Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 61 of 343
Found at i:19678807 original size:24 final size:25
Alignment explanation
Indices: 19678771--19678868 Score: 112
Period size: 24 Copynumber: 4.0 Consensus size: 25
19678761 TTATGATTTT
* *
19678771 TTTATATACATTATTTATTCTAAAC
1 TTTATATATATTATTTATTTTAAAC
*
19678796 TTT-TACATATTATTTATTTTAAA-
1 TTTATATATATTATTTATTTTAAAC
* * *
19678819 TTTATATACATTATGTA-GTTAAAC
1 TTTATATATATTATTTATTTTAAAC
19678843 TATTATATATATTATTTATTTTAAAC
1 T-TTATATATATTATTTATTTTAAAC
19678869 CCTCTTTATT
Statistics
Matches: 59, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
23 8 0.14
24 28 0.47
25 17 0.29
26 6 0.10
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.54
Consensus pattern (25 bp):
TTTATATATATTATTTATTTTAAAC
Found at i:19678828 original size:48 final size:49
Alignment explanation
Indices: 19678771--19678867 Score: 144
Period size: 48 Copynumber: 2.0 Consensus size: 49
19678761 TTATGATTTT
* *
19678771 TTTATATACATTATTTATTCTAAACT-TT-TACATATTATTTATTTTAAA
1 TTTATATACATTATGTAGT-TAAACTATTATACATATTATTTATTTTAAA
*
19678819 TTTATATACATTATGTAGTTAAACTATTATATATATTATTTATTTTAAA
1 TTTATATACATTATGTAGTTAAACTATTATACATATTATTTATTTTAAA
19678868 CCCTCTTTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
47 6 0.14
48 19 0.43
49 19 0.43
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.55
Consensus pattern (49 bp):
TTTATATACATTATGTAGTTAAACTATTATACATATTATTTATTTTAAA
Found at i:19686075 original size:38 final size:38
Alignment explanation
Indices: 19686024--19686355 Score: 241
Period size: 38 Copynumber: 8.0 Consensus size: 38
19686014 GAATGAAAAA
* *
19686024 AACGTGGTGCTAAGTGGATATACCATGGTTATACGTGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
* **
19686062 AACGTGGTGCTAAGTGGGTATACCACTATTACAAATATTGATACATGT
1 AACGTGGTGCTAAGTGGATATA-C-C----AC---GGTT-ATACATGT
** *
19686110 AACGTGGTGCTAAGTGGATATGTCACGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTT--ATACA-TG------T
*
19686157 AACGTGGTGCTAAGTGGATATACCACGGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
* * * *
19686195 AACGTGGTTCTAAGTGGATATGCCACAGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
* * *
19686233 AACGTGGTGCTAAGTGGATATGCCATGGCTATATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGG-T-TATACA-TG------T
* *
19686280 AACGTGGTGCTAAGTGGATATACCATGGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
*
19686318 AACGTGGTGCTAAGTGGATATGCCACGGTTATACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
19686356 TAATTTGAAA
Statistics
Matches: 237, Mismatches: 30, Indels: 54
0.74 0.09 0.17
Matches are distributed among these distances:
38 118 0.50
39 4 0.02
40 9 0.04
41 4 0.02
42 2 0.01
44 5 0.02
45 7 0.03
46 2 0.01
47 59 0.25
48 27 0.11
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (38 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
Found at i:19686323 original size:123 final size:123
Alignment explanation
Indices: 19686104--19686355 Score: 432
Period size: 123 Copynumber: 2.0 Consensus size: 123
19686094 AAATATTGAT
* *
19686104 ACATGTAACGTGGTGCTAAGTGGATATGTCACGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGCTACATATATTGATTCATTAACGTGGTGCTA
*
19686169 AGTGGATATACCACGGTTAAACATGTAACGTGGTTCTAAGTGGATATGCCACAGTTAA
66 AGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACAGTTAA
* *
19686227 ACATGTAACGTGGTGCTAAGTGGATATGCCATGGCTATATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGCTACATATATTGATTCATTAACGTGGTGCTA
* * *
19686292 AGTGGATATACCATGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTAT
66 AGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACAGTTAA
19686350 ACATGT
1 ACATGT
19686356 TAATTTGAAA
Statistics
Matches: 121, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
123 121 1.00
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.31
Consensus pattern (123 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCACGGCTACATATATTGATTCATTAACGTGGTGCTA
AGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACAGTTAA
Found at i:19687145 original size:74 final size:74
Alignment explanation
Indices: 19687063--19687210 Score: 287
Period size: 74 Copynumber: 2.0 Consensus size: 74
19687053 TCCAAAAGTA
*
19687063 AGAATTTAAAATAATAAATGATGTGAATAATGATATTATGAATAAAAAATATTAACATGGGATAC
1 AGAATTTAAAATAATAAATGATGTGAATAATGACATTATGAATAAAAAATATTAACATGGGATAC
19687128 TAGAACATT
66 TAGAACATT
19687137 AGAATTTAAAATAATAAATGATGTGAATAATGACATTATGAATAAAAAATATTAACATGGGATAC
1 AGAATTTAAAATAATAAATGATGTGAATAATGACATTATGAATAAAAAATATTAACATGGGATAC
19687202 TAGAACATT
66 TAGAACATT
19687211 CAAATAACAA
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.51, C:0.05, G:0.14, T:0.30
Consensus pattern (74 bp):
AGAATTTAAAATAATAAATGATGTGAATAATGACATTATGAATAAAAAATATTAACATGGGATAC
TAGAACATT
Found at i:19687210 original size:37 final size:37
Alignment explanation
Indices: 19687097--19687210 Score: 128
Period size: 37 Copynumber: 3.1 Consensus size: 37
19687087 GAATAATGAT
19687097 ATTATGAATAAAAAATATTAACATGGGATACTAGAAC
1 ATTATGAATAAAAAATATTAACATGGGATACTAGAAC
** * *
19687134 ATTA-GAATTTAAAATAATAA-ATGATGTGAATAAT-G-AC
1 ATTATGAATAAAAAATATTAACATG--G-G-ATACTAGAAC
19687171 ATTATGAATAAAAAATATTAACATGGGATACTAGAAC
1 ATTATGAATAAAAAATATTAACATGGGATACTAGAAC
19687208 ATT
1 ATT
19687211 CAAATAACAA
Statistics
Matches: 61, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
35 7 0.11
36 15 0.25
37 17 0.28
38 15 0.25
39 7 0.11
ACGTcount: A:0.51, C:0.06, G:0.13, T:0.30
Consensus pattern (37 bp):
ATTATGAATAAAAAATATTAACATGGGATACTAGAAC
Found at i:19690571 original size:28 final size:28
Alignment explanation
Indices: 19690539--19690594 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
19690529 AGTTAAGTTG
19690539 CCCAAAGATTTTCAAAGTTCTTGGTTTA
1 CCCAAAGATTTTCAAAGTTCTTGGTTTA
19690567 CCCAAAGATTTTCAAAGTTCTTGGTTTA
1 CCCAAAGATTTTCAAAGTTCTTGGTTTA
19690595 GTCCCGAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (28 bp):
CCCAAAGATTTTCAAAGTTCTTGGTTTA
Found at i:19691401 original size:21 final size:21
Alignment explanation
Indices: 19691376--19691415 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
19691366 ATTATCTAGA
19691376 AAACATGGAAATACATGTAGG
1 AAACATGGAAATACATGTAGG
19691397 AAACATGGAAATACATGTA
1 AAACATGGAAATACATGTA
19691416 TAAGTACACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.50, C:0.10, G:0.20, T:0.20
Consensus pattern (21 bp):
AAACATGGAAATACATGTAGG
Found at i:19692397 original size:15 final size:15
Alignment explanation
Indices: 19692377--19692418 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
19692367 GCTGTAAATG
19692377 GGATTTCCTTATCAT
1 GGATTTCCTTATCAT
* *
19692392 GGATTTCTTTATCTT
1 GGATTTCCTTATCAT
19692407 GGATTTCCTTAT
1 GGATTTCCTTAT
19692419 TCTGGGCTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.14, T:0.52
Consensus pattern (15 bp):
GGATTTCCTTATCAT
Found at i:19695277 original size:38 final size:38
Alignment explanation
Indices: 19695226--19695472 Score: 260
Period size: 38 Copynumber: 6.0 Consensus size: 38
19695216 ATTGATTCAT
19695226 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* *
19695264 TAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG
19695305 ATTCATTAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
1 ------TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* * *
19695349 TAACGTGATGCTAAGTGGATATGCCACGGTTACATATATTG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG
*
19695390 ATTCATTAATGTGGTGCTAAGTGGATATACCACGGTTAAACATG
1 ------TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* *
19695434 TAACGTGGTGCTAAGTGGATATGCCACGGTTATACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
19695472 T
1 T
19695473 TAATTTGAAA
Statistics
Matches: 177, Mismatches: 14, Indels: 36
0.78 0.06 0.16
Matches are distributed among these distances:
38 97 0.55
39 2 0.01
40 4 0.02
41 4 0.02
44 4 0.02
45 4 0.02
46 2 0.01
47 60 0.34
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
Found at i:19695317 original size:85 final size:85
Alignment explanation
Indices: 19695174--19695465 Score: 548
Period size: 85 Copynumber: 3.4 Consensus size: 85
19695164 AAATATTGAT
**
19695174 ACATGTAACGTGGTGCTAAGTGGATATGCCATAGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
19695239 AGTGGATATACCACGGTTAA
66 AGTGGATATACCACGGTTAA
19695259 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
19695324 AGTGGATATACCACGGTTAA
66 AGTGGATATACCACGGTTAA
* *
19695344 ACATGTAACGTGATGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAATGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
19695409 AGTGGATATACCACGGTTAA
66 AGTGGATATACCACGGTTAA
19695429 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
19695466 TACATGTTAA
Statistics
Matches: 202, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 202 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (85 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
AGTGGATATACCACGGTTAA
Found at i:19695338 original size:47 final size:47
Alignment explanation
Indices: 19695264--19695427 Score: 220
Period size: 47 Copynumber: 3.7 Consensus size: 47
19695254 GTTAAACATG
*
19695264 TAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
*
19695311 TAACGTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG------
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
* *
19695349 TAACGTGATGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
*
19695396 TAATGTGGTGCTAAGTGGATATACCACGGTTA
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA
19695428 AACATGTAAC
Statistics
Matches: 100, Mismatches: 8, Indels: 18
0.79 0.06 0.14
Matches are distributed among these distances:
38 30 0.30
39 1 0.01
40 2 0.02
41 2 0.02
44 2 0.02
45 2 0.02
46 1 0.01
47 60 0.60
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (47 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
Found at i:19701003 original size:17 final size:16
Alignment explanation
Indices: 19700981--19701023 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
19700971 AAAAAAATAC
19700981 TAATATTTTTTGTAATT
1 TAATATTTTTT-TAATT
**
19700998 TAATATTTAATTAATT
1 TAATATTTTTTTAATT
*
19701014 TAACATTTTT
1 TAATATTTTT
19701024 AAAGTATGTT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (16 bp):
TAATATTTTTTTAATT
Found at i:19718211 original size:23 final size:23
Alignment explanation
Indices: 19718185--19718243 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
19718175 AAAACCATAT
19718185 AGAATACGCCACAAAGGCTATA-C
1 AGAATACGCCACAAAGGCT-TAGC
*
19718208 AGAATACACCACAAAGGCTTAGC
1 AGAATACGCCACAAAGGCTTAGC
* *
19718231 ATATTACGCCACA
1 AGAATACGCCACA
19718244 CAAGCAACAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 2 0.06
23 29 0.94
ACGTcount: A:0.42, C:0.27, G:0.15, T:0.15
Consensus pattern (23 bp):
AGAATACGCCACAAAGGCTTAGC
Found at i:19725414 original size:28 final size:28
Alignment explanation
Indices: 19725374--19725450 Score: 127
Period size: 28 Copynumber: 2.8 Consensus size: 28
19725364 GAATCATTTG
19725374 ATATTTCGCACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
19725402 ATATCTCGTACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
19725430 ATATTTCGCACACTAAATGCC
1 ATATTTCGCACACTAAGTGCC
19725451 GTATTTGATG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.30, C:0.29, G:0.10, T:0.31
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:19728297 original size:30 final size:30
Alignment explanation
Indices: 19728262--19728349 Score: 99
Period size: 30 Copynumber: 2.9 Consensus size: 30
19728252 TAGGCACTTC
19728262 CACACGGGTA-ATCCACACGCCCT-TGTGTGA
1 CACACGGGTAGA-CCACACG-CCTGTGTGTGA
*
19728292 CACACGGGTAGACTACACGCCTGTGTGTGA
1 CACACGGGTAGACCACACGCCTGTGTGTGA
* * * *
19728322 CACACGAGTAGACTACACCCCCGTGTGT
1 CACACGGGTAGACCACACGCCTGTGTGT
19728350 CATGACCATG
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
29 3 0.06
30 48 0.92
31 1 0.02
ACGTcount: A:0.24, C:0.32, G:0.25, T:0.19
Consensus pattern (30 bp):
CACACGGGTAGACCACACGCCTGTGTGTGA
Found at i:19728317 original size:28 final size:29
Alignment explanation
Indices: 19728262--19728339 Score: 104
Period size: 30 Copynumber: 2.6 Consensus size: 29
19728252 TAGGCACTTC
*
19728262 CACACGGGTA-ATCCACACGCCCTTGTGTGA
1 CACACGGGTAGA-CTACACG-CCTTGTGTGA
19728292 CACACGGGTAGACTACACGCCTGTGTGTGA
1 CACACGGGTAGACTACACGCCT-TGTGTGA
*
19728322 CACACGAGTAGACTACAC
1 CACACGGGTAGACTACAC
19728340 CCCCGTGTGT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
29 3 0.07
30 40 0.91
31 1 0.02
ACGTcount: A:0.27, C:0.31, G:0.24, T:0.18
Consensus pattern (29 bp):
CACACGGGTAGACTACACGCCTTGTGTGA
Found at i:19733598 original size:40 final size:37
Alignment explanation
Indices: 19733532--19733666 Score: 134
Period size: 35 Copynumber: 3.7 Consensus size: 37
19733522 CATGGAAAAG
*
19733532 TGTGAAATGTAGGTATAGTA--TCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATTTCATCCATACTGAGT
19733567 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATT-TC--ATCCATACTGAGT
** * ** *
19733607 TAAGAAACGTAGGTATGACATTTC--CCATACCGAGT
1 TGTGAAATGTAGGTATGGTATTTCATCCATACTGAGT
* *
19733642 TGTAAAATGTAGGTACGGTATTTCA
1 TGTGAAATGTAGGTATGGTATTTCA
19733667 ATGAGGAAAA
Statistics
Matches: 80, Mismatches: 14, Indels: 11
0.76 0.13 0.10
Matches are distributed among these distances:
35 46 0.57
38 2 0.03
39 2 0.03
40 30 0.38
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.33
Consensus pattern (37 bp):
TGTGAAATGTAGGTATGGTATTTCATCCATACTGAGT
Found at i:19738881 original size:9 final size:9
Alignment explanation
Indices: 19738852--19738888 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
19738842 TGAGTTTTCG
19738852 AATTCGAAT
1 AATTCGAAT
*
19738861 AACTCGAAT
1 AATTCGAAT
19738870 AATTCGAAT
1 AATTCGAAT
*
19738879 AATTCAAAT
1 AATTCGAAT
19738888 A
1 A
19738889 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:19742290 original size:40 final size:37
Alignment explanation
Indices: 19742228--19742358 Score: 146
Period size: 35 Copynumber: 3.6 Consensus size: 37
19742218 GCAAAGTGTG
19742228 AAATGTAGGTATGGTA--TCATCCATACTGAGTTGTA
1 AAATGTAGGTATGGTATTTCATCCATACTGAGTTGTA
*
19742263 AAATGTAGGTATGGTATTATCAAATCCATACTGAGTT-AA
1 AAATGTAGGTATGGTATT-TC--ATCCATACTGAGTTGTA
* ** *
19742302 GAAACGTAGGTATGACATTTC--CCATACCGAGTTGTA
1 -AAATGTAGGTATGGTATTTCATCCATACTGAGTTGTA
19742338 AAATGTAGGTATGGTATTTCA
1 AAATGTAGGTATGGTATTTCA
19742359 ATGAGGAAAA
Statistics
Matches: 79, Mismatches: 9, Indels: 15
0.77 0.09 0.15
Matches are distributed among these distances:
35 44 0.56
36 1 0.01
38 2 0.03
39 3 0.04
40 29 0.37
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (37 bp):
AAATGTAGGTATGGTATTTCATCCATACTGAGTTGTA
Found at i:19742346 original size:35 final size:37
Alignment explanation
Indices: 19742242--19742350 Score: 107
Period size: 40 Copynumber: 2.9 Consensus size: 37
19742232 GTAGGTATGG
**
19742242 TATCATCCATACTGAGTTGTAAAATGTAGGTATGGTAT
1 TATCA-CCATACTGAGTTGTAAAATGTAGGTATGACAT
* *
19742280 TATCAAATCCATACTGAGTT-AAGAAACGTAGGTATGACAT
1 TATC--A-CCATACTGAGTTGTA-AAATGTAGGTATGACAT
*
19742320 T-TC-CCATACCGAGTTGTAAAATGTAGGTATG
1 TATCACCATACTGAGTTGTAAAATGTAGGTATG
19742351 GTATTTCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
35 23 0.38
36 1 0.02
38 4 0.07
39 3 0.05
40 29 0.48
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (37 bp):
TATCACCATACTGAGTTGTAAAATGTAGGTATGACAT
Found at i:19752847 original size:170 final size:171
Alignment explanation
Indices: 19752562--19752908 Score: 606
Period size: 170 Copynumber: 2.0 Consensus size: 171
19752552 GACTTCTTTG
* *
19752562 GGAAGAGAAATGCATGGTCATAGAACCAAAATTCTAGATGATAGAACATAGGGAGAGAAGCCATT
1 GGAAGAGAAATACATGGTCATAGAACCAAAATTCAAGATGATAGAACATAGGGAGAGAAGCCATT
* *
19752627 GTATGCCCAGTATCGCAATGAGATAGTTCCCCTTAATCTTAATTATCTCTTGTTGCAAAACACTT
66 GTATGCCCAGTATCCCAATGAGATAGTTCCCCTTAATCTTAATCATCTCTTGTTGCAAAACACTT
*
19752692 ACATTCTTTGGCAATTGTGTAATGATCTCATCCCCC-CCAT
131 ACATCCTTTGGCAATTGTGTAATGATCTCATCCCCCGCCAT
* *
19752732 GGAAGAGAAATACATGGTCATGGAATCAAAATTCAAGATGATAGAACATAGGGAGAGAAGCCATT
1 GGAAGAGAAATACATGGTCATAGAACCAAAATTCAAGATGATAGAACATAGGGAGAGAAGCCATT
*
19752797 GTATGCCTAGTATCCCAATGAGATAGTTCCCCTTAATCTTAATCATCTCTTGTTGCAAAACACTT
66 GTATGCCCAGTATCCCAATGAGATAGTTCCCCTTAATCTTAATCATCTCTTGTTGCAAAACACTT
*
19752862 ACATCCTTTTGCAATTGTGTAATGATCTCATCCCCCGCCAT
131 ACATCCTTTGGCAATTGTGTAATGATCTCATCCCCCGCCAT
19752903 GGAAGA
1 GGAAGA
19752909 TCGTTGAAGC
Statistics
Matches: 167, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
170 157 0.94
171 10 0.06
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.28
Consensus pattern (171 bp):
GGAAGAGAAATACATGGTCATAGAACCAAAATTCAAGATGATAGAACATAGGGAGAGAAGCCATT
GTATGCCCAGTATCCCAATGAGATAGTTCCCCTTAATCTTAATCATCTCTTGTTGCAAAACACTT
ACATCCTTTGGCAATTGTGTAATGATCTCATCCCCCGCCAT
Found at i:19755357 original size:11 final size:11
Alignment explanation
Indices: 19755341--19755367 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
19755331 ATGCTCTGGA
19755341 TAATATTAAGG
1 TAATATTAAGG
19755352 TAATATTAAGG
1 TAATATTAAGG
19755363 TAATA
1 TAATA
19755368 ATGTGAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.37
Consensus pattern (11 bp):
TAATATTAAGG
Found at i:19764465 original size:26 final size:25
Alignment explanation
Indices: 19764431--19764482 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
19764421 AACGAATTCA
19764431 AAATGACTT-GTTCATGATCGTAAAT
1 AAATGACTTAGTT-ATGATCGTAAAT
*
19764456 AAATGAACTTAGGTTGTGATCGTAAAT
1 AAATG-ACTTA-GTTATGATCGTAAAT
19764483 CCACTAGCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 5 0.22
26 4 0.17
27 11 0.48
28 3 0.13
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.35
Consensus pattern (25 bp):
AAATGACTTAGTTATGATCGTAAAT
Found at i:19764518 original size:36 final size:36
Alignment explanation
Indices: 19764471--19764554 Score: 107
Period size: 36 Copynumber: 2.3 Consensus size: 36
19764461 AACTTAGGTT
* * *
19764471 GTGATCGTAAATCCACT-AGCCTTAATAATATTAGTC
1 GTGATCGTAAAT-CAATGAGCCTTAATAACATCAGTC
*
19764507 GTGATCGTAAATCAATGAGCCTTAATAGCATCAGTC
1 GTGATCGTAAATCAATGAGCCTTAATAACATCAGTC
*
19764543 GTGATCATAAAT
1 GTGATCGTAAAT
19764555 TAGTGAACTA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
35 3 0.07
36 39 0.93
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.31
Consensus pattern (36 bp):
GTGATCGTAAATCAATGAGCCTTAATAACATCAGTC
Found at i:19764690 original size:134 final size:134
Alignment explanation
Indices: 19764507--19765092 Score: 712
Period size: 134 Copynumber: 4.4 Consensus size: 134
19764497 AATATTAGTC
* * ** * * *
19764507 GTGATCGTAAATCAATGAGCCTTAATAGCATCAGTCGTGATCATAAATTAGTGAACTATTTGAAT
1 GTGATCATAAATCAACGAGCCTTAATAATATCAGTCGTGATCGTAAATCAGCGAACTATTTGAAT
* * *
19764572 GGAGTTGCAATTGTAAAT-AAGCTTACTCAGAAGAACTTGTTCATGATCATAAATTAATGAACTT
66 GGAGTTGCGATTGTAAATCAA-CTAACTCAGAAGAACTTGTTCATGATCATAAATCAATGAACTT
19764636 AGGTT
130 AGGTT
* * * * * *
19764641 TTGATCATAAATCAACAAGCCTTAATAATATTAGTCGTGATCGTAAATTAGCGAACTGTTTAAAT
1 GTGATCATAAATCAACGAGCCTTAATAATATCAGTCGTGATCGTAAATCAGCGAACTATTTGAAT
* * ** *
19764706 GAAGTTGTGATCATAAATCAACTAACTTAGAAGAACTTGTTCATGATCGA-AAATCAATGAACTT
66 GGAGTTGCGATTGTAAATCAACTAACTCAGAAGAACTTGTTCATGATC-ATAAATCAATGAACTT
19764770 AGGTT
130 AGGTT
* * * * * *
19764775 GTGATCATTAATTAGCGAGCCTTAACAATATCAGTCGTGATCGTAAATCAACAAACTATTTGAAT
1 GTGATCATAAATCAACGAGCCTTAATAATATCAGTCGTGATCGTAAATCAGCGAACTATTTGAAT
* * *
19764840 GGAGTTGCGATTGTAAATCAACTAATTCAAAAGAACTTGTTCATGATTATAAATCAATGAACTTA
66 GGAGTTGCGATTGTAAATCAACTAACTCAGAAGAACTTGTTCATGATCATAAATCAATGAACTTA
19764905 GGTT
131 GGTT
* * * * * *
19764909 GCGATCATAAATCAACGAGCCTTAACAATATTAGTTGTGATCATAAATCAGCGAACTGTTTGAAT
1 GTGATCATAAATCAACGAGCCTTAATAATATCAGTCGTGATCGTAAATCAGCGAACTATTTGAAT
* * * *
19764974 GGAGTTGTGATTGTAAATCAACTAACTCA-AATGGAA-TTGTTTATGATCGTAAATCAATAAACT
66 GGAGTTGCGATTGTAAATCAACTAACTCAGAA--GAACTTGTTCATGATCATAAATCAATGAACT
19765037 TAGGTT
129 TAGGTT
* * * *
19765043 GTAATCATAAATCAGCGAGCCTTAATAATATCAGTCATGATCGCAAATCA
1 GTGATCATAAATCAACGAGCCTTAATAATATCAGTCGTGATCGTAAATCA
19765093 ACAAATTGTT
Statistics
Matches: 383, Mismatches: 64, Indels: 10
0.84 0.14 0.02
Matches are distributed among these distances:
133 3 0.01
134 374 0.98
135 6 0.02
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (134 bp):
GTGATCATAAATCAACGAGCCTTAATAATATCAGTCGTGATCGTAAATCAGCGAACTATTTGAAT
GGAGTTGCGATTGTAAATCAACTAACTCAGAAGAACTTGTTCATGATCATAAATCAATGAACTTA
GGTT
Found at i:19764880 original size:268 final size:267
Alignment explanation
Indices: 19764536--19765097 Score: 786
Period size: 268 Copynumber: 2.1 Consensus size: 267
19764526 CCTTAATAGC
* * *** *
19764536 ATCAGTCGTGATCATAAATTAGTGAACTATTTGAATGGAGTTGCAATTGTAAATAAGCTTACTCA
1 ATCAGTCGTGATCGTAAATCAACAAACTATTTGAATGGAGTTGCAATTGTAAATAAGCTAACTCA
* * **
19764601 GAAGAACTTGTTCATGATCATAAATTAATGAACTTAGGTTTTGATCATAAATCAACAAGCCTTAA
66 AAAGAACTTGTTCATGATCATAAATCAATGAACTTAGGTTGCGATCATAAATCAACAAGCCTTAA
* * *
19764666 TAATATTAGTCGTGATCGTAAATTAGCGAACTGTTTAAATGAAGTTGTGATCATAAATCAACTAA
131 CAATATTAGTCGTGATCATAAATCAGCGAACTGTTTAAATGAAGTTGTGATCATAAATCAACTAA
* * * * *
19764731 CTTAGAA-GAACTTGTTCATGATCGAAAATCAATGAACTTAGGTTGTGATCATTAATTAGCGAGC
196 CTCA-AAGGAA-TTGTTCATGATCGAAAATCAATAAACTTAGGTTGTAATCATAAATCAGCGAGC
19764795 CTTAACAAT
259 CTTAACAAT
* *
19764804 ATCAGTCGTGATCGTAAATCAACAAACTATTTGAATGGAGTTGCGATTGTAAATCAA-CTAATTC
1 ATCAGTCGTGATCGTAAATCAACAAACTATTTGAATGGAGTTGCAATTGTAAAT-AAGCTAACTC
* *
19764868 AAAAGAACTTGTTCATGATTATAAATCAATGAACTTAGGTTGCGATCATAAATCAACGAGCCTTA
65 AAAAGAACTTGTTCATGATCATAAATCAATGAACTTAGGTTGCGATCATAAATCAACAAGCCTTA
* * * **
19764933 ACAATATTAGTTGTGATCATAAATCAGCGAACTGTTTGAATGGAGTTGTGATTGTAAATCAACTA
130 ACAATATTAGTCGTGATCATAAATCAGCGAACTGTTTAAATGAAGTTGTGATCATAAATCAACTA
* *
19764998 ACTCAAATGGAATTGTTTATGATCGTAAATCAATAAACTTAGGTTGTAATCATAAATCAGCGAGC
195 ACTCAAA-GGAATTGTTCATGATCGAAAATCAATAAACTTAGGTTGTAATCATAAATCAGCGAGC
*
19765063 CTTAATAAT
259 CTTAACAAT
* *
19765072 ATCAGTCATGATCGCAAATCAACAAA
1 ATCAGTCGTGATCGTAAATCAACAAA
19765098 TTGTTTAATA
Statistics
Matches: 259, Mismatches: 32, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
267 2 0.01
268 252 0.97
269 5 0.02
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.32
Consensus pattern (267 bp):
ATCAGTCGTGATCGTAAATCAACAAACTATTTGAATGGAGTTGCAATTGTAAATAAGCTAACTCA
AAAGAACTTGTTCATGATCATAAATCAATGAACTTAGGTTGCGATCATAAATCAACAAGCCTTAA
CAATATTAGTCGTGATCATAAATCAGCGAACTGTTTAAATGAAGTTGTGATCATAAATCAACTAA
CTCAAAGGAATTGTTCATGATCGAAAATCAATAAACTTAGGTTGTAATCATAAATCAGCGAGCCT
TAACAAT
Found at i:19770664 original size:33 final size:33
Alignment explanation
Indices: 19770622--19770688 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
19770612 AAGCATCCAT
19770622 TAATCTATCAATTAAGGATAAATGAAAACTATC
1 TAATCTATCAATTAAGGATAAATGAAAACTATC
*
19770655 TAATCTATCAATTAAGGGTAAATGAAAACTATC
1 TAATCTATCAATTAAGGATAAATGAAAACTATC
19770688 T
1 T
19770689 TTGAGCACAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.31
Consensus pattern (33 bp):
TAATCTATCAATTAAGGATAAATGAAAACTATC
Found at i:19776982 original size:20 final size:20
Alignment explanation
Indices: 19776930--19776972 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
19776920 ATCAGTATTC
*
19776930 TTATCCTGAATTTTAGAATT
1 TTATTCTGAATTTTAGAATT
*
19776950 TTATTCTGAATTTTAGTATT
1 TTATTCTGAATTTTAGAATT
19776970 TTA
1 TTA
19776973 ATTTGGATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.28, C:0.07, G:0.09, T:0.56
Consensus pattern (20 bp):
TTATTCTGAATTTTAGAATT
Found at i:19777765 original size:153 final size:150
Alignment explanation
Indices: 19777478--19777793 Score: 346
Period size: 160 Copynumber: 2.0 Consensus size: 150
19777468 AAAAAAATAA
* *
19777478 ATAATAATTACAGCATTACTTATATAAACAATAAATGATTACATATACGATAAAAATAAAATTAT
1 ATAATAATTACAGCATTACTTATATAAACAATAAATGATTACATATACAATAAAAATAAAAATAT
* *
19777543 TATACATATTATTATTTTATTACTGAAATTATACTTAACATATTTTTAGTAACGTTATAAATATC
66 TATACATATTATTATTTTATTACTGAAATTATACTTAACATATTTTTAATAAC-TTAT--ACATC
19777608 AAATAATCCAAAATTTTATTTAT
128 AAATAATCCAAAATTTTATTTAT
* * * * *
19777631 ATAATAATTACATCATTATTTATATAAACAATAAGTGATTGCATATTCAATAAAAATAAATTTAA
1 ATAATAATTACAGCATTACTTATATAAACAATAAATGATTACATATACAAT---AA-AAA--TAA
* * * * * *
19777696 AAATATTATACATTTTGTTGTTTTATTATTGAAATTATACTTTAACATGTTTTTAATAATTTCAT
60 AAATATTATACATATTATTATTTTATTACTGAAATTATAC-TTAACATATTTTTAATAACTT-AT
* *
19777761 AAATATAAAATAATCCAAAATTTTCA-TTAT
123 --ACATCAAATAATCCAAAATTTT-ATTTAT
19777791 ATA
1 ATA
19777794 CAATTTTTAG
Statistics
Matches: 139, Mismatches: 15, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
153 45 0.32
156 2 0.01
157 3 0.02
159 40 0.29
160 48 0.35
161 1 0.01
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (150 bp):
ATAATAATTACAGCATTACTTATATAAACAATAAATGATTACATATACAATAAAAATAAAAATAT
TATACATATTATTATTTTATTACTGAAATTATACTTAACATATTTTTAATAACTTATACATCAAA
TAATCCAAAATTTTATTTAT
Found at i:19780628 original size:22 final size:23
Alignment explanation
Indices: 19780599--19780653 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
19780589 TTTCAACTTT
* *
19780599 CTTAATTAAGTTTTAA-TAAATCA
1 CTTAATTAAG-TCTAATTAAACCA
19780622 -TTAATTAAGTCTAATTAAACCA
1 CTTAATTAAGTCTAATTAAACCA
19780644 CTTAATTAAG
1 CTTAATTAAG
19780654 CATAACCTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 4 0.14
22 15 0.54
23 9 0.32
ACGTcount: A:0.44, C:0.11, G:0.05, T:0.40
Consensus pattern (23 bp):
CTTAATTAAGTCTAATTAAACCA
Found at i:19781407 original size:12 final size:12
Alignment explanation
Indices: 19781390--19781414 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19781380 TGTGAAAAAT
19781390 AAAATAAAATAA
1 AAAATAAAATAA
19781402 AAAATAAAATAA
1 AAAATAAAATAA
19781414 A
1 A
19781415 GAACACACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:19785853 original size:13 final size:13
Alignment explanation
Indices: 19785835--19785860 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19785825 TATGAAAAAT
19785835 AAAATAAAATAAA
1 AAAATAAAATAAA
19785848 AAAATAAAATAAA
1 AAAATAAAATAAA
19785861 GAACACACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAATAAAATAAA
Found at i:19805207 original size:45 final size:45
Alignment explanation
Indices: 19805143--19805232 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
19805133 TGAGGAAGAA
19805143 ATCTACTATTTATAAATGATTAATTTAAATTTATTTAGATTTATT
1 ATCTACTATTTATAAATGATTAATTTAAATTTATTTAGATTTATT
19805188 ATCTACTATTTATAAATGATTAATTTAAATTTATTTAGATTTATT
1 ATCTACTATTTATAAATGATTAATTTAAATTTATTTAGATTTATT
19805233 CCTATTAAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.53
Consensus pattern (45 bp):
ATCTACTATTTATAAATGATTAATTTAAATTTATTTAGATTTATT
Found at i:19812213 original size:20 final size:20
Alignment explanation
Indices: 19812188--19812233 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
19812178 AGACCTCAAT
19812188 TTCTCAAAATCTCTTTTTGG
1 TTCTCAAAATCTCTTTTTGG
*
19812208 TTCTCAACATCTCTTTTTGG
1 TTCTCAAAATCTCTTTTTGG
19812228 TTCTCA
1 TTCTCA
19812234 GCTTTTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.17, C:0.24, G:0.09, T:0.50
Consensus pattern (20 bp):
TTCTCAAAATCTCTTTTTGG
Found at i:19814151 original size:14 final size:14
Alignment explanation
Indices: 19814132--19814167 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
19814122 TCTTCAATAA
19814132 CCATTTCATAAATT
1 CCATTTCATAAATT
19814146 CCATTTCATAAATT
1 CCATTTCATAAATT
*
19814160 TCATTTCA
1 CCATTTCA
19814168 ATAACTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.44
Consensus pattern (14 bp):
CCATTTCATAAATT
Found at i:19814500 original size:29 final size:30
Alignment explanation
Indices: 19814455--19814522 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 30
19814445 TGGCCTTAGA
*
19814455 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAATTTGAAGGAATAATAGT
*
19814485 GTAAATATGAAAATTTGAAGGAATAATAGT
1 GTAAATATCAAAATTTGAAGGAATAATAGT
*
19814515 GAAAATAT
1 GTAAATAT
19814523 TTTAAGGGTG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 17 0.50
30 17 0.50
ACGTcount: A:0.50, C:0.03, G:0.18, T:0.29
Consensus pattern (30 bp):
GTAAATATCAAAATTTGAAGGAATAATAGT
Found at i:19814784 original size:14 final size:15
Alignment explanation
Indices: 19814765--19814798 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
19814755 TTTAATGAGA
19814765 TATTTTATTATTA-T
1 TATTTTATTATTATT
19814779 TATTTTATTATTATT
1 TATTTTATTATTATT
19814794 TATTT
1 TATTT
19814799 AGTATAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TATTTTATTATTATT
Found at i:19816970 original size:12 final size:13
Alignment explanation
Indices: 19816952--19816983 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
19816942 TTGATATCTC
19816952 AATTTCAATTCAT
1 AATTTCAATTCAT
19816965 -ATTTCAATTCAT
1 AATTTCAATTCAT
19816977 AATTTCA
1 AATTTCA
19816984 CTTTCTCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.38, C:0.16, G:0.00, T:0.47
Consensus pattern (13 bp):
AATTTCAATTCAT
Found at i:19817403 original size:44 final size:44
Alignment explanation
Indices: 19817355--19817446 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
19817345 CCAAAGTAAC
* *
19817355 AGTAACAGTACGACACACA-AGGTGCCTCATCGACTTAAAGTCGA
1 AGTAACAGTACGAAACACATA-GTGCCTCATCGACTCAAAGTCGA
*** *
19817399 AGTAACAGTACGAAATTTATAGTGCCTCATCGACTCAAGGTCGA
1 AGTAACAGTACGAAACACATAGTGCCTCATCGACTCAAAGTCGA
19817443 AGTA
1 AGTA
19817447 TCCCTGAACA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 40 0.98
45 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (44 bp):
AGTAACAGTACGAAACACATAGTGCCTCATCGACTCAAAGTCGA
Found at i:19820094 original size:24 final size:23
Alignment explanation
Indices: 19820067--19820112 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
19820057 GCAATGTATT
19820067 TTTTTTCATAT-TTCTTTGTTTTAA
1 TTTTTT-ATATATTCTTT-TTTTAA
*
19820091 TTTTTTATGTATTCTTTTTTTA
1 TTTTTTATATATTCTTTTTTTA
19820113 TGATTTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.15, C:0.07, G:0.04, T:0.74
Consensus pattern (23 bp):
TTTTTTATATATTCTTTTTTTAA
Found at i:19820809 original size:24 final size:21
Alignment explanation
Indices: 19820758--19820808 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 21
19820748 TCATGAAGTT
19820758 AAAAAAATAACTATTAATCTA
1 AAAAAAATAACTATTAATCTA
*
19820779 AATAAAATAAACATAATT-ATCTA
1 AAAAAAAT-AAC-T-ATTAATCTA
19820802 AAAAAAA
1 AAAAAAA
19820809 AGTTTCAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 7 0.28
22 3 0.12
23 12 0.48
24 3 0.12
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (21 bp):
AAAAAAATAACTATTAATCTA
Found at i:19822734 original size:3 final size:3
Alignment explanation
Indices: 19822728--19822817 Score: 57
Period size: 3 Copynumber: 31.3 Consensus size: 3
19822718 TCAGTTAATT
* *
19822728 TTA TTA TTA TT- TTC TT- TTA CTA TTA TT- TATA TTCA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TT-A TTA TTA TTA
* * * * *
19822772 TTA CTA TTA CTA CTA TT- GTA TT- TT- TTA CTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
19822817 T
1 T
19822818 ACTATTAAAC
Statistics
Matches: 70, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
2 10 0.14
3 56 0.80
4 4 0.06
ACGTcount: A:0.28, C:0.08, G:0.01, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:19823017 original size:3 final size:3
Alignment explanation
Indices: 19822987--19823141 Score: 84
Period size: 3 Copynumber: 51.7 Consensus size: 3
19822977 TAAATTTTAA
* * * *
19822987 ATT ATTT ATT TTT ATT ATT TTT ACT ATT ATT ATT AGCGT ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT A--TT ATT ATT ATT
* * * * *
19823035 CTTT ATT -TT ATT GTT -GT ATT ATT ATT ATT ATT ATT ATT ATC ATC
1 -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * ** * *
19823079 ATC A-A ATT AAT -TT AGC ATT ATT ATT ATT ATT ATT ATT AGT ATT AGT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
19823125 ATT AGT ATT AGT ATT AT
1 ATT ATT ATT ATT ATT AT
19823142 ATCTCTTTCT
Statistics
Matches: 114, Mismatches: 30, Indels: 16
0.71 0.19 0.10
Matches are distributed among these distances:
2 5 0.04
3 102 0.89
4 5 0.04
5 2 0.02
ACGTcount: A:0.30, C:0.05, G:0.06, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:19823030 original size:26 final size:28
Alignment explanation
Indices: 19822999--19823074 Score: 81
Period size: 26 Copynumber: 2.9 Consensus size: 28
19822989 TATTTATTTT
*
19822999 TATTATTTTTACTATTATTATTA-G-CG
1 TATTATTATTACTATTATTATTATGTCG
*
19823025 TATTATTATT-CT-TTATT-TTATTGTTG
1 TATTATTATTACTATTATTATTA-TGTCG
*
19823051 TATTATTATTATTATTATTATTAT
1 TATTATTATTACTATTATTATTAT
19823075 CATCATCAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
23 3 0.07
24 5 0.12
25 3 0.07
26 20 0.49
27 1 0.02
28 6 0.15
29 3 0.07
ACGTcount: A:0.26, C:0.04, G:0.05, T:0.64
Consensus pattern (28 bp):
TATTATTATTACTATTATTATTATGTCG
Found at i:19823389 original size:16 final size:16
Alignment explanation
Indices: 19823356--19823401 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
19823346 TTAGGTCCTA
*
19823356 TTATTTTATTTTACTCT
1 TTATTTT-TTTTATTCT
19823373 TTATTTTTTTTATTCT
1 TTATTTTTTTTATTCT
*
19823389 TTAGTTTTTTTAT
1 TTATTTTTTTTAT
19823402 CTATTGTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 20 0.74
17 7 0.26
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (16 bp):
TTATTTTTTTTATTCT
Found at i:19830309 original size:133 final size:133
Alignment explanation
Indices: 19830069--19830723 Score: 960
Period size: 133 Copynumber: 5.0 Consensus size: 133
19830059 GTGAATTCAC
* * * * *
19830069 AGATCTTATCTCCATGAGGTAGTAATGGAGCAGATCGAAGACAGTGAATCTTATCTCCTTAAGGT
1 AGATCTTATCTCCATGAGGTAGCAATGGAGCAGATTGAAGACGGCGAATCTTATCTCCTTGAGGT
* *
19830134 AGTAAGGGAGCAGATTCAAGCCACTAGCCTTGTCTCCCTGAGCAGTAGTGGAGCAGGCTGAAGAT
66 AGCAAGGGAGCAGATTTAAGCCACTAGCCTTGTCTCCCTGAGCAGTAGTGGAGCAGGCTGAAGAT
19830199 TGT
131 TGT
* * * *
19830202 AAATCTTATCTCCATGAGGTAGCAATAGAGCAGATTAAAGACGGTGAATCTTATCTCCTTGAGGT
1 AGATCTTATCTCCATGAGGTAGCAATGGAGCAGATTGAAGACGGCGAATCTTATCTCCTTGAGGT
* * *
19830267 AGCAAGGGAGCAGATTTAAGCCACTAGTCGTGTCTCTCTGAGCAGTAGTGGAGCAGGCTGAAGAT
66 AGCAAGGGAGCAGATTTAAGCCACTAGCCTTGTCTCCCTGAGCAGTAGTGGAGCAGGCTGAAGAT
19830332 TGT
131 TGT
* * * *
19830335 AGATCTTATCTCTATGAGGTAGCAATGGAGCAGATCGAAGACGACGAATCTTATTTCCTTGAGGT
1 AGATCTTATCTCCATGAGGTAGCAATGGAGCAGATTGAAGACGGCGAATCTTATCTCCTTGAGGT
* * * *
19830400 AGCAAGGGAGCAGATTTCAGCCACTAGCCTTGTCTCCCTGAGCAGCAGTGGAGCAAGATGAAGAT
66 AGCAAGGGAGCAGATTTAAGCCACTAGCCTTGTCTCCCTGAGCAGTAGTGGAGCAGGCTGAAGAT
19830465 TGT
131 TGT
*
19830468 AGATCTTATCTCCATGAGGTAGCAATGGAGCAGATTGAAGACGGAGAATCTTATCTCCTTGAGGT
1 AGATCTTATCTCCATGAGGTAGCAATGGAGCAGATTGAAGACGGCGAATCTTATCTCCTTGAGGT
* *
19830533 AGCAAGGGAGCAGATTTAAGCCACTAGCCTTATCTCCCAGAGCAGTAGTGGAGCAGGCTGAAGAT
66 AGCAAGGGAGCAGATTTAAGCCACTAGCCTTGTCTCCCTGAGCAGTAGTGGAGCAGGCTGAAGAT
19830598 TGT
131 TGT
* * * * *
19830601 AGATCTCATCTGCATAAGGTAGTAATGGAACAGATTGAAGACGGCGAATCTTA--T-CTT--GGT
1 AGATCTTATCTCCATGAGGTAGCAATGGAGCAGATTGAAGACGGCGAATCTTATCTCCTTGAGGT
* ** * *
19830661 AGCAAGGGAGCAGATTCAAGCCACTAGCCTTGTCTCCCTGAGTTGTAATGGAGCAGGTTGAAG
66 AGCAAGGGAGCAGATTTAAGCCACTAGCCTTGTCTCCCTGAGCAGTAGTGGAGCAGGCTGAAG
19830724 TTACAAGTCT
Statistics
Matches: 471, Mismatches: 51, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
128 59 0.13
130 3 0.01
131 1 0.00
133 408 0.87
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.25
Consensus pattern (133 bp):
AGATCTTATCTCCATGAGGTAGCAATGGAGCAGATTGAAGACGGCGAATCTTATCTCCTTGAGGT
AGCAAGGGAGCAGATTTAAGCCACTAGCCTTGTCTCCCTGAGCAGTAGTGGAGCAGGCTGAAGAT
TGT
Found at i:19830548 original size:45 final size:44
Alignment explanation
Indices: 19830069--19830548 Score: 267
Period size: 45 Copynumber: 10.8 Consensus size: 44
19830059 GTGAATTCAC
* * * *
19830069 AGATCTTATCTCCATGAGGTAGTAATGGAGCAGATCGAAGACAGT
1 AGATCTTATCTCCTTGAGGTAGCAAGGGAGCAGATTGAAGAC-GT
* * *
19830114 -GAATCTTATCTCCTTAAGGTAGTAAGGGAGCAGATTCAAGCCAC-T
1 AG-ATCTTATCTCCTTGAGGTAGCAAGGGAGCAGATTGAAG--ACGT
* * * * * ** *
19830159 AG-CCTTGTCTCCCTGA-GCAG-TAGTGGAGCAGGCTGAAGATTGT
1 AGATCTTATCTCCTTGAGGTAGCAAG-GGAGCAGATTGAAGA-CGT
* * ** *
19830202 AAATCTTATCTCCATGAGGTAGCAATAGAGCAGATTAAAGACGGT
1 AGATCTTATCTCCTTGAGGTAGCAAGGGAGCAGATTGAAGAC-GT
*
19830247 -GAATCTTATCTCCTTGAGGTAGCAAGGGAGCAGATTTAAGCCAC-T
1 AG-ATCTTATCTCCTTGAGGTAGCAAGGGAGCAGATTGAAG--ACGT
* * * * ** *
19830292 AG-TCGTGTCT-CTCTGA-GCAG-TAGTGGAGCAGGCTGAAGATTGT
1 AGATCTTATCTCCT-TGAGGTAGCAAG-GGAGCAGATTGAAGA-CGT
* *
19830335 AGATCTTATCT-CTATGAGGTAGCAATGGAGCAGATCGAAGACG-
1 AGATCTTATCTCCT-TGAGGTAGCAAGGGAGCAGATTGAAGACGT
* **
19830378 ACGAATCTTATTTCCTTGAGGTAGCAAGGGAGCAGATTTCAGCCAC-T
1 A-G-ATCTTATCTCCTTGAGGTAGCAAGGGAGCAGATTGAAG--ACGT
* * * * *
19830425 AG-CCTTGTCTCCCTGA-GCAGC-AGTGGAGCAAGA-TGAAGATTGT
1 AGATCTTATCTCCTTGAGGTAGCAAG-GGAGC-AGATTGAAGA-CGT
* * *
19830468 AGATCTTATCTCCATGAGGTAGCAATGGAGCAGATTGAAGACGG
1 AGATCTTATCTCCTTGAGGTAGCAAGGGAGCAGATTGAAGACGT
19830512 AGAATCTTATCTCCTTGAGGTAGCAAGGGAGCAGATT
1 AG-ATCTTATCTCCTTGAGGTAGCAAGGGAGCAGATT
19830549 TAAGCCACTA
Statistics
Matches: 326, Mismatches: 72, Indels: 74
0.69 0.15 0.16
Matches are distributed among these distances:
41 3 0.01
42 6 0.02
43 51 0.16
44 74 0.23
45 177 0.54
46 8 0.02
47 7 0.02
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.25
Consensus pattern (44 bp):
AGATCTTATCTCCTTGAGGTAGCAAGGGAGCAGATTGAAGACGT
Found at i:19830794 original size:45 final size:43
Alignment explanation
Indices: 19830693--19830945 Score: 211
Period size: 45 Copynumber: 5.6 Consensus size: 43
19830683 ACTAGCCTTG
* * * *
19830693 TCTCCCTG-AGTTGTAATGGAGCAGGTTGAAGTTACAAGTCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAA-TCTTA
* * * *
19830736 TCTCCCTAAAGTTGTAGCGAAGCAGATTGAAGATATCGAATCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-C-AATCTTA
*
19830781 TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCACAAACCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG------AT-AC-AATCTTA
* * *
19830832 TCTCCTTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAA-TCTTA
* * * *
19830876 TCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGATAGCAAATCTCA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-C-AATCTTA
* *
19830921 TCTCCTTGAAGTTACAGTGGAGCAG
1 TCTCCCTGAAGTTGCAGTGGAGCAG
19830946 TGGAACAGAT
Statistics
Matches: 170, Mismatches: 27, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
43 9 0.05
44 56 0.33
45 61 0.36
46 4 0.02
51 39 0.23
52 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (43 bp):
TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAATCTTA
Found at i:19832397 original size:3 final size:3
Alignment explanation
Indices: 19832391--19832483 Score: 54
Period size: 3 Copynumber: 31.3 Consensus size: 3
19832381 TCAGATAATT
*
19832391 TTA TTA TTA TTTA CTT- TTA CTA TTA TT- TATA TTCA TTA TTA TTA TTA
1 TTA TTA TTA -TTA -TTA TTA TTA TTA TTA T-TA TT-A TTA TTA TTA TTA
* * * *
19832438 CTA TTA ATA CTA TT- GTA TT- TT- TTGA -TA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA
19832480 TTA T
1 TTA T
19832484 ACTATTAAAC
Statistics
Matches: 71, Mismatches: 10, Indels: 18
0.72 0.10 0.18
Matches are distributed among these distances:
2 9 0.13
3 53 0.75
4 9 0.13
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:19832414 original size:16 final size:16
Alignment explanation
Indices: 19832389--19832419 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19832379 AATCAGATAA
*
19832389 TTTTATTATTATTTAC
1 TTTTACTATTATTTAC
19832405 TTTTACTATTATTTA
1 TTTTACTATTATTTA
19832420 TATTCATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTACTATTATTTAC
Found at i:19832591 original size:3 final size:3
Alignment explanation
Indices: 19832583--19832763 Score: 83
Period size: 3 Copynumber: 59.3 Consensus size: 3
19832573 ACTTTTACCT
19832583 TTA TTA TTA TTA TTA TT- TTA TTA TCTA TTTA TTTA TATA TT- TTCA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA -TTA -TTA T-TA TTA TT-A
* * *
19832628 TATA CTT- TTA -AA TT- TTA -TA TTA TT- TATA TTTA TTA TTT TTA CTA
1 T-TA -TTA TTA TTA TTA TTA TTA TTA TTA T-TA -TTA TTA TTA TTA TTA
* *
19832672 TTA TTA TTA GCGTA TTA TTA TTCT TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA --TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
* * * ** * *
19832720 TTA TCA -AA TTA AT- TTA GCA TTA TTA TTA TTA TTT TTA GTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
19832764 ATCTCTTTCT
Statistics
Matches: 135, Mismatches: 23, Indels: 40
0.68 0.12 0.20
Matches are distributed among these distances:
2 14 0.10
3 97 0.72
4 18 0.13
5 6 0.04
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:19833002 original size:13 final size:13
Alignment explanation
Indices: 19832968--19833009 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
19832958 GTCCTATTAT
*
19832968 TTTATTTTAC-TC
1 TTTATTTTACTTA
19832980 TTTATTTTTACTTA
1 TTTA-TTTTACTTA
*
19832994 TTTATTTTATTTA
1 TTTATTTTACTTA
19833007 TTT
1 TTT
19833010 TTTAGTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 4 0.15
13 17 0.65
14 5 0.19
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTATTTTACTTA
Found at i:19835718 original size:30 final size:30
Alignment explanation
Indices: 19835636--19835740 Score: 106
Period size: 30 Copynumber: 3.5 Consensus size: 30
19835626 TTTGCATCGT
* *
19835636 ATCTG-ATTCTGTATCTGCATTTGTGTCTGA
1 ATCTGTATT-TGTATATGCATCTGTGTCTGA
* * *
19835666 ATCTAT-TTTTTATTTTTGCATCTGTGTCTGA
1 ATCTGTATTTGTA--TATGCATCTGTGTCTGA
19835697 ATCTGTATTTGTATATGCATCTGTGTCTGA
1 ATCTGTATTTGTATATGCATCTGTGTCTGA
* *
19835727 ATTTGTATCTGTAT
1 ATCTGTATTTGTAT
19835741 CTATTACTAT
Statistics
Matches: 62, Mismatches: 9, Indels: 8
0.78 0.11 0.10
Matches are distributed among these distances:
29 3 0.05
30 34 0.55
31 20 0.32
32 5 0.08
ACGTcount: A:0.18, C:0.13, G:0.17, T:0.51
Consensus pattern (30 bp):
ATCTGTATTTGTATATGCATCTGTGTCTGA
Found at i:19835742 original size:24 final size:24
Alignment explanation
Indices: 19835680--19835742 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 24
19835670 ATTTTTTATT
* * *
19835680 TTTGCATCTGTGTCTGAATCTGTA
1 TTTGTATCTGTATCTGAATCTGAA
* * **
19835704 TTTGTATATGCATCTGTGTCTGAA
1 TTTGTATCTGTATCTGAATCTGAA
19835728 TTTGTATCTGTATCT
1 TTTGTATCTGTATCT
19835743 ATTACTATCT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.17, C:0.14, G:0.19, T:0.49
Consensus pattern (24 bp):
TTTGTATCTGTATCTGAATCTGAA
Found at i:19842390 original size:24 final size:24
Alignment explanation
Indices: 19842358--19842430 Score: 110
Period size: 24 Copynumber: 3.0 Consensus size: 24
19842348 GATGAGATAC
19842358 CAACCTTTTCATTGCTATCCTTTT
1 CAACCTTTTCATTGCTATCCTTTT
**
19842382 CAACCTTTTCATTGCTATATTTTT
1 CAACCTTTTCATTGCTATCCTTTT
*
19842406 CAACCTTTTCATTTGTTATCCTTTT
1 CAACCTTTTCA-TTGCTATCCTTTT
19842431 TGGATAAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
24 33 0.77
25 10 0.23
ACGTcount: A:0.18, C:0.25, G:0.04, T:0.53
Consensus pattern (24 bp):
CAACCTTTTCATTGCTATCCTTTT
Found at i:19854342 original size:9 final size:9
Alignment explanation
Indices: 19854328--19854377 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 9
19854318 ATAAGTATAA
19854328 AATTAACCG
1 AATTAACCG
*
19854337 AATTAATCG
1 AATTAACCG
*
19854346 AATTACCCG
1 AATTAACCG
* *
19854355 AATTACCCA
1 AATTAACCG
19854364 AATTAACCG
1 AATTAACCG
19854373 AATTA
1 AATTA
19854378 TTTGTATAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:19854412 original size:5 final size:6
Alignment explanation
Indices: 19854397--19854443 Score: 67
Period size: 6 Copynumber: 7.5 Consensus size: 6
19854387 AATTATATGT
*
19854397 TTTTTA TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
19854444 ATTAAATTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
6 28 0.76
7 8 0.22
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:19856572 original size:25 final size:27
Alignment explanation
Indices: 19856551--19856601 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
19856541 ATGTTTTTCT
*
19856551 ATTTTTTAAAATTTT-TATTTTTAATA
1 ATTTTTGAAAATTTTATATTTTTAATA
*
19856577 ATTTTTGGAAATTTTATATTTTTAA
1 ATTTTTGAAAATTTTATATTTTTAA
19856602 ATTATTTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (27 bp):
ATTTTTGAAAATTTTATATTTTTAATA
Found at i:19856573 original size:15 final size:16
Alignment explanation
Indices: 19856553--19856582 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
19856543 GTTTTTCTAT
19856553 TTTTTAA-AATTTTTA
1 TTTTTAATAATTTTTA
19856568 TTTTTAATAATTTTT
1 TTTTTAATAATTTTT
19856583 GGAAATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTTAATAATTTTTA
Found at i:19859117 original size:22 final size:23
Alignment explanation
Indices: 19859087--19859136 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 23
19859077 TATTTAAACA
*
19859087 TATTTAAATATATTATAT-TTA-T
1 TATTAAAATAT-TTATATGTTATT
19859109 TATTAAAATATTTATATGTTATT
1 TATTAAAATATTTATATGTTATT
19859132 TATTA
1 TATTA
19859137 GTTTGTGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 6 0.24
22 13 0.52
23 6 0.24
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (23 bp):
TATTAAAATATTTATATGTTATT
Found at i:19868219 original size:59 final size:61
Alignment explanation
Indices: 19868085--19868243 Score: 202
Period size: 59 Copynumber: 2.6 Consensus size: 61
19868075 TCTAATATTT
* **
19868085 TTATT-AATTAATATTTTAATAATAAGTATATTAAAAATGTTATTAAATTATATATTATTGTTT
1 TTATTAAATT-ATA-TTTAATAATAATTATATTAAAAATG-TATTAAATTATATATTATTGTAA
*
19868148 TTATTAAATTATATTTAATAATAATTATATTAAAATATG-ATTAAATTATTTATTA-T-TAA
1 TTATTAAATTATATTTAATAATAATTATATTAAAA-ATGTATTAAATTATATATTATTGTAA
19868207 TTATTAAATTATATTTAATAATAATCT-TATTAAAAAT
1 TTATTAAATTATATTTAATAATAAT-TATATTAAAAAT
19868244 TAATAACAAT
Statistics
Matches: 89, Mismatches: 4, Indels: 11
0.86 0.04 0.11
Matches are distributed among these distances:
58 2 0.02
59 34 0.38
60 2 0.02
61 15 0.17
62 21 0.24
63 11 0.12
64 4 0.04
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.51
Consensus pattern (61 bp):
TTATTAAATTATATTTAATAATAATTATATTAAAAATGTATTAAATTATATATTATTGTAA
Found at i:19871026 original size:27 final size:23
Alignment explanation
Indices: 19870970--19871026 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 23
19870960 ATATTTAAAA
19870970 TAATAAAAATAATTTTAAAATAC
1 TAATAAAAATAATTTTAAAATAC
*
19870993 AATATAAAAATAAATTTTCCAAAAATAC
1 TA-ATAAAAAT-AATTTT---AAAATAC
19871021 TAATAA
1 TAATAA
19871027 GGATTATTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
23 1 0.04
24 8 0.30
25 6 0.22
27 4 0.15
28 8 0.30
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (23 bp):
TAATAAAAATAATTTTAAAATAC
Found at i:19881725 original size:663 final size:663
Alignment explanation
Indices: 19880447--19881772 Score: 2109
Period size: 663 Copynumber: 2.0 Consensus size: 663
19880437 TCCAATACAC
* *
19880447 TGGTGATCGACATCTCCTACCATATAGAGCTTCATATGGTGCAATTTGAATACTTGATTGGAAAC
1 TGGTGATCGACATCTCCTACCATATAGAGCTTCATATGGTGCAATTTGAATACCTGATTGGAAAA
* * *
19880512 TATTATTATATACAAATTCGGCTAATGGTAAGTAACGTTCCCAACCTGATTCAAAATCAATGATA
66 TATTATTATACACAAATTCGGCTAACGGTAAGTAACATTCCCAACCTGATTCAAAATCAATGATA
* * * ** *
19880577 TAAGATCGAAGCATGTCTTCTAAAATCTAATGACTCGTTCTGACTGTTTATCGGTCTGTGGATGA
131 CAAGATCAAAGCATGTCTTCAAAAATCTAATGACTCGTTCTGACTGTCCATCAGTCTGTGGATGA
*
19880642 AAAGCTATACTAAAATGAAGTCGAGTACCAAGAGACTCAAGCAACTGTTTCCAAAACCTCGATGT
196 AAAGCTATACTAAAATGAAGTCGAGTACCAAGAGACTCAAGCAACTATTTCCAAAACCTCGATGT
** * *
19880707 AAATTGTGGATCTCGATCAGAGATTATCGATACAAGAATTTCATGTAGTCTTACAATTTCCTGGA
261 AAACCGTGGATCTCGATCAGAGATTATCGATACAAGAATTCCATGTAGTCTCACAATTTCCTGGA
* *
19880772 TGTAAGTTTCTGCAAGTTTCTGAAGTAGCCAATCCATTCTAACTACTATAAAATGGGTTGACTTT
326 TATAAGTTTCTGCAAGTTTCTGAAGTAGCCAATCCATTCTAACTACTATAAAATGGGCTGACTTT
** * *
19880837 CTAAGGCGGTCAACAATAACCTAAATAGTATTTTTCTTACTTACTGACAATGGTAATCCAGTTAC
391 CTAAACCGGTCAACAATAACCCAAATAGTATTTTTCTTACTTACTGACAACGGTAATCCAGTTAC
* *
19880902 AAAATTCATTGTGATACAGTCCCATTTCTACTCAAGAATATTAATAGGCTGAAGTAATCCAGTTG
456 AAAATCCATTGTGATACAGTCCCATTTCCACTCAAGAATATTAATAGGCTGAAGTAATCCAGTTG
** *
19880967 GCACCTGATGCTCAGCTTTGACTCATTGTCATGTCAAACATTTAGCCACGAATTCCACTATATCC
521 GCACCTGATAATCAGCTTTGACTCATTGACATGTCAAACATTTAGCCACGAATTCCACTATATCC
* * *
19881032 CTCTTCATACCTGGCCACCAATATAATTCCCGTAAATCACGGTACATTTTTGTTTCTTCAGGATG
586 CTCTTCATACATGGCCACCAATACAATTCCCGTAAATCACGGTACATTTTTGTTTCTCCAGGATG
19881097 AAATGCGAATGGA
651 AAATGCGAATGGA
*
19881110 TGGTGATCGACATCTCCTACCATATAGAGCTTCATATTGTGTC-ATTTGAATACCTGATTGGAAA
1 TGGTGATCGACATCTCCTACCATATAGAGCTTCATATGGTG-CAATTTGAATACCTGATTGGAAA
*
19881174 ATATTATTATACACAAATTCGGCTAACGGTAAGTAACATTCCCAACCTGATTCAAAATCAATTAT
65 ATATTATTATACACAAATTCGGCTAACGGTAAGTAACATTCCCAACCTGATTCAAAATCAATGAT
* *
19881239 ACAAGCTCAAAGCATGTCTTCAAAAATCTGAATGACTCGTTCTGACTGTCCATCAGTTTGTGGAT
130 ACAAGATCAAAGCATGTCTTCAAAAATCT-AATGACTCGTTCTGACTGTCCATCAGTCTGTGGAT
* *
19881304 GAAAAGCTATACTAAAATGCAGTCGAGTACCAAGAGACTCATGCAACTATTTCCAAAACCTCGAT
194 GAAAAGCTATACTAAAATGAAGTCGAGTACCAAGAGACTCAAGCAACTATTTCCAAAACCTCGAT
* * * **
19881369 GTAAACCGTGGATCTTGATCAGATATTATCGATACAGGAATTCCATGTAGTCTCACAATTTTTTG
259 GTAAACCGTGGATCTCGATCAGAGATTATCGATACAAGAATTCCATGTAGTCTCACAATTTCCTG
* * * *
19881434 GATATAAGTTTCTGTAAGTTTCTGAAGT-GACCAATCCATTTTGACTGCTATAAAATGGGCTGAC
324 GATATAAGTTTCTGCAAGTTTCTGAAGTAG-CCAATCCATTCTAACTACTATAAAATGGGCTGAC
* *
19881498 TTTGTAAACCTGTCAACAATAACCCAAATAGTATTTTTCTTACTTACT-ACAACGGTAATCCAGT
388 TTTCTAAACCGGTCAACAATAACCCAAATAGTATTTTTCTTACTTACTGACAACGGTAATCCAGT
* *
19881562 TACAAAATCCATTGTGATACAGTCCCATTTCCACTCAGGAATATTAATAGGCTGAAGTAATCTAG
453 TACAAAATCCATTGTGATACAGTCCCATTTCCACTCAAGAATATTAATAGGCTGAAGTAATCCAG
* *
19881627 TTGGCACCTGATAATCAGCTTTGACTCGTTGACATGTCACACATTTAGCCACGAATTCCACTATA
518 TTGGCACCTGATAATCAGCTTTGACTCATTGACATGTCAAACATTTAGCCACGAATTCCACTATA
* *
19881692 TCCCTCTTCATACATGGCCACTAATACAATTCCCGTTAATCACGGTACATTTTTGTTTCTCCAGG
583 TCCCTCTTCATACATGGCCACCAATACAATTCCCGTAAATCACGGTACATTTTTGTTTCTCCAGG
* *
19881757 ATGTAATGTGAATGGA
648 ATGAAATGCGAATGGA
19881773 CTGTCATGTG
Statistics
Matches: 605, Mismatches: 55, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
663 356 0.59
664 249 0.41
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (663 bp):
TGGTGATCGACATCTCCTACCATATAGAGCTTCATATGGTGCAATTTGAATACCTGATTGGAAAA
TATTATTATACACAAATTCGGCTAACGGTAAGTAACATTCCCAACCTGATTCAAAATCAATGATA
CAAGATCAAAGCATGTCTTCAAAAATCTAATGACTCGTTCTGACTGTCCATCAGTCTGTGGATGA
AAAGCTATACTAAAATGAAGTCGAGTACCAAGAGACTCAAGCAACTATTTCCAAAACCTCGATGT
AAACCGTGGATCTCGATCAGAGATTATCGATACAAGAATTCCATGTAGTCTCACAATTTCCTGGA
TATAAGTTTCTGCAAGTTTCTGAAGTAGCCAATCCATTCTAACTACTATAAAATGGGCTGACTTT
CTAAACCGGTCAACAATAACCCAAATAGTATTTTTCTTACTTACTGACAACGGTAATCCAGTTAC
AAAATCCATTGTGATACAGTCCCATTTCCACTCAAGAATATTAATAGGCTGAAGTAATCCAGTTG
GCACCTGATAATCAGCTTTGACTCATTGACATGTCAAACATTTAGCCACGAATTCCACTATATCC
CTCTTCATACATGGCCACCAATACAATTCCCGTAAATCACGGTACATTTTTGTTTCTCCAGGATG
AAATGCGAATGGA
Found at i:19884845 original size:42 final size:41
Alignment explanation
Indices: 19884719--19884846 Score: 125
Period size: 44 Copynumber: 3.0 Consensus size: 41
19884709 AGGATTCTGT
*
19884719 TATTTGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCG
1 TATTTGATTTCGTGTAAGACCATGTCTGGGACA-TGGCATCG
* * * *
19884761 -ACTTCTGTTTTATGTGTAAGACCATGTCTAGGACATCAGCATCG
1 TA-TT-TGATTT-CGTGTAAGACCATGTCTGGGACAT-GGCATCG
*
19884805 TATTTGATTTCGTGTAAGACTC-TGTCTGGGATAGTGGCATCG
1 TATTTGATTTCGTGTAAGAC-CATGTCTGGGACA-TGGCATCG
19884847 ATGTCTAATT
Statistics
Matches: 69, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
41 1 0.01
42 26 0.38
43 13 0.19
44 28 0.41
45 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (41 bp):
TATTTGATTTCGTGTAAGACCATGTCTGGGACATGGCATCG
Found at i:19887630 original size:78 final size:78
Alignment explanation
Indices: 19887497--19887654 Score: 262
Period size: 78 Copynumber: 2.0 Consensus size: 78
19887487 TGTGAGAAAA
* * *
19887497 GATTGTGAAGCCTATTTTGCTTCTGTAATTGATTCGAGAATGTCAGAAAAAAAATTTGAATTTGT
1 GATTGTGAAGCATATTTTGCTTATGTAATTCATTCGAGAATGTCAGAAAAAAAATTTGAATTTGT
19887562 ACCTGTTGTCTGT
66 ACCTGTTGTCTGT
*
19887575 GATTGTGAAGCATATTTTGCTTATGTAATTCATTCGAGAATGTCAGAAAAGAAATTTGAATTTGT
1 GATTGTGAAGCATATTTTGCTTATGTAATTCATTCGAGAATGTCAGAAAAAAAATTTGAATTTGT
**
19887640 GTCTGTTGTCTGT
66 ACCTGTTGTCTGT
19887653 GA
1 GA
19887655 GTTCCCTGAT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
78 74 1.00
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.40
Consensus pattern (78 bp):
GATTGTGAAGCATATTTTGCTTATGTAATTCATTCGAGAATGTCAGAAAAAAAATTTGAATTTGT
ACCTGTTGTCTGT
Found at i:19891806 original size:44 final size:42
Alignment explanation
Indices: 19891743--19891849 Score: 110
Period size: 44 Copynumber: 2.5 Consensus size: 42
19891733 TCTGATTTCC
* * **
19891743 TGTAAAACCACGTCTGGGACATTGGCATC-GACTTCTG-TTTTACG
1 TGTAAGACCATGTCTGGGACATCAGCATCTGA-TT-TGATTTT--G
*
19891787 TGTAAGACCATGTCTGGGACATCAGCATCTTATTTGATTTTG
1 TGTAAGACCATGTCTGGGACATCAGCATCTGATTTGATTTTG
*
19891829 TGTAAGACCTTGTCTGGGACA
1 TGTAAGACCATGTCTGGGACA
19891850 GTGGTATCAA
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
42 21 0.38
43 2 0.04
44 31 0.56
45 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATCAGCATCTGATTTGATTTTG
Found at i:19895672 original size:6 final size:6
Alignment explanation
Indices: 19895635--19895669 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
19895625 CAAAAATTTT
*
19895635 ACATTC ACATTC ACATTC ACATTC ACATTA ACATT
1 ACATTC ACATTC ACATTC ACATTC ACATTC ACATT
19895670 AACTTGAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (6 bp):
ACATTC
Found at i:19895900 original size:15 final size:14
Alignment explanation
Indices: 19895864--19895895 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
19895854 AAAACCCTAA
19895864 TTTTC-CCTTTTTC
1 TTTTCTCCTTTTTC
19895877 TTTTCTCCTTTTT-
1 TTTTCTCCTTTTTC
19895890 TTTTCT
1 TTTTCT
19895896 TTCCTATTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTTCTCCTTTTTC
Found at i:19895967 original size:8 final size:8
Alignment explanation
Indices: 19895962--19895996 Score: 70
Period size: 8 Copynumber: 4.4 Consensus size: 8
19895952 TGTTTTATTA
19895962 TATTATAT
1 TATTATAT
19895970 TATTATAT
1 TATTATAT
19895978 TATTATAT
1 TATTATAT
19895986 TATTATAT
1 TATTATAT
19895994 TAT
1 TAT
19895997 ATACTTAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
TATTATAT
Found at i:19895974 original size:13 final size:13
Alignment explanation
Indices: 19895956--19895998 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 13
19895946 CTTTTATGTT
19895956 TTATTATATTATA
1 TTATTATATTATA
19895969 TTATTATATTATTATA
1 TTA-T-TA-TATTATA
19895985 TTATTATATTATA
1 TTATTATATTATA
19895998 T
1 T
19895999 ACTTAAGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 11 0.41
14 3 0.11
15 3 0.11
16 10 0.37
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTATTATATTATA
Found at i:19903544 original size:14 final size:15
Alignment explanation
Indices: 19903525--19903563 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
19903515 TGAAAATGAG
*
19903525 TAAAATATAA-CATT
1 TAAAATATAAGCAAT
*
19903539 TAAAATATAAGTAAT
1 TAAAATATAAGCAAT
19903554 TAAAATATAA
1 TAAAATATAA
19903564 TCTAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (15 bp):
TAAAATATAAGCAAT
Found at i:19904482 original size:5 final size:5
Alignment explanation
Indices: 19904474--19904498 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
19904464 TTAAAAAAAA
19904474 AAACT AAACT AAACT AAACT AAACT
1 AAACT AAACT AAACT AAACT AAACT
19904499 CAAGCAGCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (5 bp):
AAACT
Found at i:19909258 original size:31 final size:31
Alignment explanation
Indices: 19909191--19909251 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
19909181 CTTAACAACC
**
19909191 CAGTGACTTAAATAAAAGCTTTTGAATAGTT
1 CAGTGACTTAAATAAAAGCTTTCAAATAGTT
*
19909222 CAGTGACTTAAAT-GAAGACTTTCAAATAGT
1 CAGTGACTTAAATAAAAG-CTTTCAAATAGT
19909252 CTAGTGATCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 3 0.12
31 23 0.88
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.33
Consensus pattern (31 bp):
CAGTGACTTAAATAAAAGCTTTCAAATAGTT
Found at i:19912458 original size:27 final size:27
Alignment explanation
Indices: 19912401--19912513 Score: 106
Period size: 27 Copynumber: 4.2 Consensus size: 27
19912391 GTCCTAGTGA
*
19912401 ACTATCCTGTATTTACTATCCCAGT-AG
1 ACTATCCTGTATTTACTGTCCCA-TCAG
*
19912428 ACTATCCTGTATTTACTGTCCCATCAT
1 ACTATCCTGTATTTACTGTCCCATCAG
* * *
19912455 ACTATCTCATGT-TTGA-TGTCCTATCGG
1 ACTATC-C-TGTATTTACTGTCCCATCAG
* * *
19912482 ACTATCCCGTGTTTAATGTCCCATCAG
1 ACTATCCTGTATTTACTGTCCCATCAG
19912509 ACTAT
1 ACTAT
19912514 TTACGATGTC
Statistics
Matches: 71, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
25 2 0.03
26 5 0.07
27 57 0.80
28 4 0.06
29 3 0.04
ACGTcount: A:0.23, C:0.27, G:0.12, T:0.38
Consensus pattern (27 bp):
ACTATCCTGTATTTACTGTCCCATCAG
Found at i:19912693 original size:45 final size:46
Alignment explanation
Indices: 19912590--19912722 Score: 169
Period size: 45 Copynumber: 2.9 Consensus size: 46
19912580 AAACTATCAA
* * * *
19912590 ATGATGTCATAGTGTCTTTCAGCTATGGTCTTAGTCTTGTTTCTATC
1 ATGATGCCATAGCGTCTTTCAGCTATGGTCTTAATCAT-TTTCTATC
* * * *
19912637 ATGATGCCATAGCGTCTTTTAGTTATGTTCTTACTCATTTT-TATC
1 ATGATGCCATAGCGTCTTTCAGCTATGGTCTTAATCATTTTCTATC
*
19912682 ATGATGCCATAGCATCTTTCAGCTATGGTCTTAATCATTTT
1 ATGATGCCATAGCGTCTTTCAGCTATGGTCTTAATCATTTT
19912723 AGATATATAA
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
45 40 0.54
46 3 0.04
47 31 0.42
ACGTcount: A:0.20, C:0.18, G:0.16, T:0.46
Consensus pattern (46 bp):
ATGATGCCATAGCGTCTTTCAGCTATGGTCTTAATCATTTTCTATC
Found at i:19913833 original size:25 final size:26
Alignment explanation
Indices: 19913763--19913833 Score: 126
Period size: 26 Copynumber: 2.8 Consensus size: 26
19913753 GATGATGAAA
19913763 TTCATTCATCTTTTCCCCATTCTCAT
1 TTCATTCATCTTTTCCCCATTCTCAT
19913789 TTCATTCATCTTTTCCCCATTCTCAT
1 TTCATTCATCTTTTCCCCATTCTCAT
*
19913815 TTCATTC-TCTTTTCTCCAT
1 TTCATTCATCTTTTCCCCAT
19913834 CTTTACAACT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
25 11 0.25
26 33 0.75
ACGTcount: A:0.14, C:0.34, G:0.00, T:0.52
Consensus pattern (26 bp):
TTCATTCATCTTTTCCCCATTCTCAT
Found at i:19914136 original size:37 final size:37
Alignment explanation
Indices: 19914086--19914159 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
19914076 GCAAAGAAAT
19914086 AGTTAAAGAGTAGAAGAAGAAAGCTTGATTCCAAGCC
1 AGTTAAAGAGTAGAAGAAGAAAGCTTGATTCCAAGCC
19914123 AGTTAAAGAGTAGAAGAAGAAAGCTTGATTCCAAGCC
1 AGTTAAAGAGTAGAAGAAGAAAGCTTGATTCCAAGCC
19914160 TTTGGTTGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.43, C:0.14, G:0.24, T:0.19
Consensus pattern (37 bp):
AGTTAAAGAGTAGAAGAAGAAAGCTTGATTCCAAGCC
Found at i:19922694 original size:40 final size:40
Alignment explanation
Indices: 19922611--19922831 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
19922601 TTGAATGATG
* * * *
19922611 TCCGGGCTAAGT-CCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
19922650 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
19922690 TCCGGGCTAAG---CGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
19922726 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
19922766 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
19922807 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
19922832 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 13, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
36 25 0.15
37 8 0.05
39 18 0.11
40 102 0.63
41 9 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:19922849 original size:80 final size:78
Alignment explanation
Indices: 19922701--19922864 Score: 206
Period size: 80 Copynumber: 2.1 Consensus size: 78
19922691 CCGGGCTAAG
* ** *
19922701 CGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 CGAAGGCATTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAA
*
19922766 TCCGGGTTAAGTCC
66 TCC-GGTTAAATCC
*
19922780 CGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCT
1 CGAAGGCA-TTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CT
* *
19922843 ATATCCGGTTAAATTC
63 AAATCCGGTTAAATCC
19922859 CGAAGG
1 CGAAGG
19922865 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
79 23 0.31
80 49 0.66
81 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (78 bp):
CGAAGGCATTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAA
TCCGGTTAAATCC
Found at i:19934074 original size:40 final size:40
Alignment explanation
Indices: 19933990--19934213 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
19933980 TTGAATGATG
* * * *
19933990 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
19934030 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
19934070 TCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
19934108 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
19934148 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
19934189 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
19934214 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
38 25 0.15
39 19 0.12
40 111 0.67
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:19934208 original size:80 final size:80
Alignment explanation
Indices: 19933990--19934213 Score: 296
Period size: 78 Copynumber: 2.8 Consensus size: 80
19933980 TTGAATGATG
* * * * *
19933990 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
*
19934053 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
*
19934070 TCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATT
*
19934132 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* *
19934148 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
19934213 G
66 G
19934214 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
77 2 0.02
78 49 0.39
79 25 0.20
80 49 0.39
81 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:19939509 original size:15 final size:15
Alignment explanation
Indices: 19939489--19939518 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19939479 TTATAATTTA
*
19939489 ATTTAATTTTTAAAT
1 ATTTAATTATTAAAT
19939504 ATTTAATTATTAAAT
1 ATTTAATTATTAAAT
19939519 TGAATTTGAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTTAATTATTAAAT
Found at i:19940570 original size:25 final size:25
Alignment explanation
Indices: 19940536--19940585 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
19940526 ATCCTAATGG
19940536 CAAAACTAATAGAGGGGCCAAAACT
1 CAAAACTAATAGAGGGGCCAAAACT
19940561 CAAAACTAATAGAGGGGCCAAAACT
1 CAAAACTAATAGAGGGGCCAAAACT
19940586 TTCAAATAAA
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:0.48, C:0.20, G:0.20, T:0.12
Consensus pattern (25 bp):
CAAAACTAATAGAGGGGCCAAAACT
Found at i:19965871 original size:46 final size:48
Alignment explanation
Indices: 19965752--19965871 Score: 145
Period size: 48 Copynumber: 2.5 Consensus size: 48
19965742 TGTCTTCGAC
* * *
19965752 ATGGACTTACATGAATTATTCCTATCTCCAATGCCATATATATATAAT
1 ATGGACTTACATGGATTATTCCTGTCTCCAAAGCCATATATATATAAT
* * * *
19965800 ATGGGCTTACATGGATCATTCCTGTCTCCAAAGCCATATA-A-CTGAT
1 ATGGACTTACATGGATTATTCCTGTCTCCAAAGCCATATATATATAAT
* *
19965846 ATGGACTTACATGGCTTATTTCTGTC
1 ATGGACTTACATGGATTATTCCTGTC
19965872 CTGTCCTGTC
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
46 25 0.41
47 1 0.02
48 35 0.57
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (48 bp):
ATGGACTTACATGGATTATTCCTGTCTCCAAAGCCATATATATATAAT
Found at i:19971537 original size:34 final size:34
Alignment explanation
Indices: 19971492--19971561 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 34
19971482 GGATAAACCA
19971492 ACGATAAGTGTGCCCAGCACTAGTCAAATAATCG
1 ACGATAAGTGTGCCCAGCACTAGTCAAATAATCG
* * *
19971526 ACGATACGTGTGCCTAGCACTAGTCGAATAATCG
1 ACGATAAGTGTGCCCAGCACTAGTCAAATAATCG
19971560 AC
1 AC
19971562 AAGATTTTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.21
Consensus pattern (34 bp):
ACGATAAGTGTGCCCAGCACTAGTCAAATAATCG
Found at i:19972616 original size:16 final size:17
Alignment explanation
Indices: 19972576--19972638 Score: 76
Period size: 16 Copynumber: 3.7 Consensus size: 17
19972566 AATAGTATTA
19972576 ACATATATATTA-TATAAT
1 ACATATAT-TTATTAT-AT
*
19972594 ACTTATATTTATTATAT
1 ACATATATTTATTATAT
*
19972611 A-GTATATTTATTATAT
1 ACATATATTTATTATAT
19972627 ACATATATTTAT
1 ACATATATTTAT
19972639 GCCATGACCG
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
16 15 0.38
17 15 0.38
18 10 0.25
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (17 bp):
ACATATATTTATTATAT
Found at i:19979568 original size:20 final size:20
Alignment explanation
Indices: 19979532--19979570 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
19979522 GTATGTGTTC
*
19979532 GGATGTTGTGTATATATTTG
1 GGATGTTGTGTAGATATTTG
19979552 GGATGTTAG-GTAGATATTT
1 GGATGTT-GTGTAGATATTT
19979571 AAGCACCCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (20 bp):
GGATGTTGTGTAGATATTTG
Found at i:19981194 original size:24 final size:24
Alignment explanation
Indices: 19981158--19981203 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
19981148 AATACAATCA
*
19981158 AAACTCACCGTTTGATTTAAGCCT
1 AAACTCACCGTTTGATTAAAGCCT
* *
19981182 AAACTCACTGTTTTATTAAAGC
1 AAACTCACCGTTTGATTAAAGC
19981204 TTAAGACCCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.35
Consensus pattern (24 bp):
AAACTCACCGTTTGATTAAAGCCT
Found at i:19982868 original size:13 final size:13
Alignment explanation
Indices: 19982850--19982874 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19982840 CCTTGTTAAA
19982850 ATAAAATAAAATG
1 ATAAAATAAAATG
19982863 ATAAAATAAAAT
1 ATAAAATAAAAT
19982875 AAAAGTAAAA
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:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (13 bp):
ATAAAATAAAATG
Found at i:19993566 original size:37 final size:36
Alignment explanation
Indices: 19993485--19993619 Score: 110
Period size: 37 Copynumber: 3.6 Consensus size: 36
19993475 CTTCACTCAA
* * * *
19993485 TATAACAGTAGAATTTGATCAATTAAACATCAGTCAG
1 TATAACAGTAGGATTTGCTCAGTTAAAC-TCATTCAG
* *
19993522 TAGAACAGTAGGATTTGCTCAGTTAAACTCCATTTAG
1 TATAACAGTAGGATTTGCTCAGTTAAACT-CATTCAG
* * * * *
19993559 TATAACAGTATGATTTTCT-TGATTGAGCTTCATTCAG
1 TATAACAGTAGGATTTGCTCAG-TTAAAC-TCATTCAG
*
19993596 TATAACAGTAAGATTTGGCTCAGT
1 TATAACAGTAGGATTT-GCTCAGT
19993620 AGAACGTATC
Statistics
Matches: 77, Mismatches: 16, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
36 2 0.03
37 70 0.91
38 4 0.05
39 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (36 bp):
TATAACAGTAGGATTTGCTCAGTTAAACTCATTCAG
Found at i:19999695 original size:63 final size:63
Alignment explanation
Indices: 19999591--19999760 Score: 241
Period size: 63 Copynumber: 2.7 Consensus size: 63
19999581 TGCTAGGCCA
* * * *
19999591 TGTGACTCACTGTTTGCCATTAAGAACCATACGGGCTAGAGACACAGGCATGTGTCTAGGTCG
1 TGTGACTCACTGTTTGCCATTAAGGACCACACGGGCCAGAGACACAAGCATGTGTCTAGGTCG
* * * * *
19999654 TGTGACTCATTATTTTCCATTAAGGACCACATGGGCCAGAGACACAAGCGTGTGTCTAGGTCG
1 TGTGACTCACTGTTTGCCATTAAGGACCACACGGGCCAGAGACACAAGCATGTGTCTAGGTCG
* *
19999717 TGTGACTCACTGTTTGCCTTTAAGGACCACACGAGCCAGAGACA
1 TGTGACTCACTGTTTGCCATTAAGGACCACACGGGCCAGAGACA
19999761 GGGGCGTATG
Statistics
Matches: 92, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
63 92 1.00
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (63 bp):
TGTGACTCACTGTTTGCCATTAAGGACCACACGGGCCAGAGACACAAGCATGTGTCTAGGTCG
Found at i:20002266 original size:23 final size:23
Alignment explanation
Indices: 20002240--20002319 Score: 81
Period size: 23 Copynumber: 3.5 Consensus size: 23
20002230 CAGCTTGTAT
*
20002240 GAGCTTACCAATTCAGCTCATCA
1 GAGCTTACCATTTCAGCTCATCA
** *
20002263 GAGCTTACTGTTTCAGCTCGTCA
1 GAGCTTACCATTTCAGCTCATCA
* * *
20002286 AAGCTTACCATTTTAGCTTAAT-A
1 GAGCTTACCATTTCAGC-TCATCA
20002309 GAGCTTACCAT
1 GAGCTTACCAT
20002320 CCATCAACTT
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
23 43 0.96
24 2 0.04
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.33
Consensus pattern (23 bp):
GAGCTTACCATTTCAGCTCATCA
Found at i:20002342 original size:26 final size:26
Alignment explanation
Indices: 20002309--20002367 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
20002299 TAGCTTAATA
20002309 GAGCTTACCATCCATCAACTTAGGAG
1 GAGCTTACCATCCATCAACTTAGGAG
* ** *
20002335 GAGCTTACCGTTTATCAGCTTAGGAG
1 GAGCTTACCATCCATCAACTTAGGAG
*
20002361 AAGCTTA
1 GAGCTTA
20002368 TCGATCATTG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (26 bp):
GAGCTTACCATCCATCAACTTAGGAG
Found at i:20009827 original size:26 final size:26
Alignment explanation
Indices: 20009797--20009855 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
20009787 CAGCTTAATA
*
20009797 GAGCTTACCGTCCATCAGCTCAGGAG
1 GAGCTTACCGTCCATCAACTCAGGAG
* **
20009823 GAGCTTACTGTTTATCAACTCAGGAG
1 GAGCTTACCGTCCATCAACTCAGGAG
*
20009849 AAGCTTA
1 GAGCTTA
20009856 TTGATCATTG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (26 bp):
GAGCTTACCGTCCATCAACTCAGGAG
Found at i:20013671 original size:20 final size:20
Alignment explanation
Indices: 20013624--20013711 Score: 67
Period size: 20 Copynumber: 4.5 Consensus size: 20
20013614 TTATATAGGA
*
20013624 TTGCACTTCGGTG-C-CTTT
1 TTGCACTTCGGTGTCTCTAT
*
20013642 GTTACACTTCGGTGTCTCTAT
1 -TTGCACTTCGGTGTCTCTAT
*
20013663 TTGCACTTCGGTGCCTCTGA-
1 TTGCACTTCGGTGTCTCT-AT
* *
20013683 TCGCACAATC-GTGTCTCTAT
1 TTGCAC-TTCGGTGTCTCTAT
*
20013703 TTTCACTTC
1 TTGCACTTC
20013712 AGTGCCTCTC
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
19 15 0.28
20 33 0.61
21 6 0.11
ACGTcount: A:0.12, C:0.28, G:0.18, T:0.41
Consensus pattern (20 bp):
TTGCACTTCGGTGTCTCTAT
Found at i:20013678 original size:39 final size:39
Alignment explanation
Indices: 20013624--20013728 Score: 122
Period size: 40 Copynumber: 2.7 Consensus size: 39
20013614 TTATATAGGA
* *
20013624 TTGCACTTCGGTGCCTTTGTTACAC-TTCGGTGTCTCTAT
1 TTGCACTTCGGTGCCTCTGTTACACAATC-GTGTCTCTAT
**
20013663 TTGCACTTCGGTGCCTCTGATCGCACAATCGTGTCTCTAT
1 TTGCACTTCGGTGCCTCTG-TTACACAATCGTGTCTCTAT
* * *
20013703 TTTCACTTCAGTGCCTCTCTTACACA
1 TTGCACTTCGGTGCCTCTGTTACACA
20013729 TCGACGATGC
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
39 23 0.42
40 30 0.55
41 2 0.04
ACGTcount: A:0.14, C:0.30, G:0.17, T:0.39
Consensus pattern (39 bp):
TTGCACTTCGGTGCCTCTGTTACACAATCGTGTCTCTAT
Found at i:20015077 original size:42 final size:42
Alignment explanation
Indices: 20015014--20015177 Score: 195
Period size: 42 Copynumber: 3.7 Consensus size: 42
20015004 CTTCGTTTTC
** *
20015014 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACAT-A
* *
20015057 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
20015098 TCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC---AT--C-T-TCACATA
*
20015147 TCGATGCCATAGCCCAGCTATAGTCTTACAC
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC
20015178 GAATCACATA
Statistics
Matches: 105, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
41 2 0.02
42 63 0.60
43 1 0.01
45 2 0.02
48 1 0.01
49 36 0.34
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.29
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
Found at i:20015163 original size:91 final size:93
Alignment explanation
Indices: 20015049--20015273 Score: 255
Period size: 91 Copynumber: 2.4 Consensus size: 93
20015039 TTACACATCT
*
20015049 TCACATAATGATGCCATAGCCCAGCTATGGTCTTACAC-ATAT-TCATATAT-C-GATGCCATAG
1 TCACAT-ATGATGCCATAGCCCAGCTATGGTCTTACACGA-ATCACATATATACTGATGCCATAG
* *
20015110 CCCAGCTATGGTCTTACAC-GTAATCACATA
64 CCCAGATATGATCTTACACAGTAA-CACATA
* * *
20015140 TCACATATCGATGCCATAGCCCAGCTATAGTCTTACACGAATCACATATCTCACTGATGCCATAT
1 TCACATAT-GATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATAT-ACTGATGCCATAG
* *
20015205 CCCAGATATGATCTTATACAGTAACATATA
64 CCCAGATATGATCTTACACAGTAACACATA
* * * *
20015235 TCACA-CTGATGCCATATCCCAGATATGGTCTTATACGAA
1 TCACATATGATGCCATAGCCCAGCTATGGTCTTACACGAA
20015274 AATCACTTGT
Statistics
Matches: 114, Mismatches: 13, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
90 2 0.02
91 36 0.32
92 7 0.06
93 28 0.25
94 2 0.02
95 35 0.31
96 4 0.04
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.28
Consensus pattern (93 bp):
TCACATATGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATATACTGATGCCATAGCC
CAGATATGATCTTACACAGTAACACATA
Found at i:20015270 original size:47 final size:47
Alignment explanation
Indices: 20015100--20015267 Score: 205
Period size: 47 Copynumber: 3.6 Consensus size: 47
20015090 TTCATATATC
* *
20015100 GATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATAT
1 GATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA-CT
* * *
20015148 CGATGCCATAGCCCAGCTATAGTCTTACACG-AATCACATATCTCACT
1 -GATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACACT
* * * *
20015195 GATGCCATATCCCAGATATGATCTTATACAGTAA-CATATATCACACT
1 GATGCCATAGCCCAGATATGGTCTTACAC-GTAATCACATATCACACT
*
20015242 GATGCCATATCCCAGATATGGTCTTA
1 GATGCCATAGCCCAGATATGGTCTTA
20015268 TACGAAAATC
Statistics
Matches: 106, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
46 24 0.23
47 38 0.36
48 15 0.14
49 29 0.27
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.28
Consensus pattern (47 bp):
GATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACACT
Found at i:20015324 original size:31 final size:31
Alignment explanation
Indices: 20015289--20015437 Score: 217
Period size: 31 Copynumber: 4.8 Consensus size: 31
20015279 CTTGTCACTT
*
20015289 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * * * *
20015320 GTAGCCGGAGCTACAATTTTTCACTAATGAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
20015351 GTAGTCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
20015382 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
20015413 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
20015438 TGTCATTTGT
Statistics
Matches: 103, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 103 1.00
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:20015526 original size:50 final size:51
Alignment explanation
Indices: 20015413--20015541 Score: 188
Period size: 50 Copynumber: 2.5 Consensus size: 51
20015403 CACTGATCAG
* * * * *
20015413 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGC
*
20015464 GTAGCCGAAGCTATCACTTATCACTT-TCACTTATCTTTGATCAGATAAGC
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGC
*
20015514 GTAGCCGGAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
20015542 TGCCATGGTC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
50 45 0.64
51 25 0.36
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGC
Found at i:20020380 original size:42 final size:42
Alignment explanation
Indices: 20020330--20020493 Score: 179
Period size: 42 Copynumber: 3.7 Consensus size: 42
20020320 CTTCATTTTC
** * * *
20020330 TCGATGCCATAGTTCAACTATGGTTTTACACATCTTCACGTA-A
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCA--TATA
20020373 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
*
20020414 TCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC---AT---AT-TCATATA
20020463 TCGATGCCATAGCCCAGCTATGGTCTTACAC
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC
20020494 GAATCACATA
Statistics
Matches: 106, Mismatches: 6, Indels: 12
0.85 0.05 0.10
Matches are distributed among these distances:
40 2 0.02
41 2 0.02
42 60 0.57
43 1 0.01
45 2 0.02
48 2 0.02
49 37 0.35
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
Found at i:20020586 original size:47 final size:47
Alignment explanation
Indices: 20020416--20020583 Score: 223
Period size: 47 Copynumber: 3.6 Consensus size: 47
20020406 TTCATATATC
* *
20020416 GATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATAT
1 GATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA-CT
* *
20020464 CGATGCCATAGCCCAGCTATGGTCTTACACG-AATCACATATCTCACT
1 -GATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACACT
* * *
20020511 GATGCCATATCCCAGATATGGTCTTATACAGTAA-CATATATCACACT
1 GATGCCATAGCCCAGATATGGTCTTACAC-GTAATCACATATCACACT
*
20020558 GATGCCATATCCCAGATATGGTCTTA
1 GATGCCATAGCCCAGATATGGTCTTA
20020584 TACGGAAATC
Statistics
Matches: 110, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
46 26 0.24
47 39 0.35
48 15 0.14
49 30 0.27
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (47 bp):
GATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACACT
Found at i:20020595 original size:95 final size:95
Alignment explanation
Indices: 20020374--20020583 Score: 256
Period size: 95 Copynumber: 2.3 Consensus size: 95
20020364 TTCACGTAAT
* * * *
20020374 GATGCCATAGCCCAGCTATGGTCTTACAC-ATAT-TCATATAT--C-GATGCCATAGCCCAGCTA
1 GATGCCATAGCCCAGATATGGTCTTACACGA-ATCACATATCTCACTGATGCCATAGCCCAGATA
20020434 TGGTCTTACACGTAATCACATATCACATATC
65 TGGTCTTACACGTAATCACATATCACATATC
* *
20020465 GATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCACTGATGCCATATCCCAGATAT
1 GATGCCATAGCCCAGATATGGTCTTACACGAATCACATATCTCACTGATGCCATAGCCCAGATAT
* * *
20020530 GGTCTTATACAGTAA-CATATATCACA-CT-
66 GGTCTTACAC-GTAATCACATATCACATATC
*
20020558 GATGCCATATCCCAGATATGGTCTTA
1 GATGCCATAGCCCAGATATGGTCTTA
20020584 TACGGAAATC
Statistics
Matches: 104, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
91 31 0.30
92 7 0.07
93 24 0.23
94 2 0.02
95 36 0.35
96 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.29
Consensus pattern (95 bp):
GATGCCATAGCCCAGATATGGTCTTACACGAATCACATATCTCACTGATGCCATAGCCCAGATAT
GGTCTTACACGTAATCACATATCACATATC
Found at i:20020639 original size:31 final size:31
Alignment explanation
Indices: 20020604--20020721 Score: 157
Period size: 31 Copynumber: 3.8 Consensus size: 31
20020594 ACTTTCACTT
*
20020604 GTAGCCAAAGCTACCACTATTCACTGATCAG
1 GTAGCCAAAGCTACCACTTTTCACTGATCAG
** * * *
20020635 GTAGCCGGAGCTATCATTTTTCACTAATCAG
1 GTAGCCAAAGCTACCACTTTTCACTGATCAG
20020666 GTAG-CAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCA-AAGCTACCACTTTTCACTGATCAG
*
20020697 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCAAAGCTACCACTTTTCACT
20020722 CGTCATTTGT
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
30 1 0.01
31 71 0.97
32 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (31 bp):
GTAGCCAAAGCTACCACTTTTCACTGATCAG
Found at i:20020795 original size:50 final size:50
Alignment explanation
Indices: 20020728--20020823 Score: 156
Period size: 50 Copynumber: 1.9 Consensus size: 50
20020718 CACTCGTCAT
20020728 TTGTCCTTGATCAGATAAGTGTAGCCAAAGCTATCACTAATCACTTTCAC
1 TTGTCCTTGATCAGATAAGTGTAGCCAAAGCTATCACTAATCACTTTCAC
* ** *
20020778 TTGTCTTTGATCAGATAAGTGTAGCCGGAGCTATCACTTATCACTT
1 TTGTCCTTGATCAGATAAGTGTAGCCAAAGCTATCACTAATCACTT
20020824 GTTGCCATGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (50 bp):
TTGTCCTTGATCAGATAAGTGTAGCCAAAGCTATCACTAATCACTTTCAC
Found at i:20032803 original size:20 final size:20
Alignment explanation
Indices: 20032727--20032804 Score: 95
Period size: 20 Copynumber: 3.9 Consensus size: 20
20032717 ATGCTAACAA
*
20032727 AGGCACTGAAGTGCAAGCAG
1 AGGCACTGAAGTGCAATCAG
20032747 AGGCACTGAAGTGCAAAT-AG
1 AGGCACTGAAGTGC-AATCAG
* **
20032767 ACGCACCCAAGTGCAATCAG
1 AGGCACTGAAGTGCAATCAG
*
20032787 AGGCACGGAAGTGCAATC
1 AGGCACTGAAGTGCAATC
20032805 CCATACAAGC
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
19 3 0.06
20 44 0.90
21 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.29, T:0.12
Consensus pattern (20 bp):
AGGCACTGAAGTGCAATCAG
Found at i:20036118 original size:25 final size:25
Alignment explanation
Indices: 20036079--20036135 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
20036069 GTAAGGAGGG
20036079 GATAA-GGGAGAAGATTTAGGAGCT
1 GATAAGGGGAGAAGATTTAGGAGCT
20036103 GATAAGGGGAGAAGATTTAGGAGCT
1 GATAAGGGGAGAAGATTTAGGAGCT
20036128 GATCAAGG
1 GAT-AAGG
20036136 AGCAAGAGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 5 0.16
25 22 0.71
26 4 0.13
ACGTcount: A:0.37, C:0.05, G:0.39, T:0.19
Consensus pattern (25 bp):
GATAAGGGGAGAAGATTTAGGAGCT
Found at i:20037575 original size:27 final size:27
Alignment explanation
Indices: 20037535--20037646 Score: 138
Period size: 27 Copynumber: 4.1 Consensus size: 27
20037525 AGGAAGCGTC
*
20037535 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
20037562 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
20037589 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
20037617 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
20037643 CTGG
1 CTGG
20037647 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 8 0.11
27 49 0.65
28 18 0.24
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:20037641 original size:54 final size:54
Alignment explanation
Indices: 20037535--20037646 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
20037525 AGGAAGCGTC
* *
20037535 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
20037589 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
20037643 CTGG
1 CTGG
20037647 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:20039020 original size:34 final size:34
Alignment explanation
Indices: 20038977--20039045 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
20038967 CATGTGGGGT
20038977 TTAAAACACCCATCCAGCCCTACACACCATATTA
1 TTAAAACACCCATCCAGCCCTACACACCATATTA
*
20039011 TTAAAACACCCATCCAGCCTTACACACCATATTA
1 TTAAAACACCCATCCAGCCCTACACACCATATTA
20039045 T
1 T
20039046 ACCAATGCGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.38, C:0.36, G:0.03, T:0.23
Consensus pattern (34 bp):
TTAAAACACCCATCCAGCCCTACACACCATATTA
Found at i:20044545 original size:16 final size:17
Alignment explanation
Indices: 20044526--20044558 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
20044516 TTTTTCTTTC
20044526 GGGTTT-TTGTCATTTG
1 GGGTTTCTTGTCATTTG
*
20044542 GGGTTTCTTTTCATTTG
1 GGGTTTCTTGTCATTTG
20044559 TTTCTAAAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.06, C:0.09, G:0.27, T:0.58
Consensus pattern (17 bp):
GGGTTTCTTGTCATTTG
Found at i:20044557 original size:17 final size:16
Alignment explanation
Indices: 20044514--20044558 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
20044504 TTCTCCCTAC
*
20044514 TTTTTTTC-TTTCGGG
1 TTTTTTTCATTTGGGG
*
20044529 TTTTTGTCATTTGGGG
1 TTTTTTTCATTTGGGG
20044545 TTTCTTTTCATTTG
1 TTT-TTTTCATTTG
20044559 TTTCTAAAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 7 0.28
16 9 0.36
17 9 0.36
ACGTcount: A:0.04, C:0.11, G:0.20, T:0.64
Consensus pattern (16 bp):
TTTTTTTCATTTGGGG
Found at i:20048149 original size:28 final size:28
Alignment explanation
Indices: 20048109--20048163 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
20048099 ATAATTTCAT
*
20048109 ATATTTTATTCCAGTATATATACTTAGA
1 ATATTTTATTCCAGCATATATACTTAGA
20048137 ATATTTTATTCCAGCATATATACTTAG
1 ATATTTTATTCCAGCATATATACTTAG
20048164 CATGTAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (28 bp):
ATATTTTATTCCAGCATATATACTTAGA
Found at i:20048837 original size:34 final size:34
Alignment explanation
Indices: 20048794--20048860 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
20048784 CCGAACCCTA
20048794 AGTTCTTTTTCTTTTCTTCTTATTTTGTTATTTC
1 AGTTCTTTTTCTTTTCTTCTTATTTTGTTATTTC
20048828 AGTTCTTTTTCTTTTCTTCTTATTTTGTTATTT
1 AGTTCTTTTTCTTTTCTTCTTATTTTGTTATTT
20048861 TGGCAATGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.09, C:0.13, G:0.06, T:0.72
Consensus pattern (34 bp):
AGTTCTTTTTCTTTTCTTCTTATTTTGTTATTTC
Found at i:20055749 original size:31 final size:31
Alignment explanation
Indices: 20055713--20055788 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
20055703 ACGTTATTTC
*
20055713 TTTTCTTTTTCATTTTC-TTTCCTTTCTT-TAT
1 TTTTCTTTTTCATTTTCGTTT--TTTCTTCTAA
*
20055744 TTTTC-TTTTCGCTTTTCGTTTTTTCTTCTAA
1 TTTTCTTTTTC-ATTTTCGTTTTTTCTTCTAA
20055775 TTTTCTTTTTCATT
1 TTTTCTTTTTCATT
20055789 ATTGACGTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
30 11 0.29
31 19 0.50
32 8 0.21
ACGTcount: A:0.07, C:0.18, G:0.03, T:0.72
Consensus pattern (31 bp):
TTTTCTTTTTCATTTTCGTTTTTTCTTCTAA
Found at i:20060813 original size:30 final size:30
Alignment explanation
Indices: 20060773--20060829 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
20060763 GCTGTATGTT
20060773 AGCTCAATTAAACATTAAATTGAGTTTTCA
1 AGCTCAATTAAACATTAAATTGAGTTTTCA
*
20060803 AGCTCGATTAAACATTAAATTGAGTTT
1 AGCTCAATTAAACATTAAATTGAGTTT
20060830 GCATGACTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (30 bp):
AGCTCAATTAAACATTAAATTGAGTTTTCA
Found at i:20064510 original size:15 final size:16
Alignment explanation
Indices: 20064480--20064510 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
20064470 TTCAATAAGT
20064480 AATTACGACATTCCTC
1 AATTACGACATTCCTC
20064496 AATTACGAC-TTCCTC
1 AATTACGACATTCCTC
20064511 GCTATCCTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.29, C:0.32, G:0.06, T:0.32
Consensus pattern (16 bp):
AATTACGACATTCCTC
Found at i:20073290 original size:18 final size:18
Alignment explanation
Indices: 20073267--20073304 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
20073257 CACCCATCCT
*
20073267 TAGCTAAATCCTCCAACC
1 TAGCTAAATCCTACAACC
20073285 TAGCTAAATCCTACAACC
1 TAGCTAAATCCTACAACC
20073303 TA
1 TA
20073305 CCTTAAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.37, C:0.34, G:0.05, T:0.24
Consensus pattern (18 bp):
TAGCTAAATCCTACAACC
Done.