Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 45 of 216
Found at i:12896587 original size:86 final size:86
Alignment explanation
Indices: 12896328--12896597 Score: 347
Period size: 86 Copynumber: 3.2 Consensus size: 86
12896318 TTTGTGAAAC
*
12896328 AAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCA-TTTTTGAAC-AAGCGCCGCTAAAGAACAT
1 AAGCGCCGCTAAAGAA-AATGATC-TTTAGCGGCATTTTTTG--CTAAGCGCCGCTAAAGAACAT
*
12896389 GATCTTTAGCGGC-ATTTTTTC-CT
62 GATCTTTAGCGGCGTTTTTTTCTCT
* * * *
12896412 AAGCGCCGCTAAAGAACATGATCTTTTGCGACATTTTTTTCTAAGCGCCGCTAAAGAACATGATC
1 AAGCGCCGCTAAAGAAAATGATCTTTAGCGGCATTTTTTGCTAAGCGCCGCTAAAGAACATGATC
*
12896477 TTTTGCGGCGTTTTTTT-TCCT
66 TTTAGCGGCGTTTTTTTCT-CT
*
12896498 AAGCACCGCTAAAGAAAATGATCTTTAGCGGCATTTTTTGCTAAGCGCCGCTAAAGAACATGATC
1 AAGCGCCGCTAAAGAAAATGATCTTTAGCGGCATTTTTTGCTAAGCGCCGCTAAAGAACATGATC
* *
12896563 TTTAGTGGCGTTTTTTTCTGT
66 TTTAGCGGCGTTTTTTTCTCT
*
12896584 AAGCGCCGCAAAAG
1 AAGCGCCGCTAAAG
12896598 TTAGCGACGT
Statistics
Matches: 161, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
83 2 0.01
84 56 0.35
85 12 0.07
86 90 0.56
87 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (86 bp):
AAGCGCCGCTAAAGAAAATGATCTTTAGCGGCATTTTTTGCTAAGCGCCGCTAAAGAACATGATC
TTTAGCGGCGTTTTTTTCTCT
Found at i:12897303 original size:25 final size:25
Alignment explanation
Indices: 12897187--12897299 Score: 86
Period size: 25 Copynumber: 4.5 Consensus size: 25
12897177 GACACACCAC
** **
12897187 AGCTCGTATGAGCTTACTAATTTGT
1 AGCTCGTATGAGCTTACCGATTCAT
12897212 AGCTCGTGA-GAGCTTACCGATTC-T
1 AGCTCGT-ATGAGCTTACCGATTCAT
* * * *
12897236 CAGCTCATATTAGCTTACCGATTTAC
1 -AGCTCGTATGAGCTTACCGATTCAT
* * * *
12897262 AACTCGTAAGAGCATACTGATTCAT
1 AGCTCGTATGAGCTTACCGATTCAT
12897287 AGCTCGTATGAGC
1 AGCTCGTATGAGC
12897300 ATACATGTAC
Statistics
Matches: 67, Mismatches: 17, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
24 2 0.03
25 64 0.96
26 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (25 bp):
AGCTCGTATGAGCTTACCGATTCAT
Found at i:12902560 original size:32 final size:32
Alignment explanation
Indices: 12902519--12902583 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
12902509 GTCGTCTGAC
12902519 CCCTAAAGTGAAATTTTTAGTTTTTCCCTAAA
1 CCCTAAAGTGAAATTTTTAGTTTTTCCCTAAA
12902551 CCCTAAAGTGAAATTTTTAGTTTTTCCCTAAA
1 CCCTAAAGTGAAATTTTTAGTTTTTCCCTAAA
12902583 C
1 C
12902584 TTTCTAATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (32 bp):
CCCTAAAGTGAAATTTTTAGTTTTTCCCTAAA
Found at i:12915437 original size:17 final size:18
Alignment explanation
Indices: 12915400--12915442 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
12915390 TTTATTTTTT
12915400 TTGTTT-TTTTTTGCTGC
1 TTGTTTGTTTTTTGCTGC
12915417 TTGTTTGTTTGTTTGC-G-
1 TTGTTTGTTT-TTTGCTGC
12915434 TTGTTTGTT
1 TTGTTTGTT
12915443 CGTCCTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 15 0.62
18 4 0.17
19 5 0.21
ACGTcount: A:0.00, C:0.07, G:0.23, T:0.70
Consensus pattern (18 bp):
TTGTTTGTTTTTTGCTGC
Found at i:12916194 original size:50 final size:50
Alignment explanation
Indices: 12916140--12916403 Score: 268
Period size: 50 Copynumber: 5.3 Consensus size: 50
12916130 GATTCGCTGT
*
12916140 TGTGGCTTTAGTCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA
** * * * *
12916190 TGTGGCTTTAAT-TTGTTCCACTGC-ATCGCCTGGGG-AGTAAGATTCGCCGT
1 TGTGGCTTTAATCTT-TTTAACTGCAAT-GTC-GGGGAAGCAAGATTCACCGA
** * *
12916240 TGTGGCTTTAGCCTTTTTAACTGCAATATCGGGGAAGCAAGATTCACCAA
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA
* ** * * * * *
12916290 TGTGGCTTTAATCTGTTCCACTGC-ATCGCCTGGGG-AGTAAGATTCTCTGT
1 TGTGGCTTTAATCTTTTTAACTGCAAT-GTC-GGGGAAGCAAGATTCACCGA
*
12916340 TGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA
1 TGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA
12916390 TGTGGCTTTAATCT
1 TGTGGCTTTAATCT
12916404 ATTCCACTAC
Statistics
Matches: 165, Mismatches: 39, Indels: 20
0.74 0.17 0.09
Matches are distributed among these distances:
49 14 0.08
50 137 0.83
51 14 0.08
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.34
Consensus pattern (50 bp):
TGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA
Found at i:12916432 original size:100 final size:100
Alignment explanation
Indices: 12916093--12916411 Score: 505
Period size: 100 Copynumber: 3.2 Consensus size: 100
12916083 TGCTGTTGTA
* * *
12916093 GCTTCAATCTGTTCCGCTGCA-CTGCCTGGGAAAGTAAGATTCGCTGTTGTGGCTTTAGTCTTTT
1 GCTTTAATCTGTTCCACTGCATC-GCCTGGG-GAGTAAGATTCGCTGTTGTGGCTTTAGTCTTTT
12916157 TAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG
64 TAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG
* * *
12916194 GCTTTAATTTGTTCCACTGCATCGCCTGGGGAGTAAGATTCGCCGTTGTGGCTTTAGCCTTTTTA
1 GCTTTAATCTGTTCCACTGCATCGCCTGGGGAGTAAGATTCGCTGTTGTGGCTTTAGTCTTTTTA
* *
12916259 ACTGCAATATCGGGGAAGCAAGATTCACCAATGTG
66 ACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG
* * *
12916294 GCTTTAATCTGTTCCACTGCATCGCCTGGGGAGTAAGATTCTCTGTTGTAGCTTTAATCTTTTTA
1 GCTTTAATCTGTTCCACTGCATCGCCTGGGGAGTAAGATTCGCTGTTGTGGCTTTAGTCTTTTTA
12916359 ACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG
66 ACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG
*
12916394 GCTTTAATCTATTCCACT
1 GCTTTAATCTGTTCCACT
12916412 ACACCGCTTG
Statistics
Matches: 200, Mismatches: 17, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
100 174 0.87
101 25 0.12
102 1 0.00
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (100 bp):
GCTTTAATCTGTTCCACTGCATCGCCTGGGGAGTAAGATTCGCTGTTGTGGCTTTAGTCTTTTTA
ACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG
Found at i:12916773 original size:44 final size:44
Alignment explanation
Indices: 12916724--12916938 Score: 143
Period size: 43 Copynumber: 4.9 Consensus size: 44
12916714 CGATGCAGGA
*
12916724 AGGCAAGATCTGCTATCTTCAACCTACTCCGCTGCAACCGAGGG
1 AGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCAACCGAGGG
* * * * * * * *
12916768 AGGCAAG-GCTAG-TGTCTTCGATCTGCTTCGCTGTCAGCACAAGAG
1 AGGCAAGATCT-GCTATCTTCAACCTGCTCCGCTG-CAAC-CGAGGG
* * * *
12916813 -GGCAAGATCTGCTATCTTTAACTTGCTCCACTGTAACCGAGGG
1 AGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCAACCGAGGG
* * * * * ** *
12916856 AGGCAAGA-CTGGTATCTTCGATCTGCTTCGCTATC-AGTGCAGGA
1 AGGCAAGATCTGCTATCTTCAACCTGCTCCGCT-GCAACCG-AGGG
* *
12916900 AGGCAAGATCTGCTATCTTTAACCTGCTCCACTGCAACC
1 AGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCAACC
12916939 TATGGAGGTA
Statistics
Matches: 119, Mismatches: 42, Indels: 19
0.66 0.23 0.11
Matches are distributed among these distances:
43 41 0.34
44 39 0.33
45 39 0.33
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (44 bp):
AGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCAACCGAGGG
Found at i:12916817 original size:88 final size:87
Alignment explanation
Indices: 12916694--12917267 Score: 596
Period size: 88 Copynumber: 6.6 Consensus size: 87
12916684 GGACTTGTAA
* * * * *
12916694 TCTTCGATCTGTTTTGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTACTCCGCTGC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCTACTCCACTGC
*
12916759 AACCGAGGGAGGCAAGGCTAGTG
66 AACCGATGGAGGCAAGGCT-GTG
*** * * * * *
12916782 TCTTCGATCTGCTTCGCTGTCAGCACAAGAGGGCAAGATCTGCTATCTTTAACTTGCTCCACTGT
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCTACTCCACTGC
* * *
12916847 AACCGAGGGAGGCAAGACTGGTA
66 AACCGATGGAGGCAAGGCT-GTG
* * *
12916870 TCTTCGATCTGCTTCGCTATCAGTGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCTACTCCACTGC
* * * *
12916935 AACCTATGGAGGTAAGACTTGGG
66 AACCGATGGAGGCAAGGC-TGTG
* * ** ** * *
12916958 TCTTCGATCTACTTCGCTGTCTATGCAGGAAGATAAGATCTGCTATCTTTAACCCGCTCTATTGC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCTACTCCACTGC
* *
12917023 AACCGATGGAGGCAAGGCTTTA
66 AACCGATGGAGGCAAGGCTGTG
* * * * * * *
12917045 TTTTTGATCTGCTTCACTGTCAATGCAGGAAAGTAAGATATGCTAT-TCTTAACC-AGCTCAACT
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCT-TTAACCTA-CTCCACT
* * *
12917108 GCAACAGATAGAGGCAAGGCTTTG
64 GCAACCGATGGAGGCAAGGCTGTG
* * * *
12917132 TTTTTGATCTACTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATATTTAACC-AGCTCCACTG
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCTA-CTCCACTG
* * *
12917196 CAACCAATGGAGGAAAGGCTTTG
65 CAACCGATGGAGGCAAGGCTGTG
* *
12917219 TTTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTACTATCTT
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTT
12917268 CACTGATCTG
Statistics
Matches: 411, Mismatches: 71, Indels: 9
0.84 0.14 0.02
Matches are distributed among these distances:
86 1 0.00
87 191 0.46
88 218 0.53
89 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (87 bp):
TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCTACTCCACTGC
AACCGATGGAGGCAAGGCTGTG
Found at i:12916927 original size:45 final size:45
Alignment explanation
Indices: 12916718--12916927 Score: 135
Period size: 44 Copynumber: 4.8 Consensus size: 45
12916708 TGCTGTCGAT
* * * *
12916718 GCAGGAAGGCAAGATCTGCTATCTTCAACCTACTCCGCTG-CAAC
1 GCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTTCGCTGTCAGC
* * * ** *
12916762 -CGAGGGAGGCAAG-GCTAG-TGTCTTCGATCTGCTTCGCTGTCAGC
1 GC-AGGAAGGCAAGATCT-GCTATCTTTAACCTGCTTCGCTGTCAGC
* * * * * * * *
12916806 ACAAGAGGGCAAGATCTGCTATCTTTAACTTGCTCCACTGTAACC
1 GCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTTCGCTGTCAGC
* * ** * * *
12916851 G-AGGGAGGCAAGA-CTGGTATCTTCGATCTGCTTCGCTATCAGT
1 GCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTTCGCTGTCAGC
12916894 GCAGGAAGGCAAGATCTGCTATCTTTAACCTGCT
1 GCAGGAAGGCAAGATCTGCTATCTTTAACCTGCT
12916928 CCACTGCAAC
Statistics
Matches: 117, Mismatches: 41, Indels: 15
0.68 0.24 0.09
Matches are distributed among these distances:
43 39 0.33
44 43 0.37
45 35 0.30
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (45 bp):
GCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTTCGCTGTCAGC
Found at i:12920868 original size:285 final size:285
Alignment explanation
Indices: 12920358--12920925 Score: 1100
Period size: 285 Copynumber: 2.0 Consensus size: 285
12920348 AAAACTACAG
*
12920358 GGATTTCTTCAACAAGCCAATTGCGTAGAACACTCCAGATTTATAAGGGCAAATATCTAACAATG
1 GGATTTCTTCAACAAGCCAATTGCGTAGAACACTCCAGATTTATAAGGGAAAATATCTAACAATG
12920423 TCCCTTTTCATTTACTTTTTCGTCGATGTGAACGTTTCCCAACATTGTGTGTATGATTTCCTCGC
66 TCCCTTTTCATTTACTTTTTCGTCGATGTGAACGTTTCCCAACATTGTGTGTATGATTTCCTCGC
12920488 AGAGCTTCATCTCCTTGTCGTCCATCATGCCCTGAGCCGAGGCCTTGAATTCCACATTCTCTTGG
131 AGAGCTTCATCTCCTTGTCGTCCATCATGCCCTGAGCCGAGGCCTTGAATTCCACATTCTCTTGG
12920553 GTCTCGTACCCCTTCTCGTGATGGAACTCACCATGACTTCTTGTCTTTCCATAATTTTCACTTGA
196 GTCTCGTACCCCTTCTCGTGATGGAACTCACCATGACTTCTTGTCTTTCCATAATTTTCACTTGA
12920618 ATCAGAAATAACTAATCCCCTTCTT
261 ATCAGAAATAACTAATCCCCTTCTT
12920643 GGATTTCTTCAACAAGCCAATTGCGTAGAACACTCCAGATTTATAAGGGAAAATATCTAACAATG
1 GGATTTCTTCAACAAGCCAATTGCGTAGAACACTCCAGATTTATAAGGGAAAATATCTAACAATG
* *
12920708 TCCCTTTTCATTTGCTTTTTCGTCGATGTGAACGTTTCCCAACATTGTGTGTATTATTTCCTCGC
66 TCCCTTTTCATTTACTTTTTCGTCGATGTGAACGTTTCCCAACATTGTGTGTATGATTTCCTCGC
12920773 AGAGCTTCATCTCCTTGTCGTCCATCATGCCCTGAGCCGAGGCCTTGAATTCCACATTCTCTTGG
131 AGAGCTTCATCTCCTTGTCGTCCATCATGCCCTGAGCCGAGGCCTTGAATTCCACATTCTCTTGG
*
12920838 GTCTCGTACCCCTTCTCGTGATGGAACTCACCATGGCTTCTTGTCTTTCCATAATTTTCACTTGA
196 GTCTCGTACCCCTTCTCGTGATGGAACTCACCATGACTTCTTGTCTTTCCATAATTTTCACTTGA
12920903 ATCAGAAATAACTAATCCCCTTC
261 ATCAGAAATAACTAATCCCCTTC
12920926 CTACTTTCAC
Statistics
Matches: 279, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
285 279 1.00
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.35
Consensus pattern (285 bp):
GGATTTCTTCAACAAGCCAATTGCGTAGAACACTCCAGATTTATAAGGGAAAATATCTAACAATG
TCCCTTTTCATTTACTTTTTCGTCGATGTGAACGTTTCCCAACATTGTGTGTATGATTTCCTCGC
AGAGCTTCATCTCCTTGTCGTCCATCATGCCCTGAGCCGAGGCCTTGAATTCCACATTCTCTTGG
GTCTCGTACCCCTTCTCGTGATGGAACTCACCATGACTTCTTGTCTTTCCATAATTTTCACTTGA
ATCAGAAATAACTAATCCCCTTCTT
Found at i:12930157 original size:22 final size:22
Alignment explanation
Indices: 12930085--12930157 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
12930075 TTTTACTGTC
*
12930085 ATTTCACTATTATATTATTGTTACT
1 ATTTCACTATTATATTA---CTACT
** * *
12930110 ATTTCTTTACTATTTTACTA-T
1 ATTTCACTATTATATTACTACT
12930131 CATTTCACTATTATATTACTACT
1 -ATTTCACTATTATATTACTACT
12930154 ATTT
1 ATTT
12930158 TTTTGTATTT
Statistics
Matches: 37, Mismatches: 9, Indels: 7
0.70 0.17 0.13
Matches are distributed among these distances:
21 1 0.03
22 22 0.59
23 1 0.03
25 13 0.35
ACGTcount: A:0.27, C:0.15, G:0.01, T:0.56
Consensus pattern (22 bp):
ATTTCACTATTATATTACTACT
Found at i:12941093 original size:26 final size:26
Alignment explanation
Indices: 12941057--12941110 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
12941047 AATTTTTAAC
12941057 ATAGTTTTCATCTCAATGAACTGAAA
1 ATAGTTTTCATCTCAATGAACTGAAA
12941083 ATAGTTTTCATCTCAATGAACTGAAA
1 ATAGTTTTCATCTCAATGAACTGAAA
12941109 AT
1 AT
12941111 CATTAAGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (26 bp):
ATAGTTTTCATCTCAATGAACTGAAA
Found at i:12946233 original size:5 final size:5
Alignment explanation
Indices: 12946217--12946247 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
12946207 AAGGACCATA
12946217 TATAT ATATAT TATAT TATAT TATAT TATAT
1 TATAT -TATAT TATAT TATAT TATAT TATAT
12946248 ATTATTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:12947268 original size:23 final size:23
Alignment explanation
Indices: 12947242--12947286 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
12947232 TTACTGTTTT
*
12947242 TTTTTACTATTTT-CTTATTATTA
1 TTTTCACTATTTTGC-TATTATTA
12947265 TTTTCACTATTTTGCTATTATT
1 TTTTCACTATTTTGCTATTATT
12947287 TCAATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.20, C:0.11, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTTCACTATTTTGCTATTATTA
Found at i:12947716 original size:17 final size:17
Alignment explanation
Indices: 12947696--12947732 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
12947686 AATTAACTGA
12947696 AAATTAATATTTTTAAT
1 AAATTAATATTTTTAAT
12947713 AAATTAATATTTTTAAT
1 AAATTAATATTTTTAAT
12947730 AAA
1 AAA
12947733 ATATGTTTGA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AAATTAATATTTTTAAT
Found at i:12952223 original size:21 final size:21
Alignment explanation
Indices: 12952197--12952239 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
12952187 TTTGGGTGGA
*
12952197 TCAGCTCTTACGAGCTTCTGT
1 TCAGCTCTCACGAGCTTCTGT
12952218 TCAGCTCTCACGAGCTTCTGT
1 TCAGCTCTCACGAGCTTCTGT
12952239 T
1 T
12952240 GGCGTGTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.30, G:0.19, T:0.37
Consensus pattern (21 bp):
TCAGCTCTCACGAGCTTCTGT
Found at i:12956142 original size:20 final size:20
Alignment explanation
Indices: 12956117--12956156 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
12956107 CGAAAAACGA
12956117 TTTCTGAAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
12956137 TTTCTGAAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
12956157 AGAAATATTT
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:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (20 bp):
TTTCTGAAAAATGATTTACT
Found at i:12957604 original size:27 final size:29
Alignment explanation
Indices: 12957535--12957608 Score: 107
Period size: 32 Copynumber: 2.5 Consensus size: 29
12957525 TGCCAATTAT
12957535 TTCAATATCTAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAGCTTAAAAC--AAT-AA
12957567 TTCAATATCTAACAAGCTTAAAAC-AT-A
1 TTCAATATCTAACAAGCTTAAAACAATAA
12957594 TTCAATATCTAACAA
1 TTCAATATCTAACAA
12957609 ATTCAAGACA
Statistics
Matches: 42, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
27 16 0.38
29 2 0.05
32 24 0.57
ACGTcount: A:0.50, C:0.18, G:0.03, T:0.30
Consensus pattern (29 bp):
TTCAATATCTAACAAGCTTAAAACAATAA
Found at i:12959068 original size:27 final size:27
Alignment explanation
Indices: 12959008--12959068 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
12958998 ATACCACACA
**
12959008 AATATTTGATCACTATAAAAAAGATTT
1 AATATTTGATCACTATAAAAAAGATAC
* * *
12959035 AAAATTTGATCACTATAAAATATATAC
1 AATATTTGATCACTATAAAAAAGATAC
12959062 AATATTT
1 AATATTT
12959069 TAGATCGATT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (27 bp):
AATATTTGATCACTATAAAAAAGATAC
Found at i:12961029 original size:18 final size:18
Alignment explanation
Indices: 12961006--12961045 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
12960996 TTTGGCTGAG
*
12961006 AAAGAATGAAGGAAA-GAA
1 AAAGAAAGAA-GAAAGGAA
12961024 AAAGAAAGAAGAAAGGAA
1 AAAGAAAGAAGAAAGGAA
12961042 AAAG
1 AAAG
12961046 GGGATCTACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.03
Consensus pattern (18 bp):
AAAGAAAGAAGAAAGGAA
Found at i:12962736 original size:29 final size:29
Alignment explanation
Indices: 12962694--12962751 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
12962684 AATACTAATG
12962694 ATAATATCATTATTGCTCAAGAGATTACT
1 ATAATATCATTATTGCTCAAGAGATTACT
*
12962723 ATAATATCATTATTGCTCAAGAGGTTACT
1 ATAATATCATTATTGCTCAAGAGATTACT
12962752 CACTCCGGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (29 bp):
ATAATATCATTATTGCTCAAGAGATTACT
Found at i:12963500 original size:22 final size:23
Alignment explanation
Indices: 12963467--12963513 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
12963457 CCATTTGAGG
12963467 TTAATTTTCTCCAAAGTGCCAAT
1 TTAATTTTCTCCAAAGTGCCAAT
* *
12963490 TTAA-TTTCTCCAAGGTTCCAAT
1 TTAATTTTCTCCAAAGTGCCAAT
12963512 TT
1 TT
12963514 CAAATTTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.43
Consensus pattern (23 bp):
TTAATTTTCTCCAAAGTGCCAAT
Found at i:12964048 original size:14 final size:14
Alignment explanation
Indices: 12964031--12964058 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
12964021 CTTATTTTGT
12964031 TAATTCCATTTATC
1 TAATTCCATTTATC
12964045 TAATTCCATTTATC
1 TAATTCCATTTATC
12964059 ATATACTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (14 bp):
TAATTCCATTTATC
Found at i:12969190 original size:18 final size:18
Alignment explanation
Indices: 12969169--12969220 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
12969159 AAAATATGAG
* *
12969169 AAATGATGTTCATATTTT
1 AAATGATGTTCACATTTC
*
12969187 AAATGATGCTCACATTTC
1 AAATGATGTTCACATTTC
12969205 AAATGATGTTCACATT
1 AAATGATGTTCACATT
12969221 GATGGAAACG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:12972802 original size:28 final size:26
Alignment explanation
Indices: 12972768--12972834 Score: 75
Period size: 26 Copynumber: 2.5 Consensus size: 26
12972758 ATAATTGTAC
12972768 TCAATACTTATATTTACCA-AAAAAATT
1 TCAATACTTA-ATTTACCAGAAAAAA-T
**
12972795 TCTAATAC-TAATTTAGTAGAAAAAAT
1 TC-AATACTTAATTTACCAGAAAAAAT
12972821 TCAATACTTAATTT
1 TCAATACTTAATTT
12972835 TTCAGCATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
25 5 0.14
26 15 0.43
27 10 0.29
28 5 0.14
ACGTcount: A:0.46, C:0.12, G:0.03, T:0.39
Consensus pattern (26 bp):
TCAATACTTAATTTACCAGAAAAAAT
Found at i:12977630 original size:30 final size:28
Alignment explanation
Indices: 12977580--12977654 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 28
12977570 TTTATTAACT
*
12977580 TATAATTTTATATCTTTTAAAAAAATTAAAT
1 TATAA-TTT-TAT-TTTTAAAAAAATTAAAG
*
12977611 TAATAATTATTATTTTTAAAGAAATTAAAG
1 T-ATAATT-TTATTTTTAAAAAAATTAAAG
12977641 TATAATTTTATTTT
1 TATAATTTTATTTT
12977655 ATATTAAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
28 7 0.17
29 6 0.15
30 16 0.40
31 6 0.15
32 5 0.12
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (28 bp):
TATAATTTTATTTTTAAAAAAATTAAAG
Found at i:12989334 original size:22 final size:22
Alignment explanation
Indices: 12989309--12989353 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
12989299 AGTATACATA
* *
12989309 AATATTTGATAATAATAATAAT
1 AATATTTGAAAATAATAACAAT
*
12989331 AATATTTTAAAATAATAACAAT
1 AATATTTGAAAATAATAACAAT
12989353 A
1 A
12989354 GCAAAAATAA
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:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
AATATTTGAAAATAATAACAAT
Found at i:12989363 original size:34 final size:38
Alignment explanation
Indices: 12989325--12989401 Score: 108
Period size: 38 Copynumber: 2.1 Consensus size: 38
12989315 TGATAATAAT
12989325 AATAATAATATT-TTAAAA-TAA-TAA-CAATAGCAAA
1 AATAATAATATTGTTAAAATTAATTAATCAATAGCAAA
* *
12989359 AATAATGATATTGTTAAAATTAATTAATTAATAGCAAA
1 AATAATAATATTGTTAAAATTAATTAATCAATAGCAAA
12989397 AATAA
1 AATAA
12989402 CAAAAAGGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
34 11 0.30
35 6 0.16
36 3 0.08
37 3 0.08
38 14 0.38
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.32
Consensus pattern (38 bp):
AATAATAATATTGTTAAAATTAATTAATCAATAGCAAA
Found at i:12990539 original size:30 final size:30
Alignment explanation
Indices: 12990505--12990570 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
12990495 TGGGATTTTG
*
12990505 TTGGGCATCGGCTTGGGTTTGTAATGGGTT
1 TTGGGCATCGGCTAGGGTTTGTAATGGGTT
* * * * *
12990535 TTGGGTATTGGGTAGGTTTTTTAATGGGTT
1 TTGGGCATCGGCTAGGGTTTGTAATGGGTT
12990565 TTGGGC
1 TTGGGC
12990571 TGGGCACAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.11, C:0.06, G:0.39, T:0.44
Consensus pattern (30 bp):
TTGGGCATCGGCTAGGGTTTGTAATGGGTT
Found at i:12990660 original size:22 final size:22
Alignment explanation
Indices: 12990629--12990672 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
12990619 TACACCAAAA
* *
12990629 TAGGCTTTTAGCGGCGCTTTTT
1 TAGGCCTTTAGCGACGCTTTTT
12990651 TAGGCCTTTAGCGACGCTTTTT
1 TAGGCCTTTAGCGACGCTTTTT
12990673 AGCGCCACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.11, C:0.20, G:0.25, T:0.43
Consensus pattern (22 bp):
TAGGCCTTTAGCGACGCTTTTT
Found at i:12990808 original size:43 final size:43
Alignment explanation
Indices: 12990744--12990906 Score: 236
Period size: 43 Copynumber: 3.8 Consensus size: 43
12990734 GCGTCGCTAA
* * *
12990744 CTTTAGCGGCGCTTTTTCCACAAACGCCACTAAAGACTAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGACCATGAC
*
12990787 CTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAAACCATGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGACCATGAC
* * *
12990830 CTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCATGGC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGACCATGAC
* **
12990873 TTTTAGCGGCGCTTTTCAAACAAACGCCACTAAA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCACTAAA
12990907 AATATATCTT
Statistics
Matches: 107, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 107 1.00
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGACCATGAC
Found at i:12994318 original size:14 final size:14
Alignment explanation
Indices: 12994299--12994335 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
12994289 TAAAACCCTA
*
12994299 AATCCCTAACTCCT
1 AATCCCTAACTCAT
12994313 AATCCCTAACTCAT
1 AATCCCTAACTCAT
*
12994327 AACCCCTAA
1 AATCCCTAA
12994336 ACCTTAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.35, C:0.41, G:0.00, T:0.24
Consensus pattern (14 bp):
AATCCCTAACTCAT
Found at i:12994351 original size:21 final size:21
Alignment explanation
Indices: 12994291--12994367 Score: 66
Period size: 21 Copynumber: 3.7 Consensus size: 21
12994281 CCGACCCTTA
*
12994291 AAACCCTAAATCCCTAACTCCT
1 AAACCCTAAATCCC-AACCCCT
* * **
12994313 AATCCCTAACTCATAACCCCT
1 AAACCCTAAATCCCAACCCCT
* *
12994334 AAACCTTAAATCCCAACCCTT
1 AAACCCTAAATCCCAACCCCT
*
12994355 AAACCAT-AATCCC
1 AAACCCTAAATCCC
12994368 TAAATCTATA
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
20 6 0.14
21 27 0.63
22 10 0.23
ACGTcount: A:0.38, C:0.40, G:0.00, T:0.22
Consensus pattern (21 bp):
AAACCCTAAATCCCAACCCCT
Found at i:12995482 original size:41 final size:41
Alignment explanation
Indices: 12995434--12995626 Score: 246
Period size: 41 Copynumber: 4.7 Consensus size: 41
12995424 AATATTTTTT
* **
12995434 GCGGCGCTTTTTAAAAAAACGCCGCTAAA-AATAGAGCATTA
1 GCGGCGCTTTTT-CAAAAACGCCGCTAAAGACCAGAGCATTA
*
12995475 GCGGCGCTTTATCAAAAACGCCGCTAAAGACCAGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGACCAGAGCATTA
* * *
12995516 GCGGCGCTTCTTCAAAAATGCCGCTAAAGACCCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGACCAGAGCATTA
* * * *
12995557 GCGGCGCTTCTCCAAAAATGCCGCTAAAGACCCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGACCAGAGCATTA
*
12995598 GCAGCGC-TTTTCGAAAAACGCCGCTAAAG
1 GCGGCGCTTTTTC-AAAAACGCCGCTAAAG
12995627 CCCTGAAAAA
Statistics
Matches: 137, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
40 18 0.13
41 119 0.87
ACGTcount: A:0.33, C:0.27, G:0.22, T:0.19
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGACCAGAGCATTA
Found at i:12995726 original size:39 final size:38
Alignment explanation
Indices: 12995664--12995798 Score: 126
Period size: 40 Copynumber: 3.4 Consensus size: 38
12995654 TGTGCTTGGG
* ** * * *
12995664 TTTTTTGCGGCGCTTTTTGAAAAATGCCACTAATGTTCA
1 TTTTTAGCGGCG-TTTTCCAAAAACGCCGCTAATGTTGA
* *
12995703 TTTTTAGCGGCGTTTTCCAAAAAACGCCGCTAATACTGGA
1 TTTTTAGCGGCGTTTTCC-AAAAACGCCGCTAAT-GTTGA
* * *
12995743 TCTTTAGCGGCGTTTTTCCTAAAGCGCCGCTAATGCTTGA
1 TTTTTAGCGGCG-TTTTCCAAAAACGCCGCTAATG-TTGA
12995783 TTTTTAGCGGCGTTTT
1 TTTTTAGCGGCGTTTT
12995799 TTGTTCAAAC
Statistics
Matches: 78, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
38 4 0.05
39 28 0.36
40 40 0.51
41 6 0.08
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (38 bp):
TTTTTAGCGGCGTTTTCCAAAAACGCCGCTAATGTTGA
Found at i:12995799 original size:40 final size:41
Alignment explanation
Indices: 12995683--12995799 Score: 141
Period size: 40 Copynumber: 2.9 Consensus size: 41
12995673 GCGCTTTTTG
* * *
12995683 AAAAATGCCACTAATG-TTCATTTTTAGCGGCG-TTTTCCA
1 AAAAACGCCGCTAATGCTTGATTTTTAGCGGCGTTTTTCCA
* * *
12995722 AAAAACGCCGCTAATACTGGATCTTTAGCGGCGTTTTTCC-
1 AAAAACGCCGCTAATGCTTGATTTTTAGCGGCGTTTTTCCA
* *
12995762 TAAAGCGCCGCTAATGCTTGATTTTTAGCGGCGTTTTT
1 AAAAACGCCGCTAATGCTTGATTTTTAGCGGCGTTTTT
12995800 TGTTCAAACG
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
39 13 0.20
40 46 0.71
41 6 0.09
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (41 bp):
AAAAACGCCGCTAATGCTTGATTTTTAGCGGCGTTTTTCCA
Found at i:13000418 original size:18 final size:18
Alignment explanation
Indices: 13000397--13000431 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
13000387 AATATATAAA
13000397 AATTGATGA-ACCTGGAAT
1 AATTGA-GATACCTGGAAT
13000415 AATTGAGATACCTGGAA
1 AATTGAGATACCTGGAA
13000432 CAAATTTAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (18 bp):
AATTGAGATACCTGGAAT
Found at i:13005592 original size:15 final size:16
Alignment explanation
Indices: 13005565--13005594 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
13005555 AGGAGTAGTT
13005565 ACTTTTATTTTAAAAA
1 ACTTTTATTTTAAAAA
13005581 ACTTTT-TTTTAAAA
1 ACTTTTATTTTAAAA
13005595 TAAAATTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (16 bp):
ACTTTTATTTTAAAAA
Found at i:13010099 original size:22 final size:22
Alignment explanation
Indices: 13010033--13010190 Score: 93
Period size: 23 Copynumber: 7.1 Consensus size: 22
13010023 TTTGATCCAT
*
13010033 TTTCGTACCAAAACTTATACC-
1 TTTCGTACCAAAACCTATACCA
** * * * *
13010054 TTTTTTACCTACACCAAAATCCA
1 TTTCGTACCAAAACCTATA-CCA
*
13010077 TGTCGTACCAAAACCTATACCA
1 TTTCGTACCAAAACCTATACCA
* * * * *
13010099 TTTCGTACCTACACCAAAATCTA
1 TTTCGTACCAAAACCTATA-CCA
*
13010122 TTTTGTACCAAAACCTATACCA
1 TTTCGTACCAAAACCTATACCA
* * * *
13010144 TTTCGTACCTATACCAAAACCCA
1 TTTCGTACCAAAACCTATA-CCA
* * *
13010167 TTTCCTATCAAAACCGATACCA
1 TTTCGTACCAAAACCTATACCA
13010189 TT
1 TT
13010191 CCATAATTAA
Statistics
Matches: 96, Mismatches: 37, Indels: 7
0.69 0.26 0.05
Matches are distributed among these distances:
21 12 0.12
22 40 0.42
23 44 0.46
ACGTcount: A:0.35, C:0.30, G:0.04, T:0.30
Consensus pattern (22 bp):
TTTCGTACCAAAACCTATACCA
Found at i:13010109 original size:45 final size:45
Alignment explanation
Indices: 13010027--13010190 Score: 213
Period size: 45 Copynumber: 3.6 Consensus size: 45
13010017 GACCTTTTTG
* **
13010027 ATCCATTTTCGTACCAAAACTTATACC-TTTTTTACCTACACCAAA
1 ATCCA-TTTCGTACCAAAACCTATACCATTTCGTACCTACACCAAA
*
13010072 ATCCATGTCGTACCAAAACCTATACCATTTCGTACCTACACCAAA
1 ATCCATTTCGTACCAAAACCTATACCATTTCGTACCTACACCAAA
* * *
13010117 ATCTATTTTGTACCAAAACCTATACCATTTCGTACCTATACCAAA
1 ATCCATTTCGTACCAAAACCTATACCATTTCGTACCTACACCAAA
* * * *
13010162 ACCCATTTCCTATCAAAACCGATACCATT
1 ATCCATTTCGTACCAAAACCTATACCATT
13010191 CCATAATTAA
Statistics
Matches: 104, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
44 19 0.18
45 85 0.82
ACGTcount: A:0.35, C:0.30, G:0.04, T:0.30
Consensus pattern (45 bp):
ATCCATTTCGTACCAAAACCTATACCATTTCGTACCTACACCAAA
Found at i:13010129 original size:23 final size:23
Alignment explanation
Indices: 13010059--13010170 Score: 93
Period size: 22 Copynumber: 5.0 Consensus size: 23
13010049 ATACCTTTTT
*
13010059 TACCTACACCAAAATCCATGTCG
1 TACCTACACCAAAATCCATTTCG
* * * *
13010082 TACCAAAACCTATA-CCATTTCG
1 TACCTACACCAAAATCCATTTCG
* *
13010104 TACCTACACCAAAATCTATTTTG
1 TACCTACACCAAAATCCATTTCG
* * * *
13010127 TACCAAAACCTATA-CCATTTCG
1 TACCTACACCAAAATCCATTTCG
* *
13010149 TACCTATACCAAAACCCATTTC
1 TACCTACACCAAAATCCATTTC
13010171 CTATCAAAAC
Statistics
Matches: 66, Mismatches: 21, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
22 33 0.50
23 33 0.50
ACGTcount: A:0.36, C:0.32, G:0.04, T:0.28
Consensus pattern (23 bp):
TACCTACACCAAAATCCATTTCG
Found at i:13014821 original size:47 final size:47
Alignment explanation
Indices: 13014755--13015038 Score: 455
Period size: 47 Copynumber: 6.1 Consensus size: 47
13014745 GAAATGATAG
13014755 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
13014802 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
13014849 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
13014896 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
13014943 TAAGGCCTAATGGCCGATGTG-TGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
13014989 CAGGGCCGAGTGGCCAACGTGATG-ATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
13015035 TAAG
1 TAAG
13015039 TCCCGAAGGG
Statistics
Matches: 222, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
46 62 0.28
47 160 0.72
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:13015213 original size:37 final size:37
Alignment explanation
Indices: 13015157--13015235 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
13015147 CCGAGCTCTA
* *
13015157 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
13015194 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
13015231 AAGAC
1 AAGAC
13015236 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:13017063 original size:40 final size:38
Alignment explanation
Indices: 13016980--13017065 Score: 102
Period size: 38 Copynumber: 2.2 Consensus size: 38
13016970 GAAAAAACAA
* **
13016980 AAAAAAAGAGTGAAAATCAAAAGGAAAATAAAATTGAG
1 AAAAAAAGAGGGAAAATCAAAAGGAAAATAAAAGAGAG
13017018 AAAAAAAGAGGGAAAATTGCAAAA-GAAAATGAAAAGAGAG
1 AAAAAAAGAGGGAAAA-T-CAAAAGGAAAAT-AAAAGAGAG
13017058 TAAAAAAA
1 -AAAAAAA
13017066 AAGAAATCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
38 15 0.37
39 7 0.17
40 12 0.29
41 7 0.17
ACGTcount: A:0.67, C:0.02, G:0.20, T:0.10
Consensus pattern (38 bp):
AAAAAAAGAGGGAAAATCAAAAGGAAAATAAAAGAGAG
Found at i:13021331 original size:22 final size:22
Alignment explanation
Indices: 13021300--13021414 Score: 122
Period size: 22 Copynumber: 5.1 Consensus size: 22
13021290 ACCAAAATCT
* *
13021300 ATTTCATACCAAAACCTATACC
1 ATTTCGTACCAAAACCAATACC
* * * *
13021322 ATTTAGTACCTACACCAAAATCC
1 ATTTCGTACCAAAACCAATA-CC
*
13021345 ATTTCGTACCAAAACCTATACC
1 ATTTCGTACCAAAACCAATACC
* * *
13021367 ATTTCGTACCTATACCAAAACCC
1 ATTTCGTACCAAAACCAATA-CC
13021390 ATTTCGTACCAAAACCAATACC
1 ATTTCGTACCAAAACCAATACC
13021412 ATT
1 ATT
13021415 CCATAATTAA
Statistics
Matches: 73, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
22 37 0.51
23 36 0.49
ACGTcount: A:0.38, C:0.31, G:0.03, T:0.27
Consensus pattern (22 bp):
ATTTCGTACCAAAACCAATACC
Found at i:13021349 original size:45 final size:45
Alignment explanation
Indices: 13021251--13021414 Score: 231
Period size: 45 Copynumber: 3.6 Consensus size: 45
13021241 GACCTTTTTG
* *
13021251 ATCCATTTTCATACCAAAACTTATACC-TTTCTTACCTACACCAAA
1 ATCCA-TTTCATACCAAAACCTATACCATTTCGTACCTACACCAAA
* *
13021296 ATCTATTTCATACCAAAACCTATACCATTTAGTACCTACACCAAA
1 ATCCATTTCATACCAAAACCTATACCATTTCGTACCTACACCAAA
* *
13021341 ATCCATTTCGTACCAAAACCTATACCATTTCGTACCTATACCAAA
1 ATCCATTTCATACCAAAACCTATACCATTTCGTACCTACACCAAA
* * *
13021386 ACCCATTTCGTACCAAAACCAATACCATT
1 ATCCATTTCATACCAAAACCTATACCATT
13021415 CCATAATTAA
Statistics
Matches: 108, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
44 20 0.19
45 88 0.81
ACGTcount: A:0.37, C:0.31, G:0.02, T:0.29
Consensus pattern (45 bp):
ATCCATTTCATACCAAAACCTATACCATTTCGTACCTACACCAAA
Found at i:13021406 original size:23 final size:22
Alignment explanation
Indices: 13021290--13021414 Score: 115
Period size: 23 Copynumber: 5.5 Consensus size: 22
13021280 TCTTACCTAC
* *
13021290 ACCAAAATCTATTTCATACCAAA
1 ACCAAAA-CCATTTCGTACCAAA
* * * * *
13021313 ACCTATACCATTTAGTACCTAC
1 ACCAAAACCATTTCGTACCAAA
13021335 ACCAAAATCCATTTCGTACCAAA
1 ACCAAAA-CCATTTCGTACCAAA
* * * *
13021358 ACCTATACCATTTCGTACCTAT
1 ACCAAAACCATTTCGTACCAAA
13021380 ACCAAAACCCATTTCGTACCAAA
1 ACCAAAA-CCATTTCGTACCAAA
*
13021403 ACCAATACCATT
1 ACCAAAACCATT
13021415 CCATAATTAA
Statistics
Matches: 79, Mismatches: 21, Indels: 5
0.75 0.20 0.05
Matches are distributed among these distances:
22 38 0.48
23 41 0.52
ACGTcount: A:0.39, C:0.31, G:0.03, T:0.26
Consensus pattern (22 bp):
ACCAAAACCATTTCGTACCAAA
Found at i:13021433 original size:45 final size:44
Alignment explanation
Indices: 13021290--13021446 Score: 138
Period size: 45 Copynumber: 3.5 Consensus size: 44
13021280 TCTTACCTAC
* * * * * *
13021290 ACCAAAATCTATTTCATACCAAAACCTATACCATT-TAGTACCTAC
1 ACCAAAA-CCATTTCGTACCAAAACCAATACCATTCCA-TAACTAA
* * * * *
13021335 ACCAAAATCCATTTCGTACCAAAACCTATACCATTTCGTACCTAT
1 ACCAAAA-CCATTTCGTACCAAAACCAATACCATTCCATAACTAA
*
13021380 ACCAAAACCCATTTCGTACCAAAACCAATACCATTCCATAATTAA
1 ACCAAAA-CCATTTCGTACCAAAACCAATACCATTCCATAACTAA
*
13021425 ACCTAAACCATATTCG-ACCAAA
1 ACCAAAACCAT-TTCGTACCAAA
13021447 CTTAGCCTAC
Statistics
Matches: 97, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
44 10 0.10
45 87 0.90
ACGTcount: A:0.41, C:0.31, G:0.03, T:0.25
Consensus pattern (44 bp):
ACCAAAACCATTTCGTACCAAAACCAATACCATTCCATAACTAA
Found at i:13023349 original size:44 final size:42
Alignment explanation
Indices: 13023279--13023381 Score: 118
Period size: 44 Copynumber: 2.4 Consensus size: 42
13023269 TCCTGATATG
* * *
13023279 TGATATCGTGTAAGACCACGTCTGGGACGTTGGCATCGAAT-
1 TGATTTCGTGTAAGACCACGTCTGGGACATAGGCATCGAATA
* * *
13023320 TGAGATTTACGTGTAAGACCATGTTTGGGACATAGGCATCGTATA
1 T--GATTT-CGTGTAAGACCACGTCTGGGACATAGGCATCGAATA
13023365 TGATTTCGTGTAAGACC
1 TGATTTCGTGTAAGACC
13023382 CTGTCCTGGA
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
41 1 0.02
42 11 0.21
43 9 0.17
44 30 0.58
45 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCACGTCTGGGACATAGGCATCGAATA
Found at i:13023393 original size:42 final size:43
Alignment explanation
Indices: 13023285--13023431 Score: 126
Period size: 42 Copynumber: 3.4 Consensus size: 43
13023275 TATGTGATAT
* *
13023285 CGTGTAAGACCACGTCTGGGAC-GTTGGCATCGAAT-TGAGATTTA
1 CGTGTAAGACCATGTCTGGGACAG-TGGCATCGTATAT--GATTTA
*
13023329 CGTGTAAGACCATGTTTGGGACA-TAGGCATCGTATATGATTT-
1 CGTGTAAGACCATGTCTGGGACAGT-GGCATCGTATATGATTTA
* * *
13023371 CGTGTAAGACCCTGTCCT-GGACAGTGGCATCGTTATTTGA-ATA
1 CGTGTAAGACCATGT-CTGGGACAGTGGCATCG-TATATGATTTA
* *
13023414 CATGTAAGACCACGTCTG
1 CGTGTAAGACCATGTCTG
13023432 AGACGTTGGC
Statistics
Matches: 85, Mismatches: 10, Indels: 17
0.76 0.09 0.15
Matches are distributed among these distances:
42 29 0.34
43 26 0.31
44 29 0.34
45 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACAGTGGCATCGTATATGATTTA
Found at i:13023442 original size:43 final size:42
Alignment explanation
Indices: 13023285--13023443 Score: 137
Period size: 43 Copynumber: 3.7 Consensus size: 42
13023275 TATGTGATAT
*
13023285 CGTGTAAGACCACGTCTGGGACGTTGGCATCG-AATTGAGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGA-A--TA
* * * * * * *
13023329 CGTGTAAGACCATGTTTGGGACATAGGCATCGTATATGATTT
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGAATA
13023371 CGTGTAAGACC-CTGTCCT-GGACAG-TGGCATCGTTATTTGAATA
1 CGTGTAAGACCAC-GT-CTGGGAC-GTTGGCATCG-TATTTGAATA
* *
13023414 CATGTAAGACCACGTCTGAGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
13023444 TGTACGAGCT
Statistics
Matches: 90, Mismatches: 17, Indels: 17
0.73 0.14 0.14
Matches are distributed among these distances:
42 28 0.31
43 29 0.32
44 29 0.32
45 4 0.04
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGAATA
Found at i:13025432 original size:36 final size:35
Alignment explanation
Indices: 13025387--13025502 Score: 132
Period size: 34 Copynumber: 3.3 Consensus size: 35
13025377 GTTACACTGT
* *
13025387 TCCCGCACATGGAGGAAGGCTTACAGGGGGTCTGGC
1 TCCCACACATGGAGGAAGGCTTACAGAGGGTCT-GC
* *
13025423 TCCCACACATGGAGG-CGGCTTACA-AGAGTCCTGC
1 TCCCACACATGGAGGAAGGCTTACAGAGGGT-CTGC
*
13025457 TCCCACACATGG-GGAAGGCTTAC-GAGGGTTTTGC
1 TCCCACACATGGAGGAAGGCTTACAGAGGG-TCTGC
13025491 TCCCACACATGG
1 TCCCACACATGG
13025503 GGGACACTTA
Statistics
Matches: 69, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
33 2 0.03
34 42 0.61
35 11 0.16
36 14 0.20
ACGTcount: A:0.22, C:0.28, G:0.31, T:0.19
Consensus pattern (35 bp):
TCCCACACATGGAGGAAGGCTTACAGAGGGTCTGC
Found at i:13028886 original size:20 final size:20
Alignment explanation
Indices: 13028848--13028886 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13028838 ACCTACATGA
* *
13028848 GACACACAGCTGTGTCACAT
1 GACACACAGCTGAGACACAT
*
13028868 GACACACGGCTGAGACACA
1 GACACACAGCTGAGACACA
13028887 CATCTGTGTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.31, G:0.23, T:0.13
Consensus pattern (20 bp):
GACACACAGCTGAGACACAT
Found at i:13036392 original size:16 final size:16
Alignment explanation
Indices: 13036360--13036410 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
13036350 TCTATATATA
*
13036360 TTATAATTTACAT-ATT
1 TTATAA-TTAAATAATT
13036376 TTATAATTAAATAATTT
1 TTATAATTAAATAA-TT
13036393 TTATTAA-TAAATAATT
1 TTA-TAATTAAATAATT
13036409 TT
1 TT
13036411 CAAAAAACAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
15 5 0.16
16 11 0.35
17 12 0.39
18 3 0.10
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (16 bp):
TTATAATTAAATAATT
Found at i:13036396 original size:17 final size:17
Alignment explanation
Indices: 13036374--13036410 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
13036364 AATTTACATA
13036374 TTTTA-TAATTAAATAAT
1 TTTTATTAA-TAAATAAT
13036391 TTTTATTAATAAATAAT
1 TTTTATTAATAAATAAT
13036408 TTT
1 TTT
13036411 CAAAAAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTTATTAATAAATAAT
Found at i:13039178 original size:22 final size:22
Alignment explanation
Indices: 13039153--13039194 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
13039143 TAATGAAATG
13039153 ACAGCAAAACAGTGAGAAAACA
1 ACAGCAAAACAGTGAGAAAACA
**
13039175 ACAGCAAAATTGTGAGAAAA
1 ACAGCAAAACAGTGAGAAAA
13039195 TGGCAAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.57, C:0.14, G:0.19, T:0.10
Consensus pattern (22 bp):
ACAGCAAAACAGTGAGAAAACA
Found at i:13041065 original size:22 final size:21
Alignment explanation
Indices: 13041015--13041065 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
13041005 TATAAAATAT
13041015 TAAAAAATATAAATACTTTGA
1 TAAAAAATATAAATACTTTGA
*
13041036 -AAAAAATATAAATTA-TTTTA
1 TAAAAAATATAAA-TACTTTGA
13041056 TAAAATAATA
1 TAAAA-AATA
13041066 ATATTTTAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 16 0.62
21 6 0.23
22 4 0.15
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (21 bp):
TAAAAAATATAAATACTTTGA
Found at i:13043146 original size:4 final size:4
Alignment explanation
Indices: 13043139--13043355 Score: 362
Period size: 4 Copynumber: 54.2 Consensus size: 4
13043129 ATTTGTTGTT
13043139 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
13043187 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
13043235 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* ** * * *
13043283 TGTA TGTA TGTA TGTA TGTA TGTA TGCA TGCC TGCA TGTA TGCA TGCA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* *
13043331 TGCA TGCA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA T
13043356 ACTTGTGTGT
Statistics
Matches: 207, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 207 1.00
ACGTcount: A:0.24, C:0.04, G:0.25, T:0.47
Consensus pattern (4 bp):
TGTA
Found at i:13043436 original size:22 final size:22
Alignment explanation
Indices: 13043411--13043453 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
13043401 TGTACGATGC
13043411 GTTACATGAATATGACAACGTA
1 GTTACATGAATATGACAACGTA
13043433 GTTACATGAATATGACAACGT
1 GTTACATGAATATGACAACGT
13043454 GTGGTAAGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.28
Consensus pattern (22 bp):
GTTACATGAATATGACAACGTA
Found at i:13046561 original size:25 final size:25
Alignment explanation
Indices: 13046533--13046582 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
13046523 GAATTGTTCC
*
13046533 AGAAACCTTTAT-ATGGATTTATTTG
1 AGAAACCTTTATGGT-GATTTATTTG
*
13046558 AGAAGCCTTTATGGTGATTTATTTG
1 AGAAACCTTTATGGTGATTTATTTG
13046583 GGGAAGCCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (25 bp):
AGAAACCTTTATGGTGATTTATTTG
Found at i:13046629 original size:51 final size:51
Alignment explanation
Indices: 13046560--13046725 Score: 208
Period size: 51 Copynumber: 3.3 Consensus size: 51
13046550 TTTATTTGAG
* *
13046560 AAGCCTTTATGGTGATTTATTTGGGGAAGCCTTTGTGGCAAGTCACCTGTA
1 AAGCCTTTGTGGTAATTTATTTGGGGAAGCCTTTGTGGCAAGTCACCTGTA
* * *
13046611 AATCCTTTGTGGTAATTTATTTGGGAAAGCCTTTGTGGCAAGTCACTTGTA
1 AAGCCTTTGTGGTAATTTATTTGGGGAAGCCTTTGTGGCAAGTCACCTGTA
* * * * * *
13046662 CAGCCTTTGTGGCAATTTA-TTCGGGAAGCCTTTGTGGCAGGTTATCTGTA
1 AAGCCTTTGTGGTAATTTATTTGGGGAAGCCTTTGTGGCAAGTCACCTGTA
* *
13046712 ACGCCTTTATGGTA
1 AAGCCTTTGTGGTA
13046726 GGCTACCTGT
Statistics
Matches: 97, Mismatches: 18, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
50 35 0.36
51 62 0.64
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.37
Consensus pattern (51 bp):
AAGCCTTTGTGGTAATTTATTTGGGGAAGCCTTTGTGGCAAGTCACCTGTA
Found at i:13046671 original size:25 final size:25
Alignment explanation
Indices: 13046586--13046676 Score: 101
Period size: 25 Copynumber: 3.6 Consensus size: 25
13046576 TTATTTGGGG
*
13046586 AAGCCTTTGTGGCAAGTCACCTGTA
1 AAGCCTTTGTGGCAAGTCACTTGTA
* * * * * *
13046611 AATCCTTTGTGGTAATTTATTTGGGA
1 AAGCCTTTGTGGCAAGTCACTT-GTA
13046637 AAGCCTTTGTGGCAAGTCACTTGTA
1 AAGCCTTTGTGGCAAGTCACTTGTA
*
13046662 CAGCCTTTGTGGCAA
1 AAGCCTTTGTGGCAA
13046677 TTTATTCGGG
Statistics
Matches: 51, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
25 32 0.63
26 19 0.37
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (25 bp):
AAGCCTTTGTGGCAAGTCACTTGTA
Found at i:13046691 original size:25 final size:24
Alignment explanation
Indices: 13046549--13046700 Score: 90
Period size: 25 Copynumber: 6.0 Consensus size: 24
13046539 CTTTATATGG
* * **
13046549 ATTTATTTGAGAAGCCTTTATGGTG
1 ATTTA-TTGGGAAGCCTTTGTGGCA
13046574 ATTTATTTGGGGAAGCCTTTGTGGCA
1 ATTTA-TT-GGGAAGCCTTTGTGGCA
* * * ** * *
13046600 AGTCACCTGTAAATCCTTTGTGGTA
1 ATTTA-TTGGGAAGCCTTTGTGGCA
13046625 ATTTATTTGGGAAAGCCTTTGTGGCA
1 ATTTA-TTGGG-AAGCCTTTGTGGCA
* * *
13046651 AGTCACTT-GTACAGCCTTTGTGGCA
1 ATTTA-TTGGGA-AGCCTTTGTGGCA
13046676 ATTTATTCGGGAAGCCTTTGTGGCA
1 ATTTATT-GGGAAGCCTTTGTGGCA
13046701 GGTTATCTGT
Statistics
Matches: 95, Mismatches: 27, Indels: 10
0.72 0.20 0.08
Matches are distributed among these distances:
24 3 0.03
25 56 0.59
26 36 0.38
ACGTcount: A:0.22, C:0.15, G:0.26, T:0.38
Consensus pattern (24 bp):
ATTTATTGGGAAGCCTTTGTGGCA
Found at i:13046749 original size:25 final size:25
Alignment explanation
Indices: 13046687--13046749 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
13046677 TTTATTCGGG
* * *
13046687 AAGCCTTTGTGGCAGGTTATCTGTA
1 AAGCCTTTGTGGTAGGCTACCTGTA
* *
13046712 ACGCCTTTATGGTAGGCTACCTGTA
1 AAGCCTTTGTGGTAGGCTACCTGTA
*
13046737 AAGCCTATGTGGT
1 AAGCCTTTGTGGT
13046750 GTAATGTCTG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (25 bp):
AAGCCTTTGTGGTAGGCTACCTGTA
Found at i:13049086 original size:17 final size:18
Alignment explanation
Indices: 13049051--13049086 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
13049041 CTCAAAAGAC
*
13049051 ATTATTTTAAAAATATAT
1 ATTATTTAAAAAATATAT
13049069 ATTATTTAAAAAAT-TAT
1 ATTATTTAAAAAATATAT
13049086 A
1 A
13049087 AAAAATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTATTTAAAAAATATAT
Found at i:13054869 original size:5 final size:6
Alignment explanation
Indices: 13054853--13054877 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
13054843 ATTGATAATA
13054853 ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT A
13054878 AAATTATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:13055076 original size:15 final size:16
Alignment explanation
Indices: 13055056--13055108 Score: 56
Period size: 15 Copynumber: 3.2 Consensus size: 16
13055046 TTGAATATTC
13055056 ATAT-TTAAATAATAA
1 ATATATTAAATAATAA
*
13055071 ATATTTATTACAATTATAA
1 ATA--TATTA-AATAATAA
13055090 ATATATT-AATAATAA
1 ATATATTAAATAATAA
13055105 ATAT
1 ATAT
13055109 TTTGTAGTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
15 14 0.44
17 5 0.16
18 3 0.09
19 10 0.31
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (16 bp):
ATATATTAAATAATAA
Found at i:13066916 original size:3 final size:3
Alignment explanation
Indices: 13066908--13066934 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
13066898 TTTCAATAGA
13066908 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
13066935 TCCATACATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:13068718 original size:16 final size:16
Alignment explanation
Indices: 13068694--13068728 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
13068684 TTGTGTTTTG
*
13068694 TTTTGACTGCATGACA
1 TTTTCACTGCATGACA
*
13068710 TTTTCACTGCATGGCA
1 TTTTCACTGCATGACA
13068726 TTT
1 TTT
13068729 CATTATAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.43
Consensus pattern (16 bp):
TTTTCACTGCATGACA
Found at i:13072437 original size:17 final size:17
Alignment explanation
Indices: 13072415--13072449 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
13072405 TTTGACTCGT
*
13072415 ATGCTTTGATGTAAGTG
1 ATGCTTCGATGTAAGTG
13072432 ATGCTTCGATGTAAGTG
1 ATGCTTCGATGTAAGTG
13072449 A
1 A
13072450 AAGCCTAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.26, C:0.09, G:0.29, T:0.37
Consensus pattern (17 bp):
ATGCTTCGATGTAAGTG
Found at i:13094249 original size:14 final size:14
Alignment explanation
Indices: 13094230--13094260 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
13094220 ATAAAAAACC
*
13094230 CAACAAATTCTAAA
1 CAACAAATACTAAA
13094244 CAACAAATACTAAA
1 CAACAAATACTAAA
13094258 CAA
1 CAA
13094261 GGATTTGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.23, G:0.00, T:0.16
Consensus pattern (14 bp):
CAACAAATACTAAA
Found at i:13096175 original size:16 final size:15
Alignment explanation
Indices: 13096135--13096171 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
13096125 AGAATGTGGA
13096135 CTATTAA-T-TTTTT
1 CTATTAATTCTTTTT
13096148 CTATTAATTCTTTTT
1 CTATTAATTCTTTTT
13096163 CTATTAATT
1 CTATTAATT
13096172 TCTTAATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 7 0.32
14 1 0.05
15 14 0.64
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.65
Consensus pattern (15 bp):
CTATTAATTCTTTTT
Found at i:13097732 original size:117 final size:117
Alignment explanation
Indices: 13097352--13097754 Score: 429
Period size: 117 Copynumber: 3.4 Consensus size: 117
13097342 CTTGTTCTCT
* * ** ** * *
13097352 AATTTCATTTTTATCGGAACTAAGGCTTCTATGCCTTCCACGATGCTCAAAGGGATTGCTTACAG
1 AATTTCATTTCTATCGGAACTATGGCTTCTACACCTTTGACGATGCTCAAGGGGATTACTTACAG
* * *
13097417 ATCCAGCTCCTAAGAAATGATGCCTGA-GAAGAGGCCAGCC-GAAAGGTTCTTG
66 ATTCAGCTCCCAAGAAATGACGCCTGAGGAA-AGGCCAGCCTG-AAGGTTCTTG
* * * ** *
13097469 ATTTTCATTT-TGACCGGAACTACGGAAGT-TACACCTTTGACGATGCTCAAGGGGATTATTTAC
1 AATTTCATTTCT-ATCGGAACTATGG-CTTCTACACCTTTGACGATGCTCAAGGGGATTACTTAC
* * *
13097532 AGATTCAGCTCCC-AGAAAATGACGCCTGAGGAAAGGCCGGCCTAAAGATTCTTG
64 AGATTCAGCTCCCAAG-AAATGACGCCTGAGGAAAGGCCAGCCTGAAGGTTCTTG
* * * * * * *
13097586 AACTTCATTTCCATTGGAACCATGTCTTCTACACCTTTGACGATGCTCAGGGGGATTACTTATAG
1 AATTTCATTTCTATCGGAACTATGGCTTCTACACCTTTGACGATGCTCAAGGGGATTACTTACAG
* *
13097651 ATTCTGCTCCCAAGAAATGACGCCTGAGGAAAGGCCAACCTGAAGGTTCTTG
66 ATTCAGCTCCCAAGAAATGACGCCTGAGGAAAGGCCAGCCTGAAGGTTCTTG
** * *
13097703 AATTTCATTTCTATCATAACTATGGCTTCTACGCCTTTGACAATGCTCAAGG
1 AATTTCATTTCTATCGGAACTATGGCTTCTACACCTTTGACGATGCTCAAGG
13097755 AAATGAAGCC
Statistics
Matches: 232, Mismatches: 46, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
116 4 0.02
117 222 0.96
118 6 0.03
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (117 bp):
AATTTCATTTCTATCGGAACTATGGCTTCTACACCTTTGACGATGCTCAAGGGGATTACTTACAG
ATTCAGCTCCCAAGAAATGACGCCTGAGGAAAGGCCAGCCTGAAGGTTCTTG
Found at i:13098036 original size:144 final size:144
Alignment explanation
Indices: 13097819--13098091 Score: 345
Period size: 144 Copynumber: 1.9 Consensus size: 144
13097809 ACATGTTCTT
*** * *
13097819 GTTCTCTAATTTCACTTCCATGGGAACTATGGCTTCTATACTTTCGACGATGCTCAAAGGGATTA
1 GTTCTCTAATTTCACTTCCATCAAAACTATGGCTTCTAGACTTTCGAAGATGCTCAAAGGGATTA
* *
13097884 TTTACAGATTCGACTCCCAATAAACGACT-TCTGAGCAAAGGCCAACCTAAAGGTTCTTGATTAT
66 TTTACAGATTCGACTCCCAATAAACGA-TGCCCGAGCAAAGGCCAACCTAAAGGTTCTTGATTAT
13097948 CAAAACGTTGTGCAG
130 CAAAACGTTGTGCAG
** * *
13097963 GTTCTCTAATTTCGTTTCCATCAAAACTATGGCTTCTACGCCTTT-GAAGA-GACTCAAGGGGAT
1 GTTCTCTAATTTCACTTCCATCAAAACTATGGCTTCTA-GACTTTCGAAGATG-CTCAAAGGGAT
** * * * *
13098026 TATTTACAGATTCGGGTCCTAGTAAACGATGCCCGAGCAAAGGCCAACTTACAGGTTCTTGATTA
64 TATTTACAGATTCGACTCCCAATAAACGATGCCCGAGCAAAGGCCAACCTAAAGGTTCTTGATTA
13098091 T
129 T
13098092 TGGAACAATC
Statistics
Matches: 109, Mismatches: 17, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
143 2 0.02
144 103 0.94
145 4 0.04
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (144 bp):
GTTCTCTAATTTCACTTCCATCAAAACTATGGCTTCTAGACTTTCGAAGATGCTCAAAGGGATTA
TTTACAGATTCGACTCCCAATAAACGATGCCCGAGCAAAGGCCAACCTAAAGGTTCTTGATTATC
AAAACGTTGTGCAG
Found at i:13109282 original size:42 final size:42
Alignment explanation
Indices: 13109174--13109288 Score: 112
Period size: 42 Copynumber: 2.7 Consensus size: 42
13109164 AGCTAGTACA
* * * *
13109174 ATGCCAATGTCCCTGACGTAGTCTTACATGTAATCACATATCG
1 ATGCCAACGT-CCAGACGTGGTCTTACACGTAATCACATATCG
13109217 ATGCC-ACTGTCCTAGACAG-GGTCTTACACGTAAT-ACA-AGTCG
1 ATGCCAAC-GTCC-AGAC-GTGGTCTTACACGTAATCACATA-TCG
13109259 ATGCCAACGTCACAGACGTGGTCTTACACG
1 ATGCCAACGTC-CAGACGTGGTCTTACACG
13109289 ATAACATATA
Statistics
Matches: 61, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
41 2 0.03
42 32 0.52
43 26 0.43
44 1 0.02
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCAGACGTGGTCTTACACGTAATCACATATCG
Found at i:13113320 original size:13 final size:13
Alignment explanation
Indices: 13113302--13113333 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
13113292 CTGTAGGGGT
13113302 CACACGACTGAGG
1 CACACGACTGAGG
*
13113315 CACACGGCTGAGG
1 CACACGACTGAGG
13113328 CACACG
1 CACACG
13113334 CCTATGTCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.28, C:0.34, G:0.31, T:0.06
Consensus pattern (13 bp):
CACACGACTGAGG
Found at i:13114375 original size:19 final size:19
Alignment explanation
Indices: 13114329--13114384 Score: 94
Period size: 21 Copynumber: 2.8 Consensus size: 19
13114319 AATCTTCAAG
13114329 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
13114348 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
13114369 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
13114385 AGATATGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
19 16 0.46
21 19 0.54
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:13114406 original size:23 final size:22
Alignment explanation
Indices: 13114329--13114407 Score: 78
Period size: 19 Copynumber: 3.7 Consensus size: 22
13114319 AATCTTCAAG
*
13114329 GATATGCAATCTTAG-ATATGAT
1 GATATGCAATCTTAGAAGAT-AT
13114351 -ATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
13114369 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
13114391 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
13114408 GATTTAATTT
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
18 2 0.04
19 15 0.31
21 12 0.24
22 8 0.16
23 12 0.24
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:13114655 original size:23 final size:23
Alignment explanation
Indices: 13114611--13114655 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
13114601 TCTTATTTTG
* *
13114611 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
13114634 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
13114656 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:13114858 original size:23 final size:23
Alignment explanation
Indices: 13114810--13114859 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
13114800 ATTTGTTATT
** *
13114810 TTATTTTTTTATTATTAAATTAA
1 TTATTTTAATATTATTAAACTAA
13114833 TTATTTTAATATTATTAATACT-A
1 TTATTTTAATATTATTAA-ACTAA
13114856 TTAT
1 TTAT
13114860 GTGGCATCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 21 0.91
24 2 0.09
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (23 bp):
TTATTTTAATATTATTAAACTAA
Found at i:13115144 original size:21 final size:20
Alignment explanation
Indices: 13115120--13115158 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
13115110 ATTCACATAC
*
13115120 ACATATATTTTTCTTATATGT
1 ACATATATATTT-TTATATGT
13115141 ACATATATATTTTTATAT
1 ACATATATATTTTTATAT
13115159 TTTATGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.56
Consensus pattern (20 bp):
ACATATATATTTTTATATGT
Found at i:13120347 original size:20 final size:19
Alignment explanation
Indices: 13120321--13120367 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
13120311 AGATCCAATT
13120321 AAAAAAAACCCAAAAAAACAC
1 AAAAAAAA-CCAAAAAAA-AC
*
13120342 AAAAAAAACCAAAAAAAAG
1 AAAAAAAACCAAAAAAAAC
13120361 AAAAAAA
1 AAAAAAA
13120368 TCAAAATCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 8 0.32
20 9 0.36
21 8 0.32
ACGTcount: A:0.83, C:0.15, G:0.02, T:0.00
Consensus pattern (19 bp):
AAAAAAAACCAAAAAAAAC
Found at i:13120358 original size:9 final size:9
Alignment explanation
Indices: 13120322--13120373 Score: 50
Period size: 9 Copynumber: 5.4 Consensus size: 9
13120312 GATCCAATTA
13120322 AAAAAAACCC
1 AAAAAAA-CC
13120332 AAAAAAACAC
1 AAAAAAAC-C
13120342 AAAAAAAACC
1 -AAAAAAACC
**
13120352 AAAAAAAAG
1 AAAAAAACC
*
13120361 AAAAAAATC
1 AAAAAAACC
13120370 AAAA
1 AAAA
13120374 TCAAAATTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
9 19 0.53
10 9 0.25
11 8 0.22
ACGTcount: A:0.81, C:0.15, G:0.02, T:0.02
Consensus pattern (9 bp):
AAAAAAACC
Found at i:13120359 original size:10 final size:10
Alignment explanation
Indices: 13120321--13120359 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
13120311 AGATCCAATT
13120321 AAAAAAAACC
1 AAAAAAAACC
*
13120331 CAAAAAAACAC
1 AAAAAAAAC-C
13120342 AAAAAAAACC
1 AAAAAAAACC
13120352 AAAAAAAA
1 AAAAAAAA
13120360 GAAAAAAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAACC
Found at i:13121739 original size:44 final size:43
Alignment explanation
Indices: 13121672--13122069 Score: 438
Period size: 44 Copynumber: 9.7 Consensus size: 43
13121662 CACAAAGCTT
* *
13121672 TATCTCCCTGGTCAGCAGAGGAATATGTTGAAGATTGTAAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAA-TCC
13121716 TATCTCCCTGGTCAGCAGTGGAATA----G--G--TG-AATCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAATCC
* * *
13121750 TATCTCCTTGGTCAGCAGTGGAATAGGTTGAAGATCGTGAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AATCC
*
13121794 TATCTCCCTGGTCAGTAGTGGAATA----G--G--TG-AATCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAATCC
*
13121828 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AATCC
*
13121872 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCA
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAA-TCC
13121916 TATCTCCCTGGTCAGCAGTGGAATA----G--G--TG-AATCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAATCC
*
13121950 TATCTCCCTGGTCAGCAGTGGAATTGGTTGAAGATTGTGAATCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AATCC
13121994 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AATCC
* *
13122038 TATCTCCCTGAG-CAGTAGTGGAGTAGGTTGAA
1 TATCTCCCTG-GTCAGCAGTGGAATAGGTTGAA
13122070 AATTACAAAT
Statistics
Matches: 305, Mismatches: 17, Indels: 64
0.79 0.04 0.17
Matches are distributed among these distances:
34 81 0.27
35 4 0.01
36 5 0.02
38 6 0.02
40 6 0.02
42 5 0.02
43 1 0.00
44 196 0.64
45 1 0.00
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (43 bp):
TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAATCC
Found at i:13121801 original size:78 final size:78
Alignment explanation
Indices: 13121672--13122065 Score: 432
Period size: 78 Copynumber: 4.9 Consensus size: 78
13121662 CACAAAGCTT
* * *
13121672 TATCTCCCTGGTCAGCAGAGGAATATGTTGAAGATTGTAAGTCCTATCTCCCTGGTCAGCAGTGG
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCTGGTCAGCAGTGG
13121737 AATAGGTGAATCC
66 AATAGGTGAATCC
* * *
13121750 TATCTCCTTGGTCAGCAGTGGAATAGGTTGAAGATCGTGAGTCCTATCTCCCTGGTCAGTAGTGG
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCTGGTCAGCAGTGG
13121815 AATAGGTGAATCC
66 AATAGGTGAATCC
13121828 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCTGGTCAGCAGTGG
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCTGGTCAGCAGTGG
*
13121893 AATAGGTTGAAGATTGTAAGTCA
66 AATA----G--G--TG-AA-TCC
13121916 TATCTCCCTGGTCAGCAGTGGAATAGG-T---GA-----A-TCCTATCTCCCTGGTCAGCAGTGG
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCTGGTCAGCAGTGG
13121971 AATTGGTTGAAGATTGTGAATCC
66 AA-----T--AG---GTGAATCC
* *
13121994 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTATCTCCCTGAG-CAGTAGTG
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCTG-GTCAGCAGTG
*
13122058 GAGTAGGT
65 GAATAGGT
13122066 TGAAAATTAC
Statistics
Matches: 272, Mismatches: 15, Indels: 58
0.79 0.04 0.17
Matches are distributed among these distances:
78 195 0.72
79 4 0.01
80 2 0.01
81 3 0.01
82 4 0.01
83 2 0.01
84 3 0.01
85 1 0.00
86 2 0.01
87 4 0.01
88 51 0.19
89 1 0.00
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (78 bp):
TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCTGGTCAGCAGTGG
AATAGGTGAATCC
Found at i:13121898 original size:122 final size:122
Alignment explanation
Indices: 13121742--13122065 Score: 551
Period size: 122 Copynumber: 2.7 Consensus size: 122
13121732 AGTGGAATAG
* *
13121742 GTGAATCCTATCTCCTTGGTCAGCAGTGGAATAGGTTGAAGATCGTGAGTCCTATCTCCCTGGTC
1 GTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCTGGTC
13121807 AGTAGTGGAATAGGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
66 AGTAGTGGAATAGGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
* * *
13121864 GTGAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCATATCTCCCTGGTC
1 GTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCTGGTC
* *
13121929 AGCAGTGGAATAGGTGAATCCTATCTCCCTGGTCAGCAGTGGAATTGGTTGAAGATT
66 AGTAGTGGAATAGGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
*
13121986 GTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTATCTCCCTGAG-
1 GTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCTG-GT
*
13122050 CAGTAGTGGAGTAGGT
65 CAGTAGTGGAATAGGT
13122066 TGAAAATTAC
Statistics
Matches: 188, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
122 187 0.99
123 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (122 bp):
GTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCTGGTC
AGTAGTGGAATAGGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
Found at i:13122086 original size:44 final size:44
Alignment explanation
Indices: 13121945--13122306 Score: 200
Period size: 44 Copynumber: 8.2 Consensus size: 44
13121935 GGAATAGGTG
* * * * **
13121945 AATCCTATCTCCCTG-GTCAGCAGTGGAATTGGTTGAAGATTGTG
1 AATCTTATCTCCCTGAG-CAGTAGTGGAGTAGGTTGAAGATTGCA
* * * **
13121989 AATCCTATCTCCCTG-GTCAGCAGTGGAATAGGTTGAAGATTGTG
1 AATCTTATCTCCCTGAG-CAGTAGTGGAGTAGGTTGAAGATTGCA
* * *
13122033 AATCCTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATTACA
1 AATCTTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGATTGCA
* * * * ** *
13122077 AATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCG
1 AATCTTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGATTGCA
* * * * * * * *
13122121 AATCTTATCTTCCC-AAGGTAGTAGAGAAGAAGATTTAAGCCACTAGC-
1 AATCTTATC-TCCCTGA-GCAGTAGTGGAGTAGGTTGAAG--A-TTGCA
* * *
13122168 --T-TTATTTCCCTGAGCAGCTA-TGGAATAGGTTGAAGATTGTA
1 AATCTTATCTCCCTGAGCAG-TAGTGGAGTAGGTTGAAGATTGCA
* * * * *
13122209 GACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACA
1 AATCTTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGATTGCA
* * * * * * *
13122253 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCG
1 AATCTTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGATTGCA
13122297 AATCTTATCT
1 AATCTTATCT
13122307 TCCCAAGGTA
Statistics
Matches: 251, Mismatches: 54, Indels: 26
0.76 0.16 0.08
Matches are distributed among these distances:
40 2 0.01
41 1 0.00
43 17 0.07
44 206 0.82
45 22 0.09
47 1 0.00
48 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGATTGCA
Found at i:13122102 original size:88 final size:88
Alignment explanation
Indices: 13121942--13122279 Score: 242
Period size: 88 Copynumber: 3.8 Consensus size: 88
13121932 AGTGGAATAG
* * * *** * *
13121942 GTGAATCCTATCTCCCTG-GTCAGCAGTGGAATTGGTTGAAGATTGTGAATCCTATCTCCCT-GG
1 GTGAATCCTATCTCCCTGAG-CAGCAGTGGAGTAGGTTGAAAATTACAAATCTTATCTCCCTAAG
*
13122005 TCAGCAGTGGAATAGGTTGAAGATT
65 -CAGTAGTGGAATAGGTTGAAGATT
*
13122030 GTGAATCCTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATTACAAATCTTATCTCCCTAAGC
1 GTGAATCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAAATCTTATCTCCCTAAGC
** * * **
13122095 AGTAGTGGAGCAGATCGAAGACG
66 AGTAGTGGAATAGGTTGAAGATT
* * * * * * * * * * *** * * * *
13122118 GCGAATCTTATCTTCCC-AAGGTAGTAGAGAAGAAGATT-TAAGCCAC-TAGCTTTATTTCCCTG
1 GTGAATCCTATC-TCCCTGA-GCAGCAGTGGAGTAGGTTGAAAATTACAAATC-TTATCTCCCTA
13122180 AGCAGCTA-TGGAATAGGTTGAAGATT
63 AGCAG-TAGTGGAATAGGTTGAAGATT
*
13122206 GT-AGA-CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAA
1 GTGA-ATCC-TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAAATCTTATCTCCCTAA
13122269 GCAGTAGTGGA
64 GCAGTAGTGGA
13122280 GCAGATCGAA
Statistics
Matches: 183, Mismatches: 55, Indels: 24
0.70 0.21 0.09
Matches are distributed among these distances:
87 22 0.12
88 138 0.75
89 23 0.13
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (88 bp):
GTGAATCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAAATCTTATCTCCCTAAGC
AGTAGTGGAATAGGTTGAAGATT
Found at i:13122306 original size:176 final size:176
Alignment explanation
Indices: 13121994--13122377 Score: 614
Period size: 176 Copynumber: 2.2 Consensus size: 176
13121984 TTGTGAATCC
** *
13121994 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTATCTCCCTGAGCAGTAGTGG
1 TATCTCCCTGAACAGCAGTGGAATAGGTTGAAGATTGTGAATCCTATCTCCCTGAGCAGCAGTGG
13122059 AGTAGGTTGAAAATTACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAAT
66 AGTAGGTTGAAAATTACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAAT
*
13122124 CTTATCTTCCCAAGGTAGTAGAGAAG-AAGATTTAAGCCACTAGCTT
131 CTTATCTTCCCAAGGTAGTAGAGAAGCAA-ATTTAAGCCACTAGCCT
* *
13122170 TATTTCCCTGAGCAGCTA-TGGAATAGGTTGAAGATTGT-AGA-CCTTATCTCCCTGAGCAGCAG
1 TATCTCCCTGAACAGC-AGTGGAATAGGTTGAAGATTGTGA-ATCC-TATCTCCCTGAGCAGCAG
* *
13122232 TGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCG
63 TGGAGTAGGTTGAAAATTACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCG
*
13122297 AATCTTATCTTCCCAAGGTAGTAGGGAAGCAAATTTAAGCCACTAGCCT
128 AATCTTATCTTCCCAAGGTAGTAGAGAAGCAAATTTAAGCCACTAGCCT
*
13122346 TATCTCCCTGAACAGCAGTGGAGTAGGTTGAA
1 TATCTCCCTGAACAGCAGTGGAATAGGTTGAA
13122378 AATTAAAGAT
Statistics
Matches: 192, Mismatches: 11, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
175 4 0.02
176 185 0.96
177 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (176 bp):
TATCTCCCTGAACAGCAGTGGAATAGGTTGAAGATTGTGAATCCTATCTCCCTGAGCAGCAGTGG
AGTAGGTTGAAAATTACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAAT
CTTATCTTCCCAAGGTAGTAGAGAAGCAAATTTAAGCCACTAGCCT
Found at i:13123114 original size:22 final size:22
Alignment explanation
Indices: 13123054--13123111 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 22
13123044 AATCTTCAAG
13123054 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
13123073 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
13123095 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
13123112 GATTTAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.39
22 8 0.24
23 12 0.36
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:13123357 original size:23 final size:23
Alignment explanation
Indices: 13123313--13123357 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
13123303 TCTTATTTTG
* *
13123313 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
*
13123336 TTGATTTGTATATTATTGATTT
1 TTGATTTGTATATAATTGATTT
13123358 CAAATCTCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.24, C:0.00, G:0.13, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:13126348 original size:22 final size:23
Alignment explanation
Indices: 13126318--13126363 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
13126308 TTTTTCCTAA
13126318 TATGTAAATTGGATTGAAA-TGAG
1 TATGTAAATTGGATT-AAATTGAG
*
13126341 TATG-AAATTGTATTAAATTGAG
1 TATGTAAATTGGATTAAATTGAG
13126363 T
1 T
13126364 TAATTTACTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 3 0.14
22 14 0.67
23 4 0.19
ACGTcount: A:0.39, C:0.00, G:0.22, T:0.39
Consensus pattern (23 bp):
TATGTAAATTGGATTAAATTGAG
Found at i:13129405 original size:14 final size:15
Alignment explanation
Indices: 13129375--13129418 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
13129365 TAGCCATGCG
13129375 TTCTC-CTTTTGCTTT
1 TTCTCTCTTTT-CTTT
13129390 TTCTCTC-TTTCTTT
1 TTCTCTCTTTTCTTT
*
13129404 TTCTTTCTTTTCTTT
1 TTCTCTCTTTTCTTT
13129419 GATAAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 10 0.38
15 15 0.58
16 1 0.04
ACGTcount: A:0.00, C:0.25, G:0.02, T:0.73
Consensus pattern (15 bp):
TTCTCTCTTTTCTTT
Found at i:13132484 original size:25 final size:24
Alignment explanation
Indices: 13132450--13132535 Score: 84
Period size: 25 Copynumber: 3.5 Consensus size: 24
13132440 GACACACCAT
*
13132450 AGCTCGTATGAGCTTCCTGATTTAC
1 AGCTCGTATGAGCTT-CTGATTCAC
*
13132475 AGCTCGTATGATCTTCTCGATTCAC
1 AGCTCGTATGAGCTTCT-GATTCAC
* * *
13132500 AGCTCATGA-GAGCATACTGATTCAT
1 AGCTCGT-ATGAGC-TTCTGATTCAC
13132525 AGCTCGTATGA
1 AGCTCGTATGA
13132536 ACATACATGA
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
24 3 0.06
25 43 0.86
26 4 0.08
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (24 bp):
AGCTCGTATGAGCTTCTGATTCAC
Found at i:13138824 original size:25 final size:25
Alignment explanation
Indices: 13138787--13138846 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
13138777 GCAGACACAC
*
13138787 CACAGCTCATATGAGCTTCCCGATT
1 CACAGCTCGTATGAGCTTCCCGATT
**
13138812 TGCAGCTCGTATGAGCTTCCCGATT
1 CACAGCTCGTATGAGCTTCCCGATT
13138837 CACAGCTCGT
1 CACAGCTCGT
13138847 GAAAGCATAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.20, C:0.32, G:0.20, T:0.28
Consensus pattern (25 bp):
CACAGCTCGTATGAGCTTCCCGATT
Found at i:13144738 original size:37 final size:36
Alignment explanation
Indices: 13144656--13144727 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
13144646 TTTTTTGTCT
*
13144656 AAACTCATTTTTTGAGCTTATATTTTTGCCCAAAAC
1 AAACCCATTTTTTGAGCTTATATTTTTGCCCAAAAC
13144692 AAACCCATTTTTTG-GACTTATATTTTTGCCCAAAAC
1 AAACCCATTTTTTGAG-CTTATATTTTTGCCCAAAAC
13144728 CTCTCACATT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
35 1 0.03
36 33 0.97
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (36 bp):
AAACCCATTTTTTGAGCTTATATTTTTGCCCAAAAC
Found at i:13147008 original size:15 final size:15
Alignment explanation
Indices: 13146988--13147020 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
13146978 TAAATATCCG
13146988 TTTTTT-TTTTTAATA
1 TTTTTTATTTTTAA-A
13147003 TTTTTTATTTTTAAA
1 TTTTTTATTTTTAAA
13147018 TTT
1 TTT
13147021 ATACTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTTATTTTTAAA
Found at i:13147831 original size:22 final size:22
Alignment explanation
Indices: 13147806--13147856 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
13147796 GTTATTTCGC
13147806 TATTATTTTGCTATCATTTTAT
1 TATTATTTTGCTATCATTTTAT
* * *
13147828 TATTATATTGCTATTATTTTGT
1 TATTATTTTGCTATCATTTTAT
*
13147850 TGTTATT
1 TATTATT
13147857 ATTTGAATAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.22, C:0.06, G:0.08, T:0.65
Consensus pattern (22 bp):
TATTATTTTGCTATCATTTTAT
Found at i:13147855 original size:11 final size:11
Alignment explanation
Indices: 13147778--13147856 Score: 59
Period size: 11 Copynumber: 7.2 Consensus size: 11
13147768 GTATAAGCTG
* *
13147778 TTTTGTTGTTC
1 TTTTGTTATTA
*
13147789 TTTTGTTGTTA
1 TTTTGTTATTA
* *
13147800 TTTCGCTATTA
1 TTTTGTTATTA
* *
13147811 TTTTGCTATCA
1 TTTTGTTATTA
*
13147822 TTTTATTATTA
1 TTTTGTTATTA
* *
13147833 TATTGCTATTA
1 TTTTGTTATTA
*
13147844 TTTTGTTGTTA
1 TTTTGTTATTA
13147855 TT
1 TT
13147857 ATTTGAATAT
Statistics
Matches: 53, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
11 53 1.00
ACGTcount: A:0.15, C:0.08, G:0.11, T:0.66
Consensus pattern (11 bp):
TTTTGTTATTA
Found at i:13148888 original size:8 final size:8
Alignment explanation
Indices: 13148877--13148919 Score: 61
Period size: 8 Copynumber: 5.5 Consensus size: 8
13148867 TAAAAATTAC
13148877 AAAAAAAT
1 AAAAAAAT
13148885 AAAAAAAT
1 AAAAAAAT
* *
13148893 TATAAAAT
1 AAAAAAAT
13148901 -AAAAAAT
1 AAAAAAAT
13148908 AAAAAAAT
1 AAAAAAAT
13148916 AAAA
1 AAAA
13148920 TCAACAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
7 6 0.19
8 25 0.81
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (8 bp):
AAAAAAAT
Found at i:13148906 original size:15 final size:15
Alignment explanation
Indices: 13148877--13148919 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
13148867 TAAAAATTAC
13148877 AAAAAAATAAAAAAAT
1 AAAAAAAT-AAAAAAT
* *
13148893 TATAAAATAAAAAAT
1 AAAAAAATAAAAAAT
13148908 AAAAAAATAAAA
1 AAAAAAATAAAA
13148920 TCAACAAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 17 0.74
16 6 0.26
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (15 bp):
AAAAAAATAAAAAAT
Found at i:13151308 original size:29 final size:30
Alignment explanation
Indices: 13151247--13151310 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
13151237 TGAAATTAAT
*
13151247 AATATATTAATATATATATGCATACTAAAA
1 AATATATTAATATATATATGCATAATAAAA
13151277 AATATATT-ATATATAT-T-CATATATACAAA
1 AATATATTAATATATATATGCATA-ATA-AAA
13151306 AATAT
1 AATAT
13151311 GAGATATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
27 4 0.13
28 3 0.10
29 16 0.52
30 8 0.26
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (30 bp):
AATATATTAATATATATATGCATAATAAAA
Found at i:13153143 original size:27 final size:29
Alignment explanation
Indices: 13153113--13153179 Score: 77
Period size: 27 Copynumber: 2.4 Consensus size: 29
13153103 GAATTCTTTG
13153113 AAAATAATAAAAATTG-TAAAAAATAAA-
1 AAAATAATAAAAATTGTTAAAAAATAAAT
* **
13153140 AAAAT-ATTAAAATTGTTATGAAATAAAT
1 AAAATAATAAAAATTGTTAAAAAATAAAT
13153168 AATAATAATAAA
1 AA-AATAATAAA
13153180 TAGGAGAGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
26 9 0.28
27 14 0.44
28 2 0.06
29 3 0.09
30 4 0.12
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.28
Consensus pattern (29 bp):
AAAATAATAAAAATTGTTAAAAAATAAAT
Found at i:13155709 original size:13 final size:14
Alignment explanation
Indices: 13155693--13155726 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
13155683 AATAAATATA
13155693 TATTTTTT-ATTTT
1 TATTTTTTAATTTT
13155706 TATTTTTTAATTTT
1 TATTTTTTAATTTT
13155720 TAATTTT
1 T-ATTTT
13155727 AAAATACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.42
14 6 0.32
15 5 0.26
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TATTTTTTAATTTT
Found at i:13156343 original size:9 final size:9
Alignment explanation
Indices: 13156329--13156362 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
13156319 TTAATTGGGA
13156329 AATTAATTT
1 AATTAATTT
*
13156338 AGTTAATTT
1 AATTAATTT
*
13156347 AATTAATTA
1 AATTAATTT
13156356 AATTAAT
1 AATTAAT
13156363 AAATTAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (9 bp):
AATTAATTT
Found at i:13158678 original size:20 final size:20
Alignment explanation
Indices: 13158650--13158690 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
13158640 CTTGTACGGG
13158650 TTTGCACTTTGGTGCCTCTA
1 TTTGCACTTTGGTGCCTCTA
* *
13158670 TTTGTACTTTGGTGTCTCTA
1 TTTGCACTTTGGTGCCTCTA
13158690 T
1 T
13158691 ACAACACTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.10, C:0.20, G:0.20, T:0.51
Consensus pattern (20 bp):
TTTGCACTTTGGTGCCTCTA
Found at i:13163056 original size:26 final size:24
Alignment explanation
Indices: 13163018--13163068 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 24
13163008 TTTATAATTT
* *
13163018 TTTTTATAATTTATTAGTTTTTTA
1 TTTTTATAATTTATAAGTTTATTA
13163042 TTTTTATAATTTTTATAAGTTTATTA
1 TTTTTATAA--TTTATAAGTTTATTA
13163068 T
1 T
13163069 AAAAAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 9 0.39
26 14 0.61
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (24 bp):
TTTTTATAATTTATAAGTTTATTA
Found at i:13163070 original size:11 final size:9
Alignment explanation
Indices: 13162920--13163070 Score: 60
Period size: 9 Copynumber: 16.0 Consensus size: 9
13162910 CCAATTCAAG
*
13162920 TTTTTATTA
1 TTTTTATAA
13162929 TATTTTATAA
1 T-TTTTATAA
*
13162939 TTTTTATGA
1 TTTTTATAA
13162948 TTTTTATAGAA
1 TTTTTAT--AA
* * *
13162959 TTCTAATACG
1 TTTTTATA-A
13162969 TTTTTATAAA
1 TTTTTAT-AA
*
13162979 ATTTTA-AA
1 TTTTTATAA
13162987 TATTTTATTAA
1 T-TTTTA-TAA
* *
13162998 CTTATAT-A
1 TTTTTATAA
*
13163006 TATTTATAA
1 TTTTTATAA
13163015 TTTTTTTTATAA
1 ---TTTTTATAA
* *
13163027 TTTAT-TAG
1 TTTTTATAA
13163035 TTTTT-T-A
1 TTTTTATAA
13163042 TTTTTATAA
1 TTTTTATAA
13163051 TTTTTATAA
1 TTTTTATAA
13163060 GTTTATTATAA
1 -TTT-TTATAA
13163071 AAAATTAATA
Statistics
Matches: 105, Mismatches: 21, Indels: 30
0.67 0.13 0.19
Matches are distributed among these distances:
7 5 0.05
8 15 0.14
9 37 0.35
10 25 0.24
11 15 0.14
12 8 0.08
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:13173949 original size:18 final size:19
Alignment explanation
Indices: 13173909--13173949 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
13173899 TGAATTAAAT
13173909 TATT-ACCAGATGAGATTA
1 TATTCACCAGATGAGATTA
*
13173927 -GTTCACCA-ATGAGATTA
1 TATTCACCAGATGAGATTA
13173944 TATTCA
1 TATTCA
13173950 ATGATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 4
0.76 0.08 0.16
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.34
Consensus pattern (19 bp):
TATTCACCAGATGAGATTA
Found at i:13179839 original size:21 final size:21
Alignment explanation
Indices: 13179803--13179844 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
13179793 AAAGTTAGTA
* *
13179803 TTAAAGTTTCGTTAATAAATT
1 TTAAAGTTCCGATAATAAATT
*
13179824 TTAAAGTTCCGATAATTAATT
1 TTAAAGTTCCGATAATAAATT
13179845 GAGCAAAAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.45
Consensus pattern (21 bp):
TTAAAGTTCCGATAATAAATT
Found at i:13181557 original size:46 final size:45
Alignment explanation
Indices: 13181490--13181943 Score: 543
Period size: 46 Copynumber: 10.6 Consensus size: 45
13181480 TTTGAGTACT
*
13181490 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
13181536 TCTGATCAAGTGACAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
13181572 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
*
13181618 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
* *
13181664 TCTAATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
13181700 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
13181746 TCTGATCAAGTGACAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
13181782 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* *
13181828 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACTCTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
*
13181874 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
13181919 TCTGATC-AGGGGC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
13181944 ATCATATGTA
Statistics
Matches: 358, Mismatches: 19, Indels: 65
0.81 0.04 0.15
Matches are distributed among these distances:
36 87 0.24
37 2 0.01
38 2 0.01
39 2 0.01
40 8 0.02
41 2 0.01
42 10 0.03
43 16 0.04
44 6 0.02
45 22 0.06
46 201 0.56
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:13181584 original size:82 final size:86
Alignment explanation
Indices: 13181490--13181943 Score: 436
Period size: 82 Copynumber: 5.3 Consensus size: 86
13181480 TTTGAGTACT
*
13181490 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAGTGACAAAGT
13181555 GATAA-GT-GC-TA-T-ACTTA
65 GATAAGGTAGCTTACTAACTTA
* *
13181572 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTATCTGATCAAGTGAGAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAAGTGACAAAGT
13181637 GATAAGTGGTAGCATTAGCTACACTTA
65 GATAA--GGTAGC-TTA-CTA-ACTTA
* * *
13181664 TCTAATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTATCTGATCAAGAGACAAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGACAAAGTG
13181720 ATAAGTGGTAGCTTTAGCTACACTTA
66 ATAA--GGTAGC-TTA-CTA-ACTTA
13181746 TCTGATCAAGTGACAAAGTGATAA---GT-GC-TA--T--ACTTATCTGATCAAGTGACAAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGACAAAGTG
13181802 ATAAGTGTTAGCCTTAGCTACACTTA
66 ATAAG-G-TAG-CTTA-CTA-ACTTA
* *
13181828 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACTCTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAAGTGACAAAGT
*
13181893 GATAAGTGGTAGCCTAGCTACACTTA
65 GATAA--GGTAGCTTA-CTA-ACTTA
* *
13181919 TCTGATC-AGGGGC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
13181944 ATCATATGTA
Statistics
Matches: 324, Mismatches: 17, Indels: 55
0.82 0.04 0.14
Matches are distributed among these distances:
80 1 0.00
81 1 0.00
82 205 0.63
83 4 0.01
84 2 0.01
85 5 0.02
86 5 0.02
87 1 0.00
88 4 0.01
89 12 0.04
90 5 0.02
91 21 0.06
92 56 0.17
93 1 0.00
94 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (86 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGACAAAGTG
ATAAGGTAGCTTACTAACTTA
Found at i:13181718 original size:128 final size:127
Alignment explanation
Indices: 13181490--13181943 Score: 606
Period size: 128 Copynumber: 3.6 Consensus size: 127
13181480 TTTGAGTACT
*
13181490 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAGTGACAAAGT
* *
13181555 GATAAGTGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTA
65 GATAAGTGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
* * *
13181618 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTAATCAAGTGAAAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAGTGACAAAGT
* *
13181683 GATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
65 GATAAGTGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
13181746 TCTGATCAAGTGACAAAGTGATAA---GT-GC-TA--T--ACTTATCTGATCAAGTGACAAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGACAAAGTG
*
13181802 ATAAGTGTTAGCCTTAGCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCT
66 AT-A-----AG---T-GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCT
*
13181867 ACTCTTA
121 ACACTTA
* * *
13181874 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATC-AGGGGC-AAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGACAAAGTG
13181937 ATAAGTG
66 ATAAGTG
13181944 ATCATATGTA
Statistics
Matches: 290, Mismatches: 17, Indels: 41
0.83 0.05 0.12
Matches are distributed among these distances:
118 25 0.09
119 1 0.00
120 1 0.00
122 2 0.01
124 4 0.01
125 3 0.01
126 1 0.00
127 1 0.00
128 219 0.76
129 2 0.01
131 2 0.01
132 2 0.01
133 2 0.01
134 1 0.00
135 8 0.03
136 4 0.01
137 12 0.04
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (127 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGACAAAGTG
ATAAGTGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
Found at i:13182945 original size:21 final size:19
Alignment explanation
Indices: 13182919--13182972 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 19
13182909 ATACCAGACT
13182919 AAAGTATCAATACTTGATACC
1 AAAGTATCAATACTT-ATA-C
* *
13182940 AAAGTATCGATA-TTTTAC
1 AAAGTATCAATACTTATAC
13182958 AAAGGTATCAATACT
1 AAA-GTATCAATACT
13182973 ATTGAACTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 4 0.14
19 10 0.36
20 3 0.11
21 11 0.39
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.31
Consensus pattern (19 bp):
AAAGTATCAATACTTATAC
Found at i:13188110 original size:21 final size:21
Alignment explanation
Indices: 13188062--13188110 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
13188052 GAACCCCAAA
* *
13188062 GGCTGAATAGAAGCACATAAG
1 GGCTAAATAGAAACACATAAG
* *
13188083 TGCTAAATAGAAACCCATAAG
1 GGCTAAATAGAAACACATAAG
*
13188104 GGTTAAA
1 GGCTAAA
13188111 CGGAAGCTTG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.22, T:0.18
Consensus pattern (21 bp):
GGCTAAATAGAAACACATAAG
Found at i:13188174 original size:42 final size:42
Alignment explanation
Indices: 13188093--13188191 Score: 117
Period size: 42 Copynumber: 2.4 Consensus size: 42
13188083 TGCTAAATAG
* *** *
13188093 AAACCCATAAGGGTTAAACGGAAGCTTGTAATAGCTGAACAA
1 AAACCCATAAGGGTTAAACAGAAGCTCAAAAGAGCTGAACAA
* **
13188135 AAACCCATAAGGGTTAAACAGAAGCTCAAAAGAGTTGAACGG
1 AAACCCATAAGGGTTAAACAGAAGCTCAAAAGAGCTGAACAA
*
13188177 AAACCCATTAGGGTT
1 AAACCCATAAGGGTT
13188192 GAACGGAAAC
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.42, C:0.17, G:0.22, T:0.18
Consensus pattern (42 bp):
AAACCCATAAGGGTTAAACAGAAGCTCAAAAGAGCTGAACAA
Found at i:13196580 original size:28 final size:30
Alignment explanation
Indices: 13196549--13196612 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 30
13196539 ATAAAAAATG
*
13196549 AAAAATGTTAAATATAAAATATT-GTT-AA
1 AAAAATATTAAATATAAAATATTAGTTGAA
* * *
13196577 AAAATTATTAAATCTAAATTATTAGTTGAA
1 AAAAATATTAAATATAAAATATTAGTTGAA
13196607 AAAAAT
1 AAAAAT
13196613 TATAACCCTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
28 19 0.66
29 3 0.10
30 7 0.24
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.36
Consensus pattern (30 bp):
AAAAATATTAAATATAAAATATTAGTTGAA
Found at i:13211148 original size:12 final size:12
Alignment explanation
Indices: 13211129--13211162 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
13211119 TGTTATATTG
13211129 CATTATTATTAT
1 CATTATTATTAT
**
13211141 TGTTATTATTAT
1 CATTATTATTAT
13211153 CATTATTATT
1 CATTATTATT
13211163 TCTATACATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (12 bp):
CATTATTATTAT
Found at i:13211222 original size:19 final size:20
Alignment explanation
Indices: 13211198--13211235 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
13211188 TTTATAACAT
13211198 ATATATGCATAT-TTTTTAA
1 ATATATGCATATATTTTTAA
*
13211217 ATATATGTATATATTTTTA
1 ATATATGCATATATTTTTA
13211236 GACTTTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (20 bp):
ATATATGCATATATTTTTAA
Done.