Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 150 of 208
Found at i:48717350 original size:23 final size:22
Alignment explanation
Indices: 48717298--48717350 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
48717288 TCCACGTCTT
*
48717298 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
48717320 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
48717343 TTTCTTTT
1 TTTCTTTT
48717351 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:48721851 original size:25 final size:25
Alignment explanation
Indices: 48721815--48721867 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
48721805 TTACCGACAT
* *
48721815 CATGCTACTGCCTTCATTGTCGCAA
1 CATGCTACTGCCCTCAATGTCGCAA
* *
48721840 CATGCTATTGCCCTCAATGTCGCGA
1 CATGCTACTGCCCTCAATGTCGCAA
48721865 CAT
1 CAT
48721868 TCATCCTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.21, C:0.32, G:0.17, T:0.30
Consensus pattern (25 bp):
CATGCTACTGCCCTCAATGTCGCAA
Found at i:48722272 original size:13 final size:14
Alignment explanation
Indices: 48722243--48722289 Score: 55
Period size: 13 Copynumber: 3.4 Consensus size: 14
48722233 TAGTTTATTA
48722243 TATTATTGT-TTTCT
1 TATTATTGTATTT-T
48722257 TATT-TTGTATTTT
1 TATTATTGTATTTT
48722270 TATTATT-TATTTT
1 TATTATTGTATTTT
48722283 ATATTAT
1 -TATTAT
48722290 ATCTACAACT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 15 0.50
14 15 0.50
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (14 bp):
TATTATTGTATTTT
Found at i:48724455 original size:41 final size:42
Alignment explanation
Indices: 48724390--48724475 Score: 111
Period size: 41 Copynumber: 2.1 Consensus size: 42
48724380 AGCATAAACA
* * *
48724390 GTGAGTTACATGGCCTGGACACACGTCCGTGTCCCTG-CCGT
1 GTGACTTACACGGCCTGGACACACGCCCGTGTCCCTGACCGT
** *
48724431 GTGACTTACACGGCCTGGGTACACGCCCGTGTCTCTGACCGT
1 GTGACTTACACGGCCTGGACACACGCCCGTGTCCCTGACCGT
48724473 GTG
1 GTG
48724476 GTTTTATACC
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
41 31 0.82
42 7 0.18
ACGTcount: A:0.14, C:0.31, G:0.30, T:0.24
Consensus pattern (42 bp):
GTGACTTACACGGCCTGGACACACGCCCGTGTCCCTGACCGT
Found at i:48727984 original size:45 final size:46
Alignment explanation
Indices: 48727910--48728116 Score: 332
Period size: 46 Copynumber: 4.6 Consensus size: 46
48727900 TACGTATGAT
* *
48727910 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
48727953 CACTTATCACTTTGTCACTTGATCATATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
48727999 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AGGCAAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
48728044 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
48728090 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
48728117 AGTACTCAAA
Statistics
Matches: 151, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
43 10 0.07
44 5 0.03
45 61 0.40
46 75 0.50
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:48728029 original size:91 final size:91
Alignment explanation
Indices: 48727910--48728116 Score: 364
Period size: 91 Copynumber: 2.3 Consensus size: 91
48727900 TACGTATGAT
* *
48727910 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCAACCACTTATCACTTTGTCACTT
* *
48727973 GATCATATAAGTGTAGCTAAAGCTAC
66 GATCAGATAAGTATAGCTAAAGCTAC
48727999 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCAACCACTTATCACTTTGTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCAACCACTTATCACTTTGTCACTT
48728064 GATCAGATAAGTATAGCTAAAGCTAC
66 GATCAGATAAGTATAGCTAAAGCTAC
48728090 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
48728117 AGTACTCAAA
Statistics
Matches: 112, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
89 10 0.09
90 5 0.04
91 97 0.87
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (91 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCAACCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCTAAAGCTAC
Found at i:48734439 original size:8 final size:8
Alignment explanation
Indices: 48734426--48734457 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
48734416 TGTTAAACAG
48734426 ATTGTTTT
1 ATTGTTTT
48734434 ATTGTTTT
1 ATTGTTTT
48734442 ATTGTTTT
1 ATTGTTTT
*
48734450 ATGGTTTT
1 ATTGTTTT
48734458 GGTGATTGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.12, C:0.00, G:0.16, T:0.72
Consensus pattern (8 bp):
ATTGTTTT
Found at i:48736901 original size:5 final size:5
Alignment explanation
Indices: 48736891--48736916 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
48736881 GCCCATATTT
48736891 CGGGC CGGGC CGGGC CGGGC CGGGC C
1 CGGGC CGGGC CGGGC CGGGC CGGGC C
48736917 CGAGCCTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.42, G:0.58, T:0.00
Consensus pattern (5 bp):
CGGGC
Found at i:48737369 original size:21 final size:21
Alignment explanation
Indices: 48737328--48737370 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
48737318 AATAACGTAC
*
48737328 ATTATATATAATTTTTATAGT
1 ATTATATATAATATTTATAGT
*
48737349 ATTATATATTATGATTT-TAGT
1 ATTATATATAAT-ATTTATAGT
48737370 A
1 A
48737371 AATTCATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (21 bp):
ATTATATATAATATTTATAGT
Found at i:48737414 original size:53 final size:52
Alignment explanation
Indices: 48737356--48737466 Score: 118
Period size: 53 Copynumber: 2.1 Consensus size: 52
48737346 AGTATTATAT
* *
48737356 ATTATGATTTTAGT-AAATTCATA-TAAGAATAATTATATTAATAATTTTATTAA
1 ATTATG-TTTTAGTAAAATT-ATATTAAGAATAATTATATTAA-AATATGATTAA
** * *
48737409 ATTATGTTTTTTTAAAATTATATTTAATAATAATTATGTTAAAATATGATTAA
1 ATTATGTTTTAGTAAAATTATA-TTAAGAATAATTATATTAAAATATGATTAA
48737462 ATTAT
1 ATTAT
48737467 TTATTATTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
52 8 0.16
53 25 0.51
54 16 0.33
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.50
Consensus pattern (52 bp):
ATTATGTTTTAGTAAAATTATATTAAGAATAATTATATTAAAATATGATTAA
Found at i:48737682 original size:16 final size:16
Alignment explanation
Indices: 48737661--48737698 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
48737651 TTGAATTACT
*
48737661 ATTACAGCTCTATTCC
1 ATTACACCTCTATTCC
48737677 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
48737693 ATTACA
1 ATTACA
48737699 ACGAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.29, C:0.32, G:0.03, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:48739069 original size:19 final size:20
Alignment explanation
Indices: 48739038--48739077 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
48739028 CGGAGACTAC
48739038 CCGAAACCTAATTA-ACCAT
1 CCGAAACCTAATTACACCAT
48739057 CCGATAACC-AATTACACCAT
1 CCGA-AACCTAATTACACCAT
48739077 C
1 C
48739078 ATTTTCGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.40, C:0.35, G:0.05, T:0.20
Consensus pattern (20 bp):
CCGAAACCTAATTACACCAT
Found at i:48746703 original size:41 final size:41
Alignment explanation
Indices: 48746658--48746772 Score: 149
Period size: 41 Copynumber: 2.8 Consensus size: 41
48746648 TTTATTGTCA
* * *
48746658 GTGAAATAATTCAGACTTTATGTCTAGCAGGCTTGATGCCG
1 GTGAAATAATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
* *
48746699 GTGAAATTATTCAGACTATACGTCTAGCAGGCTTAATGCCG
1 GTGAAATAATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
* * * *
48746740 GTGATACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGAAATAATTCAGACTATAAGTCTAGCAGGCT
48746773 AAAAGCCGAT
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 64 1.00
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.30
Consensus pattern (41 bp):
GTGAAATAATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:48747845 original size:41 final size:40
Alignment explanation
Indices: 48747795--48747887 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 40
48747785 AGCGGCATCT
*
48747795 TTAGTGGCGCTTGGACAAAAAACGCCGCTAAAAATCGAGCA
1 TTAGTGGCGCTT-GACAAAAAACACCGCTAAAAATCGAGCA
* ** * *
48747836 TTAGCGGCGCTTTTCATAAAACACCGCTAAAGATCGAGCA
1 TTAGTGGCGCTTGACAAAAAACACCGCTAAAAATCGAGCA
*
48747876 TTAATGGCGCTT
1 TTAGTGGCGCTT
48747888 TTAGGAAAGC
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 33 0.75
41 11 0.25
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.23
Consensus pattern (40 bp):
TTAGTGGCGCTTGACAAAAAACACCGCTAAAAATCGAGCA
Found at i:48747906 original size:40 final size:40
Alignment explanation
Indices: 48747813--48747949 Score: 118
Period size: 40 Copynumber: 3.5 Consensus size: 40
48747803 GCTTGGACAA
* *
48747813 AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTTCAT
1 AAAACGCCGCTAAAAATCGAGCATTAACGGCGCTTTTCAG
* * *
48747853 AAAACACCGCTAAAGATCGAGCATTAATGGCGCTTTT-AGG
1 AAAACGCCGCTAAAAATCGAGCATTAACGGCGCTTTTCA-G
* * * * * **
48747893 AAAGCGCCACTAAAAAT-AAGAATTAGCGGCG-TTTTTGG
1 AAAACGCCGCTAAAAATCGAGCATTAACGGCGCTTTTCAG
*
48747931 AAAAACGCCGCAAAAAATC
1 -AAAACGCCGCTAAAAATC
48747950 TAAGCCCAAC
Statistics
Matches: 76, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
38 5 0.07
39 25 0.33
40 46 0.61
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.20
Consensus pattern (40 bp):
AAAACGCCGCTAAAAATCGAGCATTAACGGCGCTTTTCAG
Found at i:48748082 original size:40 final size:40
Alignment explanation
Indices: 48747982--48748162 Score: 222
Period size: 41 Copynumber: 4.5 Consensus size: 40
48747972 TGACCTTTTG
* *
48747982 GGGCTTTAGTGGCGTTTTTGAAAAATCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTCAAAAA-CGCCGCTAATGCTCA
*
48748023 -GGCTTTTAGCGGCGCTTTTTCAAAAACGTCGCTAATGCTC-
1 GGGC-TTTAGCGGCG-TTTTTCAAAAACGCCGCTAATGCTCA
*
48748063 GGGCTTTAGCGGCGCTTTTTCAAAAACGCCGCTAATGCTCG
1 GGGCTTTAGCGGCG-TTTTTCAAAAACGCCGCTAATGCTCA
* ** *
48748104 GGGCTTTAGCGGCGTTTTCCAAGAAGTGCTGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTCAA-AAACGCCGCTAATGCTCA
*
48748145 GGGCTTTAGCGGCATTTT
1 GGGCTTTAGCGGCGTTTT
48748163 GAAAAAGCGA
Statistics
Matches: 125, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
40 45 0.36
41 70 0.56
42 10 0.08
ACGTcount: A:0.19, C:0.23, G:0.27, T:0.31
Consensus pattern (40 bp):
GGGCTTTAGCGGCGTTTTTCAAAAACGCCGCTAATGCTCA
Found at i:48748117 original size:81 final size:82
Alignment explanation
Indices: 48747982--48748162 Score: 237
Period size: 81 Copynumber: 2.2 Consensus size: 82
48747972 TGACCTTTTG
* * *
48747982 GGGCTTTAGTGGCGTTTTTGAAAAATCGCCGCTAATGCTCAGGCTTTTAGCGGCGCTTTTTCAAA
1 GGGCTTTAGCGGCGTTTTTCAAAAATCGCCGCTAATGCTCAGGCTTTTAGCGGCG-TTTTCCAAA
48748047 AACGT-C-GCTAATGCTC-
65 AA-GTGCTGCTAATGCTCA
*
48748063 GGGCTTTAGCGGCGCTTTTTCAAAAA-CGCCGCTAATGCTCGGGGC-TTTAGCGGCGTTTTCCAA
1 GGGCTTTAGCGGCG-TTTTTCAAAAATCGCCGCTAATGCTC-AGGCTTTTAGCGGCGTTTTCCAA
*
48748126 GAAGTGCTGCTAATGCTCA
64 AAAGTGCTGCTAATGCTCA
*
48748145 GGGCTTTAGCGGCATTTT
1 GGGCTTTAGCGGCGTTTT
48748163 GAAAAAGCGA
Statistics
Matches: 89, Mismatches: 6, Indels: 10
0.85 0.06 0.10
Matches are distributed among these distances:
79 2 0.02
80 10 0.11
81 51 0.57
82 26 0.29
ACGTcount: A:0.19, C:0.23, G:0.27, T:0.31
Consensus pattern (82 bp):
GGGCTTTAGCGGCGTTTTTCAAAAATCGCCGCTAATGCTCAGGCTTTTAGCGGCGTTTTCCAAAA
AGTGCTGCTAATGCTCA
Found at i:48748358 original size:33 final size:31
Alignment explanation
Indices: 48748269--48748358 Score: 73
Period size: 33 Copynumber: 2.9 Consensus size: 31
48748259 AAAATTGGGT
48748269 AAATAGAAAAATTAAAATACTATTA--TTTA
1 AAATAGAAAAATTAAAATACTATTATTTTTA
** *
48748298 AAATA-AAAAA--AAACATAGAAAAATATTTGTTAA
1 AAATAGAAAAATTAAA-AT--ACTATTATTT-TT-A
48748331 AAATAGAAAAATTAAAATACTATTATTT
1 AAATAGAAAAATTAAAATACTATTATTT
48748359 AAAATAATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 16
0.67 0.09 0.24
Matches are distributed among these distances:
26 3 0.07
27 2 0.04
28 5 0.11
29 9 0.20
31 1 0.02
32 2 0.04
33 13 0.29
34 5 0.11
35 2 0.04
36 3 0.07
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.31
Consensus pattern (31 bp):
AAATAGAAAAATTAAAATACTATTATTTTTA
Found at i:48748364 original size:29 final size:29
Alignment explanation
Indices: 48748269--48748364 Score: 97
Period size: 31 Copynumber: 3.2 Consensus size: 29
48748259 AAAATTGGGT
48748269 AAATAGAAAAATTAAAATACTATTATTTA
1 AAATAGAAAAATTAAAATACTATTATTTA
* * *
48748298 AAATAAAAAAAAACATAGAAA-AATATT-TGTTAA
1 AAAT--AGAAAAA-TTA-AAATACTATTAT-TT-A
48748331 AAATAGAAAAATTAAAATACTATTATTTA
1 AAATAGAAAAATTAAAATACTATTATTTA
48748360 AAATA
1 AAATA
48748365 ATTTTAAAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
29 13 0.25
30 9 0.17
31 14 0.26
32 9 0.17
33 8 0.15
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.30
Consensus pattern (29 bp):
AAATAGAAAAATTAAAATACTATTATTTA
Found at i:48748615 original size:14 final size:15
Alignment explanation
Indices: 48748587--48748619 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
48748577 AAGGTTTATA
48748587 GATTATGGAATTAGG
1 GATTATGGAATTAGG
48748602 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
48748616 GATT
1 GATT
48748620 CTGGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:48748871 original size:21 final size:22
Alignment explanation
Indices: 48748847--48748906 Score: 88
Period size: 21 Copynumber: 2.8 Consensus size: 22
48748837 TAAATAATAT
*
48748847 TTAGGGGTTAATAGTTAAGGG-
1 TTAGGGGTTAAGAGTTAAGGGA
48748868 TTAGGGGTTAAGAGTT-AGGGA
1 TTAGGGGTTAAGAGTTAAGGGA
*
48748889 TTAGAGGTTAAGAGTTAA
1 TTAGGGGTTAAGAGTTAA
48748907 TGATTTAGGG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
20 4 0.11
21 30 0.86
22 1 0.03
ACGTcount: A:0.32, C:0.00, G:0.37, T:0.32
Consensus pattern (22 bp):
TTAGGGGTTAAGAGTTAAGGGA
Found at i:48748911 original size:21 final size:21
Alignment explanation
Indices: 48748847--48748916 Score: 86
Period size: 21 Copynumber: 3.3 Consensus size: 21
48748837 TAAATAATAT
* *
48748847 TTAGGGGTTAATAGTTAAGGG
1 TTAGGGGTTAAGAGTTAAGGA
*
48748868 TTAGGGGTTAAGAGTTAGGGA
1 TTAGGGGTTAAGAGTTAAGGA
* *
48748889 TTAGAGGTTAAGAGTTAATGA
1 TTAGGGGTTAAGAGTTAAGGA
48748910 TTTAGGG
1 -TTAGGG
48748917 TTTAGAGATT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
21 36 0.88
22 5 0.12
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (21 bp):
TTAGGGGTTAAGAGTTAAGGA
Found at i:48749051 original size:15 final size:16
Alignment explanation
Indices: 48749031--48749060 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
48749021 GGGTTAAACA
48749031 TTAGGGA-TTTAGGGC
1 TTAGGGATTTTAGGGC
48749046 TTAGGGATTTTAGGG
1 TTAGGGATTTTAGGG
48749061 TTGAATCAAT
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:0.20, C:0.03, G:0.40, T:0.37
Consensus pattern (16 bp):
TTAGGGATTTTAGGGC
Found at i:48753496 original size:43 final size:42
Alignment explanation
Indices: 48753417--48753606 Score: 258
Period size: 42 Copynumber: 4.5 Consensus size: 42
48753407 GTTTGTGGGA
* * * *
48753417 AAAGTGCCACTAAA-GTCTGGGTCTTTAGCGGTGTTTTTGGGT
1 AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTTT-GGT
48753459 AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTTTGGT
1 AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTTTGGT
* *
48753501 AAAGCGCCGCTAAAGGTCTTGGTCTTTAACGACGTTTTTGGT
1 AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTTTGGT
* *
48753543 AAAGCGCCACTAAAGGTCTTGGTCTTTAGCGGCGTTTGTAT-GA
1 AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTT-T-TGGT
*
48753586 AAAGCGCTGCTAAAGGTCTTG
1 AAAGCGCCGCTAAAGGTCTTG
48753607 AAAAAACGTC
Statistics
Matches: 133, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
42 89 0.67
43 43 0.32
44 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.32
Consensus pattern (42 bp):
AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTTTGGT
Found at i:48757852 original size:31 final size:31
Alignment explanation
Indices: 48757816--48757912 Score: 131
Period size: 31 Copynumber: 3.1 Consensus size: 31
48757806 TCAATAATTT
* *
48757816 ATATTTACATATTCATACCCTATAATCATTC
1 ATATTTGCATATTCATACCCTGTAATCATTC
* * *
48757847 GTATTTGCATATTCACATCCTGTAATCATTC
1 ATATTTGCATATTCATACCCTGTAATCATTC
* *
48757878 ATATTTGCATTTTCATACCTTGTAATCATTC
1 ATATTTGCATATTCATACCCTGTAATCATTC
48757909 ATAT
1 ATAT
48757913 AATTTTCGGG
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 56 1.00
ACGTcount: A:0.30, C:0.21, G:0.05, T:0.44
Consensus pattern (31 bp):
ATATTTGCATATTCATACCCTGTAATCATTC
Found at i:48760391 original size:32 final size:32
Alignment explanation
Indices: 48760328--48760392 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
48760318 TGGGACGGAA
* **
48760328 ATGATTTATAAATATTTAAGGAATTTTAAAAG
1 ATGATTTATAAATATTTAAGGAACTAAAAAAG
* * *
48760360 ATGATTTGTAAATATTTAAGTAGCTAAAAAAG
1 ATGATTTATAAATATTTAAGGAACTAAAAAAG
48760392 A
1 A
48760393 AAACTTTCGC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.48, C:0.02, G:0.14, T:0.37
Consensus pattern (32 bp):
ATGATTTATAAATATTTAAGGAACTAAAAAAG
Found at i:48760866 original size:7 final size:7
Alignment explanation
Indices: 48760849--48760878 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
48760839 ATTTTTAAAC
48760849 ATAATTAT
1 ATAA-TAT
48760857 ATAATAT
1 ATAATAT
48760864 ATAATAT
1 ATAATAT
48760871 ATAATAT
1 ATAATAT
48760878 A
1 A
48760879 CAAATATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.82
8 4 0.18
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
ATAATAT
Found at i:48766714 original size:15 final size:14
Alignment explanation
Indices: 48766692--48766722 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
48766682 AATTAGATAT
48766692 TATTTATTATAAAA
1 TATTTATTATAAAA
48766706 TATTATATTATAAAA
1 TATT-TATTATAAAA
48766721 TA
1 TA
48766723 AATTTCGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TATTTATTATAAAA
Found at i:48778811 original size:10 final size:10
Alignment explanation
Indices: 48778798--48778844 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
48778788 TATTTTTTAA
48778798 ATTTTAAAAT
1 ATTTTAAAAT
48778808 ATTTTAAAAT
1 ATTTTAAAAT
48778818 ACTTTTTAAAAT
1 A--TTTTAAAAT
*
48778830 ACTTTTTAAAT
1 A-TTTTAAAAT
48778841 -TTTT
1 ATTTT
48778845 TTTAAAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
9 4 0.12
10 11 0.33
11 8 0.24
12 10 0.30
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (10 bp):
ATTTTAAAAT
Found at i:48778826 original size:12 final size:12
Alignment explanation
Indices: 48778799--48778839 Score: 68
Period size: 12 Copynumber: 3.6 Consensus size: 12
48778789 ATTTTTTAAA
48778799 TTTTAAAATA--
1 TTTTAAAATACT
48778809 TTTTAAAATACT
1 TTTTAAAATACT
48778821 TTTTAAAATACT
1 TTTTAAAATACT
48778833 TTTTAAA
1 TTTTAAA
48778840 TTTTTTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
10 10 0.34
12 19 0.66
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (12 bp):
TTTTAAAATACT
Found at i:48785653 original size:15 final size:14
Alignment explanation
Indices: 48785631--48785663 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
48785621 TTTTATCGAA
48785631 TTTT-TTTTTGAAGT
1 TTTTATTTTTGAA-T
48785645 TTTTATTTTTGAAT
1 TTTTATTTTTGAAT
48785659 TTTTA
1 TTTTA
48785664 AAATCAAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.73
Consensus pattern (14 bp):
TTTTATTTTTGAAT
Found at i:48790437 original size:22 final size:22
Alignment explanation
Indices: 48790409--48790464 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
48790399 TGCACTAATG
48790409 AACAGAGAGCACATATGTGCTA
1 AACAGAGAGCACATATGTGCTA
48790431 AACAGAGAGCACATATGTGCTA
1 AACAGAGAGCACATATGTGCTA
* *
48790453 AACGGATAGCAC
1 AACAGAGAGCAC
48790465 TGTCGTGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.41, C:0.20, G:0.23, T:0.16
Consensus pattern (22 bp):
AACAGAGAGCACATATGTGCTA
Found at i:48790981 original size:16 final size:17
Alignment explanation
Indices: 48790954--48790985 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
48790944 CATTTTAAGC
48790954 TTTCTGTTTCTTTCTTA
1 TTTCTGTTTCTTTCTTA
48790971 TTTCT-TTTCTTTCTT
1 TTTCTGTTTCTTTCTT
48790986 TTGTTTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.03, C:0.19, G:0.03, T:0.75
Consensus pattern (17 bp):
TTTCTGTTTCTTTCTTA
Found at i:48795463 original size:41 final size:41
Alignment explanation
Indices: 48795415--48795553 Score: 128
Period size: 41 Copynumber: 3.5 Consensus size: 41
48795405 CAATAGTGGC
48795415 GTTTTCTCATAAACGCCACAAAAGGCTAG-ACTATAGCGGCAT
1 GTTTTCTCATAAACGCCACAAAAGGCTAGAACTATAGCGG--T
** *
48795457 -TTTTCTCATAAACGCTGCAAAAGGTTAGAACTATAGCGGT
1 GTTTTCTCATAAACGCCACAAAAGGCTAGAACTATAGCGGT
* *** *
48795497 GTTTTCTCACAAACGTTGCAAAAGG-TAAGAA--ATAGCGGC
1 GTTTTCTCATAAACGCCACAAAAGGCT-AGAACTATAGCGGT
*
48795536 GTTTT-TCATAAATGCCAC
1 GTTTTCTCATAAACGCCAC
48795554 GAATATTTAT
Statistics
Matches: 83, Mismatches: 11, Indels: 10
0.80 0.11 0.10
Matches are distributed among these distances:
38 8 0.10
39 12 0.14
40 2 0.02
41 51 0.61
42 10 0.12
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.27
Consensus pattern (41 bp):
GTTTTCTCATAAACGCCACAAAAGGCTAGAACTATAGCGGT
Found at i:48797252 original size:43 final size:43
Alignment explanation
Indices: 48797199--48797319 Score: 154
Period size: 43 Copynumber: 2.8 Consensus size: 43
48797189 GGCACACGCC
* * * *
48797199 CGTGTAGCTCACATGGCCAAGAGACACACCTGTGTGGTCAGGA
1 CGTGTGGCTCACACGACCAAGAGACACGCCTGTGTGGTCAGGA
* * *
48797242 CGTGTGGCTCACACAACCAAGAGATACGGCC-GTGTGGTCAGGC
1 CGTGTGGCTCACACGACCAAGAGACAC-GCCTGTGTGGTCAGGA
*
48797285 CGTGTGGCTCACACGACCAAGAGACATGCCTGTGT
1 CGTGTGGCTCACACGACCAAGAGACACGCCTGTGT
48797320 CTCGGGCCGT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
42 3 0.05
43 61 0.92
44 2 0.03
ACGTcount: A:0.24, C:0.27, G:0.31, T:0.18
Consensus pattern (43 bp):
CGTGTGGCTCACACGACCAAGAGACACGCCTGTGTGGTCAGGA
Found at i:48802913 original size:23 final size:23
Alignment explanation
Indices: 48802887--48802931 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
48802877 TTGCAAACTA
48802887 TTAAAGCCTTCATTGTCCTATAT
1 TTAAAGCCTTCATTGTCCTATAT
*
48802910 TTAAAGCTTTCATTGTCCTATA
1 TTAAAGCCTTCATTGTCCTATA
48802932 CTTGCAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.27, C:0.20, G:0.09, T:0.44
Consensus pattern (23 bp):
TTAAAGCCTTCATTGTCCTATAT
Found at i:48803320 original size:72 final size:72
Alignment explanation
Indices: 48803243--48803597 Score: 281
Period size: 72 Copynumber: 4.9 Consensus size: 72
48803233 AAGTAAAATT
*
48803243 ATTTATTTAATTATGTGTTTTTAAAAAGGTTAATTTAGTTCAATTTATTAAGTTTTGATATTAAG
1 ATTTATTCAATTATGTGTTTTTAAAAAGGTTAATTTAGTTCAATTTATTAAGTTTTGATATTAAG
48803308 T-GAAACC
66 TAG-AACC
* * ** * * * ** * **
48803315 ATTTATTTAGTTAT-TCATTTTCAGAAGCTTAATTTAGTTTGATTTATTGAA-ATTTGATACAAA
1 ATTTATTCAATTATGTGTTTTTAAAAAGGTTAATTTAGTTCAATTTATT-AAGTTTTGATATTAA
*
48803378 GTA-AAAC
65 GTAGAACC
* * * * *
48803385 AGCTTGTTCAATTATGCGTTTTAAAAAAAAGTTAATTTAGTTCAATTTATTGAA-TTTTGATATT
1 A-TTTATTCAATTATGTGTTTT-TAAAAAGGTTAATTTAGTTCAATTTATT-AAGTTTTGATATT
48803449 AAGTAGAACC
63 AAGTAGAACC
* * * * * * *
48803459 GTTTATTCAATTATGTGTTTTTTAAAAGGCTATTTTAGTTCAATTCATTGAGTTTCGATATTAAG
1 ATTTATTCAATTATGTGTTTTTAAAAAGGTTAATTTAGTTCAATTTATTAAGTTTTGATATTAAG
*
48803524 TAGAACA
66 TAGAACC
* * * * * * ** * *
48803531 ATTTATTCAAGTTATATG-TTTTGAGAAGATTAAATTAATTTGATTTATTGAGTTGTGATATTAA
1 ATTTATTCAA-TTATGTGTTTTTAAAAAGGTTAATTTAGTTCAATTTATTAAGTTTTGATATTAA
48803595 GTA
65 GTA
48803598 AAATCGTTTA
Statistics
Matches: 218, Mismatches: 57, Indels: 16
0.75 0.20 0.05
Matches are distributed among these distances:
70 4 0.02
71 48 0.22
72 104 0.48
73 59 0.27
74 3 0.01
ACGTcount: A:0.34, C:0.06, G:0.14, T:0.46
Consensus pattern (72 bp):
ATTTATTCAATTATGTGTTTTTAAAAAGGTTAATTTAGTTCAATTTATTAAGTTTTGATATTAAG
TAGAACC
Found at i:48803435 original size:73 final size:73
Alignment explanation
Indices: 48803343--48803479 Score: 184
Period size: 73 Copynumber: 1.9 Consensus size: 73
48803333 TTTCAGAAGC
** *
48803343 TTAATTTAGTTTGATTTATTGAAATTTGATACAAAGTAAAACAGCTTGTTCAATTATGCGTTTTA
1 TTAATTTAGTTCAATTTATTGAAATTTGATACAAAGTAAAACAGCTTATTCAATTATGCGTTTTA
48803408 AAAAAAAG
66 AAAAAAAG
* ** * * * *
48803416 TTAATTTAGTTCAATTTATTGAATTTTGATATTAAGTAGAACCGTTTATTCAATTATGTGTTTT
1 TTAATTTAGTTCAATTTATTGAAATTTGATACAAAGTAAAACAGCTTATTCAATTATGCGTTTT
48803480 TTAAAAGGCT
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
73 54 1.00
ACGTcount: A:0.35, C:0.07, G:0.13, T:0.45
Consensus pattern (73 bp):
TTAATTTAGTTCAATTTATTGAAATTTGATACAAAGTAAAACAGCTTATTCAATTATGCGTTTTA
AAAAAAAG
Found at i:48803919 original size:20 final size:20
Alignment explanation
Indices: 48803879--48803916 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
48803869 TTATTATTTA
48803879 TTTTAGTTTTGATTTTAAAT
1 TTTTAGTTTTGATTTTAAAT
*
48803899 TTTTA-TTTTTATTTTAAA
1 TTTTAGTTTTGATTTTAAA
48803917 ATTGAAGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (20 bp):
TTTTAGTTTTGATTTTAAAT
Found at i:48803987 original size:13 final size:14
Alignment explanation
Indices: 48803961--48804003 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
48803951 AATTGTGTTA
*
48803961 TTAATTTATT-ATT
1 TTAAATTATTAATT
48803974 TTAAATT-TTAATT
1 TTAAATTATTAATT
48803987 TTAAATTCATTAATT
1 TTAAATT-ATTAATT
48804002 TT
1 TT
48804004 TATATTTAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 2 0.08
13 16 0.62
15 8 0.31
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (14 bp):
TTAAATTATTAATT
Found at i:48804513 original size:35 final size:35
Alignment explanation
Indices: 48804468--48804534 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
48804458 AGATTTAAAG
*
48804468 ATGATAATCATAACTTACAAAAATATTTAAAGTTT
1 ATGATAATCATAACTTACAAAAACATTTAAAGTTT
* *
48804503 ATGATTATCATAACTTACATAAACATTTAAAG
1 ATGATAATCATAACTTACAAAAACATTTAAAG
48804535 AATAAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.36
Consensus pattern (35 bp):
ATGATAATCATAACTTACAAAAACATTTAAAGTTT
Found at i:48804567 original size:9 final size:9
Alignment explanation
Indices: 48804553--48804678 Score: 59
Period size: 9 Copynumber: 14.6 Consensus size: 9
48804543 AAAATCGGAT
48804553 TATAACTTA
1 TATAACTTA
48804562 TATAACTTA
1 TATAACTTA
*
48804571 CATAA--TA
1 TATAACTTA
* *
48804578 CATAA-ATA
1 TATAACTTA
48804586 TATAACTTA
1 TATAACTTA
*
48804595 CATAA--TA
1 TATAACTTA
* *
48804602 CATAA-ATA
1 TATAACTTA
* *
48804610 TATATCATA
1 TATAACTTA
48804619 TCATAACTTA
1 T-ATAACTTA
*
48804629 CATAACTTA
1 TATAACTTA
*
48804638 TATAA-ATA
1 TATAACTTA
* *
48804646 TATATCATA
1 TATAACTTA
48804655 TCATAACTTA
1 T-ATAACTTA
*
48804665 CATAACTTA
1 TATAACTTA
*
48804674 CATAA
1 TATAA
48804679 ATAAATATCA
Statistics
Matches: 95, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
7 14 0.15
8 17 0.18
9 52 0.55
10 12 0.13
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (9 bp):
TATAACTTA
Found at i:48804588 original size:24 final size:24
Alignment explanation
Indices: 48804560--48804613 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
48804550 GATTATAACT
48804560 TATATAACTTACATAATACATAAA
1 TATATAACTTACATAATACATAAA
48804584 TATATAACTTACATAATACATAAA
1 TATATAACTTACATAATACATAAA
48804608 TATATA
1 TATATA
48804614 TCATATCATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (24 bp):
TATATAACTTACATAATACATAAA
Found at i:48804650 original size:36 final size:36
Alignment explanation
Indices: 48804554--48804705 Score: 206
Period size: 36 Copynumber: 4.4 Consensus size: 36
48804544 AAATCGGATT
* * *
48804554 ATAACTTATATAACTTACAT-AATACATA-AATAT-
1 ATAACTTACATAACTTACATAAATATATATCATATC
48804587 ATAACTTACATAA--TACATAAATATATATCATATC
1 ATAACTTACATAACTTACATAAATATATATCATATC
*
48804621 ATAACTTACATAACTTATATAAATATATATCATATC
1 ATAACTTACATAACTTACATAAATATATATCATATC
* *
48804657 ATAACTTACATAACTTACATAAATAAATATCATATA
1 ATAACTTACATAACTTACATAAATATATATCATATC
*
48804693 ATAACTTCCATAA
1 ATAACTTACATAA
48804706 AACTTTGGAT
Statistics
Matches: 106, Mismatches: 8, Indels: 7
0.88 0.07 0.06
Matches are distributed among these distances:
31 5 0.05
32 7 0.07
33 16 0.15
34 13 0.12
36 65 0.61
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (36 bp):
ATAACTTACATAACTTACATAAATATATATCATATC
Found at i:48810854 original size:43 final size:42
Alignment explanation
Indices: 48810807--48810951 Score: 168
Period size: 43 Copynumber: 3.4 Consensus size: 42
48810797 AGAACATGAC
*
48810807 CTTTAGCGGTGTTTTTGGGTAAAGAGCCGCTAAATGTCATGTT
1 CTTTAGCGGCGTTTTTGGG-AAAGAGCCGCTAAATGTCATGTT
* * * *
48810850 CTTTAGCGACATTTTTGGGGAAAGCA-CCGCTAGAGGTCATGTT
1 CTTTAGCGGCGTTTTT-GGGAAAG-AGCCGCTAAATGTCATGTT
*
48810893 CTTTAGCGGCGTTTGTAGGGAAA-ACGCCGCTAAATGTCATGTT
1 CTTTAGCGGCGTTT-TTGGGAAAGA-GCCGCTAAATGTCATGTT
*
48810936 CTATAGCGGCGTTTTT
1 CTTTAGCGGCGTTTTT
48810952 CCACATAAAT
Statistics
Matches: 85, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 78 0.92
44 5 0.06
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.34
Consensus pattern (42 bp):
CTTTAGCGGCGTTTTTGGGAAAGAGCCGCTAAATGTCATGTT
Found at i:48814114 original size:18 final size:19
Alignment explanation
Indices: 48814077--48814115 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
48814067 TTGGATTTGA
* *
48814077 TACTGTATATCTGTTACTG
1 TACTGAATATCTGATACTG
48814096 TACTGAATAT-TGATACTG
1 TACTGAATATCTGATACTG
48814114 TA
1 TA
48814116 ATGGGCCAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (19 bp):
TACTGAATATCTGATACTG
Found at i:48814611 original size:18 final size:18
Alignment explanation
Indices: 48814576--48814633 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
48814566 GCAATAAGTG
*
48814576 ACGTTTTGAAAATTAATA
1 ACGTTTTGAAAATGAATA
48814594 ACGTTTTGAAAGA-GAATA
1 ACGTTTTGAAA-ATGAATA
* *
48814612 AC-TTTTGAATATGAATC
1 ACGTTTTGAAAATGAATA
48814629 ACGTT
1 ACGTT
48814634 GAAATTAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
16 1 0.03
17 13 0.38
18 19 0.56
19 1 0.03
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.36
Consensus pattern (18 bp):
ACGTTTTGAAAATGAATA
Found at i:48815603 original size:27 final size:26
Alignment explanation
Indices: 48815422--48815609 Score: 162
Period size: 27 Copynumber: 7.0 Consensus size: 26
48815412 GCATTCTATC
* * *
48815422 CAGAGTACGCTACAAAGGCTATCCTT
1 CAGAGTTCGCCACAAAGGCTATTCTT
* **
48815448 GCAG-GATTTGCCACTGAGGCTATCTCTT
1 -CAGAG-TTCGCCACAAAGGCTAT-TCTT
* * * *
48815476 CATAATTCACCACTAAGGCTATTCTCT
1 CAGAGTTCGCCACAAAGGCTATTCT-T
* *
48815503 CAAAGTTCGCTACAAAGGCTATTCTCT
1 CAGAGTTCGCCACAAAGGCTATTCT-T
*
48815530 CAGAGTTCGTCACAAAGGCTATTCTTT
1 CAGAGTTCGCCACAAAGGCTATTC-TT
48815557 CAGAGTTCGCCACAAAGGCTATTCATT
1 CAGAGTTCGCCACAAAGGCTATTC-TT
* * *
48815584 CAGAGTTCACCATAAGGGCTATTCTT
1 CAGAGTTCGCCACAAAGGCTATTCTT
48815610 TCCTGATATG
Statistics
Matches: 132, Mismatches: 24, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
26 6 0.05
27 122 0.92
28 4 0.03
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.30
Consensus pattern (26 bp):
CAGAGTTCGCCACAAAGGCTATTCTT
Found at i:48822161 original size:14 final size:14
Alignment explanation
Indices: 48822142--48822172 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
48822132 GATCAGCAAG
48822142 AAATTTGTAACTCT
1 AAATTTGTAACTCT
48822156 AAATTTGTAACTCT
1 AAATTTGTAACTCT
48822170 AAA
1 AAA
48822173 CAATCAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (14 bp):
AAATTTGTAACTCT
Found at i:48822947 original size:6 final size:6
Alignment explanation
Indices: 48822933--48822973 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
48822923 CTGGCTATGC
* *
48822933 AAGGGA AAGGAA AAGGAA AAGGAA AAGGAGA ATGGAA AAGG
1 AAGGAA AAGGAA AAGGAA AAGGAA AAGGA-A AAGGAA AAGG
48822974 GAATGATGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
6 26 0.84
7 5 0.16
ACGTcount: A:0.59, C:0.00, G:0.39, T:0.02
Consensus pattern (6 bp):
AAGGAA
Found at i:48822978 original size:12 final size:12
Alignment explanation
Indices: 48822933--48822976 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
48822923 CTGGCTATGC
48822933 AAGGGAAAGGAA
1 AAGGGAAAGGAA
*
48822945 AAGGAAAAGGAA
1 AAGGGAAAGGAA
*
48822957 AAGGAGAATGGAA
1 AAGG-GAAAGGAA
48822970 AAGGGAA
1 AAGGGAA
48822977 TGATGAATGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
12 18 0.64
13 10 0.36
ACGTcount: A:0.59, C:0.00, G:0.39, T:0.02
Consensus pattern (12 bp):
AAGGGAAAGGAA
Found at i:48832639 original size:16 final size:16
Alignment explanation
Indices: 48832607--48832645 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
48832597 ATTATCTTAA
48832607 ATTATGAATACGTGTGT
1 ATTATG-ATACGTGTGT
*
48832624 ATTATGATATGTGTGT
1 ATTATGATACGTGTGT
48832640 A-TATGA
1 ATTATGA
48832646 CGCGTGACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 5 0.24
16 10 0.48
17 6 0.29
ACGTcount: A:0.31, C:0.03, G:0.23, T:0.44
Consensus pattern (16 bp):
ATTATGATACGTGTGT
Found at i:48839319 original size:37 final size:37
Alignment explanation
Indices: 48839269--48839347 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
48839259 TTATTACGAA
* *
48839269 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
48839306 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
48839343 GTCTT
1 GTCTT
48839348 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:48839544 original size:47 final size:47
Alignment explanation
Indices: 48839466--48840131 Score: 1035
Period size: 47 Copynumber: 14.1 Consensus size: 47
48839456 CCCTTTGGGA
* * * * * * *
48839466 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
48839513 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
48839560 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
48839607 CTTATCCCACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
48839654 CTTACCGCACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
48839701 CTTATCGCACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48839748 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
48839795 CTTATCGCATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
48839842 CTTATCGCATATCTACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48839889 CTTATCGCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48839936 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48839985 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
48840032 CTTATCGCATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTAT--CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48840081 CTTATCGCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48840128 CTTA
1 CTTA
48840132 CTATCATTTC
Statistics
Matches: 582, Mismatches: 33, Indels: 8
0.93 0.05 0.01
Matches are distributed among these distances:
47 489 0.84
49 93 0.16
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:48843920 original size:40 final size:40
Alignment explanation
Indices: 48843836--48843974 Score: 115
Period size: 40 Copynumber: 3.5 Consensus size: 40
48843826 CATGATTGCT
* ** *
48843836 CTTCGGGACTTAGCCCGGATACA-TCGC-TAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTTAGCA-CAATGC
* *
48843875 TCTTCGGGACTTAGCCCGGATTTAGTAAC-TCGCACCAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTTAGCA-CAATGC
* * * * *
48843916 CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAGAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTAACTTAGCACAATGC
48843956 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
48843975 CATCATTCGA
Statistics
Matches: 80, Mismatches: 15, Indels: 8
0.78 0.15 0.08
Matches are distributed among these distances:
39 3 0.04
40 59 0.74
41 18 0.22
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTTAGCACAATGC
Found at i:48844325 original size:29 final size:29
Alignment explanation
Indices: 48844286--48844364 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
48844276 CTTAATAATC
*
48844286 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
48844316 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
48844345 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
48844365 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:48846331 original size:37 final size:37
Alignment explanation
Indices: 48846270--48846348 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
48846260 TTATTACGAA
* *
48846270 GTCTTACCCAGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCAGACAAAATCTCCACACGAAGTCATCGG
* *
48846307 GTCTTACCCGGACAAAAT-TCCCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAATCT-CCACACGAAGTCATCGG
48846344 GTCTT
1 GTCTT
48846349 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 1 0.03
37 36 0.97
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATCTCCACACGAAGTCATCGG
Found at i:48846545 original size:47 final size:47
Alignment explanation
Indices: 48846467--48847179 Score: 1147
Period size: 47 Copynumber: 15.1 Consensus size: 47
48846457 CCCTTCGGGA
* * * * * * * *
48846467 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* * * *
48846514 CCTGTCACATATGTACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
48846561 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
48846608 CTTATTACATATATACACTTTCACATTCATCACATCGGCGATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
48846655 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
48846702 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
48846749 CTTATCACATATATACATTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
48846796 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
48846843 CTTATCACAGATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
48846890 CTTATCGCATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
48846937 CTTATCGCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
48846984 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
48847031 CTTATCGCATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTAT--CACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
48847080 CTTATCGCATATATATACACTTTTACATTCATCACATCGGCTATTAGGC
1 CTTAT--CACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
48847129 CTTATCGCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
48847176 CTTA
1 CTTA
48847180 CTATCATTTC
Statistics
Matches: 630, Mismatches: 34, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 536 0.85
49 94 0.15
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:48846546 original size:25 final size:25
Alignment explanation
Indices: 48846518--48846595 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
48846508 CTCGGCCCTG
48846518 TCACATATGTACACTTTCACATTCA
1 TCACATATGTACACTTTCACATTCA
* ** *** *
48846543 TCACAT-CGGCCA-TTAGGCCTT-A
1 TCACATATGTACACTTTCACATTCA
*
48846565 TCACATATATACACTTTCACATTCA
1 TCACATATGTACACTTTCACATTCA
48846590 TCACAT
1 TCACAT
48846596 CGGCCATTAG
Statistics
Matches: 35, Mismatches: 15, Indels: 6
0.62 0.27 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 8 0.23
25 13 0.37
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.33
Consensus pattern (25 bp):
TCACATATGTACACTTTCACATTCA
Found at i:48854272 original size:56 final size:50
Alignment explanation
Indices: 48854022--48854310 Score: 316
Period size: 50 Copynumber: 5.7 Consensus size: 50
48854012 TGCCAAAGTT
* ** * * * *
48854022 ATGTCCCAGACATAGTCTTACATGGGATGTTTCTTGT-ACTGCCAATGCC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCCAATGCC
* * * ** *
48854071 ATATCCCAAATATGGTCTTACATGGGAGTTCTCATAT-AGGTGCCAATGCC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCA-GTGCCAATGCC
** *
48854121 ATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCAGTGCCAACGCC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCCAATGCC
*
48854171 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAATGCC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCCAATGCC
48854221 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCTATGATGCCAATGCC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC-A-G-TGCCAATGCC
* *
48854277 ATGTCCTAGACATGGTCATACATGGGA--TCTCATC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATC
48854311 CTCTTAATGT
Statistics
Matches: 206, Mismatches: 26, Indels: 14
0.84 0.11 0.06
Matches are distributed among these distances:
49 29 0.14
50 128 0.62
51 4 0.02
53 5 0.02
54 4 0.02
55 1 0.00
56 35 0.17
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
ATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCCAATGCC
Found at i:48855397 original size:13 final size:13
Alignment explanation
Indices: 48855379--48855403 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48855369 GCCCAAACGT
48855379 CGAAATTTTCAAA
1 CGAAATTTTCAAA
48855392 CGAAATTTTCAA
1 CGAAATTTTCAA
48855404 GAAATCATTT
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:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (13 bp):
CGAAATTTTCAAA
Found at i:48856486 original size:20 final size:21
Alignment explanation
Indices: 48856437--48856486 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 21
48856427 TAACTCATAT
48856437 ATTTCACAT-T-TCATTTTCC
1 ATTTCACATATCTCATTTTCC
* *
48856456 AATCCAC-TATCTCA-TTTCC
1 ATTTCACATATCTCATTTTCC
48856475 ATTTCACATATC
1 ATTTCACATATC
48856487 GTGTCATTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
18 1 0.04
19 16 0.67
20 7 0.29
ACGTcount: A:0.26, C:0.30, G:0.00, T:0.44
Consensus pattern (21 bp):
ATTTCACATATCTCATTTTCC
Found at i:48858232 original size:27 final size:27
Alignment explanation
Indices: 48858194--48858411 Score: 275
Period size: 27 Copynumber: 8.1 Consensus size: 27
48858184 CGTGGGCAAG
48858194 TGATCGAAATACCCTCGAAGGGTAAAA
1 TGATCGAAATACCCTCGAAGGGTAAAA
* *
48858221 TGATCGAAATACCCTTGAAGGTTAAAA
1 TGATCGAAATACCCTCGAAGGGTAAAA
*
48858248 TGA-CTGAAATACCCTCGAAAGGTAAAA
1 TGATC-GAAATACCCTCGAAGGGTAAAA
*
48858275 TGATCGAAATACCCTCGAACGGTAAAA
1 TGATCGAAATACCCTCGAAGGGTAAAA
*
48858302 TGACCGAAATACCCTCGAAGGGTAAAA
1 TGATCGAAATACCCTCGAAGGGTAAAA
* *
48858329 -GA-CTGAAATACCCTCAAAAGGTAAAA
1 TGATC-GAAATACCCTCGAAGGGTAAAA
* *
48858355 TGATCGAAATACCCCCAAAGGGTAAAA
1 TGATCGAAATACCCTCGAAGGGTAAAA
*
48858382 TGA-CTGAAATACCC-CAATAGGGTAAAA
1 TGATC-GAAATACCCTCGA-AGGGTAAAA
48858409 TGA
1 TGA
48858412 CTGATACACC
Statistics
Matches: 172, Mismatches: 12, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
25 1 0.01
26 27 0.16
27 142 0.83
28 2 0.01
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.18
Consensus pattern (27 bp):
TGATCGAAATACCCTCGAAGGGTAAAA
Found at i:48858379 original size:80 final size:81
Alignment explanation
Indices: 48858194--48858415 Score: 340
Period size: 80 Copynumber: 2.8 Consensus size: 81
48858184 CGTGGGCAAG
* * *
48858194 TGATCGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTTGAAGGTTAAAATGACTGAAATA
1 TGATCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACTGAAATA
*
48858259 CCCTCGAAAGGTAAAA
66 CCCTCAAAAGGTAAAA
*
48858275 TGATCGAAATACCCTCGAACGGTAAAATGACCGAAATACCCTCGAAGGGTAAAA-GACTGAAATA
1 TGATCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACTGAAATA
48858339 CCCTCAAAAGGTAAAA
66 CCCTCAAAAGGTAAAA
* * * *
48858355 TGATCGAAATACCCCCAAAGGGTAAAATGACTGAAATACCC-CAATAGGGTAAAATGACTGA
1 TGATCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGA-AGGGTAAAATGACTGA
48858416 TACACCCCTA
Statistics
Matches: 129, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
79 2 0.02
80 71 0.55
81 56 0.43
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.18
Consensus pattern (81 bp):
TGATCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACTGAAATA
CCCTCAAAAGGTAAAA
Found at i:48858439 original size:134 final size:134
Alignment explanation
Indices: 48858199--48858441 Score: 314
Period size: 134 Copynumber: 1.8 Consensus size: 134
48858189 GCAAGTGATC
* * *** *
48858199 GAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTTGAAGGTTAAAATGACTGAAATACCCTC
1 GAAATACCCTCAAAAGGTAAAATGATCGAAATACCCCCAAAGGGTAAAATGACTGAAATACCCTC
* * *
48858264 GAAAGGTAAAATGATCGAAATACCCTCGAACGGTAAAATGACCGAAATACCCTCGAAGGGTAAAA
66 GAAAGGTAAAATGATCGAAACACCCTAGAACGATAAAATGACCGAAATACCCTCGAAGGGTAAAA
48858329 GACT
131 GACT
48858333 GAAATACCCTCAAAAGGTAAAATGATCGAAATACCCCCAAAGGGTAAAATGACTGAAATACCC-C
1 GAAATACCCTCAAAAGGTAAAATGATCGAAATACCCCCAAAGGGTAAAATGACTGAAATACCCTC
* * *
48858397 -AATAGGGTAAAATGA-CTGATACACCCCTAGGA-GATGAAATGACCG
66 GAA-A-GGTAAAATGATC-GAAACA-CCCTAGAACGATAAAATGACCG
48858442 TTATAGCCTT
Statistics
Matches: 93, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
132 2 0.02
133 3 0.03
134 82 0.88
135 6 0.06
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.18
Consensus pattern (134 bp):
GAAATACCCTCAAAAGGTAAAATGATCGAAATACCCCCAAAGGGTAAAATGACTGAAATACCCTC
GAAAGGTAAAATGATCGAAACACCCTAGAACGATAAAATGACCGAAATACCCTCGAAGGGTAAAA
GACT
Found at i:48858807 original size:28 final size:28
Alignment explanation
Indices: 48858761--48858857 Score: 88
Period size: 28 Copynumber: 3.5 Consensus size: 28
48858751 ACTACGCTGT
* *
48858761 ACTGTTACTGTTTTGGGCTAAGGCCCAC
1 ACTGTTACTGTATTAGGCTAAGGCCCAC
* *
48858789 ACTGCTACTGTATTAGGCTCAGGCCCAC
1 ACTGTTACTGTATTAGGCTAAGGCCCAC
* * * * * *
48858817 CCTGATACTG-CTTAGGGCTTAGGCCGAG
1 ACTGTTACTGTATTA-GGCTAAGGCCCAC
48858845 ACTGTTACTGTAT
1 ACTGTTACTGTAT
48858858 GTCGTATATT
Statistics
Matches: 54, Mismatches: 13, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
27 3 0.06
28 50 0.93
29 1 0.02
ACGTcount: A:0.20, C:0.26, G:0.25, T:0.30
Consensus pattern (28 bp):
ACTGTTACTGTATTAGGCTAAGGCCCAC
Found at i:48861640 original size:18 final size:17
Alignment explanation
Indices: 48861603--48861636 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
48861593 ATTTCATCTT
48861603 CACAAACCATTTTCAAA
1 CACAAACCATTTTCAAA
*
48861620 CACAAATCATTTTCAAA
1 CACAAACCATTTTCAAA
48861637 ACACTATGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.26
Consensus pattern (17 bp):
CACAAACCATTTTCAAA
Found at i:48863155 original size:656 final size:655
Alignment explanation
Indices: 48861895--48863269 Score: 1992
Period size: 656 Copynumber: 2.1 Consensus size: 655
48861885 TGTTCGTTTC
* * *
48861895 CAGACATAAAATCCATAGTTTCTAAAGTTCAGTCCAAATAACAGTTTATGAAAGTCCAACATAAA
1 CAGACATAAAATCCACAGTTTCTAAAGTTCAGTCCAAATAACACTTTACGAAAGTCCAACATAAA
* * *
48861960 AACTTTATACCACAATTTATATAATCGCTTTACAAAGAGTCTTAAACCAACCGTATAAAACTTAT
66 AACTTTATAACACAATTTATATAATCGCTTTACAAAAAGTCTTAAACCAACCGTACAAAACTTAT
* * * * * *
48862025 GAAAATTTTACTTAAATCGAATCAAACACTATCTCTTCGAAACCTCCAACTGCCGAGTCCAGCCT
131 GAAAATTTTACCTAAACCAAATCAAACACTATCACTTCGAAACCTCCAACTACCAAGTCCAGCCT
* * ***
48862090 CAAATCACGAGTTGCTTAAAAAAGACAAACTGAAGGGAGGTGAGCTACGCGAGCTCAGCATGAGT
196 CAAATCACGAGTTACCTAAAAAAGACAAACTGAAGGGAAAAGAGCTACGCGAGCTCAGCATGAGT
*
48862155 CTGAAACAAAAAATGAATGACAAAATGCAAGACTTCAAAAACAATTATCCCAGATAAGAACACAC
261 CTGAAACAAAAAATGAATGACAAAAGGCAAGACTTCAAAAACAATTATCCCAGATAAGAACACAC
* * * * * * *
48862220 AGATAGAGCATAAAAATCTTGAAGTGGTAAACAGAGGTACGAACACATAAACTTAATATACCATT
326 AGATAGAGCATAAAAACCTTAAAGTGGTAAAAAAAGGTACAAACACATAAAATCAATATACCATT
* *
48862285 CACAAACAATTTGAAAATTTCATAATCAGACACATATGCTCAAATGCAAACCGAATGCATTAAGT
391 CAAAAACAATTTGAAAATTTCATAACCAGACACATATGCTCAAATGCAAACCGAATGCATTAAGT
* * *
48862350 AAAAAACCCACCCCAACCATCTAAACACCTCTTGGTCCACCCTTTTAGATCGAATTTCGGAGGTT
456 AAAAAACCCACCCCAACCATCCAAACACCTCTTGGTCCACCCTTTCAGATCAAATTTCGGAGGTT
* * *
48862415 ACGTTTAGACACCGAAGGTGGCAGATACAAAAACTTTAATTCAAATCAAGAAAACCCTTTTGTTC
521 ACATTTAGACACCGAAGGTGGCAGAAACAAAAACCTTAATTCAAATCAAGAAAACCCTTTTGTTC
* * *
48862480 GTTTCAACTTAAGGAAACTAAATAGAACTTAGA-TATGTTTTGAAACAATATGAAACCCGCGTCA
586 GTTTCAACTTAAAGAAACTAAATAAAACTTA-ACTATG-TTTGAAACAATATGAAACCCGCATCA
48862544 AAACATT
649 AAACATT
* *
48862551 CAGACATAAAATCCACAGTTTCTAAAGTTCATTCCAAAGAACACTTTACGAAAGTCCAACATAAA
1 CAGACATAAAATCCACAGTTTCTAAAGTTCAGTCCAAATAACACTTTACGAAAGTCCAACATAAA
* * * *
48862616 AACTTTGTAACACACTTTATATAATTGCTTTATAAAAAGTCTTAAACCAACCGTACAAAACTTAT
66 AACTTTATAACACAATTTATATAATCGCTTTACAAAAAGTCTTAAACCAACCGTACAAAACTTAT
* * *
48862681 GACAATTTTACCTAAACCAAATCAAACACTATCAC-TCTGAGACCTCCAACTACCAAGTCTAGCC
131 GAAAATTTTACCTAAACCAAATCAAACACTATCACTTC-GAAACCTCCAACTACCAAGTCCAGCC
* * * * *
48862745 TCAAA-CACTGAGTTACCTGAAAGAGAGAAACTGAAGGGAAAAGAGCTATGCGAGCTCAGTATGA
195 TCAAATCAC-GAGTTACCTAAAAAAGACAAACTGAAGGGAAAAGAGCTACGCGAGCTCAGCATGA
* * ** * * *
48862809 GTTTGATACAAAAAATGAATGACAAAAGGTGAGATTTCAAAAACAATTATCCCAGATAAGAGCAT
259 GTCTGAAACAAAAAATGAATGACAAAAGGCAAGACTTCAAAAACAATTATCCCAGATAAGAACAC
48862874 ACAGATAGAGCATAAAAACCTTAAAGCT-GTAAAAAAAGGTACAAACACATAAAATCAATATACC
324 ACAGATAGAGCATAAAAACCTTAAAG-TGGTAAAAAAAGGTACAAACACATAAAATCAATATACC
*
48862938 ATTCAAAAACAATTTGAAAATTTCATAACCAGACACATATGCTCAAATGCAAATCGAATGCATTA
388 ATTCAAAAACAATTTGAAAATTTCATAACCAGACACATATGCTCAAATGCAAACCGAATGCATTA
* * * *
48863003 AGTTAAAAACCCATCCCAACCATCCAATCACCTCTTGGTCCACCCTTTCAGA-CTAAATTTTGGA
453 AGTAAAAAACCCACCCCAACCATCCAAACACCTCTTGGTCCACCCTTTCAGATC-AAATTTCGGA
* *
48863067 GGTTATATTTAG-CTACC-AAGGGTGGC-GAAAATAAAAACCTTAATTCAAATCAAGAAAACCCT
517 GGTTACATTTAGAC-ACCGAA-GGTGGCAG-AAACAAAAACCTTAATTCAAATCAAGAAAACCCT
* *
48863129 TTTGTTCGTTTCAACTTAAAGAAACTAAATAAAACTTAACTATGTTTGAAACAATATTAAACCGG
579 TTTGTTCGTTTCAACTTAAAGAAACTAAATAAAACTTAACTATGTTTGAAACAATATGAAACCCG
48863194 CATCAAAACATT
644 CATCAAAACATT
* * *
48863206 CTGACTTAAAATCTACAGTTTCTAAAGTTCAGTCCAAATAACACTTTACGAAAGTCCAACATAA
1 CAGACATAAAATCCACAGTTTCTAAAGTTCAGTCCAAATAACACTTTACGAAAGTCCAACATAA
48863270 GTATGAGTCT
Statistics
Matches: 640, Mismatches: 71, Indels: 17
0.88 0.10 0.02
Matches are distributed among these distances:
655 100 0.16
656 539 0.84
657 1 0.00
ACGTcount: A:0.42, C:0.21, G:0.13, T:0.25
Consensus pattern (655 bp):
CAGACATAAAATCCACAGTTTCTAAAGTTCAGTCCAAATAACACTTTACGAAAGTCCAACATAAA
AACTTTATAACACAATTTATATAATCGCTTTACAAAAAGTCTTAAACCAACCGTACAAAACTTAT
GAAAATTTTACCTAAACCAAATCAAACACTATCACTTCGAAACCTCCAACTACCAAGTCCAGCCT
CAAATCACGAGTTACCTAAAAAAGACAAACTGAAGGGAAAAGAGCTACGCGAGCTCAGCATGAGT
CTGAAACAAAAAATGAATGACAAAAGGCAAGACTTCAAAAACAATTATCCCAGATAAGAACACAC
AGATAGAGCATAAAAACCTTAAAGTGGTAAAAAAAGGTACAAACACATAAAATCAATATACCATT
CAAAAACAATTTGAAAATTTCATAACCAGACACATATGCTCAAATGCAAACCGAATGCATTAAGT
AAAAAACCCACCCCAACCATCCAAACACCTCTTGGTCCACCCTTTCAGATCAAATTTCGGAGGTT
ACATTTAGACACCGAAGGTGGCAGAAACAAAAACCTTAATTCAAATCAAGAAAACCCTTTTGTTC
GTTTCAACTTAAAGAAACTAAATAAAACTTAACTATGTTTGAAACAATATGAAACCCGCATCAAA
ACATT
Found at i:48864920 original size:656 final size:655
Alignment explanation
Indices: 48863623--48865428 Score: 2397
Period size: 656 Copynumber: 2.8 Consensus size: 655
48863613 AGGACATTAA
* * *
48863623 ATAAAACTTATGCAAATTTTACTTAAATCAAATCAAACATTATCTCTCTGTGACCTCCGACTGTC
1 ATAAAACTTATGAAAATTTTACTTAAATCAAATCAAACACTATCTCTCTGAGACCTCCGACTGTC
* * **
48863688 GAGTCCAACCTCAAACCACGAGTTACCTGAAAGAGAGAAATTGAAGGGAGATGAGCTATGTGAGC
66 GAGTCCAACCTCAAACCACGAGTTACCTGAAAGAGAGAAATTGAAGGGAGGTGAGCTACGAAAGC
* * * *
48863753 TTAGTATGAGTTTGAAACAAAAAATGAATGACAAAAGGTGAG-TTGT-GAAAACTAATTATCCCA
131 TCAATATGAGTTTGAAACAAAAAATGAATGACAAAAGGAGAGATT-TCAAAAAC-AATTATCCCA
* * * * * * * * *
48863816 GGTCAGAACAGACAAACAGAGCATAAAAACATTAAAGCAGTAAATAGAGGTACGAACACATCAAA
194 GATAAGAACACACAGATAGAGCATAAAAACCTTGAAGCGGTAAACAGAGGTACGAACACATCAAA
* *
48863881 TTAATATACCATTCGCAAACAATTTGAAAATTTCATAATAAGACACATATGCTTAAATGCAAACC
259 TTAATATACCATTCGCAAACAATTTGAAAATTTCATAATCAGACACATATGCTCAAATGCAAACC
* * *
48863946 GAATGTATTAAGTCAAAAACCCACCCCAACCATCCAAACACCTCTTAGTCCACCATTTTAGACCG
324 GAATGCATTAAGTCAAAAACCCACCCCAACCATCCAAACACCTCTTAGTCCACCCTTTTAGGCCG
* * * *
48864011 AATTTCGGAGGTTACATTTAGCCACCAAAGGTGGCGGAAACAAAATCTTTAATTCAAATCAGGAA
389 AATTCCAGAGGTTACATTTAGCCACCAAAGGTGGCGGAAACAAAA-CCTTAATTCAAATCAAGAA
* * * * * *
48864076 AACACTTTTCTGCATTTCAACTTAAGAAAACTAAATAAAAGTTAGCTATGTTTTGAAATAATATT
453 AACCCTTTTGTTCGTTTCAACTTAAGAAAACTAAATAAAACTTAGCTATGTTTTGAAACAATATT
* * * * *
48864141 AAACTGGCATCAAAACATTCATACATAAAATCCATAGTTTCTAAAGTTCAATCAAAATAATACTT
518 AAACCGACATCAAAACATTCAAACATAAAATCCACAGTTTCTAAAGTTCAATCAAAATAACACTT
* * * *
48864206 TATGAAAGTCCAACATAAAAAATTTGTAGCACAACTTATACAATCGCTTTACAAACAGTCTTAAA
583 TACGAAAGTCCAACATAAAAAATGTGTACCACAACTTATACAATCACTTTACAAACAGTCTTAAA
48864271 CAAACCCT
648 CAAACCCT
* * * * * *
48864279 ATAAAACATATGAAAAATTTACTTATACCAAATCAAACACTATCTCTCTGAGACCTCTGACTGTT
1 ATAAAACTTATGAAAATTTTACTTAAATCAAATCAAACACTATCTCTCTGAGACCTCCGACTGTC
** ** * * * * *
48864344 GAGTGTAGGCTCAAACCATGAGTTACCTAAAAGAGAGAAACTGAAAGGAGGTGAGCTACGCAAGC
66 GAGTCCAACCTCAAACCACGAGTTACCTGAAAGAGAGAAATTGAAGGGAGGTGAGCTACGAAAGC
* *
48864409 TCAATGTGAGTTTGAAAGCAAAAAATGAATGACAAAAGGAGAGATTTCAAAAACAATTATCCCAA
131 TCAATATGAGTTTGAAA-CAAAAAATGAATGACAAAAGGAGAGATTTCAAAAACAATTATCCCAG
* *
48864474 ATAAGATCACATAGATAGAGCATAAAAACCTTGAAGCGGTAAACAGAGGTACGAACACATCAAAT
195 ATAAGAACACACAGATAGAGCATAAAAACCTTGAAGCGGTAAACAGAGGTACGAACACATCAAAT
* * *
48864539 TAATATACCGTTCACAAATAATTTGAAAATTTCATAATCAGACACATATGCTCAAATGCAAACCG
260 TAATATACCATTCGCAAACAATTTGAAAATTTCATAATCAGACACATATGCTCAAATGCAAACCG
* * *
48864604 AATGCATTAAGTCAAAAACCCACCCCAACCATCCAAACACCTCATCGTCCACCCTTTTAGGCCAA
325 AATGCATTAAGTCAAAAACCCACCCCAACCATCCAAACACCTCTTAGTCCACCCTTTTAGGCCGA
*
48864669 ATTCCAGAGGTTACATTTAGCCACCAAAGGTGGTGGAAACAAAACCTTAATTCAAATCAAGAAAA
390 ATTCCAGAGGTTACATTTAGCCACCAAAGGTGGCGGAAACAAAACCTTAATTCAAATCAAGAAAA
*
48864734 CCCTTTTGTTCGTATCAACTTAAGAAAACTAAATAAAACTTAGCTATGTTTTGAAACAATATTAA
455 CCCTTTTGTTCGTTTCAACTTAAGAAAACTAAATAAAACTTAGCTATGTTTTGAAACAATATTAA
** * *
48864799 ACCGACATCAAAACATTCAAACATAAAATGTACAGTTTCTAAAGTTCAGTCCAAATAACACTTTA
520 ACCGACATCAAAACATTCAAACATAAAATCCACAGTTTCTAAAGTTCAATCAAAATAACACTTTA
* * *
48864864 CGAAAGTCCAACATAAAAACTGTGTACCACAGA-TTATATAATCACTTTAGAAACAGTCTTAAAC
585 CGAAAGTCCAACATAAAAAATGTGTACCACA-ACTTATACAATCACTTTACAAACAGTCTTAAAC
* *
48864928 CAACCGT
649 AAACCCT
* * * * * **
48864935 ATAAAAGTTATGAAAATTTTACTTAAATCGAATCAAACACTATCCCTCTAAGCCCTCCGACTACC
1 ATAAAACTTATGAAAATTTTACTTAAATCAAATCAAACACTATCTCTCTGAGACCTCCGACTGTC
* * * *
48865000 AAGTCCAACCTCAAACTACGAGTTACCTGTAAGAGAG-AATTTAGAGGGAGGTGAGCTAC-AAGA
66 GAGTCCAACCTCAAACCACGAGTTACCTGAAAGAGAGAAATTGA-AGGGAGGTGAGCTACGAA-A
* * * * * * *
48865063 GTTCAATTTGAGTCTGAAACAAAAAATAAATGACAAAAGGCGTGATTTCAAAACCAATTATCCCA
129 GCTCAATATGAGTTTGAAACAAAAAATGAATGACAAAAGGAGAGATTTCAAAAACAATTATCCCA
* * **
48865128 GATAAGAACACACATG-TAGAGCAT-AAAACCTTGAAACGGTAAACAGAGGTATGATTACATCAA
194 GATAAGAACACACA-GATAGAGCATAAAAACCTTGAAGCGGTAAACAGAGGTACGAACACATCAA
* * *
48865191 ATTGATATAACATTCGCAAACAATTTGAAAATTCCATAATCAGACACATATGCTCAAATGCAAAC
258 ATTAATATACCATTCGCAAACAATTTGAAAATTTCATAATCAGACACATATGCTCAAATGCAAAC
* * * * *
48865256 CGAATACATTAAGT-AAAAACCCACCCCAACCATTCAAACACCTTTTTGTCCACCCTTTTA-GAC
323 CGAATGCATTAAGTCAAAAACCCACCCCAACCATCCAAACACCTCTTAGTCCACCCTTTTAGGCC
* * * * * * *
48865319 GAATTCTAGAGGTTACATTTAGCCACTAAAGGTAGCGAAAACAAAAACTCTAATTCAACTCTAGA
388 GAATTCCAGAGGTTACATTTAGCCACCAAAGGTGGCGGAAACAAAACCT-TAATTCAAATCAAGA
* *
48865384 AAGCCCTTTTGTTCGTTTCAACTTAAGGAAACTAAATAAAACTTA
452 AAACCCTTTTGTTCGTTTCAACTTAAGAAAACTAAATAAAACTTA
48865429 TGAAAATTTT
Statistics
Matches: 999, Mismatches: 143, Indels: 19
0.86 0.12 0.02
Matches are distributed among these distances:
652 44 0.04
653 97 0.10
654 107 0.11
655 66 0.07
656 428 0.43
657 250 0.25
658 7 0.01
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.25
Consensus pattern (655 bp):
ATAAAACTTATGAAAATTTTACTTAAATCAAATCAAACACTATCTCTCTGAGACCTCCGACTGTC
GAGTCCAACCTCAAACCACGAGTTACCTGAAAGAGAGAAATTGAAGGGAGGTGAGCTACGAAAGC
TCAATATGAGTTTGAAACAAAAAATGAATGACAAAAGGAGAGATTTCAAAAACAATTATCCCAGA
TAAGAACACACAGATAGAGCATAAAAACCTTGAAGCGGTAAACAGAGGTACGAACACATCAAATT
AATATACCATTCGCAAACAATTTGAAAATTTCATAATCAGACACATATGCTCAAATGCAAACCGA
ATGCATTAAGTCAAAAACCCACCCCAACCATCCAAACACCTCTTAGTCCACCCTTTTAGGCCGAA
TTCCAGAGGTTACATTTAGCCACCAAAGGTGGCGGAAACAAAACCTTAATTCAAATCAAGAAAAC
CCTTTTGTTCGTTTCAACTTAAGAAAACTAAATAAAACTTAGCTATGTTTTGAAACAATATTAAA
CCGACATCAAAACATTCAAACATAAAATCCACAGTTTCTAAAGTTCAATCAAAATAACACTTTAC
GAAAGTCCAACATAAAAAATGTGTACCACAACTTATACAATCACTTTACAAACAGTCTTAAACAA
ACCCT
Found at i:48867390 original size:656 final size:655
Alignment explanation
Indices: 48865419--48867763 Score: 3222
Period size: 656 Copynumber: 3.6 Consensus size: 655
48865409 AGGAAACTAA
* * * *
48865419 ATAAAACTTATGAAAATTTTACTTAAACCGAATCAAACATTATCTCTCTATGACCTCCGACTGTC
1 ATAAAACTTATGAAAATTTTACTTAAATCGAATCAAACACTATCTCTCTAAGACCTCCGACTGGC
* *
48865484 -GAGTCCAGCCTCAAACCACGAGTTACCTGAAAGAGAAAAATTGAAGGGAGGTGAGCTACGCGAG
66 TGAGTCCAGCCTCAAACCACGAGTTACCTGAAAGAGAGAAACTGAAGGGAGGTGAGCTACGCGAG
* * * ** * *
48865548 CTCAGTATGAGTCTGAAACAAAAAATGAATGACAAAAAGTGAGAGGTCAAAAAAAATTATCCAAG
131 CTCAGTGTGAGTCTGAAACCAAAAATGAATGAC-AAAAGCGAGATTTCAAAAACAATTATCCTAG
* * * *
48865613 GTTAGAACACATAGACAAAGCATAAAAACCTTGAAGTGGTAAACAGAGGTACGAACACATCAAAT
195 ATAAGAACACATAGACAGAGCATAAAAACCTTGAAGCGGTAAACAGAGGTACGAACACATCAAAT
* *
48865678 TAATATACAATTCGCAAACAATTTGAAAATTTCATAATCAGACACATATGCTCAAGTGAAAACCG
260 TAATATACCATTCGCAAACAATTTGAAAATTTCATAATCAGACACATATGCTCAAATGAAAACCG
** * * ** * **
48865743 AATGTATTAAGTCAAAAACCCACCTCAACCATCTGAACACCTCTTGGTCCACAATTTTAGA-TCG
325 AATACATTAAGTAAAAAACCCACCCCAACCATCCAAACACCTCTTCGTCCACCCTTTTAGACT-G
* **
48865807 AATTCCGGTGGTTACATTTAGCCACCAAAGGTGGCGGAAACAAAAACTTTAATTCAAATCAAGAA
389 AATTCTGAAGGTTACATTTAG-CACCAAAGGTGGCGGAAACAAAAACTTTAATTCAAATCAAGAA
** * *
48865872 AACAGTTTTGTTCATTTCAACTTAAGAAAACTAAATAAAACTTAGCTATGTTTTGAAATAATATT
453 AACCCTTTTGTTCATTTCAACTTAAGGAAACTAAATAAAACTTAGCTATGTTTTGAAACAATATT
* * *
48865937 AAACTGGCGTCAAAACATTGAGACATAAAATCCACAGTTTCTAAAGTTCAATCCAAATAACACTT
518 AAACCGGCATCAAAACATTCAGACATAAAATCCACAGTTTCTAAAGTTCAATCCAAATAACACTT
* *
48866002 TACGAAAGTCCAACATAAAAAATTTGTACCACAGTTTATATAATCGCTTTAAAAATAGTCTTAAA
583 TACGAAAGTCCAACATAAAAACTTTGTACCACAGTTTATATAATCGCTTTAAAAACAGTCTTAAA
*
48866067 CAAACCGT
648 CCAACCGT
* * * *
48866075 ATAAAACATATG-AAATATTTAATTAAA-CTGAATCAAACACTATCTCTCTGAGACCTCCGA-TT
1 ATAAAACTTATGAAAAT-TTTACTTAAATC-GAATCAAACACTATCTCTCTAAGACCTCCGACTG
* * * *
48866137 GCTGAGTCCAGCCTCAAACCACGAGTTACCTAAAAGACAGAAACTGAAGGGAGCTGAGCTACGCA
64 GCTGAGTCCAGCCTCAAACCACGAGTTACCTGAAAGAGAGAAACTGAAGGGAGGTGAGCTACGCG
* * * *
48866202 AGCTTAGTGTGAGTCTGAAAGCAAAATTGAATTACAAAAGGCGAGATTTCAAAAAACAATTATCC
129 AGCTCAGTGTGAGTCTGAAACCAAAAATGAATGACAAAA-GCGAGATTTC-AAAAACAATTATCC
* * * * *
48866267 CAGATAAGAACACACAGATAGAGCATAAAAACCTTGAAGTGGTAAACAGAGGTATGAACACATCA
192 TAGATAAGAACACATAGACAGAGCATAAAAACCTTGAAGCGGTAAACAGAGGTACGAACACATCA
** * * *
48866332 AATTAATATACCATTTACAAATAATTTGAAAATTTCATAATCAGATACATATGCTCAAATGCAAA
257 AATTAATATACCATTCGCAAACAATTTGAAAATTTCATAATCAGACACATATGCTCAAATGAAAA
* *
48866397 CCGAATACATTAAGAAAAAAACCCACCCTAACCATCCAAACACCTCTTCGTCCACCCTTTTAGAC
322 CCGAATACATTAAGTAAAAAACCCACCCCAACCATCCAAACACCTCTTCGTCCACCCTTTTAGAC
* * * *
48866462 CGAATTCT-AGAGGTTACGTTTAG--CCAAAGGTGGTGGAAACAAAAACATTAATTCAAATCAAG
387 TGAATTCTGA-AGGTTACATTTAGCACCAAAGGTGGCGGAAACAAAAACTTTAATTCAAATCAAG
* *
48866524 AAAATCCTTTTGTTCATTTCAACTGAAGGAAACTAAATAAAACTTAGCTATGTTTTGAAACAATA
451 AAAACCCTTTTGTTCATTTCAACTTAAGGAAACTAAATAAAACTTAGCTATGTTTTGAAACAATA
* * * *
48866589 TTAAACCGGCATCAAAACATTCAGATATAAAATCTACAGTTTTTAAAGTTGAATCCAAATAACAC
516 TTAAACCGGCATCAAAACATTCAGACATAAAATCCACAGTTTCTAAAGTTCAATCCAAATAACAC
* * * * * *
48866654 TTTACGAAAGTCCAACATAAAAACATTGTACAACAGTTTATATAGTCACTTTAGAAACAGTCTTT
581 TTTACGAAAGTCCAACATAAAAACTTTGTACCACAGTTTATATAATCGCTTTAAAAACAGTCTTA
48866719 AACCAACCGT
646 AACCAACCGT
*
48866729 ATAAAACTTATGAAAATTTTACTTAAATCAAATCAAACACTATCTCTCTAAGACCTCCGACTGGC
1 ATAAAACTTATGAAAATTTTACTTAAATCGAATCAAACACTATCTCTCTAAGACCTCCGACTGGC
* * * * *
48866794 -GAGTCCAGCCTCAAACCATGAGTTACTTGAAAGAGAGAAACTAAAGGAAGGTGGGCTACGCGAG
66 TGAGTCCAGCCTCAAACCACGAGTTACCTGAAAGAGAGAAACTGAAGGGAGGTGAGCTACGCGAG
* * *
48866858 CTCAGTGTGAGTCTGAAACCAAAAATGAATGACAAAAGCCATGATTTTAGAAACAATTATCCTAG
131 CTCAGTGTGAGTCTGAAACCAAAAATGAATGACAAAAGCGA-GATTTCAAAAACAATTATCCTAG
* * * * * *
48866923 ATAAGAACACATAGACAGAGCAT-AGAACCTTAAAGCGATAAACATAAGTACGAACACATTAAAT
195 ATAAGAACACATAGACAGAGCATAAAAACCTTGAAGCGGTAAACAGAGGTACGAACACATCAAAT
*
48866987 TAATATACCATTCGCAAACAATTTGAAAATTTCATAATCAGACACATATGCTAAAAT-ACAAACC
260 TAATATACCATTCGCAAACAATTTGAAAATTTCATAATCAGACACATATGCTCAAATGA-AAACC
* * * *
48867051 AAATACGTTAAGTAAAAAACCCACCCCAACCATTCAAACACCTCTTCGTCTACCCTTTTAGACTG
324 GAATACATTAAGTAAAAAACCCACCCCAACCATCCAAACACCTCTTCGTCCACCCTTTTAGACTG
* ** *
48867116 AATTCTGAAGGTTACATTTAGCAACCAATGGTGGCAAAAACAAAAACTTTAATTCAAATCAGGAA
389 AATTCTGAAGGTTACATTTAGC-ACCAAAGGTGGCGGAAACAAAAACTTTAATTCAAATCAAGAA
* *
48867181 AACCCTTTTCTTCATTTCAACTTAAGGAAACTATATAAAACTTAGCTATGTTTTGAAACAAATAT
453 AACCCTTTTGTTCATTTCAACTTAAGGAAACTAAATAAAACTTAGCTATGTTTTGAAAC-AATAT
* * * *
48867246 TAAACCGGCACCAAAACATTCAGCCATAAAATCCACAATTTCTAAAGTTCAGTCCAAATAACACT
517 TAAACCGGCATCAAAACATTCAGACATAAAATCCACAGTTTCTAAAGTTCAATCCAAATAACACT
* * *
48867311 TTACAAAAGTCCAACATAAAAACTTTGTACCACAGTTTATATAATCGCTTTACAAGCAGTCTTAA
582 TTACGAAAGTCCAACATAAAAACTTTGTACCACAGTTTATATAATCGCTTTAAAAACAGTCTTAA
*
48867376 ACCAACTGT
647 ACCAACCGT
* * *
48867385 ATAAAA-TATATGAAAATTTTACTTAAATTGAATCAAACACTATCTCTCTGAGACCTCCGACT-A
1 ATAAAACT-TATGAAAATTTTACTTAAATCGAATCAAACACTATCTCTCTAAGACCTCCGACTGG
* * ** * * * *
48867448 CTGAGTCTAGCCTTAAACCATAAGTTACTTGAAATAGAGAAACTGAAGGGAGGTGAGCTATGGGA
65 CTGAGTCCAGCCTCAAACCACGAGTTACCTGAAAGAGAGAAACTGAAGGGAGGTGAGCTACGCGA
* *
48867513 GCTCAGTGTGTGTTTGAAACCAAAAATGAATGACAAAAGACGAGATTTCAAAAACAATTATCCTA
130 GCTCAGTGTGAGTCTGAAACCAAAAATGAATGACAAAAG-CGAGATTTCAAAAACAATTATCCTA
* * * *
48867578 GATAAGAACGCATAGACAGAGCATAAAAACCTTGAAGCGGTAAACATAGGTACAAACACTTCAAA
194 GATAAGAACACATAGACAGAGCATAAAAACCTTGAAGCGGTAAACAGAGGTACGAACACATCAAA
*
48867643 TTAATATACCATTCGCAAACAATTTGAAAATTTCATAATTAGACACATATGCTCAAATGAAAACC
259 TTAATATACCATTCGCAAACAATTTGAAAATTTCATAATCAGACACATATGCTCAAATGAAAACC
* * ** * *
48867708 GAATGCATTAAGTCAAAAAGACACCCTAACCATCCAAACACCTCTTTGTCCACCCT
324 GAATACATTAAGTAAAAAACCCACCCCAACCATCCAAACACCTCTTCGTCCACCCT
48867764 GTACACGACA
Statistics
Matches: 1479, Mismatches: 188, Indels: 43
0.86 0.11 0.03
Matches are distributed among these distances:
652 166 0.11
653 40 0.03
654 362 0.24
655 111 0.08
656 458 0.31
657 341 0.23
658 1 0.00
ACGTcount: A:0.42, C:0.20, G:0.14, T:0.25
Consensus pattern (655 bp):
ATAAAACTTATGAAAATTTTACTTAAATCGAATCAAACACTATCTCTCTAAGACCTCCGACTGGC
TGAGTCCAGCCTCAAACCACGAGTTACCTGAAAGAGAGAAACTGAAGGGAGGTGAGCTACGCGAG
CTCAGTGTGAGTCTGAAACCAAAAATGAATGACAAAAGCGAGATTTCAAAAACAATTATCCTAGA
TAAGAACACATAGACAGAGCATAAAAACCTTGAAGCGGTAAACAGAGGTACGAACACATCAAATT
AATATACCATTCGCAAACAATTTGAAAATTTCATAATCAGACACATATGCTCAAATGAAAACCGA
ATACATTAAGTAAAAAACCCACCCCAACCATCCAAACACCTCTTCGTCCACCCTTTTAGACTGAA
TTCTGAAGGTTACATTTAGCACCAAAGGTGGCGGAAACAAAAACTTTAATTCAAATCAAGAAAAC
CCTTTTGTTCATTTCAACTTAAGGAAACTAAATAAAACTTAGCTATGTTTTGAAACAATATTAAA
CCGGCATCAAAACATTCAGACATAAAATCCACAGTTTCTAAAGTTCAATCCAAATAACACTTTAC
GAAAGTCCAACATAAAAACTTTGTACCACAGTTTATATAATCGCTTTAAAAACAGTCTTAAACCA
ACCGT
Found at i:48868384 original size:20 final size:20
Alignment explanation
Indices: 48868361--48868437 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
48868351 GCCTTGTGGA
*
48868361 GGTCTACACT-CCCGTGTGAT
1 GGTCTACA-TGCCCGTGTAAT
48868381 GGTCTACATGCCCGTGTAAT
1 GGTCTACATGCCCGTGTAAT
* *
48868401 GGTTTACTTGCCCGTGTAAT
1 GGTCTACATGCCCGTGTAAT
*
48868421 GGTTTACATGCCCGTGT
1 GGTCTACATGCCCGTGT
48868438 GCATGCTACA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
19 1 0.02
20 51 0.98
ACGTcount: A:0.16, C:0.25, G:0.26, T:0.34
Consensus pattern (20 bp):
GGTCTACATGCCCGTGTAAT
Found at i:48876368 original size:598 final size:598
Alignment explanation
Indices: 48875209--48876388 Score: 1896
Period size: 598 Copynumber: 2.0 Consensus size: 598
48875199 CCAAAAATCC
* * *
48875209 CTTCCCTTTTCCATGTTCCTTTTGTTTTTCCCAGTTTTATTTTCTTTCTTTTCATGTGAGTTCTT
1 CTTCCCTTTTCCACGTTCCTTTTATTTTTCCCAGTTTTATTTTCTTTCTTTTCACGTGAGTTCTT
* * * *
48875274 GGTATCAAATTGCTCTTTTGGTTTCTTGGTCTTTAGTGCCCTTACTTCCATTGTTCTTACTATTC
66 GGTAGCAAATTACTCTGTTGGTTTCTTGGTCTTTAATGCCCTTACTTCCATTGTTCTTACTATTC
* *
48875339 AAGTTTGGTAGTGATGTTCGATTGTATAGATTGCAACCTGATTCGTGTGTAAGTCTCGACATCCT
131 AAGTTCGGTAGTGATGTTCGATTGTATAGATTACAACCTGATTCGTGTGTAAGTCTCGACATCCT
* *
48875404 CTCTTATGTTTTGGTGTTTTTCTTCTTCAGTTTTCAACTTTGTTGAGGTGTGGTGGGGGAGTTGT
196 CTCTTATGTTATGGAGTTTTTCTTCTTCAGTTTTCAACTTTGTTGAGGTGTGGTGGGGGAGTTGT
* * * *
48875469 ATTGATGTTAACCGATTGATCAGTTTTAGGTGAAGTTCACGGGACAATCCATCTACTAGCTAATT
261 ATCGATGTTAACCGATTGATCAGTTTTAGGTGAAGTTCACGAGACAATCCATCTACCAGCGAATT
*
48875534 AGGAGTTGCATGGTGTTGTTTTCATTCAAGGGTAAGTGTTTCATATCATTTTAGGGGTTGTTAAT
326 AAGAGTTGCATGGTGTTGTTTTCATTCAAGGGTAAGTGTTTCATATCATTTTAGGGGTTGTTAAT
48875599 GGTTGAATATAGGTCCAATTAGTGTTGCTCTTGTGAATTTGTCATTTGGGTTTGATAAGACTTTG
391 GGTTGAATATAGGTCCAATTAGTGTTGCTCTTGTGAATTTGTCATTTGGGTTTGATAAGACTTTG
* ** ** *
48875664 GTTAAAAACTTGTGTGAATTGTCAATCTAGGTACCAGAATACTTGATTGTTGAGTTCTACATTGA
456 GTTAAAAAATCATGTGAATTGTCAATCTAGGTACCAGAATACTCAATTGTTGAGTTCTACATCGA
* * *
48875729 TTTTGCCTAGGTGTGTACTGAGGAACCATAAAAACAGCGAACAGAGAAAGCCGAAATTGGGGCCT
521 TTTTGCCTAGGTGCGTACTGAGAAACCATAAAAACAGCGAACAGAGAAAGCCAAAATTGGGGCCT
48875794 GTCAATGCCATCT
586 GTCAATGCCATCT
48875807 CTTCCCTTTTCCACGTTCCTTTTATTTTTCCCAGTTTTATTTTCTTTCTTTTCACGTGAGTTCTT
1 CTTCCCTTTTCCACGTTCCTTTTATTTTTCCCAGTTTTATTTTCTTTCTTTTCACGTGAGTTCTT
48875872 GGTAGCAAATTACTCTGTTGGTTTCTTGGTCTTTAATGCCCTTACTTCCATTGTTCTTACTATTC
66 GGTAGCAAATTACTCTGTTGGTTTCTTGGTCTTTAATGCCCTTACTTCCATTGTTCTTACTATTC
* * * *
48875937 AAGTTCGGTAGTGATGTTTGATTGTATAGATTACAACCTGATTCGTGTGTAAGTCTTGACTTCTT
131 AAGTTCGGTAGTGATGTTCGATTGTATAGATTACAACCTGATTCGTGTGTAAGTCTCGACATCCT
* *
48876002 CTCTTATGTTATGGAGTTTTTCTTCTTTAGTTTTCAACTTTGTTGAGGTGTGGTGGTGGAGTTGT
196 CTCTTATGTTATGGAGTTTTTCTTCTTCAGTTTTCAACTTTGTTGAGGTGTGGTGGGGGAGTTGT
** * * * * * *
48876067 ATCGATGTTAACCGATTGATTGGTTTTAGTTGAATTTCATGAGATAGTCTATCTACCAGCGAATT
261 ATCGATGTTAACCGATTGATCAGTTTTAGGTGAAGTTCACGAGACAATCCATCTACCAGCGAATT
** * *
48876132 AAGAGTTGTGTGGTGTTGTTTTCATTCAAGTGTAAGTGTTTCATATCATTTTAGTGGTTGTTAAT
326 AAGAGTTGCATGGTGTTGTTTTCATTCAAGGGTAAGTGTTTCATATCATTTTAGGGGTTGTTAAT
* * *
48876197 GGTTGAATATAGGTTCAATTAGTGTTGCTCTTGTGAATTTGTCATTTGGGTTTGGTAAGATTTTG
391 GGTTGAATATAGGTCCAATTAGTGTTGCTCTTGTGAATTTGTCATTTGGGTTTGATAAGACTTTG
48876262 GTTAAAAAATCATGTGAATTGTCAATCTAGGTACCAGAATACTCAATTGTTGAGTTCTACATCGA
456 GTTAAAAAATCATGTGAATTGTCAATCTAGGTACCAGAATACTCAATTGTTGAGTTCTACATCGA
* *
48876327 TTTTGCCTAGGTGCGTAAC-GAGAAAACCA-AAAGATAGCGAACAGAGAAAGCCAAAATTGGGG
521 TTTTGCCTAGGTGCGT-ACTGAG-AAACCATAAAAACAGCGAACAGAGAAAGCCAAAATTGGGG
48876389 TTTGTCGATG
Statistics
Matches: 532, Mismatches: 48, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
598 525 0.99
599 7 0.01
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.42
Consensus pattern (598 bp):
CTTCCCTTTTCCACGTTCCTTTTATTTTTCCCAGTTTTATTTTCTTTCTTTTCACGTGAGTTCTT
GGTAGCAAATTACTCTGTTGGTTTCTTGGTCTTTAATGCCCTTACTTCCATTGTTCTTACTATTC
AAGTTCGGTAGTGATGTTCGATTGTATAGATTACAACCTGATTCGTGTGTAAGTCTCGACATCCT
CTCTTATGTTATGGAGTTTTTCTTCTTCAGTTTTCAACTTTGTTGAGGTGTGGTGGGGGAGTTGT
ATCGATGTTAACCGATTGATCAGTTTTAGGTGAAGTTCACGAGACAATCCATCTACCAGCGAATT
AAGAGTTGCATGGTGTTGTTTTCATTCAAGGGTAAGTGTTTCATATCATTTTAGGGGTTGTTAAT
GGTTGAATATAGGTCCAATTAGTGTTGCTCTTGTGAATTTGTCATTTGGGTTTGATAAGACTTTG
GTTAAAAAATCATGTGAATTGTCAATCTAGGTACCAGAATACTCAATTGTTGAGTTCTACATCGA
TTTTGCCTAGGTGCGTACTGAGAAACCATAAAAACAGCGAACAGAGAAAGCCAAAATTGGGGCCT
GTCAATGCCATCT
Found at i:48876506 original size:32 final size:32
Alignment explanation
Indices: 48876470--48876549 Score: 117
Period size: 32 Copynumber: 2.5 Consensus size: 32
48876460 TGTGTGGGTC
*
48876470 GTGTGGGCCACACAGGC-ACGGTAATTTGGGCA
1 GTGTGGGCCACACAGGCTA-GGCAATTTGGGCA
* *
48876502 GTGTGGGCCACACGGGCTAGGCAATTTGGGCC
1 GTGTGGGCCACACAGGCTAGGCAATTTGGGCA
48876534 GTGTGGGCCACACAGG
1 GTGTGGGCCACACAGG
48876550 TGTGTGGGCC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
32 42 0.98
33 1 0.02
ACGTcount: A:0.19, C:0.24, G:0.40, T:0.17
Consensus pattern (32 bp):
GTGTGGGCCACACAGGCTAGGCAATTTGGGCA
Found at i:48877748 original size:12 final size:12
Alignment explanation
Indices: 48877710--48877751 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
48877700 ACTGGTCATA
48877710 GAGAGATTTGAG
1 GAGAGATTTGAG
* *
48877722 GAGGGATATT-TG
1 GAGAGAT-TTGAG
48877734 GAGAGATTTGAG
1 GAGAGATTTGAG
48877746 GAGAGA
1 GAGAGA
48877752 ACATTGGGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 2 0.08
12 20 0.83
13 2 0.08
ACGTcount: A:0.33, C:0.00, G:0.43, T:0.24
Consensus pattern (12 bp):
GAGAGATTTGAG
Found at i:48878485 original size:27 final size:26
Alignment explanation
Indices: 48878452--48878786 Score: 313
Period size: 27 Copynumber: 12.5 Consensus size: 26
48878442 CCCAAAATAA
48878452 GTAAAATGACTGAAATACCCCAATAGG
1 GTAAAATGACTGAAATACCCC-ATAGG
* **
48878479 GTAAAATGACTAAAATACCCCCATAAA
1 GTAAAATGACTGAAATA-CCCCATAGG
**
48878506 GTAAAATGACCAAAATACCCTCATAGG
1 GTAAAATGACTGAAATACCC-CATAGG
* *
48878533 GTAGAATGACCGAAATACCCCCATAGG
1 GTAAAATGACTGAAATA-CCCCATAGG
* *
48878560 GTAAAATGA-TCAAAATAACCCCATAAG
1 GTAAAATGACT-GAAAT-ACCCCATAGG
*
48878587 GTAAAATGA-TCGAAATACCCTCAGAGG
1 GTAAAATGACT-GAAATACCC-CATAGG
48878614 GTAAAATGACTGAAATACCCCCATAGG
1 GTAAAATGACTGAAATA-CCCCATAGG
*
48878641 GTAAAATGACCGAAATACCCGCATAGG
1 GTAAAATGACTGAAATACCC-CATAGG
*
48878668 GTAAAATGA-TCGAAATACCCACATAAG
1 GTAAAATGACT-GAAATACCC-CATAGG
* **
48878695 GTAGAATGA-AAAAATACCCCTATAGG
1 GTAAAATGACTGAAATACCCC-ATAGG
*
48878721 GTAAAATGA-TCGAAATACCCCCATTGG
1 GTAAAATGACT-GAAATA-CCCCATAGG
**
48878748 GTAAAATGACTGTTATACCCC-TAGG
1 GTAAAATGACTGAAATACCCCATAGG
48878773 AGATAAAATGACTG
1 -G-TAAAATGACTG
48878787 CTATGGCCTT
Statistics
Matches: 261, Mismatches: 31, Indels: 32
0.81 0.10 0.10
Matches are distributed among these distances:
25 4 0.02
26 35 0.13
27 205 0.79
28 17 0.07
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.19
Consensus pattern (26 bp):
GTAAAATGACTGAAATACCCCATAGG
Found at i:48878591 original size:81 final size:81
Alignment explanation
Indices: 48878456--48878757 Score: 376
Period size: 81 Copynumber: 3.7 Consensus size: 81
48878446 AAATAAGTAA
* * * *
48878456 AATGACTGAAATACCCCAATAGGGTAAAATGA-CTAAAATACCCCCATAAAGTAAAATGACCAAA
1 AATGACTGAAATACCCCCATAGGGTAAAATGATC-AAAATAACCCCATAAGGTAAAATGACCGAA
48878520 ATACCCTCATAGGGTAG
65 ATACCCTCATAGGGTAG
* *
48878537 AATGACCGAAATACCCCCATAGGGTAAAATGATCAAAATAACCCCATAAGGTAAAATGATCGAAA
1 AATGACTGAAATACCCCCATAGGGTAAAATGATCAAAATAACCCCATAAGGTAAAATGACCGAAA
* *
48878602 TACCCTCAGAGGGTAA
66 TACCCTCATAGGGTAG
* * * *
48878618 AATGACTGAAATACCCCCATAGGGTAAAATGACCGAAAT-ACCCGCATAGGGTAAAATGATCGAA
1 AATGACTGAAATACCCCCATAGGGTAAAATGATCAAAATAACCC-CATAAGGTAAAATGACCGAA
* *
48878682 ATACCCACATAAGGTAG
65 ATACCCTCATAGGGTAG
** * * * **
48878699 AATGA-AAAAATACCCCTATAGGGTAAAATGATCGAAATACCCCCATTGGGTAAAATGAC
1 AATGACTGAAATACCCCCATAGGGTAAAATGATCAAAATAACCCCATAAGGTAAAATGAC
48878758 TGTTATACCC
Statistics
Matches: 195, Mismatches: 23, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
80 47 0.24
81 147 0.75
82 1 0.01
ACGTcount: A:0.44, C:0.21, G:0.17, T:0.18
Consensus pattern (81 bp):
AATGACTGAAATACCCCCATAGGGTAAAATGATCAAAATAACCCCATAAGGTAAAATGACCGAAA
TACCCTCATAGGGTAG
Found at i:48891181 original size:29 final size:30
Alignment explanation
Indices: 48891126--48891183 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
48891116 TATTTTATTG
*
48891126 TTAATTTTGTTATTATTTTAAAGGCATTTA
1 TTAATTTTGTTATTATTGTAAAGGCATTTA
*
48891156 TTAATTTTGTTA-TATTGTAGAGGCATTT
1 TTAATTTTGTTATTATTGTAAAGGCATTT
48891184 TGTTATTAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.28, C:0.03, G:0.14, T:0.55
Consensus pattern (30 bp):
TTAATTTTGTTATTATTGTAAAGGCATTTA
Found at i:48898596 original size:50 final size:50
Alignment explanation
Indices: 48898493--48898781 Score: 294
Period size: 50 Copynumber: 5.7 Consensus size: 50
48898483 AAAGAGATCT
*
48898493 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGGTCC
*
48898549 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
*
48898599 CATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
** * * * ** *
48898649 CCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAACTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
* * ** * * * **
48898699 CATGTGAGACCATATCTGGGGTATGGCATTGGCA--GTACAAGAAACATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAGGTCC
* * *
48898748 CATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
48898782 TGTTATATTC
Statistics
Matches: 198, Mismatches: 34, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
49 34 0.17
50 127 0.64
53 3 0.02
55 1 0.01
56 33 0.17
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.24
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
Found at i:48898725 original size:150 final size:153
Alignment explanation
Indices: 48898496--48898781 Score: 339
Period size: 149 Copynumber: 1.9 Consensus size: 153
48898486 GAGATCTCAT
* * **
48898496 GTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCCATGTAAGACCA
1 GTAAGACCATGTCTGGGACATGGCATGGGCATCACT--GATTATGAGAACTCCCATGTAAGACCA
* * * * * ** *
48898561 TGTCTGGGACATGGCGTTGGCACCG-AGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGG
64 TATCTGGGACATGGCATTGGCA--GTACAAGAAACATCCCATGTAAGACCATGTCTGGGACATAG
48898625 CATTGGCACTGAGATGAGAGGTCCCCC
127 CATTGGCACTGAGATGAGAGGTCCCCC
* *
48898652 GTAAGACCATGTCTGGGACATGGCATGGGCA-C-CT-A-TATGAGAACTCTCATGTGAGACCATA
1 GTAAGACCATGTCTGGGACATGGCATGGGCATCACTGATTATGAGAACTCCCATGTAAGACCATA
** * *
48898713 TCTGGGGTATGGCATTGGCAGTACAAGAAACATCCCATGTAAGACTATGTCTGGGACATAGCTTT
66 TCTGGGACATGGCATTGGCAGTACAAGAAACATCCCATGTAAGACCATGTCTGGGACATAGCATT
48898778 GGCA
131 GGCA
48898782 TGTTATATTC
Statistics
Matches: 111, Mismatches: 18, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
148 1 0.01
149 39 0.35
150 38 0.34
151 1 0.01
154 1 0.01
155 1 0.01
156 30 0.27
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (153 bp):
GTAAGACCATGTCTGGGACATGGCATGGGCATCACTGATTATGAGAACTCCCATGTAAGACCATA
TCTGGGACATGGCATTGGCAGTACAAGAAACATCCCATGTAAGACCATGTCTGGGACATAGCATT
GGCACTGAGATGAGAGGTCCCCC
Found at i:48908322 original size:15 final size:16
Alignment explanation
Indices: 48908298--48908330 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
48908288 AGTTTTTCCA
48908298 TCTTTCTCTT-ATTTT
1 TCTTTCTCTTGATTTT
*
48908313 TCTTTTTCTTGATTTT
1 TCTTTCTCTTGATTTT
48908329 TC
1 TC
48908331 CCTAATCCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.06, C:0.18, G:0.03, T:0.73
Consensus pattern (16 bp):
TCTTTCTCTTGATTTT
Found at i:48915571 original size:40 final size:40
Alignment explanation
Indices: 48915427--48915689 Score: 351
Period size: 40 Copynumber: 6.7 Consensus size: 40
48915417 TTGAATGCTG
* *
48915427 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* *
48915466 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
48915505 TTCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
48915544 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
48915584 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
48915624 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
48915665 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
48915690 AACGAGGAGC
Statistics
Matches: 204, Mismatches: 12, Indels: 15
0.88 0.05 0.06
Matches are distributed among these distances:
38 23 0.11
39 39 0.19
40 134 0.66
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:48915707 original size:120 final size:117
Alignment explanation
Indices: 48915427--48915722 Score: 327
Period size: 120 Copynumber: 2.5 Consensus size: 117
48915417 TTGAATGCTG
* *
48915427 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-GAGTGACTAA-ATCCGG-TTAA-ATCCCGAAGGC
* *
48915487 ATTTGTGCGAGATACTAATTCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
61 ATTTGTGCGAGATACTAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
* ** * *
48915544 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* *
48915609 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
65 GTGCGAGATACT-AATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACTA-AA
* * *
48915665 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
48915723 TACGTGATTT
Statistics
Matches: 152, Mismatches: 17, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
117 23 0.15
118 37 0.24
119 31 0.20
120 59 0.39
121 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (117 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
Found at i:48923512 original size:39 final size:40
Alignment explanation
Indices: 48923417--48923576 Score: 195
Period size: 39 Copynumber: 4.0 Consensus size: 40
48923407 TTGAATGCTG
* * *
48923417 TCCGGGCTAAGTCCCGAAGGC--TCGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
48923456 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
48923496 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
48923535 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
48923575 TC
1 TC
48923577 TTTGTGCGAG
Statistics
Matches: 105, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
39 53 0.50
40 45 0.43
41 7 0.07
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:48923582 original size:20 final size:20
Alignment explanation
Indices: 48923557--48923596 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
48923547 CCCGAAGGCA
48923557 TTTGTGCGAGTTACTAAATC
1 TTTGTGCGAGTTACTAAATC
48923577 TTTGTGCGAGTTACTAAATC
1 TTTGTGCGAGTTACTAAATC
48923597 CGGGTTAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (20 bp):
TTTGTGCGAGTTACTAAATC
Found at i:48923610 original size:60 final size:60
Alignment explanation
Indices: 48923517--48923637 Score: 242
Period size: 60 Copynumber: 2.0 Consensus size: 60
48923507 CCCGAAGGCA
48923517 TTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
1 TTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
48923577 TTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
1 TTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
48923637 T
1 T
48923638 GGGTTAAGTC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (60 bp):
TTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
Found at i:48923632 original size:40 final size:40
Alignment explanation
Indices: 48923577--48923740 Score: 267
Period size: 40 Copynumber: 4.1 Consensus size: 40
48923567 TTACTAAATC
48923577 TTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCA
1 TTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCA
*
48923617 TTTGTGCGAGTTACTAAATCTGGGTTAAGTCCCGAAGGCA
1 TTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCA
*
48923657 TTTGTACGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCA
1 TTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCA
* * *
48923697 TTTGTGCGAATTACTATAA-CCGGGCTATGTCCCGAAGGCA
1 TTTGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCA
48923737 TTTG
1 TTTG
48923741 AACGAGGAGC
Statistics
Matches: 116, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
40 114 0.98
41 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (40 bp):
TTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCA
Found at i:48923650 original size:100 final size:99
Alignment explanation
Indices: 48923478--48923676 Score: 344
Period size: 100 Copynumber: 2.0 Consensus size: 99
48923468 TCCGAAGGCA
*
48923478 TTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTT
1 TTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTT
*
48923543 AAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
66 AAGTCCCGAAGGCATTTGTACGAGTTACTAAATC
* * *
48923577 TTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCTGGGT
1 TTTGTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
48923642 TAAGTCCCGAAGGCATTTGTACGAGTTACTAAATC
65 TAAGTCCCGAAGGCATTTGTACGAGTTACTAAATC
48923677 CGGGTTAAGT
Statistics
Matches: 94, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
99 26 0.28
100 68 0.72
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (99 bp):
TTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTT
AAGTCCCGAAGGCATTTGTACGAGTTACTAAATC
Found at i:48923758 original size:80 final size:80
Alignment explanation
Indices: 48923583--48923773 Score: 253
Period size: 80 Copynumber: 2.4 Consensus size: 80
48923573 AATCTTTGTG
* * * *
48923583 CGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCTGGGTTAAGTC
1 CGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTAAATCCGGGCTAAGTC
*
48923648 CCGAAGGCATTTGTA
66 CCGAAGGCATTTGAA
* *
48923663 CGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA-CCGGGCTATGT
1 CGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTA-AATCCGGGCTAAGT
48923727 CCCGAAGGCATTTGAA
65 CCCGAAGGCATTTGAA
* * *
48923743 CGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
48923774 TACGTGATTT
Statistics
Matches: 100, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
79 15 0.15
80 83 0.83
81 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (80 bp):
CGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTAAATCCGGGCTAAGTC
CCGAAGGCATTTGAA
Found at i:48947370 original size:17 final size:18
Alignment explanation
Indices: 48947342--48947386 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 18
48947332 GATGTGATGA
48947342 ATGTGA-AAGTG-TATAT
1 ATGTGATAAGTGATATAT
48947358 ATGTGATAAGTGTATATAT
1 ATGTGATAAGTG-ATATAT
48947377 ATGTGATAAG
1 ATGTGATAAG
48947387 GCCTAATGGC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.23
17 5 0.19
19 15 0.58
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (18 bp):
ATGTGATAAGTGATATAT
Found at i:48947406 original size:66 final size:66
Alignment explanation
Indices: 48947306--48947433 Score: 256
Period size: 66 Copynumber: 1.9 Consensus size: 66
48947296 CAAGACAGTG
48947306 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGTGT
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGTGT
48947371 A
66 A
48947372 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
48947434 GCCTAATAGC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.34, C:0.06, G:0.27, T:0.33
Consensus pattern (66 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGTGT
A
Found at i:48947430 original size:47 final size:47
Alignment explanation
Indices: 48947358--48947621 Score: 393
Period size: 47 Copynumber: 5.6 Consensus size: 47
48947348 AAGTGTATAT
48947358 ATGTGATAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGA-AAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
48947408 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
48947455 ATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCTGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
48947502 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
48947549 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
48947596 ATGTGAAAGTGCATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
48947622 TCCTGACGGG
Statistics
Matches: 197, Mismatches: 17, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
47 186 0.94
49 5 0.03
50 6 0.03
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:48947796 original size:37 final size:37
Alignment explanation
Indices: 48947740--48947818 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
48947730 CCGAGCTCTA
* *
48947740 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
48947777 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
48947814 AAGAC
1 AAGAC
48947819 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:48967393 original size:15 final size:15
Alignment explanation
Indices: 48967373--48967403 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
48967363 ACTTTTCGAA
48967373 ACTGGCTTGTTGTTT
1 ACTGGCTTGTTGTTT
48967388 ACTGGCTTGTTGTTT
1 ACTGGCTTGTTGTTT
48967403 A
1 A
48967404 TCTTCCCACG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.10, C:0.13, G:0.26, T:0.52
Consensus pattern (15 bp):
ACTGGCTTGTTGTTT
Found at i:48969893 original size:30 final size:30
Alignment explanation
Indices: 48969857--48969913 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
48969847 CTCAATAAAG
* *
48969857 CCTAAGTTACTGGATCATTCCCAACATTAT
1 CCTAAGTTACTAGAACATTCCCAACATTAT
48969887 CCTAAGTTACTAGAACATTCCCAACAT
1 CCTAAGTTACTAGAACATTCCCAACAT
48969914 GGTTATCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.28, G:0.09, T:0.30
Consensus pattern (30 bp):
CCTAAGTTACTAGAACATTCCCAACATTAT
Found at i:48982875 original size:26 final size:27
Alignment explanation
Indices: 48982816--48982876 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 27
48982806 ATTATGTAAT
*
48982816 TTTCT-TTTTATTTTATTTTTATTTAA
1 TTTCTATTTTATTTTATTTCTATTTAA
*
48982842 GTTC-ATTTTATTATT-TTTCTATTT-A
1 TTTCTATTTTATT-TTATTTCTATTTAA
48982867 TTTCTATTTT
1 TTTCTATTTT
48982877 TGTAGAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
25 4 0.14
26 23 0.79
27 2 0.07
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.74
Consensus pattern (27 bp):
TTTCTATTTTATTTTATTTCTATTTAA
Found at i:48986180 original size:12 final size:12
Alignment explanation
Indices: 48986163--48986192 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
48986153 CTGTGTGTCT
48986163 CACACGGCCTAC
1 CACACGGCCTAC
*
48986175 CACACGGCCTAG
1 CACACGGCCTAC
48986187 CACACG
1 CACACG
48986193 ATCGTGTGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.47, G:0.20, T:0.07
Consensus pattern (12 bp):
CACACGGCCTAC
Found at i:48990611 original size:40 final size:40
Alignment explanation
Indices: 48990563--48990829 Score: 471
Period size: 40 Copynumber: 6.7 Consensus size: 40
48990553 GCAAACACAT
* * *
48990563 TTGCCTTCGGGTCTTAACCCAGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
48990603 TTGCCTTCGGGTCTTAGCCCGGATATATCATCCCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
48990643 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
48990683 TTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
48990723 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
48990763 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
48990803 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
48990830 ATCCAATGTT
Statistics
Matches: 216, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 216 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:48999372 original size:11 final size:11
Alignment explanation
Indices: 48999334--48999365 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
48999324 GTTAAATTAT
48999334 CAAGATCAAAG
1 CAAGATCAAAG
48999345 CAAGATCAAAG
1 CAAGATCAAAG
48999356 CAAGATCAAA
1 CAAGATCAAA
48999366 ACTAGATGCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.56, C:0.19, G:0.16, T:0.09
Consensus pattern (11 bp):
CAAGATCAAAG
Found at i:49002600 original size:32 final size:32
Alignment explanation
Indices: 49002529--49002603 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
49002519 ATAAATTTTG
* * ** *
49002529 GGCCTACACGGCCTAAATTGCCTTGCCTGTGT
1 GGCCTACATGGCCCAAATTGCCTTGCCCATAT
*
49002561 GGCCTACATGGCCCAAATTGTCTTGCCCATAT
1 GGCCTACATGGCCCAAATTGCCTTGCCCATAT
*
49002593 GGTCTACATGG
1 GGCCTACATGG
49002604 TCTGGCACAC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.19, C:0.29, G:0.24, T:0.28
Consensus pattern (32 bp):
GGCCTACATGGCCCAAATTGCCTTGCCCATAT
Found at i:49013716 original size:25 final size:25
Alignment explanation
Indices: 49013688--49013741 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
49013678 TGTAGTGGCA
* *
49013688 AGGTGGCGACACAGGTGTGGCAAGG
1 AGGTGGCGACACAAGTGTGGAAAGG
* *
49013713 AGGTGGTGTCACAAGTGTGGAAAGG
1 AGGTGGCGACACAAGTGTGGAAAGG
49013738 AGGT
1 AGGT
49013742 CAGAGGTTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.26, C:0.11, G:0.46, T:0.17
Consensus pattern (25 bp):
AGGTGGCGACACAAGTGTGGAAAGG
Found at i:49015302 original size:26 final size:27
Alignment explanation
Indices: 49015273--49015325 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
49015263 GTGATCGTAA
*
49015273 TTCCCCTAAAGGTTAAATGACT-ATTT
1 TTCCCCTAAAGGGTAAATGACTGATTT
**
49015299 TTCCCCTCGAGGGTAAATGACTGATTT
1 TTCCCCTAAAGGGTAAATGACTGATTT
49015326 GTGCTATGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (27 bp):
TTCCCCTAAAGGGTAAATGACTGATTT
Found at i:49019111 original size:64 final size:64
Alignment explanation
Indices: 49019030--49019150 Score: 188
Period size: 64 Copynumber: 1.9 Consensus size: 64
49019020 TTCAGTAATG
* * * *
49019030 TGATTGGCACAAAGCCATTAGTAGCAGTGATATGATCTGTACACAGCCATCAATAACGGTAACA
1 TGATTGGCACAAAGCCATCAGTAGCAGTGATATAATCAGCACACAGCCATCAATAACGGTAACA
* *
49019094 TGATTGGCACAAAGCCATCAGTAGCAGTGATATAATCAGCACATAGCCATCAGTAAC
1 TGATTGGCACAAAGCCATCAGTAGCAGTGATATAATCAGCACACAGCCATCAATAAC
49019151 AGTCATATGA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 51 1.00
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.22
Consensus pattern (64 bp):
TGATTGGCACAAAGCCATCAGTAGCAGTGATATAATCAGCACACAGCCATCAATAACGGTAACA
Found at i:49019161 original size:64 final size:64
Alignment explanation
Indices: 49019030--49019185 Score: 186
Period size: 64 Copynumber: 2.4 Consensus size: 64
49019020 TTCAGTAATG
* * * * *
49019030 TGATTGGCACAAAGCCATTAGTAGCAGTGATATGATCTGTACACAGCCATCAATAACGGTAACA
1 TGATTGGCACAAAGCCATCAGTAGCAGTGATATAATCAGCACACAGCCATCAATAACAGTAACA
* * * *
49019094 TGATTGGCACAAAGCCATCAGTAGCAGTGATATAATCAGCACATAGCCATCAGTAACAGTCATA
1 TGATTGGCACAAAGCCATCAGTAGCAGTGATATAATCAGCACACAGCCATCAATAACAGTAACA
*** * *
49019158 TGATCAACATAAAGCCATCAGTAACAGT
1 TGATTGGCACAAAGCCATCAGTAGCAGT
49019186 ACTATGATTG
Statistics
Matches: 78, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
64 78 1.00
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (64 bp):
TGATTGGCACAAAGCCATCAGTAGCAGTGATATAATCAGCACACAGCCATCAATAACAGTAACA
Found at i:49019210 original size:32 final size:33
Alignment explanation
Indices: 49019030--49019212 Score: 148
Period size: 32 Copynumber: 5.7 Consensus size: 33
49019020 TTCAGTAATG
* * *
49019030 TGATTGGCACAAAGCCATTAGTAGCAGTGA-TA
1 TGATTGACACAAAGCCATCAGTAACAGTGACTA
* * *
49019062 TGATCTGTACAC--AGCCATCAATAACGGTAAC-A
1 TGAT-TG-ACACAAAGCCATCAGTAACAGTGACTA
* *
49019094 TGATTGGCACAAAGCCATCAGTAGCAGTGA-TA
1 TGATTGACACAAAGCCATCAGTAACAGTGACTA
* * * *
49019126 T-AATCAGCACATAGCCATCAGTAACAGTCA-TA
1 TGATTGA-CACAAAGCCATCAGTAACAGTGACTA
** *
49019158 TGATCAACATAAAGCCATCAGTAACAGT-ACTA
1 TGATTGACACAAAGCCATCAGTAACAGTGACTA
49019190 TGATTGACACAAAGCCATCAGTA
1 TGATTGACACAAAGCCATCAGTA
49019213 GCATCGCAGC
Statistics
Matches: 117, Mismatches: 25, Indels: 18
0.73 0.16 0.11
Matches are distributed among these distances:
30 3 0.03
31 5 0.04
32 102 0.87
33 4 0.03
34 3 0.03
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.22
Consensus pattern (33 bp):
TGATTGACACAAAGCCATCAGTAACAGTGACTA
Found at i:49019259 original size:27 final size:26
Alignment explanation
Indices: 49019224--49019289 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 26
49019214 CATCGCAGCA
*
49019224 AAGCTACCAGTAACAGT-ATATGTGGCC
1 AAGCCACCAGTAACAGTGAT-TGTGG-C
49019251 AAGCCACCAGTAACAGTGATTGTGGC
1 AAGCCACCAGTAACAGTGATTGTGGC
49019277 AGAGCCACCAGTA
1 A-AGCCACCAGTA
49019290 CAATACTTCC
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
26 2 0.06
27 32 0.89
28 2 0.06
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.18
Consensus pattern (26 bp):
AAGCCACCAGTAACAGTGATTGTGGC
Found at i:49019445 original size:26 final size:26
Alignment explanation
Indices: 49019416--49019502 Score: 104
Period size: 27 Copynumber: 3.3 Consensus size: 26
49019406 CAAAATAGTC
*
49019416 TTTTACCC-ACTAGGGCATTACGGTCA
1 TTTTACCCTA-TAGGGTATTACGGTCA
* *
49019442 TTTTACCCTATTGGGGTATTATGGTCA
1 TTTTACCCTA-TAGGGTATTACGGTCA
49019469 TTTTACCCTATAGGGGTATTACGGTCA
1 TTTTACCCTATA-GGGTATTACGGTCA
*
49019496 TTATACC
1 TTTTACC
49019503 TATTTTAGGG
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 9 0.17
27 43 0.83
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.38
Consensus pattern (26 bp):
TTTTACCCTATAGGGTATTACGGTCA
Found at i:49019467 original size:27 final size:27
Alignment explanation
Indices: 49019432--49019506 Score: 116
Period size: 27 Copynumber: 2.8 Consensus size: 27
49019422 CCACTAGGGC
49019432 ATTACGGTCATTTTACCCTATTGGGGT
1 ATTACGGTCATTTTACCCTATTGGGGT
* *
49019459 ATTATGGTCATTTTACCCTATAGGGGT
1 ATTACGGTCATTTTACCCTATTGGGGT
*
49019486 ATTACGGTCATTATA-CCTATT
1 ATTACGGTCATTTTACCCTATT
49019507 TTAGGGTTTC
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 5 0.12
27 38 0.88
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTATTGGGGT
Found at i:49021026 original size:14 final size:15
Alignment explanation
Indices: 49021007--49021048 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 15
49020997 TAGATCAACC
49021007 GACCAAAAGAAAA-T
1 GACCAAAAGAAAATT
49021021 GACCAAAA-AAAATT
1 GACCAAAAGAAAATT
49021035 GAACCAAAATGAAA
1 G-ACCAAAA-GAAA
49021049 GGAGAAAGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 4 0.17
14 10 0.42
15 7 0.29
17 3 0.12
ACGTcount: A:0.64, C:0.14, G:0.12, T:0.10
Consensus pattern (15 bp):
GACCAAAAGAAAATT
Found at i:49024008 original size:26 final size:26
Alignment explanation
Indices: 49023978--49024029 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
49023968 AATAAAAGAA
49023978 AACATTCAATATTTTAGTTTAATTAG
1 AACATTCAATATTTTAGTTTAATTAG
49024004 AACATTCAATATTTTAGTTTAATTAG
1 AACATTCAATATTTTAGTTTAATTAG
49024030 CATTGATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (26 bp):
AACATTCAATATTTTAGTTTAATTAG
Found at i:49024933 original size:16 final size:16
Alignment explanation
Indices: 49024908--49024942 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
49024898 TTTCATTCTC
*
49024908 AATCTTAAAAAAAAAG
1 AATCTAAAAAAAAAAG
*
49024924 AATCTAAAAAAAGAAG
1 AATCTAAAAAAAAAAG
49024940 AAT
1 AAT
49024943 AAGGAAATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.69, C:0.06, G:0.09, T:0.17
Consensus pattern (16 bp):
AATCTAAAAAAAAAAG
Found at i:49026097 original size:26 final size:26
Alignment explanation
Indices: 49026068--49026119 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
49026058 AATAAAAGAA
49026068 AACATTCAATATATCAATTTAATTAG
1 AACATTCAATATATCAATTTAATTAG
*
49026094 AACATTCAATATTTCAATTTAATTAG
1 AACATTCAATATATCAATTTAATTAG
49026120 CATTAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.40
Consensus pattern (26 bp):
AACATTCAATATATCAATTTAATTAG
Found at i:49026128 original size:21 final size:24
Alignment explanation
Indices: 49026069--49026133 Score: 73
Period size: 26 Copynumber: 2.7 Consensus size: 24
49026059 ATAAAAGAAA
*
49026069 ACATTCAATATATCAATTTAATTAG
1 ACATT-AATATTTCAATTTAATTAG
49026094 AACATTCAATATTTCAATTTAATTAG
1 -ACATT-AATATTTCAATTTAATTAG
49026120 -CATTAAT-TTT-AATT
1 ACATTAATATTTCAATT
49026134 ACTACAAATC
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
21 4 0.11
22 3 0.08
23 3 0.08
24 4 0.11
26 24 0.63
ACGTcount: A:0.42, C:0.11, G:0.03, T:0.45
Consensus pattern (24 bp):
ACATTAATATTTCAATTTAATTAG
Found at i:49027536 original size:26 final size:26
Alignment explanation
Indices: 49027502--49027553 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
49027492 AATGAAAGAA
49027502 AACATTCAATATTTCAGTTTAATTAG
1 AACATTCAATATTTCAGTTTAATTAG
49027528 AACATTCAATATTTCAGTTTAATTAG
1 AACATTCAATATTTCAGTTTAATTAG
49027554 CATTAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (26 bp):
AACATTCAATATTTCAGTTTAATTAG
Found at i:49028857 original size:24 final size:25
Alignment explanation
Indices: 49028830--49028876 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
49028820 TCTGACCCAG
* *
49028830 TTTTACTGGAATATG-AATGGAAGC
1 TTTTAATGGAATAAGTAATGGAAGC
*
49028854 TTTTAATGGGATAAGTAATGGAA
1 TTTTAATGGAATAAGTAATGGAA
49028877 CATGGAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.36, C:0.04, G:0.26, T:0.34
Consensus pattern (25 bp):
TTTTAATGGAATAAGTAATGGAAGC
Found at i:49029225 original size:627 final size:626
Alignment explanation
Indices: 49028032--49029289 Score: 2196
Period size: 627 Copynumber: 2.0 Consensus size: 626
49028022 AGACTTATCG
*
49028032 TATTTGTAAAATGGAAAATGGGAACTAAATGATTAAAATTCAAAATTAATACATCAAAAATATTT
1 TATTTGTAAAATGGAAAATAGGAACTAAATGATTAAAATTCAAAATTAATACATCAAAAATATTT
*
49028097 CCCGTTCTGAAATTAAGTCGATGTTTGTCTTTATCGTAAGGCTCCAATTCAGTTATTGTCTACTT
66 CCCGTTCTGAAATTAAGTCGATGTTTGTCTTTATCGTAAGGCTCCAATTCAGTTATTGTATACTT
* *
49028162 CGTTCGATGTTAACTTTTTAGGTGTGAGCGTTCCAACCCAATTTTACTGGAATATGAAGGGAAGC
131 CGTTCGACGTTAACTATTTAGGTGTGAGCGTTCCAACCCAATTTTACTGGAATATGAAGGGAAGC
*
49028227 TTTTAGTGGGATAAGTAATGGAACATGGAAAATTAAAAATTCTCTTAGAGAGTTAAATTGGAAAC
196 TTTTAATGGGATAAGTAATGGAACATGGAAAATTAAAAATTCTCTTAGAGAGTTAAATTGGAAAC
49028292 AACAAATGATGTTACATTTCTATAGCTCTCGTAGGTATTGCCCAAATAATGGATAGGATTTTGTT
261 AACAAATGATGTTACATTTCTATAGCTCTCGTAGGTATTGCCCAAATAATGGATAGGATTTTGTT
* * * *
49028357 TTTATATAAATTGAACCTTTGTTAATAGGGAGAATTTGGGATGTACATCATCGACATATTTGGAG
326 TCTATATAAATTGAACCTTTGTTAATAGGGAGAATGTGGGACGTACATCACCGACATATTTGGAG
49028422 TTTCGTTCTCGATCTTGATAAAAAAAGTAATCTAAAGAAAGAAGAATAAGGAAATCAAGTTAAGA
391 TTTCGTTCTCGATCTTGATAAAAAAAGTAATCTAAAGAAAGAAGAATAAGGAAATCAAGTTAAGA
*
49028487 CTTTGAAACGTTACATCACTTTCGACGAGGATTTCACGATTGCTTCTCCTTTACAGAAAAGAAAG
456 CTTTGAAACGTTACATCACTTTCGACGAGGATTTCAAGATTGCTTCTCCTTTACAGAAAAGAAAG
*
49028552 AGGTCATAACTTTTAGATAAGTATCGAAGGAGTGAAAATGGAAAATGAAACAAAGGAGTCCATAG
521 AGATCATAACTTTTAGATAAGTATCGAAGGAGTGAAAATGGAAAATGAAACAAAGGAGTCCATAG
49028617 GCAAGGAACTATTAAAAATTATAGTGCATGTCCCTTAGAGGA
586 GCAAGGAACTATTAAAAATTATAGTGCATGT-CCTTAGAGGA
* * *
49028659 TATTTGTAAAATGGAAAATAGGAACTGAATGATTGAAATTCAAAATTAATACATCAAAAGTATTT
1 TATTTGTAAAATGGAAAATAGGAACTAAATGATTAAAATTCAAAATTAATACATCAAAAATATTT
* * **
49028724 CCTGTTCTGAAATTAAGTCGATGTTTGTCTTTATCGT-GGGACTCCAATTTGGTTATTGTATACT
66 CCCGTTCTGAAATTAAGTCGATGTTTGTCTTTATCGTAAGG-CTCCAATTCAGTTATTGTATACT
* * ** * *
49028788 TTGTTCTACGTTAACTATTTAGGTGTGAGCGTTCTGACCCAGTTTTACTGGAATATGAATGGAAG
130 TCGTTCGACGTTAACTATTTAGGTGTGAGCGTTCCAACCCAATTTTACTGGAATATGAAGGGAAG
*
49028853 CTTTTAATGGGATAAGTAATGGAACATGGAAAATTAAAAATTCTCTTAGAGAGTTAAATTGGAAG
195 CTTTTAATGGGATAAGTAATGGAACATGGAAAATTAAAAATTCTCTTAGAGAGTTAAATTGGAAA
*
49028918 CAACAAATGATGTTACATTTCTATAGCTCTCGTAGGTATTGCCCGAATAATGGATAGGATTTTGT
260 CAACAAATGATGTTACATTTCTATAGCTCTCGTAGGTATTGCCCAAATAATGGATAGGATTTTGT
* **
49028983 TTCTATATAAATTGAACCTTTTTTAATAGGGAGAATGTGGGACGTATGTCACCGACATATTTGGA
325 TTCTATATAAATTGAACCTTTGTTAATAGGGAGAATGTGGGACGTACATCACCGACATATTTGGA
*
49029048 GTTTTGTTCTCGATCTTGATAAAAAAAGTAATCTAAAGAAAGAAGAATAAGGAAATCAAGTTAAG
390 GTTTCGTTCTCGATCTTGATAAAAAAAGTAATCTAAAGAAAGAAGAATAAGGAAATCAAGTTAAG
49029113 ACTTTGAAACGTTACATCACTTTCGACGAGGATTTCAAGATTGCTTCT-CTTCTACAGAAAAGAA
455 ACTTTGAAACGTTACATCACTTTCGACGAGGATTTCAAGATTGCTTCTCCTT-TACAGAAAAGAA
49029177 AGAGATCATAACTTTTAGATAAGTATCGAAGGAGTGAAAATGGAAAATGAAACAAAGGAGTCCAT
519 AGAGATCATAACTTTTAGATAAGTATCGAAGGAGTGAAAATGGAAAATGAAACAAAGGAGTCCAT
*
49029242 AGGCAAGGAACTATTAAAAATTATAGTGCATGTCCTTGGAGGA
584 AGGCAAGGAACTATTAAAAATTATAGTGCATGTCCTTAGAGGA
49029285 TATTT
1 TATTT
49029290 CCTGGCACGA
Statistics
Matches: 598, Mismatches: 31, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
626 19 0.03
627 579 0.97
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (626 bp):
TATTTGTAAAATGGAAAATAGGAACTAAATGATTAAAATTCAAAATTAATACATCAAAAATATTT
CCCGTTCTGAAATTAAGTCGATGTTTGTCTTTATCGTAAGGCTCCAATTCAGTTATTGTATACTT
CGTTCGACGTTAACTATTTAGGTGTGAGCGTTCCAACCCAATTTTACTGGAATATGAAGGGAAGC
TTTTAATGGGATAAGTAATGGAACATGGAAAATTAAAAATTCTCTTAGAGAGTTAAATTGGAAAC
AACAAATGATGTTACATTTCTATAGCTCTCGTAGGTATTGCCCAAATAATGGATAGGATTTTGTT
TCTATATAAATTGAACCTTTGTTAATAGGGAGAATGTGGGACGTACATCACCGACATATTTGGAG
TTTCGTTCTCGATCTTGATAAAAAAAGTAATCTAAAGAAAGAAGAATAAGGAAATCAAGTTAAGA
CTTTGAAACGTTACATCACTTTCGACGAGGATTTCAAGATTGCTTCTCCTTTACAGAAAAGAAAG
AGATCATAACTTTTAGATAAGTATCGAAGGAGTGAAAATGGAAAATGAAACAAAGGAGTCCATAG
GCAAGGAACTATTAAAAATTATAGTGCATGTCCTTAGAGGA
Found at i:49030279 original size:26 final size:26
Alignment explanation
Indices: 49030250--49030301 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
49030240 TATAAAAGAA
49030250 AACATTCAATATTTCAGTTTAATTAG
1 AACATTCAATATTTCAGTTTAATTAG
49030276 AACATTCAATATTTCAGTTTAATTAG
1 AACATTCAATATTTCAGTTTAATTAG
49030302 CATTAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (26 bp):
AACATTCAATATTTCAGTTTAATTAG
Found at i:49033468 original size:37 final size:37
Alignment explanation
Indices: 49033418--49033496 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
49033408 TTATTACGAA
* * *
49033418 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
49033455 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
49033492 GTCTT
1 GTCTT
49033497 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:49033693 original size:47 final size:47
Alignment explanation
Indices: 49033614--49034227 Score: 1016
Period size: 47 Copynumber: 12.9 Consensus size: 47
49033604 CCCTTCGGGA
* * * * *
49033614 CTTATCACATTTATACACTTTCACA-TCTATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTC-ATCACATCGGCCATTAGGC
* * *
49033661 CCTGTCACATATATACACATTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49033708 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49033755 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49033804 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49033851 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49033898 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-C
*
49033946 CGTTCA-CATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 C-TT-ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49033994 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49034041 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49034088 CTTAGCACATATATACACATTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49034135 CCTATCACCTATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCA-C-ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49034184 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
49034228 CGCCATACTA
Statistics
Matches: 535, Mismatches: 23, Indels: 18
0.93 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 394 0.74
48 8 0.01
49 131 0.24
50 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49033883 original size:143 final size:141
Alignment explanation
Indices: 49033614--49034227 Score: 1034
Period size: 143 Copynumber: 4.3 Consensus size: 141
49033604 CCCTTCGGGA
* * * * * *
49033614 CTTATCACATTTATACACTTTCACA-TCTATCACGTTGGCCACTCGGCCCTGTCACATATATACA
1 CTTATCACATATATACACTTTCACATTC-ATCACATCGGCCATTAGGCCCTATCACATATATACA
49033678 CATTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
65 CATTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
49033743 CGGCCATTAGGC
130 CGGCCATTAGGC
49033755 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
*
49033820 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACATTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
49033885 TCGGCCATTAGGC
129 TCGGCCATTAGGC
*
49033898 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCCGT-TCACATATATATA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC-TATCAC--ATATATA
*
49033962 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
63 CACATTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
49034027 ATCGGCCATTAGGC
128 ATCGGCCATTAGGC
* *
49034041 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAGCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACAC
*
49034106 ATTCACATTCATCACATCGGCCATTAGGCCCTATCACCTATATATACACTTTCACATTCATCACA
66 ATTCACATTCATCACATCGGCCATTAGGCCTTATCA-C-ATATATACACTTTCACATTCATCACA
49034171 TCGGCCATTAGGC
129 TCGGCCATTAGGC
49034184 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
49034228 CGCCATACTA
Statistics
Matches: 451, Mismatches: 13, Indels: 16
0.94 0.03 0.03
Matches are distributed among these distances:
141 96 0.21
142 3 0.01
143 350 0.78
144 2 0.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.31
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACAC
ATTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:49033940 original size:190 final size:190
Alignment explanation
Indices: 49033614--49034227 Score: 1070
Period size: 190 Copynumber: 3.2 Consensus size: 190
49033604 CCCTTCGGGA
* * * * * * *
49033614 CTTATCACATTTATACACTTTCACA-TCTATCACGTTGGCCACTCGGCCCTGTCACATATATACA
1 CTTATCACATATATACACTTTCACATTC-ATCACATCGGCCATTAGGCCTTATCACATATATACA
*
49033678 CATTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
65 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
*
49033743 CGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
130 CGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49033804 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
49033869 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATT
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
49033934 GGCCATTAGGCCCGT-TCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 GGCCATTAGGCCC-TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49033994 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
49034059 TTTCACATTCATCACATCGGCCATTAGGCCTTAGCACATATATACACATTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
49034124 GGCCATTAGGCCCTATCACCTATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 GGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49034184 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
49034228 CGCCATACTA
Statistics
Matches: 405, Mismatches: 16, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
189 1 0.00
190 401 0.99
191 3 0.01
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.31
Consensus pattern (190 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Done.