Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 105 of 185
Found at i:33255053 original size:27 final size:28
Alignment explanation
Indices: 33255023--33255089 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
33255013 AAAAGTGAGA
33255023 GAAAAAGAAAATGA-A-GAAAAGAAAATT
1 GAAAAAGAAAATGAGATGAAAA-AAAATT
** *
33255050 GAAAAAGAATTTGAGATTGAGAAAAAATT
1 GAAAAAGAAAATGAGA-TGAAAAAAAATT
33255079 GAAAAAGAAAA
1 GAAAAAGAAAA
33255090 AGATGTTGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
27 12 0.38
28 1 0.03
29 15 0.47
30 4 0.12
ACGTcount: A:0.66, C:0.00, G:0.19, T:0.15
Consensus pattern (28 bp):
GAAAAAGAAAATGAGATGAAAAAAAATT
Found at i:33255098 original size:29 final size:28
Alignment explanation
Indices: 33255044--33255102 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 28
33255034 TGAAGAAAAG
***
33255044 AAAATTGAAAAAGAATTTGAGATTGAGAA
1 AAAATTGAAAAAGAAAAAGAGATTGA-AA
33255073 AAAATTGAAAAAGAAAAAGATG-TTGAAA
1 AAAATTGAAAAAGAAAAAGA-GATTGAAA
33255101 AA
1 AA
33255103 GAAACGAGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 4 0.15
29 21 0.81
30 1 0.04
ACGTcount: A:0.61, C:0.00, G:0.19, T:0.20
Consensus pattern (28 bp):
AAAATTGAAAAAGAAAAAGAGATTGAAA
Found at i:33257181 original size:27 final size:27
Alignment explanation
Indices: 33257143--33257194 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
33257133 TGTTTGTAGG
* *
33257143 TACATGCATGGACAGCATTGAAGATAA
1 TACATGCATGGACAACAATGAAGATAA
33257170 TACATGCATGGACAACAATGAAGAT
1 TACATGCATGGACAACAATGAAGAT
33257195 GCTTCAATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.42, C:0.15, G:0.21, T:0.21
Consensus pattern (27 bp):
TACATGCATGGACAACAATGAAGATAA
Found at i:33261310 original size:20 final size:20
Alignment explanation
Indices: 33261267--33261311 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
33261257 AAGGAAAACG
* *
33261267 AAAAAGAAAAGAAAAATGAT
1 AAAAAGAAAAGAAAAATCAC
33261287 AAAAAG-AAAGAAAAAATCAC
1 AAAAAGAAAAG-AAAAATCAC
33261307 AAAAA
1 AAAAA
33261312 AATGTGAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.78, C:0.04, G:0.11, T:0.07
Consensus pattern (20 bp):
AAAAAGAAAAGAAAAATCAC
Found at i:33274341 original size:27 final size:28
Alignment explanation
Indices: 33274295--33274348 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
33274285 AGCAGACTTG
* *
33274295 AAAAAAAAAAAAAATTAAAATATTAAAC
1 AAAAAAAAAAAAAATAAAAAAATTAAAC
33274323 AAAAAAAAAAAAAA-AAAAAAATTAAA
1 AAAAAAAAAAAAAATAAAAAAATTAAA
33274349 TATTAACATC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 10 0.42
28 14 0.58
ACGTcount: A:0.85, C:0.02, G:0.00, T:0.13
Consensus pattern (28 bp):
AAAAAAAAAAAAAATAAAAAAATTAAAC
Found at i:33290616 original size:42 final size:40
Alignment explanation
Indices: 33290521--33290833 Score: 457
Period size: 40 Copynumber: 7.8 Consensus size: 40
33290511 ATTTGAATAC
*
33290521 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
33290561 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGACATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG--ATAT
* *
33290603 ATCCGGGCTAAGACTCGCAGGCATTTGTGCGAGTTGACATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG--ATAT
* *
33290645 ATCCGGGCTAAGACCCGCAGGCATGTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
* *
33290685 ATCCGGGCTAAGACCCGCAGGCATGTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
* *
33290725 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
* *
33290765 ATCCGGGCTAAGACCCGAA-GCATTCGTGCGAGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
* * *
33290804 ACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
33290834 TTGTGGTAAT
Statistics
Matches: 253, Mismatches: 17, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
39 33 0.13
40 142 0.56
42 78 0.31
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
Found at i:33290685 original size:82 final size:79
Alignment explanation
Indices: 33290521--33290833 Score: 448
Period size: 82 Copynumber: 3.9 Consensus size: 79
33290511 ATTTGAATAC
* *
33290521 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCA-T
33290586 TGTGCGAGTTGACATAT
65 TGTGCGAGTTG--ATAT
* *
33290603 ATCCGGGCTAAGACTCGCAGGCATTTGTGCGAGTTGACATATATCCGGGCTAAGACCCGCAGGCA
1 ATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTG--ATATATCCGGGCTAAGACCCGAAGGCA
33290668 TGTGTGCGAGTTGATAT
64 T-TGTGCGAGTTGATAT
*
33290685 ATCCGGGCTAAGACCCGCAGGCATGTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGC-AT
*
33290750 TGTGCAAGTTGATAT
65 TGTGCGAGTTGATAT
* * * * *
33290765 ATCCGGGCTAAGACCCG-AAGCATTCGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGC-AT
33290829 TGTGC
65 TGTGC
33290834 TTGTGGTAAT
Statistics
Matches: 213, Mismatches: 14, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
79 46 0.22
80 56 0.26
81 2 0.01
82 71 0.33
83 1 0.00
84 37 0.17
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.23
Consensus pattern (79 bp):
ATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
GTGCGAGTTGATAT
Found at i:33302570 original size:47 final size:47
Alignment explanation
Indices: 33302464--33302751 Score: 422
Period size: 47 Copynumber: 6.2 Consensus size: 47
33302454 CCCTTCGGGA
* * * * * * *
33302464 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
33302511 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33302556 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
33302603 CTTATCACCTATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
33302650 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
33302697 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTTGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33302743 CTT-TCACAT
1 CTTATCACAT
33302752 TCATCACATC
Statistics
Matches: 221, Mismatches: 18, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
45 34 0.15
46 27 0.12
47 160 0.72
ACGTcount: A:0.27, C:0.31, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:33302748 original size:123 final size:123
Alignment explanation
Indices: 33302620--33302862 Score: 423
Period size: 123 Copynumber: 2.0 Consensus size: 123
33302610 CCTATATACA
* * *
33302620 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
1 CTTTCACATTCATCACATCGACCATTAGGCCTTATCACACATATACACTTTCACATTCATCACAT
* *
33302685 CGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTTGG
66 CGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGACCATTTGG
*
33302743 CTTTCACATTCATCACATCGACCATTTGGCCTTATCACACATATACACTTTCACATTCATCACAT
1 CTTTCACATTCATCACATCGACCATTAGGCCTTATCACACATATACACTTTCACATTCATCACAT
*
33302808 CGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACGTCGACCATT
66 CGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGACCATT
33302863 AGGCCTTACT
Statistics
Matches: 113, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
123 113 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.33
Consensus pattern (123 bp):
CTTTCACATTCATCACATCGACCATTAGGCCTTATCACACATATACACTTTCACATTCATCACAT
CGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGACCATTTGG
Found at i:33302756 original size:29 final size:30
Alignment explanation
Indices: 33302714--33302781 Score: 111
Period size: 29 Copynumber: 2.3 Consensus size: 30
33302704 CACATATACA
*
33302714 CTTTCACATTCATCACATCGGCCATTTGG-
1 CTTTCACATTCATCACATCGACCATTTGGC
33302743 CTTTCACATTCATCACATCGACCATTTGGC
1 CTTTCACATTCATCACATCGACCATTTGGC
33302773 CTTATCACA
1 CTT-TCACA
33302782 CATATACACT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
29 28 0.78
30 3 0.08
31 5 0.14
ACGTcount: A:0.24, C:0.32, G:0.10, T:0.34
Consensus pattern (30 bp):
CTTTCACATTCATCACATCGACCATTTGGC
Found at i:33302757 original size:76 final size:76
Alignment explanation
Indices: 33302667--33302815 Score: 271
Period size: 76 Copynumber: 2.0 Consensus size: 76
33302657 CATATATACA
* *
33302667 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACAT
1 CTTTCACATTCATCACATCGACCATTAGGCCTTATCACACATATACACTTTCACATTCATCACAT
33302732 CGGCCATTTGG
66 CGGCCATTTGG
*
33302743 CTTTCACATTCATCACATCGACCATTTGGCCTTATCACACATATACACTTTCACATTCATCACAT
1 CTTTCACATTCATCACATCGACCATTAGGCCTTATCACACATATACACTTTCACATTCATCACAT
33302808 CGGCCATT
66 CGGCCATT
33302816 AGGCCTTATC
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 70 1.00
ACGTcount: A:0.27, C:0.32, G:0.09, T:0.33
Consensus pattern (76 bp):
CTTTCACATTCATCACATCGACCATTAGGCCTTATCACACATATACACTTTCACATTCATCACAT
CGGCCATTTGG
Found at i:33302798 original size:47 final size:47
Alignment explanation
Indices: 33302743--33302870 Score: 229
Period size: 47 Copynumber: 2.7 Consensus size: 47
33302733 GGCCATTTGG
*
33302743 CTTTCACATTCATCACATCGACCATTTGGCCTTATCACACATATACA
1 CTTTCACATTCATCACATCGACCATTAGGCCTTATCACACATATACA
*
33302790 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACA
1 CTTTCACATTCATCACATCGACCATTAGGCCTTATCACACATATACA
*
33302837 CTTTCACATTCATCACGTCGACCATTAGGCCTTA
1 CTTTCACATTCATCACATCGACCATTAGGCCTTA
33302871 CTATCATTTC
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 77 1.00
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTTCACATTCATCACATCGACCATTAGGCCTTATCACACATATACA
Found at i:33304479 original size:40 final size:38
Alignment explanation
Indices: 33304439--33304577 Score: 127
Period size: 40 Copynumber: 3.5 Consensus size: 38
33304429 CATGATTGCT
* *
33304439 CTTCGGGATTTAGCACGGATATATCACTAGCACGAATGC
1 CTTCGGGACTTAGCCCGGATATATCACTAGCAC-AATGC
* * * *
33304478 TCTTCGGAACTTAGCCCGGATTTAGTAACTCGCACCAATGC
1 -CTTCGGGACTTAGCCCGGATATA-TCACTAGCA-CAATGC
* * *
33304519 CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAAGC
1 CTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACAATGC
33304559 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
33304578 CATCATTCAA
Statistics
Matches: 79, Mismatches: 14, Indels: 12
0.75 0.13 0.11
Matches are distributed among these distances:
39 2 0.03
40 57 0.72
41 19 0.24
42 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (38 bp):
CTTCGGGACTTAGCCCGGATATATCACTAGCACAATGC
Found at i:33304920 original size:29 final size:29
Alignment explanation
Indices: 33304881--33304959 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
33304871 CTTAATAATC
*
33304881 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
33304911 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
33304940 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
33304960 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:33305002 original size:43 final size:43
Alignment explanation
Indices: 33304941--33305086 Score: 292
Period size: 43 Copynumber: 3.4 Consensus size: 43
33304931 TGCATTTCAA
33304941 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
33304984 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
33305027 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
33305070 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
33305087 TGAAAACCAA
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 103 1.00
ACGTcount: A:0.27, C:0.36, G:0.15, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:33307216 original size:38 final size:40
Alignment explanation
Indices: 33307166--33307480 Score: 139
Period size: 47 Copynumber: 7.3 Consensus size: 40
33307156 TATACACTTT
33307166 CACATTCA-CACATCGGCCATTAGGCCTTATCACATATATACA
1 CACATT-ATCACATCGGCCATTAGGCCTTATCACATATAT--A
*
33307208 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACCTATATACACTTT
1 ----CACATT-ATCACATCGGCCATTAGGCCTTATCA-C-ATAT--A--TA
*
33307259 CACATTCATCACATCGGCTATTAGGCCTTATCACATATATACA
1 CACATT-ATCACATCGGCCATTAGGCCTTATCACATATAT--A
* *
33307302 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATA
1 ----CACATT-ATCACATCGGCCATTAGGCCTTATCACATATATA
** * **
33307347 CAC-TT-TCACATTCATCACA-TCGGCCATT-TGGC-T-T-T-
1 CACATTATCACA-TCGGC-CATTAGGCC-TTATCACATATATA
* * *
33307382 CACATTCATCACATCGACCATTTGGCCTTATCACACATATACACTTT
1 CACATT-ATCACATCGGCCATTAGGCCTTAT--CACATAT--A--TA
*
33307429 CACATTCATCACATCGGCCATTAGGCCTTATCACACATATA
1 CACATT-ATCACATCGGCCATTAGGCCTTATCACATATATA
33307470 CAC-TT-TCACAT
1 CACATTATCACAT
33307481 TCATCACGTC
Statistics
Matches: 218, Mismatches: 20, Indels: 70
0.71 0.06 0.23
Matches are distributed among these distances:
35 3 0.01
36 7 0.03
37 10 0.05
38 16 0.07
39 11 0.05
40 8 0.04
41 9 0.04
43 2 0.01
45 11 0.05
46 10 0.05
47 124 0.57
48 1 0.00
49 4 0.02
51 1 0.00
53 1 0.00
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (40 bp):
CACATTATCACATCGGCCATTAGGCCTTATCACATATATA
Found at i:33307243 original size:47 final size:47
Alignment explanation
Indices: 33307098--33307386 Score: 431
Period size: 47 Copynumber: 6.2 Consensus size: 47
33307088 CCCTTCGGGA
* * * * * * *
33307098 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
33307145 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33307191 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
33307238 CTTATCACCTATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
33307285 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
33307332 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTTGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33307378 CTT-TCACAT
1 CTTATCACAT
33307387 TCATCACATC
Statistics
Matches: 223, Mismatches: 18, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
45 5 0.02
46 43 0.19
47 175 0.78
ACGTcount: A:0.27, C:0.31, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:33307366 original size:141 final size:140
Alignment explanation
Indices: 33307098--33307386 Score: 429
Period size: 140 Copynumber: 2.1 Consensus size: 140
33307088 CCCTTCGGGA
* * * * * *
33307098 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
*
33307163 TTTCACATTCACACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
66 TTTCACATTCACACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCG
33307228 GCCATTAGGC
131 GCCATTAGGC
* * * * *
33307238 CTTATCACCTATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
*
33307303 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
66 TTTCACATTCA-CACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
*
33307368 GGCCATTTGG-
130 GGCCATTAGGC
33307378 CTT-TCACAT
1 CTTATCACAT
33307387 TCATCACATC
Statistics
Matches: 133, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
139 5 0.04
140 68 0.51
141 60 0.45
ACGTcount: A:0.27, C:0.31, G:0.09, T:0.33
Consensus pattern (140 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCACACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCG
GCCATTAGGC
Found at i:33307390 original size:123 final size:123
Alignment explanation
Indices: 33307255--33307497 Score: 423
Period size: 123 Copynumber: 2.0 Consensus size: 123
33307245 CCTATATACA
* * *
33307255 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
1 CTTTCACATTCATCACATCGACCATTAGGCCTTATCACACATATACACTTTCACATTCATCACAT
* *
33307320 CGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTTGG
66 CGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGACCATTTGG
*
33307378 CTTTCACATTCATCACATCGACCATTTGGCCTTATCACACATATACACTTTCACATTCATCACAT
1 CTTTCACATTCATCACATCGACCATTAGGCCTTATCACACATATACACTTTCACATTCATCACAT
*
33307443 CGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACGTCGACCATT
66 CGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGACCATT
33307498 AGGCCTTACT
Statistics
Matches: 113, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
123 113 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.33
Consensus pattern (123 bp):
CTTTCACATTCATCACATCGACCATTAGGCCTTATCACACATATACACTTTCACATTCATCACAT
CGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGACCATTTGG
Found at i:33307391 original size:29 final size:30
Alignment explanation
Indices: 33307349--33307416 Score: 111
Period size: 29 Copynumber: 2.3 Consensus size: 30
33307339 CACATATACA
*
33307349 CTTTCACATTCATCACATCGGCCATTTGG-
1 CTTTCACATTCATCACATCGACCATTTGGC
33307378 CTTTCACATTCATCACATCGACCATTTGGC
1 CTTTCACATTCATCACATCGACCATTTGGC
33307408 CTTATCACA
1 CTT-TCACA
33307417 CATATACACT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
29 28 0.78
30 3 0.08
31 5 0.14
ACGTcount: A:0.24, C:0.32, G:0.10, T:0.34
Consensus pattern (30 bp):
CTTTCACATTCATCACATCGACCATTTGGC
Found at i:33307392 original size:76 final size:76
Alignment explanation
Indices: 33307302--33307450 Score: 271
Period size: 76 Copynumber: 2.0 Consensus size: 76
33307292 CATATATACA
* *
33307302 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACAT
1 CTTTCACATTCATCACATCGACCATTAGGCCTTATCACACATATACACTTTCACATTCATCACAT
33307367 CGGCCATTTGG
66 CGGCCATTTGG
*
33307378 CTTTCACATTCATCACATCGACCATTTGGCCTTATCACACATATACACTTTCACATTCATCACAT
1 CTTTCACATTCATCACATCGACCATTAGGCCTTATCACACATATACACTTTCACATTCATCACAT
33307443 CGGCCATT
66 CGGCCATT
33307451 AGGCCTTATC
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 70 1.00
ACGTcount: A:0.27, C:0.32, G:0.09, T:0.33
Consensus pattern (76 bp):
CTTTCACATTCATCACATCGACCATTAGGCCTTATCACACATATACACTTTCACATTCATCACAT
CGGCCATTTGG
Found at i:33307433 original size:47 final size:47
Alignment explanation
Indices: 33307378--33307505 Score: 229
Period size: 47 Copynumber: 2.7 Consensus size: 47
33307368 GGCCATTTGG
*
33307378 CTTTCACATTCATCACATCGACCATTTGGCCTTATCACACATATACA
1 CTTTCACATTCATCACATCGACCATTAGGCCTTATCACACATATACA
*
33307425 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACA
1 CTTTCACATTCATCACATCGACCATTAGGCCTTATCACACATATACA
*
33307472 CTTTCACATTCATCACGTCGACCATTAGGCCTTA
1 CTTTCACATTCATCACATCGACCATTAGGCCTTA
33307506 CTATCATTTC
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 77 1.00
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTTCACATTCATCACATCGACCATTAGGCCTTATCACACATATACA
Found at i:33309114 original size:40 final size:38
Alignment explanation
Indices: 33309074--33309212 Score: 127
Period size: 40 Copynumber: 3.5 Consensus size: 38
33309064 CATGATTGCT
* *
33309074 CTTCGGGATTTAGCACGGATATATCACTAGCACGAATGC
1 CTTCGGGACTTAGCCCGGATATATCACTAGCAC-AATGC
* * * *
33309113 TCTTCGGAACTTAGCCCGGATTTAGTAACTCGCACCAATGC
1 -CTTCGGGACTTAGCCCGGATATA-TCACTAGCA-CAATGC
* * *
33309154 CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAAGC
1 CTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACAATGC
33309194 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
33309213 CATCATTCAA
Statistics
Matches: 79, Mismatches: 14, Indels: 12
0.75 0.13 0.11
Matches are distributed among these distances:
39 2 0.03
40 57 0.72
41 19 0.24
42 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (38 bp):
CTTCGGGACTTAGCCCGGATATATCACTAGCACAATGC
Found at i:33309589 original size:28 final size:29
Alignment explanation
Indices: 33309515--33309590 Score: 100
Period size: 28 Copynumber: 2.6 Consensus size: 29
33309505 CTTAATAATC
* *
33309515 AACCACGCACACTTAGTGCCATGTACTTTA
1 AACC-CGCACACTTAGTGCCATGCACTTCA
*
33309545 AACTCGCACACTTAGTGCCATGCA-TTCA
1 AACCCGCACACTTAGTGCCATGCACTTCA
*
33309573 AGCCCGCACACTTAGTGC
1 AACCCGCACACTTAGTGC
33309591 AATCCAACGT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
28 19 0.46
29 19 0.46
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.16, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCACTTCA
Found at i:33309647 original size:43 final size:43
Alignment explanation
Indices: 33309574--33309714 Score: 247
Period size: 43 Copynumber: 3.4 Consensus size: 43
33309564 ATGCATTCAA
33309574 GCCCGCACACTTAGTG-CAA--TC-CAA-CGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
33309612 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
33309655 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
33309698 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
33309715 TGAAAACCAA
Statistics
Matches: 98, Mismatches: 0, Indels: 5
0.95 0.00 0.05
Matches are distributed among these distances:
38 16 0.16
39 3 0.03
41 2 0.02
42 3 0.03
43 74 0.76
ACGTcount: A:0.27, C:0.35, G:0.16, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:33311845 original size:38 final size:40
Alignment explanation
Indices: 33311795--33312109 Score: 139
Period size: 47 Copynumber: 7.3 Consensus size: 40
33311785 TATACACTTT
33311795 CACATTCA-CACATCGGCCATTAGGCCTTATCACATATATACA
1 CACATT-ATCACATCGGCCATTAGGCCTTATCACATATAT--A
*
33311837 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACCTATATACACTTT
1 ----CACATT-ATCACATCGGCCATTAGGCCTTATCA-C-ATAT--A--TA
*
33311888 CACATTCATCACATCGGCTATTAGGCCTTATCACATATATACA
1 CACATT-ATCACATCGGCCATTAGGCCTTATCACATATAT--A
* *
33311931 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATA
1 ----CACATT-ATCACATCGGCCATTAGGCCTTATCACATATATA
** * **
33311976 CAC-TT-TCACATTCATCACA-TCGGCCATT-TGGC-T-T-T-
1 CACATTATCACA-TCGGC-CATTAGGCC-TTATCACATATATA
* * *
33312011 CACATTCATCACATCGACCATTTGGCCTTATCACACATATACACTTT
1 CACATT-ATCACATCGGCCATTAGGCCTTAT--CACATAT--A--TA
*
33312058 CACATTCATCACATCGGCCATTAGGCCTTATCACACATATA
1 CACATT-ATCACATCGGCCATTAGGCCTTATCACATATATA
33312099 CAC-TT-TCACAT
1 CACATTATCACAT
33312110 TCATCACGTC
Statistics
Matches: 218, Mismatches: 20, Indels: 70
0.71 0.06 0.23
Matches are distributed among these distances:
35 3 0.01
36 7 0.03
37 10 0.05
38 16 0.07
39 11 0.05
40 8 0.04
41 9 0.04
43 2 0.01
45 11 0.05
46 10 0.05
47 124 0.57
48 1 0.00
49 4 0.02
51 1 0.00
53 1 0.00
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (40 bp):
CACATTATCACATCGGCCATTAGGCCTTATCACATATATA
Found at i:33311872 original size:47 final size:47
Alignment explanation
Indices: 33311727--33312015 Score: 431
Period size: 47 Copynumber: 6.2 Consensus size: 47
33311717 CCCTTCGGTA
* * * * * * *
33311727 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
33311774 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33311820 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
33311867 CTTATCACCTATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
33311914 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
33311961 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTTGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33312007 CTT-TCACAT
1 CTTATCACAT
33312016 TCATCACATC
Statistics
Matches: 223, Mismatches: 18, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
45 5 0.02
46 43 0.19
47 175 0.78
ACGTcount: A:0.27, C:0.31, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:33311995 original size:141 final size:140
Alignment explanation
Indices: 33311727--33312015 Score: 429
Period size: 140 Copynumber: 2.1 Consensus size: 140
33311717 CCCTTCGGTA
* * * * * *
33311727 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
*
33311792 TTTCACATTCACACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
66 TTTCACATTCACACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCG
33311857 GCCATTAGGC
131 GCCATTAGGC
* * * * *
33311867 CTTATCACCTATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
*
33311932 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
66 TTTCACATTCA-CACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
*
33311997 GGCCATTTGG-
130 GGCCATTAGGC
33312007 CTT-TCACAT
1 CTTATCACAT
33312016 TCATCACATC
Statistics
Matches: 133, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
139 5 0.04
140 68 0.51
141 60 0.45
ACGTcount: A:0.27, C:0.31, G:0.09, T:0.33
Consensus pattern (140 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCACACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCG
GCCATTAGGC
Found at i:33312019 original size:123 final size:123
Alignment explanation
Indices: 33311884--33312126 Score: 423
Period size: 123 Copynumber: 2.0 Consensus size: 123
33311874 CCTATATACA
* * *
33311884 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
1 CTTTCACATTCATCACATCGACCATTAGGCCTTATCACACATATACACTTTCACATTCATCACAT
* *
33311949 CGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTTGG
66 CGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGACCATTTGG
*
33312007 CTTTCACATTCATCACATCGACCATTTGGCCTTATCACACATATACACTTTCACATTCATCACAT
1 CTTTCACATTCATCACATCGACCATTAGGCCTTATCACACATATACACTTTCACATTCATCACAT
*
33312072 CGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACGTCGACCATT
66 CGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGACCATT
33312127 AGGCCTTACT
Statistics
Matches: 113, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
123 113 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.33
Consensus pattern (123 bp):
CTTTCACATTCATCACATCGACCATTAGGCCTTATCACACATATACACTTTCACATTCATCACAT
CGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGACCATTTGG
Found at i:33312020 original size:29 final size:30
Alignment explanation
Indices: 33311978--33312045 Score: 111
Period size: 29 Copynumber: 2.3 Consensus size: 30
33311968 CACATATACA
*
33311978 CTTTCACATTCATCACATCGGCCATTTGG-
1 CTTTCACATTCATCACATCGACCATTTGGC
33312007 CTTTCACATTCATCACATCGACCATTTGGC
1 CTTTCACATTCATCACATCGACCATTTGGC
33312037 CTTATCACA
1 CTT-TCACA
33312046 CATATACACT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
29 28 0.78
30 3 0.08
31 5 0.14
ACGTcount: A:0.24, C:0.32, G:0.10, T:0.34
Consensus pattern (30 bp):
CTTTCACATTCATCACATCGACCATTTGGC
Found at i:33312021 original size:76 final size:76
Alignment explanation
Indices: 33311931--33312079 Score: 271
Period size: 76 Copynumber: 2.0 Consensus size: 76
33311921 CATATATACA
* *
33311931 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACAT
1 CTTTCACATTCATCACATCGACCATTAGGCCTTATCACACATATACACTTTCACATTCATCACAT
33311996 CGGCCATTTGG
66 CGGCCATTTGG
*
33312007 CTTTCACATTCATCACATCGACCATTTGGCCTTATCACACATATACACTTTCACATTCATCACAT
1 CTTTCACATTCATCACATCGACCATTAGGCCTTATCACACATATACACTTTCACATTCATCACAT
33312072 CGGCCATT
66 CGGCCATT
33312080 AGGCCTTATC
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 70 1.00
ACGTcount: A:0.27, C:0.32, G:0.09, T:0.33
Consensus pattern (76 bp):
CTTTCACATTCATCACATCGACCATTAGGCCTTATCACACATATACACTTTCACATTCATCACAT
CGGCCATTTGG
Found at i:33312062 original size:47 final size:47
Alignment explanation
Indices: 33312007--33312134 Score: 229
Period size: 47 Copynumber: 2.7 Consensus size: 47
33311997 GGCCATTTGG
*
33312007 CTTTCACATTCATCACATCGACCATTTGGCCTTATCACACATATACA
1 CTTTCACATTCATCACATCGACCATTAGGCCTTATCACACATATACA
*
33312054 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACA
1 CTTTCACATTCATCACATCGACCATTAGGCCTTATCACACATATACA
*
33312101 CTTTCACATTCATCACGTCGACCATTAGGCCTTA
1 CTTTCACATTCATCACATCGACCATTAGGCCTTA
33312135 CTATCATTTC
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 77 1.00
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTTCACATTCATCACATCGACCATTAGGCCTTATCACACATATACA
Found at i:33315526 original size:40 final size:40
Alignment explanation
Indices: 33315469--33315574 Score: 108
Period size: 40 Copynumber: 2.6 Consensus size: 40
33315459 CCAGCATGAT
* * * *
33315469 TGCTCTTCGGGATTTAGCACGGATATA-TCACTAGCACGAA
1 TGCTCTTCGGAACTTAGC-CGGATATAGTAACTAGCACCAA
* *
33315509 TGCTCTTCGGAACTTAGCCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGAACTTAG-CCGGATATAGTAACTAGCACCAA
*
33315550 TGC-CTTCGGATCTTAGTCCGGATAT
1 TGCTCTTCGGAACTTAG-CCGGATAT
33315575 GGTCACTTAG
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
40 41 0.75
41 14 0.25
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCGGATATAGTAACTAGCACCAA
Found at i:33315949 original size:29 final size:29
Alignment explanation
Indices: 33315910--33315988 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
33315900 CTTAATAATC
*
33315910 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
33315940 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
33315969 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
33315989 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:33316031 original size:43 final size:43
Alignment explanation
Indices: 33315970--33316072 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
33315960 TGCATTTCAA
33315970 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
33316013 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
33316056 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
33316073 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:33318227 original size:47 final size:47
Alignment explanation
Indices: 33318082--33318369 Score: 431
Period size: 47 Copynumber: 6.2 Consensus size: 47
33318072 CCCTTCGGTA
* * * * * * *
33318082 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
33318129 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33318175 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
33318222 CTTATCAC-TATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
33318268 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
33318315 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTTGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33318361 CTT-TCACAT
1 CTTATCACAT
33318370 TCATCACATC
Statistics
Matches: 223, Mismatches: 16, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
45 5 0.02
46 88 0.39
47 130 0.58
ACGTcount: A:0.27, C:0.31, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:33318255 original size:93 final size:94
Alignment explanation
Indices: 33318082--33318369 Score: 431
Period size: 93 Copynumber: 3.1 Consensus size: 94
33318072 CCCTTCGGTA
* * * * * * * * *
33318082 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
33318147 TTTCACATTCA-CACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
33318175 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-TATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
33318239 TTTCACATTCATCACATCGGCTATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
33318268 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
33318333 TTTCACATTCATCACATCGGCCATTTGG-
66 TTTCACATTCATCACATCGGCCATTAGGC
33318361 CTT-TCACAT
1 CTTATCACAT
33318370 TCATCACATC
Statistics
Matches: 179, Mismatches: 14, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
92 26 0.15
93 119 0.66
94 34 0.19
ACGTcount: A:0.27, C:0.31, G:0.09, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:33318370 original size:76 final size:76
Alignment explanation
Indices: 33318285--33318433 Score: 271
Period size: 76 Copynumber: 2.0 Consensus size: 76
33318275 CATATATACA
* *
33318285 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACAT
1 CTTTCACATTCATCACATCGACCATTAGGCCTTATCACACATATACACTTTCACATTCATCACAT
33318350 CGGCCATTTGG
66 CGGCCATTTGG
*
33318361 CTTTCACATTCATCACATCGACCATTTGGCCTTATCACACATATACACTTTCACATTCATCACAT
1 CTTTCACATTCATCACATCGACCATTAGGCCTTATCACACATATACACTTTCACATTCATCACAT
33318426 CGGCCATT
66 CGGCCATT
33318434 AGGCCTTATC
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 70 1.00
ACGTcount: A:0.27, C:0.32, G:0.09, T:0.33
Consensus pattern (76 bp):
CTTTCACATTCATCACATCGACCATTAGGCCTTATCACACATATACACTTTCACATTCATCACAT
CGGCCATTTGG
Found at i:33318370 original size:123 final size:123
Alignment explanation
Indices: 33318238--33318480 Score: 423
Period size: 123 Copynumber: 2.0 Consensus size: 123
33318228 ACTATATACA
* * *
33318238 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
1 CTTTCACATTCATCACATCGACCATTAGGCCTTATCACACATATACACTTTCACATTCATCACAT
* *
33318303 CGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTTGG
66 CGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGACCATTTGG
*
33318361 CTTTCACATTCATCACATCGACCATTTGGCCTTATCACACATATACACTTTCACATTCATCACAT
1 CTTTCACATTCATCACATCGACCATTAGGCCTTATCACACATATACACTTTCACATTCATCACAT
*
33318426 CGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACGTCGACCATT
66 CGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGACCATT
33318481 AGGCCTTACT
Statistics
Matches: 113, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
123 113 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.33
Consensus pattern (123 bp):
CTTTCACATTCATCACATCGACCATTAGGCCTTATCACACATATACACTTTCACATTCATCACAT
CGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGACCATTTGG
Found at i:33318374 original size:29 final size:30
Alignment explanation
Indices: 33318332--33318399 Score: 111
Period size: 29 Copynumber: 2.3 Consensus size: 30
33318322 CACATATACA
*
33318332 CTTTCACATTCATCACATCGGCCATTTGG-
1 CTTTCACATTCATCACATCGACCATTTGGC
33318361 CTTTCACATTCATCACATCGACCATTTGGC
1 CTTTCACATTCATCACATCGACCATTTGGC
33318391 CTTATCACA
1 CTT-TCACA
33318400 CATATACACT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
29 28 0.78
30 3 0.08
31 5 0.14
ACGTcount: A:0.24, C:0.32, G:0.10, T:0.34
Consensus pattern (30 bp):
CTTTCACATTCATCACATCGACCATTTGGC
Found at i:33318416 original size:47 final size:47
Alignment explanation
Indices: 33318361--33318488 Score: 229
Period size: 47 Copynumber: 2.7 Consensus size: 47
33318351 GGCCATTTGG
*
33318361 CTTTCACATTCATCACATCGACCATTTGGCCTTATCACACATATACA
1 CTTTCACATTCATCACATCGACCATTAGGCCTTATCACACATATACA
*
33318408 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACA
1 CTTTCACATTCATCACATCGACCATTAGGCCTTATCACACATATACA
*
33318455 CTTTCACATTCATCACGTCGACCATTAGGCCTTA
1 CTTTCACATTCATCACATCGACCATTAGGCCTTA
33318489 CTATCATTTC
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 77 1.00
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTTCACATTCATCACATCGACCATTAGGCCTTATCACACATATACA
Found at i:33321886 original size:40 final size:40
Alignment explanation
Indices: 33321829--33321934 Score: 108
Period size: 40 Copynumber: 2.6 Consensus size: 40
33321819 CCAGCATGAT
* * * *
33321829 TGCTCTTCGGGATTTAGCACGGATATA-TCACTAGCACGAA
1 TGCTCTTCGGAACTTAGC-CGGATATAGTAACTAGCACCAA
* *
33321869 TGCTCTTCGGAACTTAGCCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGAACTTAG-CCGGATATAGTAACTAGCACCAA
*
33321910 TGC-CTTCGGATCTTAGTCCGGATAT
1 TGCTCTTCGGAACTTAG-CCGGATAT
33321935 GGTCACTTAG
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
40 41 0.75
41 14 0.25
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCGGATATAGTAACTAGCACCAA
Found at i:33322309 original size:29 final size:29
Alignment explanation
Indices: 33322270--33322348 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
33322260 CTTAATAATC
*
33322270 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
33322300 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
33322329 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
33322349 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:33322391 original size:43 final size:43
Alignment explanation
Indices: 33322330--33322432 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
33322320 TGCATTTCAA
33322330 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
33322373 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
33322416 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
33322433 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:33324586 original size:47 final size:47
Alignment explanation
Indices: 33324441--33324864 Score: 647
Period size: 47 Copynumber: 9.1 Consensus size: 47
33324431 CCCTTCGGTA
* * * * * * *
33324441 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
33324488 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33324534 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
33324581 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
33324628 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
33324675 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
33324722 CTTATCACACATATACACTTTCACATTCATCACATCGACCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
33324769 CTTATCAC--ACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
33324814 CTTATCACACATATACACTTTCACATTCATCACGTCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33324861 CTTA
1 CTTA
33324865 CTATCATTTC
Statistics
Matches: 352, Mismatches: 22, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
45 42 0.12
46 40 0.11
47 270 0.77
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:33324799 original size:23 final size:23
Alignment explanation
Indices: 33324729--33324800 Score: 60
Period size: 23 Copynumber: 3.2 Consensus size: 23
33324719 GGCCTTATCA
*
33324729 CACATATACACTTTCACATTCAT
1 CACACATACACTTTCACATTCAT
* ** *
33324752 CACATC-GAC-CATTTGGCCTT-AT
1 CACA-CATACAC-TTTCACATTCAT
33324774 CACACATACACTTTCACATTCAT
1 CACACATACACTTTCACATTCAT
33324797 CACA
1 CACA
33324801 TCGGCCATTA
Statistics
Matches: 35, Mismatches: 9, Indels: 10
0.65 0.17 0.19
Matches are distributed among these distances:
21 1 0.03
22 15 0.43
23 19 0.54
ACGTcount: A:0.32, C:0.33, G:0.04, T:0.31
Consensus pattern (23 bp):
CACACATACACTTTCACATTCAT
Found at i:33328768 original size:21 final size:21
Alignment explanation
Indices: 33328669--33328770 Score: 91
Period size: 21 Copynumber: 5.0 Consensus size: 21
33328659 CACATACATT
33328669 AGAAACTCAATTAAATATATG
1 AGAAACTCAATTAAATATATG
** * *** *
33328690 AGACCCTTAATTTTTTAT-TA
1 AGAAACTCAATTAAATATATG
* * *
33328710 AG-TACTCAATTAAATACATT
1 AGAAACTCAATTAAATATATG
*
33328730 AGAAACTCAATTATATATATG
1 AGAAACTCAATTAAATATATG
33328751 AGAAACTCAATTAAATATAT
1 AGAAACTCAATTAAATATAT
33328771 AAGACCCTTA
Statistics
Matches: 59, Mismatches: 20, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
19 8 0.14
20 6 0.10
21 45 0.76
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.35
Consensus pattern (21 bp):
AGAAACTCAATTAAATATATG
Found at i:33329204 original size:13 final size:13
Alignment explanation
Indices: 33329182--33329215 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
33329172 CAAACATGGA
33329182 GCTAAGTGATACC
1 GCTAAGTGATACC
*
33329195 GCTAATTGATACC
1 GCTAAGTGATACC
*
33329208 ACTAAGTG
1 GCTAAGTG
33329216 CTACAAGTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (13 bp):
GCTAAGTGATACC
Found at i:33336248 original size:12 final size:10
Alignment explanation
Indices: 33336219--33336258 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
33336209 TCAAAAATAG
33336219 TTAAAATTAA
1 TTAAAATTAA
*
33336229 TCAAAATTAA
1 TTAAAATTAA
33336239 CTATAAAATTAA
1 -T-TAAAATTAA
33336251 TTAAAATT
1 TTAAAATT
33336259 CATCACGTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 16 0.62
11 2 0.08
12 8 0.31
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (10 bp):
TTAAAATTAA
Found at i:33336294 original size:19 final size:19
Alignment explanation
Indices: 33336270--33336313 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
33336260 ATCACGTTCA
33336270 TATTTTTA-AATAATTTAAT
1 TATTTTTATAAT-ATTTAAT
33336289 TA-TTTTATAATATTTAAT
1 TATTTTTATAATATTTAAT
33336307 TATTTTT
1 TATTTTT
33336314 CGATAAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 14 0.61
19 9 0.39
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TATTTTTATAATATTTAAT
Found at i:33339329 original size:41 final size:40
Alignment explanation
Indices: 33339279--33339562 Score: 293
Period size: 41 Copynumber: 6.8 Consensus size: 40
33339269 TCTTTGAATG
*
33339279 TAAGGGGTTGCTAAGTG-TAGATTCCCTGTATCATTGATTA
1 TAAGGGGTTGCTAAGTGCT-GATTCCCCGTATCATTGATTA
* *
33339319 TAAGGTGGTTGCTAAGTGCTAATTCCACCGTATCATTGATTG
1 TAAGG-GGTTGCTAAGTGCTGATTCC-CCGTATCATTGATTA
*
33339361 TGAAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTA
1 T--AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTA
* *
33339403 TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTG-TTG
1 TAAGG-GGTTGCTAAGTGCTGATTCC-CCGTATCATTGATTA
* *
33339444 TGAAAGGGGTTGCTATGTGTTGATTCCCCGTATCATTGATTA
1 T--AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTA
* * * **
33339486 TAAGGTGGTTGCTAAGTGTTGATTCCACCGGGATCCTTTGAACA
1 TAAGG-GGTTGCTAAGTGCTGATTCC-CC-GTAT-CATTGATTA
*
33339530 TGAGGTGGTTGCTAAGTGCTGATTCCACCGTAT
1 TAAGG-GGTTGCTAAGTGCTGATTCC-CCGTAT
33339563 AACGGTTAAT
Statistics
Matches: 209, Mismatches: 21, Indels: 25
0.82 0.08 0.10
Matches are distributed among these distances:
40 13 0.06
41 68 0.33
42 63 0.30
43 28 0.13
44 37 0.18
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (40 bp):
TAAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTA
Found at i:33339487 original size:83 final size:84
Alignment explanation
Indices: 33339280--33339515 Score: 402
Period size: 83 Copynumber: 2.8 Consensus size: 84
33339270 CTTTGAATGT
* * * *
33339280 AAGGGGTTGCTAAGTGTAGATTCCCTGTATCATTGATTATAAGGTGGTTGCTAAGTGCTAATTCC
1 AAGGGGTTGCTATGTGTTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCC
33339345 ACCGTATCATTGATTGTGA
66 ACCGTATCATTGATTGTGA
*
33339364 AAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCC
1 AAGGGGTTGCTATGTGTTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCC
*
33339429 ACCGTATCCTTG-TTGTGA
66 ACCGTATCATTGATTGTGA
*
33339447 AAGGGGTTGCTATGTGTTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGTTGATTCC
1 AAGGGGTTGCTATGTGTTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCC
33339512 ACCG
66 ACCG
33339516 GGATCCTTTG
Statistics
Matches: 144, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
83 73 0.51
84 71 0.49
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.36
Consensus pattern (84 bp):
AAGGGGTTGCTATGTGTTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCC
ACCGTATCATTGATTGTGA
Found at i:33343758 original size:30 final size:31
Alignment explanation
Indices: 33343724--33343830 Score: 105
Period size: 31 Copynumber: 3.4 Consensus size: 31
33343714 ATTGCTTAAG
33343724 AAATCAT-CATAAGTATCTTCGAATACTGAA
1 AAATCATCCATAAGTATCTTCGAATACTGAA
* * * *
33343754 AAATCATCCATAA--AACTTAGTTAGATTGCTTAA
1 AAATCATCCATAAGTATCTTCG--A-A-TACTGAA
33343787 GAAATCAT-CATAAGTATCTTCGAATACTGAA
1 -AAATCATCCATAAGTATCTTCGAATACTGAA
33343818 AAATCATCCATAA
1 AAATCATCCATAA
33343831 AACTTCCAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
29 5 0.08
30 14 0.23
31 16 0.27
32 2 0.03
33 11 0.18
34 7 0.12
35 5 0.08
ACGTcount: A:0.44, C:0.17, G:0.09, T:0.30
Consensus pattern (31 bp):
AAATCATCCATAAGTATCTTCGAATACTGAA
Found at i:33343806 original size:64 final size:64
Alignment explanation
Indices: 33343705--33343835 Score: 262
Period size: 64 Copynumber: 2.0 Consensus size: 64
33343695 GCCTTAGTAC
33343705 CTTAGTTAGATTGCTTAAGAAATCATCATAAGTATCTTCGAATACTGAAAAATCATCCATAAAA
1 CTTAGTTAGATTGCTTAAGAAATCATCATAAGTATCTTCGAATACTGAAAAATCATCCATAAAA
33343769 CTTAGTTAGATTGCTTAAGAAATCATCATAAGTATCTTCGAATACTGAAAAATCATCCATAAAA
1 CTTAGTTAGATTGCTTAAGAAATCATCATAAGTATCTTCGAATACTGAAAAATCATCCATAAAA
33343833 CTT
1 CTT
33343836 CCAAATATTT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 67 1.00
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (64 bp):
CTTAGTTAGATTGCTTAAGAAATCATCATAAGTATCTTCGAATACTGAAAAATCATCCATAAAA
Found at i:33362067 original size:82 final size:82
Alignment explanation
Indices: 33361930--33362085 Score: 294
Period size: 82 Copynumber: 1.9 Consensus size: 82
33361920 AAGAATCAGT
*
33361930 CTATACCTTACAAATTAGCTTTACCTCTTGAACTTGAGAAAATTCATAACGTGTTCCATGTTTCA
1 CTATACCTTACAAATTAGCTTTACCTCTTGAACTTGAGAAAATTCATAACGTGTTCCACGTTTCA
33361995 ATGCTAAGACTTCAATG
66 ATGCTAAGACTTCAATG
*
33362012 CTATAGCTTACAAATTAGCTTTACCTCTTGAACTTGAGAAAATTCATAACGTGTTCCACGTTTCA
1 CTATACCTTACAAATTAGCTTTACCTCTTGAACTTGAGAAAATTCATAACGTGTTCCACGTTTCA
33362077 ATGCTAAGA
66 ATGCTAAGA
33362086 GAGTATAGAT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
82 72 1.00
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.35
Consensus pattern (82 bp):
CTATACCTTACAAATTAGCTTTACCTCTTGAACTTGAGAAAATTCATAACGTGTTCCACGTTTCA
ATGCTAAGACTTCAATG
Found at i:33362554 original size:12 final size:12
Alignment explanation
Indices: 33362537--33362561 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33362527 TAGAAGGTGC
33362537 AAAACTTTAGCA
1 AAAACTTTAGCA
33362549 AAAACTTTAGCA
1 AAAACTTTAGCA
33362561 A
1 A
33362562 TCATTGCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.08, T:0.24
Consensus pattern (12 bp):
AAAACTTTAGCA
Found at i:33363588 original size:40 final size:39
Alignment explanation
Indices: 33363482--33363685 Score: 196
Period size: 40 Copynumber: 5.1 Consensus size: 39
33363472 AATTATTGAA
*
33363482 TGAATACACATACGTGCTCCTATTTGTACTTCGGTA-CCC
1 TGAATGCACATACGTGC-CCTATTTGTACTTCGGTACCCC
* * **
33363521 TAAATGCACATATGTGCCCT-TGATTGTACTTTTGTACCCC
1 TGAATGCACATACGTGCCCTAT--TTGTACTTCGGTACCCC
*** *
33363561 TGAATGCACATACGTGACCCTATTTGTACTTTAATACCCT
1 TGAATGCACATACGTG-CCCTATTTGTACTTCGGTACCCC
*
33363601 TGAATGCACATACGTGCCCTTGTTTGTACTTCGGTACCCC
1 TGAATGCACATACGTGCCC-TATTTGTACTTCGGTACCCC
* * * * * *
33363641 GGAATGCACTTACGTGCCCCTATTTATACTCCGGTAACTC
1 TGAATGCACATACGTG-CCCTATTTGTACTTCGGTACCCC
33363681 TGAAT
1 TGAAT
33363686 TATATAATAT
Statistics
Matches: 135, Mismatches: 23, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
37 1 0.01
38 3 0.02
39 28 0.21
40 95 0.70
41 7 0.05
42 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (39 bp):
TGAATGCACATACGTGCCCTATTTGTACTTCGGTACCCC
Found at i:33363685 original size:80 final size:79
Alignment explanation
Indices: 33363483--33363685 Score: 244
Period size: 80 Copynumber: 2.5 Consensus size: 79
33363473 ATTATTGAAT
* * * *
33363483 GAATACACATACGTGCTCCTATTTGTACTTCGGTACCCTAAATGCACATATGTGCCCTTGATTGT
1 GAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCTGAATGCACATACGTGCCCTTGATTGT
** *
33363548 ACTTTTGTACCCCT
66 ACTTCGGTACCCCG
* *** *
33363562 GAATGCACATACGTGACCCTATTTGTACTTTAATACCCTTGAATGCACATACGTGCCCTTGTTTG
1 GAATGCACATACGTGCCCCTATTTGTACTTCGGTACCC-TGAATGCACATACGTGCCCTTGATTG
33363627 TACTTCGGTACCCCG
65 TACTTCGGTACCCCG
* * * *
33363642 GAATGCACTTACGTGCCCCTATTTATACTCCGGTAACTCTGAAT
1 GAATGCACATACGTGCCCCTATTTGTACTTCGGT-ACCCTGAAT
33363686 TATATAATAT
Statistics
Matches: 102, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
79 32 0.31
80 67 0.66
81 3 0.03
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.33
Consensus pattern (79 bp):
GAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCTGAATGCACATACGTGCCCTTGATTGT
ACTTCGGTACCCCG
Found at i:33364453 original size:42 final size:42
Alignment explanation
Indices: 33364396--33364559 Score: 265
Period size: 42 Copynumber: 3.9 Consensus size: 42
33364386 GTTTACAAAC
*
33364396 AAAAACGCCGCTAAAGACCATGTTCTTAAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
*
33364438 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTACAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* *
33364480 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTAGAG
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* **
33364522 AAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTT
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTT
33364560 TTCCCACAAA
Statistics
Matches: 113, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 113 1.00
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.20
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
Found at i:33364493 original size:84 final size:85
Alignment explanation
Indices: 33364387--33364586 Score: 276
Period size: 84 Copynumber: 2.3 Consensus size: 85
33364377 GTTTGCAGCG
33364387 TTTACAAACAAAAACGCCGCTAAAGACCATGTTCTTAAGCGGCGCTTAGAAAAAAACGCCGCTAA
1 TTTAC-AA-AAAAACGCCGCTAAAGACCATGTTCTTAAGCGGCGCTTAGAAAAAAACGCCGCTAA
* **
33364452 AGACCATGTTCTTTAGCGGCGC
64 AGACCAAGACCTTTAGCGGCGC
* * *
33364474 -TTACAAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTAGAGAAAAACGCCGCTAAAG
1 TTTACAAAAAAACGCCGCTAAAGACCATGTTCTTAAGCGGCGCTTAGAAAAAAACGCCGCTAAAG
33364538 ACCAAGACCTTTAGCGGCGC
66 ACCAAGACCTTTAGCGGCGC
* ** * *
33364558 TTTTCCCACAAACGCCGCTAAAGAACATG
1 TTTACAAAAAAACGCCGCTAAAGACCATG
33364587 ACCTTTAGCC
Statistics
Matches: 101, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
84 72 0.71
85 25 0.25
86 4 0.04
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (85 bp):
TTTACAAAAAAACGCCGCTAAAGACCATGTTCTTAAGCGGCGCTTAGAAAAAAACGCCGCTAAAG
ACCAAGACCTTTAGCGGCGC
Found at i:33364590 original size:43 final size:43
Alignment explanation
Indices: 33364394--33364595 Score: 230
Period size: 42 Copynumber: 4.8 Consensus size: 43
33364384 GCGTTTACAA
** * *
33364394 ACAAAAACGCCGCTAAAGACCATGTTCTTAAGCGGCGC-TTAG
1 ACAAAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTAC
* **
33364436 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGC-TTAC
1 ACAAAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTAC
* ** *
33364478 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCG-TTTAG
1 ACAAAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTAC
* * *
33364520 AGAAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTC
1 ACAAAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTAC
* * *
33364563 CCACAAACGCCGCTAAAGAACATGACCTTTAGC
1 ACAAAAACGCCGCTAAAGACCATGACCTTTAGC
33364596 CACGCTTCTT
Statistics
Matches: 143, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
42 112 0.78
43 31 0.22
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.20
Consensus pattern (43 bp):
ACAAAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTAC
Found at i:33364602 original size:43 final size:42
Alignment explanation
Indices: 33364524--33364644 Score: 138
Period size: 43 Copynumber: 2.8 Consensus size: 42
33364514 GTTTAGAGAA
* *
33364524 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTT-TTCCCAC
1 AAACGCCGCTAAAGAAC-AGACCTTTAGCGACGCTTCTT-CCAC
* *
33364567 AAACGCCGCTAAAGAACATGACCTTTAGCCACGCTTCTTTCAC
1 AAACGCCGCTAAAGAACA-GACCTTTAGCGACGCTTCTTCCAC
* *
33364610 AAATGCCGC-AAACGAACAAACCTTTAGCGACGCTT
1 AAACGCCGCTAAA-GAACAGACCTTTAGCGACGCTT
33364645 GTAGCAAAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
42 19 0.28
43 47 0.69
44 2 0.03
ACGTcount: A:0.31, C:0.32, G:0.17, T:0.20
Consensus pattern (42 bp):
AAACGCCGCTAAAGAACAGACCTTTAGCGACGCTTCTTCCAC
Found at i:33368982 original size:146 final size:148
Alignment explanation
Indices: 33368796--33369292 Score: 903
Period size: 147 Copynumber: 3.4 Consensus size: 148
33368786 ATTGCTTACC
*
33368796 TTATGAAAAACGCCGCAAAAAAAATTCATTTTGAACAAAACTATGCTGTTTTGCTATGCTATGCT
1 TTATGAAAAACGCCGCAAAAAAAATTCATTTTGAACAAAACTATGCCGTTTTGCTATGCTATGCT
* *
33368861 AAAAGGGGCTA-TTTTTTAACGTAAAATTATTTTGTGGCGTTTTTTATAAAAACGCCGCTATTAC
66 AAAAGGGGCTATTTTTTTAAAGTAAAATTATTTTGTGGCGTTTTTTATAAAAACGCCGCTATTGC
33368925 TTACCTTTAGCGGCGTTT
131 TTACCTTTAGCGGCGTTT
*
33368943 TTATGAAAAACGCCGC-AAAAAAATTTATTTTGAACAAAACTATGCCGTTTTGCTATGCTATGCT
1 TTATGAAAAACGCCGCAAAAAAAATTCATTTTGAACAAAACTATGCCGTTTTGCTATGCTATGCT
33369007 AAAAGGGGCTATTTTTTTAAAGTAAAATTATTTTGTGGCGTTTTTTATAAAAACGCCGCTATTGC
66 AAAAGGGGCTATTTTTTTAAAGTAAAATTATTTTGTGGCGTTTTTTATAAAAACGCCGCTATTGC
*
33369072 TTACATTTAGCGGCGTTT
131 TTACCTTTAGCGGCGTTT
*
33369090 TTATGAAAAACGCCGC-AAAAAAATTTATTTTGAACAAAACTATGCCGTTTTGCTATGCTATGCT
1 TTATGAAAAACGCCGCAAAAAAAATTCATTTTGAACAAAACTATGCCGTTTTGCTATGCTATGCT
33369154 AAAAGGGGCTATTTTTTTAAAGTAAAATTATTTTGTGGCGTTTTTTATAAAAACGCCGCTATTGC
66 AAAAGGGGCTATTTTTTTAAAGTAAAATTATTTTGTGGCGTTTTTTATAAAAACGCCGCTATTGC
33369219 TTACCTTTAGCGGCG-TT
131 TTACCTTTAGCGGCGTTT
*
33369236 TTATGAAAAACGCCGCAAAAAAAATTCATTTTGAACAAAACTACGCCGTTTTGCTAT
1 TTATGAAAAACGCCGCAAAAAAAATTCATTTTGAACAAAACTATGCCGTTTTGCTAT
33369293 TCTAAATTTT
Statistics
Matches: 340, Mismatches: 8, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
146 75 0.22
147 265 0.78
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.36
Consensus pattern (148 bp):
TTATGAAAAACGCCGCAAAAAAAATTCATTTTGAACAAAACTATGCCGTTTTGCTATGCTATGCT
AAAAGGGGCTATTTTTTTAAAGTAAAATTATTTTGTGGCGTTTTTTATAAAAACGCCGCTATTGC
TTACCTTTAGCGGCGTTT
Found at i:33369914 original size:15 final size:14
Alignment explanation
Indices: 33369899--33369969 Score: 56
Period size: 14 Copynumber: 4.9 Consensus size: 14
33369889 ACCCCTAAAT
*
33369899 CCCTAAACCTTAAAT
1 CCCTAAACCTT-AAC
*
33369914 CTCT-AACTCTTAAC
1 CCCTAAAC-CTTAAC
*
33369928 CCCT-AACATCTAAC
1 CCCTAAACCT-TAAC
*
33369942 CCCTAAACCCCTAAC
1 CCCTAAA-CCTTAAC
33369957 CCCTAAACCTTAA
1 CCCTAAACCTTAA
33369970 ATCCCAACAC
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
13 1 0.02
14 24 0.53
15 19 0.42
16 1 0.02
ACGTcount: A:0.35, C:0.41, G:0.00, T:0.24
Consensus pattern (14 bp):
CCCTAAACCTTAAC
Found at i:33369934 original size:7 final size:7
Alignment explanation
Indices: 33369924--33369962 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
33369914 CTCTAACTCT
33369924 TAACCCC
1 TAACCCC
**
33369931 TAACATC
1 TAACCCC
33369938 TAACCCC
1 TAACCCC
33369945 TAAACCCC
1 T-AACCCC
33369953 TAACCCC
1 TAACCCC
33369960 TAA
1 TAA
33369963 ACCTTAAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 20 0.74
8 7 0.26
ACGTcount: A:0.36, C:0.46, G:0.00, T:0.18
Consensus pattern (7 bp):
TAACCCC
Found at i:33369970 original size:22 final size:22
Alignment explanation
Indices: 33369925--33369986 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 22
33369915 TCTAACTCTT
* *
33369925 AACCCCTAACATCTAACCCCTA
1 AACCCCTAACACCTAAACCCTA
* *
33369947 AACCCCTAACCCCTAAACCTTA
1 AACCCCTAACACCTAAACCCTA
* *
33369969 AATCCC-AACACTTAAACC
1 AACCCCTAACACCTAAACC
33369987 ATAATCCCTA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
21 10 0.30
22 23 0.70
ACGTcount: A:0.39, C:0.44, G:0.00, T:0.18
Consensus pattern (22 bp):
AACCCCTAACACCTAAACCCTA
Found at i:33370027 original size:15 final size:15
Alignment explanation
Indices: 33369981--33370018 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
33369971 TCCCAACACT
33369981 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
*
33369995 T-AATTCATAATCCC
1 TAAATCCATAATCCC
33370009 TAAATCCATA
1 TAAATCCATA
33370019 CTCCTTAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
13 2 0.10
14 11 0.55
15 7 0.35
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:33370292 original size:7 final size:7
Alignment explanation
Indices: 33370280--33370310 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
33370270 TCCCAACCCC
33370280 TAATCCA
1 TAATCCA
33370287 TAATCCA
1 TAATCCA
*
33370294 TAATCCC
1 TAATCCA
33370301 TAATCCA
1 TAATCCA
33370308 TAA
1 TAA
33370311 ACTCTAAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (7 bp):
TAATCCA
Found at i:33370605 original size:71 final size:72
Alignment explanation
Indices: 33370488--33370628 Score: 212
Period size: 71 Copynumber: 2.0 Consensus size: 72
33370478 TTTTTTGGCC
* * * * * *
33370488 GCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTTGGCTT-TTTTTTTTGCGGCGCTTTCTTAA
1 GCTAAATCCCCAAAAGCCCACAAAACAGCGTCGTTGGGCTTATTTTTTTTCCGGCGCTTTCTCAA
33370552 AAACGTT
66 AAACGTT
*
33370559 GCTAAATCCCCAAAAGCCCACAAAACAGCGTTGTTGGGCTTATTTTTTTTCCGGCGCTTTCTCAA
1 GCTAAATCCCCAAAAGCCCACAAAACAGCGTCGTTGGGCTTATTTTTTTTCCGGCGCTTTCTCAA
33370624 AAACG
66 AAACG
33370629 CCGCTAAAGC
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
71 36 0.58
72 26 0.42
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (72 bp):
GCTAAATCCCCAAAAGCCCACAAAACAGCGTCGTTGGGCTTATTTTTTTTCCGGCGCTTTCTCAA
AAACGTT
Found at i:33370868 original size:114 final size:114
Alignment explanation
Indices: 33370537--33371088 Score: 842
Period size: 114 Copynumber: 4.9 Consensus size: 114
33370527 TTTTTTTTTT
** * *
33370537 GCGGCGCTTTCTTAAAAACGTTGCTAAATCCCCAAAAGCCCACAAAACAGCGTTGTTGGGCTTAT
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCCCACAAAACGGCGTCGTTGGGCTTAT
* * * *
33370602 -TTTTTTTCCGGCGCTTTCTCAAAAACGCCGCTAAAGCACTAAGCATTA
66 GTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGACCATTA
* * *
33370650 GTGGCGCTTTCTTAAAAGCGCCGCTAAAT-CCCAAAAGCCCACAAAACGACGTCGTTGGGCTTAT
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCCCACAAAACGGCGTCGTTGGGCTTAT
*
33370714 -TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
66 GTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGACCATTA
* * *
33370762 GTGGCGCTTTCTTAAAAACGTCGCTAAATCCCCAAAAGCCCACAAAACGGCGCCGTTGGGCTTAT
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCCCACAAAACGGCGTCGTTGGGCTTAT
*
33370827 GTTTTTTTGTGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGACCATTA
66 GTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGACCATTA
*
33370876 GCGGCGCTTTTTTAAAAACGCCGCTAAATCCCCAAAAGCCCACAAAACGGCGTCGTTGGGCTTAT
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCCCACAAAACGGCGTCGTTGGGCTTAT
*
33370941 GTTTTTTTGCGGTGCTTTCTCAAAAACGCCGCTAAAGCCCTGACCATTA
66 GTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGACCATTA
* ** *
33370990 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCTCTGAAAACGGCGTCATTGGGCTTA-
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCCCACAAAACGGCGTCGTTGGGCTTAT
* * **
33371054 GGTTTTTTGCGGCGCTTTTTGGAAAACGCCGCTAA
66 GTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAA
33371089 TGCTTATTTT
Statistics
Matches: 405, Mismatches: 32, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
112 104 0.26
113 88 0.22
114 213 0.53
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.26
Consensus pattern (114 bp):
GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCCCACAAAACGGCGTCGTTGGGCTTAT
GTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGACCATTA
Found at i:33379484 original size:13 final size:13
Alignment explanation
Indices: 33379466--33379496 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
33379456 CCATATTCCC
33379466 TTAAAGTCCCATA
1 TTAAAGTCCCATA
33379479 TTAAAGTCCCATA
1 TTAAAGTCCCATA
33379492 TTAAA
1 TTAAA
33379497 TTAAACCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.42, C:0.19, G:0.06, T:0.32
Consensus pattern (13 bp):
TTAAAGTCCCATA
Found at i:33384188 original size:40 final size:40
Alignment explanation
Indices: 33384157--33384368 Score: 243
Period size: 40 Copynumber: 5.3 Consensus size: 40
33384147 GGACTAAGAT
33384157 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
33384197 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
* *
33384237 CCGAAGGCCTTTGTGCGAGATACTAAATT-CGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
* * * * **
33384277 CCGAAGGCATTCGTGCGAGTTATTAAA-TCCGGGTTATGTT
1 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCC
* * * * * *
33384317 CCGAAGGCA-TTGTGTGAGTTACTAAA-ACCGGGATATGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
33384356 CCGAAGGCATTTG
1 CCGAAGGCATTTG
33384369 AACGAGGAGC
Statistics
Matches: 153, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
39 33 0.22
40 115 0.75
41 5 0.03
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
Found at i:33392163 original size:40 final size:40
Alignment explanation
Indices: 33392132--33392341 Score: 232
Period size: 40 Copynumber: 5.3 Consensus size: 40
33392122 GGACTAAGAT
* *
33392132 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAATTCCGGGTTAAGTC
* *
33392172 CCGAAGGCCTTTGTGCGAGATACTAAATT-CGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATTCCGGGTTAAGTC
* *
33392212 CCGAAGGCATTCGTGCGAGTTATTAAA-TCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATTCCGGGTTAAGTC
* *
33392252 CCGAAGGCATTCGTGCGAGTTATTAAA-TCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATTCCGGGTTAAGTC
* * * * *
33392292 CCGAAGGCATT-GTGTGAGTTACTAAA-ACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATTCCGGGTTAAGTC
33392331 CCGAAGGCATT
1 CCGAAGGCATT
33392342 TGAACGAGGA
Statistics
Matches: 155, Mismatches: 11, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
39 34 0.22
40 116 0.75
41 5 0.03
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATACAAATTCCGGGTTAAGTC
Found at i:33392361 original size:79 final size:80
Alignment explanation
Indices: 33392080--33392376 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
33392070 TGAATGCTGT
* ** * * * **
33392080 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
33392143 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * ** *
33392160 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATTCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
33392224 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * *
33392240 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
33392304 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
33392319 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
33392377 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 16 0.09
79 47 0.26
80 109 0.60
81 11 0.06
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:33394189 original size:44 final size:44
Alignment explanation
Indices: 33394107--33394194 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
33394097 ATTATTGCAA
*
33394107 TATTTGGTTATACAAAATTAGGTGAAAGCTCCAAAAGAGTTAAT
1 TATTTGGTTATACAAAATTAGGTGAAAGCTCCAAAAGAGCTAAT
* * * *
33394151 TATTTGG-TAGTACAAAATTTGTTGAAAGCTCTAGAAGAGCTAAT
1 TATTTGGTTA-TACAAAATTAGGTGAAAGCTCCAAAAGAGCTAAT
33394195 ATATCAATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
43 2 0.05
44 36 0.95
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (44 bp):
TATTTGGTTATACAAAATTAGGTGAAAGCTCCAAAAGAGCTAAT
Found at i:33398688 original size:35 final size:33
Alignment explanation
Indices: 33398648--33398755 Score: 98
Period size: 35 Copynumber: 3.2 Consensus size: 33
33398638 TCTATTTATT
33398648 TATTATTCTTTTACTTTTTAAATATTTATATTTAA
1 TATTATT-TTTTACTTTTTAAATATTTA-ATTTAA
** * *
33398683 TATTA-TTTTTA--TTTTATTTA-TCAATTTATT
1 TATTATTTTTTACTTTTTAAATATTTAATTTA-A
*
33398713 TATTATTATTTTACTTTTTAAATATTTAAATTTGA
1 TATTATT-TTTTACTTTTTAAATATTT-AATTTAA
33398748 TATTATTT
1 TATTATTT
33398756 ATATTTGTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 15
0.70 0.11 0.19
Matches are distributed among these distances:
29 5 0.09
30 7 0.12
31 8 0.14
32 5 0.09
33 5 0.09
34 9 0.16
35 13 0.23
36 5 0.09
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.65
Consensus pattern (33 bp):
TATTATTTTTTACTTTTTAAATATTTAATTTAA
Found at i:33398700 original size:27 final size:26
Alignment explanation
Indices: 33398670--33398725 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
33398660 ACTTTTTAAA
*
33398670 TATTTAT-ATTTAATATTATTTTTATTT
1 TATTTATAATTT-AT-TTATTATTATTT
33398697 TATTTATCAATTTATTTATTATTATTT
1 TATTTAT-AATTTATTTATTATTATTT
33398724 TA
1 TA
33398726 CTTTTTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 20 0.77
28 2 0.08
29 4 0.15
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (26 bp):
TATTTATAATTTATTTATTATTATTT
Found at i:33398713 original size:33 final size:32
Alignment explanation
Indices: 33398612--33398819 Score: 106
Period size: 33 Copynumber: 6.5 Consensus size: 32
33398602 AAACATTCAA
* * *
33398612 ATTTGATATTATTTATATTTGTTTTATCTATTT
1 ATTTAATATTATTTTTATTT-TTTTATCAATTT
* * ** *
33398645 ATTTATTATT-CTTTTACTTTTTAAAT-ATTTAT
1 ATTTAATATTATTTTTA-TTTTTTTATCAATT-T
33398677 ATTTAATATTATTTTTATTTTATTTATCAATTT
1 ATTTAATATTATTTTTATTTT-TTTATCAATTT
* * *
33398710 ATTTATTATTA-TTTTA-CTTTTTA-AATATTT
1 ATTTAATATTATTTTTATTTTTTTATCA-ATTT
* * *
33398740 AAATTTGATATTATTTATATTTGTTTTATCTATTT
1 --ATTTAATATTATTTTTATTT-TTTTATCAATTT
* * * **
33398775 ATTTATTATT-CTTTTA-CTTTTTATTTATTT
1 ATTTAATATTATTTTTATTTTTTTATCAATTT
* *
33398805 ATTTATTATTCTTTT
1 ATTTAATATTATTTT
33398820 AAAATATTTA
Statistics
Matches: 133, Mismatches: 29, Indels: 28
0.70 0.15 0.15
Matches are distributed among these distances:
29 1 0.01
30 29 0.22
31 8 0.06
32 40 0.30
33 42 0.32
34 4 0.03
35 9 0.07
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.67
Consensus pattern (32 bp):
ATTTAATATTATTTTTATTTTTTTATCAATTT
Found at i:33398732 original size:22 final size:22
Alignment explanation
Indices: 33398620--33398803 Score: 73
Period size: 22 Copynumber: 8.4 Consensus size: 22
33398610 AAATTTGATA
* *
33398620 TTATTTA-TATTTGTTTTATCTAT
1 TTATTTATTA-TTATTTTA-CTTT
*
33398643 TTATTTATTATTCTTTTACTTT
1 TTATTTATTATTATTTTACTTT
** *
33398665 TTAAATATT-TATATTTAATA-TTA
1 TTATTTATTAT-TATTT--TACTTT
**
33398688 TT-TTTATT-TTA-TTTATCAAT
1 TTATTTATTATTATTTTA-CTTT
33398708 TTATTTATTATTATTTTACTTT
1 TTATTTATTATTATTTTACTTT
** * * *
33398730 TTAAATATT-TAAATTTGA--TA
1 TTATTTATTAT-TATTTTACTTT
* *
33398750 TTATTTA-TATTTGTTTTATCTAT
1 TTATTTATTA-TTATTTTA-CTTT
*
33398773 TTATTTATTATTCTTTTACTTT
1 TTATTTATTATTATTTTACTTT
33398795 TTATTTATT
1 TTATTTATT
33398804 TATTTATTAT
Statistics
Matches: 118, Mismatches: 27, Indels: 33
0.66 0.15 0.19
Matches are distributed among these distances:
18 2 0.02
19 1 0.01
20 14 0.12
21 11 0.09
22 48 0.41
23 36 0.31
24 6 0.05
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (22 bp):
TTATTTATTATTATTTTACTTT
Found at i:33398752 original size:32 final size:31
Alignment explanation
Indices: 33398580--33398841 Score: 113
Period size: 32 Copynumber: 8.4 Consensus size: 31
33398570 TATTTTATCT
* * * *
33398580 ATTTGTTATTCTTTTACTTTTTAAACATTCAA
1 ATTTGATATTATTTTACTTTTTAAATATT-TA
* **
33398612 ATTTGATATTATTTATATTTGTTTTATCTATTT-
1 ATTTGATATTATTT-TA-CT-TTTTAAATATTTA
*
33398645 ATTT-ATTATTCTTTTACTTTTTAAATATTTA
1 ATTTGA-TATTATTTTACTTTTTAAATATTTA
* **
33398676 TATTTAATATTATTTTTA-TTTTATTTATCAATTT-
1 -ATTTGATATTA-TTTTACTTTT-TAAAT--ATTTA
33398710 ATTT-ATTATTATTTTACTTTTTAAATATTTAA
1 ATTTGA-TATTATTTTACTTTTTAAATATTT-A
* **
33398742 ATTTGATATTATTTATATTTGTTTTATCTATTT-
1 ATTTGATATTATTT-TA-CT-TTTTAAATATTTA
*
33398775 ATTT-ATTATTCTTTTAC-TTTT---TATTT-
1 ATTTGA-TATTATTTTACTTTTTAAATATTTA
*
33398801 ATTT-AT-TTATTATT-CTTTTAAAATATTTAA
1 ATTTGATATTATT-TTACTTTTTAAATATTT-A
33398831 ATTTGATATTA
1 ATTTGATATTA
33398842 CTTATATTTC
Statistics
Matches: 178, Mismatches: 23, Indels: 58
0.69 0.09 0.22
Matches are distributed among these distances:
24 5 0.03
25 6 0.03
26 10 0.06
28 5 0.03
29 4 0.02
30 18 0.10
31 3 0.02
32 54 0.30
33 49 0.28
34 2 0.01
35 22 0.12
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (31 bp):
ATTTGATATTATTTTACTTTTTAAATATTTA
Found at i:33398805 original size:65 final size:65
Alignment explanation
Indices: 33398579--33398797 Score: 350
Period size: 65 Copynumber: 3.4 Consensus size: 65
33398569 TTATTTTATC
* * *
33398579 TATTTGTTATTCTTTTACTTTTTAAACATTCAAATTTGATATTATTTATATTTGTTTTATCTATT
1 TATTTATTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATTTATATTTGTTTTATCTATT
* * * *
33398644 TATTTATTATTCTTTTACTTTTTAAATATTTATATTTAATATTATTTTTATTT-TATTTATCAAT
1 TATTTATTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATTTATATTTGT-TTTATCTAT
33398708 T
65 T
*
33398709 TATTTATTATTATTTTACTTTTTAAATATTTAAATTTGATATTATTTATATTTGTTTTATCTATT
1 TATTTATTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATTTATATTTGTTTTATCTATT
33398774 TATTTATTATTCTTTTACTTTTTA
1 TATTTATTATTCTTTTACTTTTTA
33398798 TTTATTTATT
Statistics
Matches: 139, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
64 1 0.01
65 137 0.99
66 1 0.01
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.65
Consensus pattern (65 bp):
TATTTATTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATTTATATTTGTTTTATCTATT
Found at i:33398806 original size:23 final size:24
Alignment explanation
Indices: 33398750--33398807 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
33398740 AAATTTGATA
* *
33398750 TTATTTATAT-TTGTTTTATCTAT
1 TTATTTATTTATTCTTTTATCTAT
*
33398773 TTATTTA-TTATTCTTTTA-CTTT
1 TTATTTATTTATTCTTTTATCTAT
33398795 TTATTTATTTATT
1 TTATTTATTTATT
33398808 TATTATTCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 11 0.37
23 19 0.63
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.72
Consensus pattern (24 bp):
TTATTTATTTATTCTTTTATCTAT
Found at i:33398815 original size:30 final size:30
Alignment explanation
Indices: 33398633--33398820 Score: 162
Period size: 30 Copynumber: 5.9 Consensus size: 30
33398623 TTTATATTTG
33398633 TTTTATCTATTTATTTATTATTCTTTTACT
1 TTTTATCTATTTATTTATTATTCTTTTACT
** * * *
33398663 TTTTAAATATTTATATTTAATATTATTTTTATTT
1 TTTTATCTA-TT-TATTTATTATT-CTTTTA-CT
* *
33398697 TATTTATCAATTTATTTATTATTATTTTACT
1 T-TTTATCTATTTATTTATTATTCTTTTACT
** * *
33398728 TTTTAAATATTTAAATTTGA-TATTATTTATATTT
1 TTTTATCTATTT--ATTT-ATTATTCTTT-TA-CT
33398762 GTTTTATCTATTTATTTATTATTCTTTTACT
1 -TTTTATCTATTTATTTATTATTCTTTTACT
*
33398793 TTTTATTTATTTATTTATTATTCTTTTA
1 TTTTATCTATTTATTTATTATTCTTTTA
33398821 AAATATTTAA
Statistics
Matches: 126, Mismatches: 20, Indels: 24
0.74 0.12 0.14
Matches are distributed among these distances:
30 42 0.33
31 5 0.04
32 30 0.24
33 29 0.23
34 5 0.04
35 15 0.12
ACGTcount: A:0.27, C:0.05, G:0.01, T:0.68
Consensus pattern (30 bp):
TTTTATCTATTTATTTATTATTCTTTTACT
Found at i:33398874 original size:89 final size:87
Alignment explanation
Indices: 33398707--33398878 Score: 224
Period size: 89 Copynumber: 2.0 Consensus size: 87
33398697 TATTTATCAA
* * *
33398707 TTTATTTATTATTATTTTACTTTTTAAATATTTAAATTTGATATTATTTATATTTGTTTTATCTA
1 TTTATTTATTATTATTTTACTTTTAAAATATTTAAATTTGATATTACTTATATTTCTTTTATCTA
***
33398772 TTTATTTATTATTCTTTTACTT
66 AGCATTTATTATTCTTTTACTT
33398794 TTTATTTATTTATTTATTATT-CTTTTAAAATATTTAAATTTGATATTACTTATATTTCCTTTTC
1 TTTATTTA-TTA-TTATT-TTACTTTTAAAATATTTAAATTTGATATTACTTATATTT-CTTTT-
33398858 AT-TAAGCATTTA-TATTCTTTT
61 ATCTAAGCATTTATTATTCTTTT
33398879 TTTTGCCCTT
Statistics
Matches: 74, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
87 8 0.11
88 3 0.04
89 48 0.65
90 13 0.18
91 2 0.03
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.64
Consensus pattern (87 bp):
TTTATTTATTATTATTTTACTTTTAAAATATTTAAATTTGATATTACTTATATTTCTTTTATCTA
AGCATTTATTATTCTTTTACTT
Found at i:33401231 original size:125 final size:124
Alignment explanation
Indices: 33400938--33401458 Score: 735
Period size: 125 Copynumber: 4.2 Consensus size: 124
33400928 CCCAAACATG
* * *
33400938 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGGTTTCACAAATTCTTCTC-AATAGCATCATGC
1 CTACTGTAGCAAAAGCGCGTCCACGAAGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * *
33401002 T-GAAGAGATTTTATACTATTTGCTCAGAAACATCAAGTCAAAATTATTTTTTCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACATCAAGTCGAAATTATTTTTCCAGGAC
* * *
33401060 CTACTGTAGCAAAAGCGCATCCAC-AAGGGCGCGATTGCATAAATTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAA-GGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTG
* *
33401124 CTAGAAGCGATTTTATACTATTTACTCAGAAACGTCAAGTCGAAATTATTTCTTCCAGGAC
65 CTAGAAGCGATTTTATACTATTTGCTCAGAAACATCAAGTCGAAATTATTT-TTCCAGGAC
* * *
33401185 CTACTATAGCAAAAGCGCGTCCACGAAGGCACGATTTCACAAATTCTTCTCAAATAGGATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAAGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
33401250 TAGAAGCGATTTTATACTATTTGCTCAGAAACATCAAGTCGAAATTATTTCTTCCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACATCAAGTCGAAATTATTT-TTCCAGGAC
* * * * *
33401310 CTACTGTAGCAAAAGCGCGTCGACG-AGAGCGCGATTTTATAAATTCTTATCAAACAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAAG-GCGCGATTTCACAAATTCTTCTCAAATAGCATCCTG
* * * * *
33401374 CTAGAAGCGATTTTATACTATTTGCCCAGAAACGTCAACTCGAAATTATTTTTTCAAGAC
65 CTAGAAGCGATTTTATACTATTTGCTCAGAAACATCAAGTCGAAATTATTTTTCCAGGAC
* * *
33401434 CTACTATAGCAAAAGTGCGTACACG
1 CTACTGTAGCAAAAGCGCGTCCACG
33401459 TGGGTGCGAC
Statistics
Matches: 357, Mismatches: 36, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
121 1 0.00
122 44 0.12
123 13 0.04
124 74 0.21
125 223 0.62
126 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.28
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACGAAGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACATCAAGTCGAAATTATTTTTCCAGGAC
Found at i:33402236 original size:30 final size:30
Alignment explanation
Indices: 33402200--33402258 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
33402190 TTGATTTTAT
*
33402200 GTGTAATCT-TATACACAAAATTTTAATTTG
1 GTGTAAT-TATATACACAAAACTTTAATTTG
**
33402230 GTGTAATTATATACATGAAACTTTAATTT
1 GTGTAATTATATACACAAAACTTTAATTT
33402259 TGATTCAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.44
Consensus pattern (30 bp):
GTGTAATTATATACACAAAACTTTAATTTG
Found at i:33402450 original size:29 final size:30
Alignment explanation
Indices: 33402397--33402475 Score: 83
Period size: 29 Copynumber: 2.7 Consensus size: 30
33402387 AAATTGAATC
33402397 AAAT-CAAATTTCATGTATAAAATTACACA-
1 AAATCCAAATTT-ATGTATAAAATTACACAT
** *
33402426 AAATCCAAATTTATGTATACTATTACATAT
1 AAATCCAAATTTATGTATAAAATTACACAT
*
33402456 AAAACCAAA-TTATTGTATAA
1 AAATCCAAATTTA-TGTATAA
33402476 TTTTGAAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
29 21 0.50
30 21 0.50
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.34
Consensus pattern (30 bp):
AAATCCAAATTTATGTATAAAATTACACAT
Found at i:33402464 original size:30 final size:29
Alignment explanation
Indices: 33402401--33402475 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 29
33402391 TGAATCAAAT
*
33402401 CAAATTTCATGTATAAAATTACACAAAATC
1 CAAATTT-ATGTATAAAATTACACAAAAAC
** *
33402431 CAAATTTATGTATACTATTACATATAAAAC
1 CAAATTTATGTATAAAATTACACA-AAAAC
33402461 CAAA-TTATTGTATAA
1 CAAATTTA-TGTATAA
33402476 TTTTGAAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
29 17 0.45
30 21 0.55
ACGTcount: A:0.48, C:0.13, G:0.04, T:0.35
Consensus pattern (29 bp):
CAAATTTATGTATAAAATTACACAAAAAC
Found at i:33417595 original size:40 final size:40
Alignment explanation
Indices: 33417512--33417774 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
33417502 TTGAATGCTG
* * * * * *
33417512 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
** * * *
33417552 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATATTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
33417592 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
33417632 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
33417672 TTCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
33417712 TCCGGGTTAAGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
33417751 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
33417775 TGAACGAGGA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 34 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:33425570 original size:40 final size:39
Alignment explanation
Indices: 33425533--33425756 Score: 202
Period size: 40 Copynumber: 5.6 Consensus size: 39
33425523 ATATCCGGAC
33425533 TAAGATCCGAAGGCATTTGTACGAGATAC-AAATTCCGGGT
1 TAAG-TCCGAAGGCATTTGTACGAGATACTAAA-TCCGGGT
* * *
33425573 TAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCGAAGGCATTTGTACGAGATACTAAATCCGGGT
* * * *
33425613 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTACGAGATACTAAATCCGGGT
* * * *
33425653 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTACGAGATACTAAATCCGGGT
* * * *
33425693 TAAGTCCCGAAGGCGTTGTGT--GAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATT-TGTACGAGATACTAAATCCGGGT
* *
33425732 TATGTCCCGAAGGCATTTGAACGAG
1 TAAGT-CCGAAGGCATTTGTACGAG
33425757 GAGCTATATC
Statistics
Matches: 162, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
38 2 0.01
39 30 0.19
40 125 0.77
41 5 0.03
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTACGAGATACTAAATCCGGGT
Found at i:33425623 original size:80 final size:80
Alignment explanation
Indices: 33425539--33425706 Score: 239
Period size: 80 Copynumber: 2.1 Consensus size: 80
33425529 GGACTAAGAT
* * *
33425539 CCGAAGGCATTTGTACGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTCGTACGAGATATCAAA-TCCGGGTTAAGCCCCGAAGGCATTCGTGCGAGATACT
33425603 AAATCCGGGTTAAGTC
65 AAATCCGGGTTAAGTC
* * * * * *
33425619 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTA
1 CCGAAGGCATTCGTACGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTCGTGCGAGATACTA
33425684 AATCCGGGTTAAGTC
66 AATCCGGGTTAAGTC
33425699 CCGAAGGC
1 CCGAAGGC
33425707 GTTGTGTGAG
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
80 75 0.96
81 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (80 bp):
CCGAAGGCATTCGTACGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTCGTGCGAGATACTA
AATCCGGGTTAAGTC
Found at i:33425702 original size:120 final size:120
Alignment explanation
Indices: 33425486--33425748 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
33425476 TTGAATGCTG
* *
33425486 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
33425550 TGTACGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTACGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CGTTGTGCGAGATACTAAA
* * * * **
33425606 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
33425669 TCGTGCGAGTTATTAAA-TCCGGGTTAAGTCCCGAAGGCGTTGTGTGAGTTACTAAA
65 TCGTACGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCGTTGTGCGAGATACTAAA
* *
33425725 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
33425749 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTACGAGATACAAATTCCGGGTTAAGCCCCGAAGGCGTTGTGCGAGATACTAAA
Found at i:33425768 original size:79 final size:80
Alignment explanation
Indices: 33425487--33425783 Score: 221
Period size: 80 Copynumber: 3.7 Consensus size: 80
33425477 TGAATGCTGT
* ** * * * **
33425487 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * * *
33425550 TGTACGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
33425567 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
33425631 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
33425647 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCGTT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
33425711 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
33425726 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
33425784 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 16 0.09
79 47 0.26
80 109 0.60
81 11 0.06
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:33430643 original size:8 final size:7
Alignment explanation
Indices: 33430616--33430641 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
33430606 TTAATCCCTC
33430616 TTTTTAA
1 TTTTTAA
33430623 TTTTTAA
1 TTTTTAA
33430630 TTTTTAA
1 TTTTTAA
33430637 TTTTT
1 TTTTT
33430642 TATGGTTTTT
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTAA
Found at i:33432676 original size:18 final size:18
Alignment explanation
Indices: 33432645--33432697 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
33432635 GCAATATATG
33432645 TAAAAATA-ATTTAAAATA
1 TAAAAATATA-TTAAAATA
* *
33432663 TAAAAATTTATTAATATA
1 TAAAAATATATTAAAATA
*
33432681 TAATAATATATGTAAAA
1 TAAAAATATAT-TAAAA
33432698 ACAACTTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 23 0.82
19 5 0.18
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
TAAAAATATATTAAAATA
Found at i:33432813 original size:20 final size:20
Alignment explanation
Indices: 33432788--33432827 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
33432778 AATAATTTCC
*
33432788 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
33432808 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
33432828 TTATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:33439165 original size:17 final size:18
Alignment explanation
Indices: 33439138--33439171 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
33439128 TTGACAAATT
33439138 GAAAGATGAAAAATAGAA
1 GAAAGATGAAAAATAGAA
*
33439156 GAAA-ATGAAAATTAGA
1 GAAAGATGAAAAATAGA
33439172 TATAATCCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.65, C:0.00, G:0.21, T:0.15
Consensus pattern (18 bp):
GAAAGATGAAAAATAGAA
Found at i:33439199 original size:52 final size:52
Alignment explanation
Indices: 33439115--33439245 Score: 183
Period size: 52 Copynumber: 2.5 Consensus size: 52
33439105 ATCAACCATC
* * *
33439115 TAAGAAATAATCATTGACAAATTGAAAGATGAAAAATAGAAGAAAAT-GAAAA
1 TAAGATATAATCCTTGACAAATTGAAAGATGAAAAATAGAAG-AAATCAAAAA
* * *
33439167 TTAGATATAATCCTTGATAAATTGAAATATGAAAAATAGAAGAAATCAAAAA
1 TAAGATATAATCCTTGACAAATTGAAAGATGAAAAATAGAAGAAATCAAAAA
*
33439219 TAAGATATAATCCTTGACAAATCGAAA
1 TAAGATATAATCCTTGACAAATTGAAA
33439246 ATAAGATGGA
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
51 4 0.06
52 65 0.94
ACGTcount: A:0.56, C:0.07, G:0.13, T:0.24
Consensus pattern (52 bp):
TAAGATATAATCCTTGACAAATTGAAAGATGAAAAATAGAAGAAATCAAAAA
Found at i:33455693 original size:21 final size:23
Alignment explanation
Indices: 33455657--33455698 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
33455647 ATATATTTTT
33455657 TATTTTTGTTA-TTTTTAAAATA
1 TATTTTTGTTATTTTTTAAAATA
33455679 TATTTTT-TTATTTTTTAAAA
1 TATTTTTGTTATTTTTTAAAA
33455699 AAATTGGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (23 bp):
TATTTTTGTTATTTTTTAAAATA
Found at i:33458149 original size:21 final size:21
Alignment explanation
Indices: 33458130--33458212 Score: 125
Period size: 21 Copynumber: 4.0 Consensus size: 21
33458120 TATTATAAAC
*
33458130 TTAAAAATTAATATATTAAAT-
1 TTAAATATTAA-ATATTAAATA
33458151 TTAAACT-TTAAATATTAAATA
1 TTAAA-TATTAAATATTAAATA
33458172 TTAAATATTAAATATTAAATA
1 TTAAATATTAAATATTAAATA
33458193 TTAAATATTAAATATTAAAT
1 TTAAATATTAAATATTAAAT
33458213 TCGAATTCGA
Statistics
Matches: 58, Mismatches: 1, Indels: 6
0.89 0.02 0.09
Matches are distributed among these distances:
20 10 0.17
21 48 0.83
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (21 bp):
TTAAATATTAAATATTAAATA
Found at i:33458162 original size:7 final size:6
Alignment explanation
Indices: 33458145--33458213 Score: 66
Period size: 7 Copynumber: 10.2 Consensus size: 6
33458135 AATTAATATA
33458145 TTAAAT TTAAACT TTAAAT ATTAAAT ATTAAAT ATTAAAT ATTAAAT ATTAAAT
1 TTAAAT TTAAA-T TTAAAT -TTAAAT -TTAAAT -TTAAAT -TTAAAT -TTAAAT
33458199 ATTAAAT ATTAAAT T
1 -TTAAAT -TTAAAT T
33458214 CGAATTCGAT
Statistics
Matches: 61, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
6 7 0.11
7 54 0.89
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (6 bp):
TTAAAT
Found at i:33458168 original size:14 final size:14
Alignment explanation
Indices: 33458130--33458212 Score: 125
Period size: 14 Copynumber: 5.9 Consensus size: 14
33458120 TATTATAAAC
*
33458130 TTAAAAATTAATATA
1 TTAAATATTAA-ATA
33458145 TTAAAT-TTAAACT-
1 TTAAATATTAAA-TA
33458158 TTAAATATTAAATA
1 TTAAATATTAAATA
33458172 TTAAATATTAAATA
1 TTAAATATTAAATA
33458186 TTAAATATTAAATA
1 TTAAATATTAAATA
33458200 TTAAATATTAAAT
1 TTAAATATTAAAT
33458213 TCGAATTCGA
Statistics
Matches: 64, Mismatches: 1, Indels: 7
0.89 0.01 0.10
Matches are distributed among these distances:
13 8 0.12
14 51 0.80
15 5 0.08
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (14 bp):
TTAAATATTAAATA
Found at i:33458244 original size:13 final size:13
Alignment explanation
Indices: 33458226--33458272 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
33458216 AATTCGATTT
*
33458226 ATATTTTAAACTA
1 ATATTTTAAATTA
*
33458239 ATATTTTTAATTTA
1 ATA-TTTTAAATTA
33458253 AT-TTTTAAATTTA
1 ATATTTTAAA-TTA
33458266 ATATTTT
1 ATATTTT
33458273 TGTACAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 6 0.21
13 8 0.29
14 14 0.50
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (13 bp):
ATATTTTAAATTA
Found at i:33464535 original size:25 final size:25
Alignment explanation
Indices: 33464501--33464551 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
33464491 ATATTTATGG
33464501 AAAGTCAAAGATATGAGTATCAAAT
1 AAAGTCAAAGATATGAGTATCAAAT
*
33464526 AAAGTCAAAGATATGGGTATCAAAT
1 AAAGTCAAAGATATGAGTATCAAAT
33464551 A
1 A
33464552 TTGGAAAGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.51, C:0.08, G:0.18, T:0.24
Consensus pattern (25 bp):
AAAGTCAAAGATATGAGTATCAAAT
Found at i:33464562 original size:30 final size:30
Alignment explanation
Indices: 33464498--33464586 Score: 116
Period size: 30 Copynumber: 3.1 Consensus size: 30
33464488 TCCATATTTA
*
33464498 TGGAAAGTCAAAGATATGAGTATC-AA-A-
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
33464525 T--AAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
33464553 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
33464584 TGG
1 TGG
33464587 CATAAGAAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 8
0.84 0.03 0.12
Matches are distributed among these distances:
25 20 0.37
26 2 0.04
27 2 0.04
28 1 0.02
30 21 0.39
31 8 0.15
ACGTcount: A:0.43, C:0.07, G:0.25, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:33469129 original size:30 final size:29
Alignment explanation
Indices: 33469067--33469152 Score: 117
Period size: 25 Copynumber: 3.0 Consensus size: 29
33469057 CATATTTATG
33469067 GAAAGTCAAAGATATGGGTATC-AA-A-T
1 GAAAGTCAAAGATATGGGTATCAAATATT
33469093 -AAAGTCAAAGATATGGGTATCAAATATT
1 GAAAGTCAAAGATATGGGTATCAAATATT
*
33469121 GAAAAGTCAAAGATATGGGTATCGAGATATT
1 G-AAAGTCAAAGATATGGGTATC-AAATATT
33469152 G
1 G
33469153 GCATAAGAAA
Statistics
Matches: 53, Mismatches: 1, Indels: 7
0.87 0.02 0.11
Matches are distributed among these distances:
25 21 0.40
26 2 0.04
27 1 0.02
28 1 0.02
30 21 0.40
31 7 0.13
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.26
Consensus pattern (29 bp):
GAAAGTCAAAGATATGGGTATCAAATATT
Found at i:33469305 original size:2 final size:2
Alignment explanation
Indices: 33469298--33469348 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
33469288 AAGGCATTGT
*
33469298 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TT TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
33469340 TC TC TC TC T
1 TC TC TC TC T
33469349 GTGTGTGTGT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:33469872 original size:17 final size:17
Alignment explanation
Indices: 33469847--33469880 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
33469837 ATAAAAAGAA
*
33469847 AATTATTTTTTTCTTTC
1 AATTATTTTTATCTTTC
*
33469864 AATTTTTTTTATCTTTC
1 AATTATTTTTATCTTTC
33469881 TTACCAAGCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.12, G:0.00, T:0.71
Consensus pattern (17 bp):
AATTATTTTTATCTTTC
Found at i:33481163 original size:121 final size:121
Alignment explanation
Indices: 33481002--33481225 Score: 288
Period size: 121 Copynumber: 1.9 Consensus size: 121
33480992 TACCCCGTAT
* * * * * ** *
33481002 TTAATGTCCCGACGGACTCCAAATATTGTCATAGCCGAGCTATGGTCTTACACTATATACCTTAT
1 TTAATGTCCCAACGAACTCCAAATACTGCCATAGCCGAGCTACGGTCTTACAAAATATACCCTAT
* *
33481067 GTTTCACGTCCTGGTCG-ACTACCCCATATTTAATGTCTTAGCAAATTTCCCTGTGA
66 GTTTAACGTCCTAG-CGAACTACCCCATATTTAATGTCTTAGCAAATTTCCCTGTGA
* * **
33481123 TTAATGTCTCAACGAACTCCAAATGCTGCCATAGTTGAGCTACGGTCTTACAAAATATACCCTAT
1 TTAATGTCCCAACGAACTCCAAATACTGCCATAGCCGAGCTACGGTCTTACAAAATATACCCTAT
* *
33481188 GTTTAACGTTCTAGCGAACTACCCCGTATTTAATGTCT
66 GTTTAACGTCCTAGCGAACTACCCCATATTTAATGTCT
33481226 CAATGGACCA
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
120 2 0.02
121 84 0.98
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (121 bp):
TTAATGTCCCAACGAACTCCAAATACTGCCATAGCCGAGCTACGGTCTTACAAAATATACCCTAT
GTTTAACGTCCTAGCGAACTACCCCATATTTAATGTCTTAGCAAATTTCCCTGTGA
Found at i:33491314 original size:16 final size:16
Alignment explanation
Indices: 33491293--33491324 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
33491283 GTTTTGTTGC
33491293 TAATTTTACTTTTTCA
1 TAATTTTACTTTTTCA
33491309 TAATTTTACTTTTTCA
1 TAATTTTACTTTTTCA
33491325 CTTTCAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.62
Consensus pattern (16 bp):
TAATTTTACTTTTTCA
Found at i:33495299 original size:27 final size:26
Alignment explanation
Indices: 33495221--33495302 Score: 92
Period size: 27 Copynumber: 3.0 Consensus size: 26
33495211 GCTATCCCTC
* *
33495221 CATAATTCACCACAAAGGTGTTCCTTT
1 CATAATTCGCCACAAAGGT-TTTCTTT
* *
33495248 CATAATGCGCTACAAAGGTTCTTCTTT
1 CATAATTCGCCACAAAGGTT-TTCTTT
*
33495275 CATATTTCGCCACAAAGGCTTTTCTTT
1 CATAATTCGCCACAAAGG-TTTTCTTT
33495302 C
1 C
33495303 CTGACATATT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
26 1 0.02
27 43 0.93
28 2 0.04
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.37
Consensus pattern (26 bp):
CATAATTCGCCACAAAGGTTTTCTTT
Found at i:33499903 original size:23 final size:23
Alignment explanation
Indices: 33499873--33499926 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
33499863 AGGCATTTAG
*
33499873 AAACTTAAGTAGCTGGTTAGGGA
1 AAACTTAAATAGCTGGTTAGGGA
* *
33499896 AAAGTTAAATGGCTGGTTAGGGA
1 AAACTTAAATAGCTGGTTAGGGA
33499919 AAACTTAA
1 AAACTTAA
33499927 CCGGTTTGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.28, T:0.26
Consensus pattern (23 bp):
AAACTTAAATAGCTGGTTAGGGA
Found at i:33504984 original size:25 final size:24
Alignment explanation
Indices: 33504948--33505000 Score: 79
Period size: 25 Copynumber: 2.2 Consensus size: 24
33504938 AAGTTCAAGC
33504948 GAGCCATATCAGGAAGCTCACAAA
1 GAGCCATATCAGGAAGCTCACAAA
* *
33504972 GAGCCTATATCAGGATGCTCATAAA
1 GAGCC-ATATCAGGAAGCTCACAAA
33504997 GAGC
1 GAGC
33505001 TACAGTATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (24 bp):
GAGCCATATCAGGAAGCTCACAAA
Found at i:33507853 original size:41 final size:41
Alignment explanation
Indices: 33507792--33508145 Score: 341
Period size: 41 Copynumber: 8.7 Consensus size: 41
33507782 TAATTATTCA
* * **
33507792 CTAAATTGCACATACATGCCCTTGTTTGTACTTCGGCACCC
1 CTAAATTGCACATACGTGCCCCTGTTTGTACTTCGATACCC
* * *
33507833 CTAAATTGCACATACGTGCCCCTATTTTTACTTTGATACCC
1 CTAAATTGCACATACGTGCCCCTGTTTGTACTTCGATACCC
* ** * * *
33507874 CTAAATTACACATAATTGCCCCTATTTGTACTTTGGTACCC
1 CTAAATTGCACATACGTGCCCCTGTTTGTACTTCGATACCC
* * * * * * * *
33507915 TTGAGTTGTACATACATGCCCCTATTTGCACTTCAATACCC
1 CTAAATTGCACATACGTGCCCCTGTTTGTACTTCGATACCC
* * * **
33507956 CTGAATTGCACATATGTGCCCCTGTTTGTACTTTGGGACCC
1 CTAAATTGCACATACGTGCCCCTGTTTGTACTTCGATACCC
* * * *
33507997 CTGAATTGCACATATGTGCCCCTATTTGTACTTCGATACCT
1 CTAAATTGCACATACGTGCCCCTGTTTGTACTTCGATACCC
* *
33508038 CTAAATTGCACATACGTGCCCTTGTTTGTACTTTGATACCC
1 CTAAATTGCACATACGTGCCCCTGTTTGTACTTCGATACCC
* * * *
33508079 CTAAATTGTACATATGTGCCCTTGTTTGTACTTCGGTACCC
1 CTAAATTGCACATACGTGCCCCTGTTTGTACTTCGATACCC
* * * *
33508120 CTGAATAGCACCTACGT-TCCCTGTTT
1 CTAAATTGCACATACGTGCCCCTGTTT
33508146 ACACTCTGAT
Statistics
Matches: 257, Mismatches: 56, Indels: 1
0.82 0.18 0.00
Matches are distributed among these distances:
40 7 0.03
41 250 0.97
ACGTcount: A:0.22, C:0.28, G:0.14, T:0.36
Consensus pattern (41 bp):
CTAAATTGCACATACGTGCCCCTGTTTGTACTTCGATACCC
Found at i:33507929 original size:82 final size:82
Alignment explanation
Indices: 33507792--33508130 Score: 376
Period size: 82 Copynumber: 4.1 Consensus size: 82
33507782 TAATTATTCA
* * *
33507792 CTAAATTGCACATACA-TGCCCTTGTTTGTACTTCGGCACCCCTAAATTGCACATACGTGCCCCT
1 CTAAATTGCACATA-ATTGCCCCTGTTTGTACTTTGGTACCCCTAAATTGCACATACGTGCCCCT
* *
33507856 ATTTTTACTTTGATACCC
65 ATTTGTACTTCGATACCC
* * * * * * *
33507874 CTAAATTACACATAATTGCCCCTATTTGTACTTTGGTACCCTTGAGTTGTACATACATGCCCCTA
1 CTAAATTGCACATAATTGCCCCTGTTTGTACTTTGGTACCCCTAAATTGCACATACGTGCCCCTA
* *
33507939 TTTGCACTTCAATACCC
66 TTTGTACTTCGATACCC
* * * *
33507956 CTGAATTGCACAT-ATGTGCCCCTGTTTGTACTTTGGGACCCCTGAATTGCACATATGTGCCCCT
1 CTAAATTGCACATAAT-TGCCCCTGTTTGTACTTTGGTACCCCTAAATTGCACATACGTGCCCCT
*
33508020 ATTTGTACTTCGATACCT
65 ATTTGTACTTCGATACCC
** * * * * * *
33508038 CTAAATTGCACATACGTGCCCTTGTTTGTACTTTGATACCCCTAAATTGTACATATGTGCCCTTG
1 CTAAATTGCACATAATTGCCCCTGTTTGTACTTTGGTACCCCTAAATTGCACATACGTGCCCCTA
*
33508103 TTTGTACTTCGGTACCC
66 TTTGTACTTCGATACCC
* *
33508120 CTGAATAGCAC
1 CTAAATTGCAC
33508131 CTACGTTCCC
Statistics
Matches: 214, Mismatches: 40, Indels: 6
0.82 0.15 0.02
Matches are distributed among these distances:
81 3 0.01
82 211 0.99
ACGTcount: A:0.23, C:0.28, G:0.14, T:0.35
Consensus pattern (82 bp):
CTAAATTGCACATAATTGCCCCTGTTTGTACTTTGGTACCCCTAAATTGCACATACGTGCCCCTA
TTTGTACTTCGATACCC
Found at i:33507977 original size:21 final size:21
Alignment explanation
Indices: 33507953--33508019 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
33507943 CACTTCAATA
33507953 CCCCTGAATTGCACATATGTG
1 CCCCTGAATTGCACATATGTG
* * * *
33507974 CCCCTG-TTTGTAC-TTTGGG
1 CCCCTGAATTGCACATATGTG
33507993 ACCCCTGAATTGCACATATGTG
1 -CCCCTGAATTGCACATATGTG
33508015 CCCCT
1 CCCCT
33508020 ATTTGTACTT
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
19 4 0.11
20 11 0.31
21 16 0.46
22 4 0.11
ACGTcount: A:0.18, C:0.31, G:0.19, T:0.31
Consensus pattern (21 bp):
CCCCTGAATTGCACATATGTG
Found at i:33508120 original size:123 final size:122
Alignment explanation
Indices: 33507792--33508130 Score: 419
Period size: 123 Copynumber: 2.8 Consensus size: 122
33507782 TAATTATTCA
** * *
33507792 CTAAATTGCACATACATGCCCTTGTTTGTACTTCGGCACCCCTAAATTGCACATACGTGCCCCTA
1 CTAAATTGCACATACATGCCCTTGTTTGTACTTCGATACCCCTAAATTGCACATATGTGCCCCTG
* * * * * *
33507857 TTTTTACTTTGATACCCCTAAATTACACATAATTGCCCCTATTTGTACTTTGGTACC
66 TTTGTACTTTGGTACCCCTGAATTGCACATAATTGCCCCTATTTGTACTTCGATACC
* * * * * * * *
33507914 CTTGAGTTGTACATACATGCCCCTATTTGCACTTCAATACCCCTGAATTGCACATATGTGCCCCT
1 C-TAAATTGCACATACATGCCCTTGTTTGTACTTCGATACCCCTAAATTGCACATATGTGCCCCT
*
33507979 GTTTGTACTTTGGGACCCCTGAATTGCACAT-ATGTGCCCCTATTTGTACTTCGATACC
65 GTTTGTACTTTGGTACCCCTGAATTGCACATAAT-TGCCCCTATTTGTACTTCGATACC
* * * *
33508037 TCTAAATTGCACATACGTGCCCTTGTTTGTACTTTGATACCCCTAAATTGTACATATGTGCCCTT
1 -CTAAATTGCACATACATGCCCTTGTTTGTACTTCGATACCCCTAAATTGCACATATGTGCCCCT
* *
33508102 GTTTGTACTTCGGTACCCCTGAATAGCAC
65 GTTTGTACTTTGGTACCCCTGAATTGCAC
33508131 CTACGTTCCC
Statistics
Matches: 180, Mismatches: 34, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
122 3 0.02
123 176 0.98
124 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.14, T:0.35
Consensus pattern (122 bp):
CTAAATTGCACATACATGCCCTTGTTTGTACTTCGATACCCCTAAATTGCACATATGTGCCCCTG
TTTGTACTTTGGTACCCCTGAATTGCACATAATTGCCCCTATTTGTACTTCGATACC
Found at i:33513257 original size:32 final size:32
Alignment explanation
Indices: 33513216--33513292 Score: 147
Period size: 32 Copynumber: 2.4 Consensus size: 32
33513206 ATTTGAGTGA
33513216 TTAAATGGTTAATTGAATAAAGGAAAAGGGAC
1 TTAAATGGTTAATTGAATAAAGGAAAAGGGAC
33513248 TTAAATGGTTAATTGAATAAAGGAAAAGGGAC
1 TTAAATGGTTAATTGAATAAAGGAAAAGGGAC
33513280 TTAAATGG-TAATT
1 TTAAATGGTTAATT
33513293 AGACCATTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
31 5 0.11
32 40 0.89
ACGTcount: A:0.45, C:0.03, G:0.23, T:0.29
Consensus pattern (32 bp):
TTAAATGGTTAATTGAATAAAGGAAAAGGGAC
Found at i:33517813 original size:20 final size:20
Alignment explanation
Indices: 33517775--33517813 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
33517765 TGGAGCAGGA
*
33517775 ATATCGATACCTTAGGAAAT
1 ATATCGATACCTTAAGAAAT
*
33517795 ATATCGATACTTTAAGAAA
1 ATATCGATACCTTAAGAAA
33517814 AGTGTCGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.31
Consensus pattern (20 bp):
ATATCGATACCTTAAGAAAT
Found at i:33522386 original size:18 final size:17
Alignment explanation
Indices: 33522349--33522386 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
33522339 GATAATTTGT
33522349 TTTATTTAATTTATCCA
1 TTTATTTAATTTATCCA
33522366 TTTATTTACTATTTA-CCA
1 TTTATTTA--ATTTATCCA
33522384 TTT
1 TTT
33522387 TAACCTTACC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
18 6 0.32
19 5 0.26
ACGTcount: A:0.26, C:0.13, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTATTTAATTTATCCA
Done.