Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 226 of 290
Found at i:78149880 original size:30 final size:30
Alignment explanation
Indices: 78149846--78149907 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
78149836 GTCCTTAACT
78149846 TAAACTTTGGAAAAATTACAATTTTGCCCC
1 TAAACTTTGGAAAAATTACAATTTTGCCCC
* * * * *
78149876 TAAACTTTTGCATATTTACACTTTTGCCCC
1 TAAACTTTGGAAAAATTACAATTTTGCCCC
78149906 TA
1 TA
78149908 GGCTCAGGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.39
Consensus pattern (30 bp):
TAAACTTTGGAAAAATTACAATTTTGCCCC
Found at i:78151612 original size:22 final size:21
Alignment explanation
Indices: 78151585--78151627 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
78151575 ATATTATATT
*
78151585 ATAATAAATAAATAAAAGAAAA
1 ATAATAAA-AAATAAAACAAAA
*
78151607 ATAATAAAAAATGAAACAAAA
1 ATAATAAAAAATAAAACAAAA
78151628 CATAGAAACG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (21 bp):
ATAATAAAAAATAAAACAAAA
Found at i:78151710 original size:37 final size:36
Alignment explanation
Indices: 78151660--78151733 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 36
78151650 GAAAAAAAGG
78151660 AAAGAAAAAAGGAGAATTAGGGTTTTAATGGTTCAA
1 AAAGAAAAAAGGAGAATTAGGGTTTTAATGGTTCAA
78151696 AAAGAAAAAAAGGAGAATTAGGGTTTTAATGGTTCAA
1 AAAG-AAAAAAGGAGAATTAGGGTTTTAATGGTTCAA
78151733 A
1 A
78151734 GCTCAATTGG
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 4 0.11
37 33 0.89
ACGTcount: A:0.49, C:0.03, G:0.24, T:0.24
Consensus pattern (36 bp):
AAAGAAAAAAGGAGAATTAGGGTTTTAATGGTTCAA
Found at i:78154127 original size:47 final size:47
Alignment explanation
Indices: 78154062--78154338 Score: 220
Period size: 47 Copynumber: 5.6 Consensus size: 47
78154052 GCATTGGCAC
*
78154062 TAAGACAAGGATACCATGTAAGACCATGTTTGGAATATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* * *** *
78154109 TAAGATAAGGATATCATGTAAGACCATGCCAAGG--CATGGCATTGATAAGTTCTA
1 TAAGACAAGGATACCATGTAAGACCATG-TTTGGAACATGGCATT--T--G----G
78154163 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* * *** * *
78154210 TAAGATAAGGATATCATGTAAGACCATGCCAAGG--CATTGCATTGATAAGTTCTA
1 TAAGACAAGGATACCATGTAAGACCATG-TTTGGAACATGGCATT--T--G----G
78154264 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
78154311 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
78154339 CCAAGGCATG
Statistics
Matches: 179, Mismatches: 29, Indels: 44
0.71 0.12 0.17
Matches are distributed among these distances:
46 16 0.09
47 78 0.44
48 6 0.03
50 2 0.01
51 2 0.01
53 6 0.03
54 52 0.29
55 17 0.09
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.26
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:78154188 original size:101 final size:101
Alignment explanation
Indices: 78154062--78154609 Score: 672
Period size: 101 Copynumber: 5.3 Consensus size: 101
78154052 GCATTGGCAC
*
78154062 TAAGACAAGGATACCATGTAAGACCATGTTTGGAATATGGCATTTGGTAAGATAAGGATATCATG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
78154127 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
66 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
78154163 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
*
78154228 TAAGACCATGCCAAGGCATTGCATTGATAAGTTCTA
66 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
78154264 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
78154329 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
66 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
* * * * *** ** *
78154365 TAAGGCAAGGAAATCATGGAAGACCATGTCAAG-ACATGGCATTGATGAGTTATTATAAGGCAAA
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATT--TG-G-TAAGATAAGG-ATA
* * *
78154429 GGTCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGCTC-A
61 --T--CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
* *** ** *
78154473 TAAGGCAAGGATACCATGTAAGACCATGTCAAG-ACATGGCATTGATGAGTTACTATAAGGCAAA
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATT--TG-G-TAAGATAAGG-ATA
*
78154537 GGTCCCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTC-A
61 --T--CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
* **
78154581 TAAGGCAAGGATACCACATAAGACCATGT
1 TAAGACAAGGATACCATGTAAGACCATGT
78154610 CAAGACATGG
Statistics
Matches: 414, Mismatches: 24, Indels: 11
0.92 0.05 0.02
Matches are distributed among these distances:
100 10 0.02
101 225 0.54
102 2 0.00
103 1 0.00
104 8 0.02
105 2 0.00
107 1 0.00
108 130 0.31
109 35 0.08
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.24
Consensus pattern (101 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
Found at i:78154509 original size:108 final size:108
Alignment explanation
Indices: 78154325--78154621 Score: 504
Period size: 108 Copynumber: 2.7 Consensus size: 108
78154315 ATAAGGATAT
* * * *
78154325 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGGAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTC-ATAAGGCAAGGATACCATGTAAGACC
*
78154390 ATGTCAAGACATGGCATTGATGAGTTATTATAAGGCAAAGGTCC
65 ATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
* *
78154434 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGCTCATAAGGCAAGGATACCATGTAAGACCA
1 CATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCATAAGGCAAGGATACCATGTAAGACCA
78154499 TGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
66 TGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
**
78154542 CATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCATAAGGCAAGGATACCACATAAGACCA
1 CATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCATAAGGCAAGGATACCATGTAAGACCA
78154607 TGTCAAGACATGGCA
66 TGTCAAGACATGGCA
78154622 ATGGTAAGTT
Statistics
Matches: 177, Mismatches: 11, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
108 142 0.80
109 35 0.20
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (108 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCATAAGGCAAGGATACCATGTAAGACCA
TGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
Found at i:78154627 original size:53 final size:53
Alignment explanation
Indices: 78154115--78154633 Score: 435
Period size: 55 Copynumber: 9.9 Consensus size: 53
78154105 TTGGTAAGAT
* * *
78154115 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGAC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC-ATAAGGC
**** *
78154169 AAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAG---AT-----
1 AAGGATACCATGTAAGACCATGCCAAG-ACATGGCA-TTGATAAGTTCATAAGGC
* * * *
78154216 AAGGATATCATGTAAGACCATGCCAAGGCATTGCATTGATAAGTTCTATAAGAC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC-ATAAGGC
**** *
78154270 AAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAG---AT-----
1 AAGGATACCATGTAAGACCATGCCAAG-ACATGGCA-TTGATAAGTTCATAAGGC
* *
78154317 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC-ATAAGGC
* * * * * *
78154371 AAGGAAATCATGGAAGACCATGTCAAGACATGGCATTGATGAGTTATTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAG-T-TCATAAGGC
* * * * *
78154426 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGCTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCATAAGGC
* *
78154479 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-C-ATAAGGC
* * *
78154534 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCATAAGGC
** * * *
78154587 AAGGATACCACATAAGACCATGTCAAGACATGGCAATGGTAAGTTCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCA
78154634 AAAAGGAAAA
Statistics
Matches: 374, Mismatches: 61, Indels: 61
0.75 0.12 0.12
Matches are distributed among these distances:
45 14 0.04
46 13 0.03
47 44 0.12
49 4 0.01
52 12 0.03
53 86 0.23
54 84 0.22
55 94 0.25
56 23 0.06
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCATAAGGC
Found at i:78171137 original size:40 final size:40
Alignment explanation
Indices: 78171072--78171165 Score: 120
Period size: 40 Copynumber: 2.4 Consensus size: 40
78171062 GACTATGCTC
*
78171072 GGCACTAAGTGTGCGGTTCGAAATAGCTCCTGCTATA-AA
1 GGCACTAAGTGTGCGGTTCGAAATAGCTCCGGCTATATAA
* * *
78171111 TGGCACTAAGTGTGCGTGTT-GGAATAGCTTCGGCTATATGA
1 -GGCACTAAGTGTGCG-GTTCGAAATAGCTCCGGCTATATAA
78171152 GGCACTAAGTGTGC
1 GGCACTAAGTGTGC
78171166 AATACCGAGA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
40 44 0.92
41 4 0.08
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (40 bp):
GGCACTAAGTGTGCGGTTCGAAATAGCTCCGGCTATATAA
Found at i:78171850 original size:24 final size:24
Alignment explanation
Indices: 78171823--78171920 Score: 142
Period size: 24 Copynumber: 4.0 Consensus size: 24
78171813 AAGGCTGTCA
78171823 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
78171847 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
78171871 GGAGAGGATTTAGGAGCTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
* *
78171895 AGAGAAGATTTAGGAGTTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
78171920 G
1 G
78171921 AGCAGGAGTT
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
24 64 0.97
25 2 0.03
ACGTcount: A:0.37, C:0.04, G:0.38, T:0.21
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:78173616 original size:33 final size:34
Alignment explanation
Indices: 78173539--78173619 Score: 94
Period size: 33 Copynumber: 2.4 Consensus size: 34
78173529 TATGGGCCAT
*
78173539 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTT
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
* * **
78173573 AATGTAATCTGAA-AA-GGGCTCTGGCCCAGTATC
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGT-TC
78173606 ACTGTTATCTGAAT
1 ACTGTTATCTGAAT
78173620 GGGCTTAAGC
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
32 13 0.34
33 14 0.37
34 11 0.29
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (34 bp):
ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
Found at i:78173624 original size:32 final size:31
Alignment explanation
Indices: 78173539--78173624 Score: 73
Period size: 32 Copynumber: 2.6 Consensus size: 31
78173529 TATGGGCCAT
*
78173539 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTT
1 ACTGTTATCTGAAT---GGGCTAAGGCCCAGTTC
* * * **
78173573 AATGTAATCTGAAAAGGGCTCTGGCCCAGTATC
1 ACTGTTATCTG-AATGGGCTAAGGCCCAGT-TC
78173606 ACTGTTATCTGAATGGGCT
1 ACTGTTATCTGAATGGGCT
78173625 TAAGCCCGAT
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
32 20 0.49
33 10 0.24
34 9 0.22
35 2 0.05
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (31 bp):
ACTGTTATCTGAATGGGCTAAGGCCCAGTTC
Found at i:78182448 original size:15 final size:16
Alignment explanation
Indices: 78182419--78182448 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
78182409 CAAACATGCT
78182419 TTAACACATTATCAAA
1 TTAACACATTATCAAA
78182435 TTAACACA-TATCAA
1 TTAACACATTATCAA
78182449 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:78185752 original size:18 final size:19
Alignment explanation
Indices: 78185721--78185759 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
78185711 AATAGATAAT
*
78185721 AAAATGAAATGAAAGTAAA
1 AAAATGAAATGAAAGGAAA
*
78185740 AAAATTAAA-GAAAGGAAA
1 AAAATGAAATGAAAGGAAA
78185758 AA
1 AA
78185760 TAAAAACAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (19 bp):
AAAATGAAATGAAAGGAAA
Found at i:78205776 original size:46 final size:48
Alignment explanation
Indices: 78205646--78205783 Score: 172
Period size: 48 Copynumber: 2.9 Consensus size: 48
78205636 TACCACGGTT
* * *
78205646 ATACGTGTAACGTGGTGCTAAGTGGATATACCATGATTACACATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTG
*** *
78205694 ATACATGTAACGTGGTGCTAAGTGGATATGTAACGGTTACATATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTG
* * *
78205742 ATTCAT-TAACGTGGT-CTATGTGGATATACCACGGTTAAACAT
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACAT
78205784 GTAACGTAGT
Statistics
Matches: 76, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
46 21 0.28
47 9 0.12
48 46 0.61
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (48 bp):
ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTG
Found at i:78205804 original size:38 final size:37
Alignment explanation
Indices: 78205748--78205823 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 37
78205738 ATTGATTCAT
* * *
78205748 TAACGTGGTCTATGTGGATATACCACGGTTAAACATG
1 TAACGTAGTCTAAGTGGATATACCACAGTTAAACATG
* *
78205785 TAACGTAGTGCTAAGTGGATATGCCACAGTTATACATG
1 TAACGTAGT-CTAAGTGGATATACCACAGTTAAACATG
78205823 T
1 T
78205824 TAATTTGAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
37 8 0.24
38 25 0.76
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (37 bp):
TAACGTAGTCTAAGTGGATATACCACAGTTAAACATG
Found at i:78212848 original size:48 final size:48
Alignment explanation
Indices: 78212766--78212894 Score: 152
Period size: 48 Copynumber: 2.7 Consensus size: 48
78212756 TACCTCGGTT
* *
78212766 ATACGTGTAATGTGGTGCTAAGTGGATATACCACGATTACACATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTG
* * * *
78212814 ATACATGTAACGTGGTGCTAAGTGGTTATGCCACGGTTACATATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTG
* * * **
78212862 ATTCAT-TAACATGGTACTAAAAGGATATACCAC
1 ATACATGTAACGTGGTGCTAAGTGGATATACCAC
78212895 AGTTAAACAT
Statistics
Matches: 68, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
47 21 0.31
48 47 0.69
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.31
Consensus pattern (48 bp):
ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTG
Found at i:78213645 original size:42 final size:42
Alignment explanation
Indices: 78213586--78213670 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
78213576 ATTTGGTAGC
*
78213586 AAAAGATAATTAAATTTTAGTGAAGAGTGGTCAGAGCTGCTG
1 AAAAGATAATTAAATTTTAGCGAAGAGTGGTCAGAGCTGCTG
*
78213628 AAAAGATAATTAAATTTTAGCGAAGAGTGGTCAGAGTTGCTG
1 AAAAGATAATTAAATTTTAGCGAAGAGTGGTCAGAGCTGCTG
78213670 A
1 A
78213671 GCCGCGAAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.39, C:0.07, G:0.26, T:0.28
Consensus pattern (42 bp):
AAAAGATAATTAAATTTTAGCGAAGAGTGGTCAGAGCTGCTG
Found at i:78220166 original size:34 final size:34
Alignment explanation
Indices: 78220127--78220202 Score: 107
Period size: 34 Copynumber: 2.2 Consensus size: 34
78220117 TTAGCCACTT
* *
78220127 TTTCAGTAATAGTCACAGTTTGGGCCTGAGCCCA
1 TTTCAGTAAGAGTCACAGTCTGGGCCTGAGCCCA
* *
78220161 TTTCAGTAAGAGTGACAGTCTGGGCCTGAGCCCT
1 TTTCAGTAAGAGTCACAGTCTGGGCCTGAGCCCA
*
78220195 TTTTAGTA
1 TTTCAGTA
78220203 CAATATGCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (34 bp):
TTTCAGTAAGAGTCACAGTCTGGGCCTGAGCCCA
Found at i:78231342 original size:28 final size:29
Alignment explanation
Indices: 78231305--78231428 Score: 151
Period size: 29 Copynumber: 4.3 Consensus size: 29
78231295 AAGTCTACAT
* *
78231305 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
78231333 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
** * *
78231362 ACATTTGTGTGGCCAATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
** *
78231391 ACATTTGTGTGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
78231420 ACATTCATA
1 ACATTCATA
78231429 GTCATGGTTT
Statistics
Matches: 83, Mismatches: 12, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
28 21 0.25
29 62 0.75
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:78231374 original size:29 final size:29
Alignment explanation
Indices: 78231314--78231424 Score: 161
Period size: 29 Copynumber: 3.9 Consensus size: 29
78231304 TACATGCATA
* * ** *
78231314 TGGCCCACTAGGCCC-AATCTCATTCATA
1 TGGCCCATTAGGCCCAAATCACATTTGTG
78231342 TGGCCCATTAGGCCCAAATCACATTTGTG
1 TGGCCCATTAGGCCCAAATCACATTTGTG
*
78231371 TGGCCAATTAGGCCCAAATCACATTTGTG
1 TGGCCCATTAGGCCCAAATCACATTTGTG
78231400 TGGCCCATTAGGCCCAAATCACATT
1 TGGCCCATTAGGCCCAAATCACATT
78231425 CATAGTCATG
Statistics
Matches: 75, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
28 14 0.19
29 61 0.81
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTTGTG
Found at i:78237341 original size:43 final size:43
Alignment explanation
Indices: 78237294--78237415 Score: 124
Period size: 43 Copynumber: 2.9 Consensus size: 43
78237284 CCTCGATTGA
*
78237294 GATTTACATATAAGACCATGTCTGGGACATCGGCA-TCATATCT
1 GATTTACATGTAAGACCATGTCTGGGACATCGGCATTCATAT-T
* ** *
78237337 GATTT-CGTGTAAGACTC-TGTCTGGGACAAAGGCATTGATATT
1 GATTTACATGTAAGAC-CATGTCTGGGACATCGGCATTCATATT
* * * *
78237379 AAATTACATGTAAGACCACGTCTGGGACATCGACATT
1 GATTTACATGTAAGACCATGTCTGGGACATCGGCATT
78237416 GTACTTGATT
Statistics
Matches: 63, Mismatches: 12, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
42 28 0.44
43 35 0.56
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (43 bp):
GATTTACATGTAAGACCATGTCTGGGACATCGGCATTCATATT
Found at i:78239429 original size:32 final size:32
Alignment explanation
Indices: 78239393--78239458 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
78239383 AGCAATAATG
78239393 TACAAAAGGTTTGAAGATGGACTAAATAAAGA
1 TACAAAAGGTTTGAAGATGGACTAAATAAAGA
*
78239425 TACAAAAGGTTTGAAGATGGACTAAATGAAGA
1 TACAAAAGGTTTGAAGATGGACTAAATAAAGA
78239457 TA
1 TA
78239459 TTCGTTTGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.48, C:0.06, G:0.23, T:0.23
Consensus pattern (32 bp):
TACAAAAGGTTTGAAGATGGACTAAATAAAGA
Found at i:78254950 original size:48 final size:46
Alignment explanation
Indices: 78254837--78254978 Score: 135
Period size: 48 Copynumber: 3.0 Consensus size: 46
78254827 TAGGGTTATG
*
78254837 TGTGATCCCATGTAAGA-GCATGTCTGGGACATGGCATTGGCAGCG-C
1 TGTGATCCCATGTAAGACG-ATG-CTGGGACATGGCATTGGCATCGAC
**
78254883 TGTGAGATCCCATACAAGACGATGCATGGGACATGGCATTGGCATCGAC
1 TGT--GATCCCATGTAAGACGATGC-TGGGACATGGCATTGGCATCGAC
* * * * *
78254932 ATGTGATCCCACGTAAGACCATATCTAGGATATGGCATTGGCATCGA
1 -TGTGATCCCATGTAAGACGAT-GCTGGGACATGGCATTGGCATCGA
78254979 TATGAGACAT
Statistics
Matches: 79, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
46 3 0.04
47 1 0.01
48 69 0.87
49 3 0.04
50 3 0.04
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (46 bp):
TGTGATCCCATGTAAGACGATGCTGGGACATGGCATTGGCATCGAC
Found at i:78257215 original size:27 final size:27
Alignment explanation
Indices: 78257185--78257246 Score: 92
Period size: 26 Copynumber: 2.3 Consensus size: 27
78257175 ATTTACTAAA
78257185 ATACCCCTAAGTATG-AAAATTACCATT
1 ATACCCCTAAG-ATGCAAAATTACCATT
*
78257212 ATACCCCT-AGGTGCAAAATTACCATT
1 ATACCCCTAAGATGCAAAATTACCATT
78257238 ATACCCCTA
1 ATACCCCTA
78257247 GGGTGAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 2 0.06
26 22 0.69
27 8 0.25
ACGTcount: A:0.37, C:0.27, G:0.08, T:0.27
Consensus pattern (27 bp):
ATACCCCTAAGATGCAAAATTACCATT
Found at i:78257390 original size:27 final size:27
Alignment explanation
Indices: 78257352--78257464 Score: 149
Period size: 27 Copynumber: 4.2 Consensus size: 27
78257342 GAGGAAGTGT
78257352 TCTGGTGGCTCTGCCACGAATATCTG-A
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
* *
78257379 TCTGGTGGCTCTGCCACAAATATTTGTT
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
*
78257407 TCTGGTGGCTCTGCCATAATATCTGTA
1 TCTGGTGGCTCTGCCACAATATCTGTA
* *
78257434 TCTGGTGACTCTGTCACAATATCTGT-
1 TCTGGTGGCTCTGCCACAATATCTGTA
78257460 TCTGG
1 TCTGG
78257465 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
26 5 0.07
27 55 0.72
28 16 0.21
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAATATCTGTA
Found at i:78257437 original size:55 final size:53
Alignment explanation
Indices: 78257349--78257464 Score: 162
Period size: 55 Copynumber: 2.2 Consensus size: 53
78257339 ATGGAGGAAG
* *
78257349 TGTTCTGGTGGCTCTGCCACGAATATCTGATCTGGTGGCTCTGCCACAAATATT
1 TGTTCTGGTGGCTCTGCCACGAATATCTGATCTGGTGACTCTGCCAC-AATATC
* *
78257403 TGTTTCTGGTGGCTCTGCCA-TAATATCTGTATCTGGTGACTCTGTCACAATATC
1 TG-TTCTGGTGGCTCTGCCACGAATATCTG-ATCTGGTGACTCTGCCACAATATC
78257457 TGTTCTGG
1 TGTTCTGG
78257465 CAGCCATGCT
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
53 6 0.11
54 17 0.30
55 33 0.59
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.37
Consensus pattern (53 bp):
TGTTCTGGTGGCTCTGCCACGAATATCTGATCTGGTGACTCTGCCACAATATC
Found at i:78261549 original size:42 final size:41
Alignment explanation
Indices: 78261460--78261612 Score: 162
Period size: 43 Copynumber: 3.7 Consensus size: 41
78261450 ACTAAGACTA
* *
78261460 CGTGTAAGACCATGTCTAGGATATGGCATCATATGAGATTT
1 CGTGTAAGACCATATTTAGGATATGGCATCATATGAGATTT
* *
78261501 CGTGTAAGACCATATTTAGGATGTGGCGTCAATATGAGATTT
1 CGTGTAAGACCATATTTAGGATATGGCATC-ATATGAGATTT
* ** * * *
78261543 CGTGTAAAACCATAGCTGGGGTATTGGCATCGATATGAGATTA
1 CGTGTAAGACCATATTTAGGATA-TGGCATC-ATATGAGATTT
* * *
78261586 CATGTAAGAACATATTTGGGATATGGC
1 CGTGTAAGACCATATTTAGGATATGGC
78261613 GTTGGTATGG
Statistics
Matches: 91, Mismatches: 19, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
41 26 0.29
42 32 0.35
43 33 0.36
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.31
Consensus pattern (41 bp):
CGTGTAAGACCATATTTAGGATATGGCATCATATGAGATTT
Found at i:78263032 original size:43 final size:42
Alignment explanation
Indices: 78262935--78263034 Score: 123
Period size: 42 Copynumber: 2.4 Consensus size: 42
78262925 GACTTGAGAT
78262935 TTACGTGTAAGACCATTTCTGCGACATCGGCATCGTATATGA
1 TTACGTGTAAGACCATTTCTGCGACATCGGCATCGTATATGA
* * *
78262977 TTTCGTGTAAGACC-TTGTCTGGGACAGT-GGCATCGATATTTGA
1 TTACGTGTAAGACCATT-TCTGCGACA-TCGGCATCG-TATATGA
*
78263020 TTACATGTAAGACCA
1 TTACGTGTAAGACCA
78263035 CGTCTAAGAC
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
41 2 0.04
42 28 0.57
43 19 0.39
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (42 bp):
TTACGTGTAAGACCATTTCTGCGACATCGGCATCGTATATGA
Found at i:78263051 original size:43 final size:42
Alignment explanation
Indices: 78262957--78263052 Score: 102
Period size: 43 Copynumber: 2.3 Consensus size: 42
78262947 CCATTTCTGC
* * * ** **
78262957 GACATCGGCATCGTATATGATTTCGTGTAAGACCTTGTCTGG
1 GACATTGGCATCGTATATGATTACATGTAAGACCACGTCTAA
* *
78262999 GACAGTGGCATCGATATTTGATTACATGTAAGACCACGTCTAA
1 GACATTGGCATCG-TATATGATTACATGTAAGACCACGTCTAA
78263042 GACATTGGCAT
1 GACATTGGCAT
78263053 TGTAGGCGCT
Statistics
Matches: 43, Mismatches: 10, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
42 11 0.26
43 32 0.74
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (42 bp):
GACATTGGCATCGTATATGATTACATGTAAGACCACGTCTAA
Found at i:78273576 original size:43 final size:42
Alignment explanation
Indices: 78273479--78273576 Score: 117
Period size: 43 Copynumber: 2.3 Consensus size: 42
78273469 GATTTACGTA
* * * *
78273479 TAAGACCATTTCTGGGACATCGGCATCGTATATGATTTCGTG
1 TAAGACCATGTCTGGGACATCGGCATCATATATGATTACATG
* *
78273521 TAAGACCTTGTCTGGGACAGT-GGCATCAATATTTGATTACATG
1 TAAGACCATGTCTGGGACA-TCGGCATC-ATATATGATTACATG
78273564 TAAGACCATGTCT
1 TAAGACCATGTCT
78273577 AAGACGTTGG
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
42 23 0.49
43 24 0.51
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (42 bp):
TAAGACCATGTCTGGGACATCGGCATCATATATGATTACATG
Found at i:78276758 original size:47 final size:47
Alignment explanation
Indices: 78276692--78276885 Score: 388
Period size: 47 Copynumber: 4.1 Consensus size: 47
78276682 GAAATGATAG
78276692 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
78276739 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
78276786 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
78276833 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
78276880 TAAGGC
1 TAAGGC
78276886 ATGTGATGAA
Statistics
Matches: 147, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 147 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:78276927 original size:32 final size:32
Alignment explanation
Indices: 78276836--78276937 Score: 107
Period size: 32 Copynumber: 3.0 Consensus size: 32
78276826 TATGTGATAA
78276836 GGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGT
** **
78276868 -GTATATATGTGATAAGGCATGTGATGAATGTGAAAGT
1 GGCCTA-ATG-G---CCG-ATGTGATGAATGTGAAAGT
78276905 GGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGT
78276937 G
1 G
78276938 TATATATATG
Statistics
Matches: 55, Mismatches: 8, Indels: 14
0.71 0.10 0.18
Matches are distributed among these distances:
31 3 0.05
32 23 0.42
33 2 0.04
36 2 0.04
37 22 0.40
38 3 0.05
ACGTcount: A:0.30, C:0.09, G:0.33, T:0.27
Consensus pattern (32 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGT
Found at i:78276960 original size:49 final size:49
Alignment explanation
Indices: 78276905--78277148 Score: 393
Period size: 49 Copynumber: 5.0 Consensus size: 49
78276895 ATGTGAAAGT
78276905 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
78276954 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
78277003 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
* * *
78277052 GGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
* * * * * *
78277101 GGCCGAGTGGCCAACGTGATGGATGTGGAAGTGTATA-A-ATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
78277148 G
1 G
78277149 TCCCGAAGGG
Statistics
Matches: 185, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
47 8 0.04
48 1 0.01
49 176 0.95
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (49 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
Found at i:78277042 original size:167 final size:164
Alignment explanation
Indices: 78276742--78277054 Score: 574
Period size: 165 Copynumber: 1.9 Consensus size: 164
78276732 TATGTGATAA
78276742 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
78276807 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TA
66 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATA
78276871 TATATGTGATAAGGCATGTGATGAATGTGAAAGT
131 TATATGTGATAAGGCATGTGATGAATGTGAAAGT
78276905 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATG
78276970 TGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
64 TGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
78277035 GTATATATATGTGATAAGGC
127 G-ATATATATGTGATAAGGC
78277055 CTAATGGCCG
Statistics
Matches: 144, Mismatches: 0, Indels: 6
0.96 0.00 0.04
Matches are distributed among these distances:
163 33 0.23
165 47 0.33
167 47 0.33
169 17 0.12
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (164 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATA
TATATGTGATAAGGCATGTGATGAATGTGAAAGT
Found at i:78277323 original size:37 final size:37
Alignment explanation
Indices: 78277267--78277345 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
78277257 CCGAGCTCTA
* * *
78277267 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
78277304 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
78277341 AAGAC
1 AAGAC
78277346 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:78279924 original size:15 final size:16
Alignment explanation
Indices: 78279898--78279928 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
78279888 ACAAACCTTC
78279898 AGTAAGGTTATGATTG
1 AGTAAGGTTATGATTG
78279914 AGTAA-GTTATGATTG
1 AGTAAGGTTATGATTG
78279929 TAAGATCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (16 bp):
AGTAAGGTTATGATTG
Found at i:78281424 original size:21 final size:20
Alignment explanation
Indices: 78281400--78281438 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
78281390 GTGTAAATGT
78281400 AGTAACATAATTGTTATTTTA
1 AGTAACATAA-TGTTATTTTA
**
78281421 AGTAATTTAATGTTATTT
1 AGTAACATAATGTTATTT
78281439 ATATGATATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.51
Consensus pattern (20 bp):
AGTAACATAATGTTATTTTA
Found at i:78286650 original size:31 final size:31
Alignment explanation
Indices: 78286614--78286677 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
78286604 CCGAAAAATG
*
78286614 TTAGCAAAGTTTCAAGATATTAAAAGCATTA
1 TTAGCAAAGTTTCAAGAAATTAAAAGCATTA
78286645 TTAGCAAAGTTTCAAGAAATTAAAAGCATTA
1 TTAGCAAAGTTTCAAGAAATTAAAAGCATTA
78286676 TT
1 TT
78286678 GACTGAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.33
Consensus pattern (31 bp):
TTAGCAAAGTTTCAAGAAATTAAAAGCATTA
Found at i:78290453 original size:41 final size:42
Alignment explanation
Indices: 78290314--78290463 Score: 169
Period size: 43 Copynumber: 3.6 Consensus size: 42
78290304 CATACCAACC
* * * *
78290314 CCATATCTCAGTTATGGTCTTACATGTAATCTCATATTGATG
1 CCATATCCCAGATATGGTCTTACACGAAATCTCATATTGATG
** * *
78290356 CCA-ATTCCCTAGCCATAGTCTTACACGAAATCTCATATTGACG
1 CCATA-TCCC-AGATATGGTCTTACACGAAATCTCATATTGATG
* *
78290399 CCATATCCCAGATATGGTCTTACACGAAATCACATA-CGATG
1 CCATATCCCAGATATGGTCTTACACGAAATCTCATATTGATG
*
78290440 CCATATCCCAGATATGGCCTTACA
1 CCATATCCCAGATATGGTCTTACA
78290464 TGTAGTCTTA
Statistics
Matches: 91, Mismatches: 14, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
41 27 0.30
42 29 0.32
43 34 0.37
44 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (42 bp):
CCATATCCCAGATATGGTCTTACACGAAATCTCATATTGATG
Found at i:78294831 original size:31 final size:32
Alignment explanation
Indices: 78294778--78294838 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
78294768 TCCCGGACAG
*
78294778 GGTCTTACTCGTAAACACATATC-AAATCCAT
1 GGTCTTACTCGCAAACACATATCGAAATCCAT
* * *
78294809 GGTCTTACTTGCACACATATATCGAAATCC
1 GGTCTTACTCGCAAACACATATCGAAATCC
78294839 TATGTCATGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 19 0.76
32 6 0.24
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.30
Consensus pattern (32 bp):
GGTCTTACTCGCAAACACATATCGAAATCCAT
Found at i:78306450 original size:26 final size:27
Alignment explanation
Indices: 78306395--78306457 Score: 83
Period size: 26 Copynumber: 2.3 Consensus size: 27
78306385 AATTACTTGA
* **
78306395 ATACCCCTAGGTATGGAAAATTACTGTT
1 ATACCCCTAGG-ATGCAAAATTACCATT
78306423 ATACCCCTAGG-TGCAAAATTACCATT
1 ATACCCCTAGGATGCAAAATTACCATT
78306449 ATACCCCTA
1 ATACCCCTA
78306458 AGGTTACTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
26 21 0.66
28 11 0.34
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (27 bp):
ATACCCCTAGGATGCAAAATTACCATT
Found at i:78306603 original size:27 final size:26
Alignment explanation
Indices: 78306563--78306674 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
78306553 AGGAAGCGTC
*
78306563 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
78306590 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
78306617 CTGGTGGCTCTGCCCCAATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * * *
78306645 CTGGTGACTCTGTCACATTATTTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
78306671 CTGG
1 CTGG
78306675 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 7 0.10
27 50 0.68
28 16 0.22
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:78306671 original size:54 final size:54
Alignment explanation
Indices: 78306563--78306674 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
78306553 AGGAAGCGTC
*
78306563 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * * *
78306617 CTGGTGGCTCTGCCCCAATTATCTGTATCTGGTGACTCTGTCACAT-TATTTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
78306671 CTGG
1 CTGG
78306675 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:78309354 original size:27 final size:27
Alignment explanation
Indices: 78309323--78309500 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
78309313 TAAATTGTAC
78309323 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
78309350 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
78309376 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
78309404 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
78309432 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
78309459 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
78309486 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
78309501 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:78309437 original size:82 final size:81
Alignment explanation
Indices: 78309324--78309479 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
78309314 AAATTGTACA
* *
78309324 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
78309388 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
78309405 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
78309470 TGCGAGTTGA
65 TGCGAATTGA
78309480 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:78309491 original size:82 final size:81
Alignment explanation
Indices: 78309320--78309500 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
78309310 GATTAAATTG
* *
78309320 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
78309385 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
78309401 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
78309465 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
78309483 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
78309501 GGCTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:78309511 original size:27 final size:27
Alignment explanation
Indices: 78309405--78309511 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
78309395 TGACCATGCG
* * * *
78309405 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
78309433 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
78309460 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
78309487 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
78309512 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:78315080 original size:39 final size:40
Alignment explanation
Indices: 78314966--78315150 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
78314956 GCTACTCGTT
*
78314966 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
78315006 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
78315046 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
78315085 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
* *
78315126 CAAA-GCCTTCAGTACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
78315151 CATCATTCGA
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 78 0.63
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:78315134 original size:79 final size:80
Alignment explanation
Indices: 78314966--78315150 Score: 207
Period size: 79 Copynumber: 2.3 Consensus size: 80
78314956 GCTACTCGTT
* *
78314966 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGG-CTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
*
78315030 GATTTAGTAACTTGCAC
64 GATATAGTAACTTGCAC
* **
78315047 CAATGCCTTCGGGCTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAAGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
78315110 ATATGGTCACTTAGCA-
65 ATATAGTAACTT-GCAC
**
78315126 CAAAGCCTTCAGTACTTAGCCCGGA
1 CAAAGCCTTC-GGGCTTAGCCCGGA
78315151 CATCATTCGA
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 25 0.28
81 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAAGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTTGCAC
Found at i:78322173 original size:39 final size:40
Alignment explanation
Indices: 78322060--78322243 Score: 211
Period size: 40 Copynumber: 4.7 Consensus size: 40
78322050 GCTCCTCGTT
* * * *
78322060 CAAATGCCTTCGGGACATAGCCCGGTTATAT-TAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-AATTTGTATCTCGCA
*
78322100 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTTGTATCTCGCA
78322140 CAAATGCCTTCGGG-CTTAGCCCGGAATTTGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTTGTATCTCGCA
* *
78322179 CAAATGCCTTC-GGATCTTAGTCCGG-ATATTGTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TTGT-ATC-TCGCA
78322220 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
78322244 CATCATTCAA
Statistics
Matches: 127, Mismatches: 9, Indels: 16
0.84 0.06 0.11
Matches are distributed among these distances:
38 2 0.02
39 54 0.43
40 65 0.51
41 6 0.05
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTTGTATCTCGCA
Found at i:78322177 original size:79 final size:80
Alignment explanation
Indices: 78322060--78322243 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 80
78322050 GCTCCTCGTT
* *
78322060 CAAATGCCTTCGGGACATAGCCCGGTTATATTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGG-AATATTAACTCGCACAAATGCCTTC-GGATCTTAGCCCG
*
78322124 GA-ATTAGT-A-TCTCGCA
64 GATATT-GTCACT-TAGCA
* * *
78322140 CAAATGCCTTCGGG-CTTAGCCCGGAATTTGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATAT-TAACTCGCACAAATGCCTTCGGATCTTAGCCCGG
78322204 ATATTGTCACTTAGCA
65 ATATTGTCACTTAGCA
78322220 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
78322244 CATCATTCAA
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 15 0.16
79 53 0.58
80 23 0.25
81 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATTAACTCGCACAAATGCCTTCGGATCTTAGCCCGGA
TATTGTCACTTAGCA
Found at i:78331008 original size:28 final size:28
Alignment explanation
Indices: 78330976--78331074 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
78330966 ATAGTAAGTC
*
78330976 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
78331004 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* ** * *
78331032 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
78331061 CGCACACTTAGTGC
1 CGCACACTTAGTGC
78331075 CAATCTCATG
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 45 0.71
29 18 0.29
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:78348223 original size:12 final size:11
Alignment explanation
Indices: 78348190--78348222 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
78348180 ACTGCTAATA
*
78348190 AAAATTATTTT
1 AAAATTCTTTT
78348201 AAAATTCTTTT
1 AAAATTCTTTT
78348212 AAAATTCTTTT
1 AAAATTCTTTT
78348223 TTGACCCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (11 bp):
AAAATTCTTTT
Found at i:78352026 original size:17 final size:17
Alignment explanation
Indices: 78351996--78352032 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
78351986 TAAACACTTT
* *
78351996 TAAAATATCCTAAACCC
1 TAAAAAATCATAAACCC
78352013 TAAAAAATCATAAACCC
1 TAAAAAATCATAAACCC
78352030 TAA
1 TAA
78352033 CCTTAAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.24, G:0.00, T:0.22
Consensus pattern (17 bp):
TAAAAAATCATAAACCC
Found at i:78354138 original size:20 final size:22
Alignment explanation
Indices: 78354099--78354139 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
78354089 ACTAATTTTA
78354099 ATTTTATGATATAGAAATAATT
1 ATTTTATGATATAGAAATAATT
*
78354121 ATTTTAT-ATTTA-AAATAAT
1 ATTTTATGATATAGAAATAAT
78354140 AAAAATAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 4 0.22
22 7 0.39
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (22 bp):
ATTTTATGATATAGAAATAATT
Found at i:78358704 original size:26 final size:27
Alignment explanation
Indices: 78358665--78358715 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
78358655 TGCCATATAA
*
78358665 CAGGAAGCTCACAAAGAG-CTATTAAT
1 CAGGAAGCTCACAAAAAGCCTATTAAT
*
78358691 CAGGAAGCTTACAAAAAGCCTATTA
1 CAGGAAGCTCACAAAAAGCCTATTA
78358716 GGAAGCTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.20
Consensus pattern (27 bp):
CAGGAAGCTCACAAAAAGCCTATTAAT
Found at i:78361983 original size:79 final size:82
Alignment explanation
Indices: 78361872--78362056 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
78361862 GCTACTCGTT
* *
78361872 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
78361935 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
78361952 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
78362015 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
78362032 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
78362057 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:78362056 original size:40 final size:40
Alignment explanation
Indices: 78361853--78362056 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
78361843 CGGAATTTAA
** *
78361853 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
78361893 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
78361933 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
78361972 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
78362012 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
78362052 CCGGA
1 CCGGA
78362057 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:78369933 original size:79 final size:82
Alignment explanation
Indices: 78369822--78370006 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
78369812 GCTACTCGTT
* *
78369822 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
78369885 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
78369902 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
78369965 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
78369982 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
78370007 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:78370006 original size:40 final size:40
Alignment explanation
Indices: 78369803--78370006 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
78369793 CGGAATTTAA
** *
78369803 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
78369843 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
78369883 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
78369922 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
78369962 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
78370002 CCGGA
1 CCGGA
78370007 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:78376097 original size:18 final size:20
Alignment explanation
Indices: 78376061--78376107 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
78376051 AGTTGTAAGT
78376061 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
78376081 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
78376100 ATGATATA
1 AT-ATATA
78376108 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:78376631 original size:50 final size:50
Alignment explanation
Indices: 78376455--78376800 Score: 304
Period size: 50 Copynumber: 6.9 Consensus size: 50
78376445 ATCCGTTGTG
78376455 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA-TA
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TGATTA
* ** * * * * ** * * *
78376505 GGTTGCATGTATAGTACTAAGTGTAGGCTACTATGCATACCCGTTAACTT-
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGA-TTA
* * * *
78376555 CGATCACGTGTGTAGTACTAAATGCAGGCTACTATGTGTATCAGATGATTA
1 AG-TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGATTA
* * * * *
78376606 AGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGTTAACTT-
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGA-TTA
* * *
78376656 TGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTA
1 AG-TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGATTA
* * * * *
78376707 AGTCACGTGTGTGGTACTAAATGCAAGCTACTACATGTACCAAATTGA-TA
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TGATTA
* * * * *
78376757 GGTCACATGTGTAGTACTAATTGCAGGCTACTATGCGTACCAGA
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
78376801 GAGCTTCGGT
Statistics
Matches: 229, Mismatches: 59, Indels: 16
0.75 0.19 0.05
Matches are distributed among these distances:
49 2 0.01
50 149 0.65
51 78 0.34
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (50 bp):
AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGATTA
Found at i:78376634 original size:101 final size:101
Alignment explanation
Indices: 78376457--78376740 Score: 394
Period size: 101 Copynumber: 2.8 Consensus size: 101
78376447 CCGTTGTGAG
* * *
78376457 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA-TAGGT--TGCATGTATAG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGATTAAGTCATG--TGTGTAG
* *
78376519 TACTAAGTGTAGGCTACTATGCATACCCGTTAACTTCGA
63 TACTAAGTGCAGGCTACTACGCATACCCGTTAACTTCGA
* *
78376558 TCACGTGTGTAGTACTAAATGCAGGCTACTATGTGTATCAGATGATTAAGTCATGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATTAAGTCATGTGTGTAGTAC
* *
78376623 TAAGTGCAGGCTACTACGCGTACCCGTTAACTTTGA
66 TAAGTGCAGGCTACTACGCATACCCGTTAACTTCGA
* * *
78376659 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTGGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATTAAGTCATGTGTGTAGTAC
* *
78376724 TAAATGCAAGCTACTAC
66 TAAGTGCAGGCTACTAC
78376741 ATGTACCAAA
Statistics
Matches: 164, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
100 3 0.02
101 159 0.97
103 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATTAAGTCATGTGTGTAGTAC
TAAGTGCAGGCTACTACGCATACCCGTTAACTTCGA
Found at i:78377550 original size:180 final size:180
Alignment explanation
Indices: 78377358--78377696 Score: 482
Period size: 180 Copynumber: 1.9 Consensus size: 180
78377348 ATACAGGAGT
* * * *
78377358 TGTACCATGAGATAAATAATTTTTAGTGAAGAGAGGTCAGAACTGTCAGATAGTGAAACAGAGG-
1 TGTACCATGAGATAAATAATTTTTACTAAAGAGAGGTCAGAACTGTCAGACAATGAAACAG-GGA
* *
78377422 TATCCTTAATGAATAAAATGTACTAATTGGATAAACCAAAAATTATGAAAATTTTATTGTAAGAA
65 TAACCTTAATGAATAAAATGTACTAATTGGATAAACCAAAAATTATGAAAATTTTATGGTAAGAA
* * * *
78377487 TATATGTGAGTCTAGTTTCTGGGAAAATTAGCGGTTCTCAATTTGAAGTCC
130 GATATATGAGTCTAGTTTCAGAGAAAATTAGCGGTTCTCAATTTGAAGTCC
* * *
78377538 TGTACCATGAGATAAATAATTTTTACTAAAGAGAGGTCGGAATTGTCAGACAATGAAATAGGGAT
1 TGTACCATGAGATAAATAATTTTTACTAAAGAGAGGTCAGAACTGTCAGACAATGAAACAGGGAT
* * * * ** *
78377603 AACTTTAGTGAATAAAATGTACTTATTGGCTGGACCAAAAATTCTGAAAATTTTATGGTAAGAAG
66 AACCTTAATGAATAAAATGTACTAATTGGATAAACCAAAAATTATGAAAATTTTATGGTAAGAAG
78377668 ATATATGAGTCTAGTTTCAGAGAAAATTA
131 ATATATGAGTCTAGTTTCAGAGAAAATTA
78377697 ACAAATCTTA
Statistics
Matches: 138, Mismatches: 20, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
179 2 0.01
180 136 0.99
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.31
Consensus pattern (180 bp):
TGTACCATGAGATAAATAATTTTTACTAAAGAGAGGTCAGAACTGTCAGACAATGAAACAGGGAT
AACCTTAATGAATAAAATGTACTAATTGGATAAACCAAAAATTATGAAAATTTTATGGTAAGAAG
ATATATGAGTCTAGTTTCAGAGAAAATTAGCGGTTCTCAATTTGAAGTCC
Found at i:78378495 original size:43 final size:43
Alignment explanation
Indices: 78378447--78378577 Score: 262
Period size: 43 Copynumber: 3.0 Consensus size: 43
78378437 TGTGTATAAG
78378447 TATGAGAGAGAATTAAGGACAACATAAGGCTTGGAAAATAGCC
1 TATGAGAGAGAATTAAGGACAACATAAGGCTTGGAAAATAGCC
78378490 TATGAGAGAGAATTAAGGACAACATAAGGCTTGGAAAATAGCC
1 TATGAGAGAGAATTAAGGACAACATAAGGCTTGGAAAATAGCC
78378533 TATGAGAGAGAATTAAGGACAACATAAGGCTTGGAAAATAGCC
1 TATGAGAGAGAATTAAGGACAACATAAGGCTTGGAAAATAGCC
78378576 TA
1 TA
78378578 AGTGTTAGCT
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 88 1.00
ACGTcount: A:0.44, C:0.11, G:0.25, T:0.19
Consensus pattern (43 bp):
TATGAGAGAGAATTAAGGACAACATAAGGCTTGGAAAATAGCC
Found at i:78381344 original size:68 final size:68
Alignment explanation
Indices: 78381194--78381351 Score: 160
Period size: 68 Copynumber: 2.3 Consensus size: 68
78381184 CTAGCCAATT
* * *
78381194 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACACATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACA
**
78381259 TTTA
65 CATA
* * *
78381263 TCTCTCCCGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTA
1 TATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTA
78381325 CTACATA
63 C-ACATA
*
78381332 GTATCTCGTAGCTTTCTTGT
1 -TATCTCGTAGCTCTCTTGT
78381352 ACACATGATG
Statistics
Matches: 74, Mismatches: 10, Indels: 11
0.78 0.11 0.12
Matches are distributed among these distances:
68 35 0.47
69 7 0.09
70 6 0.08
71 26 0.35
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (68 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACAC
ATA
Found at i:78389354 original size:15 final size:15
Alignment explanation
Indices: 78389334--78389367 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
78389324 AGTATATACA
*
78389334 CACAACCAATTCAAC
1 CACAACCAAGTCAAC
*
78389349 CACAACCAAGTCATC
1 CACAACCAAGTCAAC
78389364 CACA
1 CACA
78389368 CATCAATTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.41, G:0.03, T:0.12
Consensus pattern (15 bp):
CACAACCAAGTCAAC
Found at i:78393837 original size:27 final size:27
Alignment explanation
Indices: 78393806--78393983 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
78393796 TAAATTGTAC
78393806 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
78393833 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
78393859 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
78393887 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
78393915 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
78393942 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
78393969 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
78393984 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:78393920 original size:82 final size:81
Alignment explanation
Indices: 78393807--78393962 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
78393797 AAATTGTACA
* *
78393807 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
78393871 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
78393888 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
78393953 TGCGAGTTGA
65 TGCGAATTGA
78393963 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:78393974 original size:82 final size:81
Alignment explanation
Indices: 78393803--78393983 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
78393793 GATTAAATTG
* *
78393803 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
78393868 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
78393884 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
78393948 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
78393966 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
78393984 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:78395582 original size:20 final size:21
Alignment explanation
Indices: 78395549--78395592 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
78395539 CTCTCTTTCT
* *
78395549 TTTCTATTTCTTTTGC-TTTG
1 TTTCTATTTATTTTACTTTTG
*
78395569 TTTCTTTTTATTTTACTTTTG
1 TTTCTATTTATTTTACTTTTG
78395590 TTT
1 TTT
78395593 ATTATTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.07, C:0.11, G:0.07, T:0.75
Consensus pattern (21 bp):
TTTCTATTTATTTTACTTTTG
Found at i:78395890 original size:20 final size:21
Alignment explanation
Indices: 78395857--78395900 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
78395847 CTCTCTTTCT
* *
78395857 TTTCTATTTCTTTTGC-TTTG
1 TTTCTATTTATTTTACTTTTG
*
78395877 TTTCTTTTTATTTTACTTTTG
1 TTTCTATTTATTTTACTTTTG
78395898 TTT
1 TTT
78395901 ATTATTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.07, C:0.11, G:0.07, T:0.75
Consensus pattern (21 bp):
TTTCTATTTATTTTACTTTTG
Found at i:78395965 original size:308 final size:308
Alignment explanation
Indices: 78395407--78396022 Score: 1187
Period size: 308 Copynumber: 2.0 Consensus size: 308
78395397 TAATTTCAAC
* *
78395407 AAAACTTTGTTCTAAAGCTTTTAAAACATCAAAATTAAGAGAAAATGACTTAATTGACTTACCTT
1 AAAACTTTGTTCTAAAGCTTCTAAAACATCAAAATTAAGAGAAAAGGACTTAATTGACTTACCTT
78395472 TTAAAGCTTCAAACCTTAAAACCCTAGTTTTTCCTTTTTCTTTCTTTCCTTCCCCTGTCCGAACG
66 TTAAAGCTTCAAACCTTAAAACCCTAGTTTTTCCTTTTTCTTTCTTTCCTTCCCCTGTCCGAACG
78395537 TTCTCTCTTTCTTTTCTATTTCTTTTGCTTTGTTTCTTTTTATTTTACTTTTGTTTATTATTTTA
131 TTCTCTCTTTCTTTTCTATTTCTTTTGCTTTGTTTCTTTTTATTTTACTTTTGTTTATTATTTTA
78395602 TTATATTAACTTAATAAATATTATTATTTCTTAAATAATAAGTAAATAAATAAATATATTACAAT
196 TTATATTAACTTAATAAATATTATTATTTCTTAAATAATAAGTAAATAAATAAATATATTACAAT
* *
78395667 TGTATGTATATGATTTATTACACTTGTATTTTACTATCACCTTACATT
261 TGTATGTATATGATTCAGTACACTTGTATTTTACTATCACCTTACATT
78395715 AAAACTTTGTTCTAAAGCTTCTAAAACATCAAAATTAAGAGAAAAGGACTTAATTGACTTACCTT
1 AAAACTTTGTTCTAAAGCTTCTAAAACATCAAAATTAAGAGAAAAGGACTTAATTGACTTACCTT
78395780 TTAAAGCTTCAAACCTTAAAACCCTAGTTTTTCCTTTTTCTTTCTTTCCTTCCCCTGTCCGAACG
66 TTAAAGCTTCAAACCTTAAAACCCTAGTTTTTCCTTTTTCTTTCTTTCCTTCCCCTGTCCGAACG
78395845 TTCTCTCTTTCTTTTCTATTTCTTTTGCTTTGTTTCTTTTTATTTTACTTTTGTTTATTATTTTA
131 TTCTCTCTTTCTTTTCTATTTCTTTTGCTTTGTTTCTTTTTATTTTACTTTTGTTTATTATTTTA
78395910 TTATATTAACTTAATAAATATTATTATTTCTTAAATAATAAGTAAATAAATAAATATATTACAAT
196 TTATATTAACTTAATAAATATTATTATTTCTTAAATAATAAGTAAATAAATAAATATATTACAAT
*
78395975 TGTATGTATATGATTCAGTACACTTGTATTTTATTATCACCTTACATT
261 TGTATGTATATGATTCAGTACACTTGTATTTTACTATCACCTTACATT
78396023 TGTCAATTTA
Statistics
Matches: 303, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
308 303 1.00
ACGTcount: A:0.30, C:0.16, G:0.06, T:0.48
Consensus pattern (308 bp):
AAAACTTTGTTCTAAAGCTTCTAAAACATCAAAATTAAGAGAAAAGGACTTAATTGACTTACCTT
TTAAAGCTTCAAACCTTAAAACCCTAGTTTTTCCTTTTTCTTTCTTTCCTTCCCCTGTCCGAACG
TTCTCTCTTTCTTTTCTATTTCTTTTGCTTTGTTTCTTTTTATTTTACTTTTGTTTATTATTTTA
TTATATTAACTTAATAAATATTATTATTTCTTAAATAATAAGTAAATAAATAAATATATTACAAT
TGTATGTATATGATTCAGTACACTTGTATTTTACTATCACCTTACATT
Found at i:78396317 original size:140 final size:145
Alignment explanation
Indices: 78396096--78396364 Score: 318
Period size: 140 Copynumber: 1.9 Consensus size: 145
78396086 TAAATATGTA
* * * *
78396096 TTTAATACACAAATACATATATTACAAATGTACACTTATAAATATTTTTACATTTGTATATTATC
1 TTTAATACACAAATACAAATACTACAAATGTACAC-TATAAATATTTTTACATTTGTACAATATC
* * * * * *
78396161 ATGACCATCCACTTGTCTTTCTTTT-ATTTATTTA-TCAT-AAAAAATCTTATAATATAATTAAT
65 ATGACCATACAATTGTCATACTTTTAATTTATTTACTAATAAAAAAATCTCATAATATAATTAAT
78396223 ATAAATTATAATTTAT
130 ATAAATTATAATTTAT
* * * *
78396239 TTTAATA-ACAAGTACAAATACTACAATTGTACAC-ATATAT-TTTTGTACATTTGTGCAATATC
1 TTTAATACACAAATACAAATACTACAAATGTACACTATAAATATTTT-TACATTTGTACAATATC
*
78396301 AAT-ACCATACAATTGTCATACTTTTAATTTATTTACTAATAAAAAAAATCTCCTAATATAATTA
65 -ATGACCATACAATTGTCATACTTTTAATTTATTTACTAAT-AAAAAAATCTCATAATATAATTA
78396365 TTTAATTAGT
Statistics
Matches: 105, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
139 4 0.04
140 37 0.35
141 11 0.10
142 26 0.25
143 7 0.07
144 20 0.19
ACGTcount: A:0.41, C:0.13, G:0.04, T:0.42
Consensus pattern (145 bp):
TTTAATACACAAATACAAATACTACAAATGTACACTATAAATATTTTTACATTTGTACAATATCA
TGACCATACAATTGTCATACTTTTAATTTATTTACTAATAAAAAAATCTCATAATATAATTAATA
TAAATTATAATTTAT
Found at i:78397319 original size:25 final size:23
Alignment explanation
Indices: 78397267--78397321 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
78397257 TATAAATAGT
78397267 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
78397290 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
78397315 AATAGTG
1 AATAGTG
78397322 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:78397499 original size:25 final size:24
Alignment explanation
Indices: 78397470--78397598 Score: 99
Period size: 23 Copynumber: 5.5 Consensus size: 24
78397460 AAAAAATATA
*
78397470 AATATAAATAATATAGTATTAAAG
1 AATATACATAATATAGTATTAAAG
*
78397494 ATATATACATAAAATAGTA-TAATA-
1 A-ATATACATAATATAGTATTAA-AG
* * * *
78397518 TATATACGTAATATAGAATT-TAG
1 AATATACATAATATAGTATTAAAG
* *
78397541 AATATACCTAATATA-T-TAAAAG
1 AATATACATAATATAGTATTAAAG
* * *
78397563 AATATATATAATATAATATTAAAA
1 AATATACATAATATAGTATTAAAG
78397587 AATATA-ATAATA
1 AATATACATAATA
78397599 ACAAAAAAAG
Statistics
Matches: 82, Mismatches: 16, Indels: 15
0.73 0.14 0.13
Matches are distributed among these distances:
21 1 0.01
22 16 0.20
23 34 0.41
24 15 0.18
25 16 0.20
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (24 bp):
AATATACATAATATAGTATTAAAG
Found at i:78397505 original size:29 final size:28
Alignment explanation
Indices: 78397396--78397506 Score: 72
Period size: 29 Copynumber: 4.0 Consensus size: 28
78397386 AAATATGTAC
* *
78397396 ATAATATAGT-GTAAAA-A-ATACATAC
1 ATAATATAGTATTAAAATATATACATAA
* *
78397421 GTAATATA--ATTAAAATATATTCATAA
1 ATAATATAGTATTAAAATATATACATAA
* * * *
78397447 GATAACAT-GTATAAAAAAATATAAATATAA
1 -ATAATATAGTAT--TAAAATATATACATAA
78397477 ATAATATAGTATTAAAGATATATACATAA
1 ATAATATAGTATTAAA-ATATATACATAA
78397506 A
1 A
78397507 ATAGTATAAT
Statistics
Matches: 62, Mismatches: 14, Indels: 16
0.67 0.15 0.17
Matches are distributed among these distances:
24 5 0.08
25 8 0.13
26 6 0.10
27 5 0.08
28 5 0.08
29 17 0.27
30 16 0.26
ACGTcount: A:0.58, C:0.05, G:0.06, T:0.32
Consensus pattern (28 bp):
ATAATATAGTATTAAAATATATACATAA
Found at i:78397905 original size:16 final size:16
Alignment explanation
Indices: 78397867--78397905 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
78397857 ATCTCCAAAA
*
78397867 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
78397883 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
78397899 AATAACT
1 AAAAACT
78397906 CATCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:78398088 original size:30 final size:30
Alignment explanation
Indices: 78398051--78398149 Score: 153
Period size: 30 Copynumber: 3.3 Consensus size: 30
78398041 TAGGTACAAG
* *
78398051 TGGTGGTGGAGCAAGTATGGCTAATGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* * *
78398081 AGGTGGTGGAACAAGTGTGGCTAGTAGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
78398111 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
78398141 TGGTGGTGG
1 TGGTGGTGG
78398150 CAAAGGCTAG
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 61 1.00
ACGTcount: A:0.20, C:0.06, G:0.47, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:78398941 original size:20 final size:20
Alignment explanation
Indices: 78398918--78398955 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
78398908 CTTGCAACTC
78398918 ACCATAATCTTTCACAACAT
1 ACCATAATCTTTCACAACAT
* *
78398938 ACCATAGTCTTTCCCAAC
1 ACCATAATCTTTCACAAC
78398956 TTTAACATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.34, G:0.03, T:0.29
Consensus pattern (20 bp):
ACCATAATCTTTCACAACAT
Found at i:78402028 original size:14 final size:15
Alignment explanation
Indices: 78401997--78402038 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
78401987 AATACAAAAC
*
78401997 TATTAAAAATTATAAAT
1 TATTAAAAA-AAT-AAT
78402014 TA-TAAAAAAATAAT
1 TATTAAAAAAATAAT
78402028 TATTAAAAAAA
1 TATTAAAAAAA
78402039 CACCCTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 5 0.22
15 10 0.43
16 6 0.26
17 2 0.09
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TATTAAAAAAATAAT
Found at i:78404542 original size:23 final size:23
Alignment explanation
Indices: 78404516--78404609 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
78404506 AAGTTAGAAG
78404516 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
78404539 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
78404562 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
78404585 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
78404608 AG
1 AG
78404610 ATACACACAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.48, C:0.04, G:0.26, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:78409049 original size:23 final size:23
Alignment explanation
Indices: 78409023--78409117 Score: 118
Period size: 23 Copynumber: 4.1 Consensus size: 23
78409013 AAGTTAGAAG
78409023 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
78409046 AGTGAAAAAAACTTGAATATGAAT
1 AGTG-AAGAGACTTGAATATGAAA
* *
78409070 AGTGAAGTGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
78409093 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
78409116 AG
1 AG
78409118 ATACACACAT
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
23 39 0.66
24 20 0.34
ACGTcount: A:0.47, C:0.04, G:0.25, T:0.23
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:78410644 original size:32 final size:30
Alignment explanation
Indices: 78410598--78410676 Score: 97
Period size: 32 Copynumber: 2.6 Consensus size: 30
78410588 TGAGGGTTCT
78410598 ATTAAAATTTTCAAAAAAATTTAGGAAGCTTA
1 ATTAAAATTTTCAAAAAAATTTAGGAA--TTA
* **
78410630 A-TAGAAATGTTCAAAAATTTTTAGGAATTA
1 ATTA-AAATTTTCAAAAAAATTTAGGAATTA
78410660 ATTAAAATTTTCAAAAA
1 ATTAAAATTTTCAAAAA
78410677 TTTATAAACA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
30 16 0.39
31 4 0.10
32 21 0.51
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.35
Consensus pattern (30 bp):
ATTAAAATTTTCAAAAAAATTTAGGAATTA
Found at i:78410648 original size:30 final size:28
Alignment explanation
Indices: 78410598--78410680 Score: 78
Period size: 30 Copynumber: 2.8 Consensus size: 28
78410588 TGAGGGTTCT
*
78410598 ATTAAAATTTTCAAAAAAATTTAGGAAGCTTA
1 ATTAAAATGTTC--AAAAATTTAGGAA--TTA
78410630 A-TAGAAATGTTCAAAAATTTTTAGGAATTA
1 ATTA-AAATGTTCAAAAA--TTTAGGAATTA
*
78410660 ATTAAAATTTTCAAAAATTTA
1 ATTAAAATGTTCAAAAATTTA
78410681 TAAACATTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
28 4 0.09
30 21 0.47
31 4 0.09
32 16 0.36
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.37
Consensus pattern (28 bp):
ATTAAAATGTTCAAAAATTTAGGAATTA
Found at i:78416623 original size:42 final size:44
Alignment explanation
Indices: 78416567--78416668 Score: 118
Period size: 44 Copynumber: 2.4 Consensus size: 44
78416557 TACTATCCGG
* * * * *
78416567 GACAGGGTCTTACAC-CAAATCGCATA-CGATGCCAATGTCCTA
1 GACATGGTCTTACACGCAAATCACAAATCGATGCCAACGTCCCA
* *
78416609 GACATGGTTTTACACGTAAATCACAAATCGATGCCAACGTCCCA
1 GACATGGTCTTACACGCAAATCACAAATCGATGCCAACGTCCCA
*
78416653 GACGTGGTCTTACACG
1 GACATGGTCTTACACG
78416669 ATAACACATA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 13 0.27
43 8 0.16
44 28 0.57
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (44 bp):
GACATGGTCTTACACGCAAATCACAAATCGATGCCAACGTCCCA
Found at i:78420412 original size:27 final size:27
Alignment explanation
Indices: 78420247--78420612 Score: 249
Period size: 27 Copynumber: 13.6 Consensus size: 27
78420237 TTCACCCTAC
* * * * *
78420247 AGGGTGTTTTGGTAAATCTACAAACCA
1 AGGGTATTTCGGTAATTTTACAAATCA
*
78420274 AGGGTATTTCGGTAAATTTT-CAAACCA
1 AGGGTATTTCGGT-AATTTTACAAATCA
* ** **
78420301 ATGGTATTTTTGTAATTTTTGAAAGTCA
1 AGGGTATTTCGGTAATTTTACAAA-TCA
* ** * *
78420329 ATGGTATTTTTGTAATTTTATAAAT-T
1 AGGGTATTTCGGTAATTTTACAAATCA
* * *
78420355 AGGGTATTTCTGTAA-TTTCCAAATTA
1 AGGGTATTTCGGTAATTTTACAAATCA
* *
78420381 AGGGTATTTCGGTAATTTTTCAAATTA
1 AGGGTATTTCGGTAATTTTACAAATCA
* *
78420408 AGGGTATTTGGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCA
* * **
78420435 AGGGTATTTCGATAATTTTACAAGTTG
1 AGGGTATTTCGGTAATTTTACAAATCA
* * * *
78420462 AGGGCATTTTGATAATTTCACAAATCA
1 AGGGTATTTCGGTAATTTTACAAATCA
* * * * *
78420489 GGGGTATTTTGATAATTTCACAAAT-T
1 AGGGTATTTCGGTAATTTTACAAATCA
*
78420515 AGTGGTATTTCGGTAATTTCACAAATC-
1 AG-GGTATTTCGGTAATTTTACAAATCA
* * *
78420542 AGGGTGTTTTGGTAATTTTACAAA-CC
1 AGGGTATTTCGGTAATTTTACAAATCA
* ** *
78420568 AGAGGTATTTTGGTAATTTTGTAAACCA
1 AG-GGTATTTCGGTAATTTTACAAATCA
*
78420596 AGGGTATTTCAGTAATT
1 AGGGTATTTCGGTAATT
78420613 CTACCCTACA
Statistics
Matches: 281, Mismatches: 48, Indels: 20
0.81 0.14 0.06
Matches are distributed among these distances:
25 8 0.03
26 55 0.20
27 187 0.67
28 31 0.11
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTACAAATCA
Found at i:78420445 original size:54 final size:53
Alignment explanation
Indices: 78420247--78420612 Score: 290
Period size: 54 Copynumber: 6.8 Consensus size: 53
78420237 TTCACCCTAC
* * * * **
78420247 AGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCGGTAAATTTT-CAAACCA
1 AGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGT-AATTTTACAAA-TT
* * ** * ** *
78420301 ATGGTATTTTTGTAATTTTTGAAAGTCAATGGTATTTTTGTAATTTTATAAATT
1 AGGGTATTTTGGTAATTTTACAAA-TCAAGGGTATTTCGGTAATTTTACAAATT
* * *
78420355 AGGGTATTTCT-GTAA-TTTCCAAATTAAGGGTATTTCGGTAATTTTTCAAATT
1 AGGGTATTT-TGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATT
* * * *
78420407 AAGGGTATTTGGGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAGTT
1 -AGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATT
* * * * * * *
78420461 GAGGGCATTTTGATAATTTCACAAATCAGGGGTATTTTGATAATTTCACAAATT
1 -AGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATT
* * * * **
78420515 AGTGGTATTTCGGTAATTTCACAAATC-AGGGTGTTTTGGTAATTTTACAAACC
1 AG-GGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATT
** * *
78420568 AGAGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATT
1 AG-GGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATT
78420613 CTACCCTACA
Statistics
Matches: 246, Mismatches: 58, Indels: 16
0.77 0.18 0.05
Matches are distributed among these distances:
52 23 0.09
53 62 0.25
54 145 0.59
55 16 0.07
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.40
Consensus pattern (53 bp):
AGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATT
Found at i:78420478 original size:107 final size:105
Alignment explanation
Indices: 78420266--78420565 Score: 291
Period size: 107 Copynumber: 2.8 Consensus size: 105
78420256 TGGTAAATCT
* * ** * ** ** *
78420266 ACAAACCAAGGGTATTTCGGTAAATTTTCAAACCAATGGTATTTTTGTAATTTTTGAAAGTCAAT
1 ACAAATCAAGGGTATTTCGGTAATTTTTCAAATTAAGGGTATTTCGGTAATTTTACAAA-TC-AG
* *
78420331 GGTATTTTTGTAATTTTATAAATTAGGGTATTTCTGTAATTTC
64 GGTA-TTTTGTAATTTTACAAATTAGGGCATTTCTGTAATTTC
* *
78420374 -CAAATTAAGGGTATTTCGGTAATTTTTCAAATTAAGGGTATTTGGGTAATTTTACAAATCGAGG
1 ACAAATCAAGGGTATTTCGGTAATTTTTCAAATTAAGGGTATTTCGGTAATTTTACAAATC-AGG
* *
78420438 GTATTTCGATAATTTTACAAGTTGAGGGCATTT-TGATAATTTC
65 GTATTTTG-TAATTTTACAAATT-AGGGCATTTCTG-TAATTTC
* * * ** *
78420481 ACAAATCAGGGGTATTTTGATAATTTCACAAATT-AGTGGTATTTCGGTAATTTCACAAATCAGG
1 ACAAATCAAGGGTATTTCGGTAATTTTTCAAATTAAG-GGTATTTCGGTAATTTTACAAATCAGG
*
78420545 GTGTTTTGGTAATTTTACAAA
65 GTATTTT-GTAATTTTACAAA
78420566 CCAGAGGTAT
Statistics
Matches: 159, Mismatches: 27, Indels: 13
0.80 0.14 0.07
Matches are distributed among these distances:
105 4 0.03
106 21 0.13
107 84 0.53
108 50 0.31
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (105 bp):
ACAAATCAAGGGTATTTCGGTAATTTTTCAAATTAAGGGTATTTCGGTAATTTTACAAATCAGGG
TATTTTGTAATTTTACAAATTAGGGCATTTCTGTAATTTC
Found at i:78429111 original size:17 final size:17
Alignment explanation
Indices: 78429089--78429122 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
78429079 TTCCCATTTT
78429089 AGTTGTTTTCTCAACTA
1 AGTTGTTTTCTCAACTA
78429106 AGTTGTTTTCTCAACTA
1 AGTTGTTTTCTCAACTA
78429123 CGTTCTATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.47
Consensus pattern (17 bp):
AGTTGTTTTCTCAACTA
Found at i:78431621 original size:39 final size:39
Alignment explanation
Indices: 78431576--78431657 Score: 164
Period size: 39 Copynumber: 2.1 Consensus size: 39
78431566 CTTATTAACA
78431576 TATAATTGATTAATACTCTAACACTTAATATAACATCCC
1 TATAATTGATTAATACTCTAACACTTAATATAACATCCC
78431615 TATAATTGATTAATACTCTAACACTTAATATAACATCCC
1 TATAATTGATTAATACTCTAACACTTAATATAACATCCC
78431654 TATA
1 TATA
78431658 CTGTAACACC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.41, C:0.20, G:0.02, T:0.37
Consensus pattern (39 bp):
TATAATTGATTAATACTCTAACACTTAATATAACATCCC
Found at i:78437076 original size:54 final size:54
Alignment explanation
Indices: 78436892--78437085 Score: 219
Period size: 55 Copynumber: 3.6 Consensus size: 54
78436882 AACATACCAT
* * * * * *
78436892 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCTTTACCTTATAGAACTCATCAA
* ** * *
78436945 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCTTTACCTTATAG-AACTCATCAA
* * * * *
78437000 TGCCATGTCGTGACAGGGTCTTACATGATTTCTTTACCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCTTTACCTTATAGAACTCATCAA
*
78437054 TGCCATGCCTTGGCATGGTCTTACATGATATC
1 TGCCATGCCTTGACATGGTCTTACATGATATC
78437086 CTTATCCTAC
Statistics
Matches: 116, Mismatches: 23, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
53 35 0.30
54 37 0.32
55 44 0.38
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (54 bp):
TGCCATGCCTTGACATGGTCTTACATGATATCTTTACCTTATAGAACTCATCAA
Found at i:78437185 original size:47 final size:47
Alignment explanation
Indices: 78437067--78437188 Score: 190
Period size: 47 Copynumber: 2.6 Consensus size: 47
78437057 CATGCCTTGG
* * * *
78437067 CATGGTCTTACATGATATCCTTATCCTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGGTCCAAA
* *
78437114 CATGGTCTTACATGGTATCATTGTCTTACCAAATTCCATGGTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGGTCCAAA
78437161 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
78437189 GTGCCAATGC
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.35
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGGTCCAAA
Found at i:78441846 original size:37 final size:37
Alignment explanation
Indices: 78441805--78441877 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
78441795 TATTCACAAT
*
78441805 TTATTCATTATCACATAAACATTATGAACCATTATTA
1 TTATTCATTATCACATAAACATCATGAACCATTATTA
78441842 TTATTCATTATCACATAAACATCATGAACCATTATT
1 TTATTCATTATCACATAAACATCATGAACCATTATT
78441878 CTTACATTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.40, C:0.18, G:0.03, T:0.40
Consensus pattern (37 bp):
TTATTCATTATCACATAAACATCATGAACCATTATTA
Found at i:78443583 original size:55 final size:53
Alignment explanation
Indices: 78443455--78443643 Score: 182
Period size: 55 Copynumber: 3.5 Consensus size: 53
78443445 AACATACCAT
** * * * * *
78443455 TGCCATGTTTTGACATGGTCTTACGTGGTATCGTTGCCTT-TTGAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTTCCTTATAGAACTCATCAA
* * * *
78443508 TACCATGCCTTGGCAGGGTCTTACATGGGACCTTTTCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTTCCTTATAG-AACTCATCAA
* * * * *
78443563 TGTCATGTCTTGACATGGTCTTACATGATTTCCTTTCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTTCCTTATAGAACTCATCAA
*
78443617 TGCCATGCCTTGGCATGGTCTTACATG
1 TGCCATGCCTTGACATGGTCTTACATG
78443644 ATATCCTTAT
Statistics
Matches: 109, Mismatches: 23, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
52 1 0.01
53 29 0.27
54 35 0.32
55 42 0.39
56 2 0.02
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTTCCTTATAGAACTCATCAA
Found at i:78443640 original size:54 final size:55
Alignment explanation
Indices: 78443468--78443651 Score: 196
Period size: 54 Copynumber: 3.4 Consensus size: 55
78443458 CATGTTTTGA
* * * * * * *
78443468 CATGGTCTTACGTGGTATCGTTGCCTT-TTG-AACTCACCAATACCATGCCTTGG
1 CATGGTCTTACATGATATCCTTTCCTTATAGTAACTCATCAATGCCATGCCTTGG
* ** * * *
78443521 CAGGGTCTTACATGGGA-CCTTTTCCTTATAGTAACTCATCAATGTCATGTCTTGA
1 CATGGTCTTACATGATATCC-TTTCCTTATAGTAACTCATCAATGCCATGCCTTGG
* *
78443576 CATGGTCTTACATGATTTCCTTTCCTTATAG-AACTTATCAATGCCATGCCTTGG
1 CATGGTCTTACATGATATCCTTTCCTTATAGTAACTCATCAATGCCATGCCTTGG
78443630 CATGGTCTTACATGATATCCTT
1 CATGGTCTTACATGATATCCTT
78443652 ATCTTACCAA
Statistics
Matches: 107, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
52 1 0.01
53 20 0.19
54 42 0.39
55 42 0.39
56 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (55 bp):
CATGGTCTTACATGATATCCTTTCCTTATAGTAACTCATCAATGCCATGCCTTGG
Found at i:78443685 original size:47 final size:47
Alignment explanation
Indices: 78443630--78443751 Score: 199
Period size: 47 Copynumber: 2.6 Consensus size: 47
78443620 CATGCCTTGG
* *
78443630 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
* *
78443677 CATGGTCTTACATGGTATCCTTGTCTTACCAAATTCTATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
*
78443724 CATGGTCTTACAGGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
78443752 GTGTTAATGC
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:78443793 original size:48 final size:47
Alignment explanation
Indices: 78443723--78443840 Score: 125
Period size: 47 Copynumber: 2.5 Consensus size: 47
78443713 TATGTTCCAA
* * *
78443723 ACATGGTCTTACAGGGTATCCTT-GTCTTAGTGTTAATGCCATATCTTG
1 ACATGGTCTTACAGGGTATCCTTAATC--AATGCTAATGCCATATCTTG
* * *
78443771 ATATGGTCTTACATGG-AGTCCTTAATCAATGCTAATGCCATGTCTTG
1 ACATGGTCTTACAGGGTA-TCCTTAATCAATGCTAATGCCATATCTTG
78443818 ACATGGTCTTACACGGG-ATCCTT
1 ACATGGTCTTACA-GGGTATCCTT
78443841 GCCTTACCAA
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
47 35 0.59
48 22 0.37
49 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.36
Consensus pattern (47 bp):
ACATGGTCTTACAGGGTATCCTTAATCAATGCTAATGCCATATCTTG
Found at i:78443974 original size:44 final size:44
Alignment explanation
Indices: 78443891--78443974 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
78443881 TCCTCAACCG
* * *
78443891 TCAATTCATCCTTAAATGCCATGTTATGAACATGTACTTTTCCA
1 TCAATTCATCCTTAAATGCCATGGTATCAACATGGACTTTTCCA
* *
78443935 TCAATTCTTCCTTAATTGCCATGGTA-CAACCATGGACTTT
1 TCAATTCATCCTTAAATGCCATGGTATCAA-CATGGACTTT
78443975 GAGATATCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 2 0.06
44 32 0.94
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.38
Consensus pattern (44 bp):
TCAATTCATCCTTAAATGCCATGGTATCAACATGGACTTTTCCA
Found at i:78451014 original size:20 final size:20
Alignment explanation
Indices: 78450965--78451014 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
78450955 GCTTGGATGA
* *
78450965 GATTGCACTTCGGTGCCTCT
1 GATTGCACATCAGTGCCTCT
*
78450985 GTTTGCACATCAGTGCCTCT
1 GATTGCACATCAGTGCCTCT
*
78451005 GATTGTACAT
1 GATTGCACAT
78451015 TTGTACCTCT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.16, C:0.26, G:0.22, T:0.36
Consensus pattern (20 bp):
GATTGCACATCAGTGCCTCT
Found at i:78456471 original size:6 final size:6
Alignment explanation
Indices: 78456462--78456495 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
78456452 TCAAAATGAT
* *
78456462 AATGGA AATGGA AATGGA AATGAA AATAGA AATG
1 AATGGA AATGGA AATGGA AATGGA AATGGA AATG
78456496 ATTCATTTGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.56, C:0.00, G:0.26, T:0.18
Consensus pattern (6 bp):
AATGGA
Found at i:78456477 original size:12 final size:12
Alignment explanation
Indices: 78456455--78456496 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
78456445 TAGGTTTTCA
*
78456455 AAATGATAATGG
1 AAATGAAAATGG
*
78456467 AAATGGAAATGG
1 AAATGAAAATGG
*
78456479 AAATGAAAATAG
1 AAATGAAAATGG
78456491 AAATGA
1 AAATGA
78456497 TTCATTTGCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.57, C:0.00, G:0.24, T:0.19
Consensus pattern (12 bp):
AAATGAAAATGG
Found at i:78463422 original size:29 final size:29
Alignment explanation
Indices: 78463400--78463588 Score: 195
Period size: 29 Copynumber: 6.6 Consensus size: 29
78463390 AAAGCCATCT
*
78463400 TTTTAACAGAGATGGCCACAAAGGCTTCC
1 TTTTAACAGAGATAGCCACAAAGGCTTCC
* * * *
78463429 TTTTAATAAAGATTGCCACAAAGGCTTTC
1 TTTTAACAGAGATAGCCACAAAGGCTTCC
** * *
78463458 TTTTAGTAGAAATAGCCACAAAGACTTCC
1 TTTTAACAGAGATAGCCACAAAGGCTTCC
* *
78463487 TTTTAACGGAGATAGCCACAAAGGTTTCC
1 TTTTAACAGAGATAGCCACAAAGGCTTCC
** *
78463516 TTTTAATTGAGATAGCCAAAAAGGCTTCC
1 TTTTAACAGAGATAGCCACAAAGGCTTCC
* * * *
78463545 TTTAAACAAATATAGCCACAAAGGCAT-C
1 TTTTAACAGAGATAGCCACAAAGGCTTCC
78463573 TTTT--CAGAGATAGCCA
1 TTTTAACAGAGATAGCCA
78463589 AAGTGGCTCA
Statistics
Matches: 130, Mismatches: 30, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
26 10 0.08
28 4 0.03
29 116 0.89
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.28
Consensus pattern (29 bp):
TTTTAACAGAGATAGCCACAAAGGCTTCC
Found at i:78463560 original size:87 final size:87
Alignment explanation
Indices: 78463400--78463588 Score: 224
Period size: 87 Copynumber: 2.2 Consensus size: 87
78463390 AAAGCCATCT
* * * * * **
78463400 TTTTAACAGAGATGGCCACAAAGGCTTCCTTTTAATAAAGATTGCCACAAAGGCTTTCTTTTAGT
1 TTTTAACAGAGATAGCCACAAAGGCTTCCTTTTAATAAAGATAGCCAAAAAGGCTTCCTTTAAAC
78463465 AGAAATAGCCACAAAGACTTCC
66 AGAAATAGCCACAAAGACTTCC
* * **
78463487 TTTTAACGGAGATAGCCACAAAGGTTTCCTTTTAATTGAGATAGCCAAAAAGGCTTCCTTTAAAC
1 TTTTAACAGAGATAGCCACAAAGGCTTCCTTTTAATAAAGATAGCCAAAAAGGCTTCCTTTAAAC
* *
78463552 A-AATATAGCCACAAAGGCAT-C
66 AGAA-ATAGCCACAAAGACTTCC
78463573 TTTT--CAGAGATAGCCA
1 TTTTAACAGAGATAGCCA
78463589 AAGTGGCTCA
Statistics
Matches: 87, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
84 11 0.13
86 7 0.08
87 69 0.79
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.28
Consensus pattern (87 bp):
TTTTAACAGAGATAGCCACAAAGGCTTCCTTTTAATAAAGATAGCCAAAAAGGCTTCCTTTAAAC
AGAAATAGCCACAAAGACTTCC
Found at i:78474600 original size:15 final size:15
Alignment explanation
Indices: 78474580--78474609 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
78474570 ATTGAGAAGA
78474580 ATTTATTCTGATTGT
1 ATTTATTCTGATTGT
78474595 ATTTATTCTGATTGT
1 ATTTATTCTGATTGT
78474610 GAGTTGAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.13, T:0.60
Consensus pattern (15 bp):
ATTTATTCTGATTGT
Found at i:78494066 original size:18 final size:17
Alignment explanation
Indices: 78494045--78494078 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
78494035 TTTTTCCAAC
78494045 TCTCTTTGCTTTTCTTTT
1 TCTCTTT-CTTTTCTTTT
*
78494063 TCTCTTTTTTTTCTTT
1 TCTCTTTCTTTTCTTT
78494079 GAGAGTTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.00, C:0.21, G:0.03, T:0.76
Consensus pattern (17 bp):
TCTCTTTCTTTTCTTTT
Found at i:78496573 original size:25 final size:25
Alignment explanation
Indices: 78496511--78496578 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
78496501 TACTGAATGT
*
78496511 AGCTCGTGAGAGCTTACCGATTCGC
1 AGCTCGTGAGAGCTTACCGATTCAC
* * *
78496536 AGCTC-TTATGAGCTTACTGATTTAC
1 AGCTCGTGA-GAGCTTACCGATTCAC
*
78496561 AGCTCGTGAGAGCATACC
1 AGCTCGTGAGAGCTTACC
78496579 AGTTCATAGA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
24 2 0.06
25 30 0.88
26 2 0.06
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.28
Consensus pattern (25 bp):
AGCTCGTGAGAGCTTACCGATTCAC
Found at i:78497721 original size:20 final size:20
Alignment explanation
Indices: 78497685--78497723 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
78497675 GCCACAAGGT
78497685 TTGGCTTGTGTTATGGTATC
1 TTGGCTTGTGTTATGGTATC
*
78497705 TTGG-TTGTGATTTTGGTAT
1 TTGGCTTGTG-TTATGGTAT
78497724 TTTGAATGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.10, C:0.05, G:0.31, T:0.54
Consensus pattern (20 bp):
TTGGCTTGTGTTATGGTATC
Found at i:78499900 original size:46 final size:46
Alignment explanation
Indices: 78499843--78500019 Score: 266
Period size: 46 Copynumber: 3.8 Consensus size: 46
78499833 GATATTTGGG
78499843 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
* **
78499889 CATCTGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
* *
78499935 CGTCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAG
1 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
* * *
78499981 C-GCTCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 CATC-CGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGG
78500020 GCGGGTTACA
Statistics
Matches: 119, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
45 1 0.01
46 118 0.99
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
Found at i:78500080 original size:43 final size:43
Alignment explanation
Indices: 78500032--78500120 Score: 169
Period size: 43 Copynumber: 2.1 Consensus size: 43
78500022 GGGTTACATG
*
78500032 GTAGCTTGGCTACATATGTGGCACTTATGTGCAATCTTTCCAT
1 GTAGCTTGGCTACATATGTGGCACTTATGTGCAAACTTTCCAT
78500075 GTAGCTTGGCTACATATGTGGCACTTATGTGCAAACTTTCCAT
1 GTAGCTTGGCTACATATGTGGCACTTATGTGCAAACTTTCCAT
78500118 GTA
1 GTA
78500121 TCCGAGTTAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.36
Consensus pattern (43 bp):
GTAGCTTGGCTACATATGTGGCACTTATGTGCAAACTTTCCAT
Found at i:78500520 original size:27 final size:27
Alignment explanation
Indices: 78500482--78500603 Score: 192
Period size: 27 Copynumber: 4.5 Consensus size: 27
78500472 CGCTCACACT
78500482 ATTACC-AGAATACCCCTGTAGGGTAGA
1 ATTACCGA-AATACCCCTGTAGGGTAGA
*
78500509 ATTACCGAAATACCCCTTTAGGGTAGA
1 ATTACCGAAATACCCCTGTAGGGTAGA
78500536 ATTACCGAAATACCCCTGTAGGGTAGA
1 ATTACCGAAATACCCCTGTAGGGTAGA
* *
78500563 ATTACCGAAATACCCCTATAGGGTGGA
1 ATTACCGAAATACCCCTGTAGGGTAGA
*
78500590 ATTACCGAGATACC
1 ATTACCGAAATACC
78500604 TTGTGAGGAA
Statistics
Matches: 89, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
27 88 0.99
28 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (27 bp):
ATTACCGAAATACCCCTGTAGGGTAGA
Found at i:78501100 original size:22 final size:22
Alignment explanation
Indices: 78501048--78501112 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
78501038 TTAAAGCCTT
* *
78501048 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
78501070 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
* *
78501092 CTGATTATGGTTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
78501113 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:78501308 original size:26 final size:27
Alignment explanation
Indices: 78501272--78501344 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
78501262 TTCTGTTAAG
* *
78501272 TGGCTTTGCCACATTATCTGT-TCTGA
1 TGGCTCTGCCACAATATCTGTATCTGA
*
78501298 TGGCTCTGCCACAATATCTGTATCTGG
1 TGGCTCTGCCACAATATCTGTATCTGA
* *
78501325 TGACTCTGTCACAATATCTG
1 TGGCTCTGCCACAATATCTG
78501345 ATAACTAAGC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
26 19 0.46
27 22 0.54
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (27 bp):
TGGCTCTGCCACAATATCTGTATCTGA
Found at i:78501518 original size:6 final size:6
Alignment explanation
Indices: 78501480--78501568 Score: 58
Period size: 6 Copynumber: 14.3 Consensus size: 6
78501470 TTGCATTCAC
* * *
78501480 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
78501530 -TCACCTA ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
78501569 AATGTTTCTT
Statistics
Matches: 64, Mismatches: 10, Indels: 18
0.70 0.11 0.20
Matches are distributed among these distances:
5 4 0.06
6 47 0.73
7 11 0.17
8 2 0.03
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:78501544 original size:31 final size:31
Alignment explanation
Indices: 78501493--78501559 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
78501483 CTGATTTTTG
* *
78501493 ATTCTGTTACCTGATACTGATTCTGATTCTA
1 ATTCTGTCACCTAATACTGATTCTGATTCTA
* *
78501524 ATTCTGTCACCTAATTCTGATTCTGATTCTG
1 ATTCTGTCACCTAATACTGATTCTGATTCTA
78501555 ATTCT
1 ATTCT
78501560 AGTTCTGATA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.46
Consensus pattern (31 bp):
ATTCTGTCACCTAATACTGATTCTGATTCTA
Found at i:78503019 original size:27 final size:27
Alignment explanation
Indices: 78502988--78503292 Score: 129
Period size: 27 Copynumber: 11.6 Consensus size: 27
78502978 TTTGTTTACC
* *
78502988 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTCAAATACCCTCGATTTGTA
* *
78503015 AAATTAC-CAAAGTACCCCCGATTTATA
1 AAATTACTCAAA-TACCCTCGATTTGTA
* *
78503042 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTCAAATACCCTCGATTTGTA
* *
78503069 AAATTACTGAAATA----AGA----TA
1 AAATTACTCAAATACCCTCGATTTGTA
* ** **
78503088 GAATTAC-CATTTTACCCTCGATTTACA
1 AAATTACTCA-AATACCCTCGATTTGTA
* * * * **
78503115 AAATTATTGAAATACCCTTGGTTTACA
1 AAATTACTCAAATACCCTCGATTTGTA
* ***
78503142 AAATTACCCAAATACCCTCGATCAATA
1 AAATTACTCAAATACCCTCGATTTGTA
*
78503169 AAATTAC-CAAAATACCC-CTAGTTTGTA
1 AAATTACTC-AAATACCCTCGA-TTTGTA
* * * * *
78503196 AAATTACTAAAACACCCTTGGTTTATA
1 AAATTACTCAAATACCCTCGATTTGTA
* *
78503223 AAATTAC-CAAAATACCC-CTAGTTTATA
1 AAATTACTC-AAATACCCTCGA-TTTGTA
*
78503250 AAATTAC-CAAAATACCC-CTGATTTGTG
1 AAATTACTC-AAATACCCTC-GATTTGTA
*
78503277 AAATTACTGAAATACC
1 AAATTACTCAAATACC
78503293 TCTGTAGGGT
Statistics
Matches: 208, Mismatches: 50, Indels: 40
0.70 0.17 0.13
Matches are distributed among these distances:
18 1 0.00
19 10 0.05
23 4 0.02
26 6 0.03
27 181 0.87
28 6 0.03
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
AAATTACTCAAATACCCTCGATTTGTA
Found at i:78503200 original size:81 final size:81
Alignment explanation
Indices: 78503114--78503292 Score: 245
Period size: 81 Copynumber: 2.2 Consensus size: 81
78503104 CTCGATTTAC
* *
78503114 AAAATTATTGAAATACCCTTGGTTTACAAAATTACCCAAATACCCTCGA-TCAATAAAATTACCA
1 AAAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAATACCC-CGAGTCAATAAAATTACCA
78503178 AAATACCCCT-AGTTTGT
65 AAATACCCCTGA-TTTGT
* * * * **
78503195 AAAATTACTAAAACACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTATAAAATTACCAA
1 AAAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAATACCCCGAGTCAATAAAATTACCAA
78503260 AATACCCCTGATTTGT
66 AATACCCCTGATTTGT
*
78503276 GAAATTACTGAAATACC
1 AAAATTACTGAAATACC
78503293 TCTGTAGGGT
Statistics
Matches: 85, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
80 2 0.02
81 82 0.96
82 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.30
Consensus pattern (81 bp):
AAAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAATACCCCGAGTCAATAAAATTACCAA
AATACCCCTGATTTGT
Found at i:78503281 original size:54 final size:54
Alignment explanation
Indices: 78503124--78503323 Score: 188
Period size: 54 Copynumber: 3.7 Consensus size: 54
78503114 AAAATTATTG
* * * * **
78503124 AAATACCCTTGGTTTACAAAATTACCCAAATA-CCCTCGATCAATAAAATTACCA
1 AAATACCCCTAGTTTATAAAATTACCAAAATACCCCT-GATTTATAAAATTACCA
* * * * *
78503178 AAATACCCCTAGTTTGTAAAATTACTAAAACACCCTTGGTTTATAAAATTACCA
1 AAATACCCCTAGTTTATAAAATTACCAAAATACCCCTGATTTATAAAATTACCA
* * **
78503232 AAATACCCCTAGTTTATAAAATTACCAAAATACCCCTGATTTGTGAAATTACTG
1 AAATACCCCTAGTTTATAAAATTACCAAAATACCCCTGATTTATAAAATTACCA
* *** *
78503286 AAATACCTCT-GTAGGGTAAAATTACCGAAATACCCCTG
1 AAATACCCCTAGT-TTATAAAATTACCAAAATACCCCTG
78503324 TAGGGTAGAA
Statistics
Matches: 119, Mismatches: 25, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
53 2 0.02
54 114 0.96
55 3 0.03
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (54 bp):
AAATACCCCTAGTTTATAAAATTACCAAAATACCCCTGATTTATAAAATTACCA
Found at i:78503306 original size:81 final size:79
Alignment explanation
Indices: 78503166--78503408 Score: 226
Period size: 81 Copynumber: 3.0 Consensus size: 79
78503156 CCCTCGATCA
* *
78503166 ATAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACTAAAACACCCT-T-GGTTTATAAAATT
1 ATAAAATTACCAAAATACCCCTGA-TTTGT-AAATTACTAAAATACCCTGTAGG---GTAAAATT
**
78503228 ACCAAAATACCCCTAGT-TT
61 ACCAAAATACCCCT-GTAGG
*
78503247 ATAAAATTACCAAAATACCCCTGATTTGTGAAATTACTGAAATACCTCTGTAGGGTAAAATTACC
1 ATAAAATTACCAAAATACCCCTGATTTGT-AAATTACTAAAATACC-CTGTAGGGTAAAATTACC
*
78503312 GAAATACCCCTGTAGG
64 AAAATACCCCTGTAGG
* * ** ** * *
78503328 GTAGAATTACTGAAATACCCCTG-TAGGATAGAATTACCAAAATACCCCTGTAGGGTAGAATTAC
1 ATAAAATTACCAAAATACCCCTGATTTG-TA-AATTACTAAAATA-CCCTGTAGGGTAAAATTAC
78503392 CAAAATACCCCTGTAGG
63 CAAAATACCCCTGTAGG
78503409 GTGGTGGAAT
Statistics
Matches: 137, Mismatches: 17, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
80 5 0.04
81 124 0.91
82 5 0.04
83 1 0.01
84 2 0.01
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.27
Consensus pattern (79 bp):
ATAAAATTACCAAAATACCCCTGATTTGTAAATTACTAAAATACCCTGTAGGGTAAAATTACCAA
AATACCCCTGTAGG
Found at i:78503307 original size:27 final size:27
Alignment explanation
Indices: 78503278--78503410 Score: 203
Period size: 27 Copynumber: 4.9 Consensus size: 27
78503268 TGATTTGTGA
* * *
78503278 AATTACTGAAATACCTCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
78503305 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
78503332 AATTACTGAAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
78503359 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
78503386 AATTACCAAAATACCCCTGTAGGGT
1 AATTACCGAAATACCCCTGTAGGGT
78503411 GGTGGAATTA
Statistics
Matches: 98, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 98 1.00
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Done.