Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 136 of 173
Found at i:41232160 original size:33 final size:33
Alignment explanation
Indices: 41232104--41232201 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
41232094 ATAGATATGT
*
41232104 ATATATATATATGT-TGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
*
41232136 ATATATTTATGTGTATGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
* * *
41232169 AAATAAGTGTATGTATCTATGCATTCGGCATAG
1 ATAT-A-TATATG--TGTATGCATTCGGCATAG
41232202 ATGGGTATAG
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 21 0.38
34 1 0.02
35 5 0.09
37 17 0.30
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (33 bp):
ATATATATATGTGTATGCATTCGGCATAGGTGA
Found at i:41245959 original size:41 final size:41
Alignment explanation
Indices: 41245752--41245948 Score: 317
Period size: 41 Copynumber: 4.8 Consensus size: 41
41245742 TTTATCGTTA
* * * *
41245752 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
41245793 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
41245834 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
41245875 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
41245916 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
41245949 AAGAGCCGGT
Statistics
Matches: 148, Mismatches: 4, Indels: 8
0.93 0.03 0.05
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 143 0.97
42 2 0.01
43 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:41246218 original size:32 final size:31
Alignment explanation
Indices: 41246163--41246226 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 31
41246153 ATAGATATGT
41246163 ATATATATATATGTTGCATTCGGCATAGGTG
1 ATATATATATATGTTGCATTCGGCATAGGTG
* *
41246194 ATATATTTATGTGTATGCATTCGGCATAGGTG
1 ATATATATATATGT-TGCATTCGGCATAGGTG
41246226 A
1 A
41246227 AAATAAGTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 12 0.40
32 18 0.60
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.39
Consensus pattern (31 bp):
ATATATATATATGTTGCATTCGGCATAGGTG
Found at i:41253558 original size:81 final size:81
Alignment explanation
Indices: 41253424--41253617 Score: 338
Period size: 81 Copynumber: 2.4 Consensus size: 81
41253414 TTTATCGTTA
* *
41253424 GTGACATAATTCAGACT-TAAGTCTAGCAGGCTTAATGCCGGTGAACATTTCAGACTATAAGTCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGAACATTTCAGACTATAAGTCT
41253488 AGCAGGCTTAATGCCG
66 AGCAGGCTTAATGCCG
41253504 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATG-CGGTGACACATTTCAGACTATAAGTC
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGA-ACATTTCAGACTATAAGTC
41253568 TAGCAGGCTTAATGCCG
65 TAGCAGGCTTAATGCCG
*
41253585 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
41253618 AAGAGCCGGT
Statistics
Matches: 109, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
80 21 0.19
81 88 0.81
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (81 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGAACATTTCAGACTATAAGTCT
AGCAGGCTTAATGCCG
Found at i:41253628 original size:41 final size:41
Alignment explanation
Indices: 41253424--41253617 Score: 340
Period size: 40 Copynumber: 4.8 Consensus size: 41
41253414 TTTATCGTTA
* *
41253424 GTGACATAATTCAGACT-TAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
41253464 GTGA-ACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
41253504 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATG-CG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
41253544 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
41253585 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
41253618 AAGAGCCGGT
Statistics
Matches: 148, Mismatches: 3, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
39 10 0.07
40 71 0.48
41 67 0.45
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:41253886 original size:33 final size:32
Alignment explanation
Indices: 41253831--41253893 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 32
41253821 GATAGATATG
41253831 TATATATATATGTTGCATTCGGCATAGGTGGA
1 TATATATATATGTTGCATTCGGCATAGGTGGA
* *
41253863 TATATTTATGTGTATGCATTCGGCATAGGTG
1 TATATATATATGT-TGCATTCGGCATAGGTG
41253894 AAAATAAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 11 0.39
33 17 0.61
ACGTcount: A:0.25, C:0.10, G:0.25, T:0.40
Consensus pattern (32 bp):
TATATATATATGTTGCATTCGGCATAGGTGGA
Found at i:41253910 original size:33 final size:33
Alignment explanation
Indices: 41253837--41253910 Score: 87
Period size: 33 Copynumber: 2.3 Consensus size: 33
41253827 TATGTATATA
* * **
41253837 TATATGT-TGCATTCGGCATAGGTGGATATATT
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
41253869 TATGTGTATGCATTCGGCATAGGTGAAAATAAG
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
41253902 TGTATGTAT
1 TATATGTAT
41253911 CTATGCATTC
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
32 6 0.18
33 28 0.82
ACGTcount: A:0.28, C:0.08, G:0.26, T:0.38
Consensus pattern (33 bp):
TATATGTATGCATTCGGCATAGGTGAAAATAAG
Found at i:41257367 original size:20 final size:20
Alignment explanation
Indices: 41257324--41257366 Score: 77
Period size: 21 Copynumber: 2.1 Consensus size: 20
41257314 TTACATTTTT
41257324 AAATTTTATTAATCTAGAAA
1 AAATTTTATTAATCTAGAAA
41257344 AAATGTTTATTAATCTAGAAA
1 AAAT-TTTATTAATCTAGAAA
41257365 AA
1 AA
41257367 TCAAGATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (20 bp):
AAATTTTATTAATCTAGAAA
Found at i:41258708 original size:30 final size:30
Alignment explanation
Indices: 41258674--41258731 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
41258664 CTTATTTTAT
*
41258674 TGTTAATCTTGTTATTGTTTTAAAGGCAAA
1 TGTTAATCTTGTTATTATTTTAAAGGCAAA
*
41258704 TGTTAATTTTGTTATTATTTTAAAGGCA
1 TGTTAATCTTGTTATTATTTTAAAGGCA
41258732 TTTGCTTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.29, C:0.05, G:0.16, T:0.50
Consensus pattern (30 bp):
TGTTAATCTTGTTATTATTTTAAAGGCAAA
Found at i:41258873 original size:11 final size:11
Alignment explanation
Indices: 41258857--41258887 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
41258847 TATATACATT
41258857 TAAAAATTATA
1 TAAAAATTATA
*
41258868 TAAAAATAATA
1 TAAAAATTATA
41258879 TAAAAATTA
1 TAAAAATTA
41258888 ATACGGGCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:41269104 original size:36 final size:35
Alignment explanation
Indices: 41269038--41269113 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 35
41269028 CATTATCATA
*
41269038 ATAACTTTATAATATAATATAATATAATATATATT
1 ATAACTTTATAATATAATATAAAATAATATATATT
41269073 ATAAGCTTTATAA-ATAATATAAAA-ACTATATATATT
1 ATAA-CTTTATAATATAATATAAAATA--ATATATATT
41269109 ATAAC
1 ATAAC
41269114 ATAATGCCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
34 1 0.03
35 15 0.41
36 21 0.57
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (35 bp):
ATAACTTTATAATATAATATAAAATAATATATATT
Found at i:41275412 original size:3 final size:3
Alignment explanation
Indices: 41275401--41275430 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
41275391 CCTTAAAAAA
*
41275401 AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
41275431 GATGATGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:41277175 original size:44 final size:44
Alignment explanation
Indices: 41277112--41277210 Score: 112
Period size: 44 Copynumber: 2.2 Consensus size: 44
41277102 CAACTTCAAA
* * * *
41277112 GAGATAAGATCTAT-TACTTTAATC-CGCTCCACTACAACTTCTGG
1 GAGATAAGAT-TATCGACTTTAATCTAG-TCCACTACAACCTCAGG
* *
41277156 GAGATAGGATTATCGACTTTAATCTAGTCCACTGCAACCTCAGG
1 GAGATAAGATTATCGACTTTAATCTAGTCCACTACAACCTCAGG
41277200 GAGATAAGATT
1 GAGATAAGATT
41277211 TGCTTCTTTG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
43 3 0.07
44 42 0.91
45 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.29
Consensus pattern (44 bp):
GAGATAAGATTATCGACTTTAATCTAGTCCACTACAACCTCAGG
Found at i:41277518 original size:128 final size:128
Alignment explanation
Indices: 41277368--41277980 Score: 895
Period size: 128 Copynumber: 4.8 Consensus size: 128
41277358 CACTACAACT
* * * * *
41277368 TAGGGAGATAGGA-TTATCGGCTTCAATATGCTCCCTTACACTTGAAGATAAGATTCGCCGTCTT
1 TAGGGACATAGGACTTGT-GGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTT
* *
41277432 CGATCTGCTACGCTACTGCTTAGGGAGACAAGGTCTGTAATTTCCAACCTACTCCACTGCTGAC
65 CGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
* * * * *
41277496 TAGGGACATAGGACTTGTGGCTTAAATATTCTTCCTTACACTTGAAGATATGATTCGCCATCTTT
1 TAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
* * * * *
41277561 GATCTACTCCGCTATTGCTTAGGGAGACAAGATTTTTAATTTTCAACCTACTCCACTGCTGAC
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
* * *
41277624 CAGGGACATAGGACTTGTGGCTTAAATCTACTTCCTTACACTTGAAGATAAGATTCGTCGTCTTC
1 TAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
* * * * *
41277689 GATCTGCTCTGCTACTGCTTAGGGAGACAATATCTGTAATTTCTAACCTACTCCGCTACTGAC
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
* *
41277752 CAGGGACATAGGACTTGTGGCTTAAATCTTCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
1 TAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
* *
41277817 GATTTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAGTTTCCAACCTACTCCACTGCTGAC
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
* * **
41277880 TAGGGAGATAAGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTACCGTCTTC
1 TAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
* *
41277945 GATCTGCTCCGCTACTACTTAGGGAGACAGGATCTG
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTG
41277981 CTATACTCAC
Statistics
Matches: 434, Mismatches: 50, Indels: 2
0.89 0.10 0.00
Matches are distributed among these distances:
128 431 0.99
129 3 0.01
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (128 bp):
TAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
Found at i:41279238 original size:7 final size:7
Alignment explanation
Indices: 41279224--41279261 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
41279214 AGCCTCTCCA
41279224 TCATTTT
1 TCATTTT
*
41279231 TTATTTT
1 TCATTTT
41279238 TCATTTT
1 TCATTTT
41279245 CTC-TTTT
1 -TCATTTT
41279252 TCATTTT
1 TCATTTT
41279259 TCA
1 TCA
41279262 CACATTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
6 2 0.07
7 23 0.85
8 2 0.07
ACGTcount: A:0.13, C:0.16, G:0.00, T:0.71
Consensus pattern (7 bp):
TCATTTT
Found at i:41280149 original size:32 final size:32
Alignment explanation
Indices: 41280113--41280173 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
41280103 TTTTTTTCTC
41280113 TTTTTCATATTTTT-ATTTTGACTTTGATTGAT
1 TTTTTC-TATTTTTGATTTTGACTTTGATTGAT
* *
41280145 TTTTTCTTTTTTTGCTTTTGACTTTGATT
1 TTTTTCTATTTTTGATTTTGACTTTGATT
41280174 TTTTTTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 6 0.23
32 20 0.77
ACGTcount: A:0.13, C:0.08, G:0.10, T:0.69
Consensus pattern (32 bp):
TTTTTCTATTTTTGATTTTGACTTTGATTGAT
Found at i:41285128 original size:21 final size:21
Alignment explanation
Indices: 41285090--41285130 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
41285080 CAACAATTAT
**
41285090 AATAATAGTAACCTTAAAAAA
1 AATAATAGTAACAATAAAAAA
*
41285111 AATAATAGTAATAATAAAAA
1 AATAATAGTAACAATAAAAA
41285131 TAATGATGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (21 bp):
AATAATAGTAACAATAAAAAA
Found at i:41288070 original size:208 final size:208
Alignment explanation
Indices: 41287712--41288117 Score: 672
Period size: 208 Copynumber: 2.0 Consensus size: 208
41287702 CAATATTCAA
*
41287712 AAAAGAATAACTAATACTATACTAAAAATATAAAAAATATCATTATAATTCTAAAAATTAAATTA
1 AAAAGAATAACTAATACTATAATAAAAATATAAAAAATATCATTATAATTCTAAAAATTAAATTA
* * * *
41287777 AAAAAATGTGACCTTAGTCATATTTCTCAATACTAGGCATCCTAAATTGCACTATTCGCTTTTTC
66 AAAAAATGTGACCTTAGTCATATTTCTCAATACTAAGCATCCTAAATTGCACCATCCACTTTTTC
* *
41287842 ATAAGATCGAATTCATCAATGATAGACTCTATTGAAAATTCTCGAACTATCTCTTTTTCGATGTA
131 ATAAGATCAAATTCATCAATGATAGAATCTATTGAAAATTCTCGAACTATCTCTTTTTCGATGTA
41287907 TGTCAAGTAAGTG
196 TGTCAAGTAAGTG
*
41287920 AAAAGAATAACTAATACTATAAT-AAAATATCAAAAATATCATTATAATTCTAAAAATTAAATTA
1 AAAAGAATAACTAATACTATAATAAAAATATAAAAAATATCATTATAATTCTAAAAATTAAATTA
* *
41287984 AAAAATACT-TGACCTTAGTCCTATTTCTCAATACTAAGCATCCTAAATTGCACCCTCCACTTTT
66 AAAAA-A-TGTGACCTTAGTCATATTTCTCAATACTAAGCATCCTAAATTGCACCATCCACTTTT
* *
41288048 TCATAAGATCAAATTCATCAATGATAGAATCTGTTGAAAATTCTCGAGCTATCTCTTTTTCGATG
129 TCATAAGATCAAATTCATCAATGATAGAATCTATTGAAAATTCTCGAACTATCTCTTTTTCGATG
41288113 TATGT
194 TATGT
41288118 TACCAAGTAA
Statistics
Matches: 184, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
207 45 0.24
208 138 0.75
209 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.35
Consensus pattern (208 bp):
AAAAGAATAACTAATACTATAATAAAAATATAAAAAATATCATTATAATTCTAAAAATTAAATTA
AAAAAATGTGACCTTAGTCATATTTCTCAATACTAAGCATCCTAAATTGCACCATCCACTTTTTC
ATAAGATCAAATTCATCAATGATAGAATCTATTGAAAATTCTCGAACTATCTCTTTTTCGATGTA
TGTCAAGTAAGTG
Found at i:41292512 original size:44 final size:44
Alignment explanation
Indices: 41292405--41292576 Score: 166
Period size: 50 Copynumber: 3.6 Consensus size: 44
41292395 CTTATGTATG
* *
41292405 ATCACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAAGCTACCAATT
1 ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAA---AGC---T
**
41292455 ATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCT
1 ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCT
*
41292499 ATCACTTATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCT
1 ATCAC-T-T-A--T--CACTTGTCACTGATCAGATAAGTGTAGCTAAAGCT
41292550 A-CTACTTATCACTTGTCACTGATCAGA
1 ATC-ACTTATCACTTGTCACTGATCAGA
41292577 AGTACTCAAA
Statistics
Matches: 107, Mismatches: 7, Indels: 22
0.79 0.05 0.16
Matches are distributed among these distances:
44 24 0.22
45 1 0.01
46 2 0.02
47 2 0.02
48 1 0.01
49 1 0.01
50 39 0.36
51 37 0.35
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (44 bp):
ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCT
Found at i:41292519 original size:51 final size:49
Alignment explanation
Indices: 41292405--41292569 Score: 240
Period size: 51 Copynumber: 3.3 Consensus size: 49
41292395 CTTATGTATG
** * *
41292405 ATCACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAAGCTACCAATT
1 ATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTA-CACTT
41292455 ATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTATCACTT
1 ATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTA-CACTT
41292506 ATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACTACTT
1 ATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTAC-ACTT
*
41292557 ATCACTTGTCACT
1 ATCACTTGCCACT
41292570 GATCAGAAGT
Statistics
Matches: 106, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
50 36 0.34
51 70 0.66
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.32
Consensus pattern (49 bp):
ATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACACTT
Found at i:41300131 original size:15 final size:15
Alignment explanation
Indices: 41300111--41300144 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
41300101 CACCTAATAA
41300111 AAACTAAAGTATTAT
1 AAACTAAAGTATTAT
41300126 AAACTAAAGTATTAT
1 AAACTAAAGTATTAT
41300141 AAAC
1 AAAC
41300145 AAATAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.56, C:0.09, G:0.06, T:0.29
Consensus pattern (15 bp):
AAACTAAAGTATTAT
Found at i:41308057 original size:50 final size:50
Alignment explanation
Indices: 41308003--41308205 Score: 316
Period size: 50 Copynumber: 4.1 Consensus size: 50
41307993 ATATGAGAGT
* * * * * * *
41308003 TCTCATATCGGTGCCCATGTCATGTCCCATACATGGTCTTAAAGGGGACC
1 TCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACC
* *
41308053 TCTCATCCCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATAGGACC
1 TCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACC
41308103 TCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACC
1 TCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACC
*
41308153 TCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACTTGGGACC
1 TCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACC
41308203 TCT
1 TCT
41308206 TATAATCTCA
Statistics
Matches: 141, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 141 1.00
ACGTcount: A:0.20, C:0.33, G:0.21, T:0.26
Consensus pattern (50 bp):
TCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACC
Found at i:41317968 original size:10 final size:10
Alignment explanation
Indices: 41317953--41317977 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
41317943 GTTTGTTTGA
41317953 TATTTGTTTT
1 TATTTGTTTT
41317963 TATTTGTTTT
1 TATTTGTTTT
41317973 TATTT
1 TATTT
41317978 CATAATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.12, C:0.00, G:0.08, T:0.80
Consensus pattern (10 bp):
TATTTGTTTT
Found at i:41330944 original size:32 final size:31
Alignment explanation
Indices: 41330873--41330950 Score: 113
Period size: 32 Copynumber: 2.5 Consensus size: 31
41330863 AATATTGCAT
* * *
41330873 ATTAATTGAA-GGAGTTTATTTTTAAAAGAT
1 ATTAATTGAAGGGAGTTTATTTTAAAAAAAA
41330903 ATTAATTGAAGGGAGTTTATTTCTAAAAAAAA
1 ATTAATTGAAGGGAGTTTATTT-TAAAAAAAA
41330935 ATTAATTGAAGGGAGT
1 ATTAATTGAAGGGAGT
41330951 CTGTTCAACG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
30 10 0.23
31 11 0.26
32 22 0.51
ACGTcount: A:0.42, C:0.01, G:0.19, T:0.37
Consensus pattern (31 bp):
ATTAATTGAAGGGAGTTTATTTTAAAAAAAA
Found at i:41333199 original size:212 final size:211
Alignment explanation
Indices: 41332828--41333257 Score: 745
Period size: 212 Copynumber: 2.0 Consensus size: 211
41332818 CAATATTCAA
41332828 AAAAGAATAACTAATACTATACTAAAAATATAAAAAATATCATTATAATTCTAAAAATTAAATTA
1 AAAAGAATAACTAATACTATACTAAAAATATAAAAAATATCATTATAATTCTAAAAATTAAATTA
* * * *
41332893 AAAAAATGTGTCCTTAGTCCTATTTCTCAATACTAGGCATCCTAAATTGCACCATTCGCTTTTTC
66 AAAAAATGTGACCTTAGTCCAATTTCTCAATACTAAGCATCCTAAATTGCACCATCCGCTTTTTC
41332958 ATAAGATCGAATTCATCAATGACAGAATCTGTTGAAAATTCTCGAGCTATCTCTTTTTCGATGTA
131 ATAAGATCGAATTCATCAATGACAGAATCTGTTGAAAATTCTCGAGCTATCTCTTTTTCGATGTA
41333023 TGTCACCAAGTAAGTT
196 TGTCACCAAGTAAGTT
41333039 AAAAGAATAACTAATACTATACTAAAAATATAAAAAAATATCATTATAATTCTAAAAATTAAATT
1 AAAAGAATAACTAATACTATACTAAAAATAT-AAAAAATATCATTATAATTCTAAAAATTAAATT
*
41333104 AAAAAAACT-TGACCTTAGTCCAATTTCTCAATACTAAGCATCCTAAATTGCACCCTCCGCTTTT
65 AAAAAAA-TGTGACCTTAGTCCAATTTCTCAATACTAAGCATCCTAAATTGCACCATCCGCTTTT
* * *
41333168 TCATAAGATTGAATTCATCAATGATAGAATCTGTTGAAAATTCTCGAGCTATCTCTTTTTTGATG
129 TCATAAGATCGAATTCATCAATGACAGAATCTGTTGAAAATTCTCGAGCTATCTCTTTTTCGATG
*
41333233 TATGTTACCAAGTAAGTT
194 TATGTCACCAAGTAAGTT
*
41333251 GAAAGAA
1 AAAAGAA
41333258 AATCATCCTC
Statistics
Matches: 207, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
211 31 0.15
212 175 0.85
213 1 0.00
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.34
Consensus pattern (211 bp):
AAAAGAATAACTAATACTATACTAAAAATATAAAAAATATCATTATAATTCTAAAAATTAAATTA
AAAAAATGTGACCTTAGTCCAATTTCTCAATACTAAGCATCCTAAATTGCACCATCCGCTTTTTC
ATAAGATCGAATTCATCAATGACAGAATCTGTTGAAAATTCTCGAGCTATCTCTTTTTCGATGTA
TGTCACCAAGTAAGTT
Found at i:41340220 original size:19 final size:19
Alignment explanation
Indices: 41340197--41340242 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
41340187 AGATTCAATA
41340197 AAAAAAATCAAAATCAAAAT
1 AAAAAAA-CAAAATCAAAAT
41340217 AAAAAAACAAAATCAAAAT
1 AAAAAAACAAAATCAAAAT
41340236 AAAAAAA
1 AAAAAAA
41340243 AGAAAAAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.80, C:0.09, G:0.00, T:0.11
Consensus pattern (19 bp):
AAAAAAACAAAATCAAAAT
Found at i:41340268 original size:28 final size:28
Alignment explanation
Indices: 41340212--41340306 Score: 82
Period size: 28 Copynumber: 3.4 Consensus size: 28
41340202 AATCAAAATC
* * * *
41340212 AAAATAAAAAAACAAAATCAAAATAAAA
1 AAAAGAAAAAATCAAAGTCAAAAGAAAA
*
41340240 AAAAGAAAAAATCAAAGTCAAAAGCAAA
1 AAAAGAAAAAATCAAAGTCAAAAGAAAA
* ** *
41340268 AAGAGAAATCGATCAAAGTCAAAATAAAA
1 AAAAGAAA-AAATCAAAGTCAAAAGAAAA
* *
41340297 ATATGAAAAA
1 AAAAGAAAAA
41340307 GAGAAAAAAG
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
28 30 0.59
29 21 0.41
ACGTcount: A:0.72, C:0.08, G:0.08, T:0.12
Consensus pattern (28 bp):
AAAAGAAAAAATCAAAGTCAAAAGAAAA
Found at i:41342026 original size:43 final size:43
Alignment explanation
Indices: 41341977--41342113 Score: 111
Period size: 43 Copynumber: 3.2 Consensus size: 43
41341967 GATAACAAAT
41341977 CTTGCCTTCCTGCGTTAACAGCGAAGCAGACCGAAAACAAAGC
1 CTTGCCTTCCTGCGTTAACAGCGAAGCAGACCGAAAACAAAGC
* * * * *** * *
41342020 CTTGCC-TCCAT-CGGTT-GCAGTGGAGCTG-GTTAAAGATAACAGAT
1 CTTGCCTTCC-TGC-GTTAACAGCGAAGCAGACCGAAA-ACAA-AG-C
*
41342064 CTTGCCTTCCCGCGTTAACAGCGAAGCAGACCGAAAACAAAGC
1 CTTGCCTTCCTGCGTTAACAGCGAAGCAGACCGAAAACAAAGC
41342107 CTTGCCT
1 CTTGCCT
41342114 CCATCTGTTG
Statistics
Matches: 66, Mismatches: 19, Indels: 18
0.64 0.18 0.17
Matches are distributed among these distances:
41 3 0.05
42 15 0.23
43 19 0.29
44 11 0.17
45 15 0.23
46 3 0.05
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.20
Consensus pattern (43 bp):
CTTGCCTTCCTGCGTTAACAGCGAAGCAGACCGAAAACAAAGC
Found at i:41342067 original size:87 final size:87
Alignment explanation
Indices: 41341921--41342422 Score: 842
Period size: 87 Copynumber: 5.8 Consensus size: 87
41341911 TAGTGAAAAT
* *
41341921 CGAAAACAAAGACTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAAATCTTGCCTTC
1 CGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTC
41341986 CTGCGTTAACAGCGAAGCAGAC
66 CTGCGTTAACAGCGAAGCAGAC
41342008 CGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTC
1 CGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTC
*
41342073 CCGCGTTAACAGCGAAGCAGAC
66 CTGCGTTAACAGCGAAGCAGAC
* * * *
41342095 CGAAAACAAAGCCTTGCCTCCATCTGTTGCAGTGGAGCTGGTTAAAGATAACAGATATTTCTTTC
1 CGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTC
*
41342160 CTGCGTTAACAGCGAAGCAAAC
66 CTGCGTTAACAGCGAAGCAGAC
*
41342182 CGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTC
1 CGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTC
* *
41342247 CTGCGTTAACAACGAAGCAAAC
66 CTGCGTTAACAGCGAAGCAGAC
* *
41342269 CGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAACAAATCTTGCCTTC
1 CGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTC
* * *
41342334 CTGCGTTAACAACGAAACAGAT
66 CTGCGTTAACAGCGAAGCAGAC
* *
41342356 CGAAAACAAAGCCTTGCCTTCATCGGTTGTAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTC
1 CGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTC
41342421 CT
66 CT
41342423 AAGCACTAGC
Statistics
Matches: 394, Mismatches: 21, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 394 1.00
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (87 bp):
CGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTC
CTGCGTTAACAGCGAAGCAGAC
Found at i:41342818 original size:44 final size:44
Alignment explanation
Indices: 41342748--41342831 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 44
41342738 AGTAGAACGC
* *
41342748 AGCAGATTGAAGCCAGAAATCTTATCTCCTTGAAATTACAGCGG
1 AGCAGATTGAAGCCAGAAATCCTATCTCCCTGAAATTACAGCGG
* * *
41342792 AGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
1 AGCAGATTGAAGCCAGAAATCCTATCTCCCTGAAATTACA
41342832 CTAGAGTGGA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.26
Consensus pattern (44 bp):
AGCAGATTGAAGCCAGAAATCCTATCTCCCTGAAATTACAGCGG
Found at i:41342884 original size:142 final size:142
Alignment explanation
Indices: 41342713--41343178 Score: 716
Period size: 142 Copynumber: 3.3 Consensus size: 142
41342703 AGAAAATAAG
* * * * *
41342713 TCTTATCCCCCTAAAGTTACAGTGGAGTAGAACGCAGCAGATTGAAGCCAGAAATCTTATCTCCT
1 TCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCT
* * *
41342778 TGAAATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACACTAGAGTGGAT
66 TGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAATGGAGTGGAT
*
41342843 TAAAATAAAGGG
131 TAAAATAAAGGA
* * * *
41342855 TCTTATCTCTCTAAAGTTACAGTAAAGTAGATCGCATCAGTTTGAAGCCAAAAATCTCATCTCCT
1 TCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCT
*
41342920 TGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCAGAGATTACAATGGAGTGGAT
66 TGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAATGGAGTGGAT
41342985 TAAAATAAAGGA
131 TAAAATAAAGGA
* *
41342997 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCC
1 TCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCT
* * * * *
41343062 TGAGATTACAACGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGAATACAGTGGAGCGGAT
66 TGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAATGGAGTGGAT
*
41343127 TAATATAAAGGA
131 TAAAATAAAGGA
* *
41343139 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATTGCATCAG
1 TCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAG
41343179 GTCTTATCTC
Statistics
Matches: 296, Mismatches: 28, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
142 296 1.00
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.27
Consensus pattern (142 bp):
TCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCT
TGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAATGGAGTGGAT
TAAAATAAAGGA
Found at i:41343299 original size:50 final size:50
Alignment explanation
Indices: 41343245--41343693 Score: 311
Period size: 50 Copynumber: 9.0 Consensus size: 50
41343235 CCCAGGCGAT
* **
41343245 GCAGTGGAACAGATTAAAGCCATATTGGTGAATCTTGCTTCCCCGACATG
1 GCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATG
** * * * * * * * *
41343295 GCAGTTCAAAAGATTAAAGCTACAACAGCGAATCTTACCTCCCAGGCA-G
1 GCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATG
* * * *
41343344 TGTAGTGGAACATATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATT
1 -GCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATG
** * * * * * *
41343395 GCAGTTAAAAAGATTAAAACCACAGCGGT-AACTCTTACTT-CTCTAGCGAT-
1 GCAGTGGAACAGATTAAAGCCACAACGGTGAA-TCTTGCTTCCCCGA-C-ATG
* *
41343445 GCAGCGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATT
1 GCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATG
** * * * * * *
41343495 GCAGTTAAAAAGATTAAAACCACAGCGGT-AACTCTTACTT-CTCTAGCGAT-
1 GCAGTGGAACAGATTAAAGCCACAACGGTGAA-TCTTGCTTCCCCGA-C-ATG
* * ** *
41343545 GCAGCGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTAACATT
1 GCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATG
** * * * * * * *
41343595 GCAGTTAAAAAGATTAAAGCCACAATGGCGAATCTTACTTCCCTGGC-GG
1 GCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATG
* *
41343644 TGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTGCCTGACAT
1 -GCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACAT
41343694 CACAGTTAAG
Statistics
Matches: 297, Mismatches: 86, Indels: 31
0.72 0.21 0.07
Matches are distributed among these distances:
49 15 0.05
50 269 0.91
51 13 0.04
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (50 bp):
GCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATG
Found at i:41343709 original size:100 final size:100
Alignment explanation
Indices: 41343233--41343702 Score: 595
Period size: 100 Copynumber: 4.7 Consensus size: 100
41343223 AGATCTTATT
* * * *
41343233 TTCCCAGGCGATGCAGTGGAACAGATTAAAGCCATATTGGTGAATCTTGCTTCCCCGACATGGCA
1 TTCCCTGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCA
* * * *
41343298 GTTCAAAAGATTAAAGCTACAACAGCGAA-TCTTAC
66 GTTAAAAAGATTAAAACCACAAC-GGGAACTCTTAC
* * * *
41343333 CTCCCAGGC-AGTGTAGTGGAACATATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGC
1 TTCCCTGGCGA-TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGC
* *
41343397 AGTTAAAAAGATTAAAACCACAGCGGTAACTCTTAC
65 AGTTAAAAAGATTAAAACCACAACGGGAACTCTTAC
* * * *
41343433 TTCTCTAGCGATGCAGCGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCA
1 TTCCCTGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCA
* *
41343498 GTTAAAAAGATTAAAACCACAGCGGTAACTCTTAC
66 GTTAAAAAGATTAAAACCACAACGGGAACTCTTAC
* * * **
41343533 TTCTCTAGCGATGCAGCGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTAACATTGCA
1 TTCCCTGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCA
* *
41343598 GTTAAAAAGATTAAAGCCACAATGGCGAA-TCTTAC
66 GTTAAAAAGATTAAAACCACAACGG-GAACTCTTAC
* * * * **
41343633 TTCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTGCCTGACATCACA
1 TTCCCTGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCA
41343698 GTTAA
66 GTTAA
41343703 GCAGATTTAC
Statistics
Matches: 330, Mismatches: 36, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
99 4 0.01
100 323 0.98
101 3 0.01
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (100 bp):
TTCCCTGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCA
GTTAAAAAGATTAAAACCACAACGGGAACTCTTAC
Found at i:41344715 original size:15 final size:15
Alignment explanation
Indices: 41344695--41344723 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
41344685 GAGTTGAAGC
41344695 TTTTTTATTTTATTT
1 TTTTTTATTTTATTT
41344710 TTTTTTATTTTATT
1 TTTTTTATTTTATT
41344724 CTGGTTGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTTTTATTTTATTT
Found at i:41349358 original size:17 final size:16
Alignment explanation
Indices: 41349336--41349369 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
41349326 GGGGATGGAG
41349336 TTTGTTTGATGTTTATT
1 TTTGTTTG-TGTTTATT
*
41349353 TTTGTTTGTTTTTATT
1 TTTGTTTGTGTTTATT
41349369 T
1 T
41349370 CATAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (16 bp):
TTTGTTTGTGTTTATT
Found at i:41365327 original size:38 final size:37
Alignment explanation
Indices: 41365257--41365329 Score: 96
Period size: 37 Copynumber: 1.9 Consensus size: 37
41365247 CTTTCATAAT
*
41365257 TTCACTTTTTCACTTTCAATCATAATTCAATTCAAAA
1 TTCACTTTTCCACTTTCAATCATAATTCAATTCAAAA
41365294 TTCACTTTTCCA-TTTCTAAGTCGAT-ATTCAATTCAA
1 TTCACTTTTCCACTTTC-AA-TC-ATAATTCAATTCAA
41365330 TTCCACACCT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 13 0.41
39 2 0.06
ACGTcount: A:0.32, C:0.22, G:0.03, T:0.44
Consensus pattern (37 bp):
TTCACTTTTCCACTTTCAATCATAATTCAATTCAAAA
Found at i:41365470 original size:45 final size:45
Alignment explanation
Indices: 41365405--41365498 Score: 134
Period size: 45 Copynumber: 2.1 Consensus size: 45
41365395 AATAGATACT
* * *
41365405 CGGTGGATTCAGCACGTAGCAACCACCTGATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTGACTAATCAATGATGTC
* * *
41365450 CGGTGGAATCAGCATATAGCAACCACCTTACTAATCAATGATGTT
1 CGGTGGAATCAGCACATAGCAACCACCTGACTAATCAATGATGTC
41365495 CGGT
1 CGGT
41365499 TCACATAGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTGACTAATCAATGATGTC
Found at i:41389464 original size:8 final size:8
Alignment explanation
Indices: 41389451--41389493 Score: 86
Period size: 8 Copynumber: 5.4 Consensus size: 8
41389441 TTTTAAATGA
41389451 TATTTTAT
1 TATTTTAT
41389459 TATTTTAT
1 TATTTTAT
41389467 TATTTTAT
1 TATTTTAT
41389475 TATTTTAT
1 TATTTTAT
41389483 TATTTTAT
1 TATTTTAT
41389491 TAT
1 TAT
41389494 ATAAGTGGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 35 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
TATTTTAT
Found at i:41393633 original size:29 final size:29
Alignment explanation
Indices: 41393591--41393648 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
41393581 GGGAAGGGTC
41393591 CATGAAATAATTTCTCATTATTACAGTAT
1 CATGAAATAATTTCTCATTATTACAGTAT
41393620 CATGAAATAATTTCTCATTATTACAGTAT
1 CATGAAATAATTTCTCATTATTACAGTAT
41393649 TAAAAACAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (29 bp):
CATGAAATAATTTCTCATTATTACAGTAT
Found at i:41398098 original size:17 final size:17
Alignment explanation
Indices: 41398076--41398109 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
41398066 CACTAACATT
*
41398076 AAAATGCAATGACAATA
1 AAAATGCAACGACAATA
41398093 AAAATGCAACGACAATA
1 AAAATGCAACGACAATA
41398110 TGCACAAACA
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:0.59, C:0.15, G:0.12, T:0.15
Consensus pattern (17 bp):
AAAATGCAACGACAATA
Found at i:41406561 original size:34 final size:33
Alignment explanation
Indices: 41406522--41406615 Score: 80
Period size: 34 Copynumber: 2.8 Consensus size: 33
41406512 ATTGAGCTTG
*
41406522 AGCCCATCACAATACCAGTAATCAGTAGGGCCTT
1 AGCCCATCACAATAACAGT-ATCAGTAGGGCCTT
* ** * *
41406556 TGCCCAATTTCAGTAATAGTATCAGTAGGGCCTT
1 AGCCC-ATCACAATAACAGTATCAGTAGGGCCTT
* * *
41406590 AGCCCATAACAGTAATAGATATCAGT
1 AGCCCATCACAATAACAG-TATCAGT
41406616 CATGCAGTGA
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
33 11 0.22
34 29 0.59
35 9 0.18
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (33 bp):
AGCCCATCACAATAACAGTATCAGTAGGGCCTT
Found at i:41407096 original size:27 final size:27
Alignment explanation
Indices: 41407066--41407334 Score: 272
Period size: 27 Copynumber: 10.0 Consensus size: 27
41407056 TCATCTCTTA
**
41407066 GGGGTATAACAGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
**
41407093 GGGGTATTTTGGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
41407120 GGGGTATTTC-GATTATTTTACCTTATG
1 GGGGTATTTCAG-TCATTTTACCCTATG
* * *
41407147 GGGGTATTTCAGTTATTCTACCCTATA
1 GGGGTATTTCAGTCATTTTACCCTATG
*
41407174 GGGGTATTTTAGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* * *
41407201 AGGGTATTTCAGTCATCTTACCCTATA
1 GGGGTATTTCAGTCATTTTACCCTATG
** * **
41407228 GGGGTATTTTGGTTATTTTACCCTAAC
1 GGGGTATTTCAGTCATTTTACCCTATG
*
41407255 GGGGTATTTTAGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* * ** *
41407282 GGGGCATTTCGGTCATTTTACTTTATA
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
41407309 CGGGTATTTC-GATTATTTTACCCTAT
1 GGGGTATTTCAG-TCATTTTACCCTAT
41407335 TTTAGGGTTT
Statistics
Matches: 199, Mismatches: 40, Indels: 6
0.81 0.16 0.02
Matches are distributed among these distances:
26 2 0.01
27 196 0.98
28 1 0.01
ACGTcount: A:0.20, C:0.16, G:0.21, T:0.43
Consensus pattern (27 bp):
GGGGTATTTCAGTCATTTTACCCTATG
Found at i:41407206 original size:81 final size:81
Alignment explanation
Indices: 41407064--41407334 Score: 341
Period size: 81 Copynumber: 3.3 Consensus size: 81
41407054 TTTCATCTCT
** * * *
41407064 TAGGGGTATAACAGTCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTT
1 TAGGGGTATTTCAGTTATTTTACCCTATAGGGGTATTTTAGTCATTTTACCCTATGGGGGTATTT
*
41407129 CGATTATTTTACCTTA
66 CGATCATTTTACCTTA
* * *
41407145 TGGGGGTATTTCAGTTATTCTACCCTATAGGGGTATTTTAGTCATTTTACCCTATGAGGGTATTT
1 TAGGGGTATTTCAGTTATTTTACCCTATAGGGGTATTTTAGTCATTTTACCCTATGGGGGTATTT
* *
41407210 C-AGTCATCTTACCCTA
66 CGA-TCATTTTACCTTA
** *
41407226 TAGGGGTATTTTGGTTATTTTACCCTA-ACGGGGTATTTTAGTCATTTTACCCTATGGGGGCATT
1 TAGGGGTATTTCAGTTATTTTACCCTATA-GGGGTATTTTAGTCATTTTACCCTATGGGGGTATT
* *
41407290 TCGGTCATTTTACTTTA
65 TCGATCATTTTACCTTA
*
41407307 TACGGGTATTTC-GATTATTTTACCCTAT
1 TAGGGGTATTTCAG-TTATTTTACCCTAT
41407335 TTTAGGGTTT
Statistics
Matches: 162, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
80 3 0.02
81 159 0.98
ACGTcount: A:0.20, C:0.16, G:0.21, T:0.43
Consensus pattern (81 bp):
TAGGGGTATTTCAGTTATTTTACCCTATAGGGGTATTTTAGTCATTTTACCCTATGGGGGTATTT
CGATCATTTTACCTTA
Found at i:41408851 original size:17 final size:16
Alignment explanation
Indices: 41408829--41408861 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
41408819 TCAATGTCTC
41408829 CCTACAGTTTCCAGTTT
1 CCTACAGTTT-CAGTTT
41408846 CCTACAGTTTCAGTTT
1 CCTACAGTTTCAGTTT
41408862 ACTCTAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.18, C:0.27, G:0.12, T:0.42
Consensus pattern (16 bp):
CCTACAGTTTCAGTTT
Found at i:41409995 original size:27 final size:27
Alignment explanation
Indices: 41409962--41410520 Score: 660
Period size: 27 Copynumber: 20.6 Consensus size: 27
41409952 GGGTATAATA
* *
41409962 ATCATTTTACCCAATAGGGGTATTTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
* * *
41409989 ATTATTTTACCTTATGGGGGTATTTTG
1 ATCATTTTACCCTATGGGGGTATTTCG
* * *
41410016 GTTATTCTACCCTATGGGGGTATTTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
*
41410043 ATCATTTTATCCTATGGGGGTATTTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
41410070 ATCATTTTACCCTATGGGGTTATTTTGTATTTC-
1 ATCATTTTACCCTATGGGG-------GTATTTCG
* * *
41410103 AGTCATTTTACCCTGTGAGGGTCTTTCG
1 A-TCATTTTACCCTATGGGGGTATTTCG
* *
41410131 GTCATTTTACCCTATGGGGGTATTTTG
1 ATCATTTTACCCTATGGGGGTATTTCG
* * *
41410158 GTCATTTTAACCTATAGGGGTATTTCTG
1 ATCATTTTACCCTATGGGGGTATTTC-G
* * *
41410186 -TCATTTTACCATATGAGGGTATTTTG
1 ATCATTTTACCCTATGGGGGTATTTCG
* *
41410212 GTCATTTTACCCTATAGGGGTATTTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
41410239 ATCATTTTACCCTATGGGGGTATTTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
* *
41410266 GTCATTTTACCCTAT-GGGGTATTTCA
1 ATCATTTTACCCTATGGGGGTATTTCG
* *
41410292 ATCATTTTACCCTATAGGGATATTTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
* * * **
41410319 GTTATTTTACCTTATGGGGGTATTTTA
1 ATCATTTTACCCTATGGGGGTATTTCG
*
41410346 ATCATTTTACCCTATGAGGGTATTTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
* *
41410373 GTCATTTTACCCTATAGGGGTATTTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
41410400 ATCATTTTACCCTATGGGGGTATTTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
* *
41410427 GTCATTTTACCCTAT--GGGTATTTCA
1 ATCATTTTACCCTATGGGGGTATTTCG
41410452 ATCATTTTACCCTATGGGGGTATTTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
* *
41410479 ATCATTTTACCTTATGGGGGTATTTCA
1 ATCATTTTACCCTATGGGGGTATTTCG
41410506 ATCATTTTACCCTAT
1 ATCATTTTACCCTAT
41410521 TTTAAGGTAT
Statistics
Matches: 452, Mismatches: 66, Indels: 28
0.83 0.12 0.05
Matches are distributed among these distances:
25 23 0.05
26 25 0.06
27 379 0.84
28 1 0.00
33 1 0.00
34 23 0.05
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (27 bp):
ATCATTTTACCCTATGGGGGTATTTCG
Found at i:41422269 original size:18 final size:18
Alignment explanation
Indices: 41422231--41422266 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
41422221 TTATTATTTT
*
41422231 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
41422249 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
41422267 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:41422273 original size:16 final size:15
Alignment explanation
Indices: 41422252--41422303 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 15
41422242 ATTAAAATAA
41422252 AATTTAAATATTAAAT
1 AATTTAAATATT-AAT
41422268 AATTTATTAATATTAAT
1 AATTTA--AATATTAAT
41422285 AATTT--ATATTAAT
1 AATTTAAATATTAAT
41422298 AATTTA
1 AATTTA
41422304 TTATATGACT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
13 13 0.39
16 6 0.18
17 8 0.24
18 6 0.18
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AATTTAAATATTAAT
Found at i:41422324 original size:26 final size:27
Alignment explanation
Indices: 41422256--41422327 Score: 74
Period size: 30 Copynumber: 2.6 Consensus size: 27
41422246 AAATAAAATT
*
41422256 TAAATATTAAATAATTTATTAATATTAA
1 TAAATA-TAAATAATTTATTAATATGAA
* *
41422284 TAATTTATATTAATAATTTATT-ATATGAC
1 TAA---ATATAAATAATTTATTAATATGAA
41422313 TAAATATAAATAATT
1 TAAATATAAATAATT
41422328 AAATGCGTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
26 11 0.30
28 3 0.08
29 8 0.22
30 12 0.32
31 3 0.08
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (27 bp):
TAAATATAAATAATTTATTAATATGAA
Found at i:41436038 original size:189 final size:189
Alignment explanation
Indices: 41435708--41436091 Score: 565
Period size: 189 Copynumber: 2.0 Consensus size: 189
41435698 GATTCTGAGC
* * * *
41435708 TTAACTCATGATTTTGGTTATAATGCTTAGCTGACAAGAGATTGAAAGCTTTGATGTTCAGAAAA
1 TTAACTCATGATTTGGGTTATAATGCTTAGCTGACAAAAGATTGAAAGCTTTGACGTTCAAAAAA
* *
41435773 GCTAAGTAGATGAGAAGGCAAAGAAGTGTCAAGTGAGTTTCTGCACACTATCCCTAAAATGCTAA
66 GCTAAGTAGATGAGAAGGCAAAGAAGTGTCAAATGAGTTTCTGCACACTATACCTAAAATGCTAA
* *
41435838 GTATATTTAAGATCATATAGATATATGAGTAACCACCATTTTAGTTCTATAAGCATGAA
131 GTACATTTAAGATCATACAGATATATGAGTAACCACCATTTTAGTTCTATAAGCATGAA
* *
41435897 TTAACTTATGATTTGGGTTATAATGCTTAGCTGCCAAAAGATT-AGAAGCTTTGACGTTCAAAAA
1 TTAACTCATGATTTGGGTTATAATGCTTAGCTGACAAAAGATTGA-AAGCTTTGACGTTCAAAAA
* * * **
41435961 AGCTAAGT-GAATGAGGAGGCAAGGAAGTGTCAAATGAGTTTCTGCACACTATACTTGGAATGCT
65 AGCTAAGTAG-ATGAGAAGGCAAAGAAGTGTCAAATGAGTTTCTGCACACTATACCTAAAATGCT
* * * *
41436025 AAGTACGTTTAAGATCGTACAGATATATGAGTATCCACCATTTTAGTTCTGTAAGCATGAA
129 AAGTACATTTAAGATCATACAGATATATGAGTAACCACCATTTTAGTTCTATAAGCATGAA
41436086 TTAACT
1 TTAACT
41436092 ACTATTTCAT
Statistics
Matches: 174, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
188 2 0.01
189 172 0.99
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (189 bp):
TTAACTCATGATTTGGGTTATAATGCTTAGCTGACAAAAGATTGAAAGCTTTGACGTTCAAAAAA
GCTAAGTAGATGAGAAGGCAAAGAAGTGTCAAATGAGTTTCTGCACACTATACCTAAAATGCTAA
GTACATTTAAGATCATACAGATATATGAGTAACCACCATTTTAGTTCTATAAGCATGAA
Found at i:41440042 original size:7 final size:7
Alignment explanation
Indices: 41440030--41440055 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
41440020 CCAGTAAATG
41440030 TTAATAA
1 TTAATAA
41440037 TTAATAA
1 TTAATAA
41440044 TTAATAA
1 TTAATAA
41440051 TTAAT
1 TTAAT
41440056 GACTCAATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (7 bp):
TTAATAA
Found at i:41442217 original size:11 final size:11
Alignment explanation
Indices: 41442201--41442312 Score: 72
Period size: 11 Copynumber: 10.4 Consensus size: 11
41442191 TATTTTTTAA
41442201 TTTTAAAATAT
1 TTTTAAAATAT
41442212 TTTTAAAATAT
1 TTTTAAAATAT
** *
41442223 TTTT--TTTAA
1 TTTTAAAATAT
*
41442232 TTTTAAAATAC
1 TTTTAAAATAT
41442243 TTTTAAAATACT
1 TTTTAAAATA-T
*** *
41442255 TTTT-TTTTAA
1 TTTTAAAATAT
41442265 TTTTAAAATAT
1 TTTTAAAATAT
41442276 TTTTAAAATAAT
1 TTTTAAAAT-AT
**
41442288 TTTT-TTA-AT
1 TTTTAAAATAT
41442297 TTTTAAAATAAT
1 TTTTAAAAT-AT
41442309 TTTT
1 TTTT
41442313 GGTATTTATT
Statistics
Matches: 74, Mismatches: 19, Indels: 15
0.69 0.18 0.14
Matches are distributed among these distances:
9 12 0.16
10 5 0.07
11 41 0.55
12 16 0.22
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:41442231 original size:31 final size:32
Alignment explanation
Indices: 41442184--41442312 Score: 190
Period size: 33 Copynumber: 4.0 Consensus size: 32
41442174 AAATTAATTT
41442184 AAATATTTATTTTTTAATTTTAAAATATTTTTA
1 AAATATTT-TTTTTTAATTTTAAAATATTTTTA
*
41442217 AAATA-TTTTTTTTAATTTTAAAATACTTTTA
1 AAATATTTTTTTTTAATTTTAAAATATTTTTA
41442248 AAATACTTTTTTTTTAATTTTAAAATATTTTTA
1 AAATA-TTTTTTTTTAATTTTAAAATATTTTTA
*
41442281 AAATA-ATTTTTTTAATTTTTAAAATAATTTTT
1 AAATATTTTTTTTTAA-TTTTAAAAT-ATTTTT
41442313 GGTATTTATT
Statistics
Matches: 89, Mismatches: 3, Indels: 8
0.89 0.03 0.08
Matches are distributed among these distances:
31 37 0.42
32 11 0.12
33 41 0.46
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (32 bp):
AAATATTTTTTTTTAATTTTAAAATATTTTTA
Found at i:41442252 original size:64 final size:65
Alignment explanation
Indices: 41442184--41442311 Score: 215
Period size: 64 Copynumber: 2.0 Consensus size: 65
41442174 AAATTAATTT
* *
41442184 AAATA-TTTATTTTTTAATTTTAAAATATTTTTAAAATATTTTTTTTAA-TTTTAAAATACTTTT
1 AAATACTTT-TTTTTTAATTTTAAAATATTTTTAAAATAATTTTTTTAATTTTTAAAATAATTTT
41442247 A
65 A
41442248 AAATACTTTTTTTTTAATTTTAAAATATTTTTAAAATAATTTTTTTAATTTTTAAAATAATTTT
1 AAATACTTTTTTTTTAATTTTAAAATATTTTTAAAATAATTTTTTTAATTTTTAAAATAATTTT
41442312 TGGTATTTAT
Statistics
Matches: 60, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
64 43 0.72
65 17 0.28
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (65 bp):
AAATACTTTTTTTTTAATTTTAAAATATTTTTAAAATAATTTTTTTAATTTTTAAAATAATTTTA
Found at i:41442324 original size:22 final size:20
Alignment explanation
Indices: 41442273--41442326 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 20
41442263 AATTTTAAAA
*
41442273 TATTTTTAAAATAATTTTTT
1 TATTTTTAAAATAATTTTTG
41442293 TAATTTTTAAAATAATTTTTGG
1 T-ATTTTTAAAATAATTTTT-G
41442315 TATTTATTAAAA
1 TATTT-TTAAAA
41442327 AAATGGGCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 1 0.03
21 22 0.73
22 7 0.23
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (20 bp):
TATTTTTAAAATAATTTTTG
Found at i:41445290 original size:3 final size:3
Alignment explanation
Indices: 41445282--41445321 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
41445272 CATATAACTT
*
41445282 TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
41445322 CAAATATTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:41448168 original size:35 final size:35
Alignment explanation
Indices: 41448124--41448192 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
41448114 CTAATAATAT
41448124 TTTTTTTAATACAAGAATGAATTGATTCTAAACTA
1 TTTTTTTAATACAAGAATGAATTGATTCTAAACTA
41448159 TTTTTTTAATACAAGAATGAATTGATTCTAAACT
1 TTTTTTTAATACAAGAATGAATTGATTCTAAACT
41448193 TAGACTAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (35 bp):
TTTTTTTAATACAAGAATGAATTGATTCTAAACTA
Found at i:41462580 original size:15 final size:15
Alignment explanation
Indices: 41462555--41462589 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
41462545 AACTCTATTT
*
41462555 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
41462569 TAATTAATATTAAGA
1 TAATTAATATTAAGA
41462584 TAATTA
1 TAATTA
41462590 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:41468990 original size:4 final size:4
Alignment explanation
Indices: 41468977--41469046 Score: 56
Period size: 4 Copynumber: 17.5 Consensus size: 4
41468967 CAACCCAATT
* * * *
41468977 TTTA -TTA TTTA TTTA TTTA -TTA TTTT TTTC TTTGC TTTA TTTA TTAA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT-A TTTA TTTA TTTA
41469024 TTTA TTTTA TTT- TATTA TTTA TT
1 TTTA -TTTA TTTA T-TTA TTTA TT
41469047 ACTTATTTGG
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
3 7 0.13
4 39 0.71
5 9 0.16
ACGTcount: A:0.21, C:0.03, G:0.01, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:41469026 original size:25 final size:24
Alignment explanation
Indices: 41468973--41469047 Score: 75
Period size: 24 Copynumber: 3.0 Consensus size: 24
41468963 GAGGCAACCC
41468973 AATTT-TTATTATTTATTTATTTATT
1 AATTTATT-TTATTT-TTTATTTATT
*
41468998 -ATTT-TTTTCTTTGCTTTATTTATT
1 AATTTATTTTATTT--TTTATTTATT
41469022 AATTTATTTTATTTTATTATTTATT
1 AATTTATTTTATTTT-TTATTTATT
41469047 A
1 A
41469048 CTTATTTGGA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
23 5 0.12
24 17 0.40
25 14 0.33
26 7 0.16
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (24 bp):
AATTTATTTTATTTTTTATTTATT
Found at i:41469032 original size:17 final size:17
Alignment explanation
Indices: 41468976--41469046 Score: 56
Period size: 17 Copynumber: 4.1 Consensus size: 17
41468966 GCAACCCAAT
*
41468976 TTTTATTAT-TTATTTA
1 TTTTATTTTATTATTTA
* * *
41468992 TTTATTATTTTTTTCTTTG
1 -TT-TTATTTTATTATTTA
*
41469011 CTTTA-TTTATTAATTTA
1 TTTTATTTTATT-ATTTA
41469028 TTTTATTTTATTATTTA
1 TTTTATTTTATTATTTA
41469045 TT
1 TT
41469047 ACTTATTTGG
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
16 5 0.12
17 19 0.45
18 13 0.31
19 5 0.12
ACGTcount: A:0.21, C:0.03, G:0.01, T:0.75
Consensus pattern (17 bp):
TTTTATTTTATTATTTA
Found at i:41470061 original size:101 final size:100
Alignment explanation
Indices: 41469872--41470062 Score: 244
Period size: 101 Copynumber: 1.9 Consensus size: 100
41469862 AAGAACATGT
*
41469872 TGGGCTGAGTAACCGGGGTGGAGTGCTTGGCTATCATCTCTCTTCGCATCAAAAGGTTCGATGTG
1 TGGGCTGAGTAACCGGGGTGGAGTGCTTGGCTATCATCTCTCTTCGCATCAAAAGGTTCGATATG
* ** *
41469937 TTCTTAAGTAAAACTTATAATAAATTAGGAGTCTAC
66 TCCAAAAGTAAAAC-AATAATAAATTAGGAGTCTAC
* **
41469973 TGGGCTGAGTAACCGGGGTGGGGTGCTTGGCTATCATCTCTCTTCGTGTCAAAAGGTTCAGTATA
1 TGGGCTGAGTAACCGGGGTGGAGTGCTTGGCTATCATCTCTCTTCGCATCAAAAGGTTC-G-ATA
41470038 T-TCCAAAAGCATAAAA-AAT-ATAAAT
64 TGTCCAAAAG--TAAAACAATAATAAAT
41470063 AATAAATAAA
Statistics
Matches: 78, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
101 62 0.79
102 8 0.10
103 3 0.04
104 5 0.06
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (100 bp):
TGGGCTGAGTAACCGGGGTGGAGTGCTTGGCTATCATCTCTCTTCGCATCAAAAGGTTCGATATG
TCCAAAAGTAAAACAATAATAAATTAGGAGTCTAC
Found at i:41470071 original size:20 final size:21
Alignment explanation
Indices: 41470050--41470113 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 21
41470040 CCAAAAGCAT
41470050 AAAAAATATAAAT-AATAAATA
1 AAAAAATA-AAATAAATAAATA
41470071 AATATAAATCAAAATAAATAAATA
1 AA-A-AAAT-AAAATAAATAAATA
* *
41470095 AAAAAGAAAAAATATATAA
1 AAAAA-ATAAAATAAATAA
41470114 TTTGGGGACT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
21 2 0.06
22 13 0.36
23 10 0.28
24 11 0.31
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (21 bp):
AAAAAATAAAATAAATAAATA
Found at i:41470079 original size:10 final size:10
Alignment explanation
Indices: 41470057--41470094 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
41470047 CATAAAAAAT
41470057 ATAAATAATAA
1 ATAAAT-ATAA
41470068 ATAAATATAA
1 ATAAATATAA
41470078 ATCAAA-ATAA
1 AT-AAATATAA
41470088 ATAAATA
1 ATAAATA
41470095 AAAAAGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 3 0.12
10 13 0.52
11 9 0.36
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (10 bp):
ATAAATATAA
Found at i:41470628 original size:15 final size:15
Alignment explanation
Indices: 41470603--41470637 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
41470593 AACTCTATTT
*
41470603 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
41470617 TAATTAATATTAAGA
1 TAATTAATATTAAGA
41470632 TAATTA
1 TAATTA
41470638 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:41475105 original size:131 final size:131
Alignment explanation
Indices: 41474842--41475089 Score: 300
Period size: 131 Copynumber: 1.9 Consensus size: 131
41474832 TATTGTCGCG
* * * * * *
41474842 AATTCTTAATTAAAAGCATAACGACAAAATAAATTGTTGTTAAATGCTAAAATATTAACATCAAC
1 AATTCTTAATTAAAAACACAACAACAAAATAAATTATTGGTAAATGCTAAAATATTAACAACAAC
* * * *
41474907 ATTAAAATGTCATTATCTAATTTAATTTTCATGTTATTAATCACAACAATAAGGTTACTCATTAT
66 ATTAAAATGTCATTATATAATTTAATTTTCATATTACTAATCACAACAATAAGATTACTCATTAT
41474972 A
131 A
* ***
41474973 AATTCTTAA-TAAAATACACAACAACAAAATAAATTATTGGTAAATGTTGTTATATTAACAACAA
1 AATTCTTAATTAAAA-ACACAACAACAAAATAAATTATTGGTAAATGCTAAAATATTAACAACAA
** * **
41475037 TTTTAAAATGTTATTATATAATTTAATTTTTTTAATTACTAATCACAACAATA
65 CATTAAAATGTCATTATATAATTTAATTTTCAT-ATTACTAATCACAACAATA
41475090 CAATTTTTTA
Statistics
Matches: 97, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
130 5 0.05
131 75 0.77
132 17 0.18
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.38
Consensus pattern (131 bp):
AATTCTTAATTAAAAACACAACAACAAAATAAATTATTGGTAAATGCTAAAATATTAACAACAAC
ATTAAAATGTCATTATATAATTTAATTTTCATATTACTAATCACAACAATAAGATTACTCATTAT
A
Found at i:41475934 original size:5 final size:5
Alignment explanation
Indices: 41475926--41475954 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
41475916 TATTGTTTAT
41475926 TATTA TATTA TATTA TATTA TATTA TATT
1 TATTA TATTA TATTA TATTA TATTA TATT
41475955 GACACTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATTA
Found at i:41479423 original size:13 final size:13
Alignment explanation
Indices: 41479405--41479469 Score: 69
Period size: 13 Copynumber: 4.9 Consensus size: 13
41479395 AGTTGTTTAT
41479405 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
41479418 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
41479431 TG-TTGTGAAAAAAG
1 TGCTTTTG--AAAAG
* *
41479445 TGTTTTTGAGAAG
1 TGCTTTTGAAAAG
41479458 TGCTTTTGAAAA
1 TGCTTTTGAAAA
41479470 TTTTGAGTGT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
12 4 0.10
13 28 0.67
14 6 0.14
15 4 0.10
ACGTcount: A:0.31, C:0.05, G:0.26, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:41479445 original size:27 final size:28
Alignment explanation
Indices: 41479413--41479469 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 28
41479403 ATTGCTTTTG
41479413 AAAAGTGCTTTTGAGAAGTG-TTGTGAA
1 AAAAGTGCTTTTGAGAAGTGCTTGTGAA
* *
41479440 AAAAGTGTTTTTGAGAAGTGCTTTTGAA
1 AAAAGTGCTTTTGAGAAGTGCTTGTGAA
41479468 AA
1 AA
41479470 TTTTGAGTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 19 0.70
28 8 0.30
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.35
Consensus pattern (28 bp):
AAAAGTGCTTTTGAGAAGTGCTTGTGAA
Found at i:41479721 original size:19 final size:18
Alignment explanation
Indices: 41479697--41479744 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
41479687 AATTATTTAT
41479697 TAAATTTAATTAGAATATA
1 TAAATTTAATTA-AATATA
* *
41479716 TAAATTATATTTAAATATT
1 TAAATT-TAATTAAATATA
*
41479735 TAAATATAAT
1 TAAATTTAAT
41479745 AATTAAATAC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 3 0.12
19 16 0.67
20 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
TAAATTTAATTAAATATA
Found at i:41481658 original size:71 final size:71
Alignment explanation
Indices: 41481551--41481684 Score: 173
Period size: 71 Copynumber: 1.9 Consensus size: 71
41481541 ACTAATTTAG
* * * *
41481551 TAAAAAGTAGAATATAAATTCAATGAAGAAAGACC-AACATAAACAACTTTTAATAAAACTAGAT
1 TAAAAAGTAGAACATAAATTCAATGAACAAAAACCAAACATAAACAACTGTTAATAAAACTAGAT
41481615 TACACA
66 TACACA
* * *
41481621 TAAATAAGTAGAACATAAATTCAAT-ATCCAAAAACCAAACATAAATAACTGTTGATAAAACTAG
1 TAAA-AAGTAGAACATAAATTCAATGA-ACAAAAACCAAACATAAACAACTGTTAATAAAACTAG
41481685 TTTAGCATTG
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
70 5 0.09
71 25 0.46
72 24 0.44
ACGTcount: A:0.55, C:0.13, G:0.08, T:0.23
Consensus pattern (71 bp):
TAAAAAGTAGAACATAAATTCAATGAACAAAAACCAAACATAAACAACTGTTAATAAAACTAGAT
TACACA
Found at i:41483176 original size:15 final size:15
Alignment explanation
Indices: 41483156--41483189 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
41483146 AAGTTTTTAG
41483156 TTAATATTTAAGTAA
1 TTAATATTTAAGTAA
*
41483171 TTAATATTTATGTAA
1 TTAATATTTAAGTAA
41483186 TTAA
1 TTAA
41483190 AAATAGTCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (15 bp):
TTAATATTTAAGTAA
Found at i:41483305 original size:15 final size:15
Alignment explanation
Indices: 41483285--41483321 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
41483275 AGAAAGTTTT
41483285 TAATTAATATTTATG
1 TAATTAATATTTATG
41483300 TAATTAATATTTATG
1 TAATTAATATTTATG
41483315 TAATTAA
1 TAATTAA
41483322 AAATGGTCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (15 bp):
TAATTAATATTTATG
Found at i:41483331 original size:132 final size:132
Alignment explanation
Indices: 41483037--41483465 Score: 763
Period size: 132 Copynumber: 3.3 Consensus size: 132
41483027 CACAAGTTTT
* *
41483037 TAATTAATATTTATGTAATTAAAAATAGTCTCTTTAAGATGATTATTAATTATTATTATTTCTAC
1 TAATTAATATTTATGTAATTAAAAATAGTCCCTTTAAGATGATTATTAATTATTATTATTGCTAC
* *
41483102 TGAAAAAATTTTACATTCTTTTACATTC-TTTCTGTAATTTTACAAAGTTTTTAGTTAATATTTA
66 TGACAAAATTTTACATTCTTTTACATTCTTTTCTGTAATTTTACAAAGTTTTTAATTAATATTTA
*
41483166 AG
131 TG
41483168 TAATTAATATTTATGTAATTAAAAATAGTCCCTTTAAGATGATTATTAATTATTATTATTGCTAC
1 TAATTAATATTTATGTAATTAAAAATAGTCCCTTTAAGATGATTATTAATTATTATTATTGCTAC
*
41483233 TGACAAAATTTTACATTCTTTTACATTCTTTTCTGTAATTTTAGAAAGTTTTTAATTAATATTTA
66 TGACAAAATTTTACATTCTTTTACATTCTTTTCTGTAATTTTACAAAGTTTTTAATTAATATTTA
41483298 TG
131 TG
*
41483300 TAATTAATATTTATGTAATTAAAAATGGTCCCTTTAAGATGATTATTAATTATTATTATTGCTAC
1 TAATTAATATTTATGTAATTAAAAATAGTCCCTTTAAGATGATTATTAATTATTATTATTGCTAC
* *
41483365 TAACAAAATTTTACATTCTTTTACATTCTTTTCTGTAATTTTACAAAG-TTTTAAATAATATTTA
66 TGACAAAATTTTACATTCTTTTACATTCTTTTCTGTAATTTTACAAAGTTTTTAATTAATATTTA
41483429 TG
131 TG
41483431 TAATTAATATTTATGTAATTAAAAATAGTCCCTTT
1 TAATTAATATTTATGTAATTAAAAATAGTCCCTTT
41483466 TTCTGTAACG
Statistics
Matches: 286, Mismatches: 11, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
131 141 0.49
132 145 0.51
ACGTcount: A:0.36, C:0.08, G:0.07, T:0.49
Consensus pattern (132 bp):
TAATTAATATTTATGTAATTAAAAATAGTCCCTTTAAGATGATTATTAATTATTATTATTGCTAC
TGACAAAATTTTACATTCTTTTACATTCTTTTCTGTAATTTTACAAAGTTTTTAATTAATATTTA
TG
Found at i:41483440 original size:15 final size:15
Alignment explanation
Indices: 41483420--41483452 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
41483410 AAGTTTTAAA
41483420 TAATATTTATGTAAT
1 TAATATTTATGTAAT
41483435 TAATATTTATGTAAT
1 TAATATTTATGTAAT
41483450 TAA
1 TAA
41483453 AAATAGTCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (15 bp):
TAATATTTATGTAAT
Found at i:41485332 original size:25 final size:25
Alignment explanation
Indices: 41485303--41485381 Score: 140
Period size: 25 Copynumber: 3.2 Consensus size: 25
41485293 AGAGGAACAA
41485303 AGCACCAGCAGAGGAACAAAGAACC
1 AGCACCAGCAGAGGAACAAAGAACC
41485328 AGCACCAGCAGAGGAACAAAGAACC
1 AGCACCAGCAGAGGAACAAAGAACC
* *
41485353 AGCACCAGCAGAGGATCAATGAACC
1 AGCACCAGCAGAGGAACAAAGAACC
41485378 AGCA
1 AGCA
41485382 GAGGAACAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 52 1.00
ACGTcount: A:0.46, C:0.28, G:0.24, T:0.03
Consensus pattern (25 bp):
AGCACCAGCAGAGGAACAAAGAACC
Found at i:41485356 original size:19 final size:19
Alignment explanation
Indices: 41485293--41485331 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
41485283 GTGGTGGAGA
*
41485293 AGAGGAACAAAGCACCAGC
1 AGAGGAACAAAGAACCAGC
41485312 AGAGGAACAAAGAACCAGC
1 AGAGGAACAAAGAACCAGC
41485331 A
1 A
41485332 CCAGCAGAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.23, G:0.26, T:0.00
Consensus pattern (19 bp):
AGAGGAACAAAGAACCAGC
Found at i:41486426 original size:50 final size:50
Alignment explanation
Indices: 41486367--41486477 Score: 199
Period size: 50 Copynumber: 2.3 Consensus size: 50
41486357 AAAATCTGTG
41486367 TTCTTTATTTTTCTTTCTCTTTTCTTTGCGATGCATTTTCATTATCAACA
1 TTCTTTATTTTTCTTTCTCTTTTCTTTGCGATGCATTTTCATTATCAACA
*
41486417 TTCTTTATTTTTTTTTCTCTTTTCTTTGCGATGCATTTTCATTATCAACA
1 TTCTTTATTTTTCTTTCTCTTTTCTTTGCGATGCATTTTCATTATCAACA
41486467 TTC--TATTTTTC
1 TTCTTTATTTTTC
41486478 ACAAATGTCT
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
48 7 0.12
50 52 0.88
ACGTcount: A:0.15, C:0.19, G:0.05, T:0.60
Consensus pattern (50 bp):
TTCTTTATTTTTCTTTCTCTTTTCTTTGCGATGCATTTTCATTATCAACA
Found at i:41488140 original size:90 final size:90
Alignment explanation
Indices: 41487987--41488247 Score: 281
Period size: 90 Copynumber: 2.9 Consensus size: 90
41487977 CATTGGGTTG
* * * * * **
41487987 TGGATAAACCA-CAAAAGTTGCAGTTTAATATGTTGTCAGATGGTTGTGAGTGTACAACATATTT
1 TGGATAAACCACCAATA-TTGTAGGTTAATACGTTGTCAGATGGTTGTGAATACACAACATATTT
* * ** * *
41488051 TCAAATGAGAGCTGTCAGAATATGGA
65 GCAAATAAGAGCTACCAAAAAATGGA
* *
41488077 TGGATAAACCACCAATATTGTAGGTTAATAGGTTGTCAGATGGTTGTGAATACACAACGTATTTG
1 TGGATAAACCACCAATATTGTAGGTTAATACGTTGTCAGATGGTTGTGAATACACAACATATTTG
*
41488142 CAAATAAGAGCTACCAAAAAATGGG
66 CAAATAAGAGCTACCAAAAAATGGA
* * * ** * ** *
41488167 TGGATGAGCCACCAATGTTGTAGGTTAATACACTGCCAGATGGTTGTGAATGGACAACATAATTG
1 TGGATAAACCACCAATATTGTAGGTTAATACGTTGTCAGATGGTTGTGAATACACAACATATTTG
41488232 CAAATAAGAGCTACCA
66 CAAATAAGAGCTACCA
41488248 GATAATTTGG
Statistics
Matches: 144, Mismatches: 26, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
90 140 0.97
91 4 0.03
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (90 bp):
TGGATAAACCACCAATATTGTAGGTTAATACGTTGTCAGATGGTTGTGAATACACAACATATTTG
CAAATAAGAGCTACCAAAAAATGGA
Found at i:41488269 original size:90 final size:90
Alignment explanation
Indices: 41487986--41488279 Score: 279
Period size: 90 Copynumber: 3.3 Consensus size: 90
41487976 ACATTGGGTT
* * * * *** * * *
41487986 GTGGATAAACCACAAAAGTTGCAGTTTAATATGTTGTCAGATGGTTGTGAGTGTACAACATATTT
1 GTGGATAAACCACCAATGTTGTAGGTTAATACACTGCCAGATGGTTGTGAATGCACAACATATTT
* * ** *
41488051 TCAAATGAGAGCTGTCAG-AATATG
66 GCAAATAAGAGCTACCAGAAATTTG
* *** * * *
41488075 GATGGATAAACCACCAATATTGTAGGTTAATAGGTTGTCAGATGGTTGTGAATACACAACGTATT
1 G-TGGATAAACCACCAATGTTGTAGGTTAATACACTGCCAGATGGTTGTGAATGCACAACATATT
* * *
41488140 TGCAAATAAGAGCTACCAAAAAATGG
65 TGCAAATAAGAGCTACCAGAAATTTG
* * * *
41488166 GTGGATGAGCCACCAATGTTGTAGGTTAATACACTGCCAGATGGTTGTGAATGGACAACATAATT
1 GTGGATAAACCACCAATGTTGTAGGTTAATACACTGCCAGATGGTTGTGAATGCACAACATATTT
41488231 GCAAATAAGAGCTACCAGATAATTTG
66 GCAAATAAGAGCTACCAGA-AATTTG
41488257 G-GGATAAACCACCAGA-GTTGTAG
1 GTGGATAAACCACCA-ATGTTGTAG
41488280 ATTTATTAAT
Statistics
Matches: 167, Mismatches: 34, Indels: 7
0.80 0.16 0.03
Matches are distributed among these distances:
89 1 0.01
90 156 0.93
91 10 0.06
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (90 bp):
GTGGATAAACCACCAATGTTGTAGGTTAATACACTGCCAGATGGTTGTGAATGCACAACATATTT
GCAAATAAGAGCTACCAGAAATTTG
Found at i:41492069 original size:34 final size:34
Alignment explanation
Indices: 41492026--41492145 Score: 158
Period size: 34 Copynumber: 3.6 Consensus size: 34
41492016 ACCTAATGCT
*
41492026 CAAATCAATTCGGCAATATATATGTATACATATA
1 CAAATCAATTCAGCAATATATATGTATACATATA
*
41492060 CAAATCAATTCAACAATATATATGTATACATATA
1 CAAATCAATTCAGCAATATATATGTATACATATA
* *
41492094 CAAATCAATTCAGCAATCTATA--TAT--ATATT
1 CAAATCAATTCAGCAATATATATGTATACATATA
* *
41492124 TAAATCAATTCGGCAATATATA
1 CAAATCAATTCAGCAATATATA
41492146 AAACATATAC
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
30 23 0.29
32 3 0.04
34 52 0.67
ACGTcount: A:0.46, C:0.15, G:0.06, T:0.33
Consensus pattern (34 bp):
CAAATCAATTCAGCAATATATATGTATACATATA
Found at i:41498328 original size:18 final size:17
Alignment explanation
Indices: 41498305--41498357 Score: 79
Period size: 18 Copynumber: 3.0 Consensus size: 17
41498295 ATATATTATG
*
41498305 ATTTTAGTAAATTCATAT
1 ATTTTATTAAATT-ATAT
41498323 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
41498340 ATTTTTATTAAATTATAT
1 A-TTTTATTAAATTATAT
41498358 TTAATAATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
17 5 0.15
18 28 0.85
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:41498559 original size:39 final size:41
Alignment explanation
Indices: 41498505--41498610 Score: 135
Period size: 44 Copynumber: 2.5 Consensus size: 41
41498495 TTTCCTTATG
* *
41498505 CTATTACACCTCTATTCCATTCAACCAAACACAAGAA-TA-
1 CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
41498544 CTATTACGCCTCTATTCCATTCCATTCAACCAAACAAAAGAATTAC
1 CTATTACGCCTC---T--ATTCCATTCAACCAAACAAAAGAATTAC
41498590 CTATTACGCCTCTATTCCATT
1 CTATTACGCCTCTATTCCATT
41498611 ACACCTCTAT
Statistics
Matches: 58, Mismatches: 2, Indels: 12
0.81 0.03 0.17
Matches are distributed among these distances:
39 11 0.19
41 8 0.14
42 1 0.02
43 1 0.02
44 23 0.40
45 2 0.03
46 12 0.21
ACGTcount: A:0.35, C:0.31, G:0.04, T:0.30
Consensus pattern (41 bp):
CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
Found at i:41498585 original size:44 final size:46
Alignment explanation
Indices: 41498518--41498610 Score: 163
Period size: 44 Copynumber: 2.1 Consensus size: 46
41498508 TTACACCTCT
*
41498518 ATTCCATTCAACCAAACACAAGAA-TA-CTATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
41498562 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
41498608 ATT
1 ATT
41498611 ACACCTCTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 23 0.50
45 2 0.04
46 21 0.46
ACGTcount: A:0.37, C:0.30, G:0.04, T:0.29
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
Found at i:41498617 original size:16 final size:16
Alignment explanation
Indices: 41498592--41498629 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
41498582 AGAATTACCT
*
41498592 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
41498608 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
41498624 ATTACA
1 ATTACA
41498630 GCGAACCAAA
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:0.26, C:0.34, G:0.03, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:41500074 original size:4 final size:4
Alignment explanation
Indices: 41500067--41500126 Score: 120
Period size: 4 Copynumber: 15.0 Consensus size: 4
41500057 TGCATGCATG
41500067 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
41500115 CATA CATA CATA
1 CATA CATA CATA
41500127 ACTATTAATT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 56 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:41502211 original size:22 final size:21
Alignment explanation
Indices: 41502176--41502233 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 21
41502166 TAATGGCATC
* *
41502176 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
41502197 TACAAAATCATATCTTCTAATAT
1 TAC-AAATCATATC-TCTAAGAT
* *
41502220 TGCAGATCATATCT
1 TACAAATCATATCT
41502234 AAGATTGCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.57
23 9 0.30
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:41503058 original size:132 final size:131
Alignment explanation
Indices: 41502703--41503079 Score: 513
Period size: 131 Copynumber: 2.9 Consensus size: 131
41502693 GAGATAAGGT
* * *
41502703 TGGTGGCTTAAATCTGCTTCCCTACTACTTCGGGAAGATAAGACTCATCATCTTTGATCTGATCC
1 TGGTGGCTTAAATCTGCTTCCCTACTACTT-GGGAAGATAAGATTCGTCATCTTTGATCTGCTCC
* * * * * * * * *
41502768 ACTGCTTCTTAGGGAGTCAGGATATACAATCTTCAACCTACTCCACTACTGCTCAGGGAGGTAGG
65 ACTACTGCTTAGGGAGACAGGATCTACAATTTTCAACCTACTCCACTGCTACTCAGAGAGATAGG
41502833 AC
130 AC
* ** * *
41502835 TAGTGGCTTAAATCTGCTT-CCTACTATCTCAGGAAGATAAGATTCGTCGTCTTCGATCTGCTCC
1 TGGTGGCTTAAATCTGCTTCCCTACTA-CTTGGGAAGATAAGATTCGTCATCTTTGATCTGCTCC
* * *
41502899 ACTACTGTTTCGGAAGACAGGATCTACAATTTTCAACCTACTCCACTGCTACTCAGAGAGATAGG
65 ACTACTGCTTAGGGAGACAGGATCTACAATTTTCAACCTACTCCACTGCTACTCAGAGAGATAGG
41502964 AC
130 AC
* *
41502966 TGGTGGCTTAAATCTGATTCCCTACGACCTTGGGAAGATAAGATTCGTCATCTTTGATCTGCTCC
1 TGGTGGCTTAAATCTGCTTCCCTACTA-CTTGGGAAGATAAGATTCGTCATCTTTGATCTGCTCC
*
41503031 ACTACTGCTTAGGGAGACAGGACCTACAATTTTCAACCTACTCCACTGC
65 ACTACTGCTTAGGGAGACAGGATCTACAATTTTCAACCTACTCCACTGC
41503080 AAACTTAGAG
Statistics
Matches: 211, Mismatches: 32, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
131 107 0.51
132 104 0.49
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.30
Consensus pattern (131 bp):
TGGTGGCTTAAATCTGCTTCCCTACTACTTGGGAAGATAAGATTCGTCATCTTTGATCTGCTCCA
CTACTGCTTAGGGAGACAGGATCTACAATTTTCAACCTACTCCACTGCTACTCAGAGAGATAGGA
C
Found at i:41503173 original size:89 final size:89
Alignment explanation
Indices: 41503076--41503452 Score: 429
Period size: 89 Copynumber: 4.2 Consensus size: 89
41503066 ACCTACTCCA
* * * * *
41503076 CTGCAAACTTAGAGAGACAAGGTTGGTGTTTTCGATCTGCTTCACTGCCAGTACAGGAAGACAAG
1 CTGCAAACTCAGGGAGGCAAGGCTGGTGTTTTCGATCTGCTTCACTGCCAATACAGGAAGACAAG
* ** *
41503141 ATCTGCTGTTTTCAGTCCGCTCTG
66 ATCTGCTATCGTCAGTCTGCTCTG
* * * * * *
41503165 CTGCAAACTTAGGGAGGTAAGGCTGGTGTCTTCGATTTGTTTCGCTGCCAATACAGGAAGACAAG
1 CTGCAAACTCAGGGAGGCAAGGCTGGTGTTTTCGATCTGCTTCACTGCCAATACAGGAAGACAAG
* *
41503230 ATCTGCTATCTTCAGTCTGTTTCT-
66 ATCTGCTATCGTCAGTCTG-CTCTG
* * *
41503254 CTACAAACTCAGGGAGGCAAGGCTGGT-TTCTTCGATCGGCTTCGCTGCCAATACAGGAAGACAA
1 CTGCAAACTCAGGGAGGCAAGGCTGGTGTT-TTCGATCTGCTTCACTGCCAATACAGGAAGACAA
*
41503318 GATCTGCTATCGTCAGTCTGCT-TCA
65 GATCTGCTATCGTCAGTCTGCTCT-G
* ** * *
41503343 CTGCAAAATCAGGGAGGCAAGGCTGGTGTCTTT-GATCTAATTCACTTCCAATACGGGAAGACAA
1 CTGCAAACTCAGGGAGGCAAGGCTGGTGT-TTTCGATCTGCTTCACTGCCAATACAGGAAGACAA
* * *
41503407 TATTTGCTATCGTCAGTCTGCTCCG
65 GATCTGCTATCGTCAGTCTGCTCTG
41503432 CTGCAAACTCAGGGAGGCAAG
1 CTGCAAACTCAGGGAGGCAAG
41503453 ACTTGTAACT
Statistics
Matches: 246, Mismatches: 35, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
87 1 0.00
88 2 0.01
89 236 0.96
90 6 0.02
91 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.28
Consensus pattern (89 bp):
CTGCAAACTCAGGGAGGCAAGGCTGGTGTTTTCGATCTGCTTCACTGCCAATACAGGAAGACAAG
ATCTGCTATCGTCAGTCTGCTCTG
Found at i:41503251 original size:45 final size:45
Alignment explanation
Indices: 41503111--41503346 Score: 137
Period size: 45 Copynumber: 5.3 Consensus size: 45
41503101 GTGTTTTCGA
* * * *
41503111 TCTGCTTCACTGCCAGTACAGGAAGACAAGATCTGCTGTTTTCAG
1 TCTGCTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCAG
* * ** * * *
41503156 TCCGC-TCTGCTG-CAA-ACTTAGGGAGGTAAG-GCTGGTGTCTTC-G
1 TCTGCTTC-GCTGCCAATAC--AGGAAGACAAGATCTGCTATCTTCAG
* *
41503199 ATTTGTTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCAG
1 -TCTGCTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCAG
* * * * * * * * *
41503245 TCTGTTTCTCTACAAACT-CAGGGAGGCAAG-GCTGGTTTCTTC-G
1 TCTGCTTCGCTGCCAA-TACAGGAAGACAAGATCTGCTATCTTCAG
* *
41503288 ATCGGCTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCGTCAG
1 -TCTGCTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCAG
*
41503334 TCTGCTTCACTGC
1 TCTGCTTCGCTGC
41503347 AAAATCAGGG
Statistics
Matches: 137, Mismatches: 40, Indels: 28
0.67 0.20 0.14
Matches are distributed among these distances:
43 5 0.04
44 57 0.42
45 70 0.51
46 5 0.04
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (45 bp):
TCTGCTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCAG
Found at i:41503743 original size:44 final size:44
Alignment explanation
Indices: 41503470--41503991 Score: 324
Period size: 44 Copynumber: 11.7 Consensus size: 44
41503460 ACTTCAACCC
* * *
41503470 GCTCCACTGCAACTTTAGGGAGATAGGATTATTGGCTTTAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTATTAGCTTTAATCT
* * * * ** *
41503514 GTTCTACTGCAACTTCAGAGAGATAAG---ATTCGCCATGATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTATTAGCTTTAATCT
* *
41503555 GCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTATAGCTTTAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA--T-T-A--T-TAGCTTTAATCT
* * ** * *
41503606 GTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTTAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATT-ATTAGCTTTAATCT
* * * * * * *
41503651 GCTCCATTGCAACTTTAAGGAGATAAGACTT-GTAACTTCAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TTATTAGCTTTAATCT
*
41503695 GCTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTATTAGCTTTAATCT
** * ** *
41503739 GCTCCACTATAACTTCAGGGAGATAAG---ATTCGCCATGATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTATTAGCTTTAATCT
* * * *
41503780 GCTCTACTACAACTTCAGAGAGATAAGATCTGTGATTTATAGCTTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGA--T-T-A--T-TAGCTTTAATCT
** * * * ** * * *
41503831 ATTCCACTTCAACTTTAGGGAAATAAGATTCGCTATCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATT-ATTAGCTTTAATCT
* * * *
41503876 GCTCCACTGCAACTTCAGGGAGATAAGACT-TCA-CTTCAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATTATTAGCTTTAATCT
* * *
41503918 GCTCCACTGTAACTTCAGGGAGATAGGATTATTGGCTTTAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTATTAGCTTTAATCT
* * *
41503962 GTTCCACTACAACTTCAGGGAAATAAGATT
1 GCTCCACTGCAACTTCAGGGAGATAAGATT
41503992 CGCCATCTTC
Statistics
Matches: 363, Mismatches: 91, Indels: 48
0.72 0.18 0.10
Matches are distributed among these distances:
41 70 0.19
42 34 0.09
43 4 0.01
44 120 0.33
45 65 0.18
46 2 0.01
48 4 0.01
49 2 0.01
50 2 0.01
51 60 0.17
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATTATTAGCTTTAATCT
Found at i:41503812 original size:225 final size:225
Alignment explanation
Indices: 41503412--41503997 Score: 917
Period size: 225 Copynumber: 2.6 Consensus size: 225
41503402 GACAATATTT
* * * ** *
41503412 GCTATCGTCAGTCTGCTCCGCTGCAAAC-TCAGGGAGGCAAGACTTGTAACTTCAACCCGCTCCA
1 GCTATCTTCAGTCTGCTCCACTGC-AACTTCAAGGAGATAAGACTTGTAACTTCAATCCGCTCCA
* * * *
41503476 CTGCAACTTTAGGGAGATAGGATTATTGGCTTTAATCTGTTCTACTGCAACTTCAGAGAGATAAG
65 CTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGTTCCACTACAACTTCAGGGAGATAAG
* *
41503541 ATTCGCCATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTATAGCTTTAATCT
130 ATTCGCCATGATCTGCTCTACTACAACTTCAGAGAGATAAGATCTGTGATTTATAGCTTTAATCC
*
41503606 GTTCCACTGCAACTTCAGGGAAATAAGATTC
195 ATTCCACTGCAACTTCAGGGAAATAAGATTC
* * *
41503637 GCTATCTTTAGTCTGCTCCATTGCAACTTTAAGGAGATAAGACTTGTAACTTCAATCCGCTCCAC
1 GCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTCAATCCGCTCCAC
* * *
41503702 TGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCTGCTCCACTATAACTTCAGGGAGATAAGA
66 TGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGTTCCACTACAACTTCAGGGAGATAAGA
41503767 TTCGCCATGATCTGCTCTACTACAACTTCAGAGAGATAAGATCTGTGATTTATAGCTTTAATCCA
131 TTCGCCATGATCTGCTCTACTACAACTTCAGAGAGATAAGATCTGTGATTTATAGCTTTAATCCA
* *
41503832 TTCCACTTCAACTTTAGGGAAATAAGATTC
196 TTCCACTGCAACTTCAGGGAAATAAGATTC
* *
41503862 GCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC-T-TCACTTCAATCCGCTCCAC
1 GCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTCAATCCGCTCCAC
* *
41503925 TGTAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGTTCCACTACAACTTCAGGGAAATAAGA
66 TGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGTTCCACTACAACTTCAGGGAGATAAGA
41503990 TTCGCCAT
131 TTCGCCAT
41503998 CTTCTTCAAT
Statistics
Matches: 329, Mismatches: 31, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
223 86 0.26
224 4 0.01
225 239 0.73
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (225 bp):
GCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTCAATCCGCTCCAC
TGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGTTCCACTACAACTTCAGGGAGATAAGA
TTCGCCATGATCTGCTCTACTACAACTTCAGAGAGATAAGATCTGTGATTTATAGCTTTAATCCA
TTCCACTGCAACTTCAGGGAAATAAGATTC
Found at i:41509393 original size:23 final size:23
Alignment explanation
Indices: 41509346--41509395 Score: 75
Period size: 24 Copynumber: 2.2 Consensus size: 23
41509336 TGTTTTAAGT
*
41509346 TTTATATGTATTATTATTTGAAA
1 TTTATATGTATCATTATTTGAAA
41509369 TTTATTATGTATCATTATTT-AAA
1 TTTA-TATGTATCATTATTTGAAA
41509392 TTTA
1 TTTA
41509396 GCATATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 11 0.44
24 14 0.56
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (23 bp):
TTTATATGTATCATTATTTGAAA
Found at i:41514094 original size:23 final size:22
Alignment explanation
Indices: 41514051--41514108 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
41514041 TAAGGGCATC
* *
41514051 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
41514072 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
41514095 TGCATATCATATCT
1 TACAAATCATATCT
41514109 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:41514131 original size:17 final size:17
Alignment explanation
Indices: 41514080--41514123 Score: 70
Period size: 19 Copynumber: 2.5 Consensus size: 17
41514070 ATTACAAAAT
41514080 CATATCTTCTAAGATTG
1 CATATCTTCTAAGATTG
41514097 CATATCATATCTAAGATTG
1 CATATC-T-TCTAAGATTG
41514116 CATATCTT
1 CATATCTT
41514124 TAAAGATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.28
18 2 0.08
19 16 0.64
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.41
Consensus pattern (17 bp):
CATATCTTCTAAGATTG
Found at i:41516581 original size:20 final size:22
Alignment explanation
Indices: 41516544--41516583 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
41516534 TTGTATTATT
*
41516544 TTATATTATGTTATTTTATATA
1 TTATATTATGTTAATTTATATA
41516566 TTAT-TTATG-TAATTTATA
1 TTATATTATGTTAATTTATA
41516584 ACATATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 5 0.29
22 4 0.24
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (22 bp):
TTATATTATGTTAATTTATATA
Found at i:41516713 original size:16 final size:16
Alignment explanation
Indices: 41516694--41516743 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
41516684 AAATTTTAAT
41516694 AAATTAAAAATATATA
1 AAATTAAAAATATATA
*
41516710 AAATTATTAAATAT-T-
1 AAATTA-AAAATATATA
41516725 AAATTAAAAATATATA
1 AAATTAAAAATATATA
41516741 AAA
1 AAA
41516744 ATATTTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
14 6 0.21
15 7 0.24
16 10 0.34
17 6 0.21
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAATTAAAAATATATA
Found at i:41516728 original size:24 final size:25
Alignment explanation
Indices: 41516679--41516743 Score: 67
Period size: 31 Copynumber: 2.3 Consensus size: 25
41516669 TGAAGACTAC
41516679 ATATAAAATTTTAATAAATTAAAAAT
1 ATATAAAATTTTAATAAATT-AAAAT
41516705 ATATAAAATTATTAAATATTAAATTAAAAAT
1 ATATAAAATT-TT--A-A-TAAATT-AAAAT
41516736 ATATAAAA
1 ATATAAAA
41516744 ATATTTTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
26 10 0.29
27 2 0.06
29 1 0.03
30 1 0.03
31 20 0.59
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (25 bp):
ATATAAAATTTTAATAAATTAAAAT
Found at i:41516742 original size:15 final size:15
Alignment explanation
Indices: 41516692--41516742 Score: 68
Period size: 15 Copynumber: 3.3 Consensus size: 15
41516682 TAAAATTTTA
41516692 ATAAATTAAAAATAT
1 ATAAATTAAAAATAT
*
41516707 ATAAAATTATTAAATAT
1 AT-AAATTA-AAAATAT
41516724 -TAAATTAAAAATAT
1 ATAAATTAAAAATAT
41516738 ATAAA
1 ATAAA
41516743 AATATTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
14 6 0.19
15 12 0.39
16 7 0.23
17 6 0.19
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
ATAAATTAAAAATAT
Found at i:41521192 original size:17 final size:16
Alignment explanation
Indices: 41521170--41521208 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
41521160 ACCAAATCCA
41521170 AATTTATTTCCCAATTT
1 AATTTATTT-CCAATTT
41521187 AATTTAATTTCCAATTT
1 AATTT-ATTTCCAATTT
41521204 -ATTTA
1 AATTTA
41521209 ATTTTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 1 0.05
16 4 0.19
17 12 0.57
18 4 0.19
ACGTcount: A:0.33, C:0.13, G:0.00, T:0.54
Consensus pattern (16 bp):
AATTTATTTCCAATTT
Found at i:41522139 original size:18 final size:20
Alignment explanation
Indices: 41522116--41522157 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
41522106 TGACTAATGA
41522116 CTTACCAATG-TAT-GATAC
1 CTTACCAATGATATCGATAC
*
41522134 CTTACCAATGATATCGATAT
1 CTTACCAATGATATCGATAC
41522154 CTTA
1 CTTA
41522158 AGTCAAGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.48
19 3 0.14
20 8 0.38
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (20 bp):
CTTACCAATGATATCGATAC
Found at i:41524105 original size:20 final size:20
Alignment explanation
Indices: 41524080--41524129 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
41524070 TGGCTTAAAA
41524080 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
41524100 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
41524117 GTGGTAGTGGATT
1 TTGGTAGTGGATT
41524130 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:41528735 original size:20 final size:20
Alignment explanation
Indices: 41528710--41528759 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
41528700 TGGCTTAAAA
41528710 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
41528730 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
41528747 GTGGTAGTGGATT
1 TTGGTAGTGGATT
41528760 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:41536697 original size:12 final size:13
Alignment explanation
Indices: 41536668--41536697 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
41536658 TAGAGTTTTT
41536668 TTTTTACTTTTAA
1 TTTTTACTTTTAA
41536681 TTTTT-CTTTTAA
1 TTTTTACTTTTAA
41536693 TTTTT
1 TTTTT
41536698 TTCACTTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTACTTTTAA
Found at i:41536721 original size:27 final size:28
Alignment explanation
Indices: 41536665--41536722 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
41536655 TTTTAGAGTT
* *
41536665 TTTTTTTTACTTTTAATTTTTCTTTTAA
1 TTTTTTTCACTTTTAATTTTTCTTTGAA
*
41536693 TTTTTTTCACTTTT-CTTCTTTC-TTGAA
1 TTTTTTTCACTTTTAATT-TTTCTTTGAA
41536720 TTT
1 TTT
41536723 AGTATATGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 9 0.35
28 17 0.65
ACGTcount: A:0.14, C:0.12, G:0.02, T:0.72
Consensus pattern (28 bp):
TTTTTTTCACTTTTAATTTTTCTTTGAA
Found at i:41537025 original size:24 final size:24
Alignment explanation
Indices: 41536978--41537041 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
41536968 ATTAATTTGT
* *
41536978 GTTTCAAATATTAATGTGTATGAG
1 GTTTTAAATATTAATGGGTATGAG
* *
41537002 GTTTTAAATTTTAATGGGTTTGAG
1 GTTTTAAATATTAATGGGTATGAG
*
41537026 CTTTTAAGAGTATTAA
1 GTTTTAA-A-TATTAA
41537042 ATTTAAATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
24 26 0.81
25 1 0.03
26 5 0.16
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.45
Consensus pattern (24 bp):
GTTTTAAATATTAATGGGTATGAG
Found at i:41538555 original size:3 final size:3
Alignment explanation
Indices: 41538547--41538595 Score: 64
Period size: 3 Copynumber: 16.3 Consensus size: 3
41538537 GTGTATAAGT
* *
41538547 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA TTA TATA AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
41538592 ATA A
1 ATA A
41538596 CAAAAATAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.90
4 2 0.05
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:41539960 original size:14 final size:14
Alignment explanation
Indices: 41539924--41539957 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
41539914 TCATCATTTG
*
41539924 CCTATAACAAAAAC
1 CCTATAACCAAAAC
41539938 CCTATAACCAAAAC
1 CCTATAACCAAAAC
41539952 CC-ATAA
1 CCTATAA
41539958 ACCCATATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.53, C:0.32, G:0.00, T:0.15
Consensus pattern (14 bp):
CCTATAACCAAAAC
Found at i:41540846 original size:24 final size:24
Alignment explanation
Indices: 41540814--41540859 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
41540804 TTGAATAATT
41540814 AATTCAATTTT-CAACTTCGAGTCA
1 AATTCAATTTTACAA-TTCGAGTCA
*
41540838 AATTGAATTTTACAATTCGAGT
1 AATTCAATTTTACAATTCGAGT
41540860 TCGAATAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (24 bp):
AATTCAATTTTACAATTCGAGTCA
Found at i:41545197 original size:7 final size:8
Alignment explanation
Indices: 41545178--41545205 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
41545168 TATATTTATT
41545178 TTTTTTAA
1 TTTTTTAA
41545186 TTTTTTAA
1 TTTTTTAA
41545194 TTTTTTAA
1 TTTTTTAA
41545202 TTTT
1 TTTT
41545206 AAAATACTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTTAA
Found at i:41545238 original size:30 final size:26
Alignment explanation
Indices: 41545185--41545246 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 26
41545175 ATTTTTTTTA
*
41545185 ATTTTTTAATTTTTTAATTTTAAAAT
1 ATTTTTTAATTTTTAAATTTTAAAAT
41545211 ACTTTTTTATTATTTTTAAATTTTTAAAAT
1 A-TTTTTTA--ATTTTTAAA-TTTTAAAAT
41545241 ATTTTT
1 ATTTTT
41545247 AAAATACTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
26 1 0.03
27 7 0.23
29 13 0.42
30 10 0.32
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (26 bp):
ATTTTTTAATTTTTAAATTTTAAAAT
Found at i:41545257 original size:12 final size:11
Alignment explanation
Indices: 41545202--41545260 Score: 54
Period size: 11 Copynumber: 5.5 Consensus size: 11
41545192 AATTTTTTAA
41545202 TTTTAAAATACT
1 TTTTAAAATA-T
* *
41545214 TTTT-TATTAT
1 TTTTAAAATAT
41545224 TTTT--AA-AT
1 TTTTAAAATAT
41545232 TTTTAAAATAT
1 TTTTAAAATAT
41545243 TTTTAAAATACT
1 TTTTAAAATA-T
41545255 TTTTAA
1 TTTTAA
41545261 TTTTTTTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
8 6 0.15
9 1 0.03
10 7 0.17
11 15 0.38
12 11 0.28
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:41545263 original size:30 final size:30
Alignment explanation
Indices: 41545195--41545303 Score: 89
Period size: 30 Copynumber: 3.6 Consensus size: 30
41545185 ATTTTTTAAT
* *
41545195 TTTTTAA-TTTTAAAATACTTTTT-TATTA-
1 TTTTTAATTTTTAAAATA-TTTTTAAAATAC
41545223 TTTTTAAATTTTTAAAATATTTTTAAAATAC
1 TTTTT-AATTTTTAAAATATTTTTAAAATAC
**** *
41545254 TTTTTAATTTTTTTTTTAATTTTAAAATAC
1 TTTTTAATTTTTAAAATATTTTTAAAATAC
*
41545284 TTTTTTTAATTTTAAAAATA
1 --TTTTTAATTTTTAAAATA
41545304 AATTTTTAGT
Statistics
Matches: 63, Mismatches: 12, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
28 5 0.08
29 7 0.11
30 33 0.52
31 5 0.08
32 13 0.21
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (30 bp):
TTTTTAATTTTTAAAATATTTTTAAAATAC
Found at i:41545268 original size:41 final size:42
Alignment explanation
Indices: 41545202--41545288 Score: 124
Period size: 41 Copynumber: 2.1 Consensus size: 42
41545192 AATTTTTTAA
*
41545202 TTTTAAAATACTTTTTTA-TTATTTTTAAATTTTTAAAATA-T
1 TTTTAAAATACTTTTTAATTTATTTTTAAA-TTTTAAAATACT
* *
41545243 TTTTAAAATACTTTTTAATTTTTTTTTTAATTTTAAAATACT
1 TTTTAAAATACTTTTTAATTTATTTTTAAATTTTAAAATACT
41545285 TTTT
1 TTTT
41545289 TTAATTTTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
41 27 0.66
42 14 0.34
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (42 bp):
TTTTAAAATACTTTTTAATTTATTTTTAAATTTTAAAATACT
Found at i:41545309 original size:21 final size:20
Alignment explanation
Indices: 41545265--41545310 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
41545255 TTTTAATTTT
**
41545265 TTTTTTAATTTTAAAATACT
1 TTTTTTAATTTTAAAATAAA
41545285 TTTTTTAATTTTAAAAATAAA
1 TTTTTTAATTTT-AAAATAAA
41545306 TTTTT
1 TTTTT
41545311 AGTATTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTTTAATTTTAAAATAAA
Found at i:41550812 original size:68 final size:68
Alignment explanation
Indices: 41550686--41550812 Score: 211
Period size: 67 Copynumber: 1.9 Consensus size: 68
41550676 CCAGTTACTC
* *
41550686 CAACCATATGTTTTGAAGAAGAAAAATGGTGTTTGGCAAGAGAGAAAATGAGAGAAAAAAAATGG
1 CAACCATATGTTTTGAAGAAGAAAAATGGTGTTTGACAAAAGAGAAAATGAGAGAAAAAAAATGG
41550751 CAG
66 CAG
* *
41550754 CAACCATGTGTTTTGAAGAA-AAAAGTGGTGTTTGACAAAAGAGAAAATGAGAGAAAAAA
1 CAACCATATGTTTTGAAGAAGAAAAATGGTGTTTGACAAAAGAGAAAATGAGAGAAAAAA
41550813 TTTTGTTAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
67 36 0.65
68 19 0.35
ACGTcount: A:0.48, C:0.07, G:0.25, T:0.20
Consensus pattern (68 bp):
CAACCATATGTTTTGAAGAAGAAAAATGGTGTTTGACAAAAGAGAAAATGAGAGAAAAAAAATGG
CAG
Found at i:41558791 original size:22 final size:22
Alignment explanation
Indices: 41558766--41558810 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
41558756 TTGAAAGATA
41558766 AAAGAGATTAGAATAATCCTGG
1 AAAGAGATTAGAATAATCCTGG
41558788 AAAGAGATTAGAATAATCCTGG
1 AAAGAGATTAGAATAATCCTGG
41558810 A
1 A
41558811 TTTTATGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.47, C:0.09, G:0.22, T:0.22
Consensus pattern (22 bp):
AAAGAGATTAGAATAATCCTGG
Found at i:41563703 original size:49 final size:50
Alignment explanation
Indices: 41563484--41563725 Score: 378
Period size: 50 Copynumber: 4.8 Consensus size: 50
41563474 GATAATAACA
* ** * *
41563484 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * *
41563535 TGCCCATGCCATATCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
41563585 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
41563635 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-TCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
41563684 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
41563726 TTACCCAAAT
Statistics
Matches: 176, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
49 46 0.26
50 98 0.56
51 32 0.18
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:41563840 original size:13 final size:13
Alignment explanation
Indices: 41563819--41563849 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
41563809 GCTTAGATCA
*
41563819 TCATCAAATAAAT
1 TCATAAAATAAAT
41563832 TCATAAAATAAAT
1 TCATAAAATAAAT
41563845 TCATA
1 TCATA
41563850 GTTGCTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:41564097 original size:30 final size:30
Alignment explanation
Indices: 41564062--41564119 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
41564052 CCTCGACTCT
*
41564062 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
** *
41564092 AACTTTTACATGATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
41564120 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.29, C:0.24, G:0.05, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:41571229 original size:71 final size:72
Alignment explanation
Indices: 41571092--41571243 Score: 261
Period size: 71 Copynumber: 2.1 Consensus size: 72
41571082 TCATTGGTGG
*
41571092 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
41571157 GAGGGGT
66 GAGGGGT
***
41571164 TGCTAAGTGCGATATCCATTGTATCTTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
41571228 GAGGGGT
66 GAGGGGT
41571235 TGCTAAGTG
1 TGCTAAGTG
41571244 ATGATTCCCC
Statistics
Matches: 76, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
71 45 0.59
72 31 0.41
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATCTTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Done.