Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 248 of 325
Found at i:78529615 original size:11 final size:11
Alignment explanation
Indices: 78529599--78529660 Score: 63
Period size: 11 Copynumber: 5.5 Consensus size: 11
78529589 TTTATATTTT
78529599 TAAAAAAATTA
1 TAAAAAAATTA
*
78529610 TAAAAAAATTC
1 TAAAAAAATTA
* *
78529621 CACAAAAATTA
1 TAAAAAAATTA
78529632 TAAAAAAAATATA
1 T-AAAAAAAT-TA
*
78529645 TAAAGAAATT-
1 TAAAAAAATTA
78529655 TAAAAA
1 TAAAAA
78529661 TTAAAAATTT
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
10 5 0.12
11 19 0.46
12 14 0.34
13 3 0.07
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (11 bp):
TAAAAAAATTA
Found at i:78538413 original size:17 final size:17
Alignment explanation
Indices: 78538393--78538429 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
78538383 TAAAAATAAA
78538393 TTTAAAATAAATTTTAT
1 TTTAAAATAAATTTTAT
78538410 TTTAAAATAAATTTTAT
1 TTTAAAATAAATTTTAT
78538427 TTT
1 TTT
78538430 TCGGCTTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTAAAATAAATTTTAT
Found at i:78542138 original size:40 final size:40
Alignment explanation
Indices: 78542120--78542306 Score: 231
Period size: 40 Copynumber: 4.7 Consensus size: 40
78542110 AAGTGATCAT
78542120 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
78542160 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
* * *
78542200 TTCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAA
**
78542240 ATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGA-ATTACTATA
1 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGA-TACTA-A
* *
78542281 A-CCGGGCTATG-TCCCGAAGGCATTTG
1 ATCCGGACTAAGAT-CCGAAGGCATTTG
78542307 AACGAGGAGC
Statistics
Matches: 136, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
39 1 0.01
40 133 0.98
41 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
Found at i:78542218 original size:80 final size:80
Alignment explanation
Indices: 78542081--78542306 Score: 275
Period size: 80 Copynumber: 2.8 Consensus size: 80
78542071 TTGAATGATG
* * * *
78542081 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGA-TCATATCCGGACTAAGAT-CCGAAGGCA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAA-TTACT-ATATCCGGGCTAAG-TCCCGAAGGCA
78542143 TTTGTGCGAGATACTAAA
63 TTTGTGCGAGATACTAAA
78542161 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGA-TACTA-ATTCCGGGCTAAGTCCCGAAGGCA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGA-ATTACTATA-TCCGGGCTAAGTCCCGAAGGCA
*
78542223 TTTGTGCGAGTTACTAAA
63 TTTGTGCGAGATACTAAA
** * *
78542241 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAATTACTATATCCGGGCTAAGTCCCGAAGGCATTT
78542306 G
66 G
78542307 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 9, Indels: 18
0.83 0.06 0.12
Matches are distributed among these distances:
79 4 0.03
80 112 0.88
81 11 0.09
82 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAATTACTATATCCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:78542298 original size:120 final size:120
Alignment explanation
Indices: 78542081--78542306 Score: 293
Period size: 120 Copynumber: 1.9 Consensus size: 120
78542071 TTGAATGATG
*
78542081 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGATCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGATCAAATCCGGACTAAGATCCGAAGGCATTT
78542146 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
66 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
* * **
78542201 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTA-CTAAATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGATC-AAATCCGGACTAAGAT-CCGAAGGCA
* *
78542263 TTTGTGCGA-ATTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTG
63 TTTGTGCGAGA-TACTA-AATCCGGACTAAGAT-CCGAAGGCATTTG
78542307 AACGAGGAGC
Statistics
Matches: 93, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
119 4 0.04
120 80 0.86
121 9 0.10
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGATCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:78542320 original size:40 final size:39
Alignment explanation
Indices: 78542082--78542306 Score: 221
Period size: 40 Copynumber: 5.6 Consensus size: 39
78542072 TGAATGATGT
* *
78542082 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGA-TCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACT-ATAA
*
78542122 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTATAA
* *
78542161 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 -CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTATA-A
78542202 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAA
* *
78542241 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTATAA
*
78542282 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
78542307 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 20
0.84 0.06 0.10
Matches are distributed among these distances:
39 2 0.01
40 149 0.91
41 13 0.08
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAA
Found at i:78542324 original size:80 final size:79
Alignment explanation
Indices: 78542134--78542339 Score: 215
Period size: 80 Copynumber: 2.6 Consensus size: 79
78542124 GGACTAAGAT
** *
78542134 CCGAAGGCATTTGTGCGAGAT-ACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGG-TTAA-ATCCCGAAGGCATTTGTGCGAGATAC
*
78542197 TAATTCCGGGCTAAGTC
63 TAATACCGGGCTAAGTC
** * *
78542214 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT
1 CCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTTGTGCGAGA-TACT
*
78542278 -ATAACCGGGCTATGTC
64 AAT-ACCGGGCTAAGTC
* *
78542294 CCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
78542340 TACGTGATTT
Statistics
Matches: 110, Mismatches: 10, Indels: 13
0.83 0.08 0.10
Matches are distributed among these distances:
79 20 0.18
80 88 0.80
81 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTGTGCGAGATACTAA
TACCGGGCTAAGTC
Found at i:78546212 original size:46 final size:46
Alignment explanation
Indices: 78546037--78546212 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
78546027 TGTAACCCGC
* *** *
78546037 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * *
78546083 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
* * **
78546133 -C-TCA-CGAACTTTGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
78546176 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
78546213 TGCCCAAATA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 61 0.58
47 27 0.26
48 2 0.02
49 1 0.01
50 4 0.04
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:78565076 original size:164 final size:163
Alignment explanation
Indices: 78564754--78565081 Score: 503
Period size: 164 Copynumber: 2.0 Consensus size: 163
78564744 ATTTTCCAAA
* * *
78564754 ACACCACGTTTATATAACAAATTTTGAAAGCTTCCTCAATAAACAATGTTTTAAAGTGTAATAAC
1 ACACCACGTTTATACAACAAATTTTGAAAGCTTCCACAATAAACAATATTTTAAAGTGTAATAAC
* *
78564819 AATCTAATAGGTCAACATTTTGCTAAAACGACTTGAGTCTTCACCATGAACAAGAAATCCTAAAT
66 AATCTAATAGGTCAACATTTTGCCAAAACGACTTGAGTCTTAACCATGAACAAGAAATCCTAAAT
*
78564884 TTTCATTAAGAGCGCAAAGAGGTTTTAATATAG
131 TTTCATTAAAAGCGCAAAGAGGTTTTAATATAG
* * *
78564917 ACACCACTTTTATACAATAAATTTTGAAAGCTTCCACAATAAACACTATTTTAAAGTGTAATAAC
1 ACACCACGTTTATACAACAAATTTTGAAAGCTTCCACAATAAACAATATTTTAAAGTGTAATAAC
* * * * * *
78564982 AATCTAGTAGGATCAACGTTTTTCCAAAATGATTTGAGTCTTAACCATGAGCAAGAAATCCTAAA
66 AATCTAATAGG-TCAACATTTTGCCAAAACGACTTGAGTCTTAACCATGAACAAGAAATCCTAAA
*
78565047 TTTTCATTAAAAGTGCAAAGAGGTTTTAATATAG
130 TTTTCATTAAAAGCGCAAAGAGGTTTTAATATAG
78565081 A
1 A
78565082 ACGGGTTTCC
Statistics
Matches: 148, Mismatches: 16, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
163 69 0.47
164 79 0.53
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.31
Consensus pattern (163 bp):
ACACCACGTTTATACAACAAATTTTGAAAGCTTCCACAATAAACAATATTTTAAAGTGTAATAAC
AATCTAATAGGTCAACATTTTGCCAAAACGACTTGAGTCTTAACCATGAACAAGAAATCCTAAAT
TTTCATTAAAAGCGCAAAGAGGTTTTAATATAG
Found at i:78569737 original size:23 final size:23
Alignment explanation
Indices: 78569692--78569737 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
78569682 CCAACCAATC
* *
78569692 CAAGCATTATATCAAGACCAATT
1 CAAGCATTAGATCAAGACAAATT
78569715 CAAGCATTAGATTCAAG-CAAATT
1 CAAGCATTAGA-TCAAGACAAATT
78569738 TTAACATCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.26
Consensus pattern (23 bp):
CAAGCATTAGATCAAGACAAATT
Found at i:78570608 original size:58 final size:58
Alignment explanation
Indices: 78570485--78570740 Score: 241
Period size: 58 Copynumber: 4.4 Consensus size: 58
78570475 TAACACATAA
** * * * *
78570485 CAGGATTACCAGTCCAGGCTAAATCTTTTTTTGTAATATATGCTC-AGAAGAGCTCA-AT
1 CAGGATTACCAGTCCAGGCTAAATC-TTAATTGTAACATATGCTCAAG-AGGGATTATAT
* * * *
78570543 TAGGATTACCAGTCTAGGTTGAATCTTAATTGTAACATATGCTCAAGAGGGATTATAT
1 CAGGATTACCAGTCCAGGCTAAATCTTAATTGTAACATATGCTCAAGAGGGATTATAT
* * ** * * * *
78570601 CAAGATTACCAGTCGAGGCTAAATCTTTTTTGTAATATATGCTC-AGAAGTGCTCA-AT
1 CAGGATTACCAGTCCAGGCTAAATCTTAATTGTAACATATGCTCAAG-AGGGATTATAT
* * * *
78570658 TAGGATTACTAGTCCAGGCTAAATCCTAATGGTAACATATGCTCAAGAGGGATTATAT
1 CAGGATTACCAGTCCAGGCTAAATCTTAATTGTAACATATGCTCAAGAGGGATTATAT
**
78570716 CAGGATTACCAGTCCATCCTAAATC
1 CAGGATTACCAGTCCAGGCTAAATC
78570741 CCGTCAACAA
Statistics
Matches: 156, Mismatches: 37, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
57 65 0.42
58 91 0.58
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (58 bp):
CAGGATTACCAGTCCAGGCTAAATCTTAATTGTAACATATGCTCAAGAGGGATTATAT
Found at i:78570693 original size:115 final size:116
Alignment explanation
Indices: 78570488--78570740 Score: 400
Period size: 115 Copynumber: 2.2 Consensus size: 116
78570478 CACATAACAG
78570488 GATTACCAGTCCAGGCTAAATCTTTTTTTGTAATATATGCTCAGAAGAGCTCAATTAGGATTACC
1 GATTACCAGTCCAGGCTAAATCTTTTTTTGTAATATATGCTCAGAAGAGCTCAATTAGGATTACC
* * * * *
78570553 AGTCTAGGTTGAATCTTAATTGTAACATATGCTCAAGAGGGATTATATCAA
66 AGTCCAGGCTAAATCCTAATGGTAACATATGCTCAAGAGGGATTATATCAA
* * *
78570604 GATTACCAGTCGAGGCTAAATC-TTTTTTGTAATATATGCTCAGAAGTGCTCAATTAGGATTACT
1 GATTACCAGTCCAGGCTAAATCTTTTTTTGTAATATATGCTCAGAAGAGCTCAATTAGGATTACC
*
78570668 AGTCCAGGCTAAATCCTAATGGTAACATATGCTCAAGAGGGATTATATCAG
66 AGTCCAGGCTAAATCCTAATGGTAACATATGCTCAAGAGGGATTATATCAA
**
78570719 GATTACCAGTCCATCCTAAATC
1 GATTACCAGTCCAGGCTAAATC
78570741 CCGTCAACAA
Statistics
Matches: 125, Mismatches: 12, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
115 104 0.83
116 21 0.17
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Consensus pattern (116 bp):
GATTACCAGTCCAGGCTAAATCTTTTTTTGTAATATATGCTCAGAAGAGCTCAATTAGGATTACC
AGTCCAGGCTAAATCCTAATGGTAACATATGCTCAAGAGGGATTATATCAA
Found at i:78576769 original size:27 final size:27
Alignment explanation
Indices: 78576739--78576916 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
78576729 ATATTGAGCC
* * * *
78576739 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
78576766 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
78576793 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAGTCA-AAT
** * *
78576821 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
78576848 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
78576875 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
78576902 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
78576917 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:78576878 original size:82 final size:81
Alignment explanation
Indices: 78576760--78576915 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
78576750 TGCTATATAA
* * * *
78576760 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCA-AATCGCA
78576825 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
78576842 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
78576906 CACTTAGTGC
65 CACTTAGTGC
78576916 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 17 0.26
82 48 0.74
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:78584864 original size:27 final size:27
Alignment explanation
Indices: 78584834--78585011 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
78584824 ATATTGAGCC
* * * *
78584834 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
78584861 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
78584888 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAGTCA-AAT
** * *
78584916 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
78584943 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
78584970 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
78584997 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
78585012 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:78584973 original size:82 final size:81
Alignment explanation
Indices: 78584855--78585010 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
78584845 TGCTATATAA
* * * *
78584855 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCA-AATCGCA
78584920 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
78584937 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
78585001 CACTTAGTGC
65 CACTTAGTGC
78585011 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 17 0.26
82 48 0.74
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:78585471 original size:2 final size:2
Alignment explanation
Indices: 78585458--78585490 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
78585448 GAATCAACTA
78585458 AT AT ACT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
78585491 CATCATCGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:78592832 original size:36 final size:35
Alignment explanation
Indices: 78592751--78592832 Score: 85
Period size: 36 Copynumber: 2.3 Consensus size: 35
78592741 TCGTTGATTC
* *
78592751 ATCCAACTAGAATTGGGCGTAAAACATTGTCAGTTT
1 ATCCAACTA-AACTGGGCGCAAAACATTGTCAGTTT
***
78592787 ATTTGACTAACACTGGGCGCAAAACATTGTCCA-TTT
1 ATCCAACTAA-ACTGGGCGCAAAACATTGT-CAGTTT
78592823 ATCCAACTAA
1 ATCCAACTAA
78592833 GTTGGGCACA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
35 1 0.03
36 33 0.92
37 2 0.06
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (35 bp):
ATCCAACTAAACTGGGCGCAAAACATTGTCAGTTT
Found at i:78593160 original size:14 final size:14
Alignment explanation
Indices: 78593141--78593210 Score: 61
Period size: 14 Copynumber: 5.0 Consensus size: 14
78593131 GTCCGTACGC
*
78593141 ATGAATCTGGATCT
1 ATGAATCTGCATCT
* *
78593155 ATGAATCCGCATAT
1 ATGAATCTGCATCT
* *
78593169 ATGAACCTGTA-CTT
1 ATGAATCTGCATC-T
*
78593183 ATGAATCTGCATAT
1 ATGAATCTGCATCT
*
78593197 ATGATTCTGCATCT
1 ATGAATCTGCATCT
78593211 TTGAGTCCAC
Statistics
Matches: 42, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
14 42 1.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.36
Consensus pattern (14 bp):
ATGAATCTGCATCT
Found at i:78593172 original size:28 final size:28
Alignment explanation
Indices: 78593141--78593231 Score: 94
Period size: 28 Copynumber: 3.2 Consensus size: 28
78593131 GTCCGTACGC
*
78593141 ATGAATCTGGATCTATGAATCCGCATAT
1 ATGAATCTGCATCTATGAATCCGCATAT
* * *
78593169 ATGAACCTGTA-CTTATGAATCTGCATAT
1 ATGAATCTGCATC-TATGAATCCGCATAT
* * * *
78593197 ATGATTCTGCATCTTTGAGTCCACATAT
1 ATGAATCTGCATCTATGAATCCGCATAT
78593225 ATGAATC
1 ATGAATC
78593232 CATACTTATG
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
27 1 0.02
28 48 0.96
29 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (28 bp):
ATGAATCTGCATCTATGAATCCGCATAT
Found at i:78593244 original size:28 final size:28
Alignment explanation
Indices: 78593154--78593242 Score: 85
Period size: 28 Copynumber: 3.2 Consensus size: 28
78593144 AATCTGGATC
*
78593154 TATGAATCCGCATATATGAA-CCTGTACT
1 TATGAATCCGCATATATGAATCC-ATACT
* *
78593182 TATGAATCTGCATATATGATTCTGCAT-CT
1 TATGAATCCGCATATATGAATC--CATACT
* *
78593211 T-TGAGTCCACATATATGAATCCATACT
1 TATGAATCCGCATATATGAATCCATACT
78593238 TATGA
1 TATGA
78593243 GTTTGTATAA
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
26 3 0.06
27 3 0.06
28 37 0.76
29 4 0.08
30 1 0.02
31 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.36
Consensus pattern (28 bp):
TATGAATCCGCATATATGAATCCATACT
Found at i:78593257 original size:56 final size:56
Alignment explanation
Indices: 78593141--78593276 Score: 148
Period size: 56 Copynumber: 2.4 Consensus size: 56
78593131 GTCCGTACGC
* * * * *
78593141 ATGAATCTGGATCTATGAATCCGCATATATGAACCTGTACTTATGAATCTGCATAT
1 ATGATTCTGCATCTATGAATCCACATATATGAACCTATACTTATGAATCTGCATAA
* * * * *
78593197 ATGATTCTGCATCTTTGAGTCCACATATATGAATCC-ATACTTATGAGTTTGTATAA
1 ATGATTCTGCATCTATGAATCCACATATATGAA-CCTATACTTATGAATCTGCATAA
* *
78593253 ATGATTTTGCATCTCTGAATCCAC
1 ATGATTCTGCATCTATGAATCCAC
78593277 TTATGATTTT
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
56 64 0.97
57 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (56 bp):
ATGATTCTGCATCTATGAATCCACATATATGAACCTATACTTATGAATCTGCATAA
Found at i:78593307 original size:26 final size:26
Alignment explanation
Indices: 78593253--78593307 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
78593243 GTTTGTATAA
* *
78593253 ATGATTTTGCATCTCTGAATCCACTT
1 ATGATTTTGCATCTATGAATCCACAT
* *
78593279 ATGATTTTGTATCTATGAATCCGCAT
1 ATGATTTTGCATCTATGAATCCACAT
78593305 ATG
1 ATG
78593308 TGATTCTACA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.18, G:0.15, T:0.42
Consensus pattern (26 bp):
ATGATTTTGCATCTATGAATCCACAT
Found at i:78609599 original size:36 final size:35
Alignment explanation
Indices: 78609518--78609599 Score: 85
Period size: 36 Copynumber: 2.3 Consensus size: 35
78609508 TCGTTGTATC
* *
78609518 ATCCAACTAGAATTGGGCGTAAAACATTGTCAGTTT
1 ATCCAACTA-AACTGGGCGCAAAACATTGTCAGTTT
***
78609554 ATTTGACTAACACTGGGCGCAAAACATTGTCCA-TTT
1 ATCCAACTAA-ACTGGGCGCAAAACATTGT-CAGTTT
78609590 ATCCAACTAA
1 ATCCAACTAA
78609600 GTTGGGCACA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
35 1 0.03
36 33 0.92
37 2 0.06
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (35 bp):
ATCCAACTAAACTGGGCGCAAAACATTGTCAGTTT
Found at i:78609925 original size:14 final size:14
Alignment explanation
Indices: 78609906--78609975 Score: 61
Period size: 14 Copynumber: 5.0 Consensus size: 14
78609896 GTCCGTACGC
*
78609906 ATGAATCTGGATCT
1 ATGAATCTGCATCT
* *
78609920 ATGAATCCGCATAT
1 ATGAATCTGCATCT
* *
78609934 ATGAACCTGTA-CTT
1 ATGAATCTGCATC-T
*
78609948 ATGAATCTGCATAT
1 ATGAATCTGCATCT
*
78609962 ATGATTCTGCATCT
1 ATGAATCTGCATCT
78609976 TTGAGTCCAC
Statistics
Matches: 42, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
14 42 1.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.36
Consensus pattern (14 bp):
ATGAATCTGCATCT
Found at i:78609937 original size:28 final size:28
Alignment explanation
Indices: 78609906--78609996 Score: 94
Period size: 28 Copynumber: 3.2 Consensus size: 28
78609896 GTCCGTACGC
*
78609906 ATGAATCTGGATCTATGAATCCGCATAT
1 ATGAATCTGCATCTATGAATCCGCATAT
* * *
78609934 ATGAACCTGTA-CTTATGAATCTGCATAT
1 ATGAATCTGCATC-TATGAATCCGCATAT
* * * *
78609962 ATGATTCTGCATCTTTGAGTCCACATAT
1 ATGAATCTGCATCTATGAATCCGCATAT
78609990 ATGAATC
1 ATGAATC
78609997 CATACTTATG
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
27 1 0.02
28 48 0.96
29 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (28 bp):
ATGAATCTGCATCTATGAATCCGCATAT
Found at i:78610009 original size:28 final size:28
Alignment explanation
Indices: 78609919--78610007 Score: 85
Period size: 28 Copynumber: 3.2 Consensus size: 28
78609909 AATCTGGATC
*
78609919 TATGAATCCGCATATATGAA-CCTGTACT
1 TATGAATCCGCATATATGAATCC-ATACT
* *
78609947 TATGAATCTGCATATATGATTCTGCAT-CT
1 TATGAATCCGCATATATGAATC--CATACT
* *
78609976 T-TGAGTCCACATATATGAATCCATACT
1 TATGAATCCGCATATATGAATCCATACT
78610003 TATGA
1 TATGA
78610008 GTTTGATAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
26 3 0.06
27 3 0.06
28 37 0.76
29 4 0.08
30 1 0.02
31 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.36
Consensus pattern (28 bp):
TATGAATCCGCATATATGAATCCATACT
Found at i:78610071 original size:26 final size:26
Alignment explanation
Indices: 78610017--78610071 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
78610007 AGTTTGATAA
* *
78610017 ATGATTTTGCATCTCTGAATCCACTT
1 ATGATTTTGCATCTATGAATCCACAT
* *
78610043 ATGATTTTGTATCTATGAATCCGCAT
1 ATGATTTTGCATCTATGAATCCACAT
78610069 ATG
1 ATG
78610072 TGATTCTACA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.18, G:0.15, T:0.42
Consensus pattern (26 bp):
ATGATTTTGCATCTATGAATCCACAT
Found at i:78618439 original size:28 final size:28
Alignment explanation
Indices: 78618382--78618501 Score: 178
Period size: 28 Copynumber: 4.4 Consensus size: 28
78618372 CATCGAGATG
78618382 GCACTAAGTGTGCGAGTTT-ATT-TA-A
1 GCACTAAGTGTGCGAGTTTGATTATATA
78618407 -CACTAAGTGTGCGAGTTT-ATTATATGA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
78618434 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
78618462 GCACTAAGTGTGCGAGTTTGATTCTATATA
1 GCACTAAGTGTGCGAGTTTGA-T-TATATA
78618492 GCACTAAGTG
1 GCACTAAGTG
78618502 CGAAGTTGAT
Statistics
Matches: 88, Mismatches: 0, Indels: 9
0.91 0.00 0.09
Matches are distributed among these distances:
24 21 0.24
25 2 0.02
27 1 0.01
28 40 0.45
29 8 0.09
30 16 0.18
ACGTcount: A:0.28, C:0.12, G:0.24, T:0.35
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:78618503 original size:56 final size:56
Alignment explanation
Indices: 78618382--78618595 Score: 164
Period size: 52 Copynumber: 3.8 Consensus size: 56
78618372 CATCGAGATG
78618382 GCACTAAGTGTGCGAGTTT-ATT-TA-A-CACTAAGTGTGCGAGTTT-A-TTATATGA
1 GCACTAAG-GTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTTATAT-A
78618434 GCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTCTATATA
1 GCACTAAG-GTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATT-TATATA
* *
78618492 GCACTAA-GTGCGAAGTTGATATTGATATTGATGATATACACTAAG-GTGCAAGTTTGA-TTATT
1 GCACTAAGGTGCG-A---G-T-TTG--ATT-AT-ATA-GCACTAAGTGTGCGAGTTTGATTTA-T
*
78618554 TTA
54 ATA
*
78618557 GCACTAAGG-GCGAG-TTGA-TATATAGCACTGAGTGTGCGA
1 GCACTAAGGTGCGAGTTTGATTATATAGCACTAAGTGTGCGA
78618596 CGTTAATATA
Statistics
Matches: 135, Mismatches: 6, Indels: 41
0.74 0.03 0.23
Matches are distributed among these distances:
52 25 0.19
53 11 0.08
54 4 0.03
55 2 0.01
56 24 0.18
57 2 0.01
58 12 0.09
59 5 0.04
60 1 0.01
61 2 0.01
62 3 0.02
64 6 0.04
65 16 0.12
66 15 0.11
67 7 0.05
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (56 bp):
GCACTAAGGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTTATATA
Found at i:78618510 original size:28 final size:28
Alignment explanation
Indices: 78618382--78618595 Score: 132
Period size: 28 Copynumber: 7.5 Consensus size: 28
78618372 CATCGAGATG
78618382 GCACTAAGTGTGCGAGTTT-A-TT-TA-A
1 GCACTAAG-GTGCGAGTTTGATTTATATA
78618407 -CACTAAGTGTGCGAGTTT-A-TTATATGA
1 GCACTAAG-GTGCGAGTTTGATTTATAT-A
78618434 GCACTAAGTGTGCGAGTTTGA-TTATATA
1 GCACTAAG-GTGCGAGTTTGATTTATATA
78618462 GCACTAAGTGTGCGAGTTTGATTCTATATA
1 GCACTAAG-GTGCGAGTTTGATT-TATATA
78618492 GCACTAA-GTGCGAAGTTGATATTGATATTGATGATA
1 GCACTAAGGTGCG-A---G-T-TTGAT-TT-AT-ATA
* * *
78618528 TACACTAAGGTGCAAGTTTGA-TTATTTTA
1 -GCACTAAGGTGCGAGTTTGATTTA-TATA
78618557 GCACTAAGG-GCGAG-TTGA--TATATA
1 GCACTAAGGTGCGAGTTTGATTTATATA
*
78618581 GCACTGAGTGTGCGA
1 GCACTAAG-GTGCGA
78618596 CGTTAATATA
Statistics
Matches: 161, Mismatches: 7, Indels: 41
0.77 0.03 0.20
Matches are distributed among these distances:
24 31 0.19
25 5 0.03
26 8 0.05
27 5 0.03
28 53 0.33
29 12 0.07
30 16 0.10
32 5 0.03
33 2 0.01
34 7 0.04
35 3 0.02
36 3 0.02
37 7 0.04
38 4 0.02
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (28 bp):
GCACTAAGGTGCGAGTTTGATTTATATA
Found at i:78618564 original size:65 final size:67
Alignment explanation
Indices: 78618451--78618577 Score: 179
Period size: 65 Copynumber: 1.9 Consensus size: 67
78618441 GTGTGCGAGT
* * * *
78618451 TTGATTATATAGCACTAAGTGTGCGAGTTTGATTCTATATAGCACTAAGTGCGAAGTTGATATTG
1 TTGATGATATAGCACTAAGTGTGCAAGTTTGATTATATATAGCACTAAGGGCG-AGTTGATATTG
78618516 ATA
65 ATA
*
78618519 TTGATGATATA-CACTAAG-GTGCAAGTTTGATTAT-TTTAGCACTAAGGGCGAGTTGATAT
1 TTGATGATATAGCACTAAGTGTGCAAGTTTGATTATATATAGCACTAAGGGCGAGTTGATAT
78618578 ATAGCACTGA
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
64 9 0.17
65 14 0.26
66 14 0.26
67 7 0.13
68 10 0.19
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.36
Consensus pattern (67 bp):
TTGATGATATAGCACTAAGTGTGCAAGTTTGATTATATATAGCACTAAGGGCGAGTTGATATTGA
TA
Found at i:78625561 original size:12 final size:12
Alignment explanation
Indices: 78625544--78625568 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
78625534 CATTCCGAAG
78625544 TATATATACATA
1 TATATATACATA
78625556 TATATATACATA
1 TATATATACATA
78625568 T
1 T
78625569 GTATGCCCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TATATATACATA
Found at i:78626081 original size:28 final size:28
Alignment explanation
Indices: 78626013--78626194 Score: 285
Period size: 28 Copynumber: 6.5 Consensus size: 28
78626003 CATGAGATTG
* * * *
78626013 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
78626042 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
78626070 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
78626098 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
78626126 GCACTAAGTGTGCAAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
78626154 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
78626181 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
78626195 GACTTAATAT
Statistics
Matches: 144, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
27 23 0.16
28 103 0.72
29 18 0.12
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:78629704 original size:12 final size:12
Alignment explanation
Indices: 78629689--78629730 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
78629679 CGCTGGGCCT
78629689 TCGCTTGGGTCC
1 TCGCTTGGGTCC
*
78629701 TCGCTTGGTTCC
1 TCGCTTGGGTCC
* *
78629713 TCACTTGGGCCC
1 TCGCTTGGGTCC
78629725 TCGCTT
1 TCGCTT
78629731 TCATTTGGAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.02, C:0.36, G:0.26, T:0.36
Consensus pattern (12 bp):
TCGCTTGGGTCC
Found at i:78636254 original size:200 final size:200
Alignment explanation
Indices: 78635911--78636310 Score: 782
Period size: 200 Copynumber: 2.0 Consensus size: 200
78635901 AAGGAGTTCA
78635911 AGGGGACTGAGAAGATAAGGTAGCAACAACTTTTGAATTTGAGGAAAGACTTTCAAAACCTGAAG
1 AGGGGACTGAGAAGATAAGGTAGCAACAACTTTTGAATTTGAGGAAAGACTTTCAAAACCTGAAG
*
78635976 ATGAAGGAGATGGAAACAATCAAATAGTATGCAAACAAGATCATGTCCATTGTCAACAATTTAAG
66 ATGAAGGAGATAGAAACAATCAAATAGTATGCAAACAAGATCATGTCCATTGTCAACAATTTAAG
*
78636041 GCTACTTGGCGATCAGTTCAATGATCGAAGGATTATTGAAAAAATCATCACAACATTGCCAGAGA
131 GCTACTTGGCGATCAGTTCAATGATCGAAGGATTATTGAAAAAATCATAACAACATTGCCAGAGA
78636106 AGTAT
196 AGTAT
78636111 AGGGGACTGAGAAGATAAGGTAGCAACAACTTTTGAATTTGAGGAAAGACTTTCAAAACCTGAAG
1 AGGGGACTGAGAAGATAAGGTAGCAACAACTTTTGAATTTGAGGAAAGACTTTCAAAACCTGAAG
78636176 ATGAAGGAGATAGAAACAATCAAATAGTATGCAAACAAGATCATGTCCATTGTCAACAATTTAAG
66 ATGAAGGAGATAGAAACAATCAAATAGTATGCAAACAAGATCATGTCCATTGTCAACAATTTAAG
78636241 GCTACTTGGCGATCAGTTCAATGATCGAAGGATTATTGAAAAAATCATAACAACATTGCCAGAGA
131 GCTACTTGGCGATCAGTTCAATGATCGAAGGATTATTGAAAAAATCATAACAACATTGCCAGAGA
78636306 AGTAT
196 AGTAT
78636311 GAGTCCAAGA
Statistics
Matches: 198, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
200 198 1.00
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.23
Consensus pattern (200 bp):
AGGGGACTGAGAAGATAAGGTAGCAACAACTTTTGAATTTGAGGAAAGACTTTCAAAACCTGAAG
ATGAAGGAGATAGAAACAATCAAATAGTATGCAAACAAGATCATGTCCATTGTCAACAATTTAAG
GCTACTTGGCGATCAGTTCAATGATCGAAGGATTATTGAAAAAATCATAACAACATTGCCAGAGA
AGTAT
Found at i:78640001 original size:26 final size:26
Alignment explanation
Indices: 78639952--78640001 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
78639942 CAGAGTTAGT
*
78639952 ATTGATTTGATGATTTTAGGTACTAA
1 ATTGATTTGATGATTTTAGATACTAA
*
78639978 ATTGATTTGATGATTTTATATACT
1 ATTGATTTGATGATTTTAGATACT
78640002 GATTTACCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.30, C:0.04, G:0.16, T:0.50
Consensus pattern (26 bp):
ATTGATTTGATGATTTTAGATACTAA
Found at i:78640142 original size:18 final size:16
Alignment explanation
Indices: 78640119--78640157 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
78640109 GAATCCTTGT
78640119 TAAAATAAAATACAATAG
1 TAAAATAAAATA-AA-AG
*
78640137 TAAAATGAAATAAAAG
1 TAAAATAAAATAAAAG
78640153 TAAAA
1 TAAAA
78640158 CCCATATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
17 2 0.10
18 11 0.55
ACGTcount: A:0.69, C:0.03, G:0.08, T:0.21
Consensus pattern (16 bp):
TAAAATAAAATAAAAG
Found at i:78643346 original size:14 final size:14
Alignment explanation
Indices: 78643327--78643358 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
78643317 AAGCTAGTGA
78643327 ACTCTTCGGTGGAT
1 ACTCTTCGGTGGAT
*
78643341 ACTCTTTGGTGGAT
1 ACTCTTCGGTGGAT
78643355 ACTC
1 ACTC
78643359 CTCAGAAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.16, C:0.22, G:0.25, T:0.38
Consensus pattern (14 bp):
ACTCTTCGGTGGAT
Found at i:78646002 original size:27 final size:27
Alignment explanation
Indices: 78645965--78646020 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
78645955 TCAAAAGATT
78645965 CACACGACCTAAGACACGCCCGTGTGA
1 CACACGACCTAAGACACGCCCGTGTGA
*
78645992 CACACGACCTAAGACACGCCTGTGTGA
1 CACACGACCTAAGACACGCCCGTGTGA
78646019 CA
1 CA
78646021 TACGGCTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.30, C:0.36, G:0.21, T:0.12
Consensus pattern (27 bp):
CACACGACCTAAGACACGCCCGTGTGA
Found at i:78651718 original size:16 final size:17
Alignment explanation
Indices: 78651675--78651725 Score: 68
Period size: 16 Copynumber: 2.9 Consensus size: 17
78651665 AGAAAAATTA
78651675 GAAAATAAAAATTAAAAAT
1 GAAAATAAAAA-T-AAAAT
78651694 GAAAATAAAAATAAAAT
1 GAAAATAAAAATAAAAT
*
78651711 G-CAATAAAAATAAAA
1 GAAAATAAAAATAAAA
78651726 AATGGCTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
16 13 0.42
17 6 0.19
18 1 0.03
19 11 0.35
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.18
Consensus pattern (17 bp):
GAAAATAAAAATAAAAT
Found at i:78651728 original size:7 final size:6
Alignment explanation
Indices: 78651658--78651726 Score: 54
Period size: 6 Copynumber: 11.5 Consensus size: 6
78651648 TGCCAGTAGC
* *
78651658 AAATAA AAGA-AA AATTAGA AAATAA AAATTAA AAATGA AAATAA AAAT-A
1 AAATAA AA-ATAA AAATA-A AAATAA AAA-TAA AAATAA AAATAA AAATAA
* *
78651707 AAAT-G CAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAA
78651727 ATGGCTAAAG
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
5 8 0.16
6 30 0.60
7 12 0.24
ACGTcount: A:0.75, C:0.01, G:0.06, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:78651729 original size:18 final size:18
Alignment explanation
Indices: 78651675--78651726 Score: 72
Period size: 19 Copynumber: 2.9 Consensus size: 18
78651665 AGAAAAATTA
78651675 GAAAATAAAAATTAAAAAT
1 GAAAATAAAAA-TAAAAAT
78651694 GAAAATAAAAAT-AAAAT
1 GAAAATAAAAATAAAAAT
*
78651711 G-CAATAAAAATAAAAA
1 GAAAATAAAAATAAAAA
78651727 ATGGCTAAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 9 0.29
17 10 0.32
18 1 0.03
19 11 0.35
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.17
Consensus pattern (18 bp):
GAAAATAAAAATAAAAAT
Found at i:78659395 original size:17 final size:18
Alignment explanation
Indices: 78659356--78659406 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
78659346 TATTTTAATT
*
78659356 TTAAAA-ATTTTAAAAAG
1 TTAAAATATTTTTAAAAG
78659373 TATAAAATATTTTTAAAA-
1 T-TAAAATATTTTTAAAAG
*
78659391 TTAAAAT-TTATTAAAA
1 TTAAAATATTTTTAAAA
78659407 AGTAAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 8 0.27
17 7 0.23
18 6 0.20
19 9 0.30
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (18 bp):
TTAAAATATTTTTAAAAG
Found at i:78659407 original size:17 final size:16
Alignment explanation
Indices: 78659356--78659413 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 16
78659346 TATTTTAATT
*
78659356 TTAAAAATTTTAAAAA
1 TTAAAATTTTTAAAAA
*
78659372 GTATAAAATATTTTTAAAA
1 -T-TAAAAT-TTTTAAAAA
78659391 TTAAAATTTATTAAAAA
1 TTAAAATTT-TTAAAAA
*
78659408 GTAAAA
1 TTAAAA
78659414 AAAAATATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
16 2 0.06
17 18 0.53
18 6 0.18
19 8 0.24
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (16 bp):
TTAAAATTTTTAAAAA
Found at i:78663997 original size:22 final size:22
Alignment explanation
Indices: 78663972--78664016 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
78663962 CTCTCTCATA
*
78663972 TTCTCAAATCTCTCCTAATTTT
1 TTCTCAAATCCCTCCTAATTTT
* *
78663994 TTCTCAATTCCCTCTTAATTTT
1 TTCTCAAATCCCTCCTAATTTT
78664016 T
1 T
78664017 ACTTAATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.27, G:0.00, T:0.53
Consensus pattern (22 bp):
TTCTCAAATCCCTCCTAATTTT
Found at i:78669184 original size:16 final size:16
Alignment explanation
Indices: 78669163--78669198 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
78669153 CTTAGGAGGT
*
78669163 AGATTGTTCGCATAGA
1 AGATTGTTCGCACAGA
*
78669179 AGATTGTTTGCACAGA
1 AGATTGTTCGCACAGA
78669195 AGAT
1 AGAT
78669199 CTTTAGGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (16 bp):
AGATTGTTCGCACAGA
Found at i:78670420 original size:69 final size:69
Alignment explanation
Indices: 78670238--78670603 Score: 250
Period size: 69 Copynumber: 5.3 Consensus size: 69
78670228 TCGTGTGACT
** * * * ** * ** *
78670238 CAAAACAGTTAGCAAGAGAAAAGCTCCTAGCTGTCATATTAAGGTTCGTAGGTAAAGAGCTACAA
1 CAAAACAGTTAGTGAGAGCAAAGCTCCCAGCTATCATATTAAGGTTCACAAGCGAAGAGCCACAA
*
78670303 CAT-
66 CCTC
* * * * *
78670306 CAAAACAATTAGCGAGAACAAAGCTCCCA-ATCGTCATATTAAGGTTCACAAGCGAAGAGCCACA
1 CAAAACAGTTAGTGAGAGCAAAGCTCCCAGCT-ATCATATTAAGGTTCACAAGCGAAGAGCCACA
78670370 ACCTC
65 ACCTC
* * * * ** * * **
78670375 TAAAATAGTTAGTGGGAGCAAAGCTCCCAGCTATCATATTAAGGTTCGCAATTGAATAGTCGTAA
1 CAAAACAGTTAGTGAGAGCAAAGCTCCCAGCTATCATATTAAGGTTCACAAGCGAAGAGCCACAA
78670440 CCTC
66 CCTC
* * * * * * ** * **
78670444 CAAAACAGTTAATAAGAGCAAAGCTCTCTGTTTTCATATTAAGGTTTGCAGGCGAAGAGCCGTAA
1 CAAAACAGTTAGTGAGAGCAAAGCTCCCAGCTATCATATTAAGGTTCACAAGCGAAGAGCCACAA
*
78670509 TCTC
66 CCTC
* * * * * * * *
78670513 CAAAACAATTAGCGAGAGCAAAACTCCCAGCTATAATATTAAGGTTCACAGGTGAAGAACCACTA
1 CAAAACAGTTAGTGAGAGCAAAGCTCCCAGCTATCATATTAAGGTTCACAAGCGAAGAGCCACAA
78670578 CCTC
66 CCTC
* * * *
78670582 CAAGACATTTAATGAAAGCAAA
1 CAAAACAGTTAGTGAGAGCAAA
78670604 ACTCTCAGTT
Statistics
Matches: 228, Mismatches: 67, Indels: 5
0.76 0.22 0.02
Matches are distributed among these distances:
67 1 0.00
68 53 0.23
69 173 0.76
70 1 0.00
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.22
Consensus pattern (69 bp):
CAAAACAGTTAGTGAGAGCAAAGCTCCCAGCTATCATATTAAGGTTCACAAGCGAAGAGCCACAA
CCTC
Found at i:78670581 original size:138 final size:138
Alignment explanation
Indices: 78670339--78670614 Score: 304
Period size: 138 Copynumber: 2.0 Consensus size: 138
78670329 CTCCCAATCG
* * * * * *
78670339 TCATATTAAGGTTCACAAGCGAAGAGCCACAACCTCTAAAATAGTTAGTGGGAGCAAAGCTCCCA
1 TCATATTAAGGTTCACAAGCGAAGAGCCACAACCTCCAAAACAATTAGCGAGAGCAAAACTCCCA
* * * * ** * *
78670404 GCTATCATATTAAGGTTCGCAATTGAATAGTCGTAACCTCCAAAACAGTTAAT-AAGAGCAAAGC
66 GCTATAATATTAAGGTTCACAAGTGAAGAACCCTAACCTCCAAAACAGTTAATGAA-AGCAAAAC
*
78670468 TCTCTGTTT
130 TCTCAGTTT
** * ** *
78670477 TCATATTAAGGTTTGCAGGCGAAGAGCCGTAATCTCCAAAACAATTAGCGAGAGCAAAACTCCCA
1 TCATATTAAGGTTCACAAGCGAAGAGCCACAACCTCCAAAACAATTAGCGAGAGCAAAACTCCCA
* * *
78670542 GCTATAATATTAAGGTTCACAGGTGAAGAACCACT-ACCTCCAAGACATTTAATGAAAGCAAAAC
66 GCTATAATATTAAGGTTCACAAGTGAAGAACC-CTAACCTCCAAAACAGTTAATGAAAGCAAAAC
78670606 TCTCAGTTT
130 TCTCAGTTT
78670615 GTTATCCTTC
Statistics
Matches: 112, Mismatches: 24, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
138 109 0.97
139 3 0.03
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (138 bp):
TCATATTAAGGTTCACAAGCGAAGAGCCACAACCTCCAAAACAATTAGCGAGAGCAAAACTCCCA
GCTATAATATTAAGGTTCACAAGTGAAGAACCCTAACCTCCAAAACAGTTAATGAAAGCAAAACT
CTCAGTTT
Found at i:78675866 original size:5 final size:5
Alignment explanation
Indices: 78675838--78675880 Score: 59
Period size: 5 Copynumber: 8.2 Consensus size: 5
78675828 GTACATATGC
*
78675838 TCTTT TTTTGT TCTTT TACTTT TCTTT TCTTT TCTTT TCTTT T
1 TCTTT TCTT-T TCTTT T-CTTT TCTTT TCTTT TCTTT TCTTT T
78675881 TCACGAGCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 25 0.74
6 9 0.26
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.79
Consensus pattern (5 bp):
TCTTT
Found at i:78681372 original size:27 final size:27
Alignment explanation
Indices: 78681341--78681518 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
78681331 TAAATTGTAC
78681341 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
78681368 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
78681394 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
78681422 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
78681450 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
78681477 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
78681504 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
78681519 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:78681455 original size:82 final size:81
Alignment explanation
Indices: 78681342--78681497 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
78681332 AAATTGTACA
* *
78681342 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
78681406 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
78681423 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
78681488 TGCGAGTTGA
65 TGCGAATTGA
78681498 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:78681509 original size:82 final size:81
Alignment explanation
Indices: 78681338--78681518 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
78681328 GATTAAATTG
* *
78681338 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
78681403 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
78681419 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
78681483 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
78681501 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
78681519 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:78689478 original size:27 final size:27
Alignment explanation
Indices: 78689447--78689624 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
78689437 TAAATTGTAC
78689447 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
78689474 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
78689500 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
78689528 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
78689556 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
78689583 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
78689610 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
78689625 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:78689561 original size:82 final size:81
Alignment explanation
Indices: 78689448--78689603 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
78689438 AAATTGTACA
* *
78689448 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
78689512 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
78689529 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
78689594 TGCGAGTTGA
65 TGCGAATTGA
78689604 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:78689615 original size:82 final size:81
Alignment explanation
Indices: 78689444--78689624 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
78689434 GATTAAATTG
* *
78689444 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
78689509 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
78689525 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
78689589 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
78689607 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
78689625 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:78695296 original size:5 final size:5
Alignment explanation
Indices: 78695286--78695310 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
78695276 AAAAATAACA
78695286 TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT
78695311 GATCCATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:78699469 original size:37 final size:37
Alignment explanation
Indices: 78699428--78699503 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
78699418 GGATGTTGTT
78699428 TTTCTATTTAAAATAAACCTCTATAACTTTACAAGGG
1 TTTCTATTTAAAATAAACCTCTATAACTTTACAAGGG
78699465 TTTCTATTTAAAATAAACCTCTATAACTTTACAAGGG
1 TTTCTATTTAAAATAAACCTCTATAACTTTACAAGGG
78699502 TT
1 TT
78699504 CTAACTTCTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.39
Consensus pattern (37 bp):
TTTCTATTTAAAATAAACCTCTATAACTTTACAAGGG
Found at i:78703047 original size:18 final size:17
Alignment explanation
Indices: 78702990--78703047 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 17
78702980 TATAACTCAA
78702990 AAAGTTAT-AAAAATCT
1 AAAGTTATAAAAAATCT
*
78703006 AAAGAATATATAAAAAATTTT
1 AAAG--T-TATAAAAAA-TCT
78703027 AAAGTTATAAAAAATCCT
1 AAAGTTATAAAAAAT-CT
78703045 AAA
1 AAA
78703048 CCCATAAACC
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
16 4 0.12
17 1 0.03
18 14 0.41
19 4 0.12
20 5 0.15
21 6 0.18
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.29
Consensus pattern (17 bp):
AAAGTTATAAAAAATCT
Found at i:78703975 original size:60 final size:60
Alignment explanation
Indices: 78703884--78704008 Score: 241
Period size: 60 Copynumber: 2.1 Consensus size: 60
78703874 AGTAAACACA
78703884 AAAATATTGAAAATCATCCCAATCCTATTATTTGACTTTACTTTTTAGCCTTATAAATAC
1 AAAATATTGAAAATCATCCCAATCCTATTATTTGACTTTACTTTTTAGCCTTATAAATAC
*
78703944 AAAATATTGAAAATCATCCCAATCCTATTATTTTACTTTACTTTTTAGCCTTATAAATAC
1 AAAATATTGAAAATCATCCCAATCCTATTATTTGACTTTACTTTTTAGCCTTATAAATAC
78704004 AAAAT
1 AAAAT
78704009 GCCTTTAAAA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 64 1.00
ACGTcount: A:0.38, C:0.18, G:0.04, T:0.40
Consensus pattern (60 bp):
AAAATATTGAAAATCATCCCAATCCTATTATTTGACTTTACTTTTTAGCCTTATAAATAC
Found at i:78704187 original size:9 final size:9
Alignment explanation
Indices: 78704175--78704266 Score: 87
Period size: 9 Copynumber: 9.7 Consensus size: 9
78704165 TTTTTTACCA
78704175 AAAATTATT
1 AAAATTATT
78704184 AAAATATTATT
1 -AAA-ATTATT
*
78704195 AAAAATATT
1 AAAATTATT
78704204 AAAATTGATAT
1 AAAATT-AT-T
*
78704215 AAACTTATT
1 AAAATTATT
*
78704224 AAAATTATAA
1 AAAATTAT-T
78704234 AAAATTA-T
1 AAAATTATT
78704242 AAAATTTATT
1 AAAA-TTATT
*
78704252 AAAAATATT
1 AAAATTATT
78704261 AAAATT
1 AAAATT
78704267 TTATAAATAA
Statistics
Matches: 68, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
8 4 0.06
9 30 0.44
10 22 0.32
11 12 0.18
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (9 bp):
AAAATTATT
Found at i:78704270 original size:20 final size:19
Alignment explanation
Indices: 78704174--78704267 Score: 102
Period size: 19 Copynumber: 4.8 Consensus size: 19
78704164 ATTTTTTACC
78704174 AAAAATTATTAAAATATTATT
1 AAAAA-TATTAAAAT-TTATT
*
78704195 AAAAATATTAAAATTGATAT
1 AAAAATATTAAAATTTAT-T
** *
78704215 AAACTTATTAAAA-TTATA
1 AAAAATATTAAAATTTATT
78704233 AAAAAT-TATAAAATTTATT
1 AAAAATAT-TAAAATTTATT
78704252 AAAAATATTAAAATTT
1 AAAAATATTAAAATTT
78704268 TATAAATAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
17 1 0.02
18 9 0.15
19 24 0.39
20 22 0.36
21 5 0.08
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (19 bp):
AAAAATATTAAAATTTATT
Found at i:78704270 original size:29 final size:29
Alignment explanation
Indices: 78704175--78704273 Score: 105
Period size: 29 Copynumber: 3.4 Consensus size: 29
78704165 TTTTTTACCA
*
78704175 AAAATTAT-TAAAATATTATTAAAAATATT
1 AAAATTTTATAAAAT-TTATTAAAAATATT
* * *
78704204 AAAA-TTGATATAAACTTATTAAAATTA-T
1 AAAATTTTATA-AAATTTATTAAAAATATT
**
78704232 AAAAAATTATAAAATTTATTAAAAATATT
1 AAAATTTTATAAAATTTATTAAAAATATT
78704261 AAAATTTTATAAA
1 AAAATTTTATAAA
78704274 TAAAACTTAC
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
28 20 0.36
29 33 0.59
30 3 0.05
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (29 bp):
AAAATTTTATAAAATTTATTAAAAATATT
Found at i:78704429 original size:20 final size:21
Alignment explanation
Indices: 78704404--78704454 Score: 88
Period size: 20 Copynumber: 2.5 Consensus size: 21
78704394 CAAGACTCTC
78704404 TTATTTTTATTA-ATAAATTA
1 TTATTTTTATTAGATAAATTA
78704424 TTATTTTTA-TAGATAAATTA
1 TTATTTTTATTAGATAAATTA
78704444 TTATTTTTATT
1 TTATTTTTATT
78704455 TTTAAAACTT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 2 0.07
20 26 0.90
21 1 0.03
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
TTATTTTTATTAGATAAATTA
Found at i:78704758 original size:10 final size:10
Alignment explanation
Indices: 78704721--78704945 Score: 81
Period size: 10 Copynumber: 22.4 Consensus size: 10
78704711 ATGAGGACAA
*
78704721 ATAAATTTTT
1 ATAATTTTTT
*
78704731 AT-ATATTTT
1 ATAATTTTTT
*
78704740 -TAATATTTT
1 ATAATTTTTT
78704749 ATAATTTTTT
1 ATAATTTTTT
*
78704759 AAATTATTTTTT
1 --ATAATTTTTT
* *
78704771 ATACTTTATT
1 ATAATTTTTT
* *
78704781 AGAATCTTTT
1 ATAATTTTTT
*
78704791 ATAAGTTTTT
1 ATAATTTTTT
*
78704801 ATGAATTTTGT
1 AT-AATTTTTT
*
78704812 ATAA-GTTTT
1 ATAATTTTTT
** *
78704821 ATAATTACTG
1 ATAATTTTTT
*
78704831 ATGA-TTTTT
1 ATAATTTTTT
*
78704840 ACAAATTTTTT
1 A-TAATTTTTT
78704851 -TAGATTTTTT
1 ATA-ATTTTTT
78704861 CATAAGTTTTTT
1 -ATAA-TTTTTT
78704873 -TGAATTTTTT
1 AT-AATTTTTT
* **
78704883 ATAAGTTTAC
1 ATAATTTTTT
* *
78704893 AGAAATTTTT
1 ATAATTTTTT
78704903 A-AATATTTTT
1 ATAAT-TTTTT
*
78704913 A-AATATGTTT
1 ATAAT-TTTTT
*
78704923 ATAATTTATT
1 ATAATTTTTT
*
78704933 AGAA-TTTTT
1 ATAATTTTTT
78704942 ATAA
1 ATAA
78704946 GTTTATTTAA
Statistics
Matches: 156, Mismatches: 43, Indels: 33
0.67 0.19 0.14
Matches are distributed among these distances:
8 1 0.01
9 32 0.21
10 86 0.55
11 20 0.13
12 17 0.11
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (10 bp):
ATAATTTTTT
Found at i:78704768 original size:29 final size:28
Alignment explanation
Indices: 78704721--78704779 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 28
78704711 ATGAGGACAA
* *
78704721 ATAAATTTTTATATATTTTTAATATTTT
1 ATAAATTTTTAAATATTTTTAATACTTT
* *
78704749 ATAATTTTTTAAATTATTTTTTATACTTT
1 ATAAATTTTTAAA-TATTTTTAATACTTT
78704778 AT
1 AT
78704780 TAGAATCTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 11 0.42
29 15 0.58
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (28 bp):
ATAAATTTTTAAATATTTTTAATACTTT
Found at i:78704952 original size:20 final size:20
Alignment explanation
Indices: 78704766--78704952 Score: 82
Period size: 21 Copynumber: 8.8 Consensus size: 20
78704756 TTTAAATTAT
*
78704766 TTTTTAT-ACTTTATTAGAA
1 TTTTTATAAGTTTATTAGAA
78704785 TCTTTTATAAGTTT-TTATGAA
1 T-TTTTATAAGTTTATTA-GAA
78704806 TTTTGTATAAGTTTTATAATTACTGATGA
1 TTTT-TATAAG--TT-T-ATTA--GA--A
* * * *
78704835 TTTTTACAAATTTTTTTAGAT
1 TTTTTA-TAAGTTTATTAGAA
* *
78704856 TTTTTCATAAGTTTTTTTGAA
1 TTTTT-ATAAGTTTATTAGAA
*
78704877 TTTTTTATAAGTTTA-CAGAAA
1 -TTTTTATAAGTTTATTAG-AA
*
78704898 TTTTTA-AA-TATTTTTA-AA
1 TTTTTATAAGT-TTATTAGAA
78704916 TATGTTTATAA-TTTATTAGAA
1 T-T-TTTATAAGTTTATTAGAA
78704937 TTTTTATAAGTTTATT
1 TTTTTATAAGTTTATT
78704953 TAAATATTAA
Statistics
Matches: 130, Mismatches: 15, Indels: 45
0.68 0.08 0.24
Matches are distributed among these distances:
18 4 0.03
19 13 0.10
20 36 0.28
21 45 0.35
22 6 0.05
23 4 0.03
24 1 0.01
25 3 0.02
26 4 0.03
27 5 0.04
28 2 0.02
29 7 0.05
ACGTcount: A:0.32, C:0.03, G:0.08, T:0.57
Consensus pattern (20 bp):
TTTTTATAAGTTTATTAGAA
Found at i:78707561 original size:18 final size:18
Alignment explanation
Indices: 78707520--78707555 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
78707510 AAATTAAAAT
* *
78707520 ATTAATTAAGCTAATTAA
1 ATTAATTAACCTAACTAA
78707538 ATTAATTAACCTAACTAA
1 ATTAATTAACCTAACTAA
78707556 TCTAATGGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.11, G:0.03, T:0.36
Consensus pattern (18 bp):
ATTAATTAACCTAACTAA
Found at i:78709038 original size:30 final size:30
Alignment explanation
Indices: 78708997--78709059 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
78708987 ACGGGAATAA
* * *
78708997 GTTGCTCACACAAGTTGACATTATATCAGG
1 GTTGCTCACACAAGCTAACATTATATCAAG
*
78709027 GTTGCTTACACAAGCTAACATTATATCAAG
1 GTTGCTCACACAAGCTAACATTATATCAAG
78709057 GTT
1 GTT
78709060 ACCTGTCTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (30 bp):
GTTGCTCACACAAGCTAACATTATATCAAG
Found at i:78712943 original size:31 final size:31
Alignment explanation
Indices: 78712875--78712936 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
78712865 ACACCTGAAG
78712875 TAAAAAAAATTCAACTAGATTTGACTTACGA
1 TAAAAAAAATTCAACTAGATTTGACTTACGA
78712906 TAAAAAAAATTCAACTAGATTTGACTTACGA
1 TAAAAAAAATTCAACTAGATTTGACTTACGA
78712937 AGAAAAAGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.29
Consensus pattern (31 bp):
TAAAAAAAATTCAACTAGATTTGACTTACGA
Found at i:78712943 original size:32 final size:32
Alignment explanation
Indices: 78712871--78712943 Score: 121
Period size: 31 Copynumber: 2.3 Consensus size: 32
78712861 GATCACACCT
78712871 GAAGTAAAAAAAATTCAACTAGATTTGACTTAC
1 GAAG-AAAAAAAATTCAACTAGATTTGACTTAC
*
78712904 G-ATAAAAAAAATTCAACTAGATTTGACTTAC
1 GAAGAAAAAAAATTCAACTAGATTTGACTTAC
78712935 GAAGAAAAA
1 GAAGAAAAA
78712944 GTAAAGTTAC
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
31 29 0.78
32 7 0.19
33 1 0.03
ACGTcount: A:0.52, C:0.11, G:0.12, T:0.25
Consensus pattern (32 bp):
GAAGAAAAAAAATTCAACTAGATTTGACTTAC
Found at i:78718291 original size:27 final size:27
Alignment explanation
Indices: 78718252--78718402 Score: 162
Period size: 27 Copynumber: 5.6 Consensus size: 27
78718242 ATATTGAGTC
* ** *
78718252 CGCACACTCAGTGCTATTTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
78718279 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
78718307 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
**
78718334 CGCACACTTAGTGCATCACAT--TCATTT
1 CGCACACTTAGTGC-T-ACATAGTCAAAT
*
78718361 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
78718388 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
78718403 GTACAATTTA
Statistics
Matches: 104, Mismatches: 15, Indels: 10
0.81 0.12 0.08
Matches are distributed among these distances:
25 4 0.04
27 74 0.71
28 23 0.22
29 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:78724708 original size:43 final size:43
Alignment explanation
Indices: 78724647--78724730 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
78724637 TGTGATTTCT
*
78724647 ATATGTGTTTACGAGTAAGACC-CTGTCTGGGACAG-TGGCATCG
1 ATATGTGGTTACGAGTAAGACCAC-GTCTGGGAC-GTTGGCATCG
78724690 ATATGTGGTTAC-ATGTAAGACCACGTCTGGGACGTTGGCAT
1 ATATGTGGTTACGA-GTAAGACCACGTCTGGGACGTTGGCAT
78724731 TGTACGATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
42 2 0.05
43 34 0.92
44 1 0.03
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.29
Consensus pattern (43 bp):
ATATGTGGTTACGAGTAAGACCACGTCTGGGACGTTGGCATCG
Found at i:78730618 original size:28 final size:29
Alignment explanation
Indices: 78730564--78730618 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
78730554 ACAAGGGCTT
*
78730564 TCACAAGGCCAAGCACATGCCCGTGTCCA
1 TCACAAGGCCAAGCACACGCCCGTGTCCA
* *
78730593 TCACACGGCCTAG-ACACGCCCGTGTC
1 TCACAAGGCCAAGCACACGCCCGTGTC
78730619 GTCGCTTGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 12 0.52
29 11 0.48
ACGTcount: A:0.24, C:0.40, G:0.22, T:0.15
Consensus pattern (29 bp):
TCACAAGGCCAAGCACACGCCCGTGTCCA
Found at i:78732093 original size:21 final size:21
Alignment explanation
Indices: 78732067--78732111 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
78732057 TAAGAACATC
78732067 TTTTTCATTTACACTAGAACA
1 TTTTTCATTTACACTAGAACA
78732088 TTTTTCATTTACACTAGAACA
1 TTTTTCATTTACACTAGAACA
78732109 TTT
1 TTT
78732112 CATGGATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.31, C:0.18, G:0.04, T:0.47
Consensus pattern (21 bp):
TTTTTCATTTACACTAGAACA
Found at i:78734817 original size:41 final size:41
Alignment explanation
Indices: 78734744--78734932 Score: 200
Period size: 41 Copynumber: 4.6 Consensus size: 41
78734734 ATGAAATGCG
78734744 CATACATGCCCCTGTTTGTACTTCAGTACCCCTGAATTACA
1 CATACATGCCCCTGTTTGTACTTCAGTACCCCTGAATTACA
* * * * * *
78734785 CATACATGCCCCTATTTATACTCCAGTGCCCCTTAAATACA
1 CATACATGCCCCTGTTTGTACTTCAGTACCCCTGAATTACA
* * * *
78734826 CATACGTACCCCTGTTTGTACTTCAGTACCCCTAAATTTCA
1 CATACATGCCCCTGTTTGTACTTCAGTACCCCTGAATTACA
* * * * * *
78734867 CATACATTCCACTATTTGTACTTTAATACCCCTGAATTGCA
1 CATACATGCCCCTGTTTGTACTTCAGTACCCCTGAATTACA
**
78734908 CATATGTGCCCCTGTTTAG-ACTTCA
1 CATACATGCCCCTGTTT-GTACTTCA
78734933 ATAATTCTGA
Statistics
Matches: 118, Mismatches: 29, Indels: 2
0.79 0.19 0.01
Matches are distributed among these distances:
41 117 0.99
42 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.10, T:0.33
Consensus pattern (41 bp):
CATACATGCCCCTGTTTGTACTTCAGTACCCCTGAATTACA
Found at i:78735700 original size:17 final size:15
Alignment explanation
Indices: 78735670--78735718 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
78735660 AGACACAGGC
*
78735670 GTGTGACTCAGCCAT
1 GTGTGACACAGCCAT
78735685 GTGTGACACACAGCCA-
1 GTGTG--ACACAGCCAT
78735701 G-GTGACACAGCCAT
1 GTGTGACACAGCCAT
78735715 GTGT
1 GTGT
78735719 CCCCTGTAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
13 9 0.31
14 1 0.03
15 10 0.34
16 1 0.03
17 8 0.28
ACGTcount: A:0.24, C:0.27, G:0.29, T:0.20
Consensus pattern (15 bp):
GTGTGACACAGCCAT
Found at i:78736460 original size:20 final size:19
Alignment explanation
Indices: 78736394--78736503 Score: 78
Period size: 20 Copynumber: 5.6 Consensus size: 19
78736384 ACAGGGGTAT
*
78736394 TGAAGTGCAAACAATGGCAC
1 TGAAGTGCAAAC-AGGGCAC
*
78736414 -GAATGTGCAAGCAGTGGCAC
1 TGAA-GTGCAAACAG-GGCAC
* * *
78736434 CGTAGTGCGAACAGGGACAC
1 TGAAGTGCAAACAGGG-CAC
*** *
78736454 TGAAGTGTTTACGGGGCAC
1 TGAAGTGCAAACAGGGCAC
78736473 TGAAGTGCAAACAGAGGCAC
1 TGAAGTGCAAACAG-GGCAC
*
78736493 TGAATTGCAAA
1 TGAAGTGCAAA
78736504 TCTCATACAA
Statistics
Matches: 69, Mismatches: 16, Indels: 10
0.73 0.17 0.11
Matches are distributed among these distances:
19 19 0.28
20 48 0.70
21 2 0.03
ACGTcount: A:0.34, C:0.19, G:0.31, T:0.16
Consensus pattern (19 bp):
TGAAGTGCAAACAGGGCAC
Found at i:78745544 original size:46 final size:47
Alignment explanation
Indices: 78745476--78745574 Score: 128
Period size: 46 Copynumber: 2.1 Consensus size: 47
78745466 TATAATCTAC
* *
78745476 GTAGGGGAAAAGCTAAAATGTAATGTCGATGTAACTATTTCAAATAT
1 GTAGGGGAAAAGCTAAAATGTAATATCGATGCAACTATTTCAAATAT
* * **
78745523 GTAGGGG-CAAGCTGAAATGTAATATCGATGCAGTTATTTCAAATAT
1 GTAGGGGAAAAGCTAAAATGTAATATCGATGCAACTATTTCAAATAT
*
78745569 GAAGGG
1 GTAGGG
78745575 TTGACGAGCT
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
46 38 0.84
47 7 0.16
ACGTcount: A:0.37, C:0.09, G:0.25, T:0.28
Consensus pattern (47 bp):
GTAGGGGAAAAGCTAAAATGTAATATCGATGCAACTATTTCAAATAT
Found at i:78753950 original size:717 final size:711
Alignment explanation
Indices: 78752582--78753979 Score: 2383
Period size: 717 Copynumber: 2.0 Consensus size: 711
78752572 GAGTGTTACA
78752582 AGCATAATGGAATTGTACAAAGAATGAACAGAACCTTGCTAGAAAAAGCTCAATGCACGTTCTCT
1 AGCATAATGGAATTGTACAAAGAATGAACAGAACCTTGCTAGAAAAAGCTCAATGCACGTTCTCT
*
78752647 AATGCAGGCTTAGGGAAGGAATTTTGGGCTGAAGCCATAAACCTGGCAAGTTATTTGGTAAATTG
66 AACGCAGGCTTAGGGAAGGAATTTTGGGCTGAAGCCATAAACCTGGCAAGTTATTTGGTAAATTG
78752712 ATCTCCTCATCAAGCATTGAATGGTAAAGTTCTAGAGAAGATATGGTCAGGTAAACCTCCCAATT
131 ATCTCCTCATCAAGCATTGAATGGTAAAGTTCTAGAGAAGATATGGTCAGGTAAACCTCCCAATT
*
78752777 ATTCTAATCTAAAAAAATTTGGTTGTCTTGCTTATGCTAAAGTTAGCCAGAGAAAGTTTGAACCA
196 ATTCTAATCTAAAAAAATTTGGTTGTCTTACTTATGCTAAAGTTAGCCAGAGAAAGTTTGAACCA
* * *
78752842 AGGGCAATTAAATTATCTTTCTACACAAAAGGTTTTAAGTTGTGTGAAATCCGACAAAATAATTG
261 AGGGAAATTAAATCATCTTTCAACACAAAAGGTTTTAAGTTGTGTGAAATCCGACAAAATAATTG
*
78752907 TTAGCAGAGATGTTACGTTTGATGAATCTATCATGTTTCGATCAAAAAAGAAGACTTTTACTTTT
326 TTAGCAGAGATGTTACGTTTGATGAATCTATCATGTTTCGATCAAAAAAGAAGACGTTTACTTTT
78752972 AAAGACACAACAAATCAGAATGTCTCAAGCAAGGTGGAGTCAAAAGATAAAATTGGGGGCGATGT
391 AAAGACACAACAAATCAGAATGTCTCAAGCAAGGTGGAGTCAAAAGATAAAATTGGGGGCGATGT
*
78753037 CAAGTGATGATGATTCACTTAACTAACTAAAATCACGACAAAGGCAAGCGCATCTATCTAACAAT
456 CAAGTGATGATGATTCACTTAACTAACTAAAATCACGACAAAGGCAAGCGCACCTATCTAACAAT
* * *
78753102 AGTATAGCTATGGTGAGTCAGGAATATCGTATCCACGAGGACTAAAAGTACTAGTACTTACTATT
521 AGTATAGCTATGGTGAGGCAGGAATATCGTATCCACGAGGACTAAAAGCACTAGTACTTACTATC
*
78753167 TTTCTATTATCTAGCTAGTAATTTGAAGAAGTTTGTTTTAAATCTAAAATTATCTAATTACTAAG
586 TTTCTATTATCTAGCTAGTAATTTGAAGAAGTTTGTTTTAAATCTAAAACTATCTAATTACTAAG
** *
78753232 GATGCAATAGAGAATAAGTAAGAAAATAATCTAAAATTATCGAACCATTGTTGGAACTCGC
651 GAAACAAAAGAGAATAAGTAAGAAAATAATCTAAAATTATCGAACCATTGTTGGAACTCGC
* * *
78753293 AGCATAATGGAATTGTACAAAGAATGAACAGAACCTTGCTAGAAAAAGCTCGATGCATGTTTTCT
1 AGCATAATGGAATTGTACAAAGAATGAACAGAACCTTGCTAGAAAAAGCTCAATGCACGTTCTCT
*
78753358 AACGCAGGCTTAGGGAAGGAATTTTGGGCTGAAGCCATAAACCTGGCACGTTATTTGGTAAATTG
66 AACGCAGGCTTAGGGAAGGAATTTTGGGCTGAAGCCATAAACCTGGCAAGTTATTTGGTAAATTG
* * *
78753423 ATCTCCTCATTGAA-CATTGAATGGTAAAGTTCTAGAGGAGATATGGTCAGGTAATCCTCCCAAT
131 ATCTCCTCA-TCAAGCATTGAATGGTAAAGTTCTAGAGAAGATATGGTCAGGTAAACCTCCCAAT
* *
78753487 TATTTTAATCT-CAAAAATTATGGTTGTCTTACTTATGCTAAAGTTAGCCAGAGAAAGTTTGAAC
195 TATTCTAATCTAAAAAAATT-TGGTTGTCTTACTTATGCTAAAGTTAGCCAGAGAAAGTTTGAAC
78753551 CAAGGGAAATTAAATGCATCTTTCAACACAAAAGGTTTTAAGTTGTGGTGTCTGAAATCCGACAA
259 CAAGGGAAATTAAAT-CATCTTTCAACACAAAAGGTTTTAAG-T-T-GTG--TGAAATCCGACAA
*
78753616 AATAATTGTTAGCAGAGATGTTACGTTTGGTGAATCTATCATGTTTCGATCAAAAAATG-AGACG
318 AATAATTGTTAGCAGAGATGTTACGTTTGATGAATCTATCATGTTTCGATCAAAAAA-GAAGACG
* *
78753680 TTTACTTTTAAAGACACAACAAATCAGAGTGTCTCAAGCAAGGTGGAGTCAAAAGATGAAATTGG
382 TTTACTTTTAAAGACACAACAAATCAGAATGTCTCAAGCAAGGTGGAGTCAAAAGATAAAATTGG
* * *
78753745 GGGTGATGTCACGTGATGATGATTCACTTATCTAACTAAAATCACGACAAAGGCAAGCGCACCTA
447 GGGCGATGTCAAGTGATGATGATTCACTTAACTAACTAAAATCACGACAAAGGCAAGCGCACCTA
*
78753810 T-TGAACAATAGTATAGCTATGGTGAGGCAGGAATATCGTATCCACGAGGACTAAAAGCATTAGT
512 TCT-AACAATAGTATAGCTATGGTGAGGCAGGAATATCGTATCCACGAGGACTAAAAGCACTAGT
*
78753874 ACTTACTATCTTTCTATTATCTAG-TCGGTAATTTGAAGAAGTTTGTTTTAAATCTAAAACTATC
576 ACTTACTATCTTTCTATTATCTAGCT-AGTAATTTGAAGAAGTTTGTTTTAAATCTAAAACTATC
78753938 TAATTACTAAGGAAACAAAAGAGAATAAGTAAGAAAATAATC
640 TAATTACTAAGGAAACAAAAGAGAATAAGTAAGAAAATAATC
78753980 GAATAAACCA
Statistics
Matches: 645, Mismatches: 31, Indels: 16
0.93 0.04 0.02
Matches are distributed among these distances:
710 7 0.01
711 249 0.39
712 27 0.04
713 1 0.00
714 1 0.00
715 3 0.00
716 2 0.00
717 354 0.55
718 1 0.00
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.29
Consensus pattern (711 bp):
AGCATAATGGAATTGTACAAAGAATGAACAGAACCTTGCTAGAAAAAGCTCAATGCACGTTCTCT
AACGCAGGCTTAGGGAAGGAATTTTGGGCTGAAGCCATAAACCTGGCAAGTTATTTGGTAAATTG
ATCTCCTCATCAAGCATTGAATGGTAAAGTTCTAGAGAAGATATGGTCAGGTAAACCTCCCAATT
ATTCTAATCTAAAAAAATTTGGTTGTCTTACTTATGCTAAAGTTAGCCAGAGAAAGTTTGAACCA
AGGGAAATTAAATCATCTTTCAACACAAAAGGTTTTAAGTTGTGTGAAATCCGACAAAATAATTG
TTAGCAGAGATGTTACGTTTGATGAATCTATCATGTTTCGATCAAAAAAGAAGACGTTTACTTTT
AAAGACACAACAAATCAGAATGTCTCAAGCAAGGTGGAGTCAAAAGATAAAATTGGGGGCGATGT
CAAGTGATGATGATTCACTTAACTAACTAAAATCACGACAAAGGCAAGCGCACCTATCTAACAAT
AGTATAGCTATGGTGAGGCAGGAATATCGTATCCACGAGGACTAAAAGCACTAGTACTTACTATC
TTTCTATTATCTAGCTAGTAATTTGAAGAAGTTTGTTTTAAATCTAAAACTATCTAATTACTAAG
GAAACAAAAGAGAATAAGTAAGAAAATAATCTAAAATTATCGAACCATTGTTGGAACTCGC
Found at i:78755987 original size:20 final size:20
Alignment explanation
Indices: 78755962--78756001 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
78755952 TTGAAAGATA
78755962 GACATTTTGGGAAATTGATT
1 GACATTTTGGGAAATTGATT
78755982 GACATTTTGGGAAATTGATT
1 GACATTTTGGGAAATTGATT
78756002 TTATCACAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.05, G:0.25, T:0.40
Consensus pattern (20 bp):
GACATTTTGGGAAATTGATT
Found at i:78757652 original size:8 final size:9
Alignment explanation
Indices: 78757632--78757662 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
78757622 TTGGTGTTAA
78757632 TTTTT-ATG
1 TTTTTGATG
78757640 TTTTTGATG
1 TTTTTGATG
78757649 TTTTTGATG
1 TTTTTGATG
78757658 TTTTT
1 TTTTT
78757663 AAGATCATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 5 0.23
9 17 0.77
ACGTcount: A:0.10, C:0.00, G:0.16, T:0.74
Consensus pattern (9 bp):
TTTTTGATG
Found at i:78758459 original size:42 final size:42
Alignment explanation
Indices: 78758412--78758564 Score: 171
Period size: 42 Copynumber: 3.6 Consensus size: 42
78758402 TGAGTTATCA
* *
78758412 TGTAAGACCATATCTGGGATATGGCGTTGATATGAGATTTCG
1 TGTAAGACCATATCTGGGACATGGCGTCGATATGAGATTTCG
** * *
78758454 TGTAAGACCACGTCTGGGACATGGCGTCGAAATGAGAATTCG
1 TGTAAGACCATATCTGGGACATGGCGTCGATATGAGATTTCG
* * * * ** *
78758496 TATAAGACCATATCTGGGATATGGCATCGATGTGAGATCACA
1 TGTAAGACCATATCTGGGACATGGCGTCGATATGAGATTTCG
* *
78758538 TGTAAGACCATGTCTAGGACATGGCGT
1 TGTAAGACCATATCTGGGACATGGCGT
78758565 TGGCATCTTA
Statistics
Matches: 89, Mismatches: 22, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 89 1.00
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGACATGGCGTCGATATGAGATTTCG
Found at i:78766791 original size:13 final size:13
Alignment explanation
Indices: 78766773--78766798 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
78766763 ATTATGACTT
78766773 AATTAATTAAAAA
1 AATTAATTAAAAA
78766786 AATTAATTAAAAA
1 AATTAATTAAAAA
78766799 TGAAACATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AATTAATTAAAAA
Found at i:78769925 original size:130 final size:131
Alignment explanation
Indices: 78769690--78769992 Score: 391
Period size: 130 Copynumber: 2.3 Consensus size: 131
78769680 ACGAGATTTG
*
78769690 ATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGTGTTTGCTCAAAAT
1 ATATTTGGCAATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGTGTTTGCTCAAAAT
* * * * * *
78769755 AATCGAATATCACTTCAAAATTTCACTTATGTCTTTTAAAACCCCTT-AAACGAAGGCGATGTGC
66 AATCAAATATCACTTCAAAATTTCACTCAGGTCTTCTAAAAACCCTTAAAACGAAGGCGATATGC
78769819 A
131 A
*
78769820 ATATTTGGCAATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTC-TCGTTTGCTTAAAA
1 ATATTTGGCAATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGT-GTTTGCTCAAAA
* * * *
78769884 TAATCAAATATCCCTTCAAAATTTCACTCAGGT-TTCCTAAAAATCTTTCAAAACGAAGGTGATA
65 TAATCAAATATCACTTCAAAATTTCACTCAGGTCTT-CTAAAAACCCTT-AAAACGAAGGCGATA
*
78769948 TTCA
128 TGCA
* * *
78769952 ATGTTTGGCAATT--TGAGAATCGTGCCCTATCGTGCTGGGTT
1 ATATTTGGCAATTCGTG-GAATCGTGCCCTAACGTGTTGGGTT
78769993 ACGCTTTTTC
Statistics
Matches: 152, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
129 3 0.02
130 99 0.65
131 23 0.15
132 27 0.18
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (131 bp):
ATATTTGGCAATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGTGTTTGCTCAAAAT
AATCAAATATCACTTCAAAATTTCACTCAGGTCTTCTAAAAACCCTTAAAACGAAGGCGATATGC
A
Found at i:78770028 original size:131 final size:131
Alignment explanation
Indices: 78769659--78770123 Score: 338
Period size: 130 Copynumber: 3.5 Consensus size: 131
78769649 TATAATCATT
* * * * * *
78769659 CAAAAATTCTTTAAAAAGAAGACGAGAT-TT-GATATTTGGCAATTCGCGGAATCGTGCCCTAAC
1 CAAAAACTCTTTAAAACGAAG--GAGATGTTCAATGTTTGGCAATTC-TGGAATCGTGCCCTATC
* * * * * * * * * *
78769722 GTGTTGGGTTGCAATTTCGT-GTTTGCTCAAAATAATCGAATATCACTTCAAAATTTCACTTA-T
63 GTGCTGGGTTACAATTTC-TCATTTGCTTAAAACAATCAAAGATCCCTTCAAAATTTCACTCACG
78769785 GTCTT-
127 GT-TTC
** * * * * * *
78769790 TTAAAACCCCTT-AAACGAAGGCGATGTGCAATATTTGGCAATTCGTGGAATCGTGCCCTAACGT
1 CAAAAACTCTTTAAAACGAAGGAGATGTTCAATGTTTGGCAATTC-TGGAATCGTGCCCTATCGT
* * * * *
78769854 GTTGGGTTGCAATTTCTCGTTTGCTTAAAATAATCAAATATCCCTTCAAAATTTCACTCA-GGTT
65 GCTGGGTTACAATTTCTCATTTGCTTAAAACAATCAAAGATCCCTTCAAAATTTCACTCACGGTT
78769918 TC
130 TC
* *
78769920 CTAAAAA-TCTTTCAAAACGAAGGTGATATTCAATGTTTGGCAATT-TGAGAATCGTGCCCTATC
1 C-AAAAACTCTTT-AAAACGAAGGAGATGTTCAATGTTTGGCAATTCTG-GAATCGTGCCCTATC
** * * * *** *
78769983 GTGCTGGGTTACGCTTTTTCATTTG-TTCGAAACAATCGAAGATCCCTTTGGAATTTCACTCACT
63 GTGCTGGGTTACAATTTCTCATTTGCTT-AAAACAATCAAAGATCCCTTCAAAATTTCACTCACG
*
78770047 TTTTC
127 GTTTC
* * * * * *
78770052 CAAAAACTCTTTAAAACGAAAGAAATGTTCGATGATTGGCAATTCGGGGAATAGTGCCCTATCGT
1 CAAAAACTCTTTAAAACGAAGGAGATGTTCAATGTTTGGCAATTC-TGGAATCGTGCCCTATCGT
78770117 GCTGGGT
65 GCTGGGT
78770124 CGCAATCTCC
Statistics
Matches: 274, Mismatches: 47, Indels: 25
0.79 0.14 0.07
Matches are distributed among these distances:
128 4 0.01
129 4 0.01
130 103 0.38
131 102 0.37
132 60 0.22
133 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (131 bp):
CAAAAACTCTTTAAAACGAAGGAGATGTTCAATGTTTGGCAATTCTGGAATCGTGCCCTATCGTG
CTGGGTTACAATTTCTCATTTGCTTAAAACAATCAAAGATCCCTTCAAAATTTCACTCACGGTTT
C
Found at i:78770168 original size:132 final size:131
Alignment explanation
Indices: 78769694--78770183 Score: 433
Period size: 132 Copynumber: 3.7 Consensus size: 131
78769684 GATTTGATAT
* * * *
78769694 TTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGT-GTTTGCTCAAAATAAT
1 TTGGCAATTCGGGGAATCGTGCCCTAACGTGCTGGGTCGCAATTTC-TCGTTTGTTCAAAATAAT
* * * * * * *
78769758 CGAATATCACTTCAAAATTTCACTTATGTCTTT--TAAAACCCCTT-AAACGAAGGCGATGTGCA
65 CGAATATCCCTTCAAAATTTCACTCAT-T-TTTCCAAAAACTCTTTAAAACGAAGGAGATGTTCA
78769820 AT-A
128 ATGA
* * *
78769823 TTTGGCAATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGCTT-AAAATAA
1 -TTGGCAATTCGGGGAATCGTGCCCTAACGTGCTGGGTCGCAATTTCTCGTTTG-TTCAAAATAA
* ** * *
78769887 TCAAATATCCCTTCAAAATTTCACTCAGGTTTCCTAAAAA-TCTTTCAAAACGAAGGTGATATTC
64 TCGAATATCCCTTCAAAATTTCACTCATTTTTCC-AAAAACTCTTT-AAAACGAAGGAGATGTTC
*
78769951 AATGT
127 AATGA
* * * * * * *
78769956 TTGGCAATT-TGAGAATCGTGCCCTATCGTGCTGGGTTACGC--TTTTTCATTTGTTCGAAACAA
1 TTGGCAATTCGGGGAATCGTGCCCTAACGTGCTGGG-T-CGCAATTTCTCGTTTGTTCAAAATAA
* *** * * *
78770018 TCGAAGATCCCTTTGGAATTTCACTCACTTTTTCCAAAAACTCTTTAAAACGAAAGAAATGTTCG
64 TCGAATATCCCTTCAAAATTTCACTCA-TTTTTCCAAAAACTCTTTAAAACGAAGGAGATGTTCA
78770083 ATGA
128 ATGA
* * * * *
78770087 TTGGCAATTCGGGGAATAGTGCCCTATCGTGCTGGGTCGCAATCTCCCGTTTGTTCAAAATAATT
1 TTGGCAATTCGGGGAATCGTGCCCTAACGTGCTGGGTCGCAATTTCTCGTTTGTTCAAAATAATC
* **
78770152 GAATATCTCTTCGGAATTTCACTCATGTTTTC
66 GAATATCCCTTCAAAATTTCACTCAT-TTTTC
78770184 TAAGGTGAGG
Statistics
Matches: 293, Mismatches: 50, Indels: 32
0.78 0.13 0.09
Matches are distributed among these distances:
128 3 0.01
129 1 0.00
130 89 0.30
131 95 0.32
132 103 0.35
133 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.34
Consensus pattern (131 bp):
TTGGCAATTCGGGGAATCGTGCCCTAACGTGCTGGGTCGCAATTTCTCGTTTGTTCAAAATAATC
GAATATCCCTTCAAAATTTCACTCATTTTTCCAAAAACTCTTTAAAACGAAGGAGATGTTCAATG
A
Found at i:78781773 original size:44 final size:44
Alignment explanation
Indices: 78781639--78782117 Score: 618
Period size: 44 Copynumber: 10.9 Consensus size: 44
78781629 AATCCTGCGA
* * * * *
78781639 ATTTGGCATCTCTGTGTTGACAGAGAGCAAATCGAAGATAACAG
1 ATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAG
* ** *
78781683 ATTTGGCATCTCTGTATTGTTAGAG-GTAGATCGAAGATAGCAG
1 ATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAG
* * *
78781726 ATTTGGTGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGTAG
1 ATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAG
* *
78781770 ATTTGGCGTCTCTGTATTGGCAGAGAGCATATCGAAGATAGTAG
1 ATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAG
* *
78781814 ATTTGGCGTCTCTGTATTGACAGAGAGCAGATCAAAGATAGCAG
1 ATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAG
* * * * *
78781858 ATTTGGCATCTCTGTGTTGACAGAGAGCAGATCAAAGATAACAG
1 ATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAG
* * *
78781902 ATTTGGCGTCTCTGTATTGGCGGGGAGCAGATCAAAGATAGCAG
1 ATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAG
*
78781946 ATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAG
1 ATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAG
* * *
78781990 ATTTGGCGTCTCTGTATTGGCAGAAAGCATATCAAAGATAGCAG
1 ATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAG
* ** * *
78782034 ATTTAGCGTCTCTGTATTGGTGGTGAGCAGATCAAAGATAGCAG
1 ATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAG
* * * *
78782078 ATTTAGCATCTCTATATTGACAGAGAGCAGATCGAAGATA
1 ATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
78782118 AGCAAGGAGC
Statistics
Matches: 386, Mismatches: 48, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
43 35 0.09
44 351 0.91
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (44 bp):
ATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAG
Found at i:78781907 original size:132 final size:132
Alignment explanation
Indices: 78781639--78782658 Score: 984
Period size: 132 Copynumber: 7.9 Consensus size: 132
78781629 AATCCTGCGA
* * * * * * **
78781639 ATTTGGCATCTCTGTGTTGACAGAGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTATTGTT
1 ATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGAC
* ** * * *
78781704 AGAG-GTAGATCGAAGATAGCAGATTTGGTGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGT
66 AGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATAGC
78781768 AG
131 AG
* *
78781770 ATTTGGCGTCTCTGTATTGGCAGAGAGCATATCGAAGATAGTAGATTTGGCGTCTCTGTATTGAC
1 ATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGAC
* * * *
78781835 AGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTGTTGACAGAGAGCAGATCAAAGATAAC
66 AGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATAGC
78781900 AG
131 AG
* * * *
78781902 ATTTGGCGTCTCTGTATTGGCGGGGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATTGGC
1 ATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGAC
* * * *
78781967 GGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCAGAAAGCATATCAAAGATAGC
66 AGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATAGC
78782032 AG
131 AG
* ** * * * * *
78782034 ATTTAGCGTCTCTGTATTGGTGGTGAGCAGATCAAAGATAGCAGATTTAGCATCTCTATATTGAC
1 ATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGAC
* * * * * * *** * *
78782099 AGAGAGCAGATCGAAGATAAGCA-A---GG-A--GCAG-A-TCGAAGATAGCAAAT-TTGGCGTC
66 AGAGAGCAGATCGAAGAT-AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAG-ATA
* *
78782154 TCTG
129 GCAG
* ** * * * * * *
78782158 TATTAGTGGAG-AGCAG-A-TCGAAGATAGCAGATT--------------TGGCATCTCTGTATT
1 -ATT--TGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATT
* * * * * *
78782206 GGCAGAAAGTAAATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGAT
63 GACAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGAT
78782271 AGCAG
128 AGCAG
* * *
78782276 ATTTGGCGTCTCTGTATTGGCAGAGAACAGATCGTAGATAGCAGATTTGGCGTCTCTGTATTGGC
1 ATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGAC
* * * * *
78782341 -GAAGAGCAGATCAAAGATATCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCAAAGATAA
66 AG-AGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATAG
78782405 CAG
130 CAG
* * **
78782408 ATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGATAGCAAATTTGGCGTCTCTGTATTGGT
1 ATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGAC
* * * *
78782473 GGAGAGTAGATCGAAGATAGCAGATTTGGTATCTCTGTATTGGCGGAGAGCAGATCAAAGATAGC
66 AGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATAGC
78782538 AG
131 AG
* ** * * *
78782540 ATTTGGCATCTCTGTATTGTTAGAGGGCAGATCGAAGATAGCAGATTTGGCATCTCTGTGTTGAC
1 ATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGAC
*
78782605 AGAGAGCAGATCGAAGAT-GACAGATTTGGCATCTCTATATTGGCAGAGAGCAGA
66 AGAGAGCAGATCGAAGATAG-CAGATTTGGCATCTCTGTATTGGCAGAGAGCAGA
78782659 ACGAAAATAA
Statistics
Matches: 723, Mismatches: 130, Indels: 71
0.78 0.14 0.08
Matches are distributed among these distances:
109 4 0.01
110 31 0.04
113 2 0.00
115 4 0.01
116 4 0.01
117 5 0.01
118 25 0.03
119 1 0.00
123 1 0.00
124 24 0.03
125 5 0.01
126 4 0.01
127 3 0.00
129 2 0.00
131 62 0.09
132 541 0.75
133 5 0.01
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.27
Consensus pattern (132 bp):
ATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGAC
AGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATAGC
AG
Found at i:78782130 original size:22 final size:21
Alignment explanation
Indices: 78782102--78782143 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 21
78782092 TATTGACAGA
78782102 GAGCAGATCGAAGATAAGCAAG
1 GAGCAGATCGAAGAT-AGCAAG
78782124 GAGCAGATCGAAGATAGCAA
1 GAGCAGATCGAAGATAGCAA
78782144 ATTTGGCGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.45, C:0.14, G:0.31, T:0.10
Consensus pattern (21 bp):
GAGCAGATCGAAGATAGCAAG
Found at i:78782138 original size:66 final size:66
Alignment explanation
Indices: 78782058--78782183 Score: 173
Period size: 66 Copynumber: 1.9 Consensus size: 66
78782048 TATTGGTGGT
*
78782058 GAGCAGATCAAAGATAGCAGATTTAGCATCTCTATATT-GACAGAGAGCAGATCGAAGATAAGCA
1 GAGCAGATCAAAGATAGCAAATTTAGCATCTCTATATTAG-CAGAGAGCAGATCGAAGATAAGCA
78782122 AG
65 AG
* * * * **
78782124 GAGCAGATCGAAGATAGCAAATTTGGCGTCTCTGTATTAGTGGAGAGCAGATCGAAGATA
1 GAGCAGATCAAAGATAGCAAATTTAGCATCTCTATATTAGCAGAGAGCAGATCGAAGATA
78782184 GCAGATTTGG
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
66 51 0.98
67 1 0.02
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.21
Consensus pattern (66 bp):
GAGCAGATCAAAGATAGCAAATTTAGCATCTCTATATTAGCAGAGAGCAGATCGAAGATAAGCAA
G
Found at i:78782222 original size:110 final size:110
Alignment explanation
Indices: 78782015--78782227 Score: 309
Period size: 110 Copynumber: 1.9 Consensus size: 110
78782005 ATTGGCAGAA
* * * *
78782015 AGCATATCAAAGATAGCAGATTTAGCGTCTCTGTATTGGTGGTGAGCAGATCAAAGATAGCAGAT
1 AGCAGATCAAAGATAGCAAATTTAGCGTCTCTGTATTAGTGGAGAGCAGATCAAAGATAGCAGAT
* *
78782080 TTAGCATCTCTATATTGACAGAGAGCAGATCGAAGATAAGCAAGG
66 TTAGCATCTCTATATTGACAGAAAGCAAATCGAAGATAAGCAAGG
* * *
78782125 AGCAGATCGAAGATAGCAAATTTGGCGTCTCTGTATTAGTGGAGAGCAGATCGAAGATAGCAGAT
1 AGCAGATCAAAGATAGCAAATTTAGCGTCTCTGTATTAGTGGAGAGCAGATCAAAGATAGCAGAT
* * * *
78782190 TTGGCATCTCTGTATTGGCAGAAAGTAAATCGAAGATA
66 TTAGCATCTCTATATTGACAGAAAGCAAATCGAAGATA
78782228 GCAGATTTGG
Statistics
Matches: 90, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
110 90 1.00
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.25
Consensus pattern (110 bp):
AGCAGATCAAAGATAGCAAATTTAGCGTCTCTGTATTAGTGGAGAGCAGATCAAAGATAGCAGAT
TTAGCATCTCTATATTGACAGAAAGCAAATCGAAGATAAGCAAGG
Found at i:78782250 original size:154 final size:154
Alignment explanation
Indices: 78781970--78782271 Score: 424
Period size: 154 Copynumber: 2.0 Consensus size: 154
78781960 TATTGGCGGA
* * *
78781970 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCAGAAAGCATATCAAAGATAGCAGA
1 GAGCAGATCGAAGATAGCAAATTTGGCGTCTCTGTATTAGCAGAAAGCAGATCAAAGATAGCAGA
* ** ** *
78782035 TTTAGCGTCTCTGTATTGGTGGTGAGCAGATCAAAGATAGCAGATTTAGCATCTCTATATTGACA
66 TTTAGCATCTCTGTATTGGCAGAAAGCAAATCAAAGATAGCAGATTTAGCATCTCTATATTGACA
78782100 GAGAGCAGATCGAAGATAAGCAAG
131 GAGAGCAGATCGAAGATAAGCAAG
** * *
78782124 GAGCAGATCGAAGATAGCAAATTTGGCGTCTCTGTATTAGTGGAGAGCAGATCGAAGATAGCAGA
1 GAGCAGATCGAAGATAGCAAATTTGGCGTCTCTGTATTAGCAGAAAGCAGATCAAAGATAGCAGA
* * * * * * *
78782189 TTTGGCATCTCTGTATTGGCAGAAAGTAAATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCA
66 TTTAGCATCTCTGTATTGGCAGAAAGCAAATCAAAGATAGCAGATTTAGCATCTCTATATTGACA
78782254 GAGAGCAGATCGAAGATA
131 GAGAGCAGATCGAAGATA
78782272 GCAGATTTGG
Statistics
Matches: 128, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
154 128 1.00
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.25
Consensus pattern (154 bp):
GAGCAGATCGAAGATAGCAAATTTGGCGTCTCTGTATTAGCAGAAAGCAGATCAAAGATAGCAGA
TTTAGCATCTCTGTATTGGCAGAAAGCAAATCAAAGATAGCAGATTTAGCATCTCTATATTGACA
GAGAGCAGATCGAAGATAAGCAAG
Found at i:78782674 original size:44 final size:44
Alignment explanation
Indices: 78782124--78782663 Score: 742
Period size: 44 Copynumber: 12.3 Consensus size: 44
78782114 GATAAGCAAG
* * **
78782124 GAGCAGATCGAAGATAGCAAATTTGGCGTCTCTGTATTAGTGGA
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCAGA
*
78782168 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGGCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCAGA
* * *
78782212 AAGTAAATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCAGA
78782256 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCAGA
* *
78782300 GAACAGATCGTAGATAGCAGATTTGGCGTCTCTGTATTGGC-GAA
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCAG-A
* * *
78782344 GAGCAGATCAAAGATATCAGATTTGGCGTCTCTGTATTGGCGGA
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCAGA
* * *
78782388 GAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTATTGGCAGG
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCAGA
* **
78782432 GAGCAGATCGAAGATAGCAAATTTGGCGTCTCTGTATTGGTGGA
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCAGA
* ** *
78782476 GAGTAGATCGAAGATAGCAGATTTGGTATCTCTGTATTGGCGGA
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCAGA
* * **
78782520 GAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTGTTAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCAGA
* * * *
78782564 GGGCAGATCGAAGATAGCAGATTTGGCATCTCTGTGTTGACAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCAGA
* *
78782608 GAGCAGATCGAAGAT-GACAGATTTGGCATCTCTATATTGGCAGA
1 GAGCAGATCGAAGATAG-CAGATTTGGCGTCTCTGTATTGGCAGA
*
78782652 GAGCAGAACGAA
1 GAGCAGATCGAA
78782664 AATAATAGAT
Statistics
Matches: 445, Mismatches: 48, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
43 2 0.00
44 442 0.99
45 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (44 bp):
GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCAGA
Found at i:78785849 original size:130 final size:131
Alignment explanation
Indices: 78785614--78785916 Score: 391
Period size: 130 Copynumber: 2.3 Consensus size: 131
78785604 ACGAGATTTG
*
78785614 ATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGTGTTTGCTCAAAAT
1 ATATTTGGCAATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGTGTTTGCTCAAAAT
* * * * * *
78785679 AATCGAATATCACTTCAAAATTTCACTTATGTCTTTTAAAACCCCTT-AAACGAAGGCGATGTGC
66 AATCAAATATCACTTCAAAATTTCACTCAGGTCTTCTAAAAACCCTTAAAACGAAGGCGATATGC
78785743 A
131 A
*
78785744 ATATTTGGCAATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTC-TCGTTTGCTTAAAA
1 ATATTTGGCAATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGT-GTTTGCTCAAAA
* * * *
78785808 TAATCAAATATCCCTTCAAAATTTCACTCAGGT-TTCCTAAAAATCTTTCAAAACGAAGGTGATA
65 TAATCAAATATCACTTCAAAATTTCACTCAGGTCTT-CTAAAAACCCTT-AAAACGAAGGCGATA
*
78785872 TTCA
128 TGCA
* * *
78785876 ATGTTTGGCAATT--TGAGAATCGTGCCCTATCGTGCTGGGTT
1 ATATTTGGCAATTCGTG-GAATCGTGCCCTAACGTGTTGGGTT
78785917 ACGCTTTTTC
Statistics
Matches: 152, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
129 3 0.02
130 99 0.65
131 23 0.15
132 27 0.18
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (131 bp):
ATATTTGGCAATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGTGTTTGCTCAAAAT
AATCAAATATCACTTCAAAATTTCACTCAGGTCTTCTAAAAACCCTTAAAACGAAGGCGATATGC
A
Found at i:78785952 original size:131 final size:131
Alignment explanation
Indices: 78785583--78786047 Score: 338
Period size: 130 Copynumber: 3.5 Consensus size: 131
78785573 TATAATCATT
* * * * * *
78785583 CAAAAATTCTTTAAAAAGAAGACGAGAT-TT-GATATTTGGCAATTCGCGGAATCGTGCCCTAAC
1 CAAAAACTCTTTAAAACGAAG--GAGATGTTCAATGTTTGGCAATTC-TGGAATCGTGCCCTATC
* * * * * * * * * *
78785646 GTGTTGGGTTGCAATTTCGT-GTTTGCTCAAAATAATCGAATATCACTTCAAAATTTCACTTA-T
63 GTGCTGGGTTACAATTTC-TCATTTGCTTAAAACAATCAAAGATCCCTTCAAAATTTCACTCACG
78785709 GTCTT-
127 GT-TTC
** * * * * * *
78785714 TTAAAACCCCTT-AAACGAAGGCGATGTGCAATATTTGGCAATTCGTGGAATCGTGCCCTAACGT
1 CAAAAACTCTTTAAAACGAAGGAGATGTTCAATGTTTGGCAATTC-TGGAATCGTGCCCTATCGT
* * * * *
78785778 GTTGGGTTGCAATTTCTCGTTTGCTTAAAATAATCAAATATCCCTTCAAAATTTCACTCA-GGTT
65 GCTGGGTTACAATTTCTCATTTGCTTAAAACAATCAAAGATCCCTTCAAAATTTCACTCACGGTT
78785842 TC
130 TC
* *
78785844 CTAAAAA-TCTTTCAAAACGAAGGTGATATTCAATGTTTGGCAATT-TGAGAATCGTGCCCTATC
1 C-AAAAACTCTTT-AAAACGAAGGAGATGTTCAATGTTTGGCAATTCTG-GAATCGTGCCCTATC
** * * * *** *
78785907 GTGCTGGGTTACGCTTTTTCATTTG-TTCGAAACAATCGAAGATCCCTTTGGAATTTCACTCACT
63 GTGCTGGGTTACAATTTCTCATTTGCTT-AAAACAATCAAAGATCCCTTCAAAATTTCACTCACG
*
78785971 TTTTC
127 GTTTC
* * * * * *
78785976 CAAAAACTCTTTAAAACGAAAGAAATGTTCGATGATTGGCAATTCGGGGAATAGTGCCCTATCGT
1 CAAAAACTCTTTAAAACGAAGGAGATGTTCAATGTTTGGCAATTC-TGGAATCGTGCCCTATCGT
78786041 GCTGGGT
65 GCTGGGT
78786048 CGCAATCTCC
Statistics
Matches: 274, Mismatches: 47, Indels: 25
0.79 0.14 0.07
Matches are distributed among these distances:
128 4 0.01
129 4 0.01
130 103 0.38
131 102 0.37
132 60 0.22
133 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (131 bp):
CAAAAACTCTTTAAAACGAAGGAGATGTTCAATGTTTGGCAATTCTGGAATCGTGCCCTATCGTG
CTGGGTTACAATTTCTCATTTGCTTAAAACAATCAAAGATCCCTTCAAAATTTCACTCACGGTTT
C
Found at i:78786107 original size:132 final size:133
Alignment explanation
Indices: 78785618--78786107 Score: 434
Period size: 132 Copynumber: 3.7 Consensus size: 133
78785608 GATTTGATAT
* * * *
78785618 TTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGT-GTTTGCTCAAAATAAT
1 TTGGCAATTCGGGGAATCGTGCCCTAACGTGCTGGGTCGCAATTTC-TCGTTTGTTCAAAATAAT
* * * * * * *
78785682 CGAATATCACTTCAAAATTTCACTTA-TGTCTTT--TAAAACCCCTT-AAACGAAGGCGATGTGC
65 CGAATATCCCTTCAAAATTTCACTCAGTGT-TTTCCAAAAACTCTTTAAAACGAAGGAGATGTTC
78785743 AAT-A
129 AATGA
* * *
78785747 TTTGGCAATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGCTT-AAAATAA
1 -TTGGCAATTCGGGGAATCGTGCCCTAACGTGCTGGGTCGCAATTTCTCGTTTG-TTCAAAATAA
* * *
78785811 TCAAATATCCCTTCAAAATTTCACTCAG-G-TTTCCTAAAAA-TCTTTCAAAACGAAGGTGATAT
64 TCGAATATCCCTTCAAAATTTCACTCAGTGTTTTCC-AAAAACTCTTT-AAAACGAAGGAGATGT
*
78785873 TCAATGT
127 TCAATGA
* * * * * * *
78785880 TTGGCAATT-TGAGAATCGTGCCCTATCGTGCTGGGTTACGC--TTTTTCATTTGTTCGAAACAA
1 TTGGCAATTCGGGGAATCGTGCCCTAACGTGCTGGG-T-CGCAATTTCTCGTTTGTTCAAAATAA
* *** * * *
78785942 TCGAAGATCCCTTTGGAATTTCACTCACT-TTTTCCAAAAACTCTTTAAAACGAAAGAAATGTTC
64 TCGAATATCCCTTCAAAATTTCACTCAGTGTTTTCCAAAAACTCTTTAAAACGAAGGAGATGTTC
*
78786006 GATGA
129 AATGA
* * * * *
78786011 TTGGCAATTCGGGGAATAGTGCCCTATCGTGCTGGGTCGCAATCTCCCGTTTGTTCAAAATAATT
1 TTGGCAATTCGGGGAATCGTGCCCTAACGTGCTGGGTCGCAATTTCTCGTTTGTTCAAAATAATC
* **
78786076 GAATATCTCTTCGGAATTTCACTC-GTGTTTTC
66 GAATATCCCTTCAAAATTTCACTCAGTGTTTTC
78786108 TAAGGTGAGG
Statistics
Matches: 293, Mismatches: 48, Indels: 36
0.78 0.13 0.10
Matches are distributed among these distances:
128 3 0.01
129 1 0.00
130 90 0.31
131 95 0.32
132 102 0.35
133 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.34
Consensus pattern (133 bp):
TTGGCAATTCGGGGAATCGTGCCCTAACGTGCTGGGTCGCAATTTCTCGTTTGTTCAAAATAATC
GAATATCCCTTCAAAATTTCACTCAGTGTTTTCCAAAAACTCTTTAAAACGAAGGAGATGTTCAA
TGA
Found at i:78788762 original size:22 final size:22
Alignment explanation
Indices: 78788723--78788765 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
78788713 CCTTTATGTT
*
78788723 GGTCACTTGTCTTCGAGGACAA
1 GGTCACGTGTCTTCGAGGACAA
78788745 GGTCACGTGATCTT-GAGGACA
1 GGTCACGTG-TCTTCGAGGACA
78788766 TGTTTAGCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (22 bp):
GGTCACGTGTCTTCGAGGACAA
Found at i:78808702 original size:15 final size:16
Alignment explanation
Indices: 78808676--78808706 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
78808666 AACAAATAAT
78808676 ATAAAAATATTTAAAA
1 ATAAAAATATTTAAAA
78808692 ATAAAAA-ATTTAAAA
1 ATAAAAATATTTAAAA
78808707 TTTTAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
ATAAAAATATTTAAAA
Found at i:78816754 original size:18 final size:18
Alignment explanation
Indices: 78816720--78816786 Score: 77
Period size: 18 Copynumber: 3.9 Consensus size: 18
78816710 AAAATGTGAG
* * *
78816720 AAATGATATTTACATTTT
1 AAATGATGTTCACATTTC
*
78816738 AAATGATGTTCAGATTTC
1 AAATGATGTTCACATTTC
78816756 AAATGA---TCACATTTC
1 AAATGATGTTCACATTTC
78816771 AAATGATGTTCACATT
1 AAATGATGTTCACATT
78816787 GATGGAAACG
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
15 14 0.34
18 27 0.66
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.40
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:78817328 original size:72 final size:71
Alignment explanation
Indices: 78817211--78817522 Score: 358
Period size: 72 Copynumber: 4.3 Consensus size: 71
78817201 CAATGCTAAA
* * *
78817211 CTAGTTTTATCAATAGTTATTTATGTTTGGTTTTCAGAA-ATTGAATTTATGTTCTACTTATCTA
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTT-TGAATATTGAATTTATGTTCTACTTATTTA
78817275 TGTGTAAT
65 TGT-TAAT
* ** *
78817283 CTAGTTTTATCAATGGTTGTTTATGTTTGGTTTTTGAATATTGAATTTACATTCTATTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGAATATTGAATTTATGTTCTACTTATTTAT
*
78817348 GGATAAT
66 -GTTAAT
* * * * *
78817355 CTAGTTTTATCAATAGTTGTTTATGTTTAGTCTTTGGATATTGAATTTATGGTCTAATTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGAATATTGAATTTATGTTCTACTTATTTAT
**
78817420 GCTTAGGG
66 G-TTA-AT
* ** * *
78817428 CTAGTTTTATCAATAATTGTTTATGTTTGACTTTTGGATATTAAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGAATATTGAATTTATGTTCTACTTATTTAT
* *
78817493 ACTAAAT
66 -GTTAAT
78817500 -TAGTTTTATCAATAGTTGTTTAT
1 CTAGTTTTATCAATAGTTGTTTAT
78817523 ATATGATTTT
Statistics
Matches: 203, Mismatches: 32, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
71 26 0.13
72 117 0.58
73 60 0.30
ACGTcount: A:0.26, C:0.07, G:0.14, T:0.53
Consensus pattern (71 bp):
CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGAATATTGAATTTATGTTCTACTTATTTAT
GTTAAT
Found at i:78818131 original size:15 final size:15
Alignment explanation
Indices: 78818107--78818139 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
78818097 AAGGTTAAAA
78818107 TTTAATTTT-ATATT
1 TTTAATTTTAATATT
78818121 TTTATATTTTAATATT
1 TTTA-ATTTTAATATT
78818137 TTT
1 TTT
78818140 GGTCGACTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 5 0.29
16 8 0.47
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTAATTTTAATATT
Found at i:78819585 original size:27 final size:27
Alignment explanation
Indices: 78819537--78819695 Score: 141
Period size: 27 Copynumber: 5.9 Consensus size: 27
78819527 GCGAGGCTGC
* *
78819537 CAGATATTGT-GACGAAGTCACCAGATA
1 CAGATATTGTGGAAG-AGCCACCAGATA
78819564 CAGATATTGTGGAAGAGCCACCAGA-A
1 CAGATATTGTGGAAGAGCCACCAGATA
*
78819590 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGAAGAGCCACCAGATA
* * *
78819617 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGAAGAGCCACCAGATA
*
78819644 CAGATATATGTGGCAA-AGCCACTAGAT-
1 CAGATAT-TGTGG-AAGAGCCACCAGATA
* *
78819671 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGAAGAGCCACCAG
78819696 GACGCTTCCT
Statistics
Matches: 112, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
26 11 0.10
27 93 0.83
28 8 0.07
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGAAGAGCCACCAGATA
Found at i:78819696 original size:54 final size:54
Alignment explanation
Indices: 78819537--78819698 Score: 229
Period size: 54 Copynumber: 3.0 Consensus size: 54
78819527 GCGAGGCTGC
* * * * * *
78819537 CAGATAT-TGTGACGAAGTCACCAGATACAGAT-ATTGTGGAAGAGCCACCAGAA
1 CAGATATATGTGGCAAAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGGA
*
78819590 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
*
78819644 CAGATATATGTGGCAAAGCCACTAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
78819698 C
1 C
78819699 GCTTCCTCCA
Statistics
Matches: 98, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
53 12 0.12
54 86 0.88
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (54 bp):
CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
Found at i:78819828 original size:26 final size:27
Alignment explanation
Indices: 78819799--78819874 Score: 100
Period size: 26 Copynumber: 2.8 Consensus size: 27
78819789 CAAAATTAAC
*
78819799 CCTAGGGGTATAATAGTAATTTTGC-A
1 CCTAGGGGTATAATAGTAATTTTCCAA
*
78819825 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATAATAGTAATTTTCCA-A
* *
78819853 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATAATAGTAATTT
78819875 AGCTGATTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 23 0.53
28 20 0.47
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.36
Consensus pattern (27 bp):
CCTAGGGGTATAATAGTAATTTTCCAA
Found at i:78821346 original size:26 final size:26
Alignment explanation
Indices: 78821315--78821422 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
78821305 TGAAATGTCC
*
78821315 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
78821341 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
78821367 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
78821393 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
78821419 ATCA
1 ATCA
78821423 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:78822515 original size:20 final size:21
Alignment explanation
Indices: 78822464--78822520 Score: 55
Period size: 24 Copynumber: 2.6 Consensus size: 21
78822454 TTAAATTTAA
*
78822464 TAAATAATTAATATTAATTACT
1 TAAAT-ATTAAAATTAATTACT
78822486 TAGAATTATTTAAAATTAA-TA-T
1 TA-AA-TA-TTAAAATTAATTACT
78822508 TAAATATTAAAAT
1 TAAATATTAAAAT
78822521 ATTAACAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
19 7 0.23
20 2 0.06
21 2 0.06
22 5 0.16
23 5 0.16
24 10 0.32
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (21 bp):
TAAATATTAAAATTAATTACT
Found at i:78822717 original size:13 final size:13
Alignment explanation
Indices: 78822701--78822753 Score: 61
Period size: 13 Copynumber: 4.1 Consensus size: 13
78822691 TTTAAACCAA
*
78822701 ACTTTTCAAAAGC
1 ACTTCTCAAAAGC
*
78822714 ACTTCCCAAAAGC
1 ACTTCTCAAAAGC
* * *
78822727 ACTTTTCCACAGC
1 ACTTCTCAAAAGC
78822740 ACTTCTCAAAAGC
1 ACTTCTCAAAAGC
78822753 A
1 A
78822754 TTGCCAAACT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.36, C:0.32, G:0.08, T:0.25
Consensus pattern (13 bp):
ACTTCTCAAAAGC
Found at i:78822730 original size:26 final size:26
Alignment explanation
Indices: 78822701--78822753 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
78822691 TTTAAACCAA
78822701 ACTTTTCAAAAGCACTTCCCAAAAGC
1 ACTTTTCAAAAGCACTTCCCAAAAGC
* * *
78822727 ACTTTTCCACAGCACTTCTCAAAAGC
1 ACTTTTCAAAAGCACTTCCCAAAAGC
78822753 A
1 A
78822754 TTGCCAAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.36, C:0.32, G:0.08, T:0.25
Consensus pattern (26 bp):
ACTTTTCAAAAGCACTTCCCAAAAGC
Found at i:78824985 original size:16 final size:17
Alignment explanation
Indices: 78824954--78824986 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
78824944 TGTAATACAT
78824954 ATATTTTTTATTTAATAG
1 ATATTTTTTA-TTAATAG
78824972 ATATTTTTTA-TAATA
1 ATATTTTTTATTAATA
78824987 TTATATAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
18 10 0.67
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
ATATTTTTTATTAATAG
Found at i:78839594 original size:27 final size:27
Alignment explanation
Indices: 78839555--78839623 Score: 111
Period size: 27 Copynumber: 2.6 Consensus size: 27
78839545 TTTAATGGGT
*
78839555 TTCTGGTGTGTTTGGGAGGATTATTTA
1 TTCTGGTGTGTTTGGGAGGATTATGTA
*
78839582 TTCTGGTGCGTTTGGGAGGATTATGTA
1 TTCTGGTGTGTTTGGGAGGATTATGTA
*
78839609 TTCTTGTGTGTTTGG
1 TTCTGGTGTGTTTGG
78839624 TTGGAATCCG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.12, C:0.06, G:0.35, T:0.48
Consensus pattern (27 bp):
TTCTGGTGTGTTTGGGAGGATTATGTA
Found at i:78841588 original size:49 final size:50
Alignment explanation
Indices: 78841464--78841595 Score: 155
Period size: 50 Copynumber: 2.7 Consensus size: 50
78841454 TATGAGATGT
* *
78841464 GTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACGAATATGTGAGA
1 GTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACCAATATGTAAGA
* * *
78841514 G-CTAGTGTAAGACCATGTTTAGGACATGGCGTCGGC-CTCAAT-T-TCAATA
1 GTC-AGTGTAAGACCATGTCTAGGACATGGCATCGGCAC-CAATATGT-AAGA
*
78841563 GTCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GTCAGTGTAAGACCATGTCTAGGACATGGCATC
78841596 CACTTGATGG
Statistics
Matches: 70, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
48 1 0.01
49 33 0.47
50 36 0.51
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (50 bp):
GTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACCAATATGTAAGA
Found at i:78844765 original size:23 final size:23
Alignment explanation
Indices: 78844733--78844776 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
78844723 GACTCACACG
* *
78844733 CGCTATGTTAGTCCTAGAATCAA
1 CGCTACGTTAGTCCTAAAATCAA
78844756 CGCTACGTTAGTCCTAAAATC
1 CGCTACGTTAGTCCTAAAATC
78844777 GACTAAATCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (23 bp):
CGCTACGTTAGTCCTAAAATCAA
Found at i:78847488 original size:27 final size:26
Alignment explanation
Indices: 78847457--78847567 Score: 114
Period size: 27 Copynumber: 4.1 Consensus size: 26
78847447 TGGCTGCCAA
* * *
78847457 AACAGGTATTGTGACAAAGTCACCAG
1 AACAGATATTGTGGCAAAGCCACCAG
*
78847483 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAAAGCCACCAG
*
78847510 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAAAGCCACCAG
** *
78847537 AAACAGATATTTGTGGCGTAGCCACTAG
1 -AACAGATA-TTGTGGCAAAGCCACCAG
78847565 AAC
1 AAC
78847568 GCTTCCTCTA
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 8 0.11
27 42 0.56
28 25 0.33
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (26 bp):
AACAGATATTGTGGCAAAGCCACCAG
Found at i:78847550 original size:28 final size:28
Alignment explanation
Indices: 78847477--78847566 Score: 130
Period size: 28 Copynumber: 3.3 Consensus size: 28
78847467 GTGACAAAGT
* *
78847477 CACCAGATACAGATA-TTGTGGCAGAGC
1 CACCAGAAACAGATATTTGTGGCATAGC
78847504 CACCAG-AACAGATATTTGTGGCATAGC
1 CACCAGAAACAGATATTTGTGGCATAGC
*
78847531 CACCAGAAACAGATATTTGTGGCGTAGC
1 CACCAGAAACAGATATTTGTGGCATAGC
*
78847559 CACTAGAA
1 CACCAGAA
78847567 CGCTTCCTCT
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
26 7 0.12
27 23 0.40
28 27 0.47
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.20
Consensus pattern (28 bp):
CACCAGAAACAGATATTTGTGGCATAGC
Found at i:78847697 original size:27 final size:26
Alignment explanation
Indices: 78847667--78847732 Score: 89
Period size: 26 Copynumber: 2.5 Consensus size: 26
78847657 GTCAAAATTA
78847667 ACCTTAGGGGTATAATGGTAATTTTGC
1 ACCTTAGGGGTATAATGGTAATTTT-C
*
78847694 ACC-TAAGGGTATAATGGTAATTTTC
1 ACCTTAGGGGTATAATGGTAATTTTC
*
78847719 ATACTTAGGGGTAT
1 A-CCTTAGGGGTAT
78847733 TTAGTAAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 2 0.06
26 21 0.62
27 11 0.32
ACGTcount: A:0.29, C:0.11, G:0.24, T:0.36
Consensus pattern (26 bp):
ACCTTAGGGGTATAATGGTAATTTTC
Found at i:78848677 original size:17 final size:16
Alignment explanation
Indices: 78848651--78848683 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
78848641 GGGTTCGGCT
78848651 ATGGAGAAAAGAAAAG
1 ATGGAGAAAAGAAAAG
78848667 ATGGAAGAAAAGAAAAG
1 ATGG-AGAAAAGAAAAG
78848684 GTGAGAAGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.64, C:0.00, G:0.30, T:0.06
Consensus pattern (16 bp):
ATGGAGAAAAGAAAAG
Found at i:78854731 original size:20 final size:20
Alignment explanation
Indices: 78854706--78854745 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
78854696 ACAACCATTG
78854706 CCACACTTTAACTGAGTGTT
1 CCACACTTTAACTGAGTGTT
78854726 CCACACTTTAACTGAGTGTT
1 CCACACTTTAACTGAGTGTT
78854746 TGTTCATGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (20 bp):
CCACACTTTAACTGAGTGTT
Found at i:78855413 original size:27 final size:26
Alignment explanation
Indices: 78855373--78855487 Score: 104
Period size: 27 Copynumber: 4.3 Consensus size: 26
78855363 AGCATGGCTG
* *
78855373 CCAGAACAGGTATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
*
78855399 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
* *
78855426 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCA
* * * *
78855453 CTAGAAACAAATATTTGTGGCATAGCCA
1 CCAG-AACAGATA-TTGTGACAGAGCCA
*
78855481 CTAGAAC
1 CCAGAAC
78855488 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 12 0.15
27 42 0.52
28 26 0.32
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.21
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:78855470 original size:28 final size:28
Alignment explanation
Indices: 78855412--78855486 Score: 116
Period size: 28 Copynumber: 2.7 Consensus size: 28
78855402 GATACAGATA
* * *
78855412 TTGTGGCAGAGCCACCAG-AACAGATAT
1 TTGTGGCATAGCCACTAGAAACAAATAT
78855439 TTGTGGCATAGCCACTAGAAACAAATAT
1 TTGTGGCATAGCCACTAGAAACAAATAT
78855467 TTGTGGCATAGCCACTAGAA
1 TTGTGGCATAGCCACTAGAA
78855487 CGCTTCCTCC
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
27 16 0.36
28 28 0.64
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.23
Consensus pattern (28 bp):
TTGTGGCATAGCCACTAGAAACAAATAT
Done.