATAATCGATTCATTTACTCACAATGACA
CTTAGTCACCGAACCTTTAATCCGTAAAGGATTTATT
Found at i:14191040 original size:43 final size:43
Alignment explanation
Indices: 14190974--14191282 Score: 335
Period size: 43 Copynumber: 7.3 Consensus size: 43
14190964 AATCTGTTAA
* * *
14190974 TTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAGACCGTGTTC
1 TTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGACCATGTTC
* * *
14191017 TTTAGCGGCGTTTATGGGGAAAGCGTCGCTAAAGACCATATTC
1 TTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGACCATGTTC
* *
14191060 TTTAGCGGCGTTTGTGGGGAAAAGCGCTGCTAAAGACCATGTTT
1 TTTAGCGGCGTTTGTGGGG-AAAGCGCCGCTAAAGACCATGTTC
*
14191104 TTTAGCGGCG-TTGATGGGGAAAGTGCCGCT--A-A--ATGTTC
1 TTTAGCGGCGTTTG-TGGGGAAAGCGCCGCTAAAGACCATGTTC
* * * * * *
14191142 TTTAGTGGCGATTGTCGAGAAAGCGCCGCTAAAGAACATGGTC
1 TTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGACCATGTTC
* * *
14191185 TTTAGCGGCGATTGT-GGGAAAGCGTCGTTAAAGACCATGTTC
1 TTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGACCATGTTC
* * * *
14191227 TTTAGCGGCATTTATGGGAAAAGCGCCACTAAAGACCATGTTC
1 TTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGACCATGTTC
* *
14191270 TATAGCGGTGTTT
1 TTTAGCGGCGTTT
14191283 TTCCACATAA
Statistics
Matches: 222, Mismatches: 35, Indels: 18
0.81 0.13 0.07
Matches are distributed among these distances:
38 27 0.12
39 3 0.01
40 2 0.01
41 2 0.01
42 34 0.15
43 119 0.54
44 35 0.16
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.28
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGACCATGTTC
Found at i:14191201 original size:125 final size:123
Alignment explanation
Indices: 14190974--14191259 Score: 315
Period size: 125 Copynumber: 2.3 Consensus size: 123
14190964 AATCTGTTAA
* * * *
14190974 TTTAGCGGCATTTG-TGGGAAAAGCGCCGCTAAAGACCGTGTTCTTTAGCGGCGTTTATGGGGAA
1 TTTAGCGGCA-TTGATGGGAAAAGCGCCACT-AA-A---TGTTCTTTAGCGGCGATTATCGAGAA
* * * *
14191038 AGCGTCGCTAAAGACCATATTCTTTAGCGGCGTTTGTGGGGAAAAGCG-CTGCTAAAGACCATGT
60 AGCGCCGCTAAAGAACATAGTCTTTAGCGGCGATTGT-GGG-AAAGCGTC-GCTAAAGACCATGT
*
14191102 TT
122 TC
* * * * * *
14191104 TTTAGCGGCGTTGATGGGGAAAGTGCCGCTAAATGTTCTTTAGTGGCGATTGTCGAGAAAGCGCC
1 TTTAGCGGCATTGATGGGAAAAGCGCCACTAAATGTTCTTTAGCGGCGATTATCGAGAAAGCGCC
* *
14191169 GCTAAAGAACATGGTCTTTAGCGGCGATTGTGGGAAAGCGTCGTTAAAGACCATGTTC
66 GCTAAAGAACATAGTCTTTAGCGGCGATTGTGGGAAAGCGTCGCTAAAGACCATGTTC
*
14191227 TTTAGCGGCATTTATGGGAAAAGCGCCACTAAA
1 TTTAGCGGCATTGATGGGAAAAGCGCCACTAAA
14191260 GACCATGTTC
Statistics
Matches: 134, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
123 48 0.36
124 4 0.03
125 53 0.40
128 1 0.01
129 5 0.04
130 23 0.17
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (123 bp):
TTTAGCGGCATTGATGGGAAAAGCGCCACTAAATGTTCTTTAGCGGCGATTATCGAGAAAGCGCC
GCTAAAGAACATAGTCTTTAGCGGCGATTGTGGGAAAGCGTCGCTAAAGACCATGTTC
Found at i:14191301 original size:167 final size:168
Alignment explanation
Indices: 14190993--14191301 Score: 397
Period size: 167 Copynumber: 1.8 Consensus size: 168
14190983 ATTTGTGGGA
* * * *
14190993 AAAGCGCCGCTAAAGACCGTGTTCTTTAGCGGCGTTTATGGGGAAAGCGTCGCTAAAGACCATAT
1 AAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGATTATGGGGAAAGCGTCGCTAAAGACCATAT
* * ** * * ****
14191058 TCTTTAGCGGCGTTTGTGGGGAAAAGCGCTGCTAAAGACCATGTTTTTTAGCGGCGTTGATGGGG
66 TCTTTAGCGGCATTTATGGGGAAAAGCGCCACTAAAGACCATGTTCTATAGCGGCGTTGATCCAC
**
14191123 AAAGTGCCGCTAAATGTTCTTTAGTGGCGATTGTCGAG
131 AAAACGCCGCTAAATGTTCTTTAGTGGCGATTGTCGAG
* * *
14191161 AAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGATTGT-GGGAAAGCGTCGTTAAAGACCATGT
1 AAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGATTATGGGGAAAGCGTCGCTAAAGACCATAT
* **
14191225 TCTTTAGCGGCATTTAT-GGGAAAAGCGCCACTAAAGACCATGTTCTATAGCGGTGTTTTTCCAC
66 TCTTTAGCGGCATTTATGGGGAAAAGCGCCACTAAAGACCATGTTCTATAGCGGCGTTGATCCAC
14191289 ATAAACGCCGCTA
131 A-AAACGCCGCTA
14191302 TTTTTAGCGG
Statistics
Matches: 118, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
166 37 0.31
167 47 0.40
168 34 0.29
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (168 bp):
AAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGATTATGGGGAAAGCGTCGCTAAAGACCATAT
TCTTTAGCGGCATTTATGGGGAAAAGCGCCACTAAAGACCATGTTCTATAGCGGCGTTGATCCAC
AAAACGCCGCTAAATGTTCTTTAGTGGCGATTGTCGAG
Found at i:14191345 original size:21 final size:21
Alignment explanation
Indices: 14191319--14191370 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
14191309 CGGCGTTATC
14191319 TTTAGCGGCGTCGCTAAATGT
1 TTTAGCGGCGTCGCTAAATGT
14191340 TTTAGCGGCGTCGCTAAATGT
1 TTTAGCGGCGTCGCTAAATGT
14191361 TTTAGCGGCG
1 TTTAGCGGCG
14191371 CTTATAGACC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.17, C:0.19, G:0.31, T:0.33
Consensus pattern (21 bp):
TTTAGCGGCGTCGCTAAATGT
Found at i:14191971 original size:42 final size:43
Alignment explanation
Indices: 14191858--14191973 Score: 139
Period size: 42 Copynumber: 2.8 Consensus size: 43
14191848 AAACGCCGCT
* * * *
14191858 TAAACGCCACTAAAA-GTCAGAGCATTAGCAGCGTTTTTCTCA
1 TAAACGCCGCTAAAAGGTCAGAGCATTAGCGGCGTCTTTATCA
** *
14191900 TAGGCACCGCT-AAAGGTCAGAGCATTAGCGGCG-CTTTATCA
1 TAAACGCCGCTAAAAGGTCAGAGCATTAGCGGCGTCTTTATCA
*
14191941 TAAACGCCGCTAAAAGGTCAAAGCATTAGCGGC
1 TAAACGCCGCTAAAAGGTCAGAGCATTAGCGGC
14191974 ATTTACGGAT
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
41 17 0.28
42 44 0.72
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (43 bp):
TAAACGCCGCTAAAAGGTCAGAGCATTAGCGGCGTCTTTATCA
Found at i:14194362 original size:17 final size:18
Alignment explanation
Indices: 14194333--14194376 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
14194323 GGCCCAAACC
*
14194333 ATTTTGAA-ATTAAATTT
1 ATTTTGAATTTTAAATTT
14194350 ATTTT-AATTTTAAATTT
1 ATTTTGAATTTTAAATTT
14194367 ATTTTGAATT
1 ATTTTGAATT
14194377 CAATTTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 2 0.08
17 18 0.75
18 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
ATTTTGAATTTTAAATTT
Found at i:14194370 original size:11 final size:11
Alignment explanation
Indices: 14194339--14194424 Score: 54
Period size: 11 Copynumber: 7.7 Consensus size: 11
14194329 AACCATTTTG
*
14194339 AAATTAAATTT
1 AAATTTAATTT
*
14194350 -ATTTTAATTTT
1 AAATTTAA-TTT
*
14194361 AAATTTATTTT
1 AAATTTAATTT
* *
14194372 GAATTCAATTT
1 AAATTTAATTT
14194383 AAATTTGAATTT
1 AAATTT-AATTT
14194395 -AATTTAAATTT
1 AAATTT-AATTT
14194406 AACA-TT-ATTAT
1 AA-ATTTAATT-T
14194417 AAATTTAA
1 AAATTTAA
14194425 AAATAAAAGC
Statistics
Matches: 57, Mismatches: 10, Indels: 15
0.70 0.12 0.18
Matches are distributed among these distances:
10 9 0.16
11 33 0.58
12 14 0.25
13 1 0.02
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (11 bp):
AAATTTAATTT
Found at i:14194389 original size:17 final size:17
Alignment explanation
Indices: 14194369--14194405 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
14194359 TTAAATTTAT
14194369 TTTGAATTCAATTTAAA
1 TTTGAATTCAATTTAAA
*
14194386 TTTGAATTTAATTTAAA
1 TTTGAATTCAATTTAAA
14194403 TTT
1 TTT
14194406 AACATTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (17 bp):
TTTGAATTCAATTTAAA
Found at i:14194425 original size:6 final size:6
Alignment explanation
Indices: 14194342--14194407 Score: 50
Period size: 6 Copynumber: 11.7 Consensus size: 6
14194332 CATTTTGAAA
* * * * *
14194342 TTAAAT TT-ATT TTAATT TTAAAT TT-ATT TTGAA- TTCAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
14194387 TTGAAT TT-AAT TTAAAT TTAA
1 TTAAAT TTAAAT TTAAAT TTAA
14194408 CATTATTATA
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
5 17 0.35
6 32 0.65
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (6 bp):
TTAAAT
Found at i:14195904 original size:30 final size:30
Alignment explanation
Indices: 14195870--14196097 Score: 366
Period size: 30 Copynumber: 7.6 Consensus size: 30
14195860 AACTATCTAG
*
14195870 AAATTATATTTTGACCCCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
* *
14195900 AAATTACATTTTAACCCTAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
*
14195930 AAATTACATTTTGACCCTAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
* *
14195960 AAATTATATTTTGACCCCAAGACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
* *
14195990 AAATTATATTTTAACCCCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
* *
14196020 AAATTACATTTTAACCCTAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
14196050 AAATTACATTTTGACCCCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
14196080 AAATTACATTTTGACCCC
1 AAATTACATTTTGACCCC
14196098 GGTTTTACCA
Statistics
Matches: 185, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 185 1.00
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.36
Consensus pattern (30 bp):
AAATTACATTTTGACCCCAAAACTTTTCCA
Found at i:14196120 original size:30 final size:28
Alignment explanation
Indices: 14196073--14196185 Score: 90
Period size: 29 Copynumber: 3.9 Consensus size: 28
14196063 ACCCCAAAAC
14196073 TTTTCC-AAAATTA-CATTTTGACCCCGG
1 TTTTCCAAAAATTACCATTTT-ACCCCGG
*
14196100 TTTTACCAAAAATTACCATTTTACCACCGAA
1 TTTT-CCAAAAATTACCATTTTACC-CCG-G
* * *
14196131 CTTTCC-AAAATT-CCGTTTTTGACCTCGG
1 TTTTCCAAAAATTACC-ATTTT-ACCCCGG
*
14196159 TTTTGCCAAAATTTACCATTTTACCCC
1 TTTT-CCAAAAATTACCATTTTACCCC
14196186 CGAACTTTCT
Statistics
Matches: 67, Mismatches: 9, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
27 4 0.06
28 7 0.10
29 28 0.42
30 23 0.34
31 5 0.07
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.37
Consensus pattern (28 bp):
TTTTCCAAAAATTACCATTTTACCCCGG
Found at i:14196120 original size:60 final size:57
Alignment explanation
Indices: 14195870--14196208 Score: 301
Period size: 60 Copynumber: 5.7 Consensus size: 57
14195860 AACTATCTAG
* * **
14195870 AAATTATATTTTGACCCCAAAACTTTTCCAAAATTACATTTTAACCCTAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCC---CGCTTTTCCA
* *
14195930 AAATTACATTTTGACCCTAAAACTTTTCCAAAATTATATTTTGACCCCAAGACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCCC--G-CTTTTCCA
* * * **
14195990 AAATTATATTTTAACCCCAAAACTTTTCCAAAATTACATTTTAACCCTAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCC---CGCTTTTCCA
*
14196050 AAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCCCGGTTTTACCAA
1 AAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCCCGCTTTT-CC-A
* * * * *
14196109 AAATTACCATTTT-ACCACC-GAAC-TTTCCAAAATTCCGTTTTTGACCTCGGTTTTGCCA
1 AAATTA-CATTTTGACC-CCAAAACTTTTCCAAAATTAC-ATTTTGACCCCGCTTTT-CCA
** * *
14196167 AAATTTACCATTTT-ACCCCCGAAC-TTTCTAAAATTCCATTTT
1 AAA-TTA-CATTTTGACCCCAAAACTTTTCCAAAATTACATTTT
14196209 TATCCTTGAT
Statistics
Matches: 240, Mismatches: 26, Indels: 28
0.82 0.09 0.10
Matches are distributed among these distances:
57 4 0.02
58 24 0.10
59 59 0.25
60 153 0.64
ACGTcount: A:0.34, C:0.25, G:0.04, T:0.37
Consensus pattern (57 bp):
AAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCCCGCTTTTCCA
Found at i:14196245 original size:59 final size:59
Alignment explanation
Indices: 14196049--14196267 Score: 194
Period size: 59 Copynumber: 3.7 Consensus size: 59
14196039 AAACTTTTCC
** * * * * * *
14196049 AAAATTA-CATTTTGACCCCAAAACTTTTCCAAAATTACA-TTTTGACCCCGGTTTTACCA
1 AAAATTACCATTTT-ACCCCCGAAC-TTTCTAAAATTCCATTTTTGACCTCGATTTCACAA
* * * * ** *
14196108 AAAATTACCATTTTACCACCGAACTTTCCAAAATTCCGTTTTTGACCTCGGTTTTGCCA
1 AAAATTACCATTTTACCCCCGAACTTTCTAAAATTCCATTTTTGACCTCGATTTCACAA
* *
14196167 AAATTTACCATTTTACCCCCGAACTTTCTAAAATTCCATTTTT-ATCCTTGATTTCACAA
1 AAAATTACCATTTTACCCCCGAACTTTCTAAAATTCCATTTTTGA-CCTCGATTTCACAA
* **
14196226 AAAATTACCATTTTGCCCCCGAA-AGTCTAAAATTACCATTTT
1 AAAATTACCATTTTACCCCCGAACTTTCTAAAATT-CCATTTT
14196268 GCCCCCGGGT
Statistics
Matches: 136, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
58 22 0.16
59 108 0.79
60 6 0.04
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.36
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCCGAACTTTCTAAAATTCCATTTTTGACCTCGATTTCACAA
Found at i:14201656 original size:15 final size:14
Alignment explanation
Indices: 14201636--14201681 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
14201626 GAAGAAAAAC
14201636 AAATAAAAAAGGAGA
1 AAATAAAAAA-GAGA
* *
14201651 AAATAAAAAATAAA
1 AAATAAAAAAGAGA
*
14201665 AAACAAAAAAGAGA
1 AAATAAAAAAGAGA
14201679 AAA
1 AAA
14201682 GGAAAAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 16 0.62
15 10 0.38
ACGTcount: A:0.80, C:0.02, G:0.11, T:0.07
Consensus pattern (14 bp):
AAATAAAAAAGAGA
Found at i:14203203 original size:99 final size:100
Alignment explanation
Indices: 14202963--14203241 Score: 400
Period size: 100 Copynumber: 2.8 Consensus size: 100
14202953 CACAACAAGA
* * *
14202963 AAAGGTCTAAGTCACAA-TGGCAGACCATGTACCTCAAAAGCATGACGGGAAAGATCTAAGACCG
1 AAAGGTCTAAGTCGCAACT-GCGGACCGTGTACCTCAAAAGCATGACGGGAAAGATCTAAGACCG
* *
14203027 CAATGGCAGATCTAGTACTTTAAAAACAAAAAAGGG
65 CAATGGTAGATCCAGTACTTTAAAAACAAAAAAGGG
* *
14203063 AAAGGTCTAAGTTGCAACTGCGGACCGTGTACCTCAGAAGCATGACGGGAAAGATCTAAGACCGC
1 AAAGGTCTAAGTCGCAACTGCGGACCGTGTACCTCAAAAGCATGACGGGAAAGATCTAAGACCGC
*
14203128 AATGGTAGATCCAGTACTTT-AAAACAGAAAAGGG
66 AATGGTAGATCCAGTACTTTAAAAACAAAAAAGGG
* * * *
14203162 AAAGGTCTAAGTCGCAACTACGGACCGTGTACCTCAAAAGCATGGACCGAAAAGATCTAAGACCA
1 AAAGGTCTAAGTCGCAACTGCGGACCGTGTACCTCAAAAGCAT-GACGGGAAAGATCTAAGACCG
* *
14203227 CAACGGTGGATCCAG
65 CAATGGTAGATCCAG
14203242 CACCACAAAA
Statistics
Matches: 161, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
99 53 0.33
100 107 0.66
101 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (100 bp):
AAAGGTCTAAGTCGCAACTGCGGACCGTGTACCTCAAAAGCATGACGGGAAAGATCTAAGACCGC
AATGGTAGATCCAGTACTTTAAAAACAAAAAAGGG
Found at i:14203272 original size:100 final size:100
Alignment explanation
Indices: 14202940--14203274 Score: 385
Period size: 100 Copynumber: 3.4 Consensus size: 100
14202930 TTATAGGTCT
* * *
14202940 CAGCACCACAAAACACAACAA-GAAAAGGTCTAAGTCACAA-TGGCAGACCATGTACCTCAAAAG
1 CAGCACCACAAAACACAACAAGGAAAAGGTCTAAGTCGCAACT-GCGGACCGTGTACCTCAAAAG
*
14203003 CATGACGGGAAAGATCTAAGACCGCAATGGCAGATC
65 CATGACGGGAAAGATCTAAGACCGCAATGGTAGATC
* * * * * * *
14203039 TAGTACTTTA-AAAACA-AAAAAGGGAAAGGTCTAAGTTGCAACTGCGGACCGTGTACCTCAGAA
1 CAGCAC--CACAAAACACAACAAGGAAAAGGTCTAAGTCGCAACTGCGGACCGTGTACCTCAAAA
14203102 GCATGACGGGAAAGATCTAAGACCGCAATGGTAGATC
64 GCATGACGGGAAAGATCTAAGACCGCAATGGTAGATC
* *** * * *
14203139 CAGTACTTTAAAACAGAA-AAGGGAAAGGTCTAAGTCGCAACTACGGACCGTGTACCTCAAAAGC
1 CAGCACCACAAAACACAACAAGGAAAAGGTCTAAGTCGCAACTGCGGACCGTGTACCTCAAAAGC
* * * * *
14203203 ATGGACCGAAAAGATCTAAGACCACAACGGTGGATC
66 AT-GACGGGAAAGATCTAAGACCGCAATGGTAGATC
14203239 CAGCACCACAAAACACAACAA-GAAAAGGTCTAAGTC
1 CAGCACCACAAAACACAACAAGGAAAAGGTCTAAGTC
14203275 ACAATGGCAG
Statistics
Matches: 201, Mismatches: 27, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
98 1 0.00
99 59 0.29
100 137 0.68
101 4 0.02
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.15
Consensus pattern (100 bp):
CAGCACCACAAAACACAACAAGGAAAAGGTCTAAGTCGCAACTGCGGACCGTGTACCTCAAAAGC
ATGACGGGAAAGATCTAAGACCGCAATGGTAGATC
Found at i:14203338 original size:150 final size:148
Alignment explanation
Indices: 14203127--14203399 Score: 483
Period size: 149 Copynumber: 1.8 Consensus size: 148
14203117 TCTAAGACCG
*
14203127 CAATGGTAGATCCAGTACTTTAAAACAGAAAAGGGAAAGGTCTAAGTCGCAACTACGGACCGTGT
1 CAATGGCAGATCCAGTACTTTAAAACAGAAAAGGGAAAGGTCTAAGTCGCAACTACGGACCGTGT
14203192 ACCTCAAAAGCATGGACCGAAAAGATCTAAGACCACAACGGTGGATCCAGCACCACAAAACACAA
66 ACCTCAAAAGCATGGACCG-AAAGATCTAAGACCACAACGGTGGATCCAGCACCACAAAACACAA
14203257 CAAGAAAAGGTCTAAGTCA
130 CAAGAAAAGGTCTAAGTCA
*
14203276 CAATGGCAGATCCAGTACTTTAAATACAGAAAAGGGAAAGGTCTAAGTCGCAACTGCGGACCGTG
1 CAATGGCAGATCCAGTACTTTAAA-ACAGAAAAGGGAAAGGTCTAAGTCGCAACTACGGACCGTG
** *
14203341 TACCTCAAAAGCATGGACCGAAAGATCTAAGACTGCAACGGTGGATCCAGTACCACAAA
65 TACCTCAAAAGCATGGACCGAAAGATCTAAGACCACAACGGTGGATCCAGCACCACAAA
14203400 GATACAGAAG
Statistics
Matches: 118, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
149 59 0.50
150 59 0.50
ACGTcount: A:0.40, C:0.23, G:0.22, T:0.16
Consensus pattern (148 bp):
CAATGGCAGATCCAGTACTTTAAAACAGAAAAGGGAAAGGTCTAAGTCGCAACTACGGACCGTGT
ACCTCAAAAGCATGGACCGAAAGATCTAAGACCACAACGGTGGATCCAGCACCACAAAACACAAC
AAGAAAAGGTCTAAGTCA
Found at i:14203420 original size:51 final size:50
Alignment explanation
Indices: 14203360--14203483 Score: 144
Period size: 51 Copynumber: 2.5 Consensus size: 50
14203350 AGCATGGACC
** * *
14203360 GAAAGATCTAAGA-CTGCAACGGTGGATCCAGTACCACAAAGATACAGAAGG
1 GAAAGATCTAAGATC-GCAACGGCAGATCCAGTACCACAAAGACAC-GAAGA
* * *
14203411 GAAAGATCTAAGATCGCAACGGCAGATCTAGTACCACGAAGACACGACGA
1 GAAAGATCTAAGATCGCAACGGCAGATCCAGTACCACAAAGACACGAAGA
*
14203461 GAAAGATCTAAG-TCGTAACGGCA
1 GAAAGATCTAAGATCGCAACGGCA
14203484 ATACATGAAG
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
49 10 0.16
50 15 0.23
51 38 0.59
52 1 0.02
ACGTcount: A:0.40, C:0.21, G:0.25, T:0.14
Consensus pattern (50 bp):
GAAAGATCTAAGATCGCAACGGCAGATCCAGTACCACAAAGACACGAAGA
Found at i:14203421 original size:150 final size:150
Alignment explanation
Indices: 14203109--14203444 Score: 507
Period size: 150 Copynumber: 2.2 Consensus size: 150
14203099 GAAGCATGAC
* *
14203109 GGGAAAGATCTAAGACCGCAATGGTAGATCCAGTACTTTAAAACAGAAAAGGGAAAGGTCTAAGT
1 GGGAAAGATCTAAGATCGCAATGGCAGATCCAGTACTTTAAAACAGAAAAGGGAAAGGTCTAAGT
14203174 CGCAACTACGGACCGTGTACCTCAAAAGCATGGACCGAAAAGATCTAAGACCACAACGGTGGATC
66 CGCAACTACGGACCGTGTACCTCAAAAGCATGGACCGAAAAGATCTAAGACCACAACGGTGGATC
14203239 CAGCACCACAAAACACAACA
131 CAGCACCACAAAACACAACA
* * * *
14203259 AGAAAAGGTCTAAG-TCACAATGGCAGATCCAGTACTTTAAATACAGAAAAGGGAAAGGTCTAAG
1 GGGAAAGATCTAAGATCGCAATGGCAGATCCAGTACTTTAAA-ACAGAAAAGGGAAAGGTCTAAG
* **
14203323 TCGCAACTGCGGACCGTGTACCTCAAAAGCATGGACCG-AAAGATCTAAGACTGCAACGGTGGAT
65 TCGCAACTACGGACCGTGTACCTCAAAAGCATGGACCGAAAAGATCTAAGACCACAACGGTGGAT
* *
14203387 CCAGTACCACAAAGATACAGA-A
130 CCAGCACCACAAA-ACACA-ACA
* *
14203409 GGGAAAGATCTAAGATCGCAACGGCAGATCTAGTAC
1 GGGAAAGATCTAAGATCGCAATGGCAGATCCAGTAC
14203445 CACGAAGACA
Statistics
Matches: 165, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
149 60 0.36
150 86 0.52
151 19 0.12
ACGTcount: A:0.40, C:0.22, G:0.23, T:0.15
Consensus pattern (150 bp):
GGGAAAGATCTAAGATCGCAATGGCAGATCCAGTACTTTAAAACAGAAAAGGGAAAGGTCTAAGT
CGCAACTACGGACCGTGTACCTCAAAAGCATGGACCGAAAAGATCTAAGACCACAACGGTGGATC
CAGCACCACAAAACACAACA
Found at i:14203789 original size:38 final size:38
Alignment explanation
Indices: 14203747--14203876 Score: 122
Period size: 38 Copynumber: 3.4 Consensus size: 38
14203737 CCTATCCTCT
14203747 TGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTC
1 TGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTC
* * ** *
14203785 TGAAATTGAAGTAAGAG-T-AAGATCATTTC-CTATCCTC
1 TGAAATTGAAGTAA-AGCTGGATATCAAGTCTTTAT-CTC
* * *
14203822 TTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCTATC
1 -TGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATC--TC
14203863 TGAAATTGAAGTAA
1 TGAAATTGAAGTAA
14203877 GAGTAAGATG
Statistics
Matches: 70, Mismatches: 14, Indels: 14
0.71 0.14 0.14
Matches are distributed among these distances:
36 3 0.04
37 12 0.17
38 29 0.41
39 9 0.13
40 15 0.21
41 2 0.03
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (38 bp):
TGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTC
Found at i:14203846 original size:76 final size:77
Alignment explanation
Indices: 14203726--14203885 Score: 277
Period size: 76 Copynumber: 2.1 Consensus size: 77
14203716 GATGAAGCAC
*
14203726 TAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATC-TCTGAAA
1 TAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGCCTTTATCATCTGAAA
14203790 TTGAAGTAAGAG
66 TTGAAGTAAGAG
* *
14203802 TAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCTATCTGAA
1 TAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGCCTTTATC-ATCTGAA
14203867 ATTGAAGTAAGAG
65 ATTGAAGTAAGAG
14203880 TAAGAT
1 TAAGAT
14203886 GAAGCACTAA
Statistics
Matches: 79, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
76 54 0.68
78 25 0.32
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (77 bp):
TAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGCCTTTATCATCTGAAA
TTGAAGTAAGAG
Found at i:14203915 original size:50 final size:50
Alignment explanation
Indices: 14203861--14204366 Score: 317
Period size: 50 Copynumber: 10.6 Consensus size: 50
14203851 CCTTTGTCTA
* *
14203861 TCTGAAATTGAAGTAAGAGTAAGATGAAGCACTAAGATCATTTCCTATCC
1 TCTGAAATTGAAGTAAGAGTAAGATGAAGCACCAACATCATTTCCTATCC
* ** *
14203911 TCTGAAATTGAAGTAAGAGCAAGATGAAGCACCAACATCATTTTTTGTCC
1 TCTGAAATTGAAGTAAGAGTAAGATGAAGCACCAACATCATTTCCTATCC
* * *
14203961 -CAAGGAATTGAAGTAAGAGCAAGATGAAGCACCAACATCATTTTCCTATCC
1 TC-TGAAATTGAAGTAAGAGTAAGATGAAGCACCAACATCA-TTTCCTATCC
* * * * *
14204012 TCTTGAAATTGAAGTAA-AGCT-GGAT--ATCA--AGC--C--TTCGT-CCC
1 TC-TGAAATTGAAGTAAGAG-TAAGATGAAGCACCAACATCATTTCCTATCC
* *
14204053 TCTGAAATTGAAGTAAGAGTAAGATGAAGCACCGACATCTTTTCCTATCC
1 TCTGAAATTGAAGTAAGAGTAAGATGAAGCACCAACATCATTTCCTATCC
* * * * *
14204103 TCTTGAAATTGAAGT-AGAGCT-GGAT--ATCA--AGCCTC-TGT-C--T-C
1 TC-TGAAATTGAAGTAAGAG-TAAGATGAAGCACCAACATCATTTCCTATCC
* *
14204144 TCTGAAATTGAAGTAAGGGCAAGATGAAGCACCAACATCATTTTCCTATCC
1 TCTGAAATTGAAGTAAGAGTAAGATGAAGCACCAACATCA-TTTCCTATCC
* * * * *
14204195 TCTTGAAATTGAAGT-AGAGCT-GGAT--ATCA--AGC--C-TTT-GTCT-C
1 TC-TGAAATTGAAGTAAGAG-TAAGATGAAGCACCAACATCATTTCCTATCC
* * ** *
14204236 TCTGAAATTGAAGTAAGAGCAAGATGAAGTACCAACATCATTTTTTGTCCC
1 TCTGAAATTGAAGTAAGAGTAAGATGAAGCACCAACATCATTTCCTAT-CC
* * * *
14204287 TCTAAAATTGAAGTAAGAGTAAGATGAAACACCAACATCATTTTC-GTCC
1 TCTGAAATTGAAGTAAGAGTAAGATGAAGCACCAACATCATTTCCTATCC
* *
14204336 ATCTGAAATTGAAGTAAGAGCAAGACGAAGC
1 -TCTGAAATTGAAGTAAGAGTAAGATGAAGC
14204367 CTAAACATCA
Statistics
Matches: 350, Mismatches: 62, Indels: 88
0.70 0.12 0.18
Matches are distributed among these distances:
40 39 0.11
41 28 0.08
42 7 0.02
43 11 0.03
44 1 0.00
45 11 0.03
46 3 0.01
47 8 0.02
48 7 0.02
49 15 0.04
50 120 0.34
51 75 0.21
52 25 0.07
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (50 bp):
TCTGAAATTGAAGTAAGAGTAAGATGAAGCACCAACATCATTTCCTATCC
Found at i:14204115 original size:51 final size:48
Alignment explanation
Indices: 14204051--14204366 Score: 186
Period size: 51 Copynumber: 6.7 Consensus size: 48
14204041 AGCCTTCGTC
*
14204051 CCTCTGAAATTGAAGTAAGAGTAAGATGAAGCACCGACATC-TTTTCCTAT
1 CCTCTGAAATTGAAGTAAGAGTAAGATGAAGCACCAACATCATTTT-C--T
* * * * *
14204101 CCTCTTGAAATTGAAGT-AGAGCT-GGAT--ATCA--AGCCTC--TGTCT
1 CCTC-TGAAATTGAAGTAAGAG-TAAGATGAAGCACCAACATCATTTTCT
* *
14204143 -CTCTGAAATTGAAGTAAGGGCAAGATGAAGCACCAACATCATTTTCCTAT
1 CCTCTGAAATTGAAGTAAGAGTAAGATGAAGCACCAACATCATTTT-C--T
* * *
14204193 CCTCTTGAAATTGAAGT-AGAGCT-GGAT--ATCA--AGC--C-TTTGTCT
1 CCTC-TGAAATTGAAGTAAGAG-TAAGATGAAGCACCAACATCATTT-TCT
* * *
14204235 -CTCTGAAATTGAAGTAAGAGCAAGATGAAGTACCAACATCATTTTTTGT
1 CCTCTGAAATTGAAGTAAGAGTAAGATGAAGCACCAACATCA--TTTTCT
* *
14204284 CCCTCTAAAATTGAAGTAAGAGTAAGATGAAACACCAACATCATTTTCGT
1 -CCTCTGAAATTGAAGTAAGAGTAAGATGAAGCACCAACATCATTTTC-T
* *
14204334 CCATCTGAAATTGAAGTAAGAGCAAGACGAAGC
1 CC-TCTGAAATTGAAGTAAGAGTAAGATGAAGC
14204367 CTAAACATCA
Statistics
Matches: 201, Mismatches: 33, Indels: 64
0.67 0.11 0.21
Matches are distributed among these distances:
40 24 0.12
41 19 0.09
42 2 0.01
43 5 0.02
44 5 0.02
45 10 0.05
46 3 0.01
47 5 0.02
48 4 0.02
49 11 0.05
50 42 0.21
51 59 0.29
52 12 0.06
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (48 bp):
CCTCTGAAATTGAAGTAAGAGTAAGATGAAGCACCAACATCATTTTCT
Found at i:14204219 original size:183 final size:188
Alignment explanation
Indices: 14203806--14204366 Score: 674
Period size: 183 Copynumber: 3.0 Consensus size: 188
14203796 TAAGAGTAAG
*
14203806 ATCA-TTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCTATCTGAAATT
1 ATCATTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCTCTCTGAAATT
* * *
14203870 GAAGTAAGAGTAAGATGAAGCACTAAGATCATTTCCTATCCTCTGAAATTGAAGTAAGAGCAAGA
66 GAAGTAAGAGTAAGATGAAGCACCAACATCTTTTCCTATCCTCTGAAATTGAAGTAAGAGCAAGA
* * * *
14203935 TGAAGCACCAACATCATTTTTTGTCCCAAGGAATTGAAGTAAGAGCAAGATGAAGCACCAAC
131 T-AAGCA-CAACA-CA-TCTGTCTCCCAAGAAATTGAAGTAAGAGCAAGATGAAGCACCAAC
* * *
14203997 ATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGCCTTCGTCCCTCTGAAATT
1 ATCATTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCTCTCTGAAATT
* **
14204062 GAAGTAAGAGTAAGATGAAGCACCGACATCTTTTCCTATCCTCTTGAAATTGAAGT-AGAGCTGG
66 GAAGTAAGAGTAAGATGAAGCACCAACATCTTTTCCTATCCTC-TGAAATTGAAGTAAGAGCAAG
* * * * *
14204126 AT-ATCA-AGC-C-TCTGTCTCTC-TGAAATTGAAGTAAGGGCAAGATGAAGCACCAAC
130 ATAAGCACAACACATCTGTCTCCCAAGAAATTGAAGTAAGAGCAAGATGAAGCACCAAC
14204180 ATCATTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCTCTCTGAAATT
1 ATCATTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCTCTCTGAAATT
* * * * * *
14204245 GAAGTAAGAGCAAGATGAAGTACCAACATCATTTT-TTGTCCCTCTAAAATTGAAGTAAGAGTAA
66 GAAGTAAGAGTAAGATGAAGCACCAACATC-TTTTCCTAT-CCTCTGAAATTGAAGTAAGAGCAA
* * * *
14204309 GATGAAACACCAACATCAT-TTTCGT-CCATCTGAAATTGAAGTAAGAGCAAGACGAAGC
129 GAT-AAGCA-CAACA-CATCTGTC-TCCCA--AGAAATTGAAGTAAGAGCAAGATGAAGC
14204367 CTAAACATCA
Statistics
Matches: 317, Mismatches: 37, Indels: 30
0.83 0.10 0.08
Matches are distributed among these distances:
183 133 0.42
184 21 0.07
186 4 0.01
188 4 0.01
190 8 0.03
191 6 0.02
192 103 0.32
193 38 0.12
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (188 bp):
ATCATTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCTCTCTGAAATT
GAAGTAAGAGTAAGATGAAGCACCAACATCTTTTCCTATCCTCTGAAATTGAAGTAAGAGCAAGA
TAAGCACAACACATCTGTCTCCCAAGAAATTGAAGTAAGAGCAAGATGAAGCACCAAC
Found at i:14204289 original size:92 final size:92
Alignment explanation
Indices: 14203806--14204279 Score: 641
Period size: 92 Copynumber: 5.1 Consensus size: 92
14203796 TAAGAGTAAG
*
14203806 ATCA-TTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCTATCTGAAATT
1 ATCATTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCTCTCTGAAATT
* * *
14203870 GAAGTAAGAGTAAGATGAAGCACTAAG
66 GAAGTAAGAGCAAGATGAAGCACCAAC
** * * * *
14203897 ATCA-TTTCCTATCCTC-TGAAATTGAAGTAAGAGCAAGATGAAGCACCAACATCATTTTTTGTC
1 ATCATTTTCCTATCCTCTTGAAATTGAAGT-AGAGCTGGAT--ATCA--AGC--C--TTTGTCTC
* * *
14203960 CCAAGGAATTGAAGTAAGAGCAAGATGAAGCACCAAC
57 TC-TGAAATTGAAGTAAGAGCAAGATGAAGCACCAAC
* * *
14203997 ATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGCCTTCGTCCCTCTGAAATT
1 ATCATTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCTCTCTGAAATT
* *
14204062 GAAGTAAGAGTAAGATGAAGCACCGAC
66 GAAGTAAGAGCAAGATGAAGCACCAAC
*
14204089 ATC-TTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTCTGTCTCTCTGAAATT
1 ATCATTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCTCTCTGAAATT
*
14204153 GAAGTAAGGGCAAGATGAAGCACCAAC
66 GAAGTAAGAGCAAGATGAAGCACCAAC
14204180 ATCATTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCTCTCTGAAATT
1 ATCATTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCTCTCTGAAATT
*
14204245 GAAGTAAGAGCAAGATGAAGTACCAAC
66 GAAGTAAGAGCAAGATGAAGCACCAAC
14204272 ATCATTTT
1 ATCATTTT
14204280 TTGTCCCTCT
Statistics
Matches: 333, Mismatches: 37, Indels: 25
0.84 0.09 0.06
Matches are distributed among these distances:
90 12 0.04
91 108 0.32
92 126 0.38
93 8 0.02
95 3 0.01
97 3 0.01
99 9 0.03
100 33 0.10
101 19 0.06
102 12 0.04
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.29
Consensus pattern (92 bp):
ATCATTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCTCTCTGAAATT
GAAGTAAGAGCAAGATGAAGCACCAAC
Found at i:14204645 original size:17 final size:18
Alignment explanation
Indices: 14204616--14204659 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
14204606 GGCCCAAACC
*
14204616 ATTTTGAA-ATTAAATTT
1 ATTTTGAATTTTAAATTT
14204633 ATTTT-AATTTTAAATTT
1 ATTTTGAATTTTAAATTT
14204650 ATTTTGAATT
1 ATTTTGAATT
14204660 CAATTTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 2 0.08
17 18 0.75
18 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
ATTTTGAATTTTAAATTT
Found at i:14204653 original size:11 final size:11
Alignment explanation
Indices: 14204622--14204707 Score: 54
Period size: 11 Copynumber: 7.7 Consensus size: 11
14204612 AACCATTTTG
*
14204622 AAATTAAATTT
1 AAATTTAATTT
*
14204633 -ATTTTAATTTT
1 AAATTTAA-TTT
*
14204644 AAATTTATTTT
1 AAATTTAATTT
* *
14204655 GAATTCAATTT
1 AAATTTAATTT
14204666 AAATTTGAATTT
1 AAATTT-AATTT
14204678 -AATTTAAATTT
1 AAATTT-AATTT
14204689 AACA-TT-ATTAT
1 AA-ATTTAATT-T
14204700 AAATTTAA
1 AAATTTAA
14204708 AAATAAAAGC
Statistics
Matches: 57, Mismatches: 10, Indels: 15
0.70 0.12 0.18
Matches are distributed among these distances:
10 9 0.16
11 33 0.58
12 14 0.25
13 1 0.02
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (11 bp):
AAATTTAATTT
Done.